Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/12M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... f64d9d9f2ee0fb2c9c99adf7e325547c /gscratch/srlab/sam/data/C_virginica/BSseq/12M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.00017s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.03917s] Opening the output file... [0.000293s] Loading query sequences... [187.544s] Masking queries... [98.3241s] Building query seed set... [0.78431s] Algorithm: Double-indexed Building query histograms... [5.45346s] Allocating buffers... [0.000809s] Loading reference sequences... [45.0175s] Masking reference... [57.4588s] Initializing temporary storage... [0.03146s] Building reference histograms... [12.6977s] Allocating buffers... [0.000334s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.8679s] Building query seed array... [3.91039s] Computing hash join... [5.17354s] Building seed filter... [0.131425s] Searching alignments... [58.1179s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.1442s] Building query seed array... [4.40264s] Computing hash join... [4.98023s] Building seed filter... [0.132408s] Searching alignments... [56.9199s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.5659s] Building query seed array... [4.38149s] Computing hash join... [4.98299s] Building seed filter... [0.124194s] Searching alignments... [54.9834s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.28013s] Building query seed array... [3.79134s] Computing hash join... [4.96713s] Building seed filter... [0.123454s] Searching alignments... [55.3115s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.33195s] Building query seed array... [3.73252s] Computing hash join... [4.71882s] Building seed filter... [0.122735s] Searching alignments... [42.7209s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9889s] Building query seed array... [4.26716s] Computing hash join... [4.65069s] Building seed filter... [0.127894s] Searching alignments... [42.2578s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.2601s] Building query seed array... [4.29719s] Computing hash join... [4.83971s] Building seed filter... [0.1285s] Searching alignments... [43.8015s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.3079s] Building query seed array... [3.78526s] Computing hash join... [4.82924s] Building seed filter... [0.121413s] Searching alignments... [43.375s] Deallocating buffers... [0.107669s] Opening temporary output file... [0.003008s] Computing alignments... [74.6539s] Deallocating reference... [0.075061s] Loading reference sequences... [383.861s] Masking reference... [57.7561s] Initializing temporary storage... [0.004041s] Building reference histograms... [13.6569s] Allocating buffers... [0.000313s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.74395s] Building query seed array... [3.81344s] Computing hash join... [5.03756s] Building seed filter... [0.126378s] Searching alignments... [52.9652s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.0562s] Building query seed array... [4.31684s] Computing hash join... [5.05063s] Building seed filter... [0.129626s] Searching alignments... [52.5349s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.9776s] Building query seed array... [4.28642s] Computing hash join... [4.89345s] Building seed filter... [0.125142s] Searching alignments... [51.572s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.39597s] Building query seed array... [3.92625s] Computing hash join... [4.91133s] Building seed filter... [0.133491s] Searching alignments... [51.1043s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.81715s] Building query seed array... [3.73612s] Computing hash join... [4.79939s] Building seed filter... [0.123446s] Searching alignments... [39.5557s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.1455s] Building query seed array... [4.2395s] Computing hash join... [4.69624s] Building seed filter... [0.13562s] Searching alignments... [38.6891s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.0951s] Building query seed array... [4.24887s] Computing hash join... [4.63795s] Building seed filter... [0.127444s] Searching alignments... [40.5619s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.60289s] Building query seed array... [3.72579s] Computing hash join... [4.71127s] Building seed filter... [0.127901s] Searching alignments... [40.5438s] Deallocating buffers... [0.105083s] Opening temporary output file... [0.018678s] Computing alignments... [75.1866s] Deallocating reference... [0.06929s] Loading reference sequences... [354.468s] Masking reference... [57.4422s] Initializing temporary storage... [0.003949s] Building reference histograms... [13.9292s] Allocating buffers... [0.00037s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.89355s] Building query seed array... [3.9826s] Computing hash join... [4.9475s] Building seed filter... [0.12213s] Searching alignments... [53.8857s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.8047s] Building query seed array... [4.38159s] Computing hash join... [4.95069s] Building seed filter... [0.125273s] Searching alignments... [53.6872s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.3004s] Building query seed array... [4.43036s] Computing hash join... [4.91238s] Building seed filter... [0.125195s] Searching alignments... [51.6725s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.45028s] Building query seed array... [3.68159s] Computing hash join... [4.98461s] Building seed filter... [0.12984s] Searching alignments... [51.0932s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.26993s] Building query seed array... [3.66592s] Computing hash join... [4.8232s] Building seed filter... [0.125079s] Searching alignments... [39.5618s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.617s] Building query seed array... [4.32487s] Computing hash join... [4.78258s] Building seed filter... [0.125181s] Searching alignments... [39.3635s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.3771s] Building query seed array... [4.26844s] Computing hash join... [4.70472s] Building seed filter... [0.134846s] Searching alignments... [41.0727s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.62003s] Building query seed array... [3.5277s] Computing hash join... [4.74002s] Building seed filter... [0.129651s] Searching alignments... [41.6229s] Deallocating buffers... [0.116495s] Opening temporary output file... [0.001932s] Computing alignments... [73.4073s] Deallocating reference... [0.068649s] Loading reference sequences... [335.917s] Masking reference... [57.7342s] Initializing temporary storage... [0.004036s] Building reference histograms... [13.0322s] Allocating buffers... [0.000319s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.71931s] Building query seed array... [3.88956s] Computing hash join... [4.9411s] Building seed filter... [0.133755s] Searching alignments... [58.5312s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.6132s] Building query seed array... [4.37561s] Computing hash join... [4.90572s] Building seed filter... [0.124074s] Searching alignments... [55.1799s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.1481s] Building query seed array... [4.39885s] Computing hash join... [4.94674s] Building seed filter... [0.128748s] Searching alignments... [55.1955s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.42591s] Building query seed array... [3.80211s] Computing hash join... [4.93789s] Building seed filter... [0.13102s] Searching alignments... [55.3211s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.20148s] Building query seed array... [3.75788s] Computing hash join... [4.65527s] Building seed filter... [0.119188s] Searching alignments... [42.3169s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.0322s] Building query seed array... [4.22984s] Computing hash join... [4.72189s] Building seed filter... [0.124265s] Searching alignments... [42.5381s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [11.9057s] Building query seed array... [4.16493s] Computing hash join... [4.73892s] Building seed filter... [0.120534s] Searching alignments... [44.1666s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.22806s] Building query seed array... [3.65466s] Computing hash join... [4.72755s] Building seed filter... [0.124078s] Searching alignments... [43.2991s] Deallocating buffers... [0.105768s] Opening temporary output file... [0.025146s] Computing alignments... [73.9199s] Deallocating reference... [0.064269s] Loading reference sequences... [324.821s] Masking reference... [57.5792s] Initializing temporary storage... [0.003996s] Building reference histograms... [13.221s] Allocating buffers... [0.000334s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.85037s] Building query seed array... [3.91305s] Computing hash join... [4.97614s] Building seed filter... [0.127163s] Searching alignments... [57.3877s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [11.8699s] Building query seed array... [4.48601s] Computing hash join... [4.98201s] Building seed filter... [0.126651s] Searching alignments... [56.6118s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.2543s] Building query seed array... [4.56289s] Computing hash join... [4.87587s] Building seed filter... [0.133309s] Searching alignments... [54.9568s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.47486s] Building query seed array... [3.87362s] Computing hash join... [4.96772s] Building seed filter... [0.133951s] Searching alignments... [54.5448s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.65615s] Building query seed array... [3.85516s] Computing hash join... [4.77191s] Building seed filter... [0.129763s] Searching alignments... [42.9037s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.4285s] Building query seed array... [4.2233s] Computing hash join... [4.67671s] Building seed filter... [0.132856s] Searching alignments... [41.8456s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.7941s] Building query seed array... [4.29183s] Computing hash join... [4.80196s] Building seed filter... [0.140967s] Searching alignments... [43.4299s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.33506s] Building query seed array... [3.72283s] Computing hash join... [4.78043s] Building seed filter... [0.129762s] Searching alignments... [42.9303s] Deallocating buffers... [0.116205s] Opening temporary output file... [0.020687s] Computing alignments... [76.4362s] Deallocating reference... [0.06506s] Loading reference sequences... [134.697s] Masking reference... [21.4185s] Initializing temporary storage... [0.00401s] Building reference histograms... [5.10486s] Allocating buffers... [0.000325s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.71387s] Building query seed array... [3.90999s] Computing hash join... [2.512s] Building seed filter... [0.082773s] Searching alignments... [23.4954s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.63477s] Building query seed array... [4.22401s] Computing hash join... [2.3816s] Building seed filter... [0.083544s] Searching alignments... [22.6301s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.70444s] Building query seed array... [4.42495s] Computing hash join... [2.38853s] Building seed filter... [0.089266s] Searching alignments... [22.7076s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.5974s] Building query seed array... [3.80616s] Computing hash join... [2.43807s] Building seed filter... [0.08614s] Searching alignments... [22.7771s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.57307s] Building query seed array... [3.54076s] Computing hash join... [2.25637s] Building seed filter... [0.081295s] Searching alignments... [17.1353s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.66894s] Building query seed array... [4.30841s] Computing hash join... [2.23982s] Building seed filter... [0.081616s] Searching alignments... [16.7872s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.84958s] Building query seed array... [4.20598s] Computing hash join... [2.2591s] Building seed filter... [0.077814s] Searching alignments... [17.6818s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.57081s] Building query seed array... [3.4845s] Computing hash join... [2.23881s] Building seed filter... [0.081316s] Searching alignments... [17.6949s] Deallocating buffers... [0.040792s] Opening temporary output file... [0.002266s] Computing alignments... [71.976s] Deallocating reference... [0.029481s] Loading reference sequences... [5.1e-05s] Deallocating buffers... [0.016023s] Joining output blocks... [2.96541s] Deallocating queries... [0.075698s] Loading query sequences... [2.9e-05s] Closing the input file... [4e-05s] Closing the output file... [0.078146s] Closing the database file... [3.5e-05s] Deallocating taxonomy... [1.6e-05s] Total time = 5674.59s Reported 2283835 pairwise alignments, 2284577 HSPs. 314716 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 12M_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.6s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (7.1s) Total reads: 314,716 With hits: 314,716 Alignments: 2,284,577 Assig. Taxonomy: 314,716 Assig. EGGNOG: 1,326 Assig. INTERPRO2GO: 1,283 MinSupport set to: 157 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 900 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 72 Class. EGGNOG: 526 Class. INTERPRO2GO: 454 Total time: 17s Peak memory: 5.5 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/12M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 47b24664632a6d85b9fd01a60ffc9e6b /gscratch/srlab/sam/data/C_virginica/BSseq/12M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000142s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.035838s] Opening the output file... [0.000288s] Loading query sequences... [185.941s] Masking queries... [95.6551s] Building query seed set... [0.648435s] Algorithm: Double-indexed Building query histograms... [5.67638s] Allocating buffers... [0.000874s] Loading reference sequences... [43.7006s] Masking reference... [57.3693s] Initializing temporary storage... [0.013801s] Building reference histograms... [12.9132s] Allocating buffers... [0.000348s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.56939s] Building query seed array... [3.80648s] Computing hash join... [5.12835s] Building seed filter... [0.144643s] Searching alignments... [51.3199s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [11.8798s] Building query seed array... [4.12358s] Computing hash join... [5.11854s] Building seed filter... [0.137373s] Searching alignments... [50.774s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.2289s] Building query seed array... [4.29668s] Computing hash join... [5.06603s] Building seed filter... [0.138613s] Searching alignments... [50.321s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.06991s] Building query seed array... [3.66961s] Computing hash join... [4.98922s] Building seed filter... [0.138557s] Searching alignments... [49.7765s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.56923s] Building query seed array... [3.39546s] Computing hash join... [4.77151s] Building seed filter... [0.140958s] Searching alignments... [39.6087s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.6754s] Building query seed array... [3.93719s] Computing hash join... [4.83097s] Building seed filter... [0.128644s] Searching alignments... [39.388s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.6349s] Building query seed array... [4.0175s] Computing hash join... [4.82919s] Building seed filter... [0.130346s] Searching alignments... [39.5009s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.3735s] Building query seed array... [3.43823s] Computing hash join... [4.82562s] Building seed filter... [0.140844s] Searching alignments... [38.7357s] Deallocating buffers... [0.106151s] Opening temporary output file... [0.000942s] Computing alignments... [73.0206s] Deallocating reference... [0.074452s] Loading reference sequences... [47.3108s] Masking reference... [57.5356s] Initializing temporary storage... [0.004733s] Building reference histograms... [12.7151s] Allocating buffers... [0.000337s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.60362s] Building query seed array... [3.74181s] Computing hash join... [5.04975s] Building seed filter... [0.137854s] Searching alignments... [47.7813s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.1611s] Building query seed array... [4.25237s] Computing hash join... [5.01868s] Building seed filter... [0.146305s] Searching alignments... [47.6057s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.6113s] Building query seed array... [4.40608s] Computing hash join... [5.0373s] Building seed filter... [0.145552s] Searching alignments... [46.3014s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.52453s] Building query seed array... [3.67686s] Computing hash join... [4.84992s] Building seed filter... [0.142545s] Searching alignments... [45.776s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.19242s] Building query seed array... [3.46566s] Computing hash join... [4.76727s] Building seed filter... [0.127212s] Searching alignments... [36.2731s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.7062s] Building query seed array... [3.91574s] Computing hash join... [4.82899s] Building seed filter... [0.127696s] Searching alignments... [36.3422s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.2148s] Building query seed array... [3.917s] Computing hash join... [4.86654s] Building seed filter... [0.133785s] Searching alignments... [36.3417s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.30236s] Building query seed array... [3.38741s] Computing hash join... [4.77699s] Building seed filter... [0.128671s] Searching alignments... [35.346s] Deallocating buffers... [0.112997s] Opening temporary output file... [0.000958s] Computing alignments... [74.5934s] Deallocating reference... [0.069196s] Loading reference sequences... [350.646s] Masking reference... [57.891s] Initializing temporary storage... [0.005283s] Building reference histograms... [13.4839s] Allocating buffers... [0.000317s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [10.3428s] Building query seed array... [3.79035s] Computing hash join... [5.15406s] Building seed filter... [0.134445s] Searching alignments... [48.1768s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.357s] Building query seed array... [4.33519s] Computing hash join... [4.97635s] Building seed filter... [0.142498s] Searching alignments... [47.7625s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.7226s] Building query seed array... [4.18814s] Computing hash join... [4.9128s] Building seed filter... [0.141681s] Searching alignments... [46.8079s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.49733s] Building query seed array... [3.71982s] Computing hash join... [4.93964s] Building seed filter... [0.143024s] Searching alignments... [46.3135s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.43659s] Building query seed array... [3.53798s] Computing hash join... [4.74744s] Building seed filter... [0.134595s] Searching alignments... [36.9884s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.37s] Building query seed array... [3.9748s] Computing hash join... [4.84882s] Building seed filter... [0.129192s] Searching alignments... [37.4077s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.278s] Building query seed array... [3.92621s] Computing hash join... [4.805s] Building seed filter... [0.135459s] Searching alignments... [36.3384s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.38943s] Building query seed array... [3.32677s] Computing hash join... [4.84807s] Building seed filter... [0.129362s] Searching alignments... [36.4226s] Deallocating buffers... [0.119379s] Opening temporary output file... [0.001093s] Computing alignments... [72.9997s] Deallocating reference... [0.071553s] Loading reference sequences... [329.812s] Masking reference... [57.6054s] Initializing temporary storage... [0.003918s] Building reference histograms... [12.6659s] Allocating buffers... [0.000312s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.34993s] Building query seed array... [3.71282s] Computing hash join... [5.0374s] Building seed filter... [0.136626s] Searching alignments... [50.9907s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.0221s] Building query seed array... [4.05527s] Computing hash join... [5.01655s] Building seed filter... [0.137981s] Searching alignments... [50.5223s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.6697s] Building query seed array... [4.26912s] Computing hash join... [4.99158s] Building seed filter... [0.14935s] Searching alignments... [50.8645s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.38698s] Building query seed array... [3.64358s] Computing hash join... [4.98018s] Building seed filter... [0.147357s] Searching alignments... [49.755s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.0964s] Building query seed array... [3.39285s] Computing hash join... [4.76918s] Building seed filter... [0.138451s] Searching alignments... [39.1709s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.2222s] Building query seed array... [4.03145s] Computing hash join... [4.72734s] Building seed filter... [0.140271s] Searching alignments... [39.5862s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.4831s] Building query seed array... [4.03885s] Computing hash join... [4.76336s] Building seed filter... [0.133105s] Searching alignments... [38.7015s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.20222s] Building query seed array... [3.50027s] Computing hash join... [4.74375s] Building seed filter... [0.132906s] Searching alignments... [38.4657s] Deallocating buffers... [0.117741s] Opening temporary output file... [0.001053s] Computing alignments... [74.6466s] Deallocating reference... [0.064172s] Loading reference sequences... [315.318s] Masking reference... [57.7871s] Initializing temporary storage... [0.003903s] Building reference histograms... [13.047s] Allocating buffers... [0.000306s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.79747s] Building query seed array... [4.22332s] Computing hash join... [5.00647s] Building seed filter... [0.135701s] Searching alignments... [51.4383s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.1892s] Building query seed array... [4.21492s] Computing hash join... [4.97559s] Building seed filter... [0.140224s] Searching alignments... [50.4954s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.4711s] Building query seed array... [4.35537s] Computing hash join... [4.97708s] Building seed filter... [0.153973s] Searching alignments... [49.8885s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.68175s] Building query seed array... [3.74729s] Computing hash join... [5.02178s] Building seed filter... [0.152773s] Searching alignments... [50.0992s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.48539s] Building query seed array... [3.43649s] Computing hash join... [4.86889s] Building seed filter... [0.133596s] Searching alignments... [39.5428s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.277s] Building query seed array... [3.92093s] Computing hash join... [4.90558s] Building seed filter... [0.134533s] Searching alignments... [39.6125s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [11.9892s] Building query seed array... [4.00128s] Computing hash join... [4.8448s] Building seed filter... [0.133078s] Searching alignments... [38.8412s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.2484s] Building query seed array... [3.52634s] Computing hash join... [4.83903s] Building seed filter... [0.143648s] Searching alignments... [38.9302s] Deallocating buffers... [0.115807s] Opening temporary output file... [0.001057s] Computing alignments... [75.0444s] Deallocating reference... [0.062848s] Loading reference sequences... [138.314s] Masking reference... [21.1656s] Initializing temporary storage... [0.004308s] Building reference histograms... [4.897s] Allocating buffers... [0.000336s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.70724s] Building query seed array... [3.77848s] Computing hash join... [2.40732s] Building seed filter... [0.099115s] Searching alignments... [20.8893s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.56268s] Building query seed array... [3.92722s] Computing hash join... [2.37255s] Building seed filter... [0.093857s] Searching alignments... [20.6448s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.65518s] Building query seed array... [4.2764s] Computing hash join... [2.38009s] Building seed filter... [0.089375s] Searching alignments... [20.8509s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.66799s] Building query seed array... [3.51647s] Computing hash join... [2.33219s] Building seed filter... [0.090168s] Searching alignments... [20.295s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.6173s] Building query seed array... [3.4827s] Computing hash join... [2.24113s] Building seed filter... [0.083022s] Searching alignments... [16.0315s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.56305s] Building query seed array... [3.82527s] Computing hash join... [2.26999s] Building seed filter... [0.084369s] Searching alignments... [15.8048s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.80311s] Building query seed array... [3.96471s] Computing hash join... [2.24658s] Building seed filter... [0.087988s] Searching alignments... [15.8726s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.59924s] Building query seed array... [3.4313s] Computing hash join... [2.23737s] Building seed filter... [0.086724s] Searching alignments... [15.7945s] Deallocating buffers... [0.042599s] Opening temporary output file... [0.000913s] Computing alignments... [71.7973s] Deallocating reference... [0.027903s] Loading reference sequences... [5e-05s] Deallocating buffers... [0.015977s] Joining output blocks... [2.56832s] Deallocating queries... [0.075763s] Loading query sequences... [2.8e-05s] Closing the input file... [4.3e-05s] Closing the output file... [0.039335s] Closing the database file... [2.8e-05s] Deallocating taxonomy... [1e-05s] Total time = 5103.39s Reported 1648348 pairwise alignments, 1648727 HSPs. 234550 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 12M_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.4s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (6.0s) Total reads: 234,550 With hits: 234,550 Alignments: 1,648,727 Assig. Taxonomy: 234,550 Assig. EGGNOG: 909 Assig. INTERPRO2GO: 782 MinSupport set to: 117 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Min-supp. changes: 790 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 73 Class. EGGNOG: 434 Class. INTERPRO2GO: 363 Total time: 16s Peak memory: 6.6 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/13M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 32e1fa5c0384bb5f67d0efe64dc8ba63 /gscratch/srlab/sam/data/C_virginica/BSseq/13M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.063607s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005909s] Opening the output file... [0.000324s] Loading query sequences... [203.238s] Masking queries... [124.776s] Building query seed set... [0.620188s] Algorithm: Double-indexed Building query histograms... [6.22853s] Allocating buffers... [0.000811s] Loading reference sequences... [46.6337s] Masking reference... [58.5533s] Initializing temporary storage... [0.00459s] Building reference histograms... [13.0733s] Allocating buffers... [0.000298s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.9369s] Building query seed array... [4.42752s] Computing hash join... [5.13991s] Building seed filter... [0.138749s] Searching alignments... [62.2455s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.1226s] Building query seed array... [4.97756s] Computing hash join... [5.07656s] Building seed filter... [0.134361s] Searching alignments... [61.9652s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.9236s] Building query seed array... [4.97228s] Computing hash join... [5.05669s] Building seed filter... [0.137065s] Searching alignments... [60.2871s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.40048s] Building query seed array... [4.21816s] Computing hash join... [5.05439s] Building seed filter... [0.144925s] Searching alignments... [62.3789s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.74501s] Building query seed array... [4.21822s] Computing hash join... [4.94565s] Building seed filter... [0.134086s] Searching alignments... [47.8873s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.1169s] Building query seed array... [4.61924s] Computing hash join... [4.88386s] Building seed filter... [0.126983s] Searching alignments... [48.2185s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.2714s] Building query seed array... [4.68185s] Computing hash join... [4.8506s] Building seed filter... [0.139763s] Searching alignments... [46.8662s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.21836s] Building query seed array... [4.08779s] Computing hash join... [4.75932s] Building seed filter... [0.131339s] Searching alignments... [47.7334s] Deallocating buffers... [0.106544s] Opening temporary output file... [0.000477s] Computing alignments... [81.3419s] Deallocating reference... [0.076076s] Loading reference sequences... [554.593s] Masking reference... [58.0523s] Initializing temporary storage... [0.004012s] Building reference histograms... [12.8059s] Allocating buffers... [0.000332s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.88925s] Building query seed array... [4.45026s] Computing hash join... [5.0648s] Building seed filter... [0.137009s] Searching alignments... [58.2635s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.5078s] Building query seed array... [5.16243s] Computing hash join... [5.03303s] Building seed filter... [0.131499s] Searching alignments... [57.1745s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.3793s] Building query seed array... [4.6041s] Computing hash join... [5.0882s] Building seed filter... [0.139026s] Searching alignments... [56.2403s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.25743s] Building query seed array... [4.29707s] Computing hash join... [4.99388s] Building seed filter... [0.12819s] Searching alignments... [56.9913s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.43488s] Building query seed array... [4.18371s] Computing hash join... [4.83875s] Building seed filter... [0.144681s] Searching alignments... [43.2204s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.412s] Building query seed array... [4.5096s] Computing hash join... [4.89652s] Building seed filter... [0.140131s] Searching alignments... [43.9588s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.2954s] Building query seed array... [4.51724s] Computing hash join... [4.85719s] Building seed filter... [0.139695s] Searching alignments... [43.7716s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.61457s] Building query seed array... [4.07213s] Computing hash join... [4.9389s] Building seed filter... [0.138408s] Searching alignments... [43.0585s] Deallocating buffers... [0.111973s] Opening temporary output file... [0.000575s] Computing alignments... [82.2597s] Deallocating reference... [0.070704s] Loading reference sequences... [580.229s] Masking reference... [57.6091s] Initializing temporary storage... [0.004075s] Building reference histograms... [12.9297s] Allocating buffers... [0.000339s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.8361s] Building query seed array... [4.46733s] Computing hash join... [5.06236s] Building seed filter... [0.136112s] Searching alignments... [59.1789s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.111s] Building query seed array... [4.90549s] Computing hash join... [5.01694s] Building seed filter... [0.13317s] Searching alignments... [57.5773s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.3401s] Building query seed array... [4.80745s] Computing hash join... [5.06912s] Building seed filter... [0.133028s] Searching alignments... [56.6214s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.32728s] Building query seed array... [4.36431s] Computing hash join... [5.04226s] Building seed filter... [0.131461s] Searching alignments... [57.6358s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.57896s] Building query seed array... [4.12446s] Computing hash join... [4.7803s] Building seed filter... [0.125425s] Searching alignments... [44.9789s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.3485s] Building query seed array... [4.55235s] Computing hash join... [4.84622s] Building seed filter... [0.126823s] Searching alignments... [45.3662s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.4259s] Building query seed array... [4.55586s] Computing hash join... [4.88706s] Building seed filter... [0.129265s] Searching alignments... [44.2029s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.18623s] Building query seed array... [4.03556s] Computing hash join... [4.86959s] Building seed filter... [0.133274s] Searching alignments... [43.4426s] Deallocating buffers... [0.107639s] Opening temporary output file... [0.00099s] Computing alignments... [83.254s] Deallocating reference... [0.068652s] Loading reference sequences... [520.071s] Masking reference... [57.6202s] Initializing temporary storage... [0.962387s] Building reference histograms... [13.1423s] Allocating buffers... [0.000316s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.95308s] Building query seed array... [4.37455s] Computing hash join... [5.13571s] Building seed filter... [0.137987s] Searching alignments... [63.8899s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [11.9076s] Building query seed array... [4.77124s] Computing hash join... [4.99765s] Building seed filter... [0.13575s] Searching alignments... [62.3198s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.3795s] Building query seed array... [4.97185s] Computing hash join... [5.00646s] Building seed filter... [0.136392s] Searching alignments... [59.9816s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.67393s] Building query seed array... [4.27611s] Computing hash join... [5.08909s] Building seed filter... [0.1392s] Searching alignments... [62.1794s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.21141s] Building query seed array... [4.09779s] Computing hash join... [4.82094s] Building seed filter... [0.131125s] Searching alignments... [48.2901s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.9035s] Building query seed array... [4.68886s] Computing hash join... [4.774s] Building seed filter... [0.12721s] Searching alignments... [49.7293s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.2018s] Building query seed array... [4.72848s] Computing hash join... [4.86466s] Building seed filter... [0.138646s] Searching alignments... [46.7029s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.3148s] Building query seed array... [4.02718s] Computing hash join... [4.87397s] Building seed filter... [0.140534s] Searching alignments... [46.3676s] Deallocating buffers... [0.115546s] Opening temporary output file... [0.000553s] Computing alignments... [81.9996s] Deallocating reference... [0.064005s] Loading reference sequences... [494.58s] Masking reference... [59.446s] Initializing temporary storage... [0.005312s] Building reference histograms... [12.8202s] Allocating buffers... [0.000321s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.82332s] Building query seed array... [4.38128s] Computing hash join... [5.09726s] Building seed filter... [0.132803s] Searching alignments... [61.9443s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.3567s] Building query seed array... [4.82776s] Computing hash join... [5.07449s] Building seed filter... [0.136904s] Searching alignments... [61.5993s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.4877s] Building query seed array... [4.87507s] Computing hash join... [5.03443s] Building seed filter... [0.13585s] Searching alignments... [59.8953s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.35164s] Building query seed array... [4.15947s] Computing hash join... [5.1431s] Building seed filter... [0.140271s] Searching alignments... [61.0007s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.6545s] Building query seed array... [4.16934s] Computing hash join... [4.88124s] Building seed filter... [0.127066s] Searching alignments... [46.8019s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.175s] Building query seed array... [4.66036s] Computing hash join... [4.7894s] Building seed filter... [0.125205s] Searching alignments... [47.8895s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.6873s] Building query seed array... [4.4568s] Computing hash join... [4.84893s] Building seed filter... [0.140451s] Searching alignments... [47.5137s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.11941s] Building query seed array... [4.13343s] Computing hash join... [4.84677s] Building seed filter... [0.135122s] Searching alignments... [45.7055s] Deallocating buffers... [0.1216s] Opening temporary output file... [0.249859s] Computing alignments... [85.391s] Deallocating reference... [0.062085s] Loading reference sequences... [219.732s] Masking reference... [21.3176s] Initializing temporary storage... [0.004172s] Building reference histograms... [5.07794s] Allocating buffers... [0.000594s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.64262s] Building query seed array... [4.30019s] Computing hash join... [2.51115s] Building seed filter... [0.088236s] Searching alignments... [25.3201s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.6742s] Building query seed array... [4.58004s] Computing hash join... [2.49218s] Building seed filter... [0.087743s] Searching alignments... [25.7679s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.74848s] Building query seed array... [4.89835s] Computing hash join... [2.50749s] Building seed filter... [0.092738s] Searching alignments... [24.9842s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.61493s] Building query seed array... [4.28095s] Computing hash join... [2.48139s] Building seed filter... [0.096664s] Searching alignments... [25.677s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.71176s] Building query seed array... [3.93505s] Computing hash join... [2.31591s] Building seed filter... [0.084304s] Searching alignments... [19.2684s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.49858s] Building query seed array... [4.36662s] Computing hash join... [2.36396s] Building seed filter... [0.092402s] Searching alignments... [19.4127s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.93157s] Building query seed array... [4.6107s] Computing hash join... [2.39716s] Building seed filter... [0.089299s] Searching alignments... [18.9173s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.63883s] Building query seed array... [4.0213s] Computing hash join... [2.33438s] Building seed filter... [0.088951s] Searching alignments... [18.617s] Deallocating buffers... [0.042884s] Opening temporary output file... [0.152666s] Computing alignments... [81.5493s] Deallocating reference... [0.028526s] Loading reference sequences... [4.4e-05s] Deallocating buffers... [0.019217s] Joining output blocks... [3.75207s] Deallocating queries... [0.079894s] Loading query sequences... [2.4e-05s] Closing the input file... [3.8e-05s] Closing the output file... [0.078004s] Closing the database file... [2.6e-05s] Deallocating taxonomy... [9e-06s] Total time = 6843.77s Reported 2652335 pairwise alignments, 2653279 HSPs. 343124 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 13M_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (3.0s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.7s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (8.1s) Total reads: 343,124 With hits: 343,124 Alignments: 2,653,279 Assig. Taxonomy: 343,124 Assig. EGGNOG: 1,972 Assig. INTERPRO2GO: 1,928 MinSupport set to: 171 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Min-supp. changes: 1,076 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 87 Class. EGGNOG: 730 Class. INTERPRO2GO: 545 Total time: 20s Peak memory: 4.5 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/13M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 41a34a52ae6e4b5860290c48801cc5b0 /gscratch/srlab/sam/data/C_virginica/BSseq/13M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.00016s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.061715s] Opening the output file... [0.000292s] Loading query sequences... [205.12s] Masking queries... [156.629s] Building query seed set... [0.730838s] Algorithm: Double-indexed Building query histograms... [6.05707s] Allocating buffers... [0.000865s] Loading reference sequences... [617.446s] Masking reference... [57.5333s] Initializing temporary storage... [0.029435s] Building reference histograms... [13.1769s] Allocating buffers... [0.00034s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.5649s] Building query seed array... [4.13184s] Computing hash join... [5.22531s] Building seed filter... [0.142101s] Searching alignments... [56.249s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.4416s] Building query seed array... [4.7753s] Computing hash join... [5.16806s] Building seed filter... [0.141196s] Searching alignments... [55.2333s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.6869s] Building query seed array... [4.76831s] Computing hash join... [5.12934s] Building seed filter... [0.145387s] Searching alignments... [54.6855s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.70793s] Building query seed array... [3.9991s] Computing hash join... [5.06189s] Building seed filter... [0.152699s] Searching alignments... [54.0425s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.65779s] Building query seed array... [3.83975s] Computing hash join... [4.93637s] Building seed filter... [0.145099s] Searching alignments... [42.6227s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.8322s] Building query seed array... [4.24945s] Computing hash join... [4.88983s] Building seed filter... [0.141954s] Searching alignments... [43.1148s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.7774s] Building query seed array... [4.31042s] Computing hash join... [4.87374s] Building seed filter... [0.138914s] Searching alignments... [42.7552s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.40607s] Building query seed array... [3.72877s] Computing hash join... [4.94216s] Building seed filter... [0.146183s] Searching alignments... [42.0597s] Deallocating buffers... [0.106298s] Opening temporary output file... [0.000909s] Computing alignments... [83.3041s] Deallocating reference... [0.077339s] Loading reference sequences... [492.335s] Masking reference... [57.8088s] Initializing temporary storage... [0.003983s] Building reference histograms... [13.2868s] Allocating buffers... [0.000327s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.63508s] Building query seed array... [4.16098s] Computing hash join... [5.1679s] Building seed filter... [0.143247s] Searching alignments... [51.6051s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.0946s] Building query seed array... [4.58373s] Computing hash join... [5.10847s] Building seed filter... [0.136587s] Searching alignments... [51.718s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.296s] Building query seed array... [4.72431s] Computing hash join... [5.06674s] Building seed filter... [0.162483s] Searching alignments... [50.5292s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.46661s] Building query seed array... [4.04331s] Computing hash join... [5.06526s] Building seed filter... [0.153094s] Searching alignments... [50.2281s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.49651s] Building query seed array... [3.79276s] Computing hash join... [4.83335s] Building seed filter... [0.145553s] Searching alignments... [39.5765s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.0037s] Building query seed array... [4.3905s] Computing hash join... [4.96247s] Building seed filter... [0.143049s] Searching alignments... [39.1347s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.1376s] Building query seed array... [4.31151s] Computing hash join... [4.83257s] Building seed filter... [0.143673s] Searching alignments... [39.0911s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.31963s] Building query seed array... [3.65704s] Computing hash join... [4.93671s] Building seed filter... [0.161461s] Searching alignments... [38.8779s] Deallocating buffers... [0.108378s] Opening temporary output file... [0.001064s] Computing alignments... [81.5702s] Deallocating reference... [0.069633s] Loading reference sequences... [379.532s] Masking reference... [57.9247s] Initializing temporary storage... [0.003925s] Building reference histograms... [13.3285s] Allocating buffers... [0.000289s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [10.1599s] Building query seed array... [4.23137s] Computing hash join... [5.27059s] Building seed filter... [0.156665s] Searching alignments... [52.4015s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.2992s] Building query seed array... [4.57521s] Computing hash join... [4.99823s] Building seed filter... [0.138222s] Searching alignments... [51.9799s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.6159s] Building query seed array... [4.5047s] Computing hash join... [5.07343s] Building seed filter... [0.150809s] Searching alignments... [51.4075s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.41412s] Building query seed array... [4.02463s] Computing hash join... [5.08417s] Building seed filter... [0.144602s] Searching alignments... [50.6995s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.33983s] Building query seed array... [3.85994s] Computing hash join... [4.85012s] Building seed filter... [0.148975s] Searching alignments... [39.8487s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.9527s] Building query seed array... [4.42157s] Computing hash join... [4.93402s] Building seed filter... [0.140922s] Searching alignments... [40.4626s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.4047s] Building query seed array... [4.38628s] Computing hash join... [4.8404s] Building seed filter... [0.145155s] Searching alignments... [39.5632s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.26546s] Building query seed array... [3.80666s] Computing hash join... [4.85125s] Building seed filter... [0.134316s] Searching alignments... [39.7815s] Deallocating buffers... [0.105833s] Opening temporary output file... [0.001001s] Computing alignments... [83.5747s] Deallocating reference... [0.06878s] Loading reference sequences... [373.397s] Masking reference... [57.7323s] Initializing temporary storage... [0.003942s] Building reference histograms... [12.8609s] Allocating buffers... [0.000311s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.71156s] Building query seed array... [4.21166s] Computing hash join... [5.11276s] Building seed filter... [0.144586s] Searching alignments... [55.3141s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.8714s] Building query seed array... [4.70599s] Computing hash join... [5.06229s] Building seed filter... [0.15029s] Searching alignments... [55.2273s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.3571s] Building query seed array... [4.77853s] Computing hash join... [5.10447s] Building seed filter... [0.153899s] Searching alignments... [55.3472s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.25342s] Building query seed array... [4.09636s] Computing hash join... [5.14109s] Building seed filter... [0.159185s] Searching alignments... [53.8707s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.72028s] Building query seed array... [3.85967s] Computing hash join... [4.89925s] Building seed filter... [0.142575s] Searching alignments... [42.7337s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.6597s] Building query seed array... [4.22634s] Computing hash join... [4.90508s] Building seed filter... [0.146961s] Searching alignments... [42.9257s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.0284s] Building query seed array... [4.16911s] Computing hash join... [4.84253s] Building seed filter... [0.137488s] Searching alignments... [43.1382s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.78287s] Building query seed array... [3.80365s] Computing hash join... [4.91575s] Building seed filter... [0.158228s] Searching alignments... [42.3293s] Deallocating buffers... [0.10927s] Opening temporary output file... [0.00099s] Computing alignments... [81.8154s] Deallocating reference... [0.064265s] Loading reference sequences... [358.373s] Masking reference... [57.9009s] Initializing temporary storage... [0.003965s] Building reference histograms... [13.0092s] Allocating buffers... [0.000292s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.56408s] Building query seed array... [4.19899s] Computing hash join... [5.2036s] Building seed filter... [0.166573s] Searching alignments... [56.1396s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [11.9778s] Building query seed array... [4.8985s] Computing hash join... [5.08895s] Building seed filter... [0.157101s] Searching alignments... [55.1565s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.3244s] Building query seed array... [4.81723s] Computing hash join... [5.17363s] Building seed filter... [0.162671s] Searching alignments... [54.6232s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.52515s] Building query seed array... [3.95211s] Computing hash join... [5.18283s] Building seed filter... [0.165166s] Searching alignments... [53.9708s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.42939s] Building query seed array... [3.89922s] Computing hash join... [4.97656s] Building seed filter... [0.148356s] Searching alignments... [43.475s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.605s] Building query seed array... [4.31783s] Computing hash join... [5.7541s] Building seed filter... [0.143076s] Searching alignments... [42.4487s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.5971s] Building query seed array... [4.33646s] Computing hash join... [4.90433s] Building seed filter... [0.145093s] Searching alignments... [42.5874s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.77157s] Building query seed array... [3.84012s] Computing hash join... [4.83093s] Building seed filter... [0.13587s] Searching alignments... [42.0393s] Deallocating buffers... [0.084747s] Opening temporary output file... [0.000916s] Computing alignments... [83.6001s] Deallocating reference... [0.064708s] Loading reference sequences... [142.272s] Masking reference... [21.3241s] Initializing temporary storage... [0.003914s] Building reference histograms... [5.10922s] Allocating buffers... [0.000325s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.6856s] Building query seed array... [3.93088s] Computing hash join... [2.56228s] Building seed filter... [0.100287s] Searching alignments... [23.0744s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.738s] Building query seed array... [4.70287s] Computing hash join... [2.49714s] Building seed filter... [0.097174s] Searching alignments... [22.622s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.5775s] Building query seed array... [4.60925s] Computing hash join... [2.50035s] Building seed filter... [0.098582s] Searching alignments... [22.1849s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.67864s] Building query seed array... [4.08603s] Computing hash join... [2.49462s] Building seed filter... [0.095149s] Searching alignments... [22.4425s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.62251s] Building query seed array... [3.69936s] Computing hash join... [2.38018s] Building seed filter... [0.093722s] Searching alignments... [17.2846s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.73077s] Building query seed array... [4.33479s] Computing hash join... [2.35913s] Building seed filter... [0.090975s] Searching alignments... [17.2819s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.74965s] Building query seed array... [4.31508s] Computing hash join... [2.33404s] Building seed filter... [0.089402s] Searching alignments... [17.4683s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.68824s] Building query seed array... [3.65361s] Computing hash join... [2.33085s] Building seed filter... [0.094389s] Searching alignments... [17.0023s] Deallocating buffers... [0.041324s] Opening temporary output file... [0.002763s] Computing alignments... [80.7232s] Deallocating reference... [0.02772s] Loading reference sequences... [4.8e-05s] Deallocating buffers... [0.017827s] Joining output blocks... [2.89265s] Deallocating queries... [0.079994s] Loading query sequences... [2.7e-05s] Closing the input file... [3.9e-05s] Closing the output file... [0.056514s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1e-05s] Total time = 6572.44s Reported 2053487 pairwise alignments, 2053999 HSPs. 265016 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 13M_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.7s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (7.0s) Total reads: 265,016 With hits: 265,016 Alignments: 2,053,999 Assig. Taxonomy: 265,015 Assig. EGGNOG: 1,315 Assig. INTERPRO2GO: 974 MinSupport set to: 132 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 1,005 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.1s) Class. Taxonomy: 97 Class. EGGNOG: 653 Class. INTERPRO2GO: 453 Total time: 18s Peak memory: 4.7 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/16F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 35f51ec4491aae46dc8f3faceac2c328 /gscratch/srlab/sam/data/C_virginica/BSseq/16F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.061739s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.061779s] Opening the output file... [0.000364s] Loading query sequences... [185.272s] Masking queries... [146.864s] Building query seed set... [0.60472s] Algorithm: Double-indexed Building query histograms... [5.39474s] Allocating buffers... [0.000827s] Loading reference sequences... [43.1114s] Masking reference... [57.8293s] Initializing temporary storage... [0.018811s] Building reference histograms... [13.1342s] Allocating buffers... [0.000349s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.6001s] Building query seed array... [3.84909s] Computing hash join... [5.02819s] Building seed filter... [0.123315s] Searching alignments... [53.7183s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.2572s] Building query seed array... [4.21353s] Computing hash join... [4.93598s] Building seed filter... [0.127213s] Searching alignments... [55.3982s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.7282s] Building query seed array... [4.472s] Computing hash join... [4.87806s] Building seed filter... [0.128986s] Searching alignments... [51.7222s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.55211s] Building query seed array... [3.73037s] Computing hash join... [4.98706s] Building seed filter... [0.127698s] Searching alignments... [52.613s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.26041s] Building query seed array... [3.5491s] Computing hash join... [4.67058s] Building seed filter... [0.117115s] Searching alignments... [37.8766s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.0386s] Building query seed array... [4.06409s] Computing hash join... [4.7102s] Building seed filter... [0.115247s] Searching alignments... [41.9764s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.1263s] Building query seed array... [4.10302s] Computing hash join... [4.8309s] Building seed filter... [0.118108s] Searching alignments... [42.3009s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.57124s] Building query seed array... [3.68004s] Computing hash join... [4.67184s] Building seed filter... [0.140119s] Searching alignments... [40.8433s] Deallocating buffers... [0.108076s] Opening temporary output file... [0.000607s] Computing alignments... [78.5977s] Deallocating reference... [0.075113s] Loading reference sequences... [46.101s] Masking reference... [58.8609s] Initializing temporary storage... [0.003975s] Building reference histograms... [12.7284s] Allocating buffers... [0.000807s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.98167s] Building query seed array... [3.85813s] Computing hash join... [4.87703s] Building seed filter... [0.128676s] Searching alignments... [48.5824s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.2334s] Building query seed array... [4.17728s] Computing hash join... [4.8409s] Building seed filter... [0.136852s] Searching alignments... [49.5373s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.4744s] Building query seed array... [4.31907s] Computing hash join... [4.87507s] Building seed filter... [0.122837s] Searching alignments... [47.6936s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.3372s] Building query seed array... [3.92745s] Computing hash join... [4.87198s] Building seed filter... [0.128351s] Searching alignments... [48.3157s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.37133s] Building query seed array... [3.87203s] Computing hash join... [4.70695s] Building seed filter... [0.118495s] Searching alignments... [35.1039s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.0155s] Building query seed array... [4.29898s] Computing hash join... [4.70869s] Building seed filter... [0.140935s] Searching alignments... [38.4379s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.0034s] Building query seed array... [4.12157s] Computing hash join... [4.7055s] Building seed filter... [0.131536s] Searching alignments... [38.0569s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.18871s] Building query seed array... [3.63305s] Computing hash join... [4.7218s] Building seed filter... [0.12466s] Searching alignments... [38.1113s] Deallocating buffers... [0.102893s] Opening temporary output file... [0.000493s] Computing alignments... [77.0113s] Deallocating reference... [0.073422s] Loading reference sequences... [342.621s] Masking reference... [57.7998s] Initializing temporary storage... [0.00424s] Building reference histograms... [12.7212s] Allocating buffers... [0.000897s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.58119s] Building query seed array... [3.92268s] Computing hash join... [4.99356s] Building seed filter... [0.120039s] Searching alignments... [51.0958s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.1234s] Building query seed array... [4.31316s] Computing hash join... [4.95414s] Building seed filter... [0.119583s] Searching alignments... [51.3285s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.2008s] Building query seed array... [4.36855s] Computing hash join... [4.8178s] Building seed filter... [0.124746s] Searching alignments... [48.2449s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.63488s] Building query seed array... [3.76278s] Computing hash join... [4.82906s] Building seed filter... [0.135652s] Searching alignments... [49.4336s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.68147s] Building query seed array... [3.78185s] Computing hash join... [4.67085s] Building seed filter... [0.114989s] Searching alignments... [37.8917s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.6014s] Building query seed array... [4.23805s] Computing hash join... [4.72732s] Building seed filter... [0.129285s] Searching alignments... [38.8018s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.2949s] Building query seed array... [4.09s] Computing hash join... [4.78679s] Building seed filter... [0.129221s] Searching alignments... [39.6446s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.57733s] Building query seed array... [3.68578s] Computing hash join... [4.66177s] Building seed filter... [0.118482s] Searching alignments... [38.8432s] Deallocating buffers... [0.108915s] Opening temporary output file... [0.000502s] Computing alignments... [78.8392s] Deallocating reference... [0.070822s] Loading reference sequences... [318.238s] Masking reference... [57.8428s] Initializing temporary storage... [0.003957s] Building reference histograms... [12.955s] Allocating buffers... [0.000827s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.8501s] Building query seed array... [3.78486s] Computing hash join... [4.91279s] Building seed filter... [0.132684s] Searching alignments... [53.9939s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.5042s] Building query seed array... [4.3116s] Computing hash join... [4.88159s] Building seed filter... [0.124761s] Searching alignments... [54.121s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.2677s] Building query seed array... [4.46729s] Computing hash join... [4.8904s] Building seed filter... [0.138772s] Searching alignments... [51.6053s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.56211s] Building query seed array... [3.73668s] Computing hash join... [4.85537s] Building seed filter... [0.12727s] Searching alignments... [53.0081s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.70925s] Building query seed array... [3.79181s] Computing hash join... [4.72262s] Building seed filter... [0.119128s] Searching alignments... [40.8819s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.3018s] Building query seed array... [4.11769s] Computing hash join... [4.7397s] Building seed filter... [0.123131s] Searching alignments... [41.8235s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.0447s] Building query seed array... [4.25492s] Computing hash join... [4.81026s] Building seed filter... [0.124924s] Searching alignments... [41.8687s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.18903s] Building query seed array... [3.71672s] Computing hash join... [4.71623s] Building seed filter... [0.124881s] Searching alignments... [41.5861s] Deallocating buffers... [0.107939s] Opening temporary output file... [0.001244s] Computing alignments... [76.5749s] Deallocating reference... [0.063655s] Loading reference sequences... [309.774s] Masking reference... [57.6803s] Initializing temporary storage... [0.004041s] Building reference histograms... [13.1928s] Allocating buffers... [0.000806s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.69539s] Building query seed array... [3.86327s] Computing hash join... [4.97879s] Building seed filter... [0.128351s] Searching alignments... [53.1399s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [11.8911s] Building query seed array... [4.31956s] Computing hash join... [4.83757s] Building seed filter... [0.138747s] Searching alignments... [53.2819s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.3235s] Building query seed array... [4.13294s] Computing hash join... [4.78973s] Building seed filter... [0.135996s] Searching alignments... [51.1692s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.30992s] Building query seed array... [3.84935s] Computing hash join... [4.93025s] Building seed filter... [0.152572s] Searching alignments... [52.7244s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.5881s] Building query seed array... [3.75829s] Computing hash join... [4.67064s] Building seed filter... [0.125385s] Searching alignments... [40.4578s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.3384s] Building query seed array... [4.14516s] Computing hash join... [4.7004s] Building seed filter... [0.129676s] Searching alignments... [41.597s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.0884s] Building query seed array... [4.25393s] Computing hash join... [4.67396s] Building seed filter... [0.13185s] Searching alignments... [41.0537s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.51779s] Building query seed array... [3.64164s] Computing hash join... [4.66504s] Building seed filter... [0.127278s] Searching alignments... [40.796s] Deallocating buffers... [0.104945s] Opening temporary output file... [0.000999s] Computing alignments... [78.283s] Deallocating reference... [0.061814s] Loading reference sequences... [133.666s] Masking reference... [21.563s] Initializing temporary storage... [0.003986s] Building reference histograms... [5.08657s] Allocating buffers... [0.000311s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.64878s] Building query seed array... [3.90731s] Computing hash join... [2.36909s] Building seed filter... [0.098695s] Searching alignments... [22.6492s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.75896s] Building query seed array... [4.30192s] Computing hash join... [2.36196s] Building seed filter... [0.089267s] Searching alignments... [22.524s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.66213s] Building query seed array... [4.36612s] Computing hash join... [2.35284s] Building seed filter... [0.099465s] Searching alignments... [22.1601s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.63579s] Building query seed array... [3.72924s] Computing hash join... [2.3186s] Building seed filter... [0.093279s] Searching alignments... [21.3579s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.60225s] Building query seed array... [3.72501s] Computing hash join... [2.20853s] Building seed filter... [0.0881s] Searching alignments... [15.249s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.62442s] Building query seed array... [4.15433s] Computing hash join... [2.19512s] Building seed filter... [0.090991s] Searching alignments... [17.2505s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.78765s] Building query seed array... [4.148s] Computing hash join... [2.20784s] Building seed filter... [0.086257s] Searching alignments... [17.2214s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.56478s] Building query seed array... [3.64041s] Computing hash join... [2.22796s] Building seed filter... [0.084871s] Searching alignments... [16.9831s] Deallocating buffers... [0.042545s] Opening temporary output file... [0.002262s] Computing alignments... [76.0948s] Deallocating reference... [0.028604s] Loading reference sequences... [4.9e-05s] Deallocating buffers... [0.0168s] Joining output blocks... [2.63073s] Deallocating queries... [0.074733s] Loading query sequences... [2.6e-05s] Closing the input file... [3.8e-05s] Closing the output file... [0.060282s] Closing the database file... [2.6e-05s] Deallocating taxonomy... [1e-05s] Total time = 5244.58s Reported 2398180 pairwise alignments, 2398669 HSPs. 269014 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 16F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.9s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (7.5s) Total reads: 269,014 With hits: 269,014 Alignments: 2,398,669 Assig. Taxonomy: 269,014 Assig. EGGNOG: 1,503 Assig. INTERPRO2GO: 1,952 MinSupport set to: 134 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 1,227 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 93 Class. EGGNOG: 608 Class. INTERPRO2GO: 503 Total time: 19s Peak memory: 3.9 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/16F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 9547e006a4c91862d80c09678f18d244 /gscratch/srlab/sam/data/C_virginica/BSseq/16F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000202s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.034376s] Opening the output file... [0.000347s] Loading query sequences... [192.923s] Masking queries... [152.857s] Building query seed set... [0.654176s] Algorithm: Double-indexed Building query histograms... [5.40366s] Allocating buffers... [0.000839s] Loading reference sequences... [365.863s] Masking reference... [57.6858s] Initializing temporary storage... [0.014112s] Building reference histograms... [12.855s] Allocating buffers... [0.000322s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.74939s] Building query seed array... [3.79285s] Computing hash join... [5.0473s] Building seed filter... [0.139958s] Searching alignments... [47.4816s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.2802s] Building query seed array... [3.9359s] Computing hash join... [5.03034s] Building seed filter... [0.143788s] Searching alignments... [46.6421s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.3999s] Building query seed array... [4.12468s] Computing hash join... [4.95855s] Building seed filter... [0.142573s] Searching alignments... [46.4174s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.67069s] Building query seed array... [3.5791s] Computing hash join... [4.95944s] Building seed filter... [0.148662s] Searching alignments... [45.7583s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.89755s] Building query seed array... [3.3854s] Computing hash join... [4.77945s] Building seed filter... [0.127409s] Searching alignments... [35.9251s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9114s] Building query seed array... [3.86271s] Computing hash join... [4.80682s] Building seed filter... [0.139308s] Searching alignments... [35.9008s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.5883s] Building query seed array... [3.79144s] Computing hash join... [4.83064s] Building seed filter... [0.137849s] Searching alignments... [35.3622s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.25337s] Building query seed array... [3.3022s] Computing hash join... [4.70972s] Building seed filter... [0.150619s] Searching alignments... [35.5183s] Deallocating buffers... [0.105003s] Opening temporary output file... [0.000917s] Computing alignments... [76.951s] Deallocating reference... [0.07505s] Loading reference sequences... [359.736s] Masking reference... [57.7488s] Initializing temporary storage... [0.004004s] Building reference histograms... [12.707s] Allocating buffers... [0.000314s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.54938s] Building query seed array... [3.62157s] Computing hash join... [5.06259s] Building seed filter... [0.143361s] Searching alignments... [43.1767s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [11.7847s] Building query seed array... [4.12212s] Computing hash join... [4.9292s] Building seed filter... [0.139283s] Searching alignments... [43.4448s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [11.9927s] Building query seed array... [3.9855s] Computing hash join... [5.00486s] Building seed filter... [0.138635s] Searching alignments... [42.5677s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.10567s] Building query seed array... [3.64887s] Computing hash join... [4.9976s] Building seed filter... [0.132471s] Searching alignments... [42.5924s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.28065s] Building query seed array... [3.33302s] Computing hash join... [4.79202s] Building seed filter... [0.127017s] Searching alignments... [33.5807s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.3025s] Building query seed array... [3.7707s] Computing hash join... [4.80175s] Building seed filter... [0.148047s] Searching alignments... [33.3417s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.437s] Building query seed array... [3.79653s] Computing hash join... [4.80411s] Building seed filter... [0.128089s] Searching alignments... [33.7138s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.32681s] Building query seed array... [3.38927s] Computing hash join... [4.69008s] Building seed filter... [0.129981s] Searching alignments... [32.9513s] Deallocating buffers... [0.104602s] Opening temporary output file... [0.000944s] Computing alignments... [75.6386s] Deallocating reference... [0.069076s] Loading reference sequences... [338.709s] Masking reference... [57.788s] Initializing temporary storage... [0.00392s] Building reference histograms... [13.8764s] Allocating buffers... [0.000329s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.80568s] Building query seed array... [3.50058s] Computing hash join... [4.95153s] Building seed filter... [0.13395s] Searching alignments... [43.8101s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.0342s] Building query seed array... [4.28485s] Computing hash join... [5.0765s] Building seed filter... [0.140698s] Searching alignments... [43.8701s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.1251s] Building query seed array... [4.13823s] Computing hash join... [4.93374s] Building seed filter... [0.141061s] Searching alignments... [43.3075s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.69107s] Building query seed array... [3.49323s] Computing hash join... [4.92401s] Building seed filter... [0.140452s] Searching alignments... [42.3712s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.58574s] Building query seed array... [3.42792s] Computing hash join... [4.69522s] Building seed filter... [0.132909s] Searching alignments... [34.0574s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.3374s] Building query seed array... [3.91601s] Computing hash join... [4.85053s] Building seed filter... [0.140467s] Searching alignments... [34.0255s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.6203s] Building query seed array... [3.71612s] Computing hash join... [4.79404s] Building seed filter... [0.126554s] Searching alignments... [34.0645s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.3142s] Building query seed array... [3.38847s] Computing hash join... [4.72257s] Building seed filter... [0.12299s] Searching alignments... [32.9771s] Deallocating buffers... [0.104023s] Opening temporary output file... [0.001126s] Computing alignments... [76.9047s] Deallocating reference... [0.06945s] Loading reference sequences... [314.424s] Masking reference... [57.9952s] Initializing temporary storage... [0.003969s] Building reference histograms... [12.7523s] Allocating buffers... [0.000312s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.76266s] Building query seed array... [3.6426s] Computing hash join... [5.02821s] Building seed filter... [0.150074s] Searching alignments... [47.561s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [11.9485s] Building query seed array... [4.13734s] Computing hash join... [4.88521s] Building seed filter... [0.137452s] Searching alignments... [46.6701s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.6621s] Building query seed array... [4.16667s] Computing hash join... [4.99063s] Building seed filter... [0.138283s] Searching alignments... [46.7318s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.19504s] Building query seed array... [3.53132s] Computing hash join... [4.95235s] Building seed filter... [0.135974s] Searching alignments... [45.5901s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.19891s] Building query seed array... [3.45165s] Computing hash join... [4.7701s] Building seed filter... [0.129789s] Searching alignments... [36.7154s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.5538s] Building query seed array... [3.86182s] Computing hash join... [4.78156s] Building seed filter... [0.128531s] Searching alignments... [36.0452s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.5014s] Building query seed array... [3.74473s] Computing hash join... [4.70337s] Building seed filter... [0.134181s] Searching alignments... [36.1308s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.72765s] Building query seed array... [3.22993s] Computing hash join... [4.78902s] Building seed filter... [0.125531s] Searching alignments... [35.9715s] Deallocating buffers... [0.105366s] Opening temporary output file... [0.000851s] Computing alignments... [76.7544s] Deallocating reference... [0.067652s] Loading reference sequences... [316.032s] Masking reference... [57.818s] Initializing temporary storage... [0.003944s] Building reference histograms... [12.6457s] Allocating buffers... [0.000327s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.53771s] Building query seed array... [3.64587s] Computing hash join... [4.98518s] Building seed filter... [0.142291s] Searching alignments... [47.0988s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.3293s] Building query seed array... [4.07367s] Computing hash join... [5.0262s] Building seed filter... [0.135345s] Searching alignments... [46.922s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.6504s] Building query seed array... [4.16719s] Computing hash join... [5.01838s] Building seed filter... [0.135325s] Searching alignments... [45.9803s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.56363s] Building query seed array... [3.50966s] Computing hash join... [4.93917s] Building seed filter... [0.133066s] Searching alignments... [45.5866s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.37022s] Building query seed array... [3.42832s] Computing hash join... [4.66512s] Building seed filter... [0.137078s] Searching alignments... [36.1923s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.0228s] Building query seed array... [3.82s] Computing hash join... [4.76081s] Building seed filter... [0.137194s] Searching alignments... [36.797s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.1502s] Building query seed array... [3.6481s] Computing hash join... [4.74805s] Building seed filter... [0.139278s] Searching alignments... [35.8435s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.27776s] Building query seed array... [3.45223s] Computing hash join... [4.88031s] Building seed filter... [0.132221s] Searching alignments... [35.734s] Deallocating buffers... [0.107977s] Opening temporary output file... [0.000549s] Computing alignments... [78.0565s] Deallocating reference... [0.061805s] Loading reference sequences... [138.314s] Masking reference... [21.4821s] Initializing temporary storage... [0.00397s] Building reference histograms... [4.98687s] Allocating buffers... [0.000308s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.57762s] Building query seed array... [3.58484s] Computing hash join... [2.33665s] Building seed filter... [0.097839s] Searching alignments... [19.2491s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.62684s] Building query seed array... [4.07373s] Computing hash join... [2.32647s] Building seed filter... [0.089338s] Searching alignments... [19.187s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.90287s] Building query seed array... [4.0909s] Computing hash join... [2.32232s] Building seed filter... [0.092256s] Searching alignments... [19.057s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.65632s] Building query seed array... [3.41133s] Computing hash join... [2.32377s] Building seed filter... [0.086934s] Searching alignments... [18.8982s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.69924s] Building query seed array... [3.34348s] Computing hash join... [2.19426s] Building seed filter... [0.082716s] Searching alignments... [14.5727s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.6231s] Building query seed array... [3.95043s] Computing hash join... [2.19914s] Building seed filter... [0.080586s] Searching alignments... [14.4987s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.8603s] Building query seed array... [3.87443s] Computing hash join... [2.18776s] Building seed filter... [0.085364s] Searching alignments... [14.5485s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.6101s] Building query seed array... [3.31993s] Computing hash join... [2.20355s] Building seed filter... [0.080788s] Searching alignments... [14.4369s] Deallocating buffers... [0.042516s] Opening temporary output file... [0.002603s] Computing alignments... [75.3141s] Deallocating reference... [0.029186s] Loading reference sequences... [4.9e-05s] Deallocating buffers... [0.014678s] Joining output blocks... [2.33718s] Deallocating queries... [0.074471s] Loading query sequences... [2.6e-05s] Closing the input file... [4.4e-05s] Closing the output file... [0.043704s] Closing the database file... [3.9e-05s] Deallocating taxonomy... [1e-05s] Total time = 5634.89s Reported 1670641 pairwise alignments, 1670893 HSPs. 200996 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 16F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.5s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.6s) Total reads: 200,996 With hits: 200,996 Alignments: 1,670,893 Assig. Taxonomy: 200,996 Assig. EGGNOG: 904 Assig. INTERPRO2GO: 841 MinSupport set to: 100 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 1,127 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 101 Class. EGGNOG: 533 Class. INTERPRO2GO: 447 Total time: 16s Peak memory: 4.9 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/19F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... a90f3859acc382232c3b10c985d78809 /gscratch/srlab/sam/data/C_virginica/BSseq/19F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.049196s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.038859s] Opening the output file... [0.000331s] Loading query sequences... [202.423s] Masking queries... [114.76s] Building query seed set... [0.672251s] Algorithm: Double-indexed Building query histograms... [5.97082s] Allocating buffers... [0.000847s] Loading reference sequences... [45.2489s] Masking reference... [57.4328s] Initializing temporary storage... [0.006012s] Building reference histograms... [12.5472s] Allocating buffers... [0.000339s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.66073s] Building query seed array... [4.35084s] Computing hash join... [5.13953s] Building seed filter... [0.145227s] Searching alignments... [58.7294s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.3426s] Building query seed array... [4.88939s] Computing hash join... [5.001s] Building seed filter... [0.128169s] Searching alignments... [60.0751s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.6866s] Building query seed array... [4.82908s] Computing hash join... [5.05614s] Building seed filter... [0.130665s] Searching alignments... [57.204s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.17703s] Building query seed array... [4.21617s] Computing hash join... [4.97995s] Building seed filter... [0.141381s] Searching alignments... [58.0553s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.29726s] Building query seed array... [4.0349s] Computing hash join... [4.7878s] Building seed filter... [0.130831s] Searching alignments... [45.211s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9624s] Building query seed array... [4.41433s] Computing hash join... [4.85159s] Building seed filter... [0.127535s] Searching alignments... [46.3398s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.3045s] Building query seed array... [4.42011s] Computing hash join... [4.8399s] Building seed filter... [0.129629s] Searching alignments... [45.1877s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.28182s] Building query seed array... [3.87572s] Computing hash join... [4.7675s] Building seed filter... [0.136721s] Searching alignments... [45.2515s] Deallocating buffers... [0.104689s] Opening temporary output file... [0.000486s] Computing alignments... [82.4925s] Deallocating reference... [0.077069s] Loading reference sequences... [44.3155s] Masking reference... [57.5175s] Initializing temporary storage... [0.005268s] Building reference histograms... [12.9678s] Allocating buffers... [0.000827s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.72729s] Building query seed array... [4.25868s] Computing hash join... [5.00365s] Building seed filter... [0.130021s] Searching alignments... [55.4667s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.6926s] Building query seed array... [4.64286s] Computing hash join... [4.92335s] Building seed filter... [0.137933s] Searching alignments... [55.6585s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.4862s] Building query seed array... [4.98251s] Computing hash join... [5.03575s] Building seed filter... [0.139421s] Searching alignments... [51.9233s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.25128s] Building query seed array... [4.07996s] Computing hash join... [5.06172s] Building seed filter... [0.133008s] Searching alignments... [53.3797s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.19732s] Building query seed array... [3.98758s] Computing hash join... [4.74209s] Building seed filter... [0.128098s] Searching alignments... [40.9054s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.9957s] Building query seed array... [4.46379s] Computing hash join... [4.8216s] Building seed filter... [0.122559s] Searching alignments... [42.2293s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.096s] Building query seed array... [4.59436s] Computing hash join... [4.89353s] Building seed filter... [0.122335s] Searching alignments... [42.321s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.51861s] Building query seed array... [3.91126s] Computing hash join... [4.80937s] Building seed filter... [0.124422s] Searching alignments... [41.1136s] Deallocating buffers... [0.104974s] Opening temporary output file... [0.000505s] Computing alignments... [84.0755s] Deallocating reference... [0.077323s] Loading reference sequences... [50.2414s] Masking reference... [58.014s] Initializing temporary storage... [0.004053s] Building reference histograms... [13.1645s] Allocating buffers... [0.000904s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.81386s] Building query seed array... [4.28939s] Computing hash join... [5.02686s] Building seed filter... [0.134084s] Searching alignments... [58.2278s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.8105s] Building query seed array... [4.66348s] Computing hash join... [4.88844s] Building seed filter... [0.143704s] Searching alignments... [56.8208s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.0233s] Building query seed array... [4.54161s] Computing hash join... [4.97607s] Building seed filter... [0.128663s] Searching alignments... [52.8079s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.36203s] Building query seed array... [4.07276s] Computing hash join... [4.99194s] Building seed filter... [0.131357s] Searching alignments... [53.7121s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.57798s] Building query seed array... [4.00755s] Computing hash join... [4.73564s] Building seed filter... [0.119216s] Searching alignments... [42.6009s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.8172s] Building query seed array... [4.43924s] Computing hash join... [4.72006s] Building seed filter... [0.12452s] Searching alignments... [42.7236s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.5699s] Building query seed array... [4.52676s] Computing hash join... [4.77046s] Building seed filter... [0.122789s] Searching alignments... [43.1491s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.13002s] Building query seed array... [3.96577s] Computing hash join... [4.80348s] Building seed filter... [0.131646s] Searching alignments... [42.2823s] Deallocating buffers... [0.111202s] Opening temporary output file... [0.001204s] Computing alignments... [82.3808s] Deallocating reference... [0.072139s] Loading reference sequences... [317.064s] Masking reference... [59.4659s] Initializing temporary storage... [0.003981s] Building reference histograms... [13.2343s] Allocating buffers... [0.000891s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.7639s] Building query seed array... [4.39478s] Computing hash join... [5.03792s] Building seed filter... [0.126465s] Searching alignments... [58.5475s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.4105s] Building query seed array... [4.78153s] Computing hash join... [4.88503s] Building seed filter... [0.133816s] Searching alignments... [59.6977s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [13.1037s] Building query seed array... [4.75553s] Computing hash join... [5.01647s] Building seed filter... [0.137667s] Searching alignments... [56.8577s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.62955s] Building query seed array... [4.28775s] Computing hash join... [4.95785s] Building seed filter... [0.137578s] Searching alignments... [57.898s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.51697s] Building query seed array... [3.90283s] Computing hash join... [4.75219s] Building seed filter... [0.126998s] Searching alignments... [44.445s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.2336s] Building query seed array... [4.35789s] Computing hash join... [4.69438s] Building seed filter... [0.121732s] Searching alignments... [45.598s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.0072s] Building query seed array... [4.44518s] Computing hash join... [4.74673s] Building seed filter... [0.127032s] Searching alignments... [45.3432s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.37577s] Building query seed array... [4.09739s] Computing hash join... [4.81906s] Building seed filter... [0.145569s] Searching alignments... [45.6716s] Deallocating buffers... [0.120417s] Opening temporary output file... [0.000665s] Computing alignments... [84.3539s] Deallocating reference... [0.06715s] Loading reference sequences... [308.161s] Masking reference... [57.4577s] Initializing temporary storage... [0.003805s] Building reference histograms... [13.6824s] Allocating buffers... [0.000912s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.89061s] Building query seed array... [4.23481s] Computing hash join... [5.07559s] Building seed filter... [0.131782s] Searching alignments... [62.0834s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [11.9631s] Building query seed array... [4.65247s] Computing hash join... [4.97704s] Building seed filter... [0.133085s] Searching alignments... [57.8582s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.2069s] Building query seed array... [4.79603s] Computing hash join... [4.91236s] Building seed filter... [0.14116s] Searching alignments... [56.4856s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.07883s] Building query seed array... [4.22692s] Computing hash join... [4.98594s] Building seed filter... [0.131521s] Searching alignments... [56.5787s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.64066s] Building query seed array... [3.98663s] Computing hash join... [4.79351s] Building seed filter... [0.128182s] Searching alignments... [44.3935s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.3922s] Building query seed array... [4.47807s] Computing hash join... [4.87773s] Building seed filter... [0.129012s] Searching alignments... [45.0863s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.0197s] Building query seed array... [4.5643s] Computing hash join... [4.81771s] Building seed filter... [0.124583s] Searching alignments... [44.3168s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.26753s] Building query seed array... [4.01531s] Computing hash join... [4.74432s] Building seed filter... [0.131217s] Searching alignments... [45.0399s] Deallocating buffers... [0.115561s] Opening temporary output file... [0.001131s] Computing alignments... [87.0432s] Deallocating reference... [0.065084s] Loading reference sequences... [136.16s] Masking reference... [21.2328s] Initializing temporary storage... [0.005232s] Building reference histograms... [4.9882s] Allocating buffers... [0.000306s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.70598s] Building query seed array... [4.291s] Computing hash join... [2.45143s] Building seed filter... [0.090275s] Searching alignments... [26.0035s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.78947s] Building query seed array... [4.83896s] Computing hash join... [2.48041s] Building seed filter... [0.085176s] Searching alignments... [24.7849s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.57765s] Building query seed array... [4.73814s] Computing hash join... [2.47051s] Building seed filter... [0.086722s] Searching alignments... [23.212s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.60028s] Building query seed array... [4.11468s] Computing hash join... [2.44945s] Building seed filter... [0.08964s] Searching alignments... [23.877s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.76675s] Building query seed array... [3.96869s] Computing hash join... [2.24901s] Building seed filter... [0.078844s] Searching alignments... [18.3333s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.65109s] Building query seed array... [4.36646s] Computing hash join... [2.225s] Building seed filter... [0.083081s] Searching alignments... [18.7814s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.70549s] Building query seed array... [4.67914s] Computing hash join... [2.30974s] Building seed filter... [0.081092s] Searching alignments... [18.5818s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.68359s] Building query seed array... [4.01791s] Computing hash join... [2.32131s] Building seed filter... [0.093306s] Searching alignments... [17.8995s] Deallocating buffers... [0.042512s] Opening temporary output file... [0.002386s] Computing alignments... [81.0518s] Deallocating reference... [0.027928s] Loading reference sequences... [5e-05s] Deallocating buffers... [0.017394s] Joining output blocks... [2.97871s] Deallocating queries... [0.080269s] Loading query sequences... [2.7e-05s] Closing the input file... [3.9e-05s] Closing the output file... [0.05884s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1e-05s] Total time = 5199.77s Reported 2494294 pairwise alignments, 2494750 HSPs. 294426 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 19F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.7s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (7.9s) Total reads: 294,426 With hits: 294,426 Alignments: 2,494,750 Assig. Taxonomy: 294,426 Assig. EGGNOG: 1,578 Assig. INTERPRO2GO: 1,869 MinSupport set to: 147 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 940 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 91 Class. EGGNOG: 574 Class. INTERPRO2GO: 480 Total time: 19s Peak memory: 4.1 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/19F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 490ef17395ceb01d879c1901a9c37af1 /gscratch/srlab/sam/data/C_virginica/BSseq/19F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000203s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006801s] Opening the output file... [0.000293s] Loading query sequences... [201.467s] Masking queries... [109.467s] Building query seed set... [0.750442s] Algorithm: Double-indexed Building query histograms... [5.63254s] Allocating buffers... [0.000909s] Loading reference sequences... [369.532s] Masking reference... [58.5272s] Initializing temporary storage... [0.293948s] Building reference histograms... [12.9592s] Allocating buffers... [0.000317s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.3703s] Building query seed array... [3.89595s] Computing hash join... [5.11749s] Building seed filter... [0.145915s] Searching alignments... [51.7628s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.6536s] Building query seed array... [4.25973s] Computing hash join... [5.07296s] Building seed filter... [0.138661s] Searching alignments... [51.6856s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.2208s] Building query seed array... [4.49779s] Computing hash join... [5.00135s] Building seed filter... [0.141344s] Searching alignments... [51.0545s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.75653s] Building query seed array... [3.96762s] Computing hash join... [4.99764s] Building seed filter... [0.152793s] Searching alignments... [51.4587s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.50995s] Building query seed array... [3.66423s] Computing hash join... [4.9059s] Building seed filter... [0.144391s] Searching alignments... [39.3664s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.3689s] Building query seed array... [4.18188s] Computing hash join... [4.83713s] Building seed filter... [0.136482s] Searching alignments... [39.7296s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.3118s] Building query seed array... [4.13095s] Computing hash join... [4.88706s] Building seed filter... [0.134926s] Searching alignments... [40.6535s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.56893s] Building query seed array... [3.65585s] Computing hash join... [4.92082s] Building seed filter... [0.152289s] Searching alignments... [39.2032s] Deallocating buffers... [0.105211s] Opening temporary output file... [0.00052s] Computing alignments... [80.4395s] Deallocating reference... [0.080334s] Loading reference sequences... [353.709s] Masking reference... [58.1499s] Initializing temporary storage... [0.004019s] Building reference histograms... [12.6898s] Allocating buffers... [0.000318s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.87173s] Building query seed array... [3.96075s] Computing hash join... [5.22007s] Building seed filter... [0.143608s] Searching alignments... [48.4358s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.3506s] Building query seed array... [4.41262s] Computing hash join... [5.06678s] Building seed filter... [0.136851s] Searching alignments... [47.8987s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.3696s] Building query seed array... [4.51733s] Computing hash join... [4.95948s] Building seed filter... [0.142341s] Searching alignments... [46.8128s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.10654s] Building query seed array... [3.88203s] Computing hash join... [5.06013s] Building seed filter... [0.145988s] Searching alignments... [46.7636s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.43572s] Building query seed array... [3.7772s] Computing hash join... [4.84539s] Building seed filter... [0.137367s] Searching alignments... [36.5767s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.6155s] Building query seed array... [4.07881s] Computing hash join... [4.8748s] Building seed filter... [0.147098s] Searching alignments... [36.4735s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.6357s] Building query seed array... [4.44044s] Computing hash join... [4.81289s] Building seed filter... [0.13713s] Searching alignments... [36.7531s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.06409s] Building query seed array... [3.65806s] Computing hash join... [4.8089s] Building seed filter... [0.139162s] Searching alignments... [35.9987s] Deallocating buffers... [0.106372s] Opening temporary output file... [0.001054s] Computing alignments... [83.8589s] Deallocating reference... [0.071114s] Loading reference sequences... [340.717s] Masking reference... [58.172s] Initializing temporary storage... [0.00402s] Building reference histograms... [13.1458s] Allocating buffers... [0.00031s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.54396s] Building query seed array... [3.96826s] Computing hash join... [5.09787s] Building seed filter... [0.146461s] Searching alignments... [50.4953s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.1076s] Building query seed array... [4.45614s] Computing hash join... [5.00882s] Building seed filter... [0.142847s] Searching alignments... [48.2191s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.3282s] Building query seed array... [4.49845s] Computing hash join... [5.07181s] Building seed filter... [0.141378s] Searching alignments... [47.9531s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.43106s] Building query seed array... [3.85504s] Computing hash join... [5.00363s] Building seed filter... [0.141097s] Searching alignments... [46.8361s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.4036s] Building query seed array... [3.64479s] Computing hash join... [4.80225s] Building seed filter... [0.13888s] Searching alignments... [37.4945s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.2319s] Building query seed array... [4.25188s] Computing hash join... [4.86278s] Building seed filter... [0.142597s] Searching alignments... [36.9475s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.4435s] Building query seed array... [4.21524s] Computing hash join... [4.92824s] Building seed filter... [0.133999s] Searching alignments... [36.9047s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.42675s] Building query seed array... [3.62819s] Computing hash join... [4.96497s] Building seed filter... [0.148207s] Searching alignments... [36.5199s] Deallocating buffers... [0.107355s] Opening temporary output file... [0.001263s] Computing alignments... [81.5981s] Deallocating reference... [0.072669s] Loading reference sequences... [320.566s] Masking reference... [57.4455s] Initializing temporary storage... [0.00919s] Building reference histograms... [12.6374s] Allocating buffers... [0.000307s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.69231s] Building query seed array... [4.03109s] Computing hash join... [5.04688s] Building seed filter... [0.165368s] Searching alignments... [51.959s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.5268s] Building query seed array... [4.26013s] Computing hash join... [5.05526s] Building seed filter... [0.141463s] Searching alignments... [51.6529s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.5168s] Building query seed array... [4.55891s] Computing hash join... [5.06926s] Building seed filter... [0.158619s] Searching alignments... [50.6595s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.34305s] Building query seed array... [3.97614s] Computing hash join... [4.9907s] Building seed filter... [0.144665s] Searching alignments... [50.4014s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.17758s] Building query seed array... [3.68669s] Computing hash join... [4.87552s] Building seed filter... [0.146811s] Searching alignments... [40.4267s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.039s] Building query seed array... [4.05609s] Computing hash join... [4.80112s] Building seed filter... [0.134721s] Searching alignments... [39.163s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.5775s] Building query seed array... [4.27443s] Computing hash join... [4.85351s] Building seed filter... [0.132089s] Searching alignments... [39.1139s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.14323s] Building query seed array... [3.61389s] Computing hash join... [4.83315s] Building seed filter... [0.139262s] Searching alignments... [38.7992s] Deallocating buffers... [0.107513s] Opening temporary output file... [0.001s] Computing alignments... [80.5108s] Deallocating reference... [0.064317s] Loading reference sequences... [300.964s] Masking reference... [57.4514s] Initializing temporary storage... [0.003922s] Building reference histograms... [13.2556s] Allocating buffers... [0.000311s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.55216s] Building query seed array... [3.98848s] Computing hash join... [4.98425s] Building seed filter... [0.148s] Searching alignments... [51.4535s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.201s] Building query seed array... [4.46401s] Computing hash join... [5.03785s] Building seed filter... [0.143911s] Searching alignments... [51.1647s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.8446s] Building query seed array... [4.54042s] Computing hash join... [5.00383s] Building seed filter... [0.164069s] Searching alignments... [51.0438s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.60325s] Building query seed array... [3.91366s] Computing hash join... [5.03618s] Building seed filter... [0.139909s] Searching alignments... [50.178s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.77889s] Building query seed array... [3.776s] Computing hash join... [4.77558s] Building seed filter... [0.134932s] Searching alignments... [39.3803s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.0495s] Building query seed array... [4.01843s] Computing hash join... [4.81433s] Building seed filter... [0.140728s] Searching alignments... [39.5023s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.6477s] Building query seed array... [4.15508s] Computing hash join... [4.91899s] Building seed filter... [0.144685s] Searching alignments... [39.1743s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.4952s] Building query seed array... [3.61144s] Computing hash join... [4.91545s] Building seed filter... [0.147843s] Searching alignments... [39.012s] Deallocating buffers... [0.116163s] Opening temporary output file... [0.000608s] Computing alignments... [83.2022s] Deallocating reference... [0.061049s] Loading reference sequences... [132.535s] Masking reference... [21.2702s] Initializing temporary storage... [0.004597s] Building reference histograms... [5.09786s] Allocating buffers... [0.000246s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.76029s] Building query seed array... [3.97298s] Computing hash join... [2.43461s] Building seed filter... [0.095052s] Searching alignments... [22.8722s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.69739s] Building query seed array... [4.38143s] Computing hash join... [2.45966s] Building seed filter... [0.097982s] Searching alignments... [20.8365s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.80834s] Building query seed array... [4.51471s] Computing hash join... [2.4161s] Building seed filter... [0.096756s] Searching alignments... [20.8815s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.50427s] Building query seed array... [3.71152s] Computing hash join... [2.47058s] Building seed filter... [0.094115s] Searching alignments... [20.6387s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.62716s] Building query seed array... [3.62403s] Computing hash join... [2.25091s] Building seed filter... [0.086981s] Searching alignments... [16.0435s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.64135s] Building query seed array... [4.05377s] Computing hash join... [2.27681s] Building seed filter... [0.091696s] Searching alignments... [15.9857s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.6996s] Building query seed array... [4.11034s] Computing hash join... [2.30579s] Building seed filter... [0.083793s] Searching alignments... [16.0104s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.53292s] Building query seed array... [3.52583s] Computing hash join... [2.29533s] Building seed filter... [0.092849s] Searching alignments... [15.8006s] Deallocating buffers... [0.042949s] Opening temporary output file... [0.00169s] Computing alignments... [81.074s] Deallocating reference... [0.028057s] Loading reference sequences... [4.5e-05s] Deallocating buffers... [0.016808s] Joining output blocks... [2.54935s] Deallocating queries... [0.077367s] Loading query sequences... [2.4e-05s] Closing the input file... [3.9e-05s] Closing the output file... [0.041886s] Closing the database file... [2.5e-05s] Deallocating taxonomy... [1e-05s] Total time = 5814.21s Reported 1775469 pairwise alignments, 1775732 HSPs. 223913 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 19F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.4s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (6.3s) Total reads: 223,913 With hits: 223,913 Alignments: 1,775,732 Assig. Taxonomy: 223,912 Assig. EGGNOG: 1,063 Assig. INTERPRO2GO: 1,174 MinSupport set to: 111 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Min-supp. changes: 839 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 94 Class. EGGNOG: 491 Class. INTERPRO2GO: 431 Total time: 17s Peak memory: 6.7 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/22F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 789b7e03b2914c1c26142c0df1196507 /gscratch/srlab/sam/data/C_virginica/BSseq/22F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.056404s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005653s] Opening the output file... [0.000381s] Loading query sequences... [135.448s] Masking queries... [100.514s] Building query seed set... [0.592153s] Algorithm: Double-indexed Building query histograms... [4.15056s] Allocating buffers... [0.00084s] Loading reference sequences... [43.6806s] Masking reference... [58.959s] Initializing temporary storage... [0.005237s] Building reference histograms... [13.023s] Allocating buffers... [0.00035s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.85018s] Building query seed array... [2.87548s] Computing hash join... [4.77251s] Building seed filter... [0.12928s] Searching alignments... [43.4988s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [11.9157s] Building query seed array... [3.28614s] Computing hash join... [4.7399s] Building seed filter... [0.116628s] Searching alignments... [42.9691s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.318s] Building query seed array... [3.22026s] Computing hash join... [4.72217s] Building seed filter... [0.121984s] Searching alignments... [42.8577s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.34772s] Building query seed array... [2.84636s] Computing hash join... [4.78071s] Building seed filter... [0.120056s] Searching alignments... [43.2177s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [10.0107s] Building query seed array... [2.79916s] Computing hash join... [4.64704s] Building seed filter... [0.113002s] Searching alignments... [33.7068s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.1604s] Building query seed array... [3.11248s] Computing hash join... [4.66108s] Building seed filter... [0.108365s] Searching alignments... [34.2201s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [11.9293s] Building query seed array... [3.04658s] Computing hash join... [4.52984s] Building seed filter... [0.113373s] Searching alignments... [32.7515s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.22786s] Building query seed array... [2.66464s] Computing hash join... [4.5728s] Building seed filter... [0.108312s] Searching alignments... [32.9594s] Deallocating buffers... [0.105335s] Opening temporary output file... [0.000517s] Computing alignments... [54.9183s] Deallocating reference... [0.073994s] Loading reference sequences... [50.3628s] Masking reference... [57.9232s] Initializing temporary storage... [0.00514s] Building reference histograms... [13.419s] Allocating buffers... [0.000334s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.69196s] Building query seed array... [2.93914s] Computing hash join... [4.76055s] Building seed filter... [0.112941s] Searching alignments... [39.8581s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.6284s] Building query seed array... [3.24702s] Computing hash join... [4.76964s] Building seed filter... [0.123298s] Searching alignments... [39.541s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.3565s] Building query seed array... [3.22211s] Computing hash join... [4.67882s] Building seed filter... [0.128296s] Searching alignments... [38.8523s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.43203s] Building query seed array... [2.82392s] Computing hash join... [4.66305s] Building seed filter... [0.112766s] Searching alignments... [39.774s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.34362s] Building query seed array... [2.84896s] Computing hash join... [4.50791s] Building seed filter... [0.11307s] Searching alignments... [30.7802s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.8028s] Building query seed array... [3.14719s] Computing hash join... [4.60775s] Building seed filter... [0.107672s] Searching alignments... [30.8346s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [11.9167s] Building query seed array... [3.13423s] Computing hash join... [4.5153s] Building seed filter... [0.10635s] Searching alignments... [29.8799s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.41078s] Building query seed array... [2.77032s] Computing hash join... [4.48226s] Building seed filter... [0.117329s] Searching alignments... [30.5876s] Deallocating buffers... [0.105175s] Opening temporary output file... [0.000553s] Computing alignments... [54.4357s] Deallocating reference... [0.072774s] Loading reference sequences... [331.792s] Masking reference... [57.8448s] Initializing temporary storage... [0.004032s] Building reference histograms... [12.7465s] Allocating buffers... [0.000316s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.43967s] Building query seed array... [2.78849s] Computing hash join... [4.76684s] Building seed filter... [0.108101s] Searching alignments... [42.3275s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.5259s] Building query seed array... [3.21933s] Computing hash join... [4.67605s] Building seed filter... [0.109942s] Searching alignments... [40.4103s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.5091s] Building query seed array... [3.24128s] Computing hash join... [4.70554s] Building seed filter... [0.115246s] Searching alignments... [39.3397s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.34917s] Building query seed array... [2.79646s] Computing hash join... [4.67504s] Building seed filter... [0.113093s] Searching alignments... [40.5297s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.47257s] Building query seed array... [2.80178s] Computing hash join... [4.60181s] Building seed filter... [0.112453s] Searching alignments... [31.8155s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.0647s] Building query seed array... [3.1008s] Computing hash join... [4.58288s] Building seed filter... [0.123954s] Searching alignments... [31.6546s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.3108s] Building query seed array... [3.21489s] Computing hash join... [4.52768s] Building seed filter... [0.10881s] Searching alignments... [30.3595s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.22436s] Building query seed array... [2.77672s] Computing hash join... [4.55082s] Building seed filter... [0.111173s] Searching alignments... [31.0037s] Deallocating buffers... [0.120874s] Opening temporary output file... [0.000517s] Computing alignments... [53.8545s] Deallocating reference... [0.07084s] Loading reference sequences... [312.209s] Masking reference... [58.3488s] Initializing temporary storage... [0.004057s] Building reference histograms... [13.5621s] Allocating buffers... [0.000338s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.86388s] Building query seed array... [2.96335s] Computing hash join... [4.69509s] Building seed filter... [0.112498s] Searching alignments... [44.0987s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [13.0942s] Building query seed array... [3.22675s] Computing hash join... [4.61565s] Building seed filter... [0.107826s] Searching alignments... [44.1736s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.3846s] Building query seed array... [3.17234s] Computing hash join... [4.72534s] Building seed filter... [0.121851s] Searching alignments... [42.3298s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.44031s] Building query seed array... [2.82065s] Computing hash join... [4.6613s] Building seed filter... [0.112182s] Searching alignments... [43.2841s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.50577s] Building query seed array... [2.77729s] Computing hash join... [4.50011s] Building seed filter... [0.10717s] Searching alignments... [33.5846s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.1803s] Building query seed array... [3.12211s] Computing hash join... [4.59012s] Building seed filter... [0.106571s] Searching alignments... [33.9945s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.3356s] Building query seed array... [3.04747s] Computing hash join... [4.52377s] Building seed filter... [0.11258s] Searching alignments... [33.178s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.44989s] Building query seed array... [2.71614s] Computing hash join... [4.4947s] Building seed filter... [0.120354s] Searching alignments... [30.4785s] Deallocating buffers... [0.106402s] Opening temporary output file... [0.000537s] Computing alignments... [52.6048s] Deallocating reference... [0.064216s] Loading reference sequences... [294.782s] Masking reference... [57.7704s] Initializing temporary storage... [0.004021s] Building reference histograms... [13.4605s] Allocating buffers... [0.000347s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.9013s] Building query seed array... [2.9448s] Computing hash join... [4.8009s] Building seed filter... [0.122773s] Searching alignments... [45.4212s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.1579s] Building query seed array... [3.28091s] Computing hash join... [4.66879s] Building seed filter... [0.117735s] Searching alignments... [43.1925s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.6422s] Building query seed array... [3.35027s] Computing hash join... [4.74569s] Building seed filter... [0.131216s] Searching alignments... [42.1645s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.34316s] Building query seed array... [2.8576s] Computing hash join... [4.64988s] Building seed filter... [0.133645s] Searching alignments... [42.248s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.75141s] Building query seed array... [2.82915s] Computing hash join... [4.59619s] Building seed filter... [0.119208s] Searching alignments... [33.0201s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.4841s] Building query seed array... [3.1718s] Computing hash join... [4.56803s] Building seed filter... [0.109859s] Searching alignments... [33.7538s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.7206s] Building query seed array... [3.1527s] Computing hash join... [4.6407s] Building seed filter... [0.11342s] Searching alignments... [33.7211s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [10.0136s] Building query seed array... [2.75936s] Computing hash join... [4.57639s] Building seed filter... [0.109393s] Searching alignments... [31.862s] Deallocating buffers... [0.111284s] Opening temporary output file... [0.000543s] Computing alignments... [54.537s] Deallocating reference... [0.062894s] Loading reference sequences... [130.813s] Masking reference... [21.234s] Initializing temporary storage... [0.003987s] Building reference histograms... [5.21374s] Allocating buffers... [0.000334s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.66279s] Building query seed array... [2.92094s] Computing hash join... [2.17745s] Building seed filter... [0.080101s] Searching alignments... [18.7567s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.48775s] Building query seed array... [3.10461s] Computing hash join... [2.14692s] Building seed filter... [0.077106s] Searching alignments... [17.2542s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.57085s] Building query seed array... [3.26304s] Computing hash join... [2.16089s] Building seed filter... [0.079779s] Searching alignments... [17.1273s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.75418s] Building query seed array... [2.77454s] Computing hash join... [2.13705s] Building seed filter... [0.079827s] Searching alignments... [17.7462s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.70439s] Building query seed array... [2.73489s] Computing hash join... [2.03477s] Building seed filter... [0.070107s] Searching alignments... [13.4668s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.63463s] Building query seed array... [3.10574s] Computing hash join... [2.02154s] Building seed filter... [0.068254s] Searching alignments... [13.6142s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.63691s] Building query seed array... [3.11609s] Computing hash join... [2.04201s] Building seed filter... [0.075333s] Searching alignments... [13.1455s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.57839s] Building query seed array... [2.67768s] Computing hash join... [2.01543s] Building seed filter... [0.072077s] Searching alignments... [12.1837s] Deallocating buffers... [0.039738s] Opening temporary output file... [0.002271s] Computing alignments... [53.2145s] Deallocating reference... [0.028037s] Loading reference sequences... [6.2e-05s] Deallocating buffers... [0.012994s] Joining output blocks... [2.57749s] Deallocating queries... [0.056296s] Loading query sequences... [2.5e-05s] Closing the input file... [3.9e-05s] Closing the output file... [0.051676s] Closing the database file... [2.6e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 4544.18s Reported 1966873 pairwise alignments, 1967253 HSPs. 256442 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 22F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.6s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (6.2s) Total reads: 256,442 With hits: 256,442 Alignments: 1,967,253 Assig. Taxonomy: 256,442 Assig. EGGNOG: 1,459 Assig. INTERPRO2GO: 1,598 MinSupport set to: 128 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Min-supp. changes: 1,253 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.7s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 106 Class. EGGNOG: 635 Class. INTERPRO2GO: 543 Total time: 17s Peak memory: 4.4 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/22F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 6c4583062100816c26e593f3fa6d6eda /gscratch/srlab/sam/data/C_virginica/BSseq/22F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000184s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.00627s] Opening the output file... [0.000278s] Loading query sequences... [139.402s] Masking queries... [71.4778s] Building query seed set... [0.460296s] Algorithm: Double-indexed Building query histograms... [4.05802s] Allocating buffers... [0.000835s] Loading reference sequences... [358.05s] Masking reference... [58.1824s] Initializing temporary storage... [0.004892s] Building reference histograms... [12.8549s] Allocating buffers... [0.00032s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.62786s] Building query seed array... [2.87734s] Computing hash join... [4.88116s] Building seed filter... [0.132259s] Searching alignments... [39.7075s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.0134s] Building query seed array... [3.24397s] Computing hash join... [4.74824s] Building seed filter... [0.134176s] Searching alignments... [38.5923s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.3441s] Building query seed array... [3.20505s] Computing hash join... [4.74324s] Building seed filter... [0.138949s] Searching alignments... [38.4159s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.24987s] Building query seed array... [2.79137s] Computing hash join... [4.77912s] Building seed filter... [0.125874s] Searching alignments... [37.729s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [10.1619s] Building query seed array... [2.55863s] Computing hash join... [4.63792s] Building seed filter... [0.122121s] Searching alignments... [30.3555s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9352s] Building query seed array... [2.88416s] Computing hash join... [4.66036s] Building seed filter... [0.12302s] Searching alignments... [29.9026s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.6308s] Building query seed array... [2.98878s] Computing hash join... [4.64082s] Building seed filter... [0.1188s] Searching alignments... [30.7745s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.46739s] Building query seed array... [2.59841s] Computing hash join... [4.59253s] Building seed filter... [0.124202s] Searching alignments... [29.8464s] Deallocating buffers... [0.107134s] Opening temporary output file... [0.001004s] Computing alignments... [53.1952s] Deallocating reference... [0.075404s] Loading reference sequences... [342.455s] Masking reference... [57.5455s] Initializing temporary storage... [0.00417s] Building reference histograms... [12.6685s] Allocating buffers... [0.000308s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.61813s] Building query seed array... [2.83343s] Computing hash join... [4.74948s] Building seed filter... [0.133878s] Searching alignments... [35.9877s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.215s] Building query seed array... [3.22112s] Computing hash join... [4.68059s] Building seed filter... [0.130193s] Searching alignments... [36.0234s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.3846s] Building query seed array... [3.24172s] Computing hash join... [4.70916s] Building seed filter... [0.122583s] Searching alignments... [35.3708s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.50942s] Building query seed array... [2.80293s] Computing hash join... [4.68672s] Building seed filter... [0.124616s] Searching alignments... [34.8593s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.54589s] Building query seed array... [2.53357s] Computing hash join... [4.65414s] Building seed filter... [0.126644s] Searching alignments... [28.2093s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.2221s] Building query seed array... [2.90799s] Computing hash join... [4.70877s] Building seed filter... [0.122483s] Searching alignments... [27.9938s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [11.9125s] Building query seed array... [2.92939s] Computing hash join... [4.59025s] Building seed filter... [0.11814s] Searching alignments... [28.0579s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.29085s] Building query seed array... [2.52009s] Computing hash join... [4.64043s] Building seed filter... [0.13341s] Searching alignments... [27.8822s] Deallocating buffers... [0.115781s] Opening temporary output file... [0.001045s] Computing alignments... [54.249s] Deallocating reference... [0.069236s] Loading reference sequences... [339.846s] Masking reference... [57.5078s] Initializing temporary storage... [0.003938s] Building reference histograms... [12.6395s] Allocating buffers... [0.000318s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.75387s] Building query seed array... [2.82078s] Computing hash join... [4.78022s] Building seed filter... [0.12258s] Searching alignments... [36.9799s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.5027s] Building query seed array... [3.13433s] Computing hash join... [4.78192s] Building seed filter... [0.119304s] Searching alignments... [36.4716s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.0683s] Building query seed array... [3.10139s] Computing hash join... [4.75553s] Building seed filter... [0.128977s] Searching alignments... [36.2557s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.34354s] Building query seed array... [2.74486s] Computing hash join... [4.74557s] Building seed filter... [0.127238s] Searching alignments... [35.3762s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.37589s] Building query seed array... [2.64768s] Computing hash join... [4.59286s] Building seed filter... [0.124004s] Searching alignments... [28.1731s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.093s] Building query seed array... [2.88892s] Computing hash join... [4.62372s] Building seed filter... [0.118335s] Searching alignments... [28.4608s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.3486s] Building query seed array... [2.93031s] Computing hash join... [4.67993s] Building seed filter... [0.118879s] Searching alignments... [28.0261s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.12156s] Building query seed array... [2.48799s] Computing hash join... [4.60859s] Building seed filter... [0.119659s] Searching alignments... [28.0372s] Deallocating buffers... [0.108743s] Opening temporary output file... [0.000496s] Computing alignments... [52.9445s] Deallocating reference... [0.069313s] Loading reference sequences... [349.392s] Masking reference... [58.3494s] Initializing temporary storage... [0.004767s] Building reference histograms... [13.4581s] Allocating buffers... [0.000139s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.54643s] Building query seed array... [2.82503s] Computing hash join... [4.69435s] Building seed filter... [0.123489s] Searching alignments... [39.2185s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.8894s] Building query seed array... [3.1336s] Computing hash join... [4.81467s] Building seed filter... [0.126754s] Searching alignments... [38.8016s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.2553s] Building query seed array... [3.17564s] Computing hash join... [4.84313s] Building seed filter... [0.131349s] Searching alignments... [38.1086s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.59377s] Building query seed array... [2.72904s] Computing hash join... [4.70353s] Building seed filter... [0.129917s] Searching alignments... [37.8157s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.24794s] Building query seed array... [2.51785s] Computing hash join... [4.60713s] Building seed filter... [0.124261s] Searching alignments... [30.2601s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.1309s] Building query seed array... [2.97526s] Computing hash join... [4.63004s] Building seed filter... [0.118886s] Searching alignments... [30.4094s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.6572s] Building query seed array... [2.83563s] Computing hash join... [4.67583s] Building seed filter... [0.124035s] Searching alignments... [30.2397s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.60371s] Building query seed array... [2.57789s] Computing hash join... [4.54893s] Building seed filter... [0.123297s] Searching alignments... [30.0897s] Deallocating buffers... [0.109943s] Opening temporary output file... [0.001056s] Computing alignments... [52.8119s] Deallocating reference... [0.064597s] Loading reference sequences... [313.789s] Masking reference... [58.6152s] Initializing temporary storage... [0.004144s] Building reference histograms... [13.0339s] Allocating buffers... [0.000336s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.88011s] Building query seed array... [2.74095s] Computing hash join... [4.81761s] Building seed filter... [0.12459s] Searching alignments... [38.8895s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.1726s] Building query seed array... [3.13032s] Computing hash join... [4.73432s] Building seed filter... [0.131789s] Searching alignments... [38.9892s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.2462s] Building query seed array... [3.23229s] Computing hash join... [4.83427s] Building seed filter... [0.126211s] Searching alignments... [39.1764s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.52391s] Building query seed array... [2.78561s] Computing hash join... [4.77497s] Building seed filter... [0.131153s] Searching alignments... [38.3327s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.1168s] Building query seed array... [2.59445s] Computing hash join... [4.61606s] Building seed filter... [0.121285s] Searching alignments... [30.2217s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.0324s] Building query seed array... [2.86704s] Computing hash join... [4.54663s] Building seed filter... [0.124567s] Searching alignments... [29.8215s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.6597s] Building query seed array... [2.96866s] Computing hash join... [4.62801s] Building seed filter... [0.120321s] Searching alignments... [29.7483s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.541s] Building query seed array... [2.55564s] Computing hash join... [4.63799s] Building seed filter... [0.121742s] Searching alignments... [29.8348s] Deallocating buffers... [0.107235s] Opening temporary output file... [0.00066s] Computing alignments... [54.4303s] Deallocating reference... [0.062551s] Loading reference sequences... [136.928s] Masking reference... [21.364s] Initializing temporary storage... [0.003913s] Building reference histograms... [4.93879s] Allocating buffers... [0.000332s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.57219s] Building query seed array... [2.696s] Computing hash join... [2.19627s] Building seed filter... [0.078008s] Searching alignments... [16.51s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.66172s] Building query seed array... [3.11886s] Computing hash join... [2.12434s] Building seed filter... [0.079051s] Searching alignments... [16.0739s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.77946s] Building query seed array... [3.20758s] Computing hash join... [2.19602s] Building seed filter... [0.076093s] Searching alignments... [15.6249s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.67443s] Building query seed array... [2.70491s] Computing hash join... [2.14215s] Building seed filter... [0.07836s] Searching alignments... [15.6917s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.69665s] Building query seed array... [2.53346s] Computing hash join... [2.0104s] Building seed filter... [0.074462s] Searching alignments... [12.3092s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.68744s] Building query seed array... [2.93289s] Computing hash join... [2.07844s] Building seed filter... [0.074364s] Searching alignments... [12.2138s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.72646s] Building query seed array... [2.97877s] Computing hash join... [2.06278s] Building seed filter... [0.07252s] Searching alignments... [12.1336s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.50255s] Building query seed array... [2.5436s] Computing hash join... [2.01936s] Building seed filter... [0.078757s] Searching alignments... [12.0994s] Deallocating buffers... [0.042144s] Opening temporary output file... [0.000949s] Computing alignments... [52.2326s] Deallocating reference... [0.027762s] Loading reference sequences... [6.5e-05s] Deallocating buffers... [0.011855s] Joining output blocks... [2.04856s] Deallocating queries... [0.055343s] Loading query sequences... [2.4e-05s] Closing the input file... [4.4e-05s] Closing the output file... [0.041091s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1e-05s] Total time = 5027.39s Reported 1432081 pairwise alignments, 1432293 HSPs. 188368 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 22F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.5s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.0s) Total reads: 188,368 With hits: 188,368 Alignments: 1,432,293 Assig. Taxonomy: 188,367 Assig. EGGNOG: 1,088 Assig. INTERPRO2GO: 1,016 MinSupport set to: 94 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 1,158 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 107 Class. EGGNOG: 572 Class. INTERPRO2GO: 421 Total time: 15s Peak memory: 4 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/23M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 932e23af5a935a60a266814163d399d4 /gscratch/srlab/sam/data/C_virginica/BSseq/23M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.041054s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.00543s] Opening the output file... [0.000341s] Loading query sequences... [193.828s] Masking queries... [100.98s] Building query seed set... [0.690816s] Algorithm: Double-indexed Building query histograms... [5.89508s] Allocating buffers... [0.000841s] Loading reference sequences... [43.9525s] Masking reference... [57.3529s] Initializing temporary storage... [0.005377s] Building reference histograms... [13.3129s] Allocating buffers... [0.000322s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.47496s] Building query seed array... [4.23208s] Computing hash join... [5.09856s] Building seed filter... [0.125217s] Searching alignments... [59.1957s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.1058s] Building query seed array... [4.83681s] Computing hash join... [5.00519s] Building seed filter... [0.138846s] Searching alignments... [59.3305s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.4351s] Building query seed array... [4.74443s] Computing hash join... [5.00014s] Building seed filter... [0.152485s] Searching alignments... [58.1858s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.22203s] Building query seed array... [4.06084s] Computing hash join... [4.99544s] Building seed filter... [0.138713s] Searching alignments... [57.2312s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.48754s] Building query seed array... [3.66558s] Computing hash join... [4.83733s] Building seed filter... [0.123557s] Searching alignments... [43.5901s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9477s] Building query seed array... [4.35759s] Computing hash join... [4.82994s] Building seed filter... [0.132806s] Searching alignments... [45.9364s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.5744s] Building query seed array... [4.41569s] Computing hash join... [4.88572s] Building seed filter... [0.121842s] Searching alignments... [45.9282s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.15802s] Building query seed array... [3.91469s] Computing hash join... [4.77424s] Building seed filter... [0.158631s] Searching alignments... [44.9478s] Deallocating buffers... [0.117728s] Opening temporary output file... [0.000483s] Computing alignments... [78.8667s] Deallocating reference... [0.075202s] Loading reference sequences... [346.684s] Masking reference... [58.0919s] Initializing temporary storage... [0.004058s] Building reference histograms... [12.5486s] Allocating buffers... [0.000331s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.72606s] Building query seed array... [4.26504s] Computing hash join... [4.9942s] Building seed filter... [0.122525s] Searching alignments... [54.2462s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [11.9239s] Building query seed array... [4.6973s] Computing hash join... [4.95128s] Building seed filter... [0.123604s] Searching alignments... [54.6868s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.0803s] Building query seed array... [4.77929s] Computing hash join... [4.93252s] Building seed filter... [0.122322s] Searching alignments... [53.0425s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.44013s] Building query seed array... [4.15579s] Computing hash join... [5.01751s] Building seed filter... [0.126901s] Searching alignments... [52.6755s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.76661s] Building query seed array... [3.84904s] Computing hash join... [4.77343s] Building seed filter... [0.11812s] Searching alignments... [40.4758s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.9621s] Building query seed array... [4.25854s] Computing hash join... [4.71308s] Building seed filter... [0.119803s] Searching alignments... [43.4004s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.735s] Building query seed array... [4.45234s] Computing hash join... [4.8205s] Building seed filter... [0.122756s] Searching alignments... [42.038s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.10964s] Building query seed array... [3.84926s] Computing hash join... [4.71551s] Building seed filter... [0.130761s] Searching alignments... [41.7152s] Deallocating buffers... [0.121982s] Opening temporary output file... [0.001081s] Computing alignments... [78.762s] Deallocating reference... [0.070072s] Loading reference sequences... [352.598s] Masking reference... [59.2349s] Initializing temporary storage... [0.004015s] Building reference histograms... [12.9118s] Allocating buffers... [0.000315s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.78032s] Building query seed array... [4.2227s] Computing hash join... [5.03369s] Building seed filter... [0.127714s] Searching alignments... [55.4388s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.1753s] Building query seed array... [4.73739s] Computing hash join... [4.89361s] Building seed filter... [0.129406s] Searching alignments... [55.1888s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.7924s] Building query seed array... [4.77033s] Computing hash join... [4.95012s] Building seed filter... [0.123794s] Searching alignments... [54.263s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.57967s] Building query seed array... [4.17615s] Computing hash join... [4.98785s] Building seed filter... [0.123429s] Searching alignments... [53.6486s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.41683s] Building query seed array... [3.9403s] Computing hash join... [4.72671s] Building seed filter... [0.126275s] Searching alignments... [40.6971s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.9697s] Building query seed array... [4.34899s] Computing hash join... [4.79306s] Building seed filter... [0.115388s] Searching alignments... [42.8419s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.4929s] Building query seed array... [4.46142s] Computing hash join... [4.77145s] Building seed filter... [0.119379s] Searching alignments... [43.3604s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.51787s] Building query seed array... [3.7812s] Computing hash join... [4.87541s] Building seed filter... [0.116271s] Searching alignments... [39.3519s] Deallocating buffers... [0.114213s] Opening temporary output file... [0.000542s] Computing alignments... [79.2196s] Deallocating reference... [0.069842s] Loading reference sequences... [319.072s] Masking reference... [57.5768s] Initializing temporary storage... [0.003985s] Building reference histograms... [13.086s] Allocating buffers... [0.00031s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.70163s] Building query seed array... [4.11449s] Computing hash join... [4.95199s] Building seed filter... [0.131605s] Searching alignments... [59.0068s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.2106s] Building query seed array... [4.75498s] Computing hash join... [4.94983s] Building seed filter... [0.128024s] Searching alignments... [59.7593s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.2205s] Building query seed array... [4.75032s] Computing hash join... [4.98387s] Building seed filter... [0.13144s] Searching alignments... [57.7639s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.06692s] Building query seed array... [4.22418s] Computing hash join... [4.99926s] Building seed filter... [0.136806s] Searching alignments... [57.5112s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.13902s] Building query seed array... [3.91591s] Computing hash join... [4.87569s] Building seed filter... [0.129286s] Searching alignments... [44.4905s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.3759s] Building query seed array... [4.37975s] Computing hash join... [4.79378s] Building seed filter... [0.128574s] Searching alignments... [46.8165s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.0888s] Building query seed array... [4.35184s] Computing hash join... [4.78608s] Building seed filter... [0.135558s] Searching alignments... [45.9343s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.71631s] Building query seed array... [3.85971s] Computing hash join... [4.83077s] Building seed filter... [0.134779s] Searching alignments... [42.4184s] Deallocating buffers... [0.108951s] Opening temporary output file... [0.643013s] Computing alignments... [78.2882s] Deallocating reference... [0.066462s] Loading reference sequences... [314.679s] Masking reference... [58.3111s] Initializing temporary storage... [0.004106s] Building reference histograms... [13.3142s] Allocating buffers... [0.000311s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.52042s] Building query seed array... [4.25919s] Computing hash join... [4.95866s] Building seed filter... [0.129327s] Searching alignments... [59.1163s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.1485s] Building query seed array... [4.74148s] Computing hash join... [4.96518s] Building seed filter... [0.134404s] Searching alignments... [59.096s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.7218s] Building query seed array... [4.64781s] Computing hash join... [4.95242s] Building seed filter... [0.128095s] Searching alignments... [57.3243s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.05602s] Building query seed array... [4.15974s] Computing hash join... [4.96104s] Building seed filter... [0.136135s] Searching alignments... [56.3195s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.28722s] Building query seed array... [3.95945s] Computing hash join... [4.79047s] Building seed filter... [0.121517s] Searching alignments... [43.8257s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.0751s] Building query seed array... [4.38963s] Computing hash join... [4.83506s] Building seed filter... [0.123188s] Searching alignments... [45.2602s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.3134s] Building query seed array... [4.49993s] Computing hash join... [4.79568s] Building seed filter... [0.13164s] Searching alignments... [45.4373s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.61403s] Building query seed array... [3.74478s] Computing hash join... [4.83883s] Building seed filter... [0.128785s] Searching alignments... [44.4905s] Deallocating buffers... [0.122353s] Opening temporary output file... [0.001068s] Computing alignments... [81.3659s] Deallocating reference... [0.063702s] Loading reference sequences... [135.024s] Masking reference... [21.4964s] Initializing temporary storage... [0.003976s] Building reference histograms... [4.87749s] Allocating buffers... [0.000322s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.65992s] Building query seed array... [4.33478s] Computing hash join... [2.45871s] Building seed filter... [0.089897s] Searching alignments... [24.2133s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.61746s] Building query seed array... [4.73539s] Computing hash join... [2.48471s] Building seed filter... [0.086507s] Searching alignments... [24.0195s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.93511s] Building query seed array... [4.75208s] Computing hash join... [2.41195s] Building seed filter... [0.087948s] Searching alignments... [23.1688s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.71735s] Building query seed array... [4.20161s] Computing hash join... [2.47618s] Building seed filter... [0.096314s] Searching alignments... [23.2849s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.55229s] Building query seed array... [3.8888s] Computing hash join... [2.25839s] Building seed filter... [0.086829s] Searching alignments... [17.7263s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.59769s] Building query seed array... [4.30249s] Computing hash join... [2.31251s] Building seed filter... [0.085801s] Searching alignments... [18.3158s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.58918s] Building query seed array... [4.54345s] Computing hash join... [2.28959s] Building seed filter... [0.083698s] Searching alignments... [18.2768s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.66726s] Building query seed array... [3.8588s] Computing hash join... [2.32454s] Building seed filter... [0.079611s] Searching alignments... [18.0277s] Deallocating buffers... [0.042779s] Opening temporary output file... [0.000985s] Computing alignments... [78.5828s] Deallocating reference... [0.027931s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.017759s] Joining output blocks... [3.27857s] Deallocating queries... [0.076212s] Loading query sequences... [2.5e-05s] Closing the input file... [5.7e-05s] Closing the output file... [0.060878s] Closing the database file... [2.6e-05s] Deallocating taxonomy... [9e-06s] Total time = 5743.89s Reported 2442162 pairwise alignments, 2442977 HSPs. 317052 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 23M_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.9s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (7.8s) Total reads: 317,052 With hits: 317,052 Alignments: 2,442,977 Assig. Taxonomy: 317,052 Assig. EGGNOG: 1,553 Assig. INTERPRO2GO: 1,599 MinSupport set to: 158 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Min-supp. changes: 957 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 86 Class. EGGNOG: 566 Class. INTERPRO2GO: 454 Total time: 20s Peak memory: 6.1 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/23M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... d249fe982371f43430088bde99a29c89 /gscratch/srlab/sam/data/C_virginica/BSseq/23M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000194s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.007716s] Opening the output file... [0.000295s] Loading query sequences... [195.736s] Masking queries... [99.3475s] Building query seed set... [0.671868s] Algorithm: Double-indexed Building query histograms... [5.74106s] Allocating buffers... [0.000914s] Loading reference sequences... [375.243s] Masking reference... [57.7622s] Initializing temporary storage... [0.005417s] Building reference histograms... [13.4118s] Allocating buffers... [0.000334s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [10.0902s] Building query seed array... [3.99468s] Computing hash join... [5.17154s] Building seed filter... [0.137221s] Searching alignments... [52.9597s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.0488s] Building query seed array... [4.56518s] Computing hash join... [5.05762s] Building seed filter... [0.133367s] Searching alignments... [52.9288s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.6435s] Building query seed array... [4.46162s] Computing hash join... [5.08038s] Building seed filter... [0.14022s] Searching alignments... [52.8846s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.85286s] Building query seed array... [3.85602s] Computing hash join... [5.01099s] Building seed filter... [0.14522s] Searching alignments... [51.3124s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.39974s] Building query seed array... [3.54789s] Computing hash join... [4.91707s] Building seed filter... [0.131122s] Searching alignments... [41.3761s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9342s] Building query seed array... [4.07193s] Computing hash join... [4.82789s] Building seed filter... [0.138382s] Searching alignments... [40.7226s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.4102s] Building query seed array... [4.24232s] Computing hash join... [4.76798s] Building seed filter... [0.130644s] Searching alignments... [40.5939s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.31561s] Building query seed array... [3.58128s] Computing hash join... [4.78882s] Building seed filter... [0.132689s] Searching alignments... [40.1963s] Deallocating buffers... [0.120471s] Opening temporary output file... [0.001018s] Computing alignments... [76.9911s] Deallocating reference... [0.08016s] Loading reference sequences... [347.402s] Masking reference... [57.731s] Initializing temporary storage... [0.003972s] Building reference histograms... [13.2865s] Allocating buffers... [0.000341s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.58184s] Building query seed array... [4.01238s] Computing hash join... [5.08986s] Building seed filter... [0.135087s] Searching alignments... [49.4094s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [11.8693s] Building query seed array... [4.34872s] Computing hash join... [5.09242s] Building seed filter... [0.136549s] Searching alignments... [48.3926s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.458s] Building query seed array... [4.50447s] Computing hash join... [4.99422s] Building seed filter... [0.149417s] Searching alignments... [48.7228s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.55463s] Building query seed array... [3.78729s] Computing hash join... [5.07874s] Building seed filter... [0.149191s] Searching alignments... [47.4172s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.58352s] Building query seed array... [3.59094s] Computing hash join... [4.82122s] Building seed filter... [0.143332s] Searching alignments... [37.6354s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.7308s] Building query seed array... [4.11611s] Computing hash join... [4.84919s] Building seed filter... [0.125431s] Searching alignments... [37.841s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.3035s] Building query seed array... [3.93071s] Computing hash join... [4.87108s] Building seed filter... [0.143573s] Searching alignments... [37.2739s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.4239s] Building query seed array... [3.60396s] Computing hash join... [4.89656s] Building seed filter... [0.132299s] Searching alignments... [38.0641s] Deallocating buffers... [0.115483s] Opening temporary output file... [0.001184s] Computing alignments... [78.4996s] Deallocating reference... [0.069694s] Loading reference sequences... [348.757s] Masking reference... [57.5952s] Initializing temporary storage... [0.004061s] Building reference histograms... [12.9803s] Allocating buffers... [0.00026s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [10.118s] Building query seed array... [4.15037s] Computing hash join... [5.07118s] Building seed filter... [0.136998s] Searching alignments... [49.7009s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.8897s] Building query seed array... [4.38202s] Computing hash join... [5.02343s] Building seed filter... [0.133214s] Searching alignments... [50.2707s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.1626s] Building query seed array... [4.53789s] Computing hash join... [4.99768s] Building seed filter... [0.150954s] Searching alignments... [48.6989s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.76555s] Building query seed array... [3.99374s] Computing hash join... [4.94704s] Building seed filter... [0.152958s] Searching alignments... [48.0578s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.54609s] Building query seed array... [3.64512s] Computing hash join... [4.81003s] Building seed filter... [0.13433s] Searching alignments... [37.9623s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.1293s] Building query seed array... [4.14121s] Computing hash join... [4.74679s] Building seed filter... [0.127476s] Searching alignments... [38.2182s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.2259s] Building query seed array... [4.16345s] Computing hash join... [4.7934s] Building seed filter... [0.134693s] Searching alignments... [38.604s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.16703s] Building query seed array... [3.55208s] Computing hash join... [4.81509s] Building seed filter... [0.153557s] Searching alignments... [37.8617s] Deallocating buffers... [0.108424s] Opening temporary output file... [0.001046s] Computing alignments... [79.1568s] Deallocating reference... [0.069074s] Loading reference sequences... [329.451s] Masking reference... [57.5368s] Initializing temporary storage... [0.004056s] Building reference histograms... [13.1905s] Allocating buffers... [0.000355s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.82147s] Building query seed array... [3.99694s] Computing hash join... [5.10399s] Building seed filter... [0.151873s] Searching alignments... [53.0124s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.1965s] Building query seed array... [4.2537s] Computing hash join... [4.94518s] Building seed filter... [0.137602s] Searching alignments... [52.5836s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.2315s] Building query seed array... [4.33154s] Computing hash join... [4.98369s] Building seed filter... [0.147754s] Searching alignments... [52.129s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.48604s] Building query seed array... [3.65284s] Computing hash join... [5.08538s] Building seed filter... [0.156701s] Searching alignments... [51.4782s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.73536s] Building query seed array... [3.57926s] Computing hash join... [4.88061s] Building seed filter... [0.142796s] Searching alignments... [41.1943s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.2864s] Building query seed array... [4.16569s] Computing hash join... [4.81578s] Building seed filter... [0.131298s] Searching alignments... [40.9184s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.6257s] Building query seed array... [4.12631s] Computing hash join... [4.9406s] Building seed filter... [0.139032s] Searching alignments... [40.5304s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.43586s] Building query seed array... [3.56898s] Computing hash join... [4.89936s] Building seed filter... [0.150462s] Searching alignments... [40.7364s] Deallocating buffers... [0.108468s] Opening temporary output file... [0.001006s] Computing alignments... [78.1325s] Deallocating reference... [0.063647s] Loading reference sequences... [307.407s] Masking reference... [58.0256s] Initializing temporary storage... [0.00513s] Building reference histograms... [13.358s] Allocating buffers... [0.000324s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [10.1169s] Building query seed array... [4.04563s] Computing hash join... [5.0479s] Building seed filter... [0.133123s] Searching alignments... [53.656s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.1576s] Building query seed array... [4.40812s] Computing hash join... [4.98635s] Building seed filter... [0.146737s] Searching alignments... [52.6917s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.3154s] Building query seed array... [4.50436s] Computing hash join... [5.11613s] Building seed filter... [0.147685s] Searching alignments... [52.4986s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.47449s] Building query seed array... [3.89671s] Computing hash join... [4.97947s] Building seed filter... [0.140644s] Searching alignments... [51.3709s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.35828s] Building query seed array... [3.58675s] Computing hash join... [4.85399s] Building seed filter... [0.139556s] Searching alignments... [40.8257s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.0589s] Building query seed array... [4.13329s] Computing hash join... [4.8408s] Building seed filter... [0.131788s] Searching alignments... [40.6369s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [11.7362s] Building query seed array... [4.14647s] Computing hash join... [4.81484s] Building seed filter... [0.136161s] Searching alignments... [40.1766s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.39212s] Building query seed array... [3.50236s] Computing hash join... [4.93124s] Building seed filter... [0.137962s] Searching alignments... [40.2659s] Deallocating buffers... [0.124065s] Opening temporary output file... [0.000583s] Computing alignments... [80.7837s] Deallocating reference... [0.062695s] Loading reference sequences... [134.206s] Masking reference... [21.3138s] Initializing temporary storage... [0.004088s] Building reference histograms... [5.09645s] Allocating buffers... [0.000328s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.69672s] Building query seed array... [3.90158s] Computing hash join... [2.45083s] Building seed filter... [0.097985s] Searching alignments... [21.7979s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.66598s] Building query seed array... [4.40471s] Computing hash join... [2.44247s] Building seed filter... [0.098546s] Searching alignments... [21.1922s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.91148s] Building query seed array... [4.52315s] Computing hash join... [2.53331s] Building seed filter... [0.095604s] Searching alignments... [21.4077s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.77596s] Building query seed array... [3.67862s] Computing hash join... [2.42013s] Building seed filter... [0.098475s] Searching alignments... [21.0187s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.7511s] Building query seed array... [3.53002s] Computing hash join... [2.31613s] Building seed filter... [0.093714s] Searching alignments... [16.3182s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.5762s] Building query seed array... [4.10254s] Computing hash join... [2.29779s] Building seed filter... [0.093797s] Searching alignments... [16.6229s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.55738s] Building query seed array... [4.15719s] Computing hash join... [2.27521s] Building seed filter... [0.093464s] Searching alignments... [16.3431s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.60687s] Building query seed array... [3.52699s] Computing hash join... [2.31024s] Building seed filter... [0.095909s] Searching alignments... [16.4093s] Deallocating buffers... [0.041185s] Opening temporary output file... [0.001012s] Computing alignments... [80.4894s] Deallocating reference... [0.030752s] Loading reference sequences... [5.3e-05s] Deallocating buffers... [0.016032s] Joining output blocks... [2.72953s] Deallocating queries... [0.08027s] Loading query sequences... [2.4e-05s] Closing the input file... [4.1e-05s] Closing the output file... [0.053891s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1e-05s] Total time = 5851.77s Reported 1641569 pairwise alignments, 1642024 HSPs. 238258 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 23M_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.4s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.6s) Total reads: 238,258 With hits: 238,258 Alignments: 1,642,024 Assig. Taxonomy: 238,258 Assig. EGGNOG: 1,004 Assig. INTERPRO2GO: 932 MinSupport set to: 119 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 892 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 95 Class. EGGNOG: 473 Class. INTERPRO2GO: 394 Total time: 16s Peak memory: 3.3 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/29F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 38a165d9809304a7aba296defa0f7356 /gscratch/srlab/sam/data/C_virginica/BSseq/29F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.042429s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.008936s] Opening the output file... [0.000378s] Loading query sequences... [144.644s] Masking queries... [108.407s] Building query seed set... [0.494454s] Algorithm: Double-indexed Building query histograms... [4.39966s] Allocating buffers... [0.000834s] Loading reference sequences... [43.0296s] Masking reference... [58.0491s] Initializing temporary storage... [0.004578s] Building reference histograms... [13.1567s] Allocating buffers... [0.000347s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.73925s] Building query seed array... [3.07675s] Computing hash join... [4.87115s] Building seed filter... [0.123519s] Searching alignments... [45.1882s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.385s] Building query seed array... [3.42906s] Computing hash join... [4.84529s] Building seed filter... [0.117133s] Searching alignments... [45.5494s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.3076s] Building query seed array... [3.39819s] Computing hash join... [4.77613s] Building seed filter... [0.119833s] Searching alignments... [45.2016s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.66305s] Building query seed array... [2.93828s] Computing hash join... [4.79116s] Building seed filter... [0.122104s] Searching alignments... [45.6051s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.04372s] Building query seed array... [2.92423s] Computing hash join... [4.64454s] Building seed filter... [0.111367s] Searching alignments... [34.3188s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.1171s] Building query seed array... [3.28729s] Computing hash join... [4.5646s] Building seed filter... [0.110318s] Searching alignments... [35.4993s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.6103s] Building query seed array... [3.20615s] Computing hash join... [4.65503s] Building seed filter... [0.112912s] Searching alignments... [36.1577s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.19175s] Building query seed array... [2.87473s] Computing hash join... [4.64029s] Building seed filter... [0.123247s] Searching alignments... [34.7796s] Deallocating buffers... [0.114458s] Opening temporary output file... [0.000998s] Computing alignments... [57.7174s] Deallocating reference... [0.074189s] Loading reference sequences... [345.048s] Masking reference... [58.5129s] Initializing temporary storage... [0.003967s] Building reference histograms... [12.9952s] Allocating buffers... [0.00031s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [10.0202s] Building query seed array... [3.02302s] Computing hash join... [4.83453s] Building seed filter... [0.125515s] Searching alignments... [41.7067s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.0399s] Building query seed array... [3.3452s] Computing hash join... [4.73483s] Building seed filter... [0.125095s] Searching alignments... [41.4175s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.6101s] Building query seed array... [3.49292s] Computing hash join... [4.79855s] Building seed filter... [0.128256s] Searching alignments... [40.7505s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.39442s] Building query seed array... [2.94127s] Computing hash join... [4.75037s] Building seed filter... [0.114804s] Searching alignments... [41.9723s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.36374s] Building query seed array... [2.97724s] Computing hash join... [4.57827s] Building seed filter... [0.108842s] Searching alignments... [31.2441s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.0758s] Building query seed array... [3.31692s] Computing hash join... [4.62689s] Building seed filter... [0.11107s] Searching alignments... [31.7642s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [11.9857s] Building query seed array... [3.40796s] Computing hash join... [4.59244s] Building seed filter... [0.112192s] Searching alignments... [32.8839s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.69496s] Building query seed array... [2.90453s] Computing hash join... [4.5495s] Building seed filter... [0.106241s] Searching alignments... [31.9627s] Deallocating buffers... [0.104229s] Opening temporary output file... [0.000936s] Computing alignments... [57.3568s] Deallocating reference... [0.069262s] Loading reference sequences... [338.689s] Masking reference... [58.0847s] Initializing temporary storage... [0.005714s] Building reference histograms... [12.8172s] Allocating buffers... [0.000338s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.74578s] Building query seed array... [3.16144s] Computing hash join... [4.71372s] Building seed filter... [0.112971s] Searching alignments... [44.0343s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.9705s] Building query seed array... [3.38474s] Computing hash join... [4.67338s] Building seed filter... [0.124865s] Searching alignments... [42.3728s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.1935s] Building query seed array... [3.42727s] Computing hash join... [4.62333s] Building seed filter... [0.117364s] Searching alignments... [41.6013s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.19562s] Building query seed array... [2.97566s] Computing hash join... [4.77921s] Building seed filter... [0.117059s] Searching alignments... [42.2058s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.35941s] Building query seed array... [2.94393s] Computing hash join... [4.65622s] Building seed filter... [0.11126s] Searching alignments... [29.9433s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.3819s] Building query seed array... [3.34143s] Computing hash join... [4.59852s] Building seed filter... [0.110974s] Searching alignments... [32.5217s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.5161s] Building query seed array... [3.35031s] Computing hash join... [4.61977s] Building seed filter... [0.113523s] Searching alignments... [33.0723s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.40451s] Building query seed array... [2.91544s] Computing hash join... [4.48496s] Building seed filter... [0.109723s] Searching alignments... [31.9546s] Deallocating buffers... [0.107437s] Opening temporary output file... [0.001058s] Computing alignments... [58.2205s] Deallocating reference... [0.067736s] Loading reference sequences... [320.866s] Masking reference... [58.0808s] Initializing temporary storage... [0.00458s] Building reference histograms... [13.0977s] Allocating buffers... [0.000367s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.66954s] Building query seed array... [3.06858s] Computing hash join... [4.69513s] Building seed filter... [0.117048s] Searching alignments... [45.8015s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.2306s] Building query seed array... [3.38704s] Computing hash join... [4.68922s] Building seed filter... [0.131175s] Searching alignments... [45.2914s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.4333s] Building query seed array... [3.57333s] Computing hash join... [4.74988s] Building seed filter... [0.121784s] Searching alignments... [45.8371s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.28573s] Building query seed array... [3.01449s] Computing hash join... [4.71499s] Building seed filter... [0.129685s] Searching alignments... [45.0916s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.21055s] Building query seed array... [2.92774s] Computing hash join... [4.57954s] Building seed filter... [0.123635s] Searching alignments... [35.3136s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.1463s] Building query seed array... [3.30834s] Computing hash join... [4.60211s] Building seed filter... [0.114119s] Searching alignments... [34.9133s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.3635s] Building query seed array... [3.42585s] Computing hash join... [4.61614s] Building seed filter... [0.115562s] Searching alignments... [36.5627s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.22329s] Building query seed array... [2.87289s] Computing hash join... [4.56175s] Building seed filter... [0.127301s] Searching alignments... [34.7963s] Deallocating buffers... [0.106665s] Opening temporary output file... [0.000929s] Computing alignments... [55.3214s] Deallocating reference... [0.062952s] Loading reference sequences... [313.646s] Masking reference... [58.1068s] Initializing temporary storage... [0.004499s] Building reference histograms... [13.0255s] Allocating buffers... [0.000308s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.66076s] Building query seed array... [3.07683s] Computing hash join... [4.68092s] Building seed filter... [0.11512s] Searching alignments... [46.421s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.4522s] Building query seed array... [3.44794s] Computing hash join... [4.732s] Building seed filter... [0.12028s] Searching alignments... [44.5161s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.4966s] Building query seed array... [3.54712s] Computing hash join... [4.73279s] Building seed filter... [0.131376s] Searching alignments... [44.1246s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.51234s] Building query seed array... [3.03395s] Computing hash join... [4.74976s] Building seed filter... [0.117258s] Searching alignments... [45.0789s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.69794s] Building query seed array... [3.01648s] Computing hash join... [4.54976s] Building seed filter... [0.120871s] Searching alignments... [35.1217s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.8082s] Building query seed array... [3.28401s] Computing hash join... [4.60436s] Building seed filter... [0.11167s] Searching alignments... [35.354s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.2425s] Building query seed array... [3.40366s] Computing hash join... [4.57364s] Building seed filter... [0.11182s] Searching alignments... [35.274s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.32828s] Building query seed array... [2.96623s] Computing hash join... [4.57665s] Building seed filter... [0.119322s] Searching alignments... [34.3432s] Deallocating buffers... [0.105333s] Opening temporary output file... [0.001967s] Computing alignments... [57.4624s] Deallocating reference... [0.062231s] Loading reference sequences... [137.887s] Masking reference... [21.4231s] Initializing temporary storage... [0.003899s] Building reference histograms... [4.92756s] Allocating buffers... [0.000311s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.66879s] Building query seed array... [3.0779s] Computing hash join... [2.23306s] Building seed filter... [0.075234s] Searching alignments... [18.9794s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.87562s] Building query seed array... [3.38116s] Computing hash join... [2.16558s] Building seed filter... [0.077973s] Searching alignments... [18.5321s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.69792s] Building query seed array... [3.4345s] Computing hash join... [2.18547s] Building seed filter... [0.073769s] Searching alignments... [18.3352s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.62844s] Building query seed array... [3.01786s] Computing hash join... [2.1629s] Building seed filter... [0.076135s] Searching alignments... [18.3415s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.74078s] Building query seed array... [2.90843s] Computing hash join... [2.06854s] Building seed filter... [0.081031s] Searching alignments... [14.0458s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.59253s] Building query seed array... [3.23778s] Computing hash join... [2.08234s] Building seed filter... [0.072529s] Searching alignments... [14.0524s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.84284s] Building query seed array... [3.33458s] Computing hash join... [2.06791s] Building seed filter... [0.07172s] Searching alignments... [14.3953s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.63518s] Building query seed array... [2.87816s] Computing hash join... [2.0483s] Building seed filter... [0.072294s] Searching alignments... [14.0472s] Deallocating buffers... [0.050062s] Opening temporary output file... [0.001074s] Computing alignments... [56.0006s] Deallocating reference... [0.029346s] Loading reference sequences... [5e-05s] Deallocating buffers... [0.012935s] Joining output blocks... [2.45791s] Deallocating queries... [0.059271s] Loading query sequences... [2.6e-05s] Closing the input file... [3.9e-05s] Closing the output file... [0.092257s] Closing the database file... [4.3e-05s] Deallocating taxonomy... [2e-05s] Total time = 5004.34s Reported 1735522 pairwise alignments, 1735829 HSPs. 230458 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 29F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.4s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.8s) Total reads: 230,458 With hits: 230,458 Alignments: 1,735,829 Assig. Taxonomy: 230,457 Assig. EGGNOG: 1,185 Assig. INTERPRO2GO: 1,326 MinSupport set to: 115 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 826 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 90 Class. EGGNOG: 469 Class. INTERPRO2GO: 437 Total time: 16s Peak memory: 6.1 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/29F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 8a47d7c787c2a523e45097184acfecf4 /gscratch/srlab/sam/data/C_virginica/BSseq/29F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000203s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006495s] Opening the output file... [0.000338s] Loading query sequences... [147.373s] Masking queries... [106.749s] Building query seed set... [0.47927s] Algorithm: Double-indexed Building query histograms... [4.18127s] Allocating buffers... [0.000837s] Loading reference sequences... [373.504s] Masking reference... [58.2254s] Initializing temporary storage... [0.00571s] Building reference histograms... [13.3941s] Allocating buffers... [0.000323s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.78805s] Building query seed array... [2.92649s] Computing hash join... [4.90822s] Building seed filter... [0.120358s] Searching alignments... [41.0921s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.0701s] Building query seed array... [3.35413s] Computing hash join... [4.8732s] Building seed filter... [0.137568s] Searching alignments... [40.8179s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.4979s] Building query seed array... [3.25574s] Computing hash join... [4.8358s] Building seed filter... [0.119376s] Searching alignments... [40.1643s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.51699s] Building query seed array... [2.8667s] Computing hash join... [4.79813s] Building seed filter... [0.137534s] Searching alignments... [39.3786s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.25536s] Building query seed array... [2.67102s] Computing hash join... [4.57718s] Building seed filter... [0.120806s] Searching alignments... [31.5804s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.6905s] Building query seed array... [3.13172s] Computing hash join... [4.57613s] Building seed filter... [0.115594s] Searching alignments... [32.3365s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.3088s] Building query seed array... [3.1503s] Computing hash join... [4.66668s] Building seed filter... [0.119613s] Searching alignments... [31.4433s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.06892s] Building query seed array... [2.74907s] Computing hash join... [4.60426s] Building seed filter... [0.117568s] Searching alignments... [31.3168s] Deallocating buffers... [0.104792s] Opening temporary output file... [0.000976s] Computing alignments... [55.9879s] Deallocating reference... [0.074976s] Loading reference sequences... [353.61s] Masking reference... [58.3021s] Initializing temporary storage... [0.00527s] Building reference histograms... [13.5467s] Allocating buffers... [0.000316s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.73092s] Building query seed array... [2.89858s] Computing hash join... [4.78776s] Building seed filter... [0.128887s] Searching alignments... [38.4623s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.1737s] Building query seed array... [3.33487s] Computing hash join... [4.72918s] Building seed filter... [0.124372s] Searching alignments... [37.6115s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.3961s] Building query seed array... [3.40612s] Computing hash join... [4.76431s] Building seed filter... [0.128757s] Searching alignments... [36.9246s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.2722s] Building query seed array... [2.87988s] Computing hash join... [4.75652s] Building seed filter... [0.122511s] Searching alignments... [36.6133s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.03018s] Building query seed array... [2.68442s] Computing hash join... [4.69838s] Building seed filter... [0.119024s] Searching alignments... [29.0244s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.6013s] Building query seed array... [3.09939s] Computing hash join... [4.70775s] Building seed filter... [0.12126s] Searching alignments... [28.984s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.377s] Building query seed array... [3.11396s] Computing hash join... [4.61276s] Building seed filter... [0.116336s] Searching alignments... [28.8182s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.26277s] Building query seed array... [2.75311s] Computing hash join... [4.72039s] Building seed filter... [0.127973s] Searching alignments... [28.7707s] Deallocating buffers... [0.110222s] Opening temporary output file... [0.000915s] Computing alignments... [56.7081s] Deallocating reference... [0.069237s] Loading reference sequences... [354.243s] Masking reference... [58.7525s] Initializing temporary storage... [0.004659s] Building reference histograms... [12.9957s] Allocating buffers... [0.000328s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.96738s] Building query seed array... [2.91393s] Computing hash join... [4.8514s] Building seed filter... [0.120931s] Searching alignments... [38.5363s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.2063s] Building query seed array... [3.37163s] Computing hash join... [4.79425s] Building seed filter... [0.123206s] Searching alignments... [37.9171s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.0186s] Building query seed array... [3.36544s] Computing hash join... [4.73676s] Building seed filter... [0.120817s] Searching alignments... [37.6576s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.52293s] Building query seed array... [3.00263s] Computing hash join... [4.67369s] Building seed filter... [0.132894s] Searching alignments... [37.1688s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.37056s] Building query seed array... [2.74296s] Computing hash join... [4.62387s] Building seed filter... [0.113311s] Searching alignments... [29.6917s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.5968s] Building query seed array... [3.00057s] Computing hash join... [4.71652s] Building seed filter... [0.125415s] Searching alignments... [29.2518s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.0027s] Building query seed array... [3.1225s] Computing hash join... [4.6813s] Building seed filter... [0.120722s] Searching alignments... [29.4334s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.46043s] Building query seed array... [2.72429s] Computing hash join... [4.62824s] Building seed filter... [0.119954s] Searching alignments... [29.4229s] Deallocating buffers... [0.104071s] Opening temporary output file... [0.001055s] Computing alignments... [56.3614s] Deallocating reference... [0.069113s] Loading reference sequences... [338.878s] Masking reference... [58.0022s] Initializing temporary storage... [0.005038s] Building reference histograms... [13.5609s] Allocating buffers... [0.000321s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.88187s] Building query seed array... [2.97519s] Computing hash join... [4.74643s] Building seed filter... [0.135269s] Searching alignments... [40.9123s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.1197s] Building query seed array... [3.31893s] Computing hash join... [4.79488s] Building seed filter... [0.127563s] Searching alignments... [41.3338s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.2515s] Building query seed array... [3.37971s] Computing hash join... [4.78083s] Building seed filter... [0.132483s] Searching alignments... [40.4909s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.2507s] Building query seed array... [2.95943s] Computing hash join... [4.7639s] Building seed filter... [0.140348s] Searching alignments... [40.0839s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.30309s] Building query seed array... [2.86212s] Computing hash join... [4.58127s] Building seed filter... [0.121045s] Searching alignments... [31.7889s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.9899s] Building query seed array... [3.08215s] Computing hash join... [4.58303s] Building seed filter... [0.129237s] Searching alignments... [31.6875s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.3706s] Building query seed array... [3.4429s] Computing hash join... [4.63989s] Building seed filter... [0.131966s] Searching alignments... [31.7773s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.24884s] Building query seed array... [2.70532s] Computing hash join... [4.65181s] Building seed filter... [0.128064s] Searching alignments... [31.3587s] Deallocating buffers... [0.110556s] Opening temporary output file... [0.000989s] Computing alignments... [58.67s] Deallocating reference... [0.063365s] Loading reference sequences... [310.306s] Masking reference... [58.1617s] Initializing temporary storage... [0.005177s] Building reference histograms... [12.96s] Allocating buffers... [0.000311s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.6696s] Building query seed array... [2.8839s] Computing hash join... [4.83497s] Building seed filter... [0.127967s] Searching alignments... [41.0068s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [11.8901s] Building query seed array... [3.27284s] Computing hash join... [4.7671s] Building seed filter... [0.125741s] Searching alignments... [40.7694s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.8538s] Building query seed array... [3.32731s] Computing hash join... [4.7759s] Building seed filter... [0.130093s] Searching alignments... [39.8045s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.40081s] Building query seed array... [2.8185s] Computing hash join... [4.77727s] Building seed filter... [0.128946s] Searching alignments... [39.393s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.46185s] Building query seed array... [2.74245s] Computing hash join... [4.63598s] Building seed filter... [0.117254s] Searching alignments... [31.8409s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.9498s] Building query seed array... [3.04115s] Computing hash join... [4.69952s] Building seed filter... [0.1219s] Searching alignments... [31.1674s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [11.8663s] Building query seed array... [3.12211s] Computing hash join... [4.67755s] Building seed filter... [0.119516s] Searching alignments... [31.0373s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.63614s] Building query seed array... [2.73465s] Computing hash join... [4.59092s] Building seed filter... [0.121323s] Searching alignments... [30.9541s] Deallocating buffers... [0.105895s] Opening temporary output file... [0.000911s] Computing alignments... [56.9754s] Deallocating reference... [0.061967s] Loading reference sequences... [137.297s] Masking reference... [21.6003s] Initializing temporary storage... [0.005299s] Building reference histograms... [5.19405s] Allocating buffers... [0.000277s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.75215s] Building query seed array... [2.92528s] Computing hash join... [2.25852s] Building seed filter... [0.078654s] Searching alignments... [16.8501s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.78694s] Building query seed array... [3.31037s] Computing hash join... [2.19002s] Building seed filter... [0.075254s] Searching alignments... [16.6848s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.75932s] Building query seed array... [3.38215s] Computing hash join... [2.21936s] Building seed filter... [0.078179s] Searching alignments... [16.3556s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.57535s] Building query seed array... [3.53052s] Computing hash join... [2.23362s] Building seed filter... [0.077745s] Searching alignments... [16.395s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.63308s] Building query seed array... [2.77935s] Computing hash join... [2.10014s] Building seed filter... [0.077791s] Searching alignments... [12.7337s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.5949s] Building query seed array... [3.0971s] Computing hash join... [2.09536s] Building seed filter... [0.073543s] Searching alignments... [12.7186s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.77008s] Building query seed array... [3.05122s] Computing hash join... [2.11346s] Building seed filter... [0.073037s] Searching alignments... [12.9436s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.44915s] Building query seed array... [2.57535s] Computing hash join... [2.07484s] Building seed filter... [0.07308s] Searching alignments... [12.6475s] Deallocating buffers... [0.041022s] Opening temporary output file... [0.000993s] Computing alignments... [55.4182s] Deallocating reference... [0.027994s] Loading reference sequences... [5.8e-05s] Deallocating buffers... [0.012936s] Joining output blocks... [1.89455s] Deallocating queries... [0.057657s] Loading query sequences... [2.7e-05s] Closing the input file... [3.8e-05s] Closing the output file... [0.039114s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1e-05s] Total time = 5194.25s Reported 1406880 pairwise alignments, 1407071 HSPs. 199796 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 29F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.3s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (4.9s) Total reads: 199,796 With hits: 199,796 Alignments: 1,407,071 Assig. Taxonomy: 199,796 Assig. EGGNOG: 922 Assig. INTERPRO2GO: 791 MinSupport set to: 99 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 772 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 86 Class. EGGNOG: 455 Class. INTERPRO2GO: 384 Total time: 15s Peak memory: 5.2 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/31M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 46acf8208563f26c917327751d7d6391 /gscratch/srlab/sam/data/C_virginica/BSseq/31M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.038039s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.007576s] Opening the output file... [0.000383s] Loading query sequences... [128.28s] Masking queries... [67.5573s] Building query seed set... [0.492015s] Algorithm: Double-indexed Building query histograms... [3.80657s] Allocating buffers... [0.000817s] Loading reference sequences... [44.4047s] Masking reference... [58.5624s] Initializing temporary storage... [0.004728s] Building reference histograms... [13.6686s] Allocating buffers... [0.000415s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.61355s] Building query seed array... [2.62632s] Computing hash join... [4.772s] Building seed filter... [0.125252s] Searching alignments... [37.3609s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.7171s] Building query seed array... [3.00518s] Computing hash join... [4.65238s] Building seed filter... [0.111234s] Searching alignments... [37.8313s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.5764s] Building query seed array... [3.07355s] Computing hash join... [4.65229s] Building seed filter... [0.118563s] Searching alignments... [37.6273s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.64497s] Building query seed array... [2.57839s] Computing hash join... [4.5972s] Building seed filter... [0.114792s] Searching alignments... [37.5728s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.46473s] Building query seed array... [2.64629s] Computing hash join... [4.42911s] Building seed filter... [0.109168s] Searching alignments... [28.5882s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.2243s] Building query seed array... [2.81648s] Computing hash join... [4.51453s] Building seed filter... [0.114823s] Searching alignments... [29.811s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.3665s] Building query seed array... [2.87588s] Computing hash join... [4.5944s] Building seed filter... [0.108175s] Searching alignments... [28.6461s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.69985s] Building query seed array... [2.47317s] Computing hash join... [4.59202s] Building seed filter... [0.109708s] Searching alignments... [29.3835s] Deallocating buffers... [0.110589s] Opening temporary output file... [0.001047s] Computing alignments... [50.0099s] Deallocating reference... [0.075722s] Loading reference sequences... [345.365s] Masking reference... [57.5842s] Initializing temporary storage... [0.003982s] Building reference histograms... [12.5135s] Allocating buffers... [0.000325s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.70523s] Building query seed array... [2.64093s] Computing hash join... [4.71706s] Building seed filter... [0.118041s] Searching alignments... [34.7665s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.7053s] Building query seed array... [3.01157s] Computing hash join... [4.58279s] Building seed filter... [0.111243s] Searching alignments... [34.4697s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.5022s] Building query seed array... [3.05123s] Computing hash join... [4.64004s] Building seed filter... [0.113229s] Searching alignments... [33.6127s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.5459s] Building query seed array... [2.5279s] Computing hash join... [4.6532s] Building seed filter... [0.110425s] Searching alignments... [34.5994s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.37378s] Building query seed array... [2.5606s] Computing hash join... [4.46704s] Building seed filter... [0.109439s] Searching alignments... [25.9543s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.164s] Building query seed array... [2.91395s] Computing hash join... [4.4872s] Building seed filter... [0.106944s] Searching alignments... [27.4118s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.1745s] Building query seed array... [2.86344s] Computing hash join... [4.65415s] Building seed filter... [0.112848s] Searching alignments... [26.4869s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.57847s] Building query seed array... [2.51965s] Computing hash join... [4.60329s] Building seed filter... [0.11167s] Searching alignments... [26.8871s] Deallocating buffers... [0.10764s] Opening temporary output file... [0.000997s] Computing alignments... [51.4902s] Deallocating reference... [0.068242s] Loading reference sequences... [343.829s] Masking reference... [57.9327s] Initializing temporary storage... [0.004091s] Building reference histograms... [13.2907s] Allocating buffers... [0.000317s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.92873s] Building query seed array... [2.6178s] Computing hash join... [4.73404s] Building seed filter... [0.111722s] Searching alignments... [35.9227s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.1443s] Building query seed array... [2.92872s] Computing hash join... [4.59975s] Building seed filter... [0.105639s] Searching alignments... [35.8162s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.1439s] Building query seed array... [2.9001s] Computing hash join... [4.65159s] Building seed filter... [0.112671s] Searching alignments... [33.9858s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.54772s] Building query seed array... [2.59546s] Computing hash join... [4.58589s] Building seed filter... [0.114268s] Searching alignments... [35.3086s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.48412s] Building query seed array... [2.55926s] Computing hash join... [4.42581s] Building seed filter... [0.101876s] Searching alignments... [26.9976s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.9984s] Building query seed array... [2.79231s] Computing hash join... [4.46694s] Building seed filter... [0.114605s] Searching alignments... [27.516s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.3519s] Building query seed array... [2.86845s] Computing hash join... [4.53125s] Building seed filter... [0.109183s] Searching alignments... [27.373s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.33232s] Building query seed array... [2.44028s] Computing hash join... [4.51777s] Building seed filter... [0.119476s] Searching alignments... [27.7152s] Deallocating buffers... [0.112045s] Opening temporary output file... [0.001041s] Computing alignments... [51.0784s] Deallocating reference... [0.069267s] Loading reference sequences... [321.385s] Masking reference... [57.5066s] Initializing temporary storage... [0.003989s] Building reference histograms... [12.9049s] Allocating buffers... [0.000325s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.87455s] Building query seed array... [2.71955s] Computing hash join... [4.67851s] Building seed filter... [0.117728s] Searching alignments... [37.3729s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.1905s] Building query seed array... [2.9712s] Computing hash join... [4.64462s] Building seed filter... [0.1104s] Searching alignments... [38.6796s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.5099s] Building query seed array... [2.96777s] Computing hash join... [4.62525s] Building seed filter... [0.111204s] Searching alignments... [36.1684s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.26139s] Building query seed array... [2.60335s] Computing hash join... [4.6233s] Building seed filter... [0.111529s] Searching alignments... [37.3712s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.26583s] Building query seed array... [2.58211s] Computing hash join... [4.52027s] Building seed filter... [0.105703s] Searching alignments... [28.8483s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.0974s] Building query seed array... [2.82254s] Computing hash join... [4.5266s] Building seed filter... [0.10988s] Searching alignments... [29.7167s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.2505s] Building query seed array... [2.90157s] Computing hash join... [4.82302s] Building seed filter... [0.108413s] Searching alignments... [29.0288s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.0408s] Building query seed array... [2.48408s] Computing hash join... [4.5355s] Building seed filter... [0.113267s] Searching alignments... [28.5944s] Deallocating buffers... [0.103401s] Opening temporary output file... [0.000991s] Computing alignments... [50.2707s] Deallocating reference... [0.064416s] Loading reference sequences... [310.831s] Masking reference... [57.5535s] Initializing temporary storage... [0.00397s] Building reference histograms... [12.5633s] Allocating buffers... [0.000317s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.60055s] Building query seed array... [2.73821s] Computing hash join... [4.68763s] Building seed filter... [0.117977s] Searching alignments... [37.6553s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.1583s] Building query seed array... [3.04007s] Computing hash join... [4.66406s] Building seed filter... [0.115273s] Searching alignments... [37.663s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.5898s] Building query seed array... [3.04147s] Computing hash join... [4.57101s] Building seed filter... [0.114673s] Searching alignments... [36.6261s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.65563s] Building query seed array... [2.68764s] Computing hash join... [4.6085s] Building seed filter... [0.109821s] Searching alignments... [37.4262s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.69165s] Building query seed array... [2.49194s] Computing hash join... [4.58103s] Building seed filter... [0.112848s] Searching alignments... [28.7566s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.5417s] Building query seed array... [2.79051s] Computing hash join... [4.57126s] Building seed filter... [0.11445s] Searching alignments... [29.0005s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [11.964s] Building query seed array... [2.86386s] Computing hash join... [4.43744s] Building seed filter... [0.10968s] Searching alignments... [28.3584s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.76237s] Building query seed array... [2.5854s] Computing hash join... [4.48264s] Building seed filter... [0.130269s] Searching alignments... [28.4126s] Deallocating buffers... [0.103564s] Opening temporary output file... [0.000528s] Computing alignments... [51.584s] Deallocating reference... [0.062977s] Loading reference sequences... [134.185s] Masking reference... [21.1948s] Initializing temporary storage... [0.004037s] Building reference histograms... [5.06596s] Allocating buffers... [0.000325s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.58101s] Building query seed array... [2.6228s] Computing hash join... [2.11657s] Building seed filter... [0.070797s] Searching alignments... [15.5642s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.7054s] Building query seed array... [2.93649s] Computing hash join... [2.0885s] Building seed filter... [0.070383s] Searching alignments... [15.486s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.90623s] Building query seed array... [2.91111s] Computing hash join... [2.09231s] Building seed filter... [0.072925s] Searching alignments... [15.2418s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.76116s] Building query seed array... [2.59455s] Computing hash join... [2.10593s] Building seed filter... [0.072318s] Searching alignments... [15.1517s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.68351s] Building query seed array... [2.79018s] Computing hash join... [2.0053s] Building seed filter... [0.073542s] Searching alignments... [11.8065s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.85171s] Building query seed array... [2.89797s] Computing hash join... [1.98249s] Building seed filter... [0.074036s] Searching alignments... [11.8802s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.67851s] Building query seed array... [2.90726s] Computing hash join... [2.04613s] Building seed filter... [0.068602s] Searching alignments... [11.5478s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.52965s] Building query seed array... [2.42132s] Computing hash join... [1.97983s] Building seed filter... [0.06824s] Searching alignments... [11.862s] Deallocating buffers... [0.042552s] Opening temporary output file... [0.001019s] Computing alignments... [49.5959s] Deallocating reference... [0.027529s] Loading reference sequences... [4.5e-05s] Deallocating buffers... [0.011512s] Joining output blocks... [2.07002s] Deallocating queries... [0.049917s] Loading query sequences... [3e-05s] Closing the input file... [4e-05s] Closing the output file... [0.047212s] Closing the database file... [2.6e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 4595.8s Reported 1504107 pairwise alignments, 1504409 HSPs. 179070 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 31M_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.3s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.0s) Total reads: 179,070 With hits: 179,070 Alignments: 1,504,409 Assig. Taxonomy: 179,068 Assig. EGGNOG: 1,113 Assig. INTERPRO2GO: 1,091 MinSupport set to: 89 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 888 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (1.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 96 Class. EGGNOG: 495 Class. INTERPRO2GO: 387 Total time: 17s Peak memory: 6.8 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/31M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 9b947be23307fb26248f7b1e497a4204 /gscratch/srlab/sam/data/C_virginica/BSseq/31M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000203s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005044s] Opening the output file... [0.00031s] Loading query sequences... [129.192s] Masking queries... [66.5587s] Building query seed set... [0.438808s] Algorithm: Double-indexed Building query histograms... [3.6601s] Allocating buffers... [0.00082s] Loading reference sequences... [374.125s] Masking reference... [57.8406s] Initializing temporary storage... [0.004509s] Building reference histograms... [12.7701s] Allocating buffers... [0.000363s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.70107s] Building query seed array... [2.57503s] Computing hash join... [4.7883s] Building seed filter... [0.119413s] Searching alignments... [33.5853s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [11.8941s] Building query seed array... [2.90455s] Computing hash join... [4.69264s] Building seed filter... [0.12093s] Searching alignments... [33.657s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.5009s] Building query seed array... [2.99024s] Computing hash join... [4.62648s] Building seed filter... [0.113839s] Searching alignments... [33.3524s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.35507s] Building query seed array... [2.5036s] Computing hash join... [4.69699s] Building seed filter... [0.111999s] Searching alignments... [32.506s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.49693s] Building query seed array... [2.29873s] Computing hash join... [4.5871s] Building seed filter... [0.112161s] Searching alignments... [25.7153s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.6342s] Building query seed array... [2.65553s] Computing hash join... [4.63556s] Building seed filter... [0.115619s] Searching alignments... [25.8633s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.3196s] Building query seed array... [2.70154s] Computing hash join... [4.58251s] Building seed filter... [0.11311s] Searching alignments... [25.7171s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.15537s] Building query seed array... [2.30478s] Computing hash join... [4.53664s] Building seed filter... [0.11784s] Searching alignments... [25.5266s] Deallocating buffers... [0.103349s] Opening temporary output file... [0.000943s] Computing alignments... [49.2145s] Deallocating reference... [0.075156s] Loading reference sequences... [345.536s] Masking reference... [57.5506s] Initializing temporary storage... [0.004084s] Building reference histograms... [13.4762s] Allocating buffers... [0.000334s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.77486s] Building query seed array... [2.59641s] Computing hash join... [4.70697s] Building seed filter... [0.118938s] Searching alignments... [31.0283s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.2921s] Building query seed array... [3.02409s] Computing hash join... [4.71141s] Building seed filter... [0.122872s] Searching alignments... [30.9852s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.7406s] Building query seed array... [2.87287s] Computing hash join... [4.63549s] Building seed filter... [0.115009s] Searching alignments... [30.7858s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.45879s] Building query seed array... [2.3891s] Computing hash join... [4.61876s] Building seed filter... [0.115252s] Searching alignments... [29.781s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.29127s] Building query seed array... [2.36014s] Computing hash join... [4.50156s] Building seed filter... [0.112237s] Searching alignments... [24.226s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.1746s] Building query seed array... [2.78895s] Computing hash join... [4.5339s] Building seed filter... [0.11309s] Searching alignments... [23.9021s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.3087s] Building query seed array... [2.67755s] Computing hash join... [4.49566s] Building seed filter... [0.116407s] Searching alignments... [23.8182s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.38105s] Building query seed array... [2.23329s] Computing hash join... [4.51496s] Building seed filter... [0.114727s] Searching alignments... [23.6936s] Deallocating buffers... [0.105495s] Opening temporary output file... [0.000945s] Computing alignments... [51.8976s] Deallocating reference... [0.073809s] Loading reference sequences... [350.796s] Masking reference... [58.634s] Initializing temporary storage... [0.003977s] Building reference histograms... [13.0863s] Allocating buffers... [0.000331s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.56808s] Building query seed array... [2.63123s] Computing hash join... [4.74251s] Building seed filter... [0.11408s] Searching alignments... [31.8169s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.571s] Building query seed array... [2.91354s] Computing hash join... [4.72668s] Building seed filter... [0.114784s] Searching alignments... [31.3852s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.7011s] Building query seed array... [2.82537s] Computing hash join... [4.64573s] Building seed filter... [0.119873s] Searching alignments... [31.162s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.37585s] Building query seed array... [2.46758s] Computing hash join... [4.65427s] Building seed filter... [0.112744s] Searching alignments... [30.3825s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.44201s] Building query seed array... [2.35363s] Computing hash join... [4.47359s] Building seed filter... [0.111007s] Searching alignments... [23.9803s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.8352s] Building query seed array... [2.63943s] Computing hash join... [4.46841s] Building seed filter... [0.110919s] Searching alignments... [24.256s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.5321s] Building query seed array... [2.73677s] Computing hash join... [4.54194s] Building seed filter... [0.11127s] Searching alignments... [24.497s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.73042s] Building query seed array... [2.33295s] Computing hash join... [4.5394s] Building seed filter... [0.109976s] Searching alignments... [24.2071s] Deallocating buffers... [0.104208s] Opening temporary output file... [0.001147s] Computing alignments... [49.8778s] Deallocating reference... [0.069612s] Loading reference sequences... [323.814s] Masking reference... [59.2958s] Initializing temporary storage... [0.004074s] Building reference histograms... [13.1875s] Allocating buffers... [0.000353s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.84014s] Building query seed array... [2.63724s] Computing hash join... [4.71711s] Building seed filter... [0.123732s] Searching alignments... [33.4713s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.2311s] Building query seed array... [2.90761s] Computing hash join... [4.59712s] Building seed filter... [0.120523s] Searching alignments... [33.7489s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.7684s] Building query seed array... [2.95139s] Computing hash join... [4.62023s] Building seed filter... [0.119208s] Searching alignments... [33.078s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.7739s] Building query seed array... [2.45077s] Computing hash join... [4.64809s] Building seed filter... [0.118415s] Searching alignments... [32.9045s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.73524s] Building query seed array... [2.29114s] Computing hash join... [4.55909s] Building seed filter... [0.112199s] Searching alignments... [25.8886s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.0717s] Building query seed array... [2.65163s] Computing hash join... [4.49513s] Building seed filter... [0.112107s] Searching alignments... [25.838s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.4861s] Building query seed array... [2.64403s] Computing hash join... [4.61499s] Building seed filter... [0.110241s] Searching alignments... [26.0328s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.33101s] Building query seed array... [2.38374s] Computing hash join... [4.51745s] Building seed filter... [0.118767s] Searching alignments... [25.5641s] Deallocating buffers... [0.109641s] Opening temporary output file... [0.00103s] Computing alignments... [49.7756s] Deallocating reference... [0.064602s] Loading reference sequences... [321.149s] Masking reference... [57.5125s] Initializing temporary storage... [0.004091s] Building reference histograms... [13.0651s] Allocating buffers... [0.000328s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.84748s] Building query seed array... [2.51732s] Computing hash join... [4.75487s] Building seed filter... [0.123628s] Searching alignments... [33.2382s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.3341s] Building query seed array... [2.93366s] Computing hash join... [4.65989s] Building seed filter... [0.1237s] Searching alignments... [33.9103s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [13.1284s] Building query seed array... [2.94304s] Computing hash join... [4.70336s] Building seed filter... [0.119282s] Searching alignments... [32.8791s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.35798s] Building query seed array... [2.55689s] Computing hash join... [4.68748s] Building seed filter... [0.125387s] Searching alignments... [32.5039s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.61108s] Building query seed array... [2.33881s] Computing hash join... [4.61095s] Building seed filter... [0.113192s] Searching alignments... [26.1961s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.9332s] Building query seed array... [2.65468s] Computing hash join... [4.44831s] Building seed filter... [0.111595s] Searching alignments... [25.9033s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.2271s] Building query seed array... [2.66561s] Computing hash join... [4.57625s] Building seed filter... [0.114211s] Searching alignments... [25.4516s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [8.87757s] Building query seed array... [2.27319s] Computing hash join... [4.57688s] Building seed filter... [0.112122s] Searching alignments... [25.4256s] Deallocating buffers... [0.121322s] Opening temporary output file... [0.001059s] Computing alignments... [52.7556s] Deallocating reference... [0.062195s] Loading reference sequences... [132.391s] Masking reference... [21.2689s] Initializing temporary storage... [0.003887s] Building reference histograms... [4.84506s] Allocating buffers... [0.000329s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.61756s] Building query seed array... [2.5607s] Computing hash join... [2.1398s] Building seed filter... [0.073828s] Searching alignments... [13.8044s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.3561s] Building query seed array... [2.77572s] Computing hash join... [2.15147s] Building seed filter... [0.075446s] Searching alignments... [13.5934s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.71678s] Building query seed array... [2.84441s] Computing hash join... [2.07917s] Building seed filter... [0.074776s] Searching alignments... [13.6681s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.7379s] Building query seed array... [2.43629s] Computing hash join... [2.09017s] Building seed filter... [0.070544s] Searching alignments... [13.3109s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.51652s] Building query seed array... [2.25458s] Computing hash join... [1.97614s] Building seed filter... [0.066663s] Searching alignments... [10.3506s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.63664s] Building query seed array... [2.65914s] Computing hash join... [2.00463s] Building seed filter... [0.071434s] Searching alignments... [10.4091s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.81153s] Building query seed array... [2.60389s] Computing hash join... [2.00358s] Building seed filter... [0.0726s] Searching alignments... [10.5238s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.58923s] Building query seed array... [2.33106s] Computing hash join... [1.99031s] Building seed filter... [0.071058s] Searching alignments... [10.2613s] Deallocating buffers... [0.042632s] Opening temporary output file... [0.001074s] Computing alignments... [51.1225s] Deallocating reference... [0.027572s] Loading reference sequences... [5.1e-05s] Deallocating buffers... [0.010807s] Joining output blocks... [1.56381s] Deallocating queries... [0.049169s] Loading query sequences... [2.7e-05s] Closing the input file... [4.8e-05s] Closing the output file... [0.039262s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1e-05s] Total time = 4783.81s Reported 1172916 pairwise alignments, 1173112 HSPs. 154790 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 31M_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.2s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.7s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (4.3s) Total reads: 154,790 With hits: 154,790 Alignments: 1,173,112 Assig. Taxonomy: 154,789 Assig. EGGNOG: 888 Assig. INTERPRO2GO: 698 MinSupport set to: 77 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 821 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 91 Class. EGGNOG: 443 Class. INTERPRO2GO: 370 Total time: 15s Peak memory: 4.8 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/35F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 487cdb4fcce39b0b8b8df82b8374e2a1 /gscratch/srlab/sam/data/C_virginica/BSseq/35F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.033279s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006918s] Opening the output file... [0.000296s] Loading query sequences... [163.998s] Masking queries... [130.49s] Building query seed set... [0.6388s] Algorithm: Double-indexed Building query histograms... [4.90429s] Allocating buffers... [0.000919s] Loading reference sequences... [45.0822s] Masking reference... [58.2291s] Initializing temporary storage... [0.004714s] Building reference histograms... [13.8456s] Allocating buffers... [0.000323s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.84598s] Building query seed array... [3.58121s] Computing hash join... [5.0633s] Building seed filter... [0.122762s] Searching alignments... [47.5881s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.061s] Building query seed array... [3.92661s] Computing hash join... [4.93534s] Building seed filter... [0.118979s] Searching alignments... [49.364s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.2019s] Building query seed array... [3.85855s] Computing hash join... [4.92156s] Building seed filter... [0.131748s] Searching alignments... [48.0658s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.37888s] Building query seed array... [3.44661s] Computing hash join... [4.81359s] Building seed filter... [0.133331s] Searching alignments... [47.1609s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.15833s] Building query seed array... [3.33666s] Computing hash join... [4.65579s] Building seed filter... [0.125224s] Searching alignments... [36.4741s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.2469s] Building query seed array... [3.66347s] Computing hash join... [4.77811s] Building seed filter... [0.120232s] Searching alignments... [35.9629s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.195s] Building query seed array... [3.70862s] Computing hash join... [4.75969s] Building seed filter... [0.117929s] Searching alignments... [36.8184s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [8.93179s] Building query seed array... [3.21284s] Computing hash join... [4.71979s] Building seed filter... [0.133946s] Searching alignments... [36.4587s] Deallocating buffers... [0.106914s] Opening temporary output file... [0.000655s] Computing alignments... [65.2778s] Deallocating reference... [0.080165s] Loading reference sequences... [49.3763s] Masking reference... [57.8477s] Initializing temporary storage... [0.005152s] Building reference histograms... [12.9882s] Allocating buffers... [0.000316s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.596s] Building query seed array... [3.4882s] Computing hash join... [4.94032s] Building seed filter... [0.12032s] Searching alignments... [44.7098s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.2122s] Building query seed array... [3.85399s] Computing hash join... [4.93743s] Building seed filter... [0.12495s] Searching alignments... [44.0119s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.3862s] Building query seed array... [3.89936s] Computing hash join... [4.82501s] Building seed filter... [0.122831s] Searching alignments... [43.7723s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.26933s] Building query seed array... [3.42145s] Computing hash join... [4.79458s] Building seed filter... [0.126414s] Searching alignments... [42.9178s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.21578s] Building query seed array... [3.25515s] Computing hash join... [4.9413s] Building seed filter... [0.119964s] Searching alignments... [33.4585s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.8015s] Building query seed array... [3.59908s] Computing hash join... [4.75712s] Building seed filter... [0.132379s] Searching alignments... [34.1025s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.1433s] Building query seed array... [3.66122s] Computing hash join... [4.6689s] Building seed filter... [0.114524s] Searching alignments... [34.198s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.29197s] Building query seed array... [3.27728s] Computing hash join... [4.55548s] Building seed filter... [0.120454s] Searching alignments... [33.4235s] Deallocating buffers... [0.102571s] Opening temporary output file... [0.000483s] Computing alignments... [65.0419s] Deallocating reference... [0.070884s] Loading reference sequences... [48.6587s] Masking reference... [58.0013s] Initializing temporary storage... [0.005208s] Building reference histograms... [13.2592s] Allocating buffers... [0.000325s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.94941s] Building query seed array... [3.48908s] Computing hash join... [4.95245s] Building seed filter... [0.122267s] Searching alignments... [45.9035s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.3304s] Building query seed array... [3.79145s] Computing hash join... [4.8173s] Building seed filter... [0.135973s] Searching alignments... [44.9152s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.7594s] Building query seed array... [3.89128s] Computing hash join... [4.77751s] Building seed filter... [0.124709s] Searching alignments... [44.3241s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.78469s] Building query seed array... [3.4914s] Computing hash join... [4.80828s] Building seed filter... [0.131326s] Searching alignments... [43.4923s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.38355s] Building query seed array... [3.37931s] Computing hash join... [4.70862s] Building seed filter... [0.120011s] Searching alignments... [33.8823s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.8344s] Building query seed array... [3.63224s] Computing hash join... [4.72391s] Building seed filter... [0.117136s] Searching alignments... [33.7617s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [11.967s] Building query seed array... [3.79334s] Computing hash join... [4.65856s] Building seed filter... [0.126529s] Searching alignments... [34.4841s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.18425s] Building query seed array... [3.22649s] Computing hash join... [4.63155s] Building seed filter... [0.116461s] Searching alignments... [34.129s] Deallocating buffers... [0.107978s] Opening temporary output file... [0.000564s] Computing alignments... [66.1828s] Deallocating reference... [0.067443s] Loading reference sequences... [46.5329s] Masking reference... [57.7729s] Initializing temporary storage... [0.72985s] Building reference histograms... [12.6624s] Allocating buffers... [0.000311s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.63459s] Building query seed array... [3.53454s] Computing hash join... [4.93367s] Building seed filter... [0.12546s] Searching alignments... [48.4523s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.5699s] Building query seed array... [3.75439s] Computing hash join... [4.88328s] Building seed filter... [0.128751s] Searching alignments... [49.1969s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.6591s] Building query seed array... [4.13166s] Computing hash join... [4.74938s] Building seed filter... [0.122073s] Searching alignments... [47.5334s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.41598s] Building query seed array... [3.55752s] Computing hash join... [4.81467s] Building seed filter... [0.133045s] Searching alignments... [47.0915s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.88955s] Building query seed array... [3.32542s] Computing hash join... [4.651s] Building seed filter... [0.118631s] Searching alignments... [35.9315s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.9614s] Building query seed array... [3.74487s] Computing hash join... [4.58592s] Building seed filter... [0.117401s] Searching alignments... [36.6249s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.2328s] Building query seed array... [3.7083s] Computing hash join... [4.72786s] Building seed filter... [0.119912s] Searching alignments... [37.5096s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.25058s] Building query seed array... [3.24388s] Computing hash join... [4.62614s] Building seed filter... [0.12533s] Searching alignments... [36.0602s] Deallocating buffers... [0.105119s] Opening temporary output file... [0.000995s] Computing alignments... [65.8075s] Deallocating reference... [0.062855s] Loading reference sequences... [307.152s] Masking reference... [57.7433s] Initializing temporary storage... [0.00398s] Building reference histograms... [12.9771s] Allocating buffers... [0.000317s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.90998s] Building query seed array... [3.49872s] Computing hash join... [4.89226s] Building seed filter... [0.130087s] Searching alignments... [49.4875s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [11.6614s] Building query seed array... [4.01846s] Computing hash join... [4.94175s] Building seed filter... [0.121381s] Searching alignments... [48.9243s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.1889s] Building query seed array... [4.01433s] Computing hash join... [4.89909s] Building seed filter... [0.126848s] Searching alignments... [47.3606s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.46885s] Building query seed array... [3.33465s] Computing hash join... [4.89018s] Building seed filter... [0.128129s] Searching alignments... [46.6413s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.08632s] Building query seed array... [3.24496s] Computing hash join... [4.74567s] Building seed filter... [0.120823s] Searching alignments... [36.283s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.0092s] Building query seed array... [3.87722s] Computing hash join... [4.67144s] Building seed filter... [0.128958s] Searching alignments... [36.2163s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.5471s] Building query seed array... [3.87064s] Computing hash join... [4.70315s] Building seed filter... [0.116935s] Searching alignments... [36.4719s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.20173s] Building query seed array... [3.18344s] Computing hash join... [4.69622s] Building seed filter... [0.121853s] Searching alignments... [36.1199s] Deallocating buffers... [0.106437s] Opening temporary output file... [0.000945s] Computing alignments... [67.0011s] Deallocating reference... [0.060891s] Loading reference sequences... [136.225s] Masking reference... [21.5498s] Initializing temporary storage... [0.003849s] Building reference histograms... [4.97581s] Allocating buffers... [0.000324s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.78552s] Building query seed array... [3.56345s] Computing hash join... [2.29298s] Building seed filter... [0.083925s] Searching alignments... [21.0007s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.62888s] Building query seed array... [3.89802s] Computing hash join... [2.28612s] Building seed filter... [0.079568s] Searching alignments... [20.179s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.73162s] Building query seed array... [3.97729s] Computing hash join... [2.3257s] Building seed filter... [0.080961s] Searching alignments... [19.65s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.57003s] Building query seed array... [3.43904s] Computing hash join... [2.2704s] Building seed filter... [0.076836s] Searching alignments... [19.2773s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.50848s] Building query seed array... [3.2414s] Computing hash join... [2.18946s] Building seed filter... [0.075458s] Searching alignments... [14.6905s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.53455s] Building query seed array... [3.5416s] Computing hash join... [2.17393s] Building seed filter... [0.079113s] Searching alignments... [14.7395s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.80219s] Building query seed array... [3.70215s] Computing hash join... [2.14051s] Building seed filter... [0.075328s] Searching alignments... [15.0392s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.90607s] Building query seed array... [3.16848s] Computing hash join... [2.17759s] Building seed filter... [0.074237s] Searching alignments... [14.7249s] Deallocating buffers... [0.042443s] Opening temporary output file... [0.001057s] Computing alignments... [62.6927s] Deallocating reference... [0.027949s] Loading reference sequences... [4.6e-05s] Deallocating buffers... [0.014925s] Joining output blocks... [2.37454s] Deallocating queries... [0.066971s] Loading query sequences... [2.6e-05s] Closing the input file... [4.2e-05s] Closing the output file... [0.047583s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1e-05s] Total time = 4344.2s Reported 1860275 pairwise alignments, 1860540 HSPs. 240518 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 35F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.3s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.8s) Total reads: 240,518 With hits: 240,518 Alignments: 1,860,540 Assig. Taxonomy: 240,518 Assig. EGGNOG: 1,131 Assig. INTERPRO2GO: 1,420 MinSupport set to: 120 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 981 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 81 Class. EGGNOG: 543 Class. INTERPRO2GO: 505 Total time: 16s Peak memory: 3.3 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/35F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 202061953692aa301bcff1671e555ded /gscratch/srlab/sam/data/C_virginica/BSseq/35F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000176s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.007364s] Opening the output file... [0.000317s] Loading query sequences... [163.57s] Masking queries... [83.6468s] Building query seed set... [0.528229s] Algorithm: Double-indexed Building query histograms... [4.84669s] Allocating buffers... [0.000838s] Loading reference sequences... [373.408s] Masking reference... [57.4129s] Initializing temporary storage... [0.004628s] Building reference histograms... [12.8539s] Allocating buffers... [0.000308s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.95907s] Building query seed array... [3.30744s] Computing hash join... [5.00949s] Building seed filter... [0.137031s] Searching alignments... [45.7664s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.1626s] Building query seed array... [3.77786s] Computing hash join... [4.92586s] Building seed filter... [0.131483s] Searching alignments... [45.0249s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.3505s] Building query seed array... [3.79875s] Computing hash join... [4.93533s] Building seed filter... [0.137299s] Searching alignments... [44.4255s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.70477s] Building query seed array... [3.36817s] Computing hash join... [4.91806s] Building seed filter... [0.134649s] Searching alignments... [44.2687s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.32651s] Building query seed array... [2.9609s] Computing hash join... [4.64988s] Building seed filter... [0.13294s] Searching alignments... [35.8535s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.2625s] Building query seed array... [3.45385s] Computing hash join... [4.80081s] Building seed filter... [0.131138s] Searching alignments... [34.8389s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.3762s] Building query seed array... [3.40474s] Computing hash join... [4.73073s] Building seed filter... [0.131107s] Searching alignments... [34.8253s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.69681s] Building query seed array... [3.12826s] Computing hash join... [4.68067s] Building seed filter... [0.131859s] Searching alignments... [34.9798s] Deallocating buffers... [0.109983s] Opening temporary output file... [0.000961s] Computing alignments... [67.7s] Deallocating reference... [0.074698s] Loading reference sequences... [354.919s] Masking reference... [57.6878s] Initializing temporary storage... [0.00416s] Building reference histograms... [13.155s] Allocating buffers... [0.000814s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.32364s] Building query seed array... [3.24699s] Computing hash join... [4.95454s] Building seed filter... [0.135877s] Searching alignments... [42.2541s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.2452s] Building query seed array... [3.66786s] Computing hash join... [4.88266s] Building seed filter... [0.130262s] Searching alignments... [41.1987s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [13.0058s] Building query seed array... [3.7296s] Computing hash join... [4.94769s] Building seed filter... [0.139016s] Searching alignments... [41.4061s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.5934s] Building query seed array... [3.17312s] Computing hash join... [4.85435s] Building seed filter... [0.135688s] Searching alignments... [40.5774s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.48544s] Building query seed array... [2.94264s] Computing hash join... [4.72994s] Building seed filter... [0.121541s] Searching alignments... [32.3153s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.518s] Building query seed array... [3.50303s] Computing hash join... [4.73863s] Building seed filter... [0.121698s] Searching alignments... [32.7523s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.5549s] Building query seed array... [3.44965s] Computing hash join... [4.73052s] Building seed filter... [0.123391s] Searching alignments... [32.0642s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.68038s] Building query seed array... [3.01535s] Computing hash join... [4.69724s] Building seed filter... [0.132139s] Searching alignments... [32.1261s] Deallocating buffers... [0.110734s] Opening temporary output file... [0.000996s] Computing alignments... [65.4635s] Deallocating reference... [0.071449s] Loading reference sequences... [345.3s] Masking reference... [57.844s] Initializing temporary storage... [0.004008s] Building reference histograms... [13.1481s] Allocating buffers... [0.000891s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.57472s] Building query seed array... [3.24817s] Computing hash join... [4.90964s] Building seed filter... [0.13485s] Searching alignments... [44.4076s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.0007s] Building query seed array... [3.65007s] Computing hash join... [4.90487s] Building seed filter... [0.129387s] Searching alignments... [41.7621s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.2948s] Building query seed array... [3.8882s] Computing hash join... [4.89331s] Building seed filter... [0.129913s] Searching alignments... [41.339s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.40097s] Building query seed array... [3.25982s] Computing hash join... [4.90396s] Building seed filter... [0.128286s] Searching alignments... [41.7666s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.33788s] Building query seed array... [3.06657s] Computing hash join... [4.82354s] Building seed filter... [0.124412s] Searching alignments... [32.7269s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.1103s] Building query seed array... [3.48285s] Computing hash join... [4.82262s] Building seed filter... [0.12668s] Searching alignments... [32.8458s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.742s] Building query seed array... [3.55844s] Computing hash join... [4.74451s] Building seed filter... [0.127667s] Searching alignments... [32.5604s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.44937s] Building query seed array... [2.9844s] Computing hash join... [4.67501s] Building seed filter... [0.128414s] Searching alignments... [32.0328s] Deallocating buffers... [0.10493s] Opening temporary output file... [0.000995s] Computing alignments... [65.3114s] Deallocating reference... [0.072792s] Loading reference sequences... [313.525s] Masking reference... [57.8683s] Initializing temporary storage... [0.004144s] Building reference histograms... [13.1268s] Allocating buffers... [0.000811s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.75904s] Building query seed array... [3.21775s] Computing hash join... [4.94974s] Building seed filter... [0.124498s] Searching alignments... [45.6527s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.6502s] Building query seed array... [3.80041s] Computing hash join... [4.85283s] Building seed filter... [0.126608s] Searching alignments... [45.0415s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.4532s] Building query seed array... [3.84612s] Computing hash join... [4.83751s] Building seed filter... [0.131389s] Searching alignments... [44.9314s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.66653s] Building query seed array... [3.22045s] Computing hash join... [4.8493s] Building seed filter... [0.13009s] Searching alignments... [43.9791s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.57871s] Building query seed array... [3.02335s] Computing hash join... [4.73954s] Building seed filter... [0.124374s] Searching alignments... [34.9904s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.7558s] Building query seed array... [3.45715s] Computing hash join... [4.73379s] Building seed filter... [0.129725s] Searching alignments... [34.8881s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [11.9927s] Building query seed array... [3.39852s] Computing hash join... [4.71011s] Building seed filter... [0.133245s] Searching alignments... [34.89s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.45072s] Building query seed array... [2.98452s] Computing hash join... [4.73907s] Building seed filter... [0.124545s] Searching alignments... [34.6122s] Deallocating buffers... [0.11051s] Opening temporary output file... [0.001051s] Computing alignments... [65.5607s] Deallocating reference... [0.06314s] Loading reference sequences... [308.959s] Masking reference... [57.8144s] Initializing temporary storage... [0.004046s] Building reference histograms... [12.6757s] Allocating buffers... [0.000843s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.7635s] Building query seed array... [3.26647s] Computing hash join... [4.84378s] Building seed filter... [0.135112s] Searching alignments... [47.7784s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.1986s] Building query seed array... [3.62454s] Computing hash join... [4.90076s] Building seed filter... [0.126459s] Searching alignments... [44.7739s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.3224s] Building query seed array... [3.73151s] Computing hash join... [4.87696s] Building seed filter... [0.130823s] Searching alignments... [44.1147s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.51524s] Building query seed array... [3.16579s] Computing hash join... [4.9504s] Building seed filter... [0.132051s] Searching alignments... [43.6155s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.3724s] Building query seed array... [2.98072s] Computing hash join... [4.70691s] Building seed filter... [0.133006s] Searching alignments... [35.2899s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.5798s] Building query seed array... [3.39375s] Computing hash join... [4.66099s] Building seed filter... [0.130498s] Searching alignments... [34.6791s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.312s] Building query seed array... [3.51182s] Computing hash join... [4.75031s] Building seed filter... [0.127889s] Searching alignments... [34.707s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.30691s] Building query seed array... [3.04261s] Computing hash join... [4.79567s] Building seed filter... [0.129044s] Searching alignments... [34.1577s] Deallocating buffers... [0.106171s] Opening temporary output file... [0.00039s] Computing alignments... [67.621s] Deallocating reference... [0.062233s] Loading reference sequences... [134.424s] Masking reference... [21.1517s] Initializing temporary storage... [0.004085s] Building reference histograms... [5.26356s] Allocating buffers... [0.000312s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.6997s] Building query seed array... [3.25987s] Computing hash join... [2.32409s] Building seed filter... [0.099993s] Searching alignments... [19.6217s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.64468s] Building query seed array... [3.46083s] Computing hash join... [2.26981s] Building seed filter... [0.08499s] Searching alignments... [18.4333s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.89656s] Building query seed array... [3.73446s] Computing hash join... [2.29493s] Building seed filter... [0.090407s] Searching alignments... [18.0986s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.56467s] Building query seed array... [3.25122s] Computing hash join... [2.29918s] Building seed filter... [0.083346s] Searching alignments... [17.7523s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.625s] Building query seed array... [3.02009s] Computing hash join... [2.17137s] Building seed filter... [0.0809s] Searching alignments... [13.8411s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.53358s] Building query seed array... [3.41435s] Computing hash join... [2.18911s] Building seed filter... [0.086965s] Searching alignments... [14.2762s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.78645s] Building query seed array... [3.47546s] Computing hash join... [2.20865s] Building seed filter... [0.079955s] Searching alignments... [14.342s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.50667s] Building query seed array... [2.9385s] Computing hash join... [2.20779s] Building seed filter... [0.085455s] Searching alignments... [13.8672s] Deallocating buffers... [0.042746s] Opening temporary output file... [0.001027s] Computing alignments... [63.1654s] Deallocating reference... [0.027757s] Loading reference sequences... [5.2e-05s] Deallocating buffers... [0.014294s] Joining output blocks... [2.5961s] Deallocating queries... [0.062815s] Loading query sequences... [2.9e-05s] Closing the input file... [4.1e-05s] Closing the output file... [0.055523s] Closing the database file... [2.6e-05s] Deallocating taxonomy... [1e-05s] Total time = 5393.85s Reported 1577931 pairwise alignments, 1578117 HSPs. 216291 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 35F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.4s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.8s) Total reads: 216,291 With hits: 216,291 Alignments: 1,578,117 Assig. Taxonomy: 216,291 Assig. EGGNOG: 989 Assig. INTERPRO2GO: 1,100 MinSupport set to: 108 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 968 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 78 Class. EGGNOG: 487 Class. INTERPRO2GO: 439 Total time: 16s Peak memory: 6.7 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/36F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 1831f25f97836d08be5a3965d8ab4577 /gscratch/srlab/sam/data/C_virginica/BSseq/36F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.039527s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006258s] Opening the output file... [0.000333s] Loading query sequences... [168.942s] Masking queries... [86.9042s] Building query seed set... [0.564022s] Algorithm: Double-indexed Building query histograms... [5.05054s] Allocating buffers... [0.000847s] Loading reference sequences... [42.7647s] Masking reference... [57.5196s] Initializing temporary storage... [0.005952s] Building reference histograms... [13.1388s] Allocating buffers... [0.00033s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.91094s] Building query seed array... [3.66233s] Computing hash join... [4.91953s] Building seed filter... [0.122328s] Searching alignments... [53.5437s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.2708s] Building query seed array... [4.14559s] Computing hash join... [4.89622s] Building seed filter... [0.123559s] Searching alignments... [53.3733s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.7446s] Building query seed array... [4.11632s] Computing hash join... [4.86415s] Building seed filter... [0.123488s] Searching alignments... [51.1055s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.31s] Building query seed array... [3.48082s] Computing hash join... [4.84586s] Building seed filter... [0.124342s] Searching alignments... [52.0895s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.84509s] Building query seed array... [3.42937s] Computing hash join... [4.67073s] Building seed filter... [0.11663s] Searching alignments... [38.833s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.2775s] Building query seed array... [3.78021s] Computing hash join... [4.76522s] Building seed filter... [0.14498s] Searching alignments... [41.2568s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.721s] Building query seed array... [3.87313s] Computing hash join... [4.72608s] Building seed filter... [0.129779s] Searching alignments... [40.656s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.23088s] Building query seed array... [3.34299s] Computing hash join... [4.58743s] Building seed filter... [0.131191s] Searching alignments... [37.1616s] Deallocating buffers... [0.121635s] Opening temporary output file... [0.000595s] Computing alignments... [65.8848s] Deallocating reference... [0.074148s] Loading reference sequences... [362.817s] Masking reference... [57.737s] Initializing temporary storage... [0.004111s] Building reference histograms... [12.3523s] Allocating buffers... [0.000825s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.69517s] Building query seed array... [3.75638s] Computing hash join... [4.92805s] Building seed filter... [0.131959s] Searching alignments... [49.8586s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.0599s] Building query seed array... [4.05581s] Computing hash join... [4.87154s] Building seed filter... [0.143336s] Searching alignments... [48.9921s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.9249s] Building query seed array... [4.60818s] Computing hash join... [4.80694s] Building seed filter... [0.136236s] Searching alignments... [46.8733s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.13183s] Building query seed array... [3.59217s] Computing hash join... [4.86633s] Building seed filter... [0.131309s] Searching alignments... [48.7967s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.63131s] Building query seed array... [3.42436s] Computing hash join... [4.63819s] Building seed filter... [0.120522s] Searching alignments... [37.3038s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.6713s] Building query seed array... [3.81662s] Computing hash join... [4.63138s] Building seed filter... [0.117388s] Searching alignments... [38.3649s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.4699s] Building query seed array... [3.7271s] Computing hash join... [4.76985s] Building seed filter... [0.113821s] Searching alignments... [37.536s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.50087s] Building query seed array... [3.27746s] Computing hash join... [4.72975s] Building seed filter... [0.116532s] Searching alignments... [36.9248s] Deallocating buffers... [0.120369s] Opening temporary output file... [0.001153s] Computing alignments... [65.8617s] Deallocating reference... [0.070887s] Loading reference sequences... [338.362s] Masking reference... [57.54s] Initializing temporary storage... [0.14117s] Building reference histograms... [13.1473s] Allocating buffers... [0.00082s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.70526s] Building query seed array... [3.59741s] Computing hash join... [4.89258s] Building seed filter... [0.122226s] Searching alignments... [51.4128s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.8682s] Building query seed array... [4.1721s] Computing hash join... [4.91839s] Building seed filter... [0.117768s] Searching alignments... [48.9883s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.6205s] Building query seed array... [4.07198s] Computing hash join... [4.84452s] Building seed filter... [0.127711s] Searching alignments... [48.1687s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.37441s] Building query seed array... [3.62022s] Computing hash join... [4.85403s] Building seed filter... [0.127655s] Searching alignments... [47.9611s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.49741s] Building query seed array... [3.36197s] Computing hash join... [4.71192s] Building seed filter... [0.121541s] Searching alignments... [36.6371s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.0144s] Building query seed array... [3.7767s] Computing hash join... [4.60148s] Building seed filter... [0.129192s] Searching alignments... [38.7832s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [11.9153s] Building query seed array... [3.91501s] Computing hash join... [4.70967s] Building seed filter... [0.114139s] Searching alignments... [38.6831s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.74716s] Building query seed array... [3.36643s] Computing hash join... [4.82708s] Building seed filter... [0.130697s] Searching alignments... [37.7532s] Deallocating buffers... [0.123713s] Opening temporary output file... [0.000524s] Computing alignments... [65.6539s] Deallocating reference... [0.073285s] Loading reference sequences... [320.85s] Masking reference... [59.3077s] Initializing temporary storage... [0.005397s] Building reference histograms... [13.3177s] Allocating buffers... [0.000913s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.75272s] Building query seed array... [3.65487s] Computing hash join... [4.94821s] Building seed filter... [0.136048s] Searching alignments... [53.2461s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.3157s] Building query seed array... [4.25758s] Computing hash join... [4.93806s] Building seed filter... [0.125737s] Searching alignments... [52.7237s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.4259s] Building query seed array... [4.27626s] Computing hash join... [4.83882s] Building seed filter... [0.127934s] Searching alignments... [50.3408s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [8.94996s] Building query seed array... [3.48186s] Computing hash join... [4.81075s] Building seed filter... [0.120871s] Searching alignments... [52.3651s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.55601s] Building query seed array... [3.46615s] Computing hash join... [4.68964s] Building seed filter... [0.119616s] Searching alignments... [39.3759s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.0625s] Building query seed array... [3.7435s] Computing hash join... [4.67059s] Building seed filter... [0.130019s] Searching alignments... [41.2012s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.4804s] Building query seed array... [3.93479s] Computing hash join... [4.66033s] Building seed filter... [0.122228s] Searching alignments... [41.2191s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.6551s] Building query seed array... [3.34218s] Computing hash join... [4.62935s] Building seed filter... [0.136504s] Searching alignments... [39.7427s] Deallocating buffers... [0.117377s] Opening temporary output file... [0.000996s] Computing alignments... [66.3441s] Deallocating reference... [0.063058s] Loading reference sequences... [309.792s] Masking reference... [57.6386s] Initializing temporary storage... [0.004096s] Building reference histograms... [13.031s] Allocating buffers... [0.000866s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.9011s] Building query seed array... [3.67704s] Computing hash join... [4.9463s] Building seed filter... [0.121489s] Searching alignments... [52.4391s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.2509s] Building query seed array... [4.10551s] Computing hash join... [4.8352s] Building seed filter... [0.124001s] Searching alignments... [52.0347s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.438s] Building query seed array... [4.04044s] Computing hash join... [4.83839s] Building seed filter... [0.125137s] Searching alignments... [50.3575s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.54816s] Building query seed array... [3.57888s] Computing hash join... [4.85122s] Building seed filter... [0.124404s] Searching alignments... [51.9039s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.38308s] Building query seed array... [3.3265s] Computing hash join... [4.61237s] Building seed filter... [0.11468s] Searching alignments... [39.8301s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.5384s] Building query seed array... [3.89512s] Computing hash join... [4.66094s] Building seed filter... [0.142479s] Searching alignments... [40.6699s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.2647s] Building query seed array... [3.83644s] Computing hash join... [4.65963s] Building seed filter... [0.131055s] Searching alignments... [39.8477s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.33049s] Building query seed array... [3.30316s] Computing hash join... [4.68635s] Building seed filter... [0.127811s] Searching alignments... [39.177s] Deallocating buffers... [0.105025s] Opening temporary output file... [0.001023s] Computing alignments... [67.9007s] Deallocating reference... [0.062724s] Loading reference sequences... [135.517s] Masking reference... [21.3955s] Initializing temporary storage... [0.003979s] Building reference histograms... [5.06822s] Allocating buffers... [0.00032s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.74661s] Building query seed array... [3.59735s] Computing hash join... [2.31736s] Building seed filter... [0.08255s] Searching alignments... [23.1279s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.64081s] Building query seed array... [3.89728s] Computing hash join... [2.34154s] Building seed filter... [0.090883s] Searching alignments... [21.6922s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.98197s] Building query seed array... [4.14587s] Computing hash join... [2.3504s] Building seed filter... [0.081078s] Searching alignments... [21.1476s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.57373s] Building query seed array... [3.57507s] Computing hash join... [2.34262s] Building seed filter... [0.085023s] Searching alignments... [21.866s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.59687s] Building query seed array... [3.3258s] Computing hash join... [2.20758s] Building seed filter... [0.082319s] Searching alignments... [15.856s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.59104s] Building query seed array... [3.71917s] Computing hash join... [2.2293s] Building seed filter... [0.084756s] Searching alignments... [16.8641s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.75331s] Building query seed array... [3.85755s] Computing hash join... [2.24135s] Building seed filter... [0.085094s] Searching alignments... [16.5117s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.5334s] Building query seed array... [3.2829s] Computing hash join... [2.20314s] Building seed filter... [0.085444s] Searching alignments... [16.0751s] Deallocating buffers... [0.042886s] Opening temporary output file... [0.402609s] Computing alignments... [65.4207s] Deallocating reference... [0.028157s] Loading reference sequences... [4.3e-05s] Deallocating buffers... [0.015894s] Joining output blocks... [2.72536s] Deallocating queries... [0.068433s] Loading query sequences... [2.8e-05s] Closing the input file... [3.9e-05s] Closing the output file... [0.077241s] Closing the database file... [4.4e-05s] Deallocating taxonomy... [2.1e-05s] Total time = 5369.54s Reported 2048048 pairwise alignments, 2048482 HSPs. 272721 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 36F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.6s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (7.0s) Total reads: 272,721 With hits: 272,721 Alignments: 2,048,482 Assig. Taxonomy: 272,721 Assig. EGGNOG: 1,454 Assig. INTERPRO2GO: 1,762 MinSupport set to: 136 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 895 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 82 Class. EGGNOG: 610 Class. INTERPRO2GO: 509 Total time: 17s Peak memory: 4.4 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/36F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... e979e39cb89bc32c2dba830a32522f16 /gscratch/srlab/sam/data/C_virginica/BSseq/36F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000206s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006827s] Opening the output file... [0.000297s] Loading query sequences... [167.634s] Masking queries... [84.9328s] Building query seed set... [0.528337s] Algorithm: Double-indexed Building query histograms... [5.09221s] Allocating buffers... [0.000837s] Loading reference sequences... [374.235s] Masking reference... [58.6855s] Initializing temporary storage... [0.005781s] Building reference histograms... [13.5172s] Allocating buffers... [0.000337s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.46164s] Building query seed array... [3.46805s] Computing hash join... [4.98293s] Building seed filter... [0.130775s] Searching alignments... [47.1943s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.7004s] Building query seed array... [3.84329s] Computing hash join... [5.11054s] Building seed filter... [0.135843s] Searching alignments... [47.0923s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.3261s] Building query seed array... [4.04945s] Computing hash join... [4.92183s] Building seed filter... [0.137476s] Searching alignments... [46.3685s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.24833s] Building query seed array... [3.29984s] Computing hash join... [4.87212s] Building seed filter... [0.14262s] Searching alignments... [45.9223s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.20689s] Building query seed array... [3.18993s] Computing hash join... [4.69715s] Building seed filter... [0.139897s] Searching alignments... [36.4094s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.132s] Building query seed array... [3.61764s] Computing hash join... [4.7386s] Building seed filter... [0.133067s] Searching alignments... [36.4763s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.2154s] Building query seed array... [3.39295s] Computing hash join... [4.75561s] Building seed filter... [0.142339s] Searching alignments... [36.235s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.40609s] Building query seed array... [2.94288s] Computing hash join... [4.78354s] Building seed filter... [0.13148s] Searching alignments... [35.8243s] Deallocating buffers... [0.102157s] Opening temporary output file... [0.000511s] Computing alignments... [66.9965s] Deallocating reference... [0.074s] Loading reference sequences... [352.015s] Masking reference... [57.8886s] Initializing temporary storage... [0.004019s] Building reference histograms... [13.4906s] Allocating buffers... [0.000328s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.83826s] Building query seed array... [3.36713s] Computing hash join... [4.93409s] Building seed filter... [0.128177s] Searching alignments... [43.8351s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.7716s] Building query seed array... [3.8934s] Computing hash join... [4.9875s] Building seed filter... [0.137153s] Searching alignments... [43.031s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.7646s] Building query seed array... [3.91578s] Computing hash join... [4.97539s] Building seed filter... [0.136169s] Searching alignments... [42.516s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.439s] Building query seed array... [3.29636s] Computing hash join... [4.9316s] Building seed filter... [0.129574s] Searching alignments... [41.7485s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.61128s] Building query seed array... [3.16134s] Computing hash join... [4.77123s] Building seed filter... [0.126413s] Searching alignments... [33.5614s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.8894s] Building query seed array... [3.57085s] Computing hash join... [4.66414s] Building seed filter... [0.130766s] Searching alignments... [33.9719s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.0475s] Building query seed array... [3.66394s] Computing hash join... [4.76871s] Building seed filter... [0.125667s] Searching alignments... [33.6015s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.1929s] Building query seed array... [3.09951s] Computing hash join... [4.71617s] Building seed filter... [0.130459s] Searching alignments... [33.1109s] Deallocating buffers... [0.106166s] Opening temporary output file... [0.000999s] Computing alignments... [66.2474s] Deallocating reference... [0.070068s] Loading reference sequences... [347.857s] Masking reference... [57.9885s] Initializing temporary storage... [0.005242s] Building reference histograms... [12.865s] Allocating buffers... [0.000323s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.70203s] Building query seed array... [3.39543s] Computing hash join... [4.95846s] Building seed filter... [0.143089s] Searching alignments... [45.9559s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.2294s] Building query seed array... [3.94017s] Computing hash join... [4.94374s] Building seed filter... [0.140105s] Searching alignments... [43.6444s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.3025s] Building query seed array... [3.78282s] Computing hash join... [4.90008s] Building seed filter... [0.138787s] Searching alignments... [43.7374s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.32109s] Building query seed array... [3.28075s] Computing hash join... [4.85589s] Building seed filter... [0.137986s] Searching alignments... [42.9156s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.1976s] Building query seed array... [3.05818s] Computing hash join... [4.72342s] Building seed filter... [0.125287s] Searching alignments... [33.9092s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.9459s] Building query seed array... [3.61531s] Computing hash join... [4.88179s] Building seed filter... [0.135257s] Searching alignments... [33.9506s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.0398s] Building query seed array... [3.64337s] Computing hash join... [4.7499s] Building seed filter... [0.131226s] Searching alignments... [33.6819s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.65906s] Building query seed array... [3.19003s] Computing hash join... [4.69571s] Building seed filter... [0.131002s] Searching alignments... [34.0246s] Deallocating buffers... [0.106481s] Opening temporary output file... [0.000409s] Computing alignments... [65.4402s] Deallocating reference... [0.068789s] Loading reference sequences... [321.36s] Masking reference... [57.535s] Initializing temporary storage... [0.004106s] Building reference histograms... [13.5136s] Allocating buffers... [0.000314s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.52295s] Building query seed array... [3.40091s] Computing hash join... [4.87755s] Building seed filter... [0.140152s] Searching alignments... [46.896s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.1233s] Building query seed array... [3.85709s] Computing hash join... [4.97388s] Building seed filter... [0.129348s] Searching alignments... [47.0051s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.3296s] Building query seed array... [3.84688s] Computing hash join... [4.89504s] Building seed filter... [0.12947s] Searching alignments... [46.8497s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.44071s] Building query seed array... [3.39897s] Computing hash join... [4.83876s] Building seed filter... [0.133391s] Searching alignments... [46.0114s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.21373s] Building query seed array... [3.22559s] Computing hash join... [4.70458s] Building seed filter... [0.128766s] Searching alignments... [36.3705s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.1993s] Building query seed array... [3.58487s] Computing hash join... [4.75417s] Building seed filter... [0.131574s] Searching alignments... [36.3577s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.19s] Building query seed array... [3.52177s] Computing hash join... [4.81796s] Building seed filter... [0.135321s] Searching alignments... [36.2909s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.28874s] Building query seed array... [3.09247s] Computing hash join... [4.73608s] Building seed filter... [0.133163s] Searching alignments... [36.2122s] Deallocating buffers... [0.114208s] Opening temporary output file... [0.001046s] Computing alignments... [65.2735s] Deallocating reference... [0.06391s] Loading reference sequences... [313.309s] Masking reference... [57.8369s] Initializing temporary storage... [0.0041s] Building reference histograms... [13.174s] Allocating buffers... [0.000315s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.61366s] Building query seed array... [3.44285s] Computing hash join... [4.97946s] Building seed filter... [0.144265s] Searching alignments... [47.0424s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.085s] Building query seed array... [3.71688s] Computing hash join... [4.98042s] Building seed filter... [0.127816s] Searching alignments... [46.2527s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.3462s] Building query seed array... [4.00105s] Computing hash join... [4.99705s] Building seed filter... [0.147546s] Searching alignments... [45.8876s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.4292s] Building query seed array... [3.4029s] Computing hash join... [4.85828s] Building seed filter... [0.130781s] Searching alignments... [45.6214s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.86088s] Building query seed array... [3.27163s] Computing hash join... [4.72852s] Building seed filter... [0.124519s] Searching alignments... [36.1969s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.5598s] Building query seed array... [3.59439s] Computing hash join... [4.78559s] Building seed filter... [0.134287s] Searching alignments... [36.5552s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.0879s] Building query seed array... [3.48224s] Computing hash join... [4.79874s] Building seed filter... [0.130184s] Searching alignments... [36.1468s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.36402s] Building query seed array... [3.0768s] Computing hash join... [4.83857s] Building seed filter... [0.132728s] Searching alignments... [35.8727s] Deallocating buffers... [0.103593s] Opening temporary output file... [0.000546s] Computing alignments... [68.8918s] Deallocating reference... [0.061601s] Loading reference sequences... [135.381s] Masking reference... [21.1378s] Initializing temporary storage... [0.00403s] Building reference histograms... [4.99576s] Allocating buffers... [0.000331s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.64931s] Building query seed array... [3.37887s] Computing hash join... [2.37961s] Building seed filter... [0.086081s] Searching alignments... [20.2123s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.79802s] Building query seed array... [4.01001s] Computing hash join... [2.36358s] Building seed filter... [0.082651s] Searching alignments... [19.3451s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.55576s] Building query seed array... [3.7601s] Computing hash join... [2.3538s] Building seed filter... [0.099223s] Searching alignments... [19.0977s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.6635s] Building query seed array... [3.37545s] Computing hash join... [2.33865s] Building seed filter... [0.083937s] Searching alignments... [18.9104s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.75289s] Building query seed array... [3.06581s] Computing hash join... [2.1892s] Building seed filter... [0.088373s] Searching alignments... [14.8145s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.69493s] Building query seed array... [3.52856s] Computing hash join... [2.20884s] Building seed filter... [0.080966s] Searching alignments... [14.8299s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.70986s] Building query seed array... [3.54796s] Computing hash join... [2.24325s] Building seed filter... [0.082642s] Searching alignments... [14.5892s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.68961s] Building query seed array... [3.14453s] Computing hash join... [2.19883s] Building seed filter... [0.079957s] Searching alignments... [14.4526s] Deallocating buffers... [0.042043s] Opening temporary output file... [0.000966s] Computing alignments... [66.3847s] Deallocating reference... [0.030201s] Loading reference sequences... [4.9e-05s] Deallocating buffers... [0.013903s] Joining output blocks... [2.54214s] Deallocating queries... [0.068365s] Loading query sequences... [2.9e-05s] Closing the input file... [4e-05s] Closing the output file... [0.048048s] Closing the database file... [3.6e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 5488.55s Reported 1579194 pairwise alignments, 1579478 HSPs. 229322 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 36F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.2s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.9s) Total reads: 229,322 With hits: 229,322 Alignments: 1,579,478 Assig. Taxonomy: 229,322 Assig. EGGNOG: 1,051 Assig. INTERPRO2GO: 1,053 MinSupport set to: 114 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 837 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 84 Class. EGGNOG: 523 Class. INTERPRO2GO: 420 Total time: 17s Peak memory: 6.7 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/39F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 1f857c9bdbdac0a151790ffb17ecad12 /gscratch/srlab/sam/data/C_virginica/BSseq/39F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.040072s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.007365s] Opening the output file... [0.000362s] Loading query sequences... [161.196s] Masking queries... [83.1696s] Building query seed set... [0.537351s] Algorithm: Double-indexed Building query histograms... [4.96095s] Allocating buffers... [0.000827s] Loading reference sequences... [44.2707s] Masking reference... [59.1908s] Initializing temporary storage... [0.00588s] Building reference histograms... [13.2264s] Allocating buffers... [0.000343s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.66942s] Building query seed array... [3.49586s] Computing hash join... [4.87695s] Building seed filter... [0.115235s] Searching alignments... [48.3471s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.1455s] Building query seed array... [3.81067s] Computing hash join... [4.93449s] Building seed filter... [0.120494s] Searching alignments... [50.7356s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.7275s] Building query seed array... [3.9225s] Computing hash join... [4.82636s] Building seed filter... [0.12438s] Searching alignments... [47.8022s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.53474s] Building query seed array... [3.28642s] Computing hash join... [4.78142s] Building seed filter... [0.126557s] Searching alignments... [47.421s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.14683s] Building query seed array... [3.15296s] Computing hash join... [4.66523s] Building seed filter... [0.123467s] Searching alignments... [37.2965s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9361s] Building query seed array... [3.58327s] Computing hash join... [4.612s] Building seed filter... [0.115444s] Searching alignments... [38.388s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.4186s] Building query seed array... [3.64303s] Computing hash join... [4.72875s] Building seed filter... [0.115434s] Searching alignments... [38.0649s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.44552s] Building query seed array... [3.23028s] Computing hash join... [4.72178s] Building seed filter... [0.122303s] Searching alignments... [33.9955s] Deallocating buffers... [0.108565s] Opening temporary output file... [0.000515s] Computing alignments... [64.0097s] Deallocating reference... [0.074089s] Loading reference sequences... [46.0051s] Masking reference... [57.5698s] Initializing temporary storage... [0.005241s] Building reference histograms... [12.9934s] Allocating buffers... [0.000818s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.95758s] Building query seed array... [3.46073s] Computing hash join... [4.80751s] Building seed filter... [0.124843s] Searching alignments... [46.73s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.0887s] Building query seed array... [3.67912s] Computing hash join... [4.79994s] Building seed filter... [0.122513s] Searching alignments... [45.8217s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.3999s] Building query seed array... [4.23118s] Computing hash join... [4.78934s] Building seed filter... [0.131934s] Searching alignments... [43.7532s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.57877s] Building query seed array... [3.30278s] Computing hash join... [4.82447s] Building seed filter... [0.124956s] Searching alignments... [44.9275s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.27261s] Building query seed array... [3.24825s] Computing hash join... [4.60609s] Building seed filter... [0.115819s] Searching alignments... [34.3997s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.8047s] Building query seed array... [3.59249s] Computing hash join... [4.63284s] Building seed filter... [0.12619s] Searching alignments... [35.1425s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.3795s] Building query seed array... [3.76414s] Computing hash join... [4.74137s] Building seed filter... [0.11722s] Searching alignments... [35.6705s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.67116s] Building query seed array... [3.16691s] Computing hash join... [4.58094s] Building seed filter... [0.125274s] Searching alignments... [31.4828s] Deallocating buffers... [0.105604s] Opening temporary output file... [0.000626s] Computing alignments... [63.467s] Deallocating reference... [0.06959s] Loading reference sequences... [52.3806s] Masking reference... [57.8384s] Initializing temporary storage... [0.00459s] Building reference histograms... [13.2001s] Allocating buffers... [0.000858s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.48363s] Building query seed array... [3.35845s] Computing hash join... [4.81429s] Building seed filter... [0.122363s] Searching alignments... [48.1513s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.1776s] Building query seed array... [3.90965s] Computing hash join... [4.83594s] Building seed filter... [0.117373s] Searching alignments... [47.3061s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.1356s] Building query seed array... [3.97341s] Computing hash join... [4.73935s] Building seed filter... [0.128888s] Searching alignments... [43.9292s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.32594s] Building query seed array... [3.39491s] Computing hash join... [4.68992s] Building seed filter... [0.12904s] Searching alignments... [45.3918s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.23514s] Building query seed array... [3.63192s] Computing hash join... [4.63096s] Building seed filter... [0.122333s] Searching alignments... [35.1018s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.5081s] Building query seed array... [3.61825s] Computing hash join... [4.67521s] Building seed filter... [0.113895s] Searching alignments... [35.974s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.5186s] Building query seed array... [3.63731s] Computing hash join... [4.5932s] Building seed filter... [0.128275s] Searching alignments... [36.2058s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.68013s] Building query seed array... [3.20414s] Computing hash join... [4.6109s] Building seed filter... [0.12687s] Searching alignments... [32.0664s] Deallocating buffers... [0.104614s] Opening temporary output file... [0.000508s] Computing alignments... [63.7222s] Deallocating reference... [0.070197s] Loading reference sequences... [320.823s] Masking reference... [59.3672s] Initializing temporary storage... [0.003988s] Building reference histograms... [13.542s] Allocating buffers... [0.000897s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.94651s] Building query seed array... [3.40439s] Computing hash join... [4.78014s] Building seed filter... [0.120019s] Searching alignments... [49.3914s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.0844s] Building query seed array... [3.8455s] Computing hash join... [4.76297s] Building seed filter... [0.121559s] Searching alignments... [49.9235s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.8644s] Building query seed array... [4.01883s] Computing hash join... [4.7876s] Building seed filter... [0.123221s] Searching alignments... [47.3677s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.13825s] Building query seed array... [3.31677s] Computing hash join... [4.75764s] Building seed filter... [0.120189s] Searching alignments... [48.6636s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.47076s] Building query seed array... [3.2203s] Computing hash join... [4.70386s] Building seed filter... [0.11459s] Searching alignments... [37.3951s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.9976s] Building query seed array... [3.67289s] Computing hash join... [4.66674s] Building seed filter... [0.116605s] Searching alignments... [38.3568s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.6853s] Building query seed array... [3.73673s] Computing hash join... [4.74598s] Building seed filter... [0.126115s] Searching alignments... [38.702s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.16419s] Building query seed array... [3.25295s] Computing hash join... [4.58463s] Building seed filter... [0.113283s] Searching alignments... [35.5331s] Deallocating buffers... [0.105707s] Opening temporary output file... [0.000812s] Computing alignments... [66.7258s] Deallocating reference... [0.067568s] Loading reference sequences... [307.675s] Masking reference... [57.4907s] Initializing temporary storage... [0.00394s] Building reference histograms... [13.4306s] Allocating buffers... [0.000828s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.74479s] Building query seed array... [3.45658s] Computing hash join... [4.85941s] Building seed filter... [0.136408s] Searching alignments... [52.8712s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.308s] Building query seed array... [3.84077s] Computing hash join... [4.82745s] Building seed filter... [0.124842s] Searching alignments... [49.4353s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.7501s] Building query seed array... [3.90652s] Computing hash join... [4.75188s] Building seed filter... [0.132513s] Searching alignments... [46.7491s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.6086s] Building query seed array... [3.41063s] Computing hash join... [4.74686s] Building seed filter... [0.123344s] Searching alignments... [47.0465s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.71285s] Building query seed array... [3.24974s] Computing hash join... [4.74115s] Building seed filter... [0.121423s] Searching alignments... [37.1962s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.6583s] Building query seed array... [3.56105s] Computing hash join... [4.64268s] Building seed filter... [0.114913s] Searching alignments... [38.3574s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.0163s] Building query seed array... [3.6654s] Computing hash join... [4.63069s] Building seed filter... [0.122433s] Searching alignments... [37.851s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.11469s] Building query seed array... [3.2409s] Computing hash join... [5.1212s] Building seed filter... [0.123543s] Searching alignments... [34.9189s] Deallocating buffers... [0.120717s] Opening temporary output file... [0.00056s] Computing alignments... [64.8231s] Deallocating reference... [0.06111s] Loading reference sequences... [134.236s] Masking reference... [21.2077s] Initializing temporary storage... [0.004003s] Building reference histograms... [4.9876s] Allocating buffers... [0.000326s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.62883s] Building query seed array... [3.41827s] Computing hash join... [2.27326s] Building seed filter... [0.0854s] Searching alignments... [21.691s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.54216s] Building query seed array... [3.88748s] Computing hash join... [2.23877s] Building seed filter... [0.078095s] Searching alignments... [20.6828s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.73761s] Building query seed array... [3.84713s] Computing hash join... [2.31172s] Building seed filter... [0.086185s] Searching alignments... [19.834s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.6628s] Building query seed array... [3.33478s] Computing hash join... [2.24797s] Building seed filter... [0.081184s] Searching alignments... [20.0733s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.56778s] Building query seed array... [3.11814s] Computing hash join... [2.09378s] Building seed filter... [0.075561s] Searching alignments... [15.2152s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.6802s] Building query seed array... [3.52036s] Computing hash join... [2.10974s] Building seed filter... [0.074656s] Searching alignments... [15.6739s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.58779s] Building query seed array... [3.50883s] Computing hash join... [2.14635s] Building seed filter... [0.074458s] Searching alignments... [15.3171s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.5213s] Building query seed array... [3.21748s] Computing hash join... [2.11442s] Building seed filter... [0.079564s] Searching alignments... [13.6517s] Deallocating buffers... [0.041141s] Opening temporary output file... [0.00091s] Computing alignments... [62.6427s] Deallocating reference... [0.030189s] Loading reference sequences... [5.1e-05s] Deallocating buffers... [0.013881s] Joining output blocks... [2.64587s] Deallocating queries... [0.064605s] Loading query sequences... [3.8e-05s] Closing the input file... [4.8e-05s] Closing the output file... [0.054553s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 4596.32s Reported 2282131 pairwise alignments, 2282596 HSPs. 252364 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 39F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.2s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (7.5s) Total reads: 252,364 With hits: 252,364 Alignments: 2,282,596 Assig. Taxonomy: 252,363 Assig. EGGNOG: 1,513 Assig. INTERPRO2GO: 2,067 MinSupport set to: 126 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 898 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 87 Class. EGGNOG: 533 Class. INTERPRO2GO: 455 Total time: 18s Peak memory: 6.8 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/39F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 9f21ffe5779cb5a8326f13466b311e6c /gscratch/srlab/sam/data/C_virginica/BSseq/39F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000212s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006857s] Opening the output file... [0.00031s] Loading query sequences... [165.778s] Masking queries... [85.2852s] Building query seed set... [0.644281s] Algorithm: Double-indexed Building query histograms... [4.9547s] Allocating buffers... [0.00083s] Loading reference sequences... [366.804s] Masking reference... [57.4273s] Initializing temporary storage... [0.004566s] Building reference histograms... [13.3044s] Allocating buffers... [0.000344s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.77147s] Building query seed array... [3.3048s] Computing hash join... [4.98679s] Building seed filter... [0.144848s] Searching alignments... [43.449s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.3249s] Building query seed array... [3.5153s] Computing hash join... [4.9449s] Building seed filter... [0.131715s] Searching alignments... [43.3882s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.4166s] Building query seed array... [3.62982s] Computing hash join... [4.8784s] Building seed filter... [0.134027s] Searching alignments... [42.9644s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.58284s] Building query seed array... [3.20995s] Computing hash join... [4.91618s] Building seed filter... [0.136763s] Searching alignments... [42.9183s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.43333s] Building query seed array... [3.02858s] Computing hash join... [4.80007s] Building seed filter... [0.126221s] Searching alignments... [33.5505s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.8537s] Building query seed array... [3.41235s] Computing hash join... [4.72303s] Building seed filter... [0.125155s] Searching alignments... [33.5988s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.3227s] Building query seed array... [3.34455s] Computing hash join... [4.61499s] Building seed filter... [0.139845s] Searching alignments... [33.6748s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.60794s] Building query seed array... [2.92665s] Computing hash join... [4.64426s] Building seed filter... [0.129966s] Searching alignments... [33.0023s] Deallocating buffers... [0.106113s] Opening temporary output file... [0.001018s] Computing alignments... [64.3424s] Deallocating reference... [0.075174s] Loading reference sequences... [348.082s] Masking reference... [57.546s] Initializing temporary storage... [0.004052s] Building reference histograms... [12.5638s] Allocating buffers... [0.000311s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.48424s] Building query seed array... [3.2145s] Computing hash join... [4.88319s] Building seed filter... [0.149348s] Searching alignments... [40.6537s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [11.8494s] Building query seed array... [3.54125s] Computing hash join... [4.8833s] Building seed filter... [0.145052s] Searching alignments... [39.7018s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.0037s] Building query seed array... [3.61958s] Computing hash join... [4.9548s] Building seed filter... [0.14727s] Searching alignments... [39.0143s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.66935s] Building query seed array... [3.21393s] Computing hash join... [4.91484s] Building seed filter... [0.131984s] Searching alignments... [39.1317s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.6731s] Building query seed array... [2.96295s] Computing hash join... [4.67608s] Building seed filter... [0.124075s] Searching alignments... [30.9957s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.2174s] Building query seed array... [3.38129s] Computing hash join... [4.79939s] Building seed filter... [0.127462s] Searching alignments... [30.834s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [11.9152s] Building query seed array... [3.42328s] Computing hash join... [4.77895s] Building seed filter... [0.130087s] Searching alignments... [30.9289s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.58227s] Building query seed array... [2.95131s] Computing hash join... [4.66703s] Building seed filter... [0.139106s] Searching alignments... [30.5761s] Deallocating buffers... [0.105398s] Opening temporary output file... [0.001053s] Computing alignments... [63.6483s] Deallocating reference... [0.07004s] Loading reference sequences... [350.024s] Masking reference... [57.4988s] Initializing temporary storage... [0.003933s] Building reference histograms... [13.0994s] Allocating buffers... [0.000309s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.68465s] Building query seed array... [3.24763s] Computing hash join... [4.92635s] Building seed filter... [0.130307s] Searching alignments... [42.8112s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.0572s] Building query seed array... [3.55383s] Computing hash join... [4.86388s] Building seed filter... [0.143485s] Searching alignments... [40.4442s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.0596s] Building query seed array... [3.49604s] Computing hash join... [4.8093s] Building seed filter... [0.147933s] Searching alignments... [39.5829s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.53497s] Building query seed array... [3.12494s] Computing hash join... [4.83224s] Building seed filter... [0.124571s] Searching alignments... [39.2162s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.21562s] Building query seed array... [2.89873s] Computing hash join... [4.7892s] Building seed filter... [0.124847s] Searching alignments... [31.2886s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.6999s] Building query seed array... [3.44245s] Computing hash join... [4.77016s] Building seed filter... [0.122181s] Searching alignments... [31.4688s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.1902s] Building query seed array... [3.43978s] Computing hash join... [4.8233s] Building seed filter... [0.131721s] Searching alignments... [31.5657s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.31511s] Building query seed array... [2.97549s] Computing hash join... [4.69969s] Building seed filter... [0.132643s] Searching alignments... [31.0705s] Deallocating buffers... [0.112014s] Opening temporary output file... [0.001058s] Computing alignments... [64.8501s] Deallocating reference... [0.069787s] Loading reference sequences... [321.173s] Masking reference... [57.6291s] Initializing temporary storage... [0.003813s] Building reference histograms... [13.0851s] Allocating buffers... [0.000333s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [10.052s] Building query seed array... [3.25135s] Computing hash join... [4.95979s] Building seed filter... [0.139015s] Searching alignments... [43.8573s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.2928s] Building query seed array... [3.42357s] Computing hash join... [4.83369s] Building seed filter... [0.139017s] Searching alignments... [42.8376s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.1025s] Building query seed array... [3.74292s] Computing hash join... [4.75371s] Building seed filter... [0.130166s] Searching alignments... [43.4225s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.24148s] Building query seed array... [3.13089s] Computing hash join... [4.83566s] Building seed filter... [0.130116s] Searching alignments... [42.1029s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.90121s] Building query seed array... [3.02878s] Computing hash join... [4.72906s] Building seed filter... [0.128087s] Searching alignments... [33.6846s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.7781s] Building query seed array... [3.42637s] Computing hash join... [4.66759s] Building seed filter... [0.150281s] Searching alignments... [33.4855s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.2458s] Building query seed array... [3.47094s] Computing hash join... [4.74106s] Building seed filter... [0.123263s] Searching alignments... [33.4556s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.11771s] Building query seed array... [2.9783s] Computing hash join... [4.58736s] Building seed filter... [0.1476s] Searching alignments... [33.2917s] Deallocating buffers... [0.105903s] Opening temporary output file... [0.001s] Computing alignments... [64.6124s] Deallocating reference... [0.063213s] Loading reference sequences... [306.838s] Masking reference... [57.5508s] Initializing temporary storage... [0.003907s] Building reference histograms... [13.4127s] Allocating buffers... [0.000316s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.47296s] Building query seed array... [3.18378s] Computing hash join... [4.95466s] Building seed filter... [0.133188s] Searching alignments... [45.7864s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.2206s] Building query seed array... [3.58149s] Computing hash join... [4.86088s] Building seed filter... [0.131442s] Searching alignments... [42.8823s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.37s] Building query seed array... [3.63065s] Computing hash join... [4.85855s] Building seed filter... [0.14459s] Searching alignments... [42.7473s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.90046s] Building query seed array... [3.03292s] Computing hash join... [4.8772s] Building seed filter... [0.131659s] Searching alignments... [42.3976s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.60395s] Building query seed array... [2.96651s] Computing hash join... [4.65268s] Building seed filter... [0.129014s] Searching alignments... [33.749s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.1s] Building query seed array... [3.38847s] Computing hash join... [4.7574s] Building seed filter... [0.139131s] Searching alignments... [33.2647s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.1986s] Building query seed array... [3.36521s] Computing hash join... [4.71373s] Building seed filter... [0.133789s] Searching alignments... [32.968s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.34004s] Building query seed array... [2.92846s] Computing hash join... [4.57929s] Building seed filter... [0.133171s] Searching alignments... [33.0525s] Deallocating buffers... [0.106034s] Opening temporary output file... [0.000967s] Computing alignments... [66.3658s] Deallocating reference... [0.061796s] Loading reference sequences... [132.019s] Masking reference... [21.2587s] Initializing temporary storage... [0.00461s] Building reference histograms... [5.04312s] Allocating buffers... [0.000311s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.62974s] Building query seed array... [3.17783s] Computing hash join... [2.2562s] Building seed filter... [0.082615s] Searching alignments... [19.3006s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.57729s] Building query seed array... [3.48643s] Computing hash join... [2.25287s] Building seed filter... [0.08299s] Searching alignments... [17.8229s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.9022s] Building query seed array... [3.70954s] Computing hash join... [2.25131s] Building seed filter... [0.081735s] Searching alignments... [17.7542s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.82235s] Building query seed array... [3.10177s] Computing hash join... [2.26079s] Building seed filter... [0.084205s] Searching alignments... [17.617s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.86872s] Building query seed array... [2.9966s] Computing hash join... [2.12661s] Building seed filter... [0.079662s] Searching alignments... [13.401s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.6612s] Building query seed array... [3.30947s] Computing hash join... [2.09371s] Building seed filter... [0.078573s] Searching alignments... [13.4762s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.55162s] Building query seed array... [3.38137s] Computing hash join... [2.13599s] Building seed filter... [0.080387s] Searching alignments... [13.5719s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.56984s] Building query seed array... [2.91011s] Computing hash join... [2.15257s] Building seed filter... [0.083342s] Searching alignments... [13.4427s] Deallocating buffers... [0.039537s] Opening temporary output file... [0.00093s] Computing alignments... [63.8803s] Deallocating reference... [0.027608s] Loading reference sequences... [4.6e-05s] Deallocating buffers... [0.014217s] Joining output blocks... [2.22708s] Deallocating queries... [0.062864s] Loading query sequences... [2.6e-05s] Closing the input file... [3.8e-05s] Closing the output file... [0.035436s] Closing the database file... [2.6e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 5307.91s Reported 1485929 pairwise alignments, 1486154 HSPs. 194609 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 39F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.3s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.2s) Total reads: 194,609 With hits: 194,609 Alignments: 1,486,154 Assig. Taxonomy: 194,609 Assig. EGGNOG: 864 Assig. INTERPRO2GO: 975 MinSupport set to: 97 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 790 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (1.0s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 85 Class. EGGNOG: 445 Class. INTERPRO2GO: 362 Total time: 16s Peak memory: 6 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/3F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... ba2bbdae91b956c40fe49380b4a23137 /gscratch/srlab/sam/data/C_virginica/BSseq/3F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.099981s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.007571s] Opening the output file... [0.00039s] Loading query sequences... [197.977s] Masking queries... [120.392s] Building query seed set... [0.744813s] Algorithm: Double-indexed Building query histograms... [6.29302s] Allocating buffers... [0.000834s] Loading reference sequences... [43.0751s] Masking reference... [57.6329s] Initializing temporary storage... [0.004606s] Building reference histograms... [13.3016s] Allocating buffers... [0.000327s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.63197s] Building query seed array... [4.28401s] Computing hash join... [5.2668s] Building seed filter... [0.141707s] Searching alignments... [57.8912s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [11.6178s] Building query seed array... [4.8168s] Computing hash join... [5.08015s] Building seed filter... [0.135004s] Searching alignments... [61.2812s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.3543s] Building query seed array... [4.79841s] Computing hash join... [5.14787s] Building seed filter... [0.153252s] Searching alignments... [59.1323s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.53814s] Building query seed array... [4.27015s] Computing hash join... [5.02415s] Building seed filter... [0.133093s] Searching alignments... [61.8809s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.19898s] Building query seed array... [4.11417s] Computing hash join... [4.941s] Building seed filter... [0.124356s] Searching alignments... [44.0094s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9445s] Building query seed array... [4.51225s] Computing hash join... [4.96402s] Building seed filter... [0.122629s] Searching alignments... [46.2791s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.328s] Building query seed array... [4.63972s] Computing hash join... [4.95702s] Building seed filter... [0.12915s] Searching alignments... [44.0331s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.64986s] Building query seed array... [3.84891s] Computing hash join... [4.87725s] Building seed filter... [0.127748s] Searching alignments... [43.5348s] Deallocating buffers... [0.120277s] Opening temporary output file... [0.000603s] Computing alignments... [79.4749s] Deallocating reference... [0.07513s] Loading reference sequences... [44.1068s] Masking reference... [57.9879s] Initializing temporary storage... [0.004686s] Building reference histograms... [13.1465s] Allocating buffers... [0.000321s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.80599s] Building query seed array... [4.29365s] Computing hash join... [5.09824s] Building seed filter... [0.12998s] Searching alignments... [55.4347s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.7488s] Building query seed array... [4.79674s] Computing hash join... [5.0657s] Building seed filter... [0.125591s] Searching alignments... [58.2991s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.3812s] Building query seed array... [5.4331s] Computing hash join... [5.17148s] Building seed filter... [0.127133s] Searching alignments... [52.8184s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.29443s] Building query seed array... [4.11717s] Computing hash join... [5.02432s] Building seed filter... [0.126163s] Searching alignments... [57.8894s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.59108s] Building query seed array... [3.99284s] Computing hash join... [4.92538s] Building seed filter... [0.130723s] Searching alignments... [40.3846s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.8875s] Building query seed array... [4.52941s] Computing hash join... [4.94358s] Building seed filter... [0.119343s] Searching alignments... [42.3236s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.2559s] Building query seed array... [4.62988s] Computing hash join... [4.82832s] Building seed filter... [0.118396s] Searching alignments... [40.0943s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.50537s] Building query seed array... [3.88686s] Computing hash join... [4.83821s] Building seed filter... [0.132102s] Searching alignments... [39.8167s] Deallocating buffers... [0.10569s] Opening temporary output file... [0.000903s] Computing alignments... [81.8121s] Deallocating reference... [0.069351s] Loading reference sequences... [344.626s] Masking reference... [57.5924s] Initializing temporary storage... [0.004062s] Building reference histograms... [13.3691s] Allocating buffers... [0.000331s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.76453s] Building query seed array... [4.31115s] Computing hash join... [5.13487s] Building seed filter... [0.131365s] Searching alignments... [55.3254s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.9221s] Building query seed array... [4.84399s] Computing hash join... [5.02606s] Building seed filter... [0.12057s] Searching alignments... [57.9121s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.0586s] Building query seed array... [4.70876s] Computing hash join... [5.06258s] Building seed filter... [0.123967s] Searching alignments... [48.76s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.52353s] Building query seed array... [4.19588s] Computing hash join... [5.00632s] Building seed filter... [0.126101s] Searching alignments... [57.1476s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.3468s] Building query seed array... [4.0911s] Computing hash join... [4.86168s] Building seed filter... [0.121022s] Searching alignments... [41.917s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.0789s] Building query seed array... [4.76143s] Computing hash join... [4.86661s] Building seed filter... [0.127023s] Searching alignments... [43.284s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.2992s] Building query seed array... [4.56813s] Computing hash join... [4.89882s] Building seed filter... [0.120303s] Searching alignments... [40.3657s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.28359s] Building query seed array... [3.92549s] Computing hash join... [4.8422s] Building seed filter... [0.130781s] Searching alignments... [42.7296s] Deallocating buffers... [0.1058s] Opening temporary output file... [0.000607s] Computing alignments... [80.6926s] Deallocating reference... [0.068434s] Loading reference sequences... [314.43s] Masking reference... [57.805s] Initializing temporary storage... [0.004574s] Building reference histograms... [12.8703s] Allocating buffers... [0.000329s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.9745s] Building query seed array... [4.20321s] Computing hash join... [5.17354s] Building seed filter... [0.148431s] Searching alignments... [58.0651s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.641s] Building query seed array... [4.80567s] Computing hash join... [5.07293s] Building seed filter... [0.125917s] Searching alignments... [61.5559s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.3373s] Building query seed array... [4.76082s] Computing hash join... [5.14169s] Building seed filter... [0.135833s] Searching alignments... [56.449s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [10.1508s] Building query seed array... [4.18182s] Computing hash join... [5.10655s] Building seed filter... [0.131461s] Searching alignments... [61.1656s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.64304s] Building query seed array... [4.11774s] Computing hash join... [4.9754s] Building seed filter... [0.122081s] Searching alignments... [44.8101s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.7575s] Building query seed array... [4.59633s] Computing hash join... [4.89566s] Building seed filter... [0.123954s] Searching alignments... [47.0429s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.4506s] Building query seed array... [4.51761s] Computing hash join... [4.88268s] Building seed filter... [0.123894s] Searching alignments... [44.3242s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.25173s] Building query seed array... [4.05296s] Computing hash join... [4.82709s] Building seed filter... [0.12893s] Searching alignments... [44.8729s] Deallocating buffers... [0.108704s] Opening temporary output file... [0.000997s] Computing alignments... [82.2069s] Deallocating reference... [0.064172s] Loading reference sequences... [305.913s] Masking reference... [58.7604s] Initializing temporary storage... [0.004194s] Building reference histograms... [12.9633s] Allocating buffers... [0.000329s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.88534s] Building query seed array... [4.14406s] Computing hash join... [5.05838s] Building seed filter... [0.13425s] Searching alignments... [58.9088s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.2353s] Building query seed array... [4.829s] Computing hash join... [5.02238s] Building seed filter... [0.125368s] Searching alignments... [60.6956s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.9503s] Building query seed array... [4.74929s] Computing hash join... [5.08591s] Building seed filter... [0.125142s] Searching alignments... [51.5194s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.65376s] Building query seed array... [4.08606s] Computing hash join... [5.04387s] Building seed filter... [0.126444s] Searching alignments... [59.0341s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.3699s] Building query seed array... [4.06401s] Computing hash join... [4.90508s] Building seed filter... [0.125604s] Searching alignments... [44.3126s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.2511s] Building query seed array... [4.54929s] Computing hash join... [4.99513s] Building seed filter... [0.123475s] Searching alignments... [45.2274s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.2251s] Building query seed array... [4.70568s] Computing hash join... [4.84103s] Building seed filter... [0.123157s] Searching alignments... [44.0667s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [8.95572s] Building query seed array... [3.87824s] Computing hash join... [4.93663s] Building seed filter... [0.127733s] Searching alignments... [42.0717s] Deallocating buffers... [0.106692s] Opening temporary output file... [0.001076s] Computing alignments... [81.7498s] Deallocating reference... [0.062384s] Loading reference sequences... [134.825s] Masking reference... [21.5463s] Initializing temporary storage... [0.003937s] Building reference histograms... [4.9282s] Allocating buffers... [0.000286s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.6183s] Building query seed array... [4.19197s] Computing hash join... [2.50924s] Building seed filter... [0.082394s] Searching alignments... [25.8221s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.61231s] Building query seed array... [4.73069s] Computing hash join... [2.47223s] Building seed filter... [0.079043s] Searching alignments... [25.47s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.71346s] Building query seed array... [4.59046s] Computing hash join... [2.47026s] Building seed filter... [0.083559s] Searching alignments... [21.2937s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.69375s] Building query seed array... [4.08918s] Computing hash join... [2.50415s] Building seed filter... [0.080328s] Searching alignments... [25.8312s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.76578s] Building query seed array... [4.06551s] Computing hash join... [2.33757s] Building seed filter... [0.076782s] Searching alignments... [18.3627s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.67089s] Building query seed array... [4.53235s] Computing hash join... [2.35323s] Building seed filter... [0.077244s] Searching alignments... [19.372s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.78747s] Building query seed array... [4.42531s] Computing hash join... [2.29445s] Building seed filter... [0.080068s] Searching alignments... [17.1422s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.67397s] Building query seed array... [4.00878s] Computing hash join... [2.30858s] Building seed filter... [0.07628s] Searching alignments... [17.2568s] Deallocating buffers... [0.042133s] Opening temporary output file... [0.000978s] Computing alignments... [79.4484s] Deallocating reference... [0.02878s] Loading reference sequences... [4.6e-05s] Deallocating buffers... [0.019412s] Joining output blocks... [2.65397s] Deallocating queries... [0.076967s] Loading query sequences... [2.8e-05s] Closing the input file... [3.9e-05s] Closing the output file... [0.051084s] Closing the database file... [2.6e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 5476.97s Reported 2202582 pairwise alignments, 2202883 HSPs. 270595 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 3F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.7s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (6.9s) Total reads: 270,595 With hits: 270,595 Alignments: 2,202,883 Assig. Taxonomy: 270,595 Assig. EGGNOG: 1,427 Assig. INTERPRO2GO: 1,679 MinSupport set to: 135 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 948 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 92 Class. EGGNOG: 618 Class. INTERPRO2GO: 494 Total time: 18s Peak memory: 4.3 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/3F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 611fb9dd69045f4ecf284ffaa4c35b91 /gscratch/srlab/sam/data/C_virginica/BSseq/3F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000263s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006459s] Opening the output file... [0.00032s] Loading query sequences... [199.49s] Masking queries... [162.23s] Building query seed set... [0.71999s] Algorithm: Double-indexed Building query histograms... [5.99232s] Allocating buffers... [0.000839s] Loading reference sequences... [374.676s] Masking reference... [57.6656s] Initializing temporary storage... [0.004655s] Building reference histograms... [13.4957s] Allocating buffers... [0.000318s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [10.1121s] Building query seed array... [4.2198s] Computing hash join... [5.31397s] Building seed filter... [0.137106s] Searching alignments... [52.622s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.4707s] Building query seed array... [4.44667s] Computing hash join... [5.19649s] Building seed filter... [0.142084s] Searching alignments... [52.4872s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.6683s] Building query seed array... [4.65534s] Computing hash join... [5.15877s] Building seed filter... [0.142858s] Searching alignments... [51.873s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.15739s] Building query seed array... [4.13815s] Computing hash join... [5.05035s] Building seed filter... [0.148816s] Searching alignments... [51.611s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.37917s] Building query seed array... [3.81214s] Computing hash join... [4.95828s] Building seed filter... [0.145669s] Searching alignments... [40.6598s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.6684s] Building query seed array... [4.33164s] Computing hash join... [4.90757s] Building seed filter... [0.133547s] Searching alignments... [40.6738s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.2315s] Building query seed array... [4.23225s] Computing hash join... [4.88652s] Building seed filter... [0.143164s] Searching alignments... [40.5717s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.377s] Building query seed array... [3.63516s] Computing hash join... [4.98723s] Building seed filter... [0.138248s] Searching alignments... [41.4284s] Deallocating buffers... [0.121164s] Opening temporary output file... [0.000636s] Computing alignments... [78.9754s] Deallocating reference... [0.07848s] Loading reference sequences... [348.04s] Masking reference... [57.8743s] Initializing temporary storage... [0.00412s] Building reference histograms... [13.0257s] Allocating buffers... [0.000329s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.80932s] Building query seed array... [4.15682s] Computing hash join... [5.20419s] Building seed filter... [0.150021s] Searching alignments... [49.1206s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.2556s] Building query seed array... [4.48782s] Computing hash join... [5.13661s] Building seed filter... [0.155893s] Searching alignments... [49.8772s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.8828s] Building query seed array... [4.84084s] Computing hash join... [5.1831s] Building seed filter... [0.14893s] Searching alignments... [47.1961s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.3094s] Building query seed array... [4.09252s] Computing hash join... [5.1112s] Building seed filter... [0.136666s] Searching alignments... [47.4148s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.0277s] Building query seed array... [3.70256s] Computing hash join... [4.95625s] Building seed filter... [0.126002s] Searching alignments... [37.2668s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.7741s] Building query seed array... [4.20906s] Computing hash join... [4.94057s] Building seed filter... [0.134031s] Searching alignments... [37.742s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.0418s] Building query seed array... [4.215s] Computing hash join... [4.86504s] Building seed filter... [0.123898s] Searching alignments... [37.6914s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.35026s] Building query seed array... [3.65506s] Computing hash join... [4.83953s] Building seed filter... [0.132401s] Searching alignments... [38.2368s] Deallocating buffers... [0.12407s] Opening temporary output file... [0.001037s] Computing alignments... [82.9906s] Deallocating reference... [0.069806s] Loading reference sequences... [345.879s] Masking reference... [57.8079s] Initializing temporary storage... [0.004056s] Building reference histograms... [13.4247s] Allocating buffers... [0.000313s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.55609s] Building query seed array... [4.22546s] Computing hash join... [5.23057s] Building seed filter... [0.145304s] Searching alignments... [50.0581s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.4693s] Building query seed array... [4.66404s] Computing hash join... [5.14839s] Building seed filter... [0.140528s] Searching alignments... [48.7568s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.5498s] Building query seed array... [4.67778s] Computing hash join... [5.10034s] Building seed filter... [0.147516s] Searching alignments... [49.6068s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.578s] Building query seed array... [4.07881s] Computing hash join... [5.04702s] Building seed filter... [0.155469s] Searching alignments... [47.1442s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.48555s] Building query seed array... [3.93033s] Computing hash join... [4.8956s] Building seed filter... [0.144535s] Searching alignments... [37.815s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.1229s] Building query seed array... [4.13535s] Computing hash join... [4.84858s] Building seed filter... [0.128685s] Searching alignments... [38.391s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.6548s] Building query seed array... [4.35147s] Computing hash join... [4.99644s] Building seed filter... [0.128572s] Searching alignments... [38.0192s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.60357s] Building query seed array... [3.69682s] Computing hash join... [4.84515s] Building seed filter... [0.140721s] Searching alignments... [39.5872s] Deallocating buffers... [0.119267s] Opening temporary output file... [0.001031s] Computing alignments... [80.1376s] Deallocating reference... [0.06831s] Loading reference sequences... [330.405s] Masking reference... [58.1238s] Initializing temporary storage... [0.004587s] Building reference histograms... [13.2793s] Allocating buffers... [0.000317s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.68261s] Building query seed array... [4.04581s] Computing hash join... [5.09487s] Building seed filter... [0.144459s] Searching alignments... [52.4619s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.3657s] Building query seed array... [4.75943s] Computing hash join... [5.04816s] Building seed filter... [0.138441s] Searching alignments... [51.8905s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.3061s] Building query seed array... [4.52114s] Computing hash join... [5.14826s] Building seed filter... [0.143711s] Searching alignments... [51.5075s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.63255s] Building query seed array... [4.05208s] Computing hash join... [5.07671s] Building seed filter... [0.141766s] Searching alignments... [52.5123s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.45641s] Building query seed array... [3.65136s] Computing hash join... [4.98372s] Building seed filter... [0.134957s] Searching alignments... [39.7786s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.0634s] Building query seed array... [4.33773s] Computing hash join... [4.88731s] Building seed filter... [0.137571s] Searching alignments... [41.2634s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.8746s] Building query seed array... [4.3091s] Computing hash join... [4.94706s] Building seed filter... [0.133568s] Searching alignments... [41.1284s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.294s] Building query seed array... [3.73469s] Computing hash join... [4.9363s] Building seed filter... [0.128801s] Searching alignments... [40.1779s] Deallocating buffers... [0.111221s] Opening temporary output file... [0.001051s] Computing alignments... [78.864s] Deallocating reference... [0.065445s] Loading reference sequences... [309.573s] Masking reference... [58.0226s] Initializing temporary storage... [0.004017s] Building reference histograms... [13.0978s] Allocating buffers... [0.000312s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.88443s] Building query seed array... [4.0901s] Computing hash join... [5.15699s] Building seed filter... [0.136589s] Searching alignments... [52.7691s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.3828s] Building query seed array... [4.47336s] Computing hash join... [5.04897s] Building seed filter... [0.13798s] Searching alignments... [52.8498s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.7038s] Building query seed array... [4.55098s] Computing hash join... [5.05277s] Building seed filter... [0.144506s] Searching alignments... [50.9788s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.62996s] Building query seed array... [3.94014s] Computing hash join... [5.06825s] Building seed filter... [0.144335s] Searching alignments... [50.9461s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.5641s] Building query seed array... [3.80183s] Computing hash join... [4.97159s] Building seed filter... [0.134408s] Searching alignments... [40.3327s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.1006s] Building query seed array... [4.23865s] Computing hash join... [4.88387s] Building seed filter... [0.139995s] Searching alignments... [40.8833s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.4033s] Building query seed array... [4.28724s] Computing hash join... [4.92187s] Building seed filter... [0.131787s] Searching alignments... [39.6669s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.52107s] Building query seed array... [3.73561s] Computing hash join... [4.88134s] Building seed filter... [0.14508s] Searching alignments... [40.6856s] Deallocating buffers... [0.107058s] Opening temporary output file... [0.000596s] Computing alignments... [83.231s] Deallocating reference... [0.061975s] Loading reference sequences... [136.863s] Masking reference... [21.8695s] Initializing temporary storage... [0.005083s] Building reference histograms... [5.17747s] Allocating buffers... [0.00031s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.56361s] Building query seed array... [4.0583s] Computing hash join... [2.54507s] Building seed filter... [0.088566s] Searching alignments... [22.9072s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.56324s] Building query seed array... [4.7017s] Computing hash join... [2.48089s] Building seed filter... [0.091008s] Searching alignments... [21.4835s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.60694s] Building query seed array... [4.4542s] Computing hash join... [2.4931s] Building seed filter... [0.088656s] Searching alignments... [21.6563s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.65374s] Building query seed array... [3.86102s] Computing hash join... [2.48161s] Building seed filter... [0.090658s] Searching alignments... [21.6491s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.51347s] Building query seed array... [3.69064s] Computing hash join... [2.34376s] Building seed filter... [0.091446s] Searching alignments... [16.5168s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.66603s] Building query seed array... [4.32491s] Computing hash join... [2.35284s] Building seed filter... [0.090016s] Searching alignments... [16.546s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.75818s] Building query seed array... [4.2847s] Computing hash join... [2.3577s] Building seed filter... [0.085658s] Searching alignments... [16.4051s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.66758s] Building query seed array... [3.75976s] Computing hash join... [2.37514s] Building seed filter... [0.081009s] Searching alignments... [16.7347s] Deallocating buffers... [0.042845s] Opening temporary output file... [0.001003s] Computing alignments... [80.4485s] Deallocating reference... [0.0283s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.018394s] Joining output blocks... [2.49076s] Deallocating queries... [0.080008s] Loading query sequences... [2.9e-05s] Closing the input file... [3.9e-05s] Closing the output file... [0.053134s] Closing the database file... [4.1e-05s] Deallocating taxonomy... [1.8e-05s] Total time = 5942.77s Reported 1697813 pairwise alignments, 1698053 HSPs. 221821 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 3F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.2s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (6.3s) Total reads: 221,821 With hits: 221,821 Alignments: 1,698,053 Assig. Taxonomy: 221,821 Assig. EGGNOG: 1,103 Assig. INTERPRO2GO: 1,004 MinSupport set to: 110 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 909 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 91 Class. EGGNOG: 545 Class. INTERPRO2GO: 423 Total time: 17s Peak memory: 7.1 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/41F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 7eeb60fd7c40961127e98cb1ba85011a /gscratch/srlab/sam/data/C_virginica/BSseq/41F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.040347s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005531s] Opening the output file... [0.000293s] Loading query sequences... [125.514s] Masking queries... [69.0115s] Building query seed set... [0.430198s] Algorithm: Double-indexed Building query histograms... [3.68933s] Allocating buffers... [0.000822s] Loading reference sequences... [44.0038s] Masking reference... [58.3965s] Initializing temporary storage... [0.005781s] Building reference histograms... [13.2122s] Allocating buffers... [0.000335s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.83307s] Building query seed array... [2.64627s] Computing hash join... [4.76695s] Building seed filter... [0.125668s] Searching alignments... [37.647s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.4966s] Building query seed array... [2.98465s] Computing hash join... [4.64156s] Building seed filter... [0.121492s] Searching alignments... [37.507s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.3727s] Building query seed array... [3.10045s] Computing hash join... [4.65022s] Building seed filter... [0.116289s] Searching alignments... [36.7019s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.55048s] Building query seed array... [2.5654s] Computing hash join... [4.70652s] Building seed filter... [0.116444s] Searching alignments... [37.3521s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.52682s] Building query seed array... [2.36422s] Computing hash join... [4.51955s] Building seed filter... [0.109595s] Searching alignments... [28.8529s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.8239s] Building query seed array... [2.72294s] Computing hash join... [4.60479s] Building seed filter... [0.109948s] Searching alignments... [28.111s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.2493s] Building query seed array... [2.83541s] Computing hash join... [4.58123s] Building seed filter... [0.111175s] Searching alignments... [28.5419s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.43255s] Building query seed array... [2.47965s] Computing hash join... [4.66517s] Building seed filter... [0.109837s] Searching alignments... [29.4648s] Deallocating buffers... [0.105068s] Opening temporary output file... [0.001062s] Computing alignments... [50.266s] Deallocating reference... [0.078645s] Loading reference sequences... [346.511s] Masking reference... [57.562s] Initializing temporary storage... [0.090722s] Building reference histograms... [13.1051s] Allocating buffers... [0.000313s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.90048s] Building query seed array... [2.64429s] Computing hash join... [4.68367s] Building seed filter... [0.115725s] Searching alignments... [35.4299s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [11.9815s] Building query seed array... [3.03318s] Computing hash join... [4.64762s] Building seed filter... [0.117109s] Searching alignments... [35.036s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.1779s] Building query seed array... [3.03184s] Computing hash join... [4.6856s] Building seed filter... [0.111553s] Searching alignments... [34.2008s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.58893s] Building query seed array... [2.57158s] Computing hash join... [4.66388s] Building seed filter... [0.117259s] Searching alignments... [34.0448s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.40621s] Building query seed array... [2.41732s] Computing hash join... [4.53303s] Building seed filter... [0.125121s] Searching alignments... [26.3579s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.824s] Building query seed array... [2.73223s] Computing hash join... [4.48888s] Building seed filter... [0.117988s] Searching alignments... [26.2417s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.0985s] Building query seed array... [2.87561s] Computing hash join... [4.49931s] Building seed filter... [0.112207s] Searching alignments... [26.2907s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.17262s] Building query seed array... [2.39683s] Computing hash join... [4.48974s] Building seed filter... [0.118195s] Searching alignments... [27.7008s] Deallocating buffers... [0.113493s] Opening temporary output file... [0.001045s] Computing alignments... [51.5921s] Deallocating reference... [0.069085s] Loading reference sequences... [345.391s] Masking reference... [57.5943s] Initializing temporary storage... [0.004089s] Building reference histograms... [12.8079s] Allocating buffers... [0.000313s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.73609s] Building query seed array... [2.6615s] Computing hash join... [4.67612s] Building seed filter... [0.116814s] Searching alignments... [36.1416s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.0625s] Building query seed array... [3.02911s] Computing hash join... [4.71018s] Building seed filter... [0.115277s] Searching alignments... [34.8958s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [13.0917s] Building query seed array... [3.028s] Computing hash join... [4.62633s] Building seed filter... [0.122512s] Searching alignments... [34.796s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.7871s] Building query seed array... [2.74616s] Computing hash join... [4.62786s] Building seed filter... [0.114819s] Searching alignments... [35.0622s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.61612s] Building query seed array... [2.52355s] Computing hash join... [4.6116s] Building seed filter... [0.111709s] Searching alignments... [27.2779s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.805s] Building query seed array... [2.77524s] Computing hash join... [4.59099s] Building seed filter... [0.112427s] Searching alignments... [26.8045s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.3767s] Building query seed array... [2.91134s] Computing hash join... [4.51371s] Building seed filter... [0.10973s] Searching alignments... [26.8258s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.6191s] Building query seed array... [2.40392s] Computing hash join... [4.5828s] Building seed filter... [0.11683s] Searching alignments... [27.4702s] Deallocating buffers... [0.117149s] Opening temporary output file... [0.000935s] Computing alignments... [50.084s] Deallocating reference... [0.068171s] Loading reference sequences... [321.945s] Masking reference... [57.7589s] Initializing temporary storage... [0.004027s] Building reference histograms... [13.2613s] Allocating buffers... [0.00029s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [10.03s] Building query seed array... [2.70234s] Computing hash join... [4.67871s] Building seed filter... [0.116911s] Searching alignments... [38.2811s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.5048s] Building query seed array... [2.95126s] Computing hash join... [4.59573s] Building seed filter... [0.124884s] Searching alignments... [37.0703s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.5391s] Building query seed array... [2.92901s] Computing hash join... [4.67649s] Building seed filter... [0.112495s] Searching alignments... [37.0741s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [10.0078s] Building query seed array... [2.48511s] Computing hash join... [4.78647s] Building seed filter... [0.113752s] Searching alignments... [37.2743s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.52143s] Building query seed array... [2.49914s] Computing hash join... [4.58666s] Building seed filter... [0.113666s] Searching alignments... [28.5084s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.5743s] Building query seed array... [2.87449s] Computing hash join... [4.5145s] Building seed filter... [0.110023s] Searching alignments... [29.0977s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.1861s] Building query seed array... [2.87576s] Computing hash join... [4.63589s] Building seed filter... [0.120419s] Searching alignments... [28.8596s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.68926s] Building query seed array... [2.4317s] Computing hash join... [4.49639s] Building seed filter... [0.112521s] Searching alignments... [29.5866s] Deallocating buffers... [0.120704s] Opening temporary output file... [0.001045s] Computing alignments... [50.8918s] Deallocating reference... [0.063458s] Loading reference sequences... [312.74s] Masking reference... [57.8217s] Initializing temporary storage... [0.003966s] Building reference histograms... [13.5868s] Allocating buffers... [0.000334s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.61194s] Building query seed array... [2.73096s] Computing hash join... [4.7337s] Building seed filter... [0.11964s] Searching alignments... [37.6821s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.27s] Building query seed array... [2.9598s] Computing hash join... [4.75638s] Building seed filter... [0.117824s] Searching alignments... [36.8656s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.1339s] Building query seed array... [3.02859s] Computing hash join... [4.61381s] Building seed filter... [0.12897s] Searching alignments... [37.762s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.41507s] Building query seed array... [2.67996s] Computing hash join... [4.69448s] Building seed filter... [0.123709s] Searching alignments... [36.1999s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.26957s] Building query seed array... [2.48672s] Computing hash join... [4.56699s] Building seed filter... [0.122034s] Searching alignments... [29.145s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.3868s] Building query seed array... [2.71801s] Computing hash join... [4.5616s] Building seed filter... [0.115235s] Searching alignments... [28.3935s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.1582s] Building query seed array... [2.84901s] Computing hash join... [4.49736s] Building seed filter... [0.118862s] Searching alignments... [28.6768s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.86861s] Building query seed array... [2.34021s] Computing hash join... [4.53168s] Building seed filter... [0.11555s] Searching alignments... [28.7732s] Deallocating buffers... [0.104999s] Opening temporary output file... [0.000599s] Computing alignments... [50.3377s] Deallocating reference... [0.062532s] Loading reference sequences... [136.497s] Masking reference... [21.3293s] Initializing temporary storage... [0.003987s] Building reference histograms... [4.85306s] Allocating buffers... [0.000323s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.59417s] Building query seed array... [2.71537s] Computing hash join... [2.13647s] Building seed filter... [0.072284s] Searching alignments... [15.9817s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.61572s] Building query seed array... [3.02837s] Computing hash join... [2.13639s] Building seed filter... [0.074916s] Searching alignments... [15.1952s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.60935s] Building query seed array... [2.97662s] Computing hash join... [2.11235s] Building seed filter... [0.07163s] Searching alignments... [14.9875s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.61257s] Building query seed array... [2.46348s] Computing hash join... [2.1251s] Building seed filter... [0.078509s] Searching alignments... [15.4001s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.70261s] Building query seed array... [2.5288s] Computing hash join... [2.04649s] Building seed filter... [0.07464s] Searching alignments... [11.4643s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.64328s] Building query seed array... [2.81201s] Computing hash join... [2.0356s] Building seed filter... [0.071655s] Searching alignments... [11.3601s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.68742s] Building query seed array... [2.86923s] Computing hash join... [2.01947s] Building seed filter... [0.067384s] Searching alignments... [11.4631s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.63984s] Building query seed array... [2.44379s] Computing hash join... [2.01524s] Building seed filter... [0.069691s] Searching alignments... [12.0695s] Deallocating buffers... [0.041008s] Opening temporary output file... [0.010523s] Computing alignments... [48.1763s] Deallocating reference... [0.027542s] Loading reference sequences... [4.5e-05s] Deallocating buffers... [0.011187s] Joining output blocks... [2.20886s] Deallocating queries... [0.049234s] Loading query sequences... [2.9e-05s] Closing the input file... [4.2e-05s] Closing the output file... [0.060077s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 4596.62s Reported 1546230 pairwise alignments, 1546695 HSPs. 192979 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 41F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.5s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.1s) Total reads: 192,979 With hits: 192,979 Alignments: 1,546,695 Assig. Taxonomy: 192,979 Assig. EGGNOG: 1,141 Assig. INTERPRO2GO: 950 MinSupport set to: 96 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 849 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 90 Class. EGGNOG: 565 Class. INTERPRO2GO: 451 Total time: 15s Peak memory: 3.9 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/41F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 71ee87eb75ab38224c30d1373fd0f74c /gscratch/srlab/sam/data/C_virginica/BSseq/41F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000196s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.008282s] Opening the output file... [0.000297s] Loading query sequences... [125.395s] Masking queries... [99.0204s] Building query seed set... [0.436232s] Algorithm: Double-indexed Building query histograms... [3.88871s] Allocating buffers... [0.000833s] Loading reference sequences... [372.868s] Masking reference... [57.6005s] Initializing temporary storage... [0.003942s] Building reference histograms... [12.9767s] Allocating buffers... [0.000318s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.42978s] Building query seed array... [2.51274s] Computing hash join... [4.80009s] Building seed filter... [0.124125s] Searching alignments... [34.87s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [11.727s] Building query seed array... [2.97702s] Computing hash join... [4.76305s] Building seed filter... [0.117175s] Searching alignments... [34.0647s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [13.0463s] Building query seed array... [2.91006s] Computing hash join... [4.68142s] Building seed filter... [0.11696s] Searching alignments... [34.3614s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.36267s] Building query seed array... [2.51706s] Computing hash join... [4.7952s] Building seed filter... [0.135239s] Searching alignments... [33.5301s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.47137s] Building query seed array... [2.30406s] Computing hash join... [4.68254s] Building seed filter... [0.116018s] Searching alignments... [26.5239s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.1318s] Building query seed array... [2.63482s] Computing hash join... [4.57456s] Building seed filter... [0.116152s] Searching alignments... [26.7314s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.1526s] Building query seed array... [2.68051s] Computing hash join... [4.5869s] Building seed filter... [0.115158s] Searching alignments... [26.9821s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.53789s] Building query seed array... [2.38496s] Computing hash join... [4.6053s] Building seed filter... [0.121464s] Searching alignments... [26.5838s] Deallocating buffers... [0.122563s] Opening temporary output file... [0.001044s] Computing alignments... [50.4938s] Deallocating reference... [0.07623s] Loading reference sequences... [351.354s] Masking reference... [58.2146s] Initializing temporary storage... [0.004072s] Building reference histograms... [13.0893s] Allocating buffers... [0.000335s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.78562s] Building query seed array... [2.53525s] Computing hash join... [4.76861s] Building seed filter... [0.126945s] Searching alignments... [32.3611s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.3317s] Building query seed array... [2.88165s] Computing hash join... [4.68125s] Building seed filter... [0.124424s] Searching alignments... [31.7627s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.0726s] Building query seed array... [2.88455s] Computing hash join... [4.69237s] Building seed filter... [0.121076s] Searching alignments... [31.4285s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.33853s] Building query seed array... [2.43079s] Computing hash join... [4.71135s] Building seed filter... [0.124454s] Searching alignments... [31.2507s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [8.93034s] Building query seed array... [2.31181s] Computing hash join... [4.57435s] Building seed filter... [0.120059s] Searching alignments... [24.6684s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.0906s] Building query seed array... [2.68474s] Computing hash join... [4.5449s] Building seed filter... [0.120266s] Searching alignments... [24.651s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.0989s] Building query seed array... [2.66965s] Computing hash join... [4.51422s] Building seed filter... [0.112756s] Searching alignments... [24.5107s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.17928s] Building query seed array... [2.33327s] Computing hash join... [4.56805s] Building seed filter... [0.121973s] Searching alignments... [24.4677s] Deallocating buffers... [0.105371s] Opening temporary output file... [0.001051s] Computing alignments... [50.3032s] Deallocating reference... [0.070309s] Loading reference sequences... [342.429s] Masking reference... [57.9557s] Initializing temporary storage... [0.003996s] Building reference histograms... [12.8353s] Allocating buffers... [0.000312s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.57938s] Building query seed array... [2.57345s] Computing hash join... [4.77749s] Building seed filter... [0.128062s] Searching alignments... [32.5996s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.2205s] Building query seed array... [2.92024s] Computing hash join... [4.71466s] Building seed filter... [0.119317s] Searching alignments... [31.6228s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.7388s] Building query seed array... [2.88008s] Computing hash join... [4.59194s] Building seed filter... [0.119757s] Searching alignments... [31.533s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.96977s] Building query seed array... [2.45261s] Computing hash join... [4.66291s] Building seed filter... [0.118456s] Searching alignments... [31.2704s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.39898s] Building query seed array... [2.2978s] Computing hash join... [4.62198s] Building seed filter... [0.119189s] Searching alignments... [25.1296s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.9441s] Building query seed array... [2.58953s] Computing hash join... [4.62807s] Building seed filter... [0.115433s] Searching alignments... [24.645s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.2189s] Building query seed array... [2.69823s] Computing hash join... [4.62771s] Building seed filter... [0.115998s] Searching alignments... [24.7145s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.07977s] Building query seed array... [2.28196s] Computing hash join... [4.56648s] Building seed filter... [0.121444s] Searching alignments... [25.0673s] Deallocating buffers... [0.121067s] Opening temporary output file... [0.000976s] Computing alignments... [49.8399s] Deallocating reference... [0.069052s] Loading reference sequences... [321.962s] Masking reference... [57.9866s] Initializing temporary storage... [0.00398s] Building reference histograms... [13.4924s] Allocating buffers... [0.000329s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.85152s] Building query seed array... [2.56723s] Computing hash join... [4.73658s] Building seed filter... [0.118489s] Searching alignments... [34.1813s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [11.9572s] Building query seed array... [2.88158s] Computing hash join... [4.74226s] Building seed filter... [0.118192s] Searching alignments... [34.5346s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.5757s] Building query seed array... [2.94865s] Computing hash join... [4.63256s] Building seed filter... [0.119228s] Searching alignments... [33.8001s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.33439s] Building query seed array... [2.46259s] Computing hash join... [4.60332s] Building seed filter... [0.115646s] Searching alignments... [33.4151s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.55478s] Building query seed array... [2.31663s] Computing hash join... [4.61507s] Building seed filter... [0.115573s] Searching alignments... [26.5741s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.8787s] Building query seed array... [2.62626s] Computing hash join... [4.56591s] Building seed filter... [0.117865s] Searching alignments... [26.8431s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.284s] Building query seed array... [2.73771s] Computing hash join... [4.56373s] Building seed filter... [0.112642s] Searching alignments... [26.5375s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.16475s] Building query seed array... [2.28236s] Computing hash join... [4.61302s] Building seed filter... [0.122135s] Searching alignments... [26.6711s] Deallocating buffers... [0.105722s] Opening temporary output file... [0.000825s] Computing alignments... [51.0821s] Deallocating reference... [0.063837s] Loading reference sequences... [310.944s] Masking reference... [57.9863s] Initializing temporary storage... [0.005079s] Building reference histograms... [13.5755s] Allocating buffers... [0.00031s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.66312s] Building query seed array... [2.51403s] Computing hash join... [4.84404s] Building seed filter... [0.126138s] Searching alignments... [34.5276s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.6003s] Building query seed array... [2.87996s] Computing hash join... [4.68411s] Building seed filter... [0.125878s] Searching alignments... [35.0135s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.6501s] Building query seed array... [2.86547s] Computing hash join... [4.69583s] Building seed filter... [0.126062s] Searching alignments... [33.7824s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.23084s] Building query seed array... [2.42775s] Computing hash join... [4.72334s] Building seed filter... [0.119615s] Searching alignments... [33.1247s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.28433s] Building query seed array... [2.26241s] Computing hash join... [4.63125s] Building seed filter... [0.119785s] Searching alignments... [26.5422s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.0697s] Building query seed array... [2.65964s] Computing hash join... [4.60999s] Building seed filter... [0.119315s] Searching alignments... [26.4413s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.4985s] Building query seed array... [2.74795s] Computing hash join... [4.53818s] Building seed filter... [0.116807s] Searching alignments... [26.2482s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.2676s] Building query seed array... [2.29884s] Computing hash join... [4.60976s] Building seed filter... [0.119823s] Searching alignments... [26.3968s] Deallocating buffers... [0.106911s] Opening temporary output file... [0.001034s] Computing alignments... [49.8752s] Deallocating reference... [0.061686s] Loading reference sequences... [139.671s] Masking reference... [21.468s] Initializing temporary storage... [0.003959s] Building reference histograms... [5.094s] Allocating buffers... [0.000316s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.70996s] Building query seed array... [2.55901s] Computing hash join... [2.12888s] Building seed filter... [0.087978s] Searching alignments... [14.2277s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.49013s] Building query seed array... [2.7808s] Computing hash join... [2.15963s] Building seed filter... [0.074384s] Searching alignments... [13.878s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.70916s] Building query seed array... [2.90405s] Computing hash join... [2.10279s] Building seed filter... [0.076326s] Searching alignments... [14.1016s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.66915s] Building query seed array... [2.4651s] Computing hash join... [2.08845s] Building seed filter... [0.076514s] Searching alignments... [13.6429s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.68476s] Building query seed array... [2.56505s] Computing hash join... [2.03915s] Building seed filter... [0.069992s] Searching alignments... [10.7037s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.53214s] Building query seed array... [2.64998s] Computing hash join... [2.03309s] Building seed filter... [0.07127s] Searching alignments... [10.6882s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.77208s] Building query seed array... [2.65083s] Computing hash join... [2.02777s] Building seed filter... [0.070708s] Searching alignments... [10.6754s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.51774s] Building query seed array... [2.22427s] Computing hash join... [2.01506s] Building seed filter... [0.071743s] Searching alignments... [10.9013s] Deallocating buffers... [0.04164s] Opening temporary output file... [0.200498s] Computing alignments... [48.9173s] Deallocating reference... [0.028056s] Loading reference sequences... [4.5e-05s] Deallocating buffers... [0.011717s] Joining output blocks... [2.05463s] Deallocating queries... [0.062654s] Loading query sequences... [2.9e-05s] Closing the input file... [4.5e-05s] Closing the output file... [0.049183s] Closing the database file... [3e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 4833.11s Reported 1195775 pairwise alignments, 1196049 HSPs. 159363 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 41F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.5s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (4.4s) Total reads: 159,363 With hits: 159,363 Alignments: 1,196,049 Assig. Taxonomy: 159,363 Assig. EGGNOG: 859 Assig. INTERPRO2GO: 675 MinSupport set to: 79 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 815 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 94 Class. EGGNOG: 506 Class. INTERPRO2GO: 397 Total time: 15s Peak memory: 3.4 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/44F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... c2de23780406bd71532d939acbdc111b /gscratch/srlab/sam/data/C_virginica/BSseq/44F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.04775s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006377s] Opening the output file... [0.000337s] Loading query sequences... [220.983s] Masking queries... [111.691s] Building query seed set... [0.831247s] Algorithm: Double-indexed Building query histograms... [6.63129s] Allocating buffers... [0.00083s] Loading reference sequences... [44.0756s] Masking reference... [58.6333s] Initializing temporary storage... [0.005196s] Building reference histograms... [13.3338s] Allocating buffers... [0.000321s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [10.0521s] Building query seed array... [4.69991s] Computing hash join... [5.33299s] Building seed filter... [0.129976s] Searching alignments... [68.4601s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.0002s] Building query seed array... [5.1659s] Computing hash join... [5.09265s] Building seed filter... [0.14134s] Searching alignments... [68.6127s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.5054s] Building query seed array... [5.09189s] Computing hash join... [5.133s] Building seed filter... [0.139931s] Searching alignments... [66.5443s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.31848s] Building query seed array... [4.37912s] Computing hash join... [5.1409s] Building seed filter... [0.133339s] Searching alignments... [65.8151s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.38053s] Building query seed array... [4.3087s] Computing hash join... [4.93897s] Building seed filter... [0.136732s] Searching alignments... [52.6007s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.2793s] Building query seed array... [4.70825s] Computing hash join... [4.92842s] Building seed filter... [0.130784s] Searching alignments... [53.8885s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.0397s] Building query seed array... [4.89162s] Computing hash join... [4.95783s] Building seed filter... [0.132394s] Searching alignments... [52.8541s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.52823s] Building query seed array... [4.22239s] Computing hash join... [4.92752s] Building seed filter... [0.133681s] Searching alignments... [48.9575s] Deallocating buffers... [0.106649s] Opening temporary output file... [0.001043s] Computing alignments... [87.8579s] Deallocating reference... [0.075479s] Loading reference sequences... [352.504s] Masking reference... [58.3237s] Initializing temporary storage... [0.00469s] Building reference histograms... [13.6474s] Allocating buffers... [0.000327s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.6608s] Building query seed array... [4.6167s] Computing hash join... [5.13701s] Building seed filter... [0.139646s] Searching alignments... [63.8789s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.3496s] Building query seed array... [5.05825s] Computing hash join... [5.11586s] Building seed filter... [0.132682s] Searching alignments... [63.8245s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.5011s] Building query seed array... [5.34648s] Computing hash join... [5.06577s] Building seed filter... [0.150506s] Searching alignments... [61.9469s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.1373s] Building query seed array... [4.55003s] Computing hash join... [5.02603s] Building seed filter... [0.136381s] Searching alignments... [61.0698s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.47724s] Building query seed array... [4.41172s] Computing hash join... [4.89928s] Building seed filter... [0.13077s] Searching alignments... [47.7239s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.8917s] Building query seed array... [4.94975s] Computing hash join... [4.97515s] Building seed filter... [0.135185s] Searching alignments... [48.347s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.5527s] Building query seed array... [4.84433s] Computing hash join... [4.91385s] Building seed filter... [0.134516s] Searching alignments... [49.6295s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.19528s] Building query seed array... [4.37234s] Computing hash join... [4.85396s] Building seed filter... [0.143141s] Searching alignments... [44.3329s] Deallocating buffers... [0.110626s] Opening temporary output file... [0.001043s] Computing alignments... [86.2166s] Deallocating reference... [0.069879s] Loading reference sequences... [344.656s] Masking reference... [57.5s] Initializing temporary storage... [0.003993s] Building reference histograms... [13.159s] Allocating buffers... [0.000324s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.50892s] Building query seed array... [4.58253s] Computing hash join... [5.17058s] Building seed filter... [0.138232s] Searching alignments... [65.5301s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.1894s] Building query seed array... [4.98131s] Computing hash join... [5.11383s] Building seed filter... [0.129576s] Searching alignments... [64.5987s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.8009s] Building query seed array... [5.07505s] Computing hash join... [5.08364s] Building seed filter... [0.137138s] Searching alignments... [63.584s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.59597s] Building query seed array... [4.60061s] Computing hash join... [5.02159s] Building seed filter... [0.138675s] Searching alignments... [61.7836s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.21558s] Building query seed array... [4.388s] Computing hash join... [4.90448s] Building seed filter... [0.128511s] Searching alignments... [49.3084s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.2822s] Building query seed array... [4.77161s] Computing hash join... [4.8792s] Building seed filter... [0.125334s] Searching alignments... [49.7984s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.1346s] Building query seed array... [4.85622s] Computing hash join... [4.98862s] Building seed filter... [0.133638s] Searching alignments... [50.2385s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.0955s] Building query seed array... [4.22093s] Computing hash join... [4.98506s] Building seed filter... [0.132103s] Searching alignments... [45.3635s] Deallocating buffers... [0.112458s] Opening temporary output file... [0.000549s] Computing alignments... [87.9222s] Deallocating reference... [0.07008s] Loading reference sequences... [322.261s] Masking reference... [59.4278s] Initializing temporary storage... [0.004611s] Building reference histograms... [13.0429s] Allocating buffers... [0.00034s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.82175s] Building query seed array... [4.54129s] Computing hash join... [5.16694s] Building seed filter... [0.152293s] Searching alignments... [70.5898s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.0943s] Building query seed array... [4.98394s] Computing hash join... [5.04584s] Building seed filter... [0.13234s] Searching alignments... [68.9863s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.8129s] Building query seed array... [5.1982s] Computing hash join... [5.11259s] Building seed filter... [0.148604s] Searching alignments... [66.8818s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.16054s] Building query seed array... [4.47568s] Computing hash join... [5.12414s] Building seed filter... [0.139639s] Searching alignments... [67.2431s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.33811s] Building query seed array... [4.35753s] Computing hash join... [4.98658s] Building seed filter... [0.125332s] Searching alignments... [52.1975s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.482s] Building query seed array... [4.61897s] Computing hash join... [4.88254s] Building seed filter... [0.125957s] Searching alignments... [52.3818s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.7979s] Building query seed array... [5.03683s] Computing hash join... [4.8659s] Building seed filter... [0.133124s] Searching alignments... [52.9027s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.30241s] Building query seed array... [4.33044s] Computing hash join... [4.91417s] Building seed filter... [0.13521s] Searching alignments... [48.6849s] Deallocating buffers... [0.122907s] Opening temporary output file... [0.000512s] Computing alignments... [85.6251s] Deallocating reference... [0.064964s] Loading reference sequences... [310.634s] Masking reference... [57.5377s] Initializing temporary storage... [0.004028s] Building reference histograms... [13.5288s] Allocating buffers... [0.000312s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.895s] Building query seed array... [4.71118s] Computing hash join... [5.18238s] Building seed filter... [0.134099s] Searching alignments... [70.055s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.3058s] Building query seed array... [5.10203s] Computing hash join... [5.17057s] Building seed filter... [0.135065s] Searching alignments... [67.8354s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.1954s] Building query seed array... [5.42382s] Computing hash join... [5.15813s] Building seed filter... [0.130466s] Searching alignments... [66.8536s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.38861s] Building query seed array... [4.45051s] Computing hash join... [5.04609s] Building seed filter... [0.137036s] Searching alignments... [66.0528s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.74073s] Building query seed array... [4.30456s] Computing hash join... [4.98085s] Building seed filter... [0.131695s] Searching alignments... [52.5204s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.1456s] Building query seed array... [4.93508s] Computing hash join... [4.96611s] Building seed filter... [0.129375s] Searching alignments... [52.4186s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.1557s] Building query seed array... [4.92906s] Computing hash join... [4.92001s] Building seed filter... [0.137411s] Searching alignments... [52.6994s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.32913s] Building query seed array... [4.20452s] Computing hash join... [4.84296s] Building seed filter... [0.133009s] Searching alignments... [48.5388s] Deallocating buffers... [0.107794s] Opening temporary output file... [0.001052s] Computing alignments... [87.6138s] Deallocating reference... [0.061955s] Loading reference sequences... [139.884s] Masking reference... [21.2463s] Initializing temporary storage... [0.004257s] Building reference histograms... [4.96815s] Allocating buffers... [0.000311s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.68394s] Building query seed array... [4.65989s] Computing hash join... [2.59114s] Building seed filter... [0.090625s] Searching alignments... [28.9081s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.73569s] Building query seed array... [5.21073s] Computing hash join... [2.57021s] Building seed filter... [0.089183s] Searching alignments... [27.4503s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.88178s] Building query seed array... [4.98377s] Computing hash join... [2.5667s] Building seed filter... [0.095268s] Searching alignments... [27.828s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.61495s] Building query seed array... [4.47816s] Computing hash join... [2.53411s] Building seed filter... [0.09314s] Searching alignments... [27.6085s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.55823s] Building query seed array... [4.23205s] Computing hash join... [2.40087s] Building seed filter... [0.094956s] Searching alignments... [20.5656s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.58392s] Building query seed array... [4.79773s] Computing hash join... [2.38289s] Building seed filter... [0.084493s] Searching alignments... [20.8031s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.92329s] Building query seed array... [4.89243s] Computing hash join... [2.4135s] Building seed filter... [0.085324s] Searching alignments... [21.306s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.58013s] Building query seed array... [4.2669s] Computing hash join... [2.3677s] Building seed filter... [0.088304s] Searching alignments... [19.6747s] Deallocating buffers... [0.041804s] Opening temporary output file... [0.000996s] Computing alignments... [85.6898s] Deallocating reference... [0.029241s] Loading reference sequences... [5.1e-05s] Deallocating buffers... [0.019133s] Joining output blocks... [3.5415s] Deallocating queries... [0.087455s] Loading query sequences... [107.83s] Masking queries... [55.6888s] Building query seed set... [1.2e-05s] Building query histograms... [3.40451s] Allocating buffers... [0.000331s] Loading reference sequences... [371.085s] Masking reference... [58.8223s] Initializing temporary storage... [0.004135s] Building reference histograms... [12.7595s] Allocating buffers... [0.00031s] Processing query block 1, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.48447s] Building query seed array... [2.367s] Computing hash join... [4.52407s] Building seed filter... [0.108063s] Searching alignments... [34.2075s] Processing query block 1, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.0706s] Building query seed array... [2.89147s] Computing hash join... [4.53206s] Building seed filter... [0.101477s] Searching alignments... [34.3437s] Processing query block 1, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.459s] Building query seed array... [2.72367s] Computing hash join... [4.46404s] Building seed filter... [0.097801s] Searching alignments... [34.2219s] Processing query block 1, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.57759s] Building query seed array... [2.26069s] Computing hash join... [4.50527s] Building seed filter... [0.106398s] Searching alignments... [33.0173s] Processing query block 1, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.53114s] Building query seed array... [2.19886s] Computing hash join... [4.55656s] Building seed filter... [0.101847s] Searching alignments... [26.9743s] Processing query block 1, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.8279s] Building query seed array... [2.4456s] Computing hash join... [4.37967s] Building seed filter... [0.100695s] Searching alignments... [27.3765s] Processing query block 1, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.2632s] Building query seed array... [2.3931s] Computing hash join... [4.47423s] Building seed filter... [0.10968s] Searching alignments... [26.6612s] Processing query block 1, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.1818s] Building query seed array... [2.21006s] Computing hash join... [4.39083s] Building seed filter... [0.10115s] Searching alignments... [25.2653s] Deallocating buffers... [0.104471s] Opening temporary output file... [0.000437s] Computing alignments... [42.7535s] Deallocating reference... [0.075172s] Loading reference sequences... [367.022s] Masking reference... [57.7102s] Initializing temporary storage... [0.004284s] Building reference histograms... [13.0518s] Allocating buffers... [0.00033s] Processing query block 1, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.52068s] Building query seed array... [2.24353s] Computing hash join... [4.5134s] Building seed filter... [0.104979s] Searching alignments... [32.1665s] Processing query block 1, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.3973s] Building query seed array... [2.6448s] Computing hash join... [4.43696s] Building seed filter... [0.101134s] Searching alignments... [31.4815s] Processing query block 1, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.1304s] Building query seed array... [2.61933s] Computing hash join... [4.47751s] Building seed filter... [0.101246s] Searching alignments... [31.0606s] Processing query block 1, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.38142s] Building query seed array... [2.22847s] Computing hash join... [4.52229s] Building seed filter... [0.105639s] Searching alignments... [30.2573s] Processing query block 1, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.59313s] Building query seed array... [2.22004s] Computing hash join... [4.43333s] Building seed filter... [0.098009s] Searching alignments... [23.9636s] Processing query block 1, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.2362s] Building query seed array... [2.48174s] Computing hash join... [4.38202s] Building seed filter... [0.102119s] Searching alignments... [24.2787s] Processing query block 1, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.125s] Building query seed array... [2.4259s] Computing hash join... [4.37142s] Building seed filter... [0.101761s] Searching alignments... [24.4808s] Processing query block 1, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.31723s] Building query seed array... [2.20056s] Computing hash join... [4.36009s] Building seed filter... [0.102553s] Searching alignments... [22.6625s] Deallocating buffers... [0.103055s] Opening temporary output file... [0.000903s] Computing alignments... [41.756s] Deallocating reference... [0.06967s] Loading reference sequences... [344.355s] Masking reference... [58.0862s] Initializing temporary storage... [0.005149s] Building reference histograms... [12.7678s] Allocating buffers... [0.000324s] Processing query block 1, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.57729s] Building query seed array... [2.34982s] Computing hash join... [4.55305s] Building seed filter... [0.103702s] Searching alignments... [32.6029s] Processing query block 1, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.0452s] Building query seed array... [2.6214s] Computing hash join... [4.51721s] Building seed filter... [0.099117s] Searching alignments... [32.1328s] Processing query block 1, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.1614s] Building query seed array... [2.57065s] Computing hash join... [4.59894s] Building seed filter... [0.105947s] Searching alignments... [31.5162s] Processing query block 1, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.32621s] Building query seed array... [2.29964s] Computing hash join... [4.50575s] Building seed filter... [0.102744s] Searching alignments... [31.2303s] Processing query block 1, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.26912s] Building query seed array... [2.34616s] Computing hash join... [4.44042s] Building seed filter... [0.101159s] Searching alignments... [24.9067s] Processing query block 1, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.4258s] Building query seed array... [2.3974s] Computing hash join... [4.40619s] Building seed filter... [0.105395s] Searching alignments... [25.2701s] Processing query block 1, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.2801s] Building query seed array... [2.51633s] Computing hash join... [4.40927s] Building seed filter... [0.100624s] Searching alignments... [25.2061s] Processing query block 1, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.94506s] Building query seed array... [2.15863s] Computing hash join... [4.31912s] Building seed filter... [0.113041s] Searching alignments... [22.9876s] Deallocating buffers... [0.106738s] Opening temporary output file... [0.000528s] Computing alignments... [43.1605s] Deallocating reference... [0.069238s] Loading reference sequences... [321.237s] Masking reference... [57.9136s] Initializing temporary storage... [0.004522s] Building reference histograms... [13.0301s] Allocating buffers... [0.000315s] Processing query block 1, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.48106s] Building query seed array... [2.44189s] Computing hash join... [4.59922s] Building seed filter... [0.108065s] Searching alignments... [34.2379s] Processing query block 1, reference block 3, shape 0, index chunk 1. Building reference seed array... [11.9468s] Building query seed array... [2.58624s] Computing hash join... [4.53577s] Building seed filter... [0.100976s] Searching alignments... [33.7659s] Processing query block 1, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.4286s] Building query seed array... [2.70622s] Computing hash join... [4.52101s] Building seed filter... [0.102757s] Searching alignments... [33.489s] Processing query block 1, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.33727s] Building query seed array... [2.30375s] Computing hash join... [4.52463s] Building seed filter... [0.102012s] Searching alignments... [33.7999s] Processing query block 1, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.38346s] Building query seed array... [2.11588s] Computing hash join... [4.43716s] Building seed filter... [0.105652s] Searching alignments... [26.4675s] Processing query block 1, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.1337s] Building query seed array... [2.49848s] Computing hash join... [4.37891s] Building seed filter... [0.103586s] Searching alignments... [26.4124s] Processing query block 1, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.8226s] Building query seed array... [2.48639s] Computing hash join... [4.37993s] Building seed filter... [0.098677s] Searching alignments... [26.8374s] Processing query block 1, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.28007s] Building query seed array... [2.20826s] Computing hash join... [4.43091s] Building seed filter... [0.099234s] Searching alignments... [24.183s] Deallocating buffers... [0.106968s] Opening temporary output file... [0.000853s] Computing alignments... [42.2916s] Deallocating reference... [0.063695s] Loading reference sequences... [314.814s] Masking reference... [58.7326s] Initializing temporary storage... [0.005238s] Building reference histograms... [13.0061s] Allocating buffers... [0.000321s] Processing query block 1, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.99303s] Building query seed array... [2.36965s] Computing hash join... [4.538s] Building seed filter... [0.102064s] Searching alignments... [34.9036s] Processing query block 1, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.0767s] Building query seed array... [2.60849s] Computing hash join... [4.58257s] Building seed filter... [0.113392s] Searching alignments... [33.7749s] Processing query block 1, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.3827s] Building query seed array... [2.6269s] Computing hash join... [4.64269s] Building seed filter... [0.104097s] Searching alignments... [33.2674s] Processing query block 1, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.63118s] Building query seed array... [2.30077s] Computing hash join... [4.53923s] Building seed filter... [0.103639s] Searching alignments... [32.8809s] Processing query block 1, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.20501s] Building query seed array... [2.20542s] Computing hash join... [4.39044s] Building seed filter... [0.097731s] Searching alignments... [25.9664s] Processing query block 1, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.4659s] Building query seed array... [2.42469s] Computing hash join... [4.4268s] Building seed filter... [0.099501s] Searching alignments... [26.3172s] Processing query block 1, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.2343s] Building query seed array... [2.50223s] Computing hash join... [4.48353s] Building seed filter... [0.109969s] Searching alignments... [25.9458s] Processing query block 1, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.63228s] Building query seed array... [2.24888s] Computing hash join... [4.43347s] Building seed filter... [0.108934s] Searching alignments... [24.6718s] Deallocating buffers... [0.108982s] Opening temporary output file... [0.000536s] Computing alignments... [44.0171s] Deallocating reference... [0.062007s] Loading reference sequences... [138.004s] Masking reference... [21.5822s] Initializing temporary storage... [0.00453s] Building reference histograms... [5.02616s] Allocating buffers... [0.000288s] Processing query block 1, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.68817s] Building query seed array... [2.29645s] Computing hash join... [1.95326s] Building seed filter... [0.067052s] Searching alignments... [14.4461s] Processing query block 1, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.64625s] Building query seed array... [2.43298s] Computing hash join... [1.95512s] Building seed filter... [0.07458s] Searching alignments... [13.9516s] Processing query block 1, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.81669s] Building query seed array... [2.57502s] Computing hash join... [1.93613s] Building seed filter... [0.062488s] Searching alignments... [13.9092s] Processing query block 1, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.70861s] Building query seed array... [2.23733s] Computing hash join... [1.93519s] Building seed filter... [0.067698s] Searching alignments... [13.8228s] Processing query block 1, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.64978s] Building query seed array... [2.18017s] Computing hash join... [1.88176s] Building seed filter... [0.062028s] Searching alignments... [10.7661s] Processing query block 1, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.69061s] Building query seed array... [2.40554s] Computing hash join... [1.89134s] Building seed filter... [0.061754s] Searching alignments... [10.5019s] Processing query block 1, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.73912s] Building query seed array... [2.44106s] Computing hash join... [1.90187s] Building seed filter... [0.062009s] Searching alignments... [11.023s] Processing query block 1, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.6132s] Building query seed array... [2.22984s] Computing hash join... [1.84617s] Building seed filter... [0.064841s] Searching alignments... [9.95866s] Deallocating buffers... [0.041814s] Opening temporary output file... [0.000884s] Computing alignments... [41.8758s] Deallocating reference... [0.029344s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.01s] Joining output blocks... [2.29756s] Deallocating queries... [0.04384s] Loading query sequences... [4.9e-05s] Closing the input file... [6.1e-05s] Closing the output file... [0.144949s] Closing the database file... [2.8e-05s] Deallocating taxonomy... [1e-05s] Total time = 10917.3s Reported 5154383 pairwise alignments, 5154904 HSPs. 568875 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 44F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.7s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (17.9s) Total reads: 568,875 With hits: 568,875 Alignments: 5,154,904 Assig. Taxonomy: 568,874 Assig. EGGNOG: 4,523 Assig. INTERPRO2GO: 4,401 MinSupport set to: 284 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 4,721 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (1.8s) Binning reads Syncing 100% (0.1s) Class. Taxonomy: 124 Class. EGGNOG: 2,348 Class. INTERPRO2GO: 1,918 Total time: 33s Peak memory: 21 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/44F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 918deb5219833e37381e3cd5578c44f4 /gscratch/srlab/sam/data/C_virginica/BSseq/44F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.043725s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.008481s] Opening the output file... [0.000342s] Loading query sequences... [224.131s] Masking queries... [116.332s] Building query seed set... [0.650212s] Algorithm: Double-indexed Building query histograms... [6.31819s] Allocating buffers... [0.000828s] Loading reference sequences... [44.1131s] Masking reference... [58.5217s] Initializing temporary storage... [0.005371s] Building reference histograms... [13.1207s] Allocating buffers... [0.000339s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.69776s] Building query seed array... [4.4168s] Computing hash join... [5.37929s] Building seed filter... [0.156594s] Searching alignments... [61.499s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.95s] Building query seed array... [4.89657s] Computing hash join... [5.30356s] Building seed filter... [0.157648s] Searching alignments... [60.4534s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.7235s] Building query seed array... [4.92599s] Computing hash join... [5.25512s] Building seed filter... [0.161097s] Searching alignments... [60.4404s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.35425s] Building query seed array... [4.34046s] Computing hash join... [5.36875s] Building seed filter... [0.150414s] Searching alignments... [59.693s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.60951s] Building query seed array... [4.13736s] Computing hash join... [5.02145s] Building seed filter... [0.139082s] Searching alignments... [46.7536s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9897s] Building query seed array... [4.58979s] Computing hash join... [4.96256s] Building seed filter... [0.149011s] Searching alignments... [47.3468s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.3267s] Building query seed array... [4.66425s] Computing hash join... [5.04821s] Building seed filter... [0.145697s] Searching alignments... [46.8039s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.17453s] Building query seed array... [3.9756s] Computing hash join... [5.03694s] Building seed filter... [0.143851s] Searching alignments... [46.3449s] Deallocating buffers... [0.105527s] Opening temporary output file... [0.000925s] Computing alignments... [84.7935s] Deallocating reference... [0.075177s] Loading reference sequences... [49.3304s] Masking reference... [59.4519s] Initializing temporary storage... [0.137206s] Building reference histograms... [13.3983s] Allocating buffers... [0.000332s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.8677s] Building query seed array... [4.42337s] Computing hash join... [5.25109s] Building seed filter... [0.145252s] Searching alignments... [56.6013s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.3197s] Building query seed array... [4.79634s] Computing hash join... [5.1796s] Building seed filter... [0.146531s] Searching alignments... [55.4725s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.7553s] Building query seed array... [5.02286s] Computing hash join... [5.15771s] Building seed filter... [0.151712s] Searching alignments... [55.8156s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.3028s] Building query seed array... [4.20219s] Computing hash join... [5.13294s] Building seed filter... [0.152062s] Searching alignments... [54.541s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.52378s] Building query seed array... [3.89049s] Computing hash join... [4.96936s] Building seed filter... [0.15368s] Searching alignments... [43.8931s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.7838s] Building query seed array... [4.5664s] Computing hash join... [5.01009s] Building seed filter... [0.141407s] Searching alignments... [43.8326s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.4437s] Building query seed array... [5.09202s] Computing hash join... [4.98326s] Building seed filter... [0.14575s] Searching alignments... [42.9918s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.3113s] Building query seed array... [4.01795s] Computing hash join... [4.93645s] Building seed filter... [0.140867s] Searching alignments... [42.8364s] Deallocating buffers... [0.105955s] Opening temporary output file... [0.000918s] Computing alignments... [86.1098s] Deallocating reference... [0.070711s] Loading reference sequences... [47.8616s] Masking reference... [57.8243s] Initializing temporary storage... [0.003986s] Building reference histograms... [13.0203s] Allocating buffers... [0.000327s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [10.0558s] Building query seed array... [4.42946s] Computing hash join... [5.17926s] Building seed filter... [0.146339s] Searching alignments... [57.5775s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.0661s] Building query seed array... [4.85567s] Computing hash join... [5.30092s] Building seed filter... [0.154296s] Searching alignments... [56.2888s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.0758s] Building query seed array... [5.0075s] Computing hash join... [5.13945s] Building seed filter... [0.145709s] Searching alignments... [55.0493s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.25144s] Building query seed array... [4.28288s] Computing hash join... [5.17291s] Building seed filter... [0.156977s] Searching alignments... [54.7811s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.79588s] Building query seed array... [4.07343s] Computing hash join... [4.94652s] Building seed filter... [0.137899s] Searching alignments... [44.2269s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.0421s] Building query seed array... [4.61696s] Computing hash join... [5.0025s] Building seed filter... [0.14737s] Searching alignments... [44.2245s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.0681s] Building query seed array... [4.54598s] Computing hash join... [4.96904s] Building seed filter... [0.14911s] Searching alignments... [43.8632s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.41114s] Building query seed array... [4.00903s] Computing hash join... [4.97295s] Building seed filter... [0.138805s] Searching alignments... [43.4177s] Deallocating buffers... [0.102713s] Opening temporary output file... [0.000939s] Computing alignments... [87.3261s] Deallocating reference... [0.069714s] Loading reference sequences... [315.224s] Masking reference... [57.6012s] Initializing temporary storage... [0.003987s] Building reference histograms... [13.1355s] Allocating buffers... [0.000315s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.7149s] Building query seed array... [4.27985s] Computing hash join... [5.28465s] Building seed filter... [0.149695s] Searching alignments... [61.5213s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.3573s] Building query seed array... [4.97426s] Computing hash join... [5.15702s] Building seed filter... [0.144055s] Searching alignments... [60.8903s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.3413s] Building query seed array... [5.04552s] Computing hash join... [5.23307s] Building seed filter... [0.143733s] Searching alignments... [59.6682s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.26098s] Building query seed array... [4.06705s] Computing hash join... [5.26403s] Building seed filter... [0.151012s] Searching alignments... [59.5186s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.46499s] Building query seed array... [3.9773s] Computing hash join... [5.02729s] Building seed filter... [0.139147s] Searching alignments... [46.9207s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.3285s] Building query seed array... [4.60932s] Computing hash join... [4.9423s] Building seed filter... [0.145911s] Searching alignments... [47.3377s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.2203s] Building query seed array... [4.66153s] Computing hash join... [5.01571s] Building seed filter... [0.150281s] Searching alignments... [46.8479s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.31379s] Building query seed array... [3.93454s] Computing hash join... [4.99035s] Building seed filter... [0.141841s] Searching alignments... [46.069s] Deallocating buffers... [0.11771s] Opening temporary output file... [0.001063s] Computing alignments... [84.9705s] Deallocating reference... [0.063613s] Loading reference sequences... [312.587s] Masking reference... [57.5613s] Initializing temporary storage... [0.003891s] Building reference histograms... [13.4598s] Allocating buffers... [0.000346s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.64124s] Building query seed array... [4.35449s] Computing hash join... [5.20711s] Building seed filter... [0.15446s] Searching alignments... [61.2428s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.8807s] Building query seed array... [4.772s] Computing hash join... [5.2288s] Building seed filter... [0.157288s] Searching alignments... [60.3201s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.3483s] Building query seed array... [4.99192s] Computing hash join... [5.09835s] Building seed filter... [0.17318s] Searching alignments... [59.6293s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.73934s] Building query seed array... [4.11687s] Computing hash join... [5.22049s] Building seed filter... [0.143807s] Searching alignments... [59.3139s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.65663s] Building query seed array... [4.06289s] Computing hash join... [5.03729s] Building seed filter... [0.139801s] Searching alignments... [46.5926s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.235s] Building query seed array... [4.48235s] Computing hash join... [4.9518s] Building seed filter... [0.140228s] Searching alignments... [46.8808s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.4953s] Building query seed array... [4.57396s] Computing hash join... [4.95554s] Building seed filter... [0.140052s] Searching alignments... [46.6544s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.51807s] Building query seed array... [3.99624s] Computing hash join... [4.91818s] Building seed filter... [0.136335s] Searching alignments... [46.0189s] Deallocating buffers... [0.115236s] Opening temporary output file... [0.00097s] Computing alignments... [86.8289s] Deallocating reference... [0.061617s] Loading reference sequences... [134.808s] Masking reference... [21.2999s] Initializing temporary storage... [0.00387s] Building reference histograms... [4.96949s] Allocating buffers... [0.000318s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.50149s] Building query seed array... [4.19113s] Computing hash join... [2.61769s] Building seed filter... [0.11578s] Searching alignments... [25.4597s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.70725s] Building query seed array... [4.85107s] Computing hash join... [2.6077s] Building seed filter... [0.097975s] Searching alignments... [24.9722s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.59776s] Building query seed array... [4.70915s] Computing hash join... [2.57413s] Building seed filter... [0.117673s] Searching alignments... [24.4009s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.6216s] Building query seed array... [4.17504s] Computing hash join... [2.55238s] Building seed filter... [0.108184s] Searching alignments... [24.0993s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.54401s] Building query seed array... [4.01248s] Computing hash join... [2.45879s] Building seed filter... [0.094543s] Searching alignments... [18.9071s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.62554s] Building query seed array... [4.52156s] Computing hash join... [2.36574s] Building seed filter... [0.0992s] Searching alignments... [18.9784s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.73302s] Building query seed array... [4.74905s] Computing hash join... [2.45607s] Building seed filter... [0.091152s] Searching alignments... [19.1378s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.66691s] Building query seed array... [3.94485s] Computing hash join... [2.42946s] Building seed filter... [0.098317s] Searching alignments... [18.5486s] Deallocating buffers... [0.041745s] Opening temporary output file... [0.0192s] Computing alignments... [85.3788s] Deallocating reference... [0.028479s] Loading reference sequences... [4.4e-05s] Deallocating buffers... [0.018981s] Joining output blocks... [3.20153s] Deallocating queries... [0.084693s] Loading query sequences... [112.941s] Masking queries... [58.7322s] Building query seed set... [1.4e-05s] Building query histograms... [3.22849s] Allocating buffers... [0.000319s] Loading reference sequences... [411.643s] Masking reference... [58.505s] Initializing temporary storage... [0.004625s] Building reference histograms... [13.4783s] Allocating buffers... [0.000311s] Processing query block 1, reference block 0, shape 0, index chunk 0. Building reference seed array... [10.0673s] Building query seed array... [2.22251s] Computing hash join... [4.52216s] Building seed filter... [0.110442s] Searching alignments... [31.3211s] Processing query block 1, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.1737s] Building query seed array... [2.47041s] Computing hash join... [4.64903s] Building seed filter... [0.11156s] Searching alignments... [30.7591s] Processing query block 1, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.2156s] Building query seed array... [2.52997s] Computing hash join... [4.58952s] Building seed filter... [0.115684s] Searching alignments... [30.7446s] Processing query block 1, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.81887s] Building query seed array... [2.17982s] Computing hash join... [4.56882s] Building seed filter... [0.128527s] Searching alignments... [30.0326s] Processing query block 1, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.04345s] Building query seed array... [2.08585s] Computing hash join... [4.39936s] Building seed filter... [0.107059s] Searching alignments... [23.6852s] Processing query block 1, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.8313s] Building query seed array... [2.30295s] Computing hash join... [4.54061s] Building seed filter... [0.116595s] Searching alignments... [24.1106s] Processing query block 1, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.3819s] Building query seed array... [2.39005s] Computing hash join... [4.54357s] Building seed filter... [0.112716s] Searching alignments... [24.0636s] Processing query block 1, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.6831s] Building query seed array... [1.9994s] Computing hash join... [4.44383s] Building seed filter... [0.103813s] Searching alignments... [23.6241s] Deallocating buffers... [0.108183s] Opening temporary output file... [0.000945s] Computing alignments... [42.3764s] Deallocating reference... [0.078984s] Loading reference sequences... [336.616s] Masking reference... [57.6435s] Initializing temporary storage... [0.003948s] Building reference histograms... [12.7858s] Allocating buffers... [0.000318s] Processing query block 1, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.67902s] Building query seed array... [2.21999s] Computing hash join... [4.58723s] Building seed filter... [0.122265s] Searching alignments... [28.8715s] Processing query block 1, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.0045s] Building query seed array... [2.52171s] Computing hash join... [4.59961s] Building seed filter... [0.114046s] Searching alignments... [28.2873s] Processing query block 1, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.407s] Building query seed array... [2.44159s] Computing hash join... [4.54459s] Building seed filter... [0.119069s] Searching alignments... [28.2337s] Processing query block 1, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.47952s] Building query seed array... [2.20253s] Computing hash join... [4.5655s] Building seed filter... [0.116261s] Searching alignments... [27.7899s] Processing query block 1, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.1588s] Building query seed array... [2.02889s] Computing hash join... [4.54376s] Building seed filter... [0.110875s] Searching alignments... [22.4676s] Processing query block 1, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.0976s] Building query seed array... [2.35754s] Computing hash join... [4.43594s] Building seed filter... [0.113295s] Searching alignments... [22.1712s] Processing query block 1, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.433s] Building query seed array... [2.29251s] Computing hash join... [4.4658s] Building seed filter... [0.107084s] Searching alignments... [22.2291s] Processing query block 1, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.6569s] Building query seed array... [2.00767s] Computing hash join... [4.39074s] Building seed filter... [0.105217s] Searching alignments... [22.0743s] Deallocating buffers... [0.102112s] Opening temporary output file... [0.000899s] Computing alignments... [42.8447s] Deallocating reference... [0.069837s] Loading reference sequences... [344.368s] Masking reference... [57.4888s] Initializing temporary storage... [0.003897s] Building reference histograms... [13.0395s] Allocating buffers... [0.000328s] Processing query block 1, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.48005s] Building query seed array... [2.17189s] Computing hash join... [4.51051s] Building seed filter... [0.116514s] Searching alignments... [29.0456s] Processing query block 1, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.0032s] Building query seed array... [2.52678s] Computing hash join... [4.58517s] Building seed filter... [0.10365s] Searching alignments... [29.2197s] Processing query block 1, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.3573s] Building query seed array... [2.53535s] Computing hash join... [4.49969s] Building seed filter... [0.116721s] Searching alignments... [28.9341s] Processing query block 1, reference block 2, shape 0, index chunk 3. Building reference seed array... [10.0084s] Building query seed array... [2.22996s] Computing hash join... [4.54012s] Building seed filter... [0.115019s] Searching alignments... [27.7894s] Processing query block 1, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.46599s] Building query seed array... [2.07333s] Computing hash join... [4.49608s] Building seed filter... [0.103789s] Searching alignments... [22.3824s] Processing query block 1, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.1792s] Building query seed array... [2.43614s] Computing hash join... [4.45528s] Building seed filter... [0.114261s] Searching alignments... [22.4507s] Processing query block 1, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.2367s] Building query seed array... [2.29891s] Computing hash join... [4.39051s] Building seed filter... [0.111143s] Searching alignments... [22.4897s] Processing query block 1, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.46893s] Building query seed array... [2.03506s] Computing hash join... [4.52394s] Building seed filter... [0.102571s] Searching alignments... [22.0522s] Deallocating buffers... [0.104661s] Opening temporary output file... [0.000511s] Computing alignments... [43.3236s] Deallocating reference... [0.070008s] Loading reference sequences... [319.471s] Masking reference... [57.573s] Initializing temporary storage... [0.003914s] Building reference histograms... [12.989s] Allocating buffers... [0.000318s] Processing query block 1, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.61988s] Building query seed array... [2.23361s] Computing hash join... [4.59829s] Building seed filter... [0.125829s] Searching alignments... [30.7456s] Processing query block 1, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.143s] Building query seed array... [2.51388s] Computing hash join... [4.60494s] Building seed filter... [0.10776s] Searching alignments... [30.9555s] Processing query block 1, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.4467s] Building query seed array... [2.4349s] Computing hash join... [4.51765s] Building seed filter... [0.123397s] Searching alignments... [30.732s] Processing query block 1, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.82973s] Building query seed array... [2.10593s] Computing hash join... [4.53271s] Building seed filter... [0.113895s] Searching alignments... [30.4284s] Processing query block 1, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.32919s] Building query seed array... [2.05697s] Computing hash join... [4.487s] Building seed filter... [0.107885s] Searching alignments... [23.8386s] Processing query block 1, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.3958s] Building query seed array... [2.29949s] Computing hash join... [4.49024s] Building seed filter... [0.108283s] Searching alignments... [24.4582s] Processing query block 1, reference block 3, shape 1, index chunk 2. Building reference seed array... [11.9033s] Building query seed array... [2.3885s] Computing hash join... [4.52073s] Building seed filter... [0.1158s] Searching alignments... [24.4711s] Processing query block 1, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.37029s] Building query seed array... [1.99508s] Computing hash join... [4.55296s] Building seed filter... [0.114366s] Searching alignments... [24.2123s] Deallocating buffers... [0.106765s] Opening temporary output file... [0.000424s] Computing alignments... [42.1376s] Deallocating reference... [0.063828s] Loading reference sequences... [308.941s] Masking reference... [57.893s] Initializing temporary storage... [0.003942s] Building reference histograms... [12.6823s] Allocating buffers... [0.000377s] Processing query block 1, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.84853s] Building query seed array... [2.19174s] Computing hash join... [4.64921s] Building seed filter... [0.111734s] Searching alignments... [31.076s] Processing query block 1, reference block 4, shape 0, index chunk 1. Building reference seed array... [11.9991s] Building query seed array... [2.51288s] Computing hash join... [4.52957s] Building seed filter... [0.117932s] Searching alignments... [30.4256s] Processing query block 1, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.7551s] Building query seed array... [2.43592s] Computing hash join... [4.58422s] Building seed filter... [0.110957s] Searching alignments... [30.4749s] Processing query block 1, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.48367s] Building query seed array... [2.10309s] Computing hash join... [4.57515s] Building seed filter... [0.113446s] Searching alignments... [30.676s] Processing query block 1, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.38817s] Building query seed array... [2.13769s] Computing hash join... [4.49059s] Building seed filter... [0.103416s] Searching alignments... [24.0254s] Processing query block 1, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.9443s] Building query seed array... [2.28751s] Computing hash join... [4.50101s] Building seed filter... [0.106994s] Searching alignments... [24.0442s] Processing query block 1, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.198s] Building query seed array... [2.34707s] Computing hash join... [4.52708s] Building seed filter... [0.105371s] Searching alignments... [23.9438s] Processing query block 1, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.1972s] Building query seed array... [2.00643s] Computing hash join... [4.59418s] Building seed filter... [0.112023s] Searching alignments... [23.7193s] Deallocating buffers... [0.113469s] Opening temporary output file... [0.000533s] Computing alignments... [44.2058s] Deallocating reference... [0.062546s] Loading reference sequences... [134.986s] Masking reference... [21.2663s] Initializing temporary storage... [0.003938s] Building reference histograms... [5.00205s] Allocating buffers... [0.000397s] Processing query block 1, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.69566s] Building query seed array... [2.18864s] Computing hash join... [1.97534s] Building seed filter... [0.071572s] Searching alignments... [12.8454s] Processing query block 1, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.74434s] Building query seed array... [2.54905s] Computing hash join... [2.03062s] Building seed filter... [0.068871s] Searching alignments... [12.4999s] Processing query block 1, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.65098s] Building query seed array... [2.46191s] Computing hash join... [1.98429s] Building seed filter... [0.071648s] Searching alignments... [12.8896s] Processing query block 1, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.67933s] Building query seed array... [2.12248s] Computing hash join... [1.99052s] Building seed filter... [0.069581s] Searching alignments... [12.4355s] Processing query block 1, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.70157s] Building query seed array... [2.03255s] Computing hash join... [1.88705s] Building seed filter... [0.065709s] Searching alignments... [9.54458s] Processing query block 1, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.61561s] Building query seed array... [2.32754s] Computing hash join... [1.8991s] Building seed filter... [0.066754s] Searching alignments... [9.65222s] Processing query block 1, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.8391s] Building query seed array... [2.32132s] Computing hash join... [1.89602s] Building seed filter... [0.065678s] Searching alignments... [9.7556s] Processing query block 1, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.77137s] Building query seed array... [2.05359s] Computing hash join... [1.8632s] Building seed filter... [0.063946s] Searching alignments... [9.57824s] Deallocating buffers... [0.042352s] Opening temporary output file... [0.001009s] Computing alignments... [41.1516s] Deallocating reference... [0.028131s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.009711s] Joining output blocks... [2.10519s] Deallocating queries... [0.043393s] Loading query sequences... [3e-05s] Closing the input file... [4.3e-05s] Closing the output file... [0.190216s] Closing the database file... [3.7e-05s] Deallocating taxonomy... [1.5e-05s] Total time = 9927.89s Reported 4183049 pairwise alignments, 4183400 HSPs. 446850 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 44F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (7.2s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (14.0s) Total reads: 446,850 With hits: 446,850 Alignments: 4,183,400 Assig. Taxonomy: 446,850 Assig. EGGNOG: 3,814 Assig. INTERPRO2GO: 3,438 MinSupport set to: 223 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 4,546 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (1.4s) Binning reads Syncing 100% (0.1s) Class. Taxonomy: 139 Class. EGGNOG: 2,159 Class. INTERPRO2GO: 1,776 Total time: 30s Peak memory: 11.6 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/48M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... ec42434a4c646a2b98c69fcefd0da8d8 /gscratch/srlab/sam/data/C_virginica/BSseq/48M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.0308s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.00544s] Opening the output file... [0.00033s] Loading query sequences... [179.006s] Masking queries... [102.465s] Building query seed set... [0.570106s] Algorithm: Double-indexed Building query histograms... [5.48386s] Allocating buffers... [0.00131s] Loading reference sequences... [45.4314s] Masking reference... [59.0687s] Initializing temporary storage... [0.005268s] Building reference histograms... [13.3491s] Allocating buffers... [0.000334s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.57329s] Building query seed array... [3.7205s] Computing hash join... [5.08308s] Building seed filter... [0.130145s] Searching alignments... [53.0831s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [11.9919s] Building query seed array... [4.12807s] Computing hash join... [4.92911s] Building seed filter... [0.126152s] Searching alignments... [52.9577s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.2883s] Building query seed array... [4.28689s] Computing hash join... [4.92874s] Building seed filter... [0.136278s] Searching alignments... [50.3151s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.58974s] Building query seed array... [3.60085s] Computing hash join... [5.01894s] Building seed filter... [0.132122s] Searching alignments... [52.3166s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.52737s] Building query seed array... [3.51676s] Computing hash join... [4.73121s] Building seed filter... [0.121066s] Searching alignments... [40.3885s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.0152s] Building query seed array... [3.88901s] Computing hash join... [4.78402s] Building seed filter... [0.127649s] Searching alignments... [39.4911s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.6374s] Building query seed array... [3.99417s] Computing hash join... [4.83038s] Building seed filter... [0.128098s] Searching alignments... [39.9389s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.50908s] Building query seed array... [3.56102s] Computing hash join... [4.72406s] Building seed filter... [0.125756s] Searching alignments... [40.5279s] Deallocating buffers... [0.107071s] Opening temporary output file... [0.000985s] Computing alignments... [74.4016s] Deallocating reference... [0.076613s] Loading reference sequences... [46.3097s] Masking reference... [57.4741s] Initializing temporary storage... [0.004658s] Building reference histograms... [13.4484s] Allocating buffers... [0.000825s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.58261s] Building query seed array... [3.77465s] Computing hash join... [5.02113s] Building seed filter... [0.136183s] Searching alignments... [49.3022s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.1174s] Building query seed array... [4.20298s] Computing hash join... [4.93275s] Building seed filter... [0.134843s] Searching alignments... [48.9336s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.6887s] Building query seed array... [4.1892s] Computing hash join... [4.93192s] Building seed filter... [0.130348s] Searching alignments... [46.9423s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.3629s] Building query seed array... [3.60391s] Computing hash join... [5.05035s] Building seed filter... [0.134824s] Searching alignments... [48.9824s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.81038s] Building query seed array... [3.58604s] Computing hash join... [4.69664s] Building seed filter... [0.124146s] Searching alignments... [37.231s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.567s] Building query seed array... [4.00185s] Computing hash join... [4.80269s] Building seed filter... [0.126549s] Searching alignments... [36.7189s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.1119s] Building query seed array... [4.03022s] Computing hash join... [4.79114s] Building seed filter... [0.130807s] Searching alignments... [36.8875s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.03678s] Building query seed array... [3.47517s] Computing hash join... [4.71134s] Building seed filter... [0.124574s] Searching alignments... [37.9606s] Deallocating buffers... [0.114358s] Opening temporary output file... [0.001055s] Computing alignments... [74.4015s] Deallocating reference... [0.07515s] Loading reference sequences... [338.797s] Masking reference... [57.9231s] Initializing temporary storage... [0.005052s] Building reference histograms... [13.027s] Allocating buffers... [0.00082s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.70582s] Building query seed array... [3.68903s] Computing hash join... [5.08285s] Building seed filter... [0.123749s] Searching alignments... [49.887s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.6234s] Building query seed array... [4.1262s] Computing hash join... [4.92209s] Building seed filter... [0.128488s] Searching alignments... [49.7609s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.2831s] Building query seed array... [4.25578s] Computing hash join... [4.86705s] Building seed filter... [0.123787s] Searching alignments... [44.5131s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [10.053s] Building query seed array... [3.65533s] Computing hash join... [4.85997s] Building seed filter... [0.122646s] Searching alignments... [48.8888s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.60943s] Building query seed array... [3.53068s] Computing hash join... [4.77734s] Building seed filter... [0.127548s] Searching alignments... [36.9868s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.0338s] Building query seed array... [4.01802s] Computing hash join... [4.77916s] Building seed filter... [0.119617s] Searching alignments... [37.3158s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.5455s] Building query seed array... [4.10155s] Computing hash join... [4.83666s] Building seed filter... [0.13921s] Searching alignments... [37.1665s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.37059s] Building query seed array... [3.47511s] Computing hash join... [4.75509s] Building seed filter... [0.128848s] Searching alignments... [38.995s] Deallocating buffers... [0.119001s] Opening temporary output file... [0.000902s] Computing alignments... [71.5453s] Deallocating reference... [0.068565s] Loading reference sequences... [320.197s] Masking reference... [58.6066s] Initializing temporary storage... [0.004006s] Building reference histograms... [13.4264s] Allocating buffers... [0.000818s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.7203s] Building query seed array... [3.78109s] Computing hash join... [4.84354s] Building seed filter... [0.132439s] Searching alignments... [53.8071s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [11.9314s] Building query seed array... [4.16907s] Computing hash join... [4.96195s] Building seed filter... [0.131704s] Searching alignments... [52.7284s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.2974s] Building query seed array... [4.17297s] Computing hash join... [4.98095s] Building seed filter... [0.13659s] Searching alignments... [49.823s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.4748s] Building query seed array... [3.72697s] Computing hash join... [4.8658s] Building seed filter... [0.132876s] Searching alignments... [52.1925s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.56805s] Building query seed array... [3.61118s] Computing hash join... [4.72401s] Building seed filter... [0.134732s] Searching alignments... [40.6186s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.0245s] Building query seed array... [3.89985s] Computing hash join... [4.77564s] Building seed filter... [0.123077s] Searching alignments... [39.1441s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.6011s] Building query seed array... [4.01126s] Computing hash join... [4.81065s] Building seed filter... [0.126613s] Searching alignments... [40.0431s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.37982s] Building query seed array... [3.33816s] Computing hash join... [4.71292s] Building seed filter... [0.145568s] Searching alignments... [40.3288s] Deallocating buffers... [0.108504s] Opening temporary output file... [0.000993s] Computing alignments... [73.806s] Deallocating reference... [0.066102s] Loading reference sequences... [301.541s] Masking reference... [57.5381s] Initializing temporary storage... [0.004045s] Building reference histograms... [13.1225s] Allocating buffers... [0.001108s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.81518s] Building query seed array... [3.68882s] Computing hash join... [4.9659s] Building seed filter... [0.126961s] Searching alignments... [52.593s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.506s] Building query seed array... [4.09241s] Computing hash join... [4.87711s] Building seed filter... [0.130851s] Searching alignments... [52.4089s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.8397s] Building query seed array... [4.21541s] Computing hash join... [4.9227s] Building seed filter... [0.131217s] Searching alignments... [48.1663s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.53657s] Building query seed array... [3.5863s] Computing hash join... [4.94318s] Building seed filter... [0.144902s] Searching alignments... [52.4997s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.30921s] Building query seed array... [3.56992s] Computing hash join... [4.74719s] Building seed filter... [0.129563s] Searching alignments... [39.9537s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.8497s] Building query seed array... [3.96091s] Computing hash join... [4.85338s] Building seed filter... [0.136302s] Searching alignments... [39.2977s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.3s] Building query seed array... [4.38101s] Computing hash join... [4.82754s] Building seed filter... [0.12884s] Searching alignments... [39.6375s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.59364s] Building query seed array... [3.48232s] Computing hash join... [4.81359s] Building seed filter... [0.12853s] Searching alignments... [39.9197s] Deallocating buffers... [0.106776s] Opening temporary output file... [0.000974s] Computing alignments... [74.8328s] Deallocating reference... [0.062695s] Loading reference sequences... [132.702s] Masking reference... [21.3826s] Initializing temporary storage... [0.004526s] Building reference histograms... [5.16951s] Allocating buffers... [0.000339s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.57679s] Building query seed array... [3.65621s] Computing hash join... [2.3771s] Building seed filter... [0.097509s] Searching alignments... [21.8083s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.83517s] Building query seed array... [4.26784s] Computing hash join... [2.40085s] Building seed filter... [0.087752s] Searching alignments... [21.5718s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.79653s] Building query seed array... [4.17684s] Computing hash join... [2.35919s] Building seed filter... [0.086124s] Searching alignments... [19.532s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.66019s] Building query seed array... [3.59279s] Computing hash join... [2.39558s] Building seed filter... [0.086921s] Searching alignments... [21.6146s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.53584s] Building query seed array... [3.52297s] Computing hash join... [2.24239s] Building seed filter... [0.079638s] Searching alignments... [16.3106s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.65571s] Building query seed array... [3.96846s] Computing hash join... [2.21612s] Building seed filter... [0.09061s] Searching alignments... [15.7409s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.76173s] Building query seed array... [3.90763s] Computing hash join... [2.22863s] Building seed filter... [0.082465s] Searching alignments... [16.2285s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.59654s] Building query seed array... [3.47548s] Computing hash join... [2.24483s] Building seed filter... [0.087907s] Searching alignments... [16.0081s] Deallocating buffers... [0.042579s] Opening temporary output file... [0.016832s] Computing alignments... [74.4717s] Deallocating reference... [0.028371s] Loading reference sequences... [4.6e-05s] Deallocating buffers... [0.016457s] Joining output blocks... [2.86158s] Deallocating queries... [0.067646s] Loading query sequences... [2.8e-05s] Closing the input file... [4.1e-05s] Closing the output file... [0.046538s] Closing the database file... [0.000293s] Deallocating taxonomy... [1.1e-05s] Total time = 5116.11s Reported 2000753 pairwise alignments, 2001849 HSPs. 285421 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 48M_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.5s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (7.2s) Total reads: 285,421 With hits: 285,421 Alignments: 2,001,849 Assig. Taxonomy: 285,421 Assig. EGGNOG: 1,524 Assig. INTERPRO2GO: 1,345 MinSupport set to: 142 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 911 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 79 Class. EGGNOG: 540 Class. INTERPRO2GO: 415 Total time: 18s Peak memory: 6.5 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/48M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 73b01b4639a445714fc6fd85b07f3895 /gscratch/srlab/sam/data/C_virginica/BSseq/48M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000158s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005615s] Opening the output file... [0.000291s] Loading query sequences... [181.35s] Masking queries... [142.133s] Building query seed set... [0.590068s] Algorithm: Double-indexed Building query histograms... [5.00012s] Allocating buffers... [0.000822s] Loading reference sequences... [383.206s] Masking reference... [58.383s] Initializing temporary storage... [0.005336s] Building reference histograms... [13.1285s] Allocating buffers... [0.000326s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.48884s] Building query seed array... [3.67109s] Computing hash join... [5.06027s] Building seed filter... [0.137284s] Searching alignments... [47.7487s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.0864s] Building query seed array... [4.0118s] Computing hash join... [4.98671s] Building seed filter... [0.132274s] Searching alignments... [46.985s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.5894s] Building query seed array... [4.22938s] Computing hash join... [5.00642s] Building seed filter... [0.139741s] Searching alignments... [46.556s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.60437s] Building query seed array... [3.5301s] Computing hash join... [4.82382s] Building seed filter... [0.15207s] Searching alignments... [45.6684s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.4696s] Building query seed array... [3.30294s] Computing hash join... [4.775s] Building seed filter... [0.126947s] Searching alignments... [35.8586s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.175s] Building query seed array... [3.7354s] Computing hash join... [4.75207s] Building seed filter... [0.12801s] Searching alignments... [36.5342s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.5121s] Building query seed array... [3.71186s] Computing hash join... [4.73647s] Building seed filter... [0.129551s] Searching alignments... [36.609s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.32173s] Building query seed array... [3.26884s] Computing hash join... [4.79067s] Building seed filter... [0.134412s] Searching alignments... [35.5369s] Deallocating buffers... [0.10573s] Opening temporary output file... [0.000923s] Computing alignments... [72.7416s] Deallocating reference... [0.074586s] Loading reference sequences... [344.514s] Masking reference... [58.7449s] Initializing temporary storage... [0.004002s] Building reference histograms... [13.0759s] Allocating buffers... [0.000332s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.66086s] Building query seed array... [3.47879s] Computing hash join... [4.97534s] Building seed filter... [0.135063s] Searching alignments... [43.5501s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.3102s] Building query seed array... [4.04399s] Computing hash join... [4.98482s] Building seed filter... [0.145478s] Searching alignments... [43.9141s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.1958s] Building query seed array... [3.95084s] Computing hash join... [4.93082s] Building seed filter... [0.131897s] Searching alignments... [42.9949s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.72997s] Building query seed array... [3.44861s] Computing hash join... [4.933s] Building seed filter... [0.131601s] Searching alignments... [42.1822s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.65139s] Building query seed array... [3.3874s] Computing hash join... [4.74727s] Building seed filter... [0.127621s] Searching alignments... [33.6542s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.9502s] Building query seed array... [3.71933s] Computing hash join... [4.76335s] Building seed filter... [0.130023s] Searching alignments... [33.6661s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.7817s] Building query seed array... [3.85471s] Computing hash join... [4.83927s] Building seed filter... [0.129113s] Searching alignments... [33.1352s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.32299s] Building query seed array... [3.29631s] Computing hash join... [4.77825s] Building seed filter... [0.129952s] Searching alignments... [33.0614s] Deallocating buffers... [0.105258s] Opening temporary output file... [0.001006s] Computing alignments... [74.7265s] Deallocating reference... [0.071923s] Loading reference sequences... [341.107s] Masking reference... [59.1164s] Initializing temporary storage... [0.004649s] Building reference histograms... [12.4809s] Allocating buffers... [0.000338s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.86341s] Building query seed array... [3.51585s] Computing hash join... [5.00863s] Building seed filter... [0.133305s] Searching alignments... [44.4734s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.8722s] Building query seed array... [4.02518s] Computing hash join... [4.90687s] Building seed filter... [0.142581s] Searching alignments... [43.7598s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.1313s] Building query seed array... [4.06374s] Computing hash join... [4.90051s] Building seed filter... [0.132356s] Searching alignments... [43.49s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.88807s] Building query seed array... [3.42794s] Computing hash join... [4.88068s] Building seed filter... [0.132731s] Searching alignments... [43.0621s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.44977s] Building query seed array... [3.25542s] Computing hash join... [4.77251s] Building seed filter... [0.126378s] Searching alignments... [34.5495s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.7199s] Building query seed array... [3.54108s] Computing hash join... [4.78558s] Building seed filter... [0.134625s] Searching alignments... [33.9665s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.1249s] Building query seed array... [3.79702s] Computing hash join... [4.81281s] Building seed filter... [0.124889s] Searching alignments... [33.7008s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.40538s] Building query seed array... [3.37996s] Computing hash join... [4.77584s] Building seed filter... [0.123949s] Searching alignments... [33.1609s] Deallocating buffers... [0.103207s] Opening temporary output file... [0.001015s] Computing alignments... [73.6338s] Deallocating reference... [0.072352s] Loading reference sequences... [322.055s] Masking reference... [58.7417s] Initializing temporary storage... [0.004064s] Building reference histograms... [13.0213s] Allocating buffers... [0.000359s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.85093s] Building query seed array... [3.68311s] Computing hash join... [5.01259s] Building seed filter... [0.131959s] Searching alignments... [47.7102s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.2152s] Building query seed array... [4.07095s] Computing hash join... [4.86852s] Building seed filter... [0.13178s] Searching alignments... [46.8248s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.4302s] Building query seed array... [4.23013s] Computing hash join... [4.86205s] Building seed filter... [0.134719s] Searching alignments... [46.3018s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.60156s] Building query seed array... [3.55604s] Computing hash join... [4.94454s] Building seed filter... [0.140321s] Searching alignments... [45.6879s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.11452s] Building query seed array... [3.33243s] Computing hash join... [4.74041s] Building seed filter... [0.133468s] Searching alignments... [35.9523s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.2631s] Building query seed array... [3.69098s] Computing hash join... [4.80443s] Building seed filter... [0.134446s] Searching alignments... [36.5194s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.7655s] Building query seed array... [3.83779s] Computing hash join... [4.84577s] Building seed filter... [0.140203s] Searching alignments... [36.3054s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.35433s] Building query seed array... [3.22883s] Computing hash join... [4.766s] Building seed filter... [0.135122s] Searching alignments... [34.9411s] Deallocating buffers... [0.104259s] Opening temporary output file... [0.000928s] Computing alignments... [73.014s] Deallocating reference... [0.065175s] Loading reference sequences... [309.741s] Masking reference... [57.9123s] Initializing temporary storage... [0.004115s] Building reference histograms... [13.1545s] Allocating buffers... [0.000324s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.72069s] Building query seed array... [3.585s] Computing hash join... [4.92805s] Building seed filter... [0.137439s] Searching alignments... [47.4269s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.0926s] Building query seed array... [4.04571s] Computing hash join... [4.88662s] Building seed filter... [0.132549s] Searching alignments... [46.9987s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.3148s] Building query seed array... [4.10779s] Computing hash join... [4.94532s] Building seed filter... [0.160685s] Searching alignments... [46.5774s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.4095s] Building query seed array... [3.62968s] Computing hash join... [4.94686s] Building seed filter... [0.148743s] Searching alignments... [45.4934s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.24568s] Building query seed array... [3.43995s] Computing hash join... [4.82454s] Building seed filter... [0.132592s] Searching alignments... [35.9343s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.5566s] Building query seed array... [3.73592s] Computing hash join... [4.80728s] Building seed filter... [0.137747s] Searching alignments... [35.8074s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.4378s] Building query seed array... [3.68409s] Computing hash join... [4.8256s] Building seed filter... [0.141208s] Searching alignments... [35.6221s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.58458s] Building query seed array... [3.23439s] Computing hash join... [4.79892s] Building seed filter... [0.134072s] Searching alignments... [35.935s] Deallocating buffers... [0.106351s] Opening temporary output file... [0.00051s] Computing alignments... [73.7004s] Deallocating reference... [0.062161s] Loading reference sequences... [134.748s] Masking reference... [21.2295s] Initializing temporary storage... [0.004043s] Building reference histograms... [5.0213s] Allocating buffers... [0.000409s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.7446s] Building query seed array... [3.57181s] Computing hash join... [2.40113s] Building seed filter... [0.088094s] Searching alignments... [19.3174s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.63394s] Building query seed array... [4.06594s] Computing hash join... [2.42004s] Building seed filter... [0.08409s] Searching alignments... [19.4168s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.83946s] Building query seed array... [4.07912s] Computing hash join... [2.36259s] Building seed filter... [0.089134s] Searching alignments... [19.0627s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.6338s] Building query seed array... [3.59017s] Computing hash join... [2.42068s] Building seed filter... [0.085625s] Searching alignments... [18.8612s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.62822s] Building query seed array... [3.26769s] Computing hash join... [2.22793s] Building seed filter... [0.081959s] Searching alignments... [14.684s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.74033s] Building query seed array... [3.70107s] Computing hash join... [2.24909s] Building seed filter... [0.086219s] Searching alignments... [14.5694s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.76753s] Building query seed array... [3.87712s] Computing hash join... [2.27504s] Building seed filter... [0.079972s] Searching alignments... [14.7437s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.6119s] Building query seed array... [3.19625s] Computing hash join... [2.27928s] Building seed filter... [0.078595s] Searching alignments... [14.2579s] Deallocating buffers... [0.041441s] Opening temporary output file... [0.002234s] Computing alignments... [72.8019s] Deallocating reference... [0.029899s] Loading reference sequences... [4.9e-05s] Deallocating buffers... [0.0153s] Joining output blocks... [2.68461s] Deallocating queries... [0.066942s] Loading query sequences... [2.5e-05s] Closing the input file... [4e-05s] Closing the output file... [0.052187s] Closing the database file... [5.7e-05s] Deallocating taxonomy... [1.7e-05s] Total time = 5600.6s Reported 1689316 pairwise alignments, 1690192 HSPs. 257049 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 48M_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.2s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (6.0s) Total reads: 257,049 With hits: 257,049 Alignments: 1,690,192 Assig. Taxonomy: 257,049 Assig. EGGNOG: 1,213 Assig. INTERPRO2GO: 890 MinSupport set to: 128 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 888 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 79 Class. EGGNOG: 507 Class. INTERPRO2GO: 375 Total time: 16s Peak memory: 4.8 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/50F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 26a7f19cfcb0d70de34f79e1a71ae8d4 /gscratch/srlab/sam/data/C_virginica/BSseq/50F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.053557s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005372s] Opening the output file... [0.00032s] Loading query sequences... [168.7s] Masking queries... [84.8754s] Building query seed set... [0.539368s] Algorithm: Double-indexed Building query histograms... [5.16332s] Allocating buffers... [0.000802s] Loading reference sequences... [44.551s] Masking reference... [58.9004s] Initializing temporary storage... [0.004593s] Building reference histograms... [13.2767s] Allocating buffers... [0.000472s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.58409s] Building query seed array... [3.59767s] Computing hash join... [4.97678s] Building seed filter... [0.128092s] Searching alignments... [51.7471s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.219s] Building query seed array... [3.9512s] Computing hash join... [4.93147s] Building seed filter... [0.1295s] Searching alignments... [52.322s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.4272s] Building query seed array... [4.01884s] Computing hash join... [4.87044s] Building seed filter... [0.140847s] Searching alignments... [51.751s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.42085s] Building query seed array... [3.53447s] Computing hash join... [4.89993s] Building seed filter... [0.128877s] Searching alignments... [52.6467s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.38376s] Building query seed array... [3.30484s] Computing hash join... [4.82346s] Building seed filter... [0.128079s] Searching alignments... [39.9838s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.1749s] Building query seed array... [3.61347s] Computing hash join... [4.80691s] Building seed filter... [0.118444s] Searching alignments... [39.3955s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.3264s] Building query seed array... [3.88085s] Computing hash join... [4.78106s] Building seed filter... [0.119373s] Searching alignments... [40.6646s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.57771s] Building query seed array... [3.30432s] Computing hash join... [4.74894s] Building seed filter... [0.123997s] Searching alignments... [38.8365s] Deallocating buffers... [0.109039s] Opening temporary output file... [0.000555s] Computing alignments... [64.9202s] Deallocating reference... [0.077755s] Loading reference sequences... [45.2556s] Masking reference... [59.5618s] Initializing temporary storage... [0.005535s] Building reference histograms... [13.0836s] Allocating buffers... [0.000315s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.71372s] Building query seed array... [3.64779s] Computing hash join... [4.87407s] Building seed filter... [0.136232s] Searching alignments... [48.3187s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.2169s] Building query seed array... [4.0724s] Computing hash join... [4.82976s] Building seed filter... [0.133949s] Searching alignments... [48.1743s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.5696s] Building query seed array... [4.156s] Computing hash join... [4.83221s] Building seed filter... [0.130899s] Searching alignments... [46.8868s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.72559s] Building query seed array... [3.48774s] Computing hash join... [4.82938s] Building seed filter... [0.127178s] Searching alignments... [47.9168s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.38608s] Building query seed array... [3.37512s] Computing hash join... [4.67405s] Building seed filter... [0.121921s] Searching alignments... [37.2948s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.8977s] Building query seed array... [3.79652s] Computing hash join... [4.6257s] Building seed filter... [0.125239s] Searching alignments... [35.9813s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.6842s] Building query seed array... [3.83272s] Computing hash join... [4.66781s] Building seed filter... [0.11756s] Searching alignments... [36.9875s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.34461s] Building query seed array... [3.31862s] Computing hash join... [4.67854s] Building seed filter... [0.119633s] Searching alignments... [36.2701s] Deallocating buffers... [0.123703s] Opening temporary output file... [0.000544s] Computing alignments... [67.0212s] Deallocating reference... [0.068089s] Loading reference sequences... [49.5676s] Masking reference... [58.5457s] Initializing temporary storage... [0.003941s] Building reference histograms... [13.1417s] Allocating buffers... [0.000341s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.4565s] Building query seed array... [3.65945s] Computing hash join... [4.96532s] Building seed filter... [0.125403s] Searching alignments... [49.9188s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.8745s] Building query seed array... [4.11693s] Computing hash join... [4.90777s] Building seed filter... [0.121523s] Searching alignments... [48.9069s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.1704s] Building query seed array... [4.23093s] Computing hash join... [4.9237s] Building seed filter... [0.127834s] Searching alignments... [48.2907s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.45359s] Building query seed array... [3.64441s] Computing hash join... [4.80497s] Building seed filter... [0.123862s] Searching alignments... [48.3173s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.51304s] Building query seed array... [3.47069s] Computing hash join... [4.67895s] Building seed filter... [0.117667s] Searching alignments... [38.2194s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.2087s] Building query seed array... [3.80583s] Computing hash join... [4.76774s] Building seed filter... [0.11868s] Searching alignments... [36.781s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.527s] Building query seed array... [3.95001s] Computing hash join... [4.83575s] Building seed filter... [0.12484s] Searching alignments... [38.4733s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.45369s] Building query seed array... [3.32073s] Computing hash join... [4.66264s] Building seed filter... [0.124398s] Searching alignments... [37.1937s] Deallocating buffers... [0.114247s] Opening temporary output file... [0.000559s] Computing alignments... [65.206s] Deallocating reference... [0.068701s] Loading reference sequences... [47.5215s] Masking reference... [59.444s] Initializing temporary storage... [0.004297s] Building reference histograms... [13.2567s] Allocating buffers... [0.000371s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.72936s] Building query seed array... [3.61163s] Computing hash join... [4.85011s] Building seed filter... [0.129164s] Searching alignments... [52.7059s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.1624s] Building query seed array... [4.10315s] Computing hash join... [4.81519s] Building seed filter... [0.1363s] Searching alignments... [52.8611s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.2507s] Building query seed array... [4.11722s] Computing hash join... [4.81434s] Building seed filter... [0.129957s] Searching alignments... [50.9891s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [10.0524s] Building query seed array... [3.45114s] Computing hash join... [4.84735s] Building seed filter... [0.133876s] Searching alignments... [51.852s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.47177s] Building query seed array... [3.50191s] Computing hash join... [4.64724s] Building seed filter... [0.117652s] Searching alignments... [40.5188s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.9085s] Building query seed array... [3.74933s] Computing hash join... [4.63946s] Building seed filter... [0.125086s] Searching alignments... [38.6145s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.5426s] Building query seed array... [4.00021s] Computing hash join... [4.89081s] Building seed filter... [0.117622s] Searching alignments... [41.2206s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.40554s] Building query seed array... [3.29365s] Computing hash join... [4.75129s] Building seed filter... [0.131625s] Searching alignments... [38.8687s] Deallocating buffers... [0.108114s] Opening temporary output file... [0.001034s] Computing alignments... [65.4556s] Deallocating reference... [0.063085s] Loading reference sequences... [307.241s] Masking reference... [57.5725s] Initializing temporary storage... [0.003977s] Building reference histograms... [13.3801s] Allocating buffers... [0.000336s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.60314s] Building query seed array... [3.58715s] Computing hash join... [4.91864s] Building seed filter... [0.125344s] Searching alignments... [54.6599s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.1182s] Building query seed array... [4.02018s] Computing hash join... [4.853s] Building seed filter... [0.131584s] Searching alignments... [52.1246s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.4642s] Building query seed array... [4.02544s] Computing hash join... [4.9307s] Building seed filter... [0.128319s] Searching alignments... [50.5251s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.52187s] Building query seed array... [3.59173s] Computing hash join... [4.82291s] Building seed filter... [0.126328s] Searching alignments... [52.6889s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.55227s] Building query seed array... [3.38422s] Computing hash join... [4.68834s] Building seed filter... [0.127252s] Searching alignments... [39.6768s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.2674s] Building query seed array... [3.91706s] Computing hash join... [4.71646s] Building seed filter... [0.131953s] Searching alignments... [38.6486s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.8102s] Building query seed array... [3.89415s] Computing hash join... [4.67143s] Building seed filter... [0.125797s] Searching alignments... [40.0119s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.31503s] Building query seed array... [3.37468s] Computing hash join... [4.69799s] Building seed filter... [0.120876s] Searching alignments... [38.7324s] Deallocating buffers... [0.117872s] Opening temporary output file... [0.001014s] Computing alignments... [65.5379s] Deallocating reference... [0.065178s] Loading reference sequences... [136.879s] Masking reference... [21.3033s] Initializing temporary storage... [0.003953s] Building reference histograms... [5.08369s] Allocating buffers... [0.000313s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.70093s] Building query seed array... [3.61301s] Computing hash join... [2.37448s] Building seed filter... [0.079548s] Searching alignments... [22.2651s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.49941s] Building query seed array... [4.04468s] Computing hash join... [2.33786s] Building seed filter... [0.084356s] Searching alignments... [21.7719s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.86597s] Building query seed array... [3.89203s] Computing hash join... [2.29783s] Building seed filter... [0.083556s] Searching alignments... [20.4972s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.7021s] Building query seed array... [3.49728s] Computing hash join... [2.36469s] Building seed filter... [0.081023s] Searching alignments... [21.565s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.53978s] Building query seed array... [3.38611s] Computing hash join... [2.19877s] Building seed filter... [0.078049s] Searching alignments... [16.2559s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.81455s] Building query seed array... [3.73603s] Computing hash join... [2.20823s] Building seed filter... [0.081153s] Searching alignments... [15.646s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.82966s] Building query seed array... [3.74523s] Computing hash join... [2.20567s] Building seed filter... [0.080979s] Searching alignments... [16.3848s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.57223s] Building query seed array... [3.22388s] Computing hash join... [2.20345s] Building seed filter... [0.084001s] Searching alignments... [15.4828s] Deallocating buffers... [0.041943s] Opening temporary output file... [0.008632s] Computing alignments... [64.2817s] Deallocating reference... [0.027913s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.016195s] Joining output blocks... [3.22794s] Deallocating queries... [0.065525s] Loading query sequences... [4.3e-05s] Closing the input file... [4.6e-05s] Closing the output file... [0.052215s] Closing the database file... [3.6e-05s] Deallocating taxonomy... [1.6e-05s] Total time = 4474s Reported 2404917 pairwise alignments, 2405555 HSPs. 331970 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 50F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.8s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (8.3s) Total reads: 331,970 With hits: 331,970 Alignments: 2,405,555 Assig. Taxonomy: 331,970 Assig. EGGNOG: 1,399 Assig. INTERPRO2GO: 1,660 MinSupport set to: 165 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 824 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 72 Class. EGGNOG: 540 Class. INTERPRO2GO: 454 Total time: 20s Peak memory: 13.1 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/50F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... b8961c012ee97afc5ecb21ae1cf3f986 /gscratch/srlab/sam/data/C_virginica/BSseq/50F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000188s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006867s] Opening the output file... [0.000294s] Loading query sequences... [170.376s] Masking queries... [82.0969s] Building query seed set... [0.519973s] Algorithm: Double-indexed Building query histograms... [4.98867s] Allocating buffers... [0.000913s] Loading reference sequences... [42.6641s] Masking reference... [59.3342s] Initializing temporary storage... [0.006021s] Building reference histograms... [13.1026s] Allocating buffers... [0.00038s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.58851s] Building query seed array... [3.46722s] Computing hash join... [5.10447s] Building seed filter... [0.143694s] Searching alignments... [49.1889s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.505s] Building query seed array... [3.88642s] Computing hash join... [5.02966s] Building seed filter... [0.136742s] Searching alignments... [48.9995s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.378s] Building query seed array... [3.88582s] Computing hash join... [5.02599s] Building seed filter... [0.141589s] Searching alignments... [48.1834s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.37896s] Building query seed array... [3.41067s] Computing hash join... [4.9009s] Building seed filter... [0.143389s] Searching alignments... [48.1512s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.47889s] Building query seed array... [3.26741s] Computing hash join... [4.76487s] Building seed filter... [0.13014s] Searching alignments... [37.9854s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.2719s] Building query seed array... [3.60881s] Computing hash join... [4.80169s] Building seed filter... [0.13349s] Searching alignments... [37.637s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.0979s] Building query seed array... [3.64789s] Computing hash join... [4.78785s] Building seed filter... [0.14475s] Searching alignments... [37.5286s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.12383s] Building query seed array... [3.08785s] Computing hash join... [4.77296s] Building seed filter... [0.146817s] Searching alignments... [37.2679s] Deallocating buffers... [0.105909s] Opening temporary output file... [0.001099s] Computing alignments... [65.8678s] Deallocating reference... [0.080879s] Loading reference sequences... [51.4014s] Masking reference... [57.8209s] Initializing temporary storage... [0.004855s] Building reference histograms... [12.8111s] Allocating buffers... [0.000321s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.50949s] Building query seed array... [3.57445s] Computing hash join... [5.00232s] Building seed filter... [0.139527s] Searching alignments... [45.501s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.0438s] Building query seed array... [3.90758s] Computing hash join... [4.88551s] Building seed filter... [0.1383s] Searching alignments... [44.9806s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.6012s] Building query seed array... [4.02255s] Computing hash join... [4.95051s] Building seed filter... [0.137173s] Searching alignments... [44.7566s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.36959s] Building query seed array... [3.32463s] Computing hash join... [4.88694s] Building seed filter... [0.133422s] Searching alignments... [44.1977s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.65067s] Building query seed array... [3.19581s] Computing hash join... [4.80968s] Building seed filter... [0.129497s] Searching alignments... [35.6058s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.2667s] Building query seed array... [3.6222s] Computing hash join... [4.875s] Building seed filter... [0.133055s] Searching alignments... [35.0524s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.2356s] Building query seed array... [3.69626s] Computing hash join... [4.81357s] Building seed filter... [0.136298s] Searching alignments... [34.7347s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.14935s] Building query seed array... [3.17855s] Computing hash join... [4.81907s] Building seed filter... [0.133666s] Searching alignments... [34.4345s] Deallocating buffers... [0.112292s] Opening temporary output file... [0.001017s] Computing alignments... [63.6001s] Deallocating reference... [0.069652s] Loading reference sequences... [48.1841s] Masking reference... [57.716s] Initializing temporary storage... [0.004157s] Building reference histograms... [13.0616s] Allocating buffers... [0.000319s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [10.1296s] Building query seed array... [3.50612s] Computing hash join... [5.00162s] Building seed filter... [0.136366s] Searching alignments... [46.2741s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.119s] Building query seed array... [3.85348s] Computing hash join... [5.00214s] Building seed filter... [0.137925s] Searching alignments... [45.4463s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.9993s] Building query seed array... [4.09495s] Computing hash join... [4.8899s] Building seed filter... [0.140915s] Searching alignments... [45.0044s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.64272s] Building query seed array... [3.39532s] Computing hash join... [4.92448s] Building seed filter... [0.141598s] Searching alignments... [44.1975s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [8.99418s] Building query seed array... [3.25437s] Computing hash join... [4.78209s] Building seed filter... [0.131983s] Searching alignments... [35.8301s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.2399s] Building query seed array... [3.61561s] Computing hash join... [4.82925s] Building seed filter... [0.136972s] Searching alignments... [34.9497s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [11.7938s] Building query seed array... [3.53834s] Computing hash join... [4.73596s] Building seed filter... [0.129171s] Searching alignments... [34.9004s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.53688s] Building query seed array... [3.13284s] Computing hash join... [4.74854s] Building seed filter... [0.137622s] Searching alignments... [35.0369s] Deallocating buffers... [0.119417s] Opening temporary output file... [0.001034s] Computing alignments... [65.7493s] Deallocating reference... [0.070648s] Loading reference sequences... [308.63s] Masking reference... [57.5465s] Initializing temporary storage... [0.004008s] Building reference histograms... [13.6575s] Allocating buffers... [0.000315s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.99303s] Building query seed array... [3.48934s] Computing hash join... [4.9901s] Building seed filter... [0.150662s] Searching alignments... [49.6655s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.5571s] Building query seed array... [3.98214s] Computing hash join... [4.8794s] Building seed filter... [0.144025s] Searching alignments... [48.306s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.5746s] Building query seed array... [3.78027s] Computing hash join... [4.99202s] Building seed filter... [0.148583s] Searching alignments... [47.994s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.42957s] Building query seed array... [3.39216s] Computing hash join... [4.95994s] Building seed filter... [0.145088s] Searching alignments... [47.2718s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.73792s] Building query seed array... [3.40335s] Computing hash join... [4.88663s] Building seed filter... [0.135969s] Searching alignments... [38.323s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.8484s] Building query seed array... [3.62047s] Computing hash join... [4.7246s] Building seed filter... [0.138927s] Searching alignments... [38.0638s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.1734s] Building query seed array... [3.68696s] Computing hash join... [4.7587s] Building seed filter... [0.132233s] Searching alignments... [38.0256s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.20751s] Building query seed array... [3.14573s] Computing hash join... [4.74596s] Building seed filter... [0.135694s] Searching alignments... [37.2531s] Deallocating buffers... [0.109304s] Opening temporary output file... [0.001023s] Computing alignments... [64.6202s] Deallocating reference... [0.06344s] Loading reference sequences... [302.833s] Masking reference... [57.9843s] Initializing temporary storage... [0.003911s] Building reference histograms... [13.7234s] Allocating buffers... [0.000348s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.71321s] Building query seed array... [3.50841s] Computing hash join... [4.95347s] Building seed filter... [0.14532s] Searching alignments... [49.1399s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.1133s] Building query seed array... [3.96024s] Computing hash join... [4.92324s] Building seed filter... [0.144621s] Searching alignments... [48.3146s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.1991s] Building query seed array... [4.02146s] Computing hash join... [4.94433s] Building seed filter... [0.161131s] Searching alignments... [48.2041s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.67477s] Building query seed array... [3.45539s] Computing hash join... [4.91281s] Building seed filter... [0.142226s] Searching alignments... [47.6754s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.75374s] Building query seed array... [3.15147s] Computing hash join... [4.82345s] Building seed filter... [0.1348s] Searching alignments... [37.4858s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.2275s] Building query seed array... [3.65022s] Computing hash join... [4.75057s] Building seed filter... [0.14845s] Searching alignments... [38.3901s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.1862s] Building query seed array... [3.74371s] Computing hash join... [4.80304s] Building seed filter... [0.137101s] Searching alignments... [37.7964s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.55782s] Building query seed array... [3.09583s] Computing hash join... [4.82221s] Building seed filter... [0.150331s] Searching alignments... [36.8193s] Deallocating buffers... [0.106s] Opening temporary output file... [0.000544s] Computing alignments... [65.1419s] Deallocating reference... [0.061264s] Loading reference sequences... [130.702s] Masking reference... [21.1455s] Initializing temporary storage... [0.003863s] Building reference histograms... [5.1597s] Allocating buffers... [0.000317s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.76884s] Building query seed array... [3.45809s] Computing hash join... [2.36217s] Building seed filter... [0.094913s] Searching alignments... [20.3109s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.73913s] Building query seed array... [3.82558s] Computing hash join... [2.38825s] Building seed filter... [0.088514s] Searching alignments... [19.7963s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.63019s] Building query seed array... [3.86282s] Computing hash join... [2.36557s] Building seed filter... [0.089089s] Searching alignments... [20.1436s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.75351s] Building query seed array... [3.40387s] Computing hash join... [2.35149s] Building seed filter... [0.088242s] Searching alignments... [19.5148s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.72219s] Building query seed array... [3.1547s] Computing hash join... [2.2409s] Building seed filter... [0.081896s] Searching alignments... [15.0321s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.50103s] Building query seed array... [3.70211s] Computing hash join... [2.23737s] Building seed filter... [0.08395s] Searching alignments... [15.4412s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.60295s] Building query seed array... [3.76905s] Computing hash join... [2.20784s] Building seed filter... [0.081193s] Searching alignments... [15.1975s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.69226s] Building query seed array... [3.17745s] Computing hash join... [2.21449s] Building seed filter... [0.085424s] Searching alignments... [14.9726s] Deallocating buffers... [0.042456s] Opening temporary output file... [0.009184s] Computing alignments... [64.3784s] Deallocating reference... [0.028077s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.015609s] Joining output blocks... [2.61054s] Deallocating queries... [0.066235s] Loading query sequences... [2.9e-05s] Closing the input file... [4.2e-05s] Closing the output file... [0.042299s] Closing the database file... [2.9e-05s] Deallocating taxonomy... [1.2e-05s] Total time = 4594.02s Reported 1764608 pairwise alignments, 1764998 HSPs. 256895 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 50F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.2s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (6.5s) Total reads: 256,895 With hits: 256,895 Alignments: 1,764,998 Assig. Taxonomy: 256,895 Assig. EGGNOG: 972 Assig. INTERPRO2GO: 907 MinSupport set to: 128 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 731 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 76 Class. EGGNOG: 447 Class. INTERPRO2GO: 371 Total time: 17s Peak memory: 7.6 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/52F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 6bd0019cef3c8d439028c99e3aad4973 /gscratch/srlab/sam/data/C_virginica/BSseq/52F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000169s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.041172s] Opening the output file... [0.000311s] Loading query sequences... [193.527s] Masking queries... [95.5519s] Building query seed set... [0.784608s] Algorithm: Double-indexed Building query histograms... [5.80139s] Allocating buffers... [0.000808s] Loading reference sequences... [359.628s] Masking reference... [58.0878s] Initializing temporary storage... [0.005289s] Building reference histograms... [13.2528s] Allocating buffers... [0.000341s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [10.1365s] Building query seed array... [4.02519s] Computing hash join... [5.20216s] Building seed filter... [0.148618s] Searching alignments... [61.6411s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.0532s] Building query seed array... [4.51165s] Computing hash join... [5.05351s] Building seed filter... [0.13174s] Searching alignments... [57.4095s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.4048s] Building query seed array... [4.43068s] Computing hash join... [5.00987s] Building seed filter... [0.138979s] Searching alignments... [60.0879s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.29655s] Building query seed array... [3.96259s] Computing hash join... [5.00979s] Building seed filter... [0.133925s] Searching alignments... [60.5811s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.54604s] Building query seed array... [3.88449s] Computing hash join... [4.86353s] Building seed filter... [0.119668s] Searching alignments... [45.7151s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.4001s] Building query seed array... [4.22735s] Computing hash join... [4.7842s] Building seed filter... [0.139103s] Searching alignments... [46.6481s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.5584s] Building query seed array... [4.34503s] Computing hash join... [4.78091s] Building seed filter... [0.1213s] Searching alignments... [47.3715s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.42266s] Building query seed array... [3.76367s] Computing hash join... [4.77154s] Building seed filter... [0.126048s] Searching alignments... [46.2518s] Deallocating buffers... [0.105449s] Opening temporary output file... [0.000497s] Computing alignments... [75.0155s] Deallocating reference... [0.074667s] Loading reference sequences... [340.681s] Masking reference... [59.6653s] Initializing temporary storage... [0.003799s] Building reference histograms... [12.7377s] Allocating buffers... [0.000326s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.84734s] Building query seed array... [4.00262s] Computing hash join... [5.07926s] Building seed filter... [0.130627s] Searching alignments... [56.4671s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.3256s] Building query seed array... [4.4289s] Computing hash join... [5.01695s] Building seed filter... [0.132981s] Searching alignments... [54.2302s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.5199s] Building query seed array... [4.52683s] Computing hash join... [5.0927s] Building seed filter... [0.128075s] Searching alignments... [55.7351s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.2246s] Building query seed array... [3.72769s] Computing hash join... [4.96328s] Building seed filter... [0.129844s] Searching alignments... [55.5071s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.78366s] Building query seed array... [3.89859s] Computing hash join... [4.76234s] Building seed filter... [0.122959s] Searching alignments... [42.1326s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.0849s] Building query seed array... [4.45044s] Computing hash join... [4.8461s] Building seed filter... [0.124825s] Searching alignments... [44.285s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.3675s] Building query seed array... [4.42558s] Computing hash join... [4.77024s] Building seed filter... [0.12571s] Searching alignments... [42.4197s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.30169s] Building query seed array... [3.785s] Computing hash join... [4.7476s] Building seed filter... [0.119917s] Searching alignments... [41.6767s] Deallocating buffers... [0.105709s] Opening temporary output file... [0.000509s] Computing alignments... [76.1187s] Deallocating reference... [0.070191s] Loading reference sequences... [343.186s] Masking reference... [57.799s] Initializing temporary storage... [0.004013s] Building reference histograms... [13.5389s] Allocating buffers... [0.000313s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.5439s] Building query seed array... [4.08029s] Computing hash join... [5.05197s] Building seed filter... [0.129145s] Searching alignments... [58.5669s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.3813s] Building query seed array... [4.43752s] Computing hash join... [5.00414s] Building seed filter... [0.13035s] Searching alignments... [54.9714s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.4396s] Building query seed array... [4.57278s] Computing hash join... [4.95734s] Building seed filter... [0.130311s] Searching alignments... [55.3791s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.6681s] Building query seed array... [3.97456s] Computing hash join... [5.02384s] Building seed filter... [0.137607s] Searching alignments... [56.3928s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.45593s] Building query seed array... [3.76429s] Computing hash join... [4.82759s] Building seed filter... [0.127876s] Searching alignments... [42.7987s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.8645s] Building query seed array... [4.34105s] Computing hash join... [4.86453s] Building seed filter... [0.130966s] Searching alignments... [43.9487s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.2942s] Building query seed array... [4.17862s] Computing hash join... [4.80598s] Building seed filter... [0.134596s] Searching alignments... [43.5374s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.36026s] Building query seed array... [3.71087s] Computing hash join... [4.84868s] Building seed filter... [0.124906s] Searching alignments... [42.2369s] Deallocating buffers... [0.107927s] Opening temporary output file... [0.001074s] Computing alignments... [76.8013s] Deallocating reference... [0.068678s] Loading reference sequences... [306.13s] Masking reference... [59.0121s] Initializing temporary storage... [0.005225s] Building reference histograms... [13.3596s] Allocating buffers... [0.000315s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.73812s] Building query seed array... [3.85585s] Computing hash join... [4.91361s] Building seed filter... [0.135752s] Searching alignments... [61.7847s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.2143s] Building query seed array... [4.60805s] Computing hash join... [5.06388s] Building seed filter... [0.127321s] Searching alignments... [59.2222s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.809s] Building query seed array... [4.32572s] Computing hash join... [4.97509s] Building seed filter... [0.125474s] Searching alignments... [59.0418s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.46184s] Building query seed array... [4.00312s] Computing hash join... [4.90871s] Building seed filter... [0.134824s] Searching alignments... [61.0145s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.43724s] Building query seed array... [3.78043s] Computing hash join... [4.86296s] Building seed filter... [0.121549s] Searching alignments... [46.2932s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.9099s] Building query seed array... [4.25091s] Computing hash join... [4.75639s] Building seed filter... [0.123916s] Searching alignments... [47.3959s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.4847s] Building query seed array... [4.40547s] Computing hash join... [4.74143s] Building seed filter... [0.122756s] Searching alignments... [47.05s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.05086s] Building query seed array... [3.68222s] Computing hash join... [4.87636s] Building seed filter... [0.126854s] Searching alignments... [44.8929s] Deallocating buffers... [0.108003s] Opening temporary output file... [0.00089s] Computing alignments... [77.4493s] Deallocating reference... [0.065838s] Loading reference sequences... [292.121s] Masking reference... [57.6408s] Initializing temporary storage... [0.003987s] Building reference histograms... [12.8454s] Allocating buffers... [0.000355s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.82079s] Building query seed array... [3.92769s] Computing hash join... [5.06923s] Building seed filter... [0.126038s] Searching alignments... [61.4544s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.67s] Building query seed array... [4.54647s] Computing hash join... [5.00454s] Building seed filter... [0.13261s] Searching alignments... [59.2058s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.3327s] Building query seed array... [4.34879s] Computing hash join... [4.94206s] Building seed filter... [0.131906s] Searching alignments... [59.0123s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.54874s] Building query seed array... [4.01356s] Computing hash join... [4.9597s] Building seed filter... [0.136786s] Searching alignments... [59.4354s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.25025s] Building query seed array... [3.87816s] Computing hash join... [4.8568s] Building seed filter... [0.122283s] Searching alignments... [45.9608s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.2459s] Building query seed array... [4.36912s] Computing hash join... [4.82109s] Building seed filter... [0.127611s] Searching alignments... [46.7883s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.0684s] Building query seed array... [4.37127s] Computing hash join... [4.92305s] Building seed filter... [0.124412s] Searching alignments... [46.22s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.38203s] Building query seed array... [3.86634s] Computing hash join... [4.87037s] Building seed filter... [0.129653s] Searching alignments... [44.9235s] Deallocating buffers... [0.116484s] Opening temporary output file... [0.001025s] Computing alignments... [76.3693s] Deallocating reference... [0.061823s] Loading reference sequences... [131.696s] Masking reference... [21.5469s] Initializing temporary storage... [0.003807s] Building reference histograms... [4.90604s] Allocating buffers... [0.000311s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.64726s] Building query seed array... [4.02388s] Computing hash join... [2.50507s] Building seed filter... [0.097039s] Searching alignments... [25.9s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.70863s] Building query seed array... [4.52389s] Computing hash join... [2.45364s] Building seed filter... [0.082893s] Searching alignments... [24.3719s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.73881s] Building query seed array... [4.4953s] Computing hash join... [2.42188s] Building seed filter... [0.083756s] Searching alignments... [23.9797s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.50532s] Building query seed array... [3.93225s] Computing hash join... [2.45272s] Building seed filter... [0.084492s] Searching alignments... [24.7955s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.60394s] Building query seed array... [3.84732s] Computing hash join... [2.29166s] Building seed filter... [0.085662s] Searching alignments... [18.5761s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.49512s] Building query seed array... [4.2755s] Computing hash join... [2.32382s] Building seed filter... [0.080244s] Searching alignments... [19.0272s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.81477s] Building query seed array... [4.25519s] Computing hash join... [2.29192s] Building seed filter... [0.081289s] Searching alignments... [18.9379s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.75666s] Building query seed array... [3.65256s] Computing hash join... [2.31431s] Building seed filter... [0.080034s] Searching alignments... [18.6954s] Deallocating buffers... [0.043011s] Opening temporary output file... [0.001478s] Computing alignments... [75.3592s] Deallocating reference... [0.028646s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.017653s] Joining output blocks... [3.24033s] Deallocating queries... [0.077842s] Loading query sequences... [2.9e-05s] Closing the input file... [4.5e-05s] Closing the output file... [0.068788s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 6046.03s Reported 2608974 pairwise alignments, 2609532 HSPs. 365560 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 52F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (3.1s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (8.6s) Total reads: 365,560 With hits: 365,560 Alignments: 2,609,532 Assig. Taxonomy: 365,560 Assig. EGGNOG: 1,700 Assig. INTERPRO2GO: 1,610 MinSupport set to: 182 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 1,120 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.7s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 86 Class. EGGNOG: 708 Class. INTERPRO2GO: 616 Total time: 20s Peak memory: 11.8 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/52F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... f35a2fa358e8c24ae4a6423498264ed4 /gscratch/srlab/sam/data/C_virginica/BSseq/52F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.062024s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.024739s] Opening the output file... [0.000327s] Loading query sequences... [196.374s] Masking queries... [94.245s] Building query seed set... [0.62121s] Algorithm: Double-indexed Building query histograms... [5.7527s] Allocating buffers... [0.000841s] Loading reference sequences... [44.0352s] Masking reference... [58.9605s] Initializing temporary storage... [0.004523s] Building reference histograms... [13.4954s] Allocating buffers... [0.00033s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.54349s] Building query seed array... [4.0078s] Computing hash join... [5.31346s] Building seed filter... [0.152146s] Searching alignments... [55.4539s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.6748s] Building query seed array... [4.26229s] Computing hash join... [5.21885s] Building seed filter... [0.144097s] Searching alignments... [55.2468s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.8584s] Building query seed array... [4.49265s] Computing hash join... [5.06509s] Building seed filter... [0.148778s] Searching alignments... [54.4546s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.34268s] Building query seed array... [3.93737s] Computing hash join... [5.13545s] Building seed filter... [0.147402s] Searching alignments... [53.8691s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.13393s] Building query seed array... [3.64745s] Computing hash join... [4.95864s] Building seed filter... [0.144712s] Searching alignments... [42.8646s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.4848s] Building query seed array... [4.23154s] Computing hash join... [4.93681s] Building seed filter... [0.148462s] Searching alignments... [42.272s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.2793s] Building query seed array... [4.07241s] Computing hash join... [4.88178s] Building seed filter... [0.156414s] Searching alignments... [42.7825s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.56325s] Building query seed array... [3.75726s] Computing hash join... [4.93897s] Building seed filter... [0.153246s] Searching alignments... [42.4403s] Deallocating buffers... [0.109331s] Opening temporary output file... [0.002267s] Computing alignments... [74.8758s] Deallocating reference... [0.080987s] Loading reference sequences... [342.954s] Masking reference... [58.8475s] Initializing temporary storage... [0.004114s] Building reference histograms... [13.3915s] Allocating buffers... [0.000858s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.89583s] Building query seed array... [3.97097s] Computing hash join... [5.20377s] Building seed filter... [0.161241s] Searching alignments... [51.3374s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.2134s] Building query seed array... [4.40436s] Computing hash join... [5.09124s] Building seed filter... [0.15052s] Searching alignments... [51.0264s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.2346s] Building query seed array... [5.18584s] Computing hash join... [5.07188s] Building seed filter... [0.1585s] Searching alignments... [50.6633s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.193s] Building query seed array... [3.83083s] Computing hash join... [5.12825s] Building seed filter... [0.152149s] Searching alignments... [50.3354s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.58774s] Building query seed array... [3.73704s] Computing hash join... [4.98911s] Building seed filter... [0.153139s] Searching alignments... [39.0447s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.4258s] Building query seed array... [4.16017s] Computing hash join... [4.93147s] Building seed filter... [0.1446s] Searching alignments... [39.2978s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.3274s] Building query seed array... [4.2104s] Computing hash join... [4.84654s] Building seed filter... [0.147957s] Searching alignments... [39.8522s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.20883s] Building query seed array... [3.51283s] Computing hash join... [4.94756s] Building seed filter... [0.142711s] Searching alignments... [38.9766s] Deallocating buffers... [0.103831s] Opening temporary output file... [0.000981s] Computing alignments... [74.6823s] Deallocating reference... [0.069591s] Loading reference sequences... [335.518s] Masking reference... [57.6972s] Initializing temporary storage... [0.003981s] Building reference histograms... [13.2298s] Allocating buffers... [0.000814s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [10.0538s] Building query seed array... [3.97469s] Computing hash join... [5.19113s] Building seed filter... [0.158213s] Searching alignments... [51.2486s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.1378s] Building query seed array... [4.42404s] Computing hash join... [5.10764s] Building seed filter... [0.148845s] Searching alignments... [51.0528s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.0691s] Building query seed array... [4.51599s] Computing hash join... [5.10142s] Building seed filter... [0.151503s] Searching alignments... [50.5195s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.51784s] Building query seed array... [3.95753s] Computing hash join... [5.09323s] Building seed filter... [0.152417s] Searching alignments... [49.9123s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.34515s] Building query seed array... [3.70189s] Computing hash join... [4.99081s] Building seed filter... [0.143249s] Searching alignments... [40.1762s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.9544s] Building query seed array... [4.05253s] Computing hash join... [4.80395s] Building seed filter... [0.137858s] Searching alignments... [40.0588s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.1096s] Building query seed array... [4.19334s] Computing hash join... [4.90247s] Building seed filter... [0.146926s] Searching alignments... [39.5297s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.46279s] Building query seed array... [3.57095s] Computing hash join... [4.89735s] Building seed filter... [0.1486s] Searching alignments... [39.3182s] Deallocating buffers... [0.104334s] Opening temporary output file... [0.000991s] Computing alignments... [75.0925s] Deallocating reference... [0.068618s] Loading reference sequences... [327.751s] Masking reference... [57.6602s] Initializing temporary storage... [0.003995s] Building reference histograms... [13.1138s] Allocating buffers... [0.000856s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.82497s] Building query seed array... [3.90706s] Computing hash join... [5.13279s] Building seed filter... [0.145357s] Searching alignments... [54.9164s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [11.7641s] Building query seed array... [4.4936s] Computing hash join... [5.14328s] Building seed filter... [0.149055s] Searching alignments... [55.2704s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.4551s] Building query seed array... [4.38528s] Computing hash join... [5.10552s] Building seed filter... [0.148201s] Searching alignments... [54.8246s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.33667s] Building query seed array... [3.79266s] Computing hash join... [5.14741s] Building seed filter... [0.15104s] Searching alignments... [53.739s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.47614s] Building query seed array... [3.67778s] Computing hash join... [4.89307s] Building seed filter... [0.142259s] Searching alignments... [42.9128s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.4041s] Building query seed array... [4.07407s] Computing hash join... [4.9342s] Building seed filter... [0.141014s] Searching alignments... [42.5913s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.2224s] Building query seed array... [4.28555s] Computing hash join... [4.88868s] Building seed filter... [0.153322s] Searching alignments... [42.6159s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.32266s] Building query seed array... [3.60024s] Computing hash join... [4.94298s] Building seed filter... [0.157971s] Searching alignments... [41.9832s] Deallocating buffers... [0.105218s] Opening temporary output file... [0.000909s] Computing alignments... [74.7872s] Deallocating reference... [0.0659s] Loading reference sequences... [300.823s] Masking reference... [57.5937s] Initializing temporary storage... [0.003987s] Building reference histograms... [13.3466s] Allocating buffers... [0.000822s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.51044s] Building query seed array... [3.94875s] Computing hash join... [5.17328s] Building seed filter... [0.16865s] Searching alignments... [55.2868s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.0593s] Building query seed array... [4.47215s] Computing hash join... [5.0638s] Building seed filter... [0.153932s] Searching alignments... [55.0124s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.863s] Building query seed array... [4.58504s] Computing hash join... [5.19649s] Building seed filter... [0.171583s] Searching alignments... [54.1328s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.33819s] Building query seed array... [3.84046s] Computing hash join... [5.08628s] Building seed filter... [0.150426s] Searching alignments... [53.3582s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.68281s] Building query seed array... [3.66372s] Computing hash join... [4.93425s] Building seed filter... [0.148581s] Searching alignments... [42.247s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.9856s] Building query seed array... [4.14701s] Computing hash join... [4.92047s] Building seed filter... [0.163451s] Searching alignments... [42.159s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.5374s] Building query seed array... [4.14715s] Computing hash join... [4.94513s] Building seed filter... [0.150255s] Searching alignments... [42.5495s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.39635s] Building query seed array... [3.53239s] Computing hash join... [4.9343s] Building seed filter... [0.160642s] Searching alignments... [41.7892s] Deallocating buffers... [0.107413s] Opening temporary output file... [0.00048s] Computing alignments... [75.5188s] Deallocating reference... [0.061867s] Loading reference sequences... [133.485s] Masking reference... [21.3383s] Initializing temporary storage... [0.003951s] Building reference histograms... [5.1379s] Allocating buffers... [0.000312s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.67934s] Building query seed array... [3.89058s] Computing hash join... [2.51188s] Building seed filter... [0.103814s] Searching alignments... [22.7669s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.65117s] Building query seed array... [4.40669s] Computing hash join... [2.4947s] Building seed filter... [0.102126s] Searching alignments... [22.74s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.75516s] Building query seed array... [4.28485s] Computing hash join... [2.48393s] Building seed filter... [0.104237s] Searching alignments... [22.4481s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.60874s] Building query seed array... [3.92926s] Computing hash join... [2.47509s] Building seed filter... [0.099996s] Searching alignments... [22.1826s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.7023s] Building query seed array... [3.50567s] Computing hash join... [2.35761s] Building seed filter... [0.088718s] Searching alignments... [17.2411s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.76812s] Building query seed array... [4.14571s] Computing hash join... [2.33857s] Building seed filter... [0.091149s] Searching alignments... [17.4338s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.56969s] Building query seed array... [4.09479s] Computing hash join... [2.34689s] Building seed filter... [0.090826s] Searching alignments... [17.2424s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.48995s] Building query seed array... [3.58531s] Computing hash join... [2.36435s] Building seed filter... [0.093122s] Searching alignments... [17.0939s] Deallocating buffers... [0.0422s] Opening temporary output file... [0.001467s] Computing alignments... [75.2104s] Deallocating reference... [0.028079s] Loading reference sequences... [4.5e-05s] Deallocating buffers... [0.017527s] Joining output blocks... [2.45603s] Deallocating queries... [0.0743s] Loading query sequences... [2.4e-05s] Closing the input file... [4e-05s] Closing the output file... [0.069534s] Closing the database file... [2.6e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 5556.94s Reported 1782328 pairwise alignments, 1782591 HSPs. 233231 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 52F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (3.0s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (6.0s) Total reads: 233,231 With hits: 233,231 Alignments: 1,782,591 Assig. Taxonomy: 233,231 Assig. EGGNOG: 1,174 Assig. INTERPRO2GO: 1,069 MinSupport set to: 116 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 979 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (1.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 93 Class. EGGNOG: 566 Class. INTERPRO2GO: 514 Total time: 18s Peak memory: 3.9 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/53F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 9cc7f02ae2ddf33515167b450a2392c4 /gscratch/srlab/sam/data/C_virginica/BSseq/53F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000177s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005219s] Opening the output file... [0.000289s] Loading query sequences... [172.225s] Masking queries... [87.7338s] Building query seed set... [0.55405s] Algorithm: Double-indexed Building query histograms... [5.34368s] Allocating buffers... [0.000987s] Loading reference sequences... [362.857s] Masking reference... [58.2298s] Initializing temporary storage... [0.005344s] Building reference histograms... [13.2437s] Allocating buffers... [0.000329s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.66337s] Building query seed array... [3.71749s] Computing hash join... [5.0245s] Building seed filter... [0.124267s] Searching alignments... [52.0256s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [11.9915s] Building query seed array... [4.10951s] Computing hash join... [4.97232s] Building seed filter... [0.121677s] Searching alignments... [51.281s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.8527s] Building query seed array... [4.11981s] Computing hash join... [4.90933s] Building seed filter... [0.130656s] Searching alignments... [51.1351s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.35726s] Building query seed array... [3.50754s] Computing hash join... [4.92026s] Building seed filter... [0.124137s] Searching alignments... [50.7108s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.77203s] Building query seed array... [3.47777s] Computing hash join... [4.75198s] Building seed filter... [0.117s] Searching alignments... [38.847s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9865s] Building query seed array... [3.79921s] Computing hash join... [4.71137s] Building seed filter... [0.127374s] Searching alignments... [39.3443s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.4553s] Building query seed array... [3.99041s] Computing hash join... [4.76851s] Building seed filter... [0.117257s] Searching alignments... [38.9967s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.36619s] Building query seed array... [3.52151s] Computing hash join... [4.6839s] Building seed filter... [0.125932s] Searching alignments... [38.8897s] Deallocating buffers... [0.105799s] Opening temporary output file... [0.000916s] Computing alignments... [70.0769s] Deallocating reference... [0.075077s] Loading reference sequences... [346.022s] Masking reference... [57.9191s] Initializing temporary storage... [0.005122s] Building reference histograms... [13.1021s] Allocating buffers... [0.000325s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [10.1826s] Building query seed array... [3.67467s] Computing hash join... [4.89064s] Building seed filter... [0.119704s] Searching alignments... [48.6657s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.4828s] Building query seed array... [4.12157s] Computing hash join... [4.92799s] Building seed filter... [0.118157s] Searching alignments... [47.1663s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.151s] Building query seed array... [4.13888s] Computing hash join... [4.91427s] Building seed filter... [0.122567s] Searching alignments... [47.4775s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.31661s] Building query seed array... [3.58705s] Computing hash join... [4.90155s] Building seed filter... [0.132495s] Searching alignments... [46.7335s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.27405s] Building query seed array... [3.42475s] Computing hash join... [4.64872s] Building seed filter... [0.119587s] Searching alignments... [35.796s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.8457s] Building query seed array... [3.78247s] Computing hash join... [4.75568s] Building seed filter... [0.115576s] Searching alignments... [36.7956s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.4313s] Building query seed array... [3.94619s] Computing hash join... [4.77833s] Building seed filter... [0.120851s] Searching alignments... [35.5511s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.32158s] Building query seed array... [3.44793s] Computing hash join... [4.73325s] Building seed filter... [0.11563s] Searching alignments... [35.6813s] Deallocating buffers... [0.107119s] Opening temporary output file... [0.000557s] Computing alignments... [69.6062s] Deallocating reference... [0.06961s] Loading reference sequences... [342.69s] Masking reference... [58.5182s] Initializing temporary storage... [0.005171s] Building reference histograms... [12.7024s] Allocating buffers... [0.000315s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.61378s] Building query seed array... [3.61033s] Computing hash join... [4.88832s] Building seed filter... [0.1228s] Searching alignments... [49.5187s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.8685s] Building query seed array... [4.03846s] Computing hash join... [4.84898s] Building seed filter... [0.121536s] Searching alignments... [48.1934s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.0018s] Building query seed array... [4.22795s] Computing hash join... [4.82202s] Building seed filter... [0.126258s] Searching alignments... [48.0226s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.67018s] Building query seed array... [3.60373s] Computing hash join... [4.79392s] Building seed filter... [0.120717s] Searching alignments... [47.9016s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.56868s] Building query seed array... [3.51512s] Computing hash join... [4.69132s] Building seed filter... [0.119304s] Searching alignments... [36.551s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.0411s] Building query seed array... [3.83936s] Computing hash join... [4.72559s] Building seed filter... [0.115546s] Searching alignments... [37.5084s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.4298s] Building query seed array... [3.88954s] Computing hash join... [4.63385s] Building seed filter... [0.125052s] Searching alignments... [36.5204s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.55306s] Building query seed array... [3.30275s] Computing hash join... [4.72657s] Building seed filter... [0.126567s] Searching alignments... [36.6712s] Deallocating buffers... [0.104626s] Opening temporary output file... [0.000894s] Computing alignments... [69.4551s] Deallocating reference... [0.068708s] Loading reference sequences... [317.751s] Masking reference... [57.6639s] Initializing temporary storage... [0.00402s] Building reference histograms... [13.6215s] Allocating buffers... [0.000325s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.57737s] Building query seed array... [3.60726s] Computing hash join... [4.88909s] Building seed filter... [0.124534s] Searching alignments... [52.1056s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [11.591s] Building query seed array... [3.93295s] Computing hash join... [4.93644s] Building seed filter... [0.122935s] Searching alignments... [52.192s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.0849s] Building query seed array... [4.11876s] Computing hash join... [4.85494s] Building seed filter... [0.129653s] Searching alignments... [51.6383s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.481s] Building query seed array... [3.45603s] Computing hash join... [4.8459s] Building seed filter... [0.132401s] Searching alignments... [51.2189s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.22928s] Building query seed array... [3.45874s] Computing hash join... [4.73294s] Building seed filter... [0.123876s] Searching alignments... [39.413s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.2941s] Building query seed array... [3.80626s] Computing hash join... [4.70821s] Building seed filter... [0.131378s] Searching alignments... [39.8496s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.2788s] Building query seed array... [3.91834s] Computing hash join... [4.72468s] Building seed filter... [0.126068s] Searching alignments... [39.2586s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.37552s] Building query seed array... [3.81072s] Computing hash join... [4.77959s] Building seed filter... [0.118918s] Searching alignments... [39.3744s] Deallocating buffers... [0.123683s] Opening temporary output file... [0.000493s] Computing alignments... [70.5554s] Deallocating reference... [0.064439s] Loading reference sequences... [308.292s] Masking reference... [57.5303s] Initializing temporary storage... [0.003931s] Building reference histograms... [12.7954s] Allocating buffers... [0.000324s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [10.0654s] Building query seed array... [3.64091s] Computing hash join... [5.00473s] Building seed filter... [0.124671s] Searching alignments... [53.7921s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [11.9674s] Building query seed array... [4.13907s] Computing hash join... [4.89151s] Building seed filter... [0.126259s] Searching alignments... [50.7828s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.3789s] Building query seed array... [4.07435s] Computing hash join... [4.85644s] Building seed filter... [0.126895s] Searching alignments... [51.0558s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.67497s] Building query seed array... [3.48321s] Computing hash join... [4.82159s] Building seed filter... [0.121083s] Searching alignments... [50.4523s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.46441s] Building query seed array... [3.43172s] Computing hash join... [4.75084s] Building seed filter... [0.119796s] Searching alignments... [38.8214s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.1077s] Building query seed array... [3.85866s] Computing hash join... [4.73659s] Building seed filter... [0.117212s] Searching alignments... [38.9481s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.1549s] Building query seed array... [3.85661s] Computing hash join... [4.70936s] Building seed filter... [0.119448s] Searching alignments... [38.5999s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.50781s] Building query seed array... [3.45539s] Computing hash join... [4.6638s] Building seed filter... [0.118142s] Searching alignments... [38.8378s] Deallocating buffers... [0.121029s] Opening temporary output file... [0.00095s] Computing alignments... [70.4047s] Deallocating reference... [0.062423s] Loading reference sequences... [135.918s] Masking reference... [21.5397s] Initializing temporary storage... [0.00394s] Building reference histograms... [4.91447s] Allocating buffers... [0.000333s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.60026s] Building query seed array... [3.66542s] Computing hash join... [2.37593s] Building seed filter... [0.091023s] Searching alignments... [22.3513s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.87951s] Building query seed array... [4.05965s] Computing hash join... [2.34408s] Building seed filter... [0.084961s] Searching alignments... [20.7739s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.85337s] Building query seed array... [4.00524s] Computing hash join... [2.34141s] Building seed filter... [0.090362s] Searching alignments... [20.8614s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.68717s] Building query seed array... [3.56904s] Computing hash join... [2.30716s] Building seed filter... [0.089005s] Searching alignments... [20.9287s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.68758s] Building query seed array... [3.34343s] Computing hash join... [2.20691s] Building seed filter... [0.081211s] Searching alignments... [15.7683s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.68269s] Building query seed array... [3.78809s] Computing hash join... [2.19016s] Building seed filter... [0.079847s] Searching alignments... [15.9966s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.68976s] Building query seed array... [3.9507s] Computing hash join... [2.17772s] Building seed filter... [0.082151s] Searching alignments... [15.8345s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.5804s] Building query seed array... [3.35204s] Computing hash join... [2.18614s] Building seed filter... [0.080614s] Searching alignments... [16.1538s] Deallocating buffers... [0.046528s] Opening temporary output file... [0.018436s] Computing alignments... [66.7043s] Deallocating reference... [0.028373s] Loading reference sequences... [4.4e-05s] Deallocating buffers... [0.01575s] Joining output blocks... [2.80688s] Deallocating queries... [0.068718s] Loading query sequences... [3e-05s] Closing the input file... [4e-05s] Closing the output file... [0.073143s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 5658.02s Reported 2494687 pairwise alignments, 2495302 HSPs. 288001 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 53F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.8s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (7.8s) Total reads: 288,001 With hits: 288,001 Alignments: 2,495,302 Assig. Taxonomy: 288,001 Assig. EGGNOG: 2,152 Assig. INTERPRO2GO: 2,117 MinSupport set to: 144 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 1,126 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.7s) Binning reads Syncing 100% (0.1s) Class. Taxonomy: 99 Class. EGGNOG: 823 Class. INTERPRO2GO: 648 Total time: 19s Peak memory: 3.6 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/53F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 9cc32747a2667e9b039f2ba95e725f3d /gscratch/srlab/sam/data/C_virginica/BSseq/53F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.038099s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.009442s] Opening the output file... [0.000328s] Loading query sequences... [174.583s] Masking queries... [89.3391s] Building query seed set... [0.553902s] Algorithm: Double-indexed Building query histograms... [5.29507s] Allocating buffers... [0.000838s] Loading reference sequences... [46.0539s] Masking reference... [58.6791s] Initializing temporary storage... [0.005194s] Building reference histograms... [13.5758s] Allocating buffers... [0.000303s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.98445s] Building query seed array... [3.56402s] Computing hash join... [5.06298s] Building seed filter... [0.144051s] Searching alignments... [49.957s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.3193s] Building query seed array... [3.90064s] Computing hash join... [5.01471s] Building seed filter... [0.125696s] Searching alignments... [48.9288s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.4299s] Building query seed array... [4.01619s] Computing hash join... [4.94485s] Building seed filter... [0.12835s] Searching alignments... [49.0092s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.49888s] Building query seed array... [3.47542s] Computing hash join... [4.93129s] Building seed filter... [0.138554s] Searching alignments... [47.6431s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.38215s] Building query seed array... [3.25925s] Computing hash join... [4.69317s] Building seed filter... [0.132136s] Searching alignments... [37.8466s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.8709s] Building query seed array... [3.65395s] Computing hash join... [4.72351s] Building seed filter... [0.128438s] Searching alignments... [37.9955s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.2874s] Building query seed array... [3.76983s] Computing hash join... [4.84141s] Building seed filter... [0.12669s] Searching alignments... [37.7008s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.25036s] Building query seed array... [3.13806s] Computing hash join... [4.77022s] Building seed filter... [0.137601s] Searching alignments... [37.6861s] Deallocating buffers... [0.121979s] Opening temporary output file... [0.000594s] Computing alignments... [68.4585s] Deallocating reference... [0.078905s] Loading reference sequences... [51.763s] Masking reference... [57.7979s] Initializing temporary storage... [0.004752s] Building reference histograms... [12.9614s] Allocating buffers... [0.000322s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.70605s] Building query seed array... [3.55205s] Computing hash join... [5.00735s] Building seed filter... [0.128547s] Searching alignments... [46.2263s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.3799s] Building query seed array... [3.99181s] Computing hash join... [4.96862s] Building seed filter... [0.130754s] Searching alignments... [45.1882s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.3839s] Building query seed array... [3.98707s] Computing hash join... [4.93528s] Building seed filter... [0.131123s] Searching alignments... [45s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.75387s] Building query seed array... [3.50202s] Computing hash join... [4.86716s] Building seed filter... [0.127167s] Searching alignments... [44.0808s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.25736s] Building query seed array... [3.27781s] Computing hash join... [4.69582s] Building seed filter... [0.121389s] Searching alignments... [34.6947s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.1749s] Building query seed array... [3.54336s] Computing hash join... [4.79641s] Building seed filter... [0.125928s] Searching alignments... [34.8129s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.5045s] Building query seed array... [3.65163s] Computing hash join... [4.8082s] Building seed filter... [0.148941s] Searching alignments... [35.0082s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.57992s] Building query seed array... [3.19394s] Computing hash join... [4.84388s] Building seed filter... [0.128793s] Searching alignments... [34.1575s] Deallocating buffers... [0.104775s] Opening temporary output file... [0.000927s] Computing alignments... [68.9987s] Deallocating reference... [0.070702s] Loading reference sequences... [342.042s] Masking reference... [57.5858s] Initializing temporary storage... [0.003974s] Building reference histograms... [13.0835s] Allocating buffers... [0.000315s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.70175s] Building query seed array... [3.47789s] Computing hash join... [4.9417s] Building seed filter... [0.125837s] Searching alignments... [46.1453s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.8645s] Building query seed array... [3.94158s] Computing hash join... [4.8505s] Building seed filter... [0.131022s] Searching alignments... [45.7863s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.8556s] Building query seed array... [4.01432s] Computing hash join... [4.94252s] Building seed filter... [0.133116s] Searching alignments... [45.1141s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.54789s] Building query seed array... [3.53815s] Computing hash join... [4.9574s] Building seed filter... [0.131896s] Searching alignments... [45.2151s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.18486s] Building query seed array... [3.2895s] Computing hash join... [4.72136s] Building seed filter... [0.121597s] Searching alignments... [35.5208s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.0655s] Building query seed array... [3.66801s] Computing hash join... [4.72589s] Building seed filter... [0.123694s] Searching alignments... [35.4352s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.4286s] Building query seed array... [3.68077s] Computing hash join... [4.76092s] Building seed filter... [0.129622s] Searching alignments... [34.796s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.19513s] Building query seed array... [3.23004s] Computing hash join... [4.77061s] Building seed filter... [0.127703s] Searching alignments... [34.8155s] Deallocating buffers... [0.105871s] Opening temporary output file... [0.000538s] Computing alignments... [68.0861s] Deallocating reference... [0.072695s] Loading reference sequences... [321.363s] Masking reference... [57.8685s] Initializing temporary storage... [0.004605s] Building reference histograms... [13.7156s] Allocating buffers... [0.000325s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.5575s] Building query seed array... [3.52211s] Computing hash join... [5.04776s] Building seed filter... [0.127377s] Searching alignments... [49.0583s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [11.7972s] Building query seed array... [3.96414s] Computing hash join... [4.97524s] Building seed filter... [0.13012s] Searching alignments... [48.5947s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.7387s] Building query seed array... [4.07387s] Computing hash join... [4.9596s] Building seed filter... [0.136969s] Searching alignments... [49.1193s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.56522s] Building query seed array... [3.2802s] Computing hash join... [4.86059s] Building seed filter... [0.135902s] Searching alignments... [47.7363s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.38074s] Building query seed array... [3.19524s] Computing hash join... [4.79282s] Building seed filter... [0.128158s] Searching alignments... [37.9022s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.0034s] Building query seed array... [3.62795s] Computing hash join... [4.79908s] Building seed filter... [0.132659s] Searching alignments... [38.6426s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.5446s] Building query seed array... [3.65425s] Computing hash join... [4.70519s] Building seed filter... [0.1347s] Searching alignments... [38.3183s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.64373s] Building query seed array... [3.14979s] Computing hash join... [4.63427s] Building seed filter... [0.127723s] Searching alignments... [37.036s] Deallocating buffers... [0.105616s] Opening temporary output file... [0.000441s] Computing alignments... [67.689s] Deallocating reference... [0.064353s] Loading reference sequences... [307.292s] Masking reference... [57.4819s] Initializing temporary storage... [0.004006s] Building reference histograms... [13.2075s] Allocating buffers... [0.000315s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.4714s] Building query seed array... [3.4716s] Computing hash join... [5.03562s] Building seed filter... [0.133537s] Searching alignments... [49.1957s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.6649s] Building query seed array... [3.99842s] Computing hash join... [4.92627s] Building seed filter... [0.129581s] Searching alignments... [48.9485s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.026s] Building query seed array... [3.99709s] Computing hash join... [4.86679s] Building seed filter... [0.145332s] Searching alignments... [48.2466s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.52051s] Building query seed array... [3.44833s] Computing hash join... [4.92806s] Building seed filter... [0.134012s] Searching alignments... [47.3661s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.74472s] Building query seed array... [3.308s] Computing hash join... [4.77416s] Building seed filter... [0.129069s] Searching alignments... [38.424s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.9769s] Building query seed array... [3.66757s] Computing hash join... [4.81075s] Building seed filter... [0.139705s] Searching alignments... [37.6705s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.5164s] Building query seed array... [3.73721s] Computing hash join... [4.78897s] Building seed filter... [0.121954s] Searching alignments... [37.3774s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.34706s] Building query seed array... [3.13995s] Computing hash join... [4.76798s] Building seed filter... [0.132665s] Searching alignments... [37.0836s] Deallocating buffers... [0.104432s] Opening temporary output file... [0.000491s] Computing alignments... [68.8808s] Deallocating reference... [0.060992s] Loading reference sequences... [134.496s] Masking reference... [21.4474s] Initializing temporary storage... [0.004021s] Building reference histograms... [5.13925s] Allocating buffers... [0.000323s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.71192s] Building query seed array... [3.48468s] Computing hash join... [2.36644s] Building seed filter... [0.084811s] Searching alignments... [21.0385s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.71512s] Building query seed array... [3.88883s] Computing hash join... [2.33747s] Building seed filter... [0.08515s] Searching alignments... [19.8052s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.52945s] Building query seed array... [3.9756s] Computing hash join... [2.32723s] Building seed filter... [0.087781s] Searching alignments... [19.6267s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.66458s] Building query seed array... [3.47108s] Computing hash join... [2.30964s] Building seed filter... [0.081539s] Searching alignments... [19.4385s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.60008s] Building query seed array... [3.10141s] Computing hash join... [2.18212s] Building seed filter... [0.079805s] Searching alignments... [15.3065s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.49241s] Building query seed array... [3.57107s] Computing hash join... [2.2264s] Building seed filter... [0.084381s] Searching alignments... [15.4368s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.70353s] Building query seed array... [3.66569s] Computing hash join... [2.1756s] Building seed filter... [0.082302s] Searching alignments... [15.5661s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.56047s] Building query seed array... [3.19781s] Computing hash join... [2.18604s] Building seed filter... [0.084214s] Searching alignments... [15.4s] Deallocating buffers... [0.042457s] Opening temporary output file... [0.001455s] Computing alignments... [69.4666s] Deallocating reference... [0.02874s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.015233s] Joining output blocks... [2.50784s] Deallocating queries... [0.06791s] Loading query sequences... [2.8e-05s] Closing the input file... [4e-05s] Closing the output file... [0.049709s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 4951.7s Reported 1934161 pairwise alignments, 1934595 HSPs. 230709 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 53F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.7s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (6.6s) Total reads: 230,709 With hits: 230,709 Alignments: 1,934,595 Assig. Taxonomy: 230,709 Assig. EGGNOG: 1,799 Assig. INTERPRO2GO: 1,507 MinSupport set to: 115 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Min-supp. changes: 1,089 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 104 Class. EGGNOG: 760 Class. INTERPRO2GO: 583 Total time: 18s Peak memory: 5.6 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/54F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 77851980799cf33a1c13303702c6bffa /gscratch/srlab/sam/data/C_virginica/BSseq/54F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000212s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006682s] Opening the output file... [0.000306s] Loading query sequences... [221.091s] Masking queries... [126.12s] Building query seed set... [0.672426s] Algorithm: Double-indexed Building query histograms... [6.89394s] Allocating buffers... [0.000839s] Loading reference sequences... [381.666s] Masking reference... [57.4728s] Initializing temporary storage... [0.004619s] Building reference histograms... [13.3198s] Allocating buffers... [0.000345s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.64591s] Building query seed array... [4.59246s] Computing hash join... [5.3419s] Building seed filter... [0.131175s] Searching alignments... [62.624s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.2513s] Building query seed array... [5.19408s] Computing hash join... [5.2109s] Building seed filter... [0.135599s] Searching alignments... [61.7011s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.3698s] Building query seed array... [5.21611s] Computing hash join... [5.13983s] Building seed filter... [0.140469s] Searching alignments... [59.4907s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.5082s] Building query seed array... [4.61482s] Computing hash join... [5.1888s] Building seed filter... [0.137518s] Searching alignments... [59.2429s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.64706s] Building query seed array... [4.39412s] Computing hash join... [4.88312s] Building seed filter... [0.134634s] Searching alignments... [47.4137s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.0781s] Building query seed array... [5.22861s] Computing hash join... [4.93836s] Building seed filter... [0.129832s] Searching alignments... [48.7272s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.4594s] Building query seed array... [5.20008s] Computing hash join... [5.08081s] Building seed filter... [0.13402s] Searching alignments... [49.0284s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.56602s] Building query seed array... [4.39489s] Computing hash join... [4.91177s] Building seed filter... [0.122673s] Searching alignments... [46.3389s] Deallocating buffers... [0.105989s] Opening temporary output file... [0.000489s] Computing alignments... [86.7844s] Deallocating reference... [0.077923s] Loading reference sequences... [355.024s] Masking reference... [57.7098s] Initializing temporary storage... [0.00411s] Building reference histograms... [13.4152s] Allocating buffers... [0.000315s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.52599s] Building query seed array... [4.60985s] Computing hash join... [5.20613s] Building seed filter... [0.140748s] Searching alignments... [60.0447s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.4558s] Building query seed array... [5.40589s] Computing hash join... [5.13661s] Building seed filter... [0.120965s] Searching alignments... [57.4897s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.7033s] Building query seed array... [5.48306s] Computing hash join... [5.16169s] Building seed filter... [0.129202s] Searching alignments... [54.8114s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.67957s] Building query seed array... [4.43061s] Computing hash join... [5.20409s] Building seed filter... [0.128878s] Searching alignments... [55.0054s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.28843s] Building query seed array... [4.47022s] Computing hash join... [5.00316s] Building seed filter... [0.120473s] Searching alignments... [43.126s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.9008s] Building query seed array... [5.07356s] Computing hash join... [5.02862s] Building seed filter... [0.12186s] Searching alignments... [44.1609s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.0094s] Building query seed array... [5.24289s] Computing hash join... [4.96672s] Building seed filter... [0.122905s] Searching alignments... [43.6125s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.57049s] Building query seed array... [4.47942s] Computing hash join... [4.91581s] Building seed filter... [0.120664s] Searching alignments... [43.989s] Deallocating buffers... [0.112772s] Opening temporary output file... [0.000558s] Computing alignments... [86.6004s] Deallocating reference... [0.070501s] Loading reference sequences... [342.438s] Masking reference... [57.9853s] Initializing temporary storage... [0.005109s] Building reference histograms... [13.1134s] Allocating buffers... [0.000319s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.85392s] Building query seed array... [4.5926s] Computing hash join... [5.18357s] Building seed filter... [0.140308s] Searching alignments... [61.768s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.9701s] Building query seed array... [5.36879s] Computing hash join... [5.17499s] Building seed filter... [0.129348s] Searching alignments... [56.7573s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.0352s] Building query seed array... [5.33877s] Computing hash join... [5.19766s] Building seed filter... [0.124698s] Searching alignments... [55.922s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.66955s] Building query seed array... [4.6732s] Computing hash join... [5.18704s] Building seed filter... [0.136901s] Searching alignments... [56.2484s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.65527s] Building query seed array... [4.32572s] Computing hash join... [4.95918s] Building seed filter... [0.117532s] Searching alignments... [44.5458s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.3073s] Building query seed array... [5.34834s] Computing hash join... [4.95411s] Building seed filter... [0.133541s] Searching alignments... [45.9866s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.138s] Building query seed array... [5.20282s] Computing hash join... [4.96071s] Building seed filter... [0.123733s] Searching alignments... [44.715s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [8.92762s] Building query seed array... [4.27044s] Computing hash join... [5.04055s] Building seed filter... [0.129004s] Searching alignments... [44.9391s] Deallocating buffers... [0.114127s] Opening temporary output file... [0.000568s] Computing alignments... [85.8799s] Deallocating reference... [0.071109s] Loading reference sequences... [319.761s] Masking reference... [57.8137s] Initializing temporary storage... [0.004661s] Building reference histograms... [13.406s] Allocating buffers... [0.000376s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.3014s] Building query seed array... [4.74635s] Computing hash join... [5.21061s] Building seed filter... [0.128548s] Searching alignments... [64.4577s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.7462s] Building query seed array... [5.3591s] Computing hash join... [5.17631s] Building seed filter... [0.12017s] Searching alignments... [61.5854s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.6185s] Building query seed array... [5.48282s] Computing hash join... [5.18606s] Building seed filter... [0.132854s] Searching alignments... [59.0908s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.49613s] Building query seed array... [4.33734s] Computing hash join... [5.03355s] Building seed filter... [0.141174s] Searching alignments... [60.4391s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.38608s] Building query seed array... [4.28134s] Computing hash join... [4.94378s] Building seed filter... [0.117548s] Searching alignments... [47.9369s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.0653s] Building query seed array... [5.10847s] Computing hash join... [5.01012s] Building seed filter... [0.11744s] Searching alignments... [48.7887s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.0888s] Building query seed array... [4.84309s] Computing hash join... [5.00579s] Building seed filter... [0.120459s] Searching alignments... [47.2454s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.86899s] Building query seed array... [4.46997s] Computing hash join... [4.90106s] Building seed filter... [0.127128s] Searching alignments... [47.5323s] Deallocating buffers... [0.105536s] Opening temporary output file... [0.000944s] Computing alignments... [84.8664s] Deallocating reference... [0.066085s] Loading reference sequences... [312.885s] Masking reference... [58.6463s] Initializing temporary storage... [0.004266s] Building reference histograms... [12.7491s] Allocating buffers... [0.000345s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.90985s] Building query seed array... [4.65072s] Computing hash join... [5.25981s] Building seed filter... [0.136962s] Searching alignments... [64.1507s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.2826s] Building query seed array... [5.34845s] Computing hash join... [5.21794s] Building seed filter... [0.131045s] Searching alignments... [60.1506s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.6639s] Building query seed array... [5.17641s] Computing hash join... [5.1032s] Building seed filter... [0.138589s] Searching alignments... [58.8841s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.64555s] Building query seed array... [4.63309s] Computing hash join... [5.11287s] Building seed filter... [0.122659s] Searching alignments... [59.4364s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.50995s] Building query seed array... [4.48767s] Computing hash join... [5.0414s] Building seed filter... [0.126286s] Searching alignments... [46.5297s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.5576s] Building query seed array... [5.03823s] Computing hash join... [4.96213s] Building seed filter... [0.130443s] Searching alignments... [48.5627s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.8099s] Building query seed array... [5.24646s] Computing hash join... [4.92401s] Building seed filter... [0.122437s] Searching alignments... [46.2837s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.21226s] Building query seed array... [4.52804s] Computing hash join... [4.99427s] Building seed filter... [0.126195s] Searching alignments... [46.6305s] Deallocating buffers... [0.112182s] Opening temporary output file... [0.001081s] Computing alignments... [87.1309s] Deallocating reference... [0.063172s] Loading reference sequences... [133.006s] Masking reference... [21.4111s] Initializing temporary storage... [0.003925s] Building reference histograms... [4.82096s] Allocating buffers... [0.000337s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.81607s] Building query seed array... [4.77736s] Computing hash join... [2.7253s] Building seed filter... [0.080526s] Searching alignments... [27.2487s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.65206s] Building query seed array... [5.21325s] Computing hash join... [2.62337s] Building seed filter... [0.08521s] Searching alignments... [25.7841s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.68038s] Building query seed array... [5.08422s] Computing hash join... [2.60903s] Building seed filter... [0.085813s] Searching alignments... [24.5131s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.64658s] Building query seed array... [4.45813s] Computing hash join... [2.60786s] Building seed filter... [0.083774s] Searching alignments... [24.9471s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.55901s] Building query seed array... [4.20189s] Computing hash join... [2.4105s] Building seed filter... [0.074985s] Searching alignments... [18.949s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.6464s] Building query seed array... [4.95456s] Computing hash join... [2.4702s] Building seed filter... [0.080393s] Searching alignments... [19.9709s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.77298s] Building query seed array... [5.22128s] Computing hash join... [2.48531s] Building seed filter... [0.077039s] Searching alignments... [19.9825s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.62953s] Building query seed array... [4.43384s] Computing hash join... [2.46085s] Building seed filter... [0.077466s] Searching alignments... [19.7301s] Deallocating buffers... [0.041457s] Opening temporary output file... [0.01106s] Computing alignments... [83.1138s] Deallocating reference... [0.027976s] Loading reference sequences... [0.016814s] Deallocating buffers... [0.021774s] Joining output blocks... [3.28333s] Deallocating queries... [0.086521s] Loading query sequences... [34.8581s] Masking queries... [16.4453s] Building query seed set... [1.2e-05s] Building query histograms... [1.10686s] Allocating buffers... [0.000829s] Loading reference sequences... [44.1161s] Masking reference... [58.9688s] Initializing temporary storage... [0.005077s] Building reference histograms... [13.3002s] Allocating buffers... [0.000311s] Processing query block 1, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.96371s] Building query seed array... [0.776845s] Computing hash join... [4.25063s] Building seed filter... [0.069663s] Searching alignments... [10.5798s] Processing query block 1, reference block 0, shape 0, index chunk 1. Building reference seed array... [11.9504s] Building query seed array... [0.875176s] Computing hash join... [4.18374s] Building seed filter... [0.065526s] Searching alignments... [10.2616s] Processing query block 1, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.1701s] Building query seed array... [0.855093s] Computing hash join... [4.26019s] Building seed filter... [0.068813s] Searching alignments... [9.81962s] Processing query block 1, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.29583s] Building query seed array... [0.763369s] Computing hash join... [4.16392s] Building seed filter... [0.064397s] Searching alignments... [9.9675s] Processing query block 1, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.63297s] Building query seed array... [0.746977s] Computing hash join... [4.1489s] Building seed filter... [0.066636s] Searching alignments... [8.18025s] Processing query block 1, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.0096s] Building query seed array... [0.851614s] Computing hash join... [4.19118s] Building seed filter... [0.064152s] Searching alignments... [8.43258s] Processing query block 1, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.6563s] Building query seed array... [0.862801s] Computing hash join... [4.1536s] Building seed filter... [0.062249s] Searching alignments... [8.19636s] Processing query block 1, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.46601s] Building query seed array... [0.733032s] Computing hash join... [4.04191s] Building seed filter... [0.066425s] Searching alignments... [7.97506s] Deallocating buffers... [0.102777s] Opening temporary output file... [0.000975s] Computing alignments... [12.2695s] Deallocating reference... [0.073023s] Loading reference sequences... [51.337s] Masking reference... [57.7149s] Initializing temporary storage... [0.005056s] Building reference histograms... [12.9175s] Allocating buffers... [0.000328s] Processing query block 1, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.91474s] Building query seed array... [0.80183s] Computing hash join... [4.19304s] Building seed filter... [0.068232s] Searching alignments... [10.2867s] Processing query block 1, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.2074s] Building query seed array... [0.907802s] Computing hash join... [4.23692s] Building seed filter... [0.06317s] Searching alignments... [9.49128s] Processing query block 1, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.1627s] Building query seed array... [0.861574s] Computing hash join... [4.21767s] Building seed filter... [0.063368s] Searching alignments... [9.23868s] Processing query block 1, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.6142s] Building query seed array... [0.83757s] Computing hash join... [4.22414s] Building seed filter... [0.064076s] Searching alignments... [9.40051s] Processing query block 1, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.66637s] Building query seed array... [0.735427s] Computing hash join... [4.13239s] Building seed filter... [0.063383s] Searching alignments... [7.54777s] Processing query block 1, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.9231s] Building query seed array... [0.830557s] Computing hash join... [4.07647s] Building seed filter... [0.065036s] Searching alignments... [7.57565s] Processing query block 1, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.3772s] Building query seed array... [0.875194s] Computing hash join... [4.04388s] Building seed filter... [0.066737s] Searching alignments... [7.47526s] Processing query block 1, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.2942s] Building query seed array... [0.743883s] Computing hash join... [4.10438s] Building seed filter... [0.062508s] Searching alignments... [7.52937s] Deallocating buffers... [0.107244s] Opening temporary output file... [0.000982s] Computing alignments... [12.4993s] Deallocating reference... [0.068892s] Loading reference sequences... [342.374s] Masking reference... [58.3803s] Initializing temporary storage... [0.00496s] Building reference histograms... [13.3711s] Allocating buffers... [0.000825s] Processing query block 1, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.86353s] Building query seed array... [0.830123s] Computing hash join... [4.22159s] Building seed filter... [0.068001s] Searching alignments... [10.0948s] Processing query block 1, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.984s] Building query seed array... [0.859808s] Computing hash join... [4.22574s] Building seed filter... [0.062153s] Searching alignments... [9.63334s] Processing query block 1, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.4263s] Building query seed array... [0.889149s] Computing hash join... [4.21252s] Building seed filter... [0.064565s] Searching alignments... [9.27565s] Processing query block 1, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.41797s] Building query seed array... [0.798549s] Computing hash join... [4.23196s] Building seed filter... [0.064245s] Searching alignments... [9.42431s] Processing query block 1, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.05897s] Building query seed array... [0.746294s] Computing hash join... [4.15132s] Building seed filter... [0.062161s] Searching alignments... [7.75251s] Processing query block 1, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.7172s] Building query seed array... [0.862211s] Computing hash join... [4.16038s] Building seed filter... [0.064031s] Searching alignments... [7.91384s] Processing query block 1, reference block 2, shape 1, index chunk 2. Building reference seed array... [11.8272s] Building query seed array... [0.85799s] Computing hash join... [4.07405s] Building seed filter... [0.06401s] Searching alignments... [7.68863s] Processing query block 1, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.08831s] Building query seed array... [0.776088s] Computing hash join... [4.05378s] Building seed filter... [0.069817s] Searching alignments... [7.81579s] Deallocating buffers... [0.104193s] Opening temporary output file... [0.000913s] Computing alignments... [12.6668s] Deallocating reference... [0.067296s] Loading reference sequences... [321.679s] Masking reference... [57.7s] Initializing temporary storage... [0.003974s] Building reference histograms... [12.3017s] Allocating buffers... [0.000816s] Processing query block 1, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.7047s] Building query seed array... [0.812844s] Computing hash join... [4.27288s] Building seed filter... [0.065435s] Searching alignments... [10.7977s] Processing query block 1, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.2807s] Building query seed array... [0.948031s] Computing hash join... [4.20628s] Building seed filter... [0.061385s] Searching alignments... [10.3908s] Processing query block 1, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.8579s] Building query seed array... [0.895572s] Computing hash join... [4.19159s] Building seed filter... [0.077234s] Searching alignments... [9.97565s] Processing query block 1, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.57473s] Building query seed array... [0.734776s] Computing hash join... [4.22321s] Building seed filter... [0.067092s] Searching alignments... [10.1109s] Processing query block 1, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.2678s] Building query seed array... [0.774054s] Computing hash join... [4.2298s] Building seed filter... [0.061118s] Searching alignments... [8.00006s] Processing query block 1, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.1515s] Building query seed array... [0.834364s] Computing hash join... [4.14955s] Building seed filter... [0.059857s] Searching alignments... [8.33025s] Processing query block 1, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.3592s] Building query seed array... [0.864502s] Computing hash join... [4.20973s] Building seed filter... [0.061099s] Searching alignments... [7.91574s] Processing query block 1, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.66995s] Building query seed array... [0.731363s] Computing hash join... [4.14814s] Building seed filter... [0.06299s] Searching alignments... [8.14172s] Deallocating buffers... [0.105064s] Opening temporary output file... [0.000967s] Computing alignments... [12.5835s] Deallocating reference... [0.062018s] Loading reference sequences... [304.278s] Masking reference... [57.4843s] Initializing temporary storage... [0.004015s] Building reference histograms... [12.8826s] Allocating buffers... [0.000817s] Processing query block 1, reference block 4, shape 0, index chunk 0. Building reference seed array... [10.2964s] Building query seed array... [0.831763s] Computing hash join... [4.27623s] Building seed filter... [0.069351s] Searching alignments... [10.6966s] Processing query block 1, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.2181s] Building query seed array... [0.860282s] Computing hash join... [4.21973s] Building seed filter... [0.064701s] Searching alignments... [10.1851s] Processing query block 1, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.5155s] Building query seed array... [0.864442s] Computing hash join... [4.13777s] Building seed filter... [0.06717s] Searching alignments... [9.86176s] Processing query block 1, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.52577s] Building query seed array... [0.76113s] Computing hash join... [4.14778s] Building seed filter... [0.068577s] Searching alignments... [10.1689s] Processing query block 1, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.40236s] Building query seed array... [0.807196s] Computing hash join... [4.13117s] Building seed filter... [0.065865s] Searching alignments... [8.04088s] Processing query block 1, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.0919s] Building query seed array... [0.832963s] Computing hash join... [4.109s] Building seed filter... [0.065803s] Searching alignments... [8.3346s] Processing query block 1, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.2567s] Building query seed array... [0.862282s] Computing hash join... [4.13078s] Building seed filter... [0.065245s] Searching alignments... [7.97767s] Processing query block 1, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.31479s] Building query seed array... [0.739659s] Computing hash join... [4.13924s] Building seed filter... [0.066853s] Searching alignments... [8.02177s] Deallocating buffers... [0.106173s] Opening temporary output file... [0.000998s] Computing alignments... [13.0015s] Deallocating reference... [0.067105s] Loading reference sequences... [133.726s] Masking reference... [21.3241s] Initializing temporary storage... [0.003867s] Building reference histograms... [5.17302s] Allocating buffers... [0.000342s] Processing query block 1, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.51617s] Building query seed array... [0.772298s] Computing hash join... [1.61543s] Building seed filter... [0.039973s] Searching alignments... [4.52698s] Processing query block 1, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.5414s] Building query seed array... [0.867725s] Computing hash join... [1.56266s] Building seed filter... [0.035568s] Searching alignments... [4.1958s] Processing query block 1, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.5767s] Building query seed array... [0.84402s] Computing hash join... [1.58337s] Building seed filter... [0.039648s] Searching alignments... [4.11403s] Processing query block 1, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.44846s] Building query seed array... [0.707852s] Computing hash join... [1.59464s] Building seed filter... [0.039576s] Searching alignments... [4.25216s] Processing query block 1, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.50398s] Building query seed array... [0.75323s] Computing hash join... [1.56348s] Building seed filter... [0.034159s] Searching alignments... [3.19173s] Processing query block 1, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.49112s] Building query seed array... [0.808848s] Computing hash join... [1.57872s] Building seed filter... [0.03499s] Searching alignments... [3.3905s] Processing query block 1, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.68417s] Building query seed array... [0.826165s] Computing hash join... [1.57592s] Building seed filter... [0.036652s] Searching alignments... [3.27723s] Processing query block 1, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.50835s] Building query seed array... [0.751753s] Computing hash join... [1.5524s] Building seed filter... [0.034548s] Searching alignments... [3.24477s] Deallocating buffers... [0.042969s] Opening temporary output file... [0.000877s] Computing alignments... [12.3089s] Deallocating reference... [0.02687s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.003972s] Joining output blocks... [0.614703s] Deallocating queries... [0.014901s] Loading query sequences... [3.8e-05s] Closing the input file... [4.6e-05s] Closing the output file... [0.061799s] Closing the database file... [3.1e-05s] Deallocating taxonomy... [1.4e-05s] Total time = 9117.12s Reported 2540797 pairwise alignments, 2541418 HSPs. 329900 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 54F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.8s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (8.6s) Total reads: 329,900 With hits: 329,900 Alignments: 2,541,418 Assig. Taxonomy: 329,899 Assig. EGGNOG: 4,129 Assig. INTERPRO2GO: 1,772 MinSupport set to: 164 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 966 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 100 Class. EGGNOG: 583 Class. INTERPRO2GO: 497 Total time: 20s Peak memory: 6.1 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/54F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 7a5c7ec9712a422e9cb68cd9ac563452 /gscratch/srlab/sam/data/C_virginica/BSseq/54F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.040255s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005245s] Opening the output file... [0.000322s] Loading query sequences... [226.961s] Masking queries... [160.233s] Building query seed set... [0.653896s] Algorithm: Double-indexed Building query histograms... [6.80265s] Allocating buffers... [0.000836s] Loading reference sequences... [44.1771s] Masking reference... [58.813s] Initializing temporary storage... [0.004504s] Building reference histograms... [13.3747s] Allocating buffers... [0.000337s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.83032s] Building query seed array... [4.60409s] Computing hash join... [5.42703s] Building seed filter... [0.146601s] Searching alignments... [60.5465s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.1472s] Building query seed array... [5.18756s] Computing hash join... [5.23895s] Building seed filter... [0.141395s] Searching alignments... [60.1231s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.1913s] Building query seed array... [5.27363s] Computing hash join... [5.36747s] Building seed filter... [0.14626s] Searching alignments... [57.8522s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.33999s] Building query seed array... [4.53427s] Computing hash join... [5.34944s] Building seed filter... [0.149214s] Searching alignments... [57.8357s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.16856s] Building query seed array... [4.16405s] Computing hash join... [5.01059s] Building seed filter... [0.136574s] Searching alignments... [46.242s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.1401s] Building query seed array... [4.88252s] Computing hash join... [5.12533s] Building seed filter... [0.140591s] Searching alignments... [47.1997s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.2833s] Building query seed array... [4.88809s] Computing hash join... [5.09449s] Building seed filter... [0.138597s] Searching alignments... [46.7716s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.85589s] Building query seed array... [4.13034s] Computing hash join... [5.00467s] Building seed filter... [0.143184s] Searching alignments... [47.7385s] Deallocating buffers... [0.114013s] Opening temporary output file... [0.001079s] Computing alignments... [84.6041s] Deallocating reference... [0.073844s] Loading reference sequences... [345.479s] Masking reference... [57.724s] Initializing temporary storage... [0.01188s] Building reference histograms... [12.9234s] Allocating buffers... [0.000836s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [10.3937s] Building query seed array... [4.44571s] Computing hash join... [5.3631s] Building seed filter... [0.139334s] Searching alignments... [55.5258s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.2729s] Building query seed array... [5.22636s] Computing hash join... [5.31382s] Building seed filter... [0.135387s] Searching alignments... [54.8633s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.4723s] Building query seed array... [5.34339s] Computing hash join... [5.23491s] Building seed filter... [0.14865s] Searching alignments... [53.8472s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.46919s] Building query seed array... [4.53268s] Computing hash join... [5.13267s] Building seed filter... [0.143485s] Searching alignments... [53.0012s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.48473s] Building query seed array... [4.26812s] Computing hash join... [5.02909s] Building seed filter... [0.139069s] Searching alignments... [43.1894s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.4425s] Building query seed array... [4.95087s] Computing hash join... [5.10625s] Building seed filter... [0.14025s] Searching alignments... [42.9525s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.2911s] Building query seed array... [4.79209s] Computing hash join... [5.03427s] Building seed filter... [0.135255s] Searching alignments... [42.4388s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.46834s] Building query seed array... [4.08037s] Computing hash join... [5.02864s] Building seed filter... [0.140928s] Searching alignments... [43.6927s] Deallocating buffers... [0.10942s] Opening temporary output file... [0.000985s] Computing alignments... [85.158s] Deallocating reference... [0.069653s] Loading reference sequences... [346.578s] Masking reference... [57.8152s] Initializing temporary storage... [0.004023s] Building reference histograms... [13.0517s] Allocating buffers... [0.000818s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.55153s] Building query seed array... [4.74817s] Computing hash join... [5.404s] Building seed filter... [0.14163s] Searching alignments... [56.6043s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.6118s] Building query seed array... [5.1629s] Computing hash join... [5.26408s] Building seed filter... [0.148579s] Searching alignments... [56.2852s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.6874s] Building query seed array... [5.18018s] Computing hash join... [5.22839s] Building seed filter... [0.143611s] Searching alignments... [53.8158s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [10.0543s] Building query seed array... [4.60533s] Computing hash join... [5.3184s] Building seed filter... [0.145742s] Searching alignments... [54.2301s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.98753s] Building query seed array... [4.32884s] Computing hash join... [5.11297s] Building seed filter... [0.153637s] Searching alignments... [44.0468s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.9913s] Building query seed array... [4.89212s] Computing hash join... [5.04385s] Building seed filter... [0.139842s] Searching alignments... [44.984s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [11.8539s] Building query seed array... [4.82927s] Computing hash join... [5.03931s] Building seed filter... [0.136842s] Searching alignments... [43.4663s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.82064s] Building query seed array... [4.28555s] Computing hash join... [5.12667s] Building seed filter... [0.135436s] Searching alignments... [45.3111s] Deallocating buffers... [0.113406s] Opening temporary output file... [0.00057s] Computing alignments... [87.9324s] Deallocating reference... [0.069937s] Loading reference sequences... [320.341s] Masking reference... [58.0834s] Initializing temporary storage... [0.00533s] Building reference histograms... [13.2883s] Allocating buffers... [0.000909s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.48875s] Building query seed array... [4.63727s] Computing hash join... [5.30758s] Building seed filter... [0.146279s] Searching alignments... [60.3496s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.7628s] Building query seed array... [5.1359s] Computing hash join... [5.28227s] Building seed filter... [0.142604s] Searching alignments... [59.5822s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.4832s] Building query seed array... [5.03975s] Computing hash join... [5.28703s] Building seed filter... [0.14273s] Searching alignments... [57.6131s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.41269s] Building query seed array... [4.36818s] Computing hash join... [5.23024s] Building seed filter... [0.137383s] Searching alignments... [57.9246s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.58718s] Building query seed array... [4.27752s] Computing hash join... [5.11628s] Building seed filter... [0.135032s] Searching alignments... [47.0947s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.2995s] Building query seed array... [4.92031s] Computing hash join... [5.04747s] Building seed filter... [0.134094s] Searching alignments... [47.3004s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.4186s] Building query seed array... [4.90574s] Computing hash join... [5.05042s] Building seed filter... [0.132594s] Searching alignments... [46.6034s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.48494s] Building query seed array... [4.20606s] Computing hash join... [5.06317s] Building seed filter... [0.138628s] Searching alignments... [47.8931s] Deallocating buffers... [0.12541s] Opening temporary output file... [0.001141s] Computing alignments... [85.1751s] Deallocating reference... [0.0634s] Loading reference sequences... [311.393s] Masking reference... [58.5867s] Initializing temporary storage... [0.004054s] Building reference histograms... [13.6417s] Allocating buffers... [0.000866s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.82384s] Building query seed array... [4.65326s] Computing hash join... [5.33766s] Building seed filter... [0.158629s] Searching alignments... [58.8833s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.2797s] Building query seed array... [5.15204s] Computing hash join... [5.22595s] Building seed filter... [0.152485s] Searching alignments... [59.1349s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.5161s] Building query seed array... [5.30001s] Computing hash join... [5.351s] Building seed filter... [0.138594s] Searching alignments... [58.7979s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.60918s] Building query seed array... [4.55821s] Computing hash join... [5.28063s] Building seed filter... [0.141178s] Searching alignments... [57.189s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.30089s] Building query seed array... [4.38699s] Computing hash join... [5.20513s] Building seed filter... [0.140071s] Searching alignments... [46.8808s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.0419s] Building query seed array... [4.86929s] Computing hash join... [5.20053s] Building seed filter... [0.144154s] Searching alignments... [47.1411s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.5617s] Building query seed array... [5.07014s] Computing hash join... [5.1119s] Building seed filter... [0.144674s] Searching alignments... [45.5745s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.16883s] Building query seed array... [4.32037s] Computing hash join... [5.08737s] Building seed filter... [0.141002s] Searching alignments... [46.5334s] Deallocating buffers... [0.108183s] Opening temporary output file... [0.001021s] Computing alignments... [86.3854s] Deallocating reference... [0.062507s] Loading reference sequences... [136.317s] Masking reference... [21.3961s] Initializing temporary storage... [0.004532s] Building reference histograms... [5.12891s] Allocating buffers... [0.000337s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.66816s] Building query seed array... [4.62728s] Computing hash join... [2.66513s] Building seed filter... [0.09244s] Searching alignments... [25.5162s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.51247s] Building query seed array... [5.10943s] Computing hash join... [2.67841s] Building seed filter... [0.091889s] Searching alignments... [24.6518s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.78643s] Building query seed array... [5.4239s] Computing hash join... [2.74931s] Building seed filter... [0.092786s] Searching alignments... [24.1355s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.67307s] Building query seed array... [4.35617s] Computing hash join... [2.68667s] Building seed filter... [0.086848s] Searching alignments... [23.655s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.68324s] Building query seed array... [4.11064s] Computing hash join... [2.47421s] Building seed filter... [0.083238s] Searching alignments... [19.2427s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.513s] Building query seed array... [4.85055s] Computing hash join... [2.56951s] Building seed filter... [0.084753s] Searching alignments... [19.478s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.73283s] Building query seed array... [4.7843s] Computing hash join... [2.50428s] Building seed filter... [0.085766s] Searching alignments... [18.8736s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.56013s] Building query seed array... [4.14704s] Computing hash join... [2.47827s] Building seed filter... [0.088098s] Searching alignments... [19.5205s] Deallocating buffers... [0.045298s] Opening temporary output file... [0.016933s] Computing alignments... [83.0914s] Deallocating reference... [0.027919s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.021298s] Joining output blocks... [2.5788s] Deallocating queries... [0.084289s] Loading query sequences... [32.7019s] Masking queries... [24.0085s] Building query seed set... [1.2e-05s] Building query histograms... [1.06383s] Allocating buffers... [0.000827s] Loading reference sequences... [374.594s] Masking reference... [58.3896s] Initializing temporary storage... [0.004368s] Building reference histograms... [13.5078s] Allocating buffers... [0.000327s] Processing query block 1, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.91118s] Building query seed array... [0.793389s] Computing hash join... [4.28999s] Building seed filter... [0.072784s] Searching alignments... [10.039s] Processing query block 1, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.0861s] Building query seed array... [0.838519s] Computing hash join... [4.27968s] Building seed filter... [0.068461s] Searching alignments... [10.2635s] Processing query block 1, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.5072s] Building query seed array... [0.83066s] Computing hash join... [4.21376s] Building seed filter... [0.074034s] Searching alignments... [9.93007s] Processing query block 1, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.36772s] Building query seed array... [0.729921s] Computing hash join... [4.29079s] Building seed filter... [0.070238s] Searching alignments... [9.73864s] Processing query block 1, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.36395s] Building query seed array... [0.690196s] Computing hash join... [4.12945s] Building seed filter... [0.071793s] Searching alignments... [8.18511s] Processing query block 1, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.8832s] Building query seed array... [0.815202s] Computing hash join... [4.22924s] Building seed filter... [0.070323s] Searching alignments... [8.27349s] Processing query block 1, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.572s] Building query seed array... [0.819443s] Computing hash join... [4.11585s] Building seed filter... [0.068863s] Searching alignments... [8.14546s] Processing query block 1, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.18638s] Building query seed array... [0.719703s] Computing hash join... [4.29343s] Building seed filter... [0.068007s] Searching alignments... [8.08162s] Deallocating buffers... [0.106281s] Opening temporary output file... [0.001093s] Computing alignments... [12.292s] Deallocating reference... [0.071925s] Loading reference sequences... [348.834s] Masking reference... [57.9252s] Initializing temporary storage... [0.003962s] Building reference histograms... [13.0627s] Allocating buffers... [0.000335s] Processing query block 1, reference block 1, shape 0, index chunk 0. Building reference seed array... [10.011s] Building query seed array... [0.818721s] Computing hash join... [4.26821s] Building seed filter... [0.073887s] Searching alignments... [9.70512s] Processing query block 1, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.4212s] Building query seed array... [0.853358s] Computing hash join... [4.26304s] Building seed filter... [0.066242s] Searching alignments... [9.37767s] Processing query block 1, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.7753s] Building query seed array... [0.860404s] Computing hash join... [4.23668s] Building seed filter... [0.067605s] Searching alignments... [9.07907s] Processing query block 1, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.39246s] Building query seed array... [0.731871s] Computing hash join... [4.21794s] Building seed filter... [0.06916s] Searching alignments... [9.17741s] Processing query block 1, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.69613s] Building query seed array... [0.730124s] Computing hash join... [4.22636s] Building seed filter... [0.066362s] Searching alignments... [7.42038s] Processing query block 1, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.0201s] Building query seed array... [0.826144s] Computing hash join... [4.13134s] Building seed filter... [0.069919s] Searching alignments... [7.63038s] Processing query block 1, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.158s] Building query seed array... [0.801689s] Computing hash join... [4.11322s] Building seed filter... [0.067715s] Searching alignments... [7.38604s] Processing query block 1, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.30403s] Building query seed array... [0.762032s] Computing hash join... [4.11482s] Building seed filter... [0.073038s] Searching alignments... [7.62595s] Deallocating buffers... [0.104429s] Opening temporary output file... [0.000966s] Computing alignments... [12.5508s] Deallocating reference... [0.069831s] Loading reference sequences... [354.314s] Masking reference... [57.5694s] Initializing temporary storage... [0.004047s] Building reference histograms... [13.1143s] Allocating buffers... [0.00033s] Processing query block 1, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.58097s] Building query seed array... [0.775013s] Computing hash join... [4.27298s] Building seed filter... [0.072236s] Searching alignments... [10.0333s] Processing query block 1, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.2138s] Building query seed array... [0.84463s] Computing hash join... [4.32488s] Building seed filter... [0.084119s] Searching alignments... [9.40564s] Processing query block 1, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.2984s] Building query seed array... [0.85783s] Computing hash join... [4.25375s] Building seed filter... [0.070778s] Searching alignments... [9.13096s] Processing query block 1, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.50703s] Building query seed array... [0.726642s] Computing hash join... [4.27403s] Building seed filter... [0.069395s] Searching alignments... [9.04511s] Processing query block 1, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.33356s] Building query seed array... [0.741941s] Computing hash join... [4.22072s] Building seed filter... [0.068415s] Searching alignments... [7.50335s] Processing query block 1, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.2322s] Building query seed array... [0.82979s] Computing hash join... [4.18648s] Building seed filter... [0.06769s] Searching alignments... [7.65971s] Processing query block 1, reference block 2, shape 1, index chunk 2. Building reference seed array... [11.9118s] Building query seed array... [0.817913s] Computing hash join... [4.14396s] Building seed filter... [0.066057s] Searching alignments... [7.54039s] Processing query block 1, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.21298s] Building query seed array... [0.746959s] Computing hash join... [4.2227s] Building seed filter... [0.071458s] Searching alignments... [7.50454s] Deallocating buffers... [0.105245s] Opening temporary output file... [0.000981s] Computing alignments... [12.39s] Deallocating reference... [0.067395s] Loading reference sequences... [321.469s] Masking reference... [59.7748s] Initializing temporary storage... [0.005464s] Building reference histograms... [13.0673s] Allocating buffers... [0.000325s] Processing query block 1, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.47012s] Building query seed array... [0.824132s] Computing hash join... [4.28161s] Building seed filter... [0.072261s] Searching alignments... [10.2259s] Processing query block 1, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.0421s] Building query seed array... [0.860935s] Computing hash join... [4.29797s] Building seed filter... [0.067462s] Searching alignments... [10.1159s] Processing query block 1, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.5609s] Building query seed array... [0.850308s] Computing hash join... [4.21464s] Building seed filter... [0.067044s] Searching alignments... [9.83641s] Processing query block 1, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.56199s] Building query seed array... [0.732816s] Computing hash join... [4.27775s] Building seed filter... [0.071027s] Searching alignments... [9.81929s] Processing query block 1, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.15706s] Building query seed array... [0.694463s] Computing hash join... [4.19681s] Building seed filter... [0.065897s] Searching alignments... [8.0068s] Processing query block 1, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.7219s] Building query seed array... [0.822237s] Computing hash join... [4.23714s] Building seed filter... [0.066267s] Searching alignments... [8.0542s] Processing query block 1, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.3261s] Building query seed array... [0.813118s] Computing hash join... [4.17039s] Building seed filter... [0.068274s] Searching alignments... [8.0214s] Processing query block 1, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.36406s] Building query seed array... [0.739532s] Computing hash join... [4.22891s] Building seed filter... [0.069364s] Searching alignments... [8.10661s] Deallocating buffers... [0.106348s] Opening temporary output file... [0.000871s] Computing alignments... [12.3844s] Deallocating reference... [0.068317s] Loading reference sequences... [326.396s] Masking reference... [59.7163s] Initializing temporary storage... [0.005304s] Building reference histograms... [13.1903s] Allocating buffers... [0.00034s] Processing query block 1, reference block 4, shape 0, index chunk 0. Building reference seed array... [10.1198s] Building query seed array... [0.828175s] Computing hash join... [4.26096s] Building seed filter... [0.071088s] Searching alignments... [10.2053s] Processing query block 1, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.3939s] Building query seed array... [0.86177s] Computing hash join... [4.22312s] Building seed filter... [0.077655s] Searching alignments... [10.1855s] Processing query block 1, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.8543s] Building query seed array... [0.94348s] Computing hash join... [4.33848s] Building seed filter... [0.068022s] Searching alignments... [9.50359s] Processing query block 1, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.12985s] Building query seed array... [0.776275s] Computing hash join... [4.21607s] Building seed filter... [0.079547s] Searching alignments... [9.78266s] Processing query block 1, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.41928s] Building query seed array... [0.69237s] Computing hash join... [4.20778s] Building seed filter... [0.065365s] Searching alignments... [7.89666s] Processing query block 1, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.2702s] Building query seed array... [0.779984s] Computing hash join... [4.21667s] Building seed filter... [0.075159s] Searching alignments... [8.12893s] Processing query block 1, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.3729s] Building query seed array... [0.785479s] Computing hash join... [4.11416s] Building seed filter... [0.071987s] Searching alignments... [7.99312s] Processing query block 1, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.79789s] Building query seed array... [0.690118s] Computing hash join... [4.19354s] Building seed filter... [0.067955s] Searching alignments... [7.94497s] Deallocating buffers... [0.105178s] Opening temporary output file... [0.00099s] Computing alignments... [12.8629s] Deallocating reference... [0.060789s] Loading reference sequences... [133.585s] Masking reference... [21.6708s] Initializing temporary storage... [0.003972s] Building reference histograms... [5.06097s] Allocating buffers... [0.000823s] Processing query block 1, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.57732s] Building query seed array... [0.729447s] Computing hash join... [1.61388s] Building seed filter... [0.046877s] Searching alignments... [4.17874s] Processing query block 1, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.63932s] Building query seed array... [0.865088s] Computing hash join... [1.59472s] Building seed filter... [0.039876s] Searching alignments... [4.11189s] Processing query block 1, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.45808s] Building query seed array... [0.884149s] Computing hash join... [1.64074s] Building seed filter... [0.041399s] Searching alignments... [3.97139s] Processing query block 1, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.48783s] Building query seed array... [0.705413s] Computing hash join... [1.58757s] Building seed filter... [0.039084s] Searching alignments... [3.97687s] Processing query block 1, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.71137s] Building query seed array... [0.715244s] Computing hash join... [1.58774s] Building seed filter... [0.036677s] Searching alignments... [3.16091s] Processing query block 1, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.43254s] Building query seed array... [0.809184s] Computing hash join... [1.57395s] Building seed filter... [0.036821s] Searching alignments... [3.26588s] Processing query block 1, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.58229s] Building query seed array... [0.784038s] Computing hash join... [1.59987s] Building seed filter... [0.038305s] Searching alignments... [3.29456s] Processing query block 1, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.53725s] Building query seed array... [0.758657s] Computing hash join... [1.59235s] Building seed filter... [0.03835s] Searching alignments... [3.27674s] Deallocating buffers... [0.043301s] Opening temporary output file... [0.001031s] Computing alignments... [12.1354s] Deallocating reference... [0.027382s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.003556s] Joining output blocks... [0.460274s] Deallocating queries... [0.014984s] Loading query sequences... [2.8e-05s] Closing the input file... [4.1e-05s] Closing the output file... [0.050397s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 9416.33s Reported 1775987 pairwise alignments, 1776313 HSPs. 251578 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 54F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.3s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (6.4s) Total reads: 251,578 With hits: 251,578 Alignments: 1,776,313 Assig. Taxonomy: 251,578 Assig. EGGNOG: 3,383 Assig. INTERPRO2GO: 1,061 MinSupport set to: 125 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Min-supp. changes: 880 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 99 Class. EGGNOG: 495 Class. INTERPRO2GO: 446 Total time: 17s Peak memory: 4.3 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/59M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... aaa5919794cac9b9b426d7327fb81e8b /gscratch/srlab/sam/data/C_virginica/BSseq/59M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.110315s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005455s] Opening the output file... [0.00033s] Loading query sequences... [123.114s] Masking queries... [67.4707s] Building query seed set... [0.438744s] Algorithm: Double-indexed Building query histograms... [3.52891s] Allocating buffers... [0.000846s] Loading reference sequences... [45.6581s] Masking reference... [58.8627s] Initializing temporary storage... [0.0045s] Building reference histograms... [13.3522s] Allocating buffers... [0.000146s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.72877s] Building query seed array... [2.505s] Computing hash join... [4.72818s] Building seed filter... [0.109994s] Searching alignments... [33.5115s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.3681s] Building query seed array... [2.83103s] Computing hash join... [4.58229s] Building seed filter... [0.108171s] Searching alignments... [34.0783s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.7305s] Building query seed array... [2.89499s] Computing hash join... [4.56042s] Building seed filter... [0.103531s] Searching alignments... [32.68s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.21355s] Building query seed array... [2.42582s] Computing hash join... [4.55057s] Building seed filter... [0.105869s] Searching alignments... [32.8897s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [8.86284s] Building query seed array... [2.31137s] Computing hash join... [4.52519s] Building seed filter... [0.105455s] Searching alignments... [23.448s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.3176s] Building query seed array... [2.59436s] Computing hash join... [4.47741s] Building seed filter... [0.100502s] Searching alignments... [26.0129s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.6292s] Building query seed array... [2.71007s] Computing hash join... [4.4907s] Building seed filter... [0.103517s] Searching alignments... [26.079s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.32395s] Building query seed array... [2.32932s] Computing hash join... [4.42437s] Building seed filter... [0.104298s] Searching alignments... [26.1164s] Deallocating buffers... [0.118482s] Opening temporary output file... [0.001067s] Computing alignments... [50.3152s] Deallocating reference... [0.090786s] Loading reference sequences... [345.024s] Masking reference... [57.5353s] Initializing temporary storage... [0.004101s] Building reference histograms... [13.294s] Allocating buffers... [0.000325s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.64418s] Building query seed array... [2.5426s] Computing hash join... [4.70577s] Building seed filter... [0.113194s] Searching alignments... [30.932s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.3039s] Building query seed array... [2.81706s] Computing hash join... [4.68996s] Building seed filter... [0.108809s] Searching alignments... [31.7551s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.6351s] Building query seed array... [2.90572s] Computing hash join... [4.5527s] Building seed filter... [0.113466s] Searching alignments... [30.2193s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.73844s] Building query seed array... [2.41983s] Computing hash join... [4.56415s] Building seed filter... [0.109209s] Searching alignments... [30.8705s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.20788s] Building query seed array... [2.2913s] Computing hash join... [4.47421s] Building seed filter... [0.101784s] Searching alignments... [24.2058s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.2925s] Building query seed array... [2.68718s] Computing hash join... [4.49739s] Building seed filter... [0.106444s] Searching alignments... [23.8357s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.083s] Building query seed array... [2.63161s] Computing hash join... [4.44203s] Building seed filter... [0.106095s] Searching alignments... [23.8398s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.38582s] Building query seed array... [2.30554s] Computing hash join... [4.38325s] Building seed filter... [0.09963s] Searching alignments... [23.8177s] Deallocating buffers... [0.11488s] Opening temporary output file... [0.00109s] Computing alignments... [50.3984s] Deallocating reference... [0.068736s] Loading reference sequences... [343.896s] Masking reference... [57.7147s] Initializing temporary storage... [0.004016s] Building reference histograms... [12.3512s] Allocating buffers... [0.000311s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.61017s] Building query seed array... [2.44059s] Computing hash join... [4.59753s] Building seed filter... [0.109408s] Searching alignments... [32.0459s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.1923s] Building query seed array... [2.99534s] Computing hash join... [4.52875s] Building seed filter... [0.105254s] Searching alignments... [31.7552s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.9672s] Building query seed array... [2.85228s] Computing hash join... [4.49152s] Building seed filter... [0.11025s] Searching alignments... [30.3992s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.46239s] Building query seed array... [2.44523s] Computing hash join... [4.61178s] Building seed filter... [0.1047s] Searching alignments... [31.7233s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.4565s] Building query seed array... [2.3779s] Computing hash join... [4.50412s] Building seed filter... [0.103685s] Searching alignments... [22.0532s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.2023s] Building query seed array... [2.62889s] Computing hash join... [4.51675s] Building seed filter... [0.107512s] Searching alignments... [24.5277s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.1972s] Building query seed array... [2.62136s] Computing hash join... [4.4373s] Building seed filter... [0.106613s] Searching alignments... [24.4263s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.34573s] Building query seed array... [2.34513s] Computing hash join... [4.40591s] Building seed filter... [0.106802s] Searching alignments... [24.3259s] Deallocating buffers... [0.106524s] Opening temporary output file... [0.00097s] Computing alignments... [51.662s] Deallocating reference... [0.078753s] Loading reference sequences... [318.908s] Masking reference... [57.8948s] Initializing temporary storage... [0.005233s] Building reference histograms... [12.7213s] Allocating buffers... [0.000312s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.91376s] Building query seed array... [2.60054s] Computing hash join... [4.66637s] Building seed filter... [0.106362s] Searching alignments... [33.4531s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [11.9337s] Building query seed array... [2.79152s] Computing hash join... [4.60785s] Building seed filter... [0.107272s] Searching alignments... [34.0973s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.4252s] Building query seed array... [2.75588s] Computing hash join... [4.53434s] Building seed filter... [0.103148s] Searching alignments... [32.4012s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.47293s] Building query seed array... [2.4393s] Computing hash join... [4.55633s] Building seed filter... [0.125355s] Searching alignments... [33.2536s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.76846s] Building query seed array... [2.3375s] Computing hash join... [4.43274s] Building seed filter... [0.099666s] Searching alignments... [23.3966s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.0262s] Building query seed array... [2.58423s] Computing hash join... [4.44524s] Building seed filter... [0.107382s] Searching alignments... [26.1194s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.2719s] Building query seed array... [2.7047s] Computing hash join... [4.47951s] Building seed filter... [0.100096s] Searching alignments... [25.9386s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.64562s] Building query seed array... [2.30762s] Computing hash join... [4.39533s] Building seed filter... [0.106934s] Searching alignments... [25.5262s] Deallocating buffers... [0.121399s] Opening temporary output file... [0.001016s] Computing alignments... [50.1685s] Deallocating reference... [0.064625s] Loading reference sequences... [310.621s] Masking reference... [58.1745s] Initializing temporary storage... [0.005128s] Building reference histograms... [12.9259s] Allocating buffers... [0.000316s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.65818s] Building query seed array... [2.51176s] Computing hash join... [4.55446s] Building seed filter... [0.113254s] Searching alignments... [32.9611s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.085s] Building query seed array... [2.75723s] Computing hash join... [4.51335s] Building seed filter... [0.106241s] Searching alignments... [33.9274s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.3938s] Building query seed array... [2.80004s] Computing hash join... [4.59461s] Building seed filter... [0.104421s] Searching alignments... [32.496s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.74434s] Building query seed array... [2.41878s] Computing hash join... [4.61179s] Building seed filter... [0.112763s] Searching alignments... [33.071s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.43057s] Building query seed array... [2.3489s] Computing hash join... [4.47708s] Building seed filter... [0.102912s] Searching alignments... [26.1301s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.9752s] Building query seed array... [2.60193s] Computing hash join... [4.46884s] Building seed filter... [0.099946s] Searching alignments... [25.6784s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.5502s] Building query seed array... [2.62878s] Computing hash join... [4.46774s] Building seed filter... [0.106206s] Searching alignments... [25.828s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.30327s] Building query seed array... [2.3672s] Computing hash join... [4.45166s] Building seed filter... [0.113135s] Searching alignments... [25.3196s] Deallocating buffers... [0.107788s] Opening temporary output file... [0.000976s] Computing alignments... [50.8102s] Deallocating reference... [0.062886s] Loading reference sequences... [135.839s] Masking reference... [21.1006s] Initializing temporary storage... [0.003885s] Building reference histograms... [4.93618s] Allocating buffers... [0.000316s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.65788s] Building query seed array... [2.43147s] Computing hash join... [2.01387s] Building seed filter... [0.069627s] Searching alignments... [13.7966s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.68919s] Building query seed array... [2.73997s] Computing hash join... [2.06497s] Building seed filter... [0.065342s] Searching alignments... [14.1641s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.78071s] Building query seed array... [2.76218s] Computing hash join... [2.03728s] Building seed filter... [0.06973s] Searching alignments... [13.2871s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.71842s] Building query seed array... [2.44559s] Computing hash join... [2.03919s] Building seed filter... [0.068684s] Searching alignments... [13.349s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.80216s] Building query seed array... [2.31625s] Computing hash join... [1.94196s] Building seed filter... [0.062627s] Searching alignments... [9.31368s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.4998s] Building query seed array... [2.60717s] Computing hash join... [1.94449s] Building seed filter... [0.063561s] Searching alignments... [10.4136s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.79323s] Building query seed array... [2.66564s] Computing hash join... [1.92784s] Building seed filter... [0.063249s] Searching alignments... [10.4504s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.60701s] Building query seed array... [2.29852s] Computing hash join... [1.92792s] Building seed filter... [0.061306s] Searching alignments... [10.2442s] Deallocating buffers... [0.042583s] Opening temporary output file... [0.001342s] Computing alignments... [48.636s] Deallocating reference... [0.028057s] Loading reference sequences... [4.7e-05s] Deallocating buffers... [0.010219s] Joining output blocks... [1.63026s] Deallocating queries... [0.048408s] Loading query sequences... [2.5e-05s] Closing the input file... [4e-05s] Closing the output file... [0.034765s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [2.1e-05s] Total time = 4415.9s Reported 1363241 pairwise alignments, 1363645 HSPs. 161006 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 59M_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.1s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (4.3s) Total reads: 161,006 With hits: 161,006 Alignments: 1,363,645 Assig. Taxonomy: 161,006 Assig. EGGNOG: 949 Assig. INTERPRO2GO: 1,092 MinSupport set to: 80 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 815 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 96 Class. EGGNOG: 410 Class. INTERPRO2GO: 357 Total time: 14s Peak memory: 3.8 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/59M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... cf05d4b5dc9a746e5f5aad9e1b0256a5 /gscratch/srlab/sam/data/C_virginica/BSseq/59M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.00019s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005534s] Opening the output file... [0.00027s] Loading query sequences... [122.848s] Masking queries... [67.0561s] Building query seed set... [0.465569s] Algorithm: Double-indexed Building query histograms... [3.42094s] Allocating buffers... [0.000908s] Loading reference sequences... [369.129s] Masking reference... [57.4861s] Initializing temporary storage... [0.004799s] Building reference histograms... [13.3341s] Allocating buffers... [0.000338s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.76102s] Building query seed array... [2.37333s] Computing hash join... [4.80527s] Building seed filter... [0.11877s] Searching alignments... [30.5094s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.6264s] Building query seed array... [2.70251s] Computing hash join... [4.64785s] Building seed filter... [0.116239s] Searching alignments... [30.0693s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.168s] Building query seed array... [2.60532s] Computing hash join... [4.62266s] Building seed filter... [0.114872s] Searching alignments... [29.474s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.86879s] Building query seed array... [2.26427s] Computing hash join... [4.57525s] Building seed filter... [0.116385s] Searching alignments... [29.8474s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.58272s] Building query seed array... [2.16696s] Computing hash join... [4.45315s] Building seed filter... [0.113156s] Searching alignments... [23.0633s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.2392s] Building query seed array... [2.51429s] Computing hash join... [4.49903s] Building seed filter... [0.106726s] Searching alignments... [22.9879s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.6403s] Building query seed array... [2.45973s] Computing hash join... [4.41083s] Building seed filter... [0.108272s] Searching alignments... [22.7565s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.01295s] Building query seed array... [2.21069s] Computing hash join... [4.44523s] Building seed filter... [0.107187s] Searching alignments... [23.0637s] Deallocating buffers... [0.102821s] Opening temporary output file... [0.000991s] Computing alignments... [51.2506s] Deallocating reference... [0.076149s] Loading reference sequences... [345.896s] Masking reference... [57.711s] Initializing temporary storage... [0.004708s] Building reference histograms... [12.7433s] Allocating buffers... [0.000342s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.52715s] Building query seed array... [2.39238s] Computing hash join... [4.61619s] Building seed filter... [0.113539s] Searching alignments... [28.0032s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.0097s] Building query seed array... [2.67866s] Computing hash join... [4.65805s] Building seed filter... [0.110351s] Searching alignments... [27.6715s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.4258s] Building query seed array... [2.59497s] Computing hash join... [4.55094s] Building seed filter... [0.119265s] Searching alignments... [27.267s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.45459s] Building query seed array... [2.36467s] Computing hash join... [4.66364s] Building seed filter... [0.117962s] Searching alignments... [27.4227s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.32998s] Building query seed array... [2.10575s] Computing hash join... [4.57531s] Building seed filter... [0.120878s] Searching alignments... [21.1165s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [11.8789s] Building query seed array... [2.49507s] Computing hash join... [4.48241s] Building seed filter... [0.115696s] Searching alignments... [21.7111s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.1284s] Building query seed array... [2.58029s] Computing hash join... [4.53106s] Building seed filter... [0.108424s] Searching alignments... [21.423s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.29806s] Building query seed array... [2.08178s] Computing hash join... [4.4701s] Building seed filter... [0.109182s] Searching alignments... [21.0411s] Deallocating buffers... [0.105623s] Opening temporary output file... [0.000915s] Computing alignments... [49.8945s] Deallocating reference... [0.06754s] Loading reference sequences... [342.869s] Masking reference... [59.209s] Initializing temporary storage... [0.003849s] Building reference histograms... [12.8743s] Allocating buffers... [0.000333s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [10.1558s] Building query seed array... [2.37303s] Computing hash join... [4.66988s] Building seed filter... [0.116739s] Searching alignments... [28.4578s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.1924s] Building query seed array... [2.63665s] Computing hash join... [4.65608s] Building seed filter... [0.118581s] Searching alignments... [27.838s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.3659s] Building query seed array... [2.70912s] Computing hash join... [4.56803s] Building seed filter... [0.112794s] Searching alignments... [28.1326s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.36617s] Building query seed array... [2.30396s] Computing hash join... [4.63879s] Building seed filter... [0.112292s] Searching alignments... [27.3116s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.50144s] Building query seed array... [2.25287s] Computing hash join... [4.54805s] Building seed filter... [0.103457s] Searching alignments... [21.6089s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.8123s] Building query seed array... [2.49043s] Computing hash join... [4.47924s] Building seed filter... [0.107388s] Searching alignments... [21.602s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.461s] Building query seed array... [2.40289s] Computing hash join... [4.4891s] Building seed filter... [0.11118s] Searching alignments... [21.4822s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.17709s] Building query seed array... [2.26777s] Computing hash join... [4.48093s] Building seed filter... [0.110445s] Searching alignments... [21.5943s] Deallocating buffers... [0.103145s] Opening temporary output file... [0.000961s] Computing alignments... [51.6661s] Deallocating reference... [0.066942s] Loading reference sequences... [320.366s] Masking reference... [57.6404s] Initializing temporary storage... [0.003988s] Building reference histograms... [12.7595s] Allocating buffers... [0.000331s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.58474s] Building query seed array... [2.37864s] Computing hash join... [4.6763s] Building seed filter... [0.111839s] Searching alignments... [30.2542s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.499s] Building query seed array... [2.7291s] Computing hash join... [4.59138s] Building seed filter... [0.116318s] Searching alignments... [29.917s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.5261s] Building query seed array... [2.75167s] Computing hash join... [4.60413s] Building seed filter... [0.116746s] Searching alignments... [29.7124s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.16126s] Building query seed array... [2.2872s] Computing hash join... [4.58491s] Building seed filter... [0.111557s] Searching alignments... [29.2916s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.6604s] Building query seed array... [2.20331s] Computing hash join... [4.40366s] Building seed filter... [0.104605s] Searching alignments... [23.5139s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.1082s] Building query seed array... [2.39374s] Computing hash join... [4.5257s] Building seed filter... [0.11162s] Searching alignments... [23.3945s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.8752s] Building query seed array... [2.49263s] Computing hash join... [4.52127s] Building seed filter... [0.109734s] Searching alignments... [23.0665s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.60461s] Building query seed array... [2.13486s] Computing hash join... [4.51676s] Building seed filter... [0.109838s] Searching alignments... [22.5874s] Deallocating buffers... [0.106263s] Opening temporary output file... [0.000998s] Computing alignments... [49.5106s] Deallocating reference... [0.065033s] Loading reference sequences... [311.415s] Masking reference... [57.8365s] Initializing temporary storage... [0.004018s] Building reference histograms... [12.8875s] Allocating buffers... [0.000349s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.62472s] Building query seed array... [2.38135s] Computing hash join... [4.64162s] Building seed filter... [0.113893s] Searching alignments... [30.2805s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.2748s] Building query seed array... [2.65545s] Computing hash join... [4.62458s] Building seed filter... [0.108787s] Searching alignments... [29.9424s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.6766s] Building query seed array... [2.64154s] Computing hash join... [4.62714s] Building seed filter... [0.13845s] Searching alignments... [30.0619s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.66695s] Building query seed array... [2.37264s] Computing hash join... [4.63376s] Building seed filter... [0.116524s] Searching alignments... [29.0437s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.33723s] Building query seed array... [2.22191s] Computing hash join... [4.52227s] Building seed filter... [0.105594s] Searching alignments... [23.2793s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.911s] Building query seed array... [2.42842s] Computing hash join... [4.52622s] Building seed filter... [0.117608s] Searching alignments... [23.1906s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.1328s] Building query seed array... [2.57673s] Computing hash join... [4.53435s] Building seed filter... [0.110398s] Searching alignments... [22.9439s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.38717s] Building query seed array... [2.12393s] Computing hash join... [4.48061s] Building seed filter... [0.113155s] Searching alignments... [22.9707s] Deallocating buffers... [0.104525s] Opening temporary output file... [0.000984s] Computing alignments... [50.2688s] Deallocating reference... [0.061385s] Loading reference sequences... [135.462s] Masking reference... [21.8213s] Initializing temporary storage... [0.003956s] Building reference histograms... [4.97881s] Allocating buffers... [0.000331s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.55767s] Building query seed array... [2.29369s] Computing hash join... [2.08408s] Building seed filter... [0.073161s] Searching alignments... [12.3966s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.76555s] Building query seed array... [2.66202s] Computing hash join... [2.0656s] Building seed filter... [0.069047s] Searching alignments... [12.1362s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.6618s] Building query seed array... [2.82392s] Computing hash join... [2.06506s] Building seed filter... [0.066722s] Searching alignments... [12.0085s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.72062s] Building query seed array... [2.34364s] Computing hash join... [2.04362s] Building seed filter... [0.070797s] Searching alignments... [11.7973s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.61788s] Building query seed array... [2.13083s] Computing hash join... [1.93005s] Building seed filter... [0.068466s] Searching alignments... [9.26955s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.60157s] Building query seed array... [2.42459s] Computing hash join... [1.95049s] Building seed filter... [0.067293s] Searching alignments... [9.26361s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.76724s] Building query seed array... [2.49053s] Computing hash join... [1.94996s] Building seed filter... [0.067475s] Searching alignments... [9.35813s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.68539s] Building query seed array... [2.11443s] Computing hash join... [1.9428s] Building seed filter... [0.066226s] Searching alignments... [9.20181s] Deallocating buffers... [0.042789s] Opening temporary output file... [0.00183s] Computing alignments... [48.7635s] Deallocating reference... [0.02755s] Loading reference sequences... [4.3e-05s] Deallocating buffers... [0.009833s] Joining output blocks... [1.12886s] Deallocating queries... [0.046039s] Loading query sequences... [2.9e-05s] Closing the input file... [4.7e-05s] Closing the output file... [0.02774s] Closing the database file... [2.8e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 4607.84s Reported 883228 pairwise alignments, 883434 HSPs. 121111 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 59M_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (1.8s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (3.6s) Total reads: 121,111 With hits: 121,111 Alignments: 883,434 Assig. Taxonomy: 121,111 Assig. EGGNOG: 634 Assig. INTERPRO2GO: 554 MinSupport set to: 60 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 716 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 106 Class. EGGNOG: 352 Class. INTERPRO2GO: 299 Total time: 13s Peak memory: 3.3 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/64M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... ddfd5d56975429834028828ec86eb465 /gscratch/srlab/sam/data/C_virginica/BSseq/64M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.038087s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006531s] Opening the output file... [0.00035s] Loading query sequences... [154.106s] Masking queries... [118.76s] Building query seed set... [0.532339s] Algorithm: Double-indexed Building query histograms... [4.63234s] Allocating buffers... [0.000883s] Loading reference sequences... [46.8206s] Masking reference... [58.1526s] Initializing temporary storage... [0.00478s] Building reference histograms... [13.0764s] Allocating buffers... [0.000325s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.84225s] Building query seed array... [3.28959s] Computing hash join... [4.84037s] Building seed filter... [0.120042s] Searching alignments... [46.1554s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.2492s] Building query seed array... [3.70111s] Computing hash join... [4.75887s] Building seed filter... [0.123594s] Searching alignments... [46.1402s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.7242s] Building query seed array... [3.6923s] Computing hash join... [4.76539s] Building seed filter... [0.127088s] Searching alignments... [45.8923s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.46879s] Building query seed array... [3.09909s] Computing hash join... [4.8059s] Building seed filter... [0.129262s] Searching alignments... [44.2723s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.30127s] Building query seed array... [3.11089s] Computing hash join... [4.55112s] Building seed filter... [0.121149s] Searching alignments... [35.3027s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.1708s] Building query seed array... [3.41071s] Computing hash join... [4.54478s] Building seed filter... [0.108065s] Searching alignments... [34.4946s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.9069s] Building query seed array... [3.39059s] Computing hash join... [4.60604s] Building seed filter... [0.113867s] Searching alignments... [35.1739s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.15322s] Building query seed array... [2.98102s] Computing hash join... [4.63393s] Building seed filter... [0.114595s] Searching alignments... [35.2045s] Deallocating buffers... [0.105186s] Opening temporary output file... [0.000995s] Computing alignments... [61.5437s] Deallocating reference... [0.079868s] Loading reference sequences... [45.7235s] Masking reference... [58.4305s] Initializing temporary storage... [0.00417s] Building reference histograms... [13.041s] Allocating buffers... [0.000323s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.80964s] Building query seed array... [3.25414s] Computing hash join... [4.79649s] Building seed filter... [0.114651s] Searching alignments... [42.7288s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.0015s] Building query seed array... [3.58534s] Computing hash join... [4.75127s] Building seed filter... [0.125278s] Searching alignments... [43.3672s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.6352s] Building query seed array... [3.66009s] Computing hash join... [4.69527s] Building seed filter... [0.123143s] Searching alignments... [41.7218s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.1587s] Building query seed array... [3.06782s] Computing hash join... [4.71504s] Building seed filter... [0.132814s] Searching alignments... [41.0238s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.55998s] Building query seed array... [3.1064s] Computing hash join... [4.55488s] Building seed filter... [0.115653s] Searching alignments... [32.4729s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.0571s] Building query seed array... [3.39202s] Computing hash join... [4.62963s] Building seed filter... [0.118128s] Searching alignments... [33.285s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.6784s] Building query seed array... [3.46325s] Computing hash join... [4.65218s] Building seed filter... [0.109254s] Searching alignments... [32.177s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.56201s] Building query seed array... [3.09669s] Computing hash join... [4.57226s] Building seed filter... [0.109764s] Searching alignments... [32.7667s] Deallocating buffers... [0.108578s] Opening temporary output file... [0.001011s] Computing alignments... [60.7752s] Deallocating reference... [0.069676s] Loading reference sequences... [336.896s] Masking reference... [57.7332s] Initializing temporary storage... [0.004114s] Building reference histograms... [14.1512s] Allocating buffers... [0.000321s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [10.0062s] Building query seed array... [3.24082s] Computing hash join... [4.73494s] Building seed filter... [0.111572s] Searching alignments... [42.9537s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.8437s] Building query seed array... [3.4804s] Computing hash join... [4.73419s] Building seed filter... [0.136238s] Searching alignments... [43.4755s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.3643s] Building query seed array... [3.66574s] Computing hash join... [4.69501s] Building seed filter... [0.116374s] Searching alignments... [42.53s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.55071s] Building query seed array... [3.11022s] Computing hash join... [4.74933s] Building seed filter... [0.122324s] Searching alignments... [41.2175s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.25854s] Building query seed array... [3.09142s] Computing hash join... [4.60299s] Building seed filter... [0.113663s] Searching alignments... [32.9903s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.055s] Building query seed array... [3.36241s] Computing hash join... [4.56778s] Building seed filter... [0.119946s] Searching alignments... [32.5519s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.1548s] Building query seed array... [3.36802s] Computing hash join... [4.60167s] Building seed filter... [0.109512s] Searching alignments... [33.0703s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.29523s] Building query seed array... [3.04884s] Computing hash join... [4.63902s] Building seed filter... [0.12064s] Searching alignments... [33.8834s] Deallocating buffers... [0.115817s] Opening temporary output file... [0.001022s] Computing alignments... [61.419s] Deallocating reference... [0.069348s] Loading reference sequences... [315.134s] Masking reference... [58.0288s] Initializing temporary storage... [0.004623s] Building reference histograms... [13.5567s] Allocating buffers... [0.000328s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.60296s] Building query seed array... [3.21199s] Computing hash join... [4.7775s] Building seed filter... [0.117957s] Searching alignments... [46.4559s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.0317s] Building query seed array... [3.52464s] Computing hash join... [4.72633s] Building seed filter... [0.127527s] Searching alignments... [46.7713s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.1707s] Building query seed array... [3.66172s] Computing hash join... [4.70245s] Building seed filter... [0.112778s] Searching alignments... [45.331s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.53882s] Building query seed array... [3.20625s] Computing hash join... [4.81591s] Building seed filter... [0.115702s] Searching alignments... [44.0766s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.27814s] Building query seed array... [3.09593s] Computing hash join... [4.51489s] Building seed filter... [0.109838s] Searching alignments... [35.1141s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.2193s] Building query seed array... [3.43057s] Computing hash join... [4.55898s] Building seed filter... [0.109583s] Searching alignments... [34.5991s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.205s] Building query seed array... [3.38623s] Computing hash join... [4.64597s] Building seed filter... [0.119835s] Searching alignments... [35.1602s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.41701s] Building query seed array... [2.97484s] Computing hash join... [4.63001s] Building seed filter... [0.115214s] Searching alignments... [36.3192s] Deallocating buffers... [0.121312s] Opening temporary output file... [0.001076s] Computing alignments... [62.506s] Deallocating reference... [0.063727s] Loading reference sequences... [314.307s] Masking reference... [58.0001s] Initializing temporary storage... [0.004614s] Building reference histograms... [13.8032s] Allocating buffers... [0.000324s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.6971s] Building query seed array... [3.20946s] Computing hash join... [4.76108s] Building seed filter... [0.113036s] Searching alignments... [46.091s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.383s] Building query seed array... [3.68562s] Computing hash join... [4.80085s] Building seed filter... [0.117571s] Searching alignments... [45.7947s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.459s] Building query seed array... [3.6703s] Computing hash join... [4.74514s] Building seed filter... [0.12327s] Searching alignments... [44.6972s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.4753s] Building query seed array... [3.21294s] Computing hash join... [4.77124s] Building seed filter... [0.124519s] Searching alignments... [44.0107s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.9183s] Building query seed array... [3.15625s] Computing hash join... [4.52826s] Building seed filter... [0.122853s] Searching alignments... [35.2939s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.8968s] Building query seed array... [3.52621s] Computing hash join... [4.57102s] Building seed filter... [0.111826s] Searching alignments... [34.4919s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.0261s] Building query seed array... [3.48017s] Computing hash join... [4.62423s] Building seed filter... [0.113756s] Searching alignments... [34.176s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.09284s] Building query seed array... [2.9075s] Computing hash join... [4.61051s] Building seed filter... [0.115845s] Searching alignments... [34.9318s] Deallocating buffers... [0.120008s] Opening temporary output file... [0.000605s] Computing alignments... [64.4399s] Deallocating reference... [0.061979s] Loading reference sequences... [136.502s] Masking reference... [21.7772s] Initializing temporary storage... [0.003975s] Building reference histograms... [5.21722s] Allocating buffers... [0.000319s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.77773s] Building query seed array... [3.22432s] Computing hash join... [2.25093s] Building seed filter... [0.083727s] Searching alignments... [19.0858s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.52507s] Building query seed array... [3.51678s] Computing hash join... [2.22301s] Building seed filter... [0.082081s] Searching alignments... [18.912s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.8884s] Building query seed array... [3.45841s] Computing hash join... [2.26347s] Building seed filter... [0.078724s] Searching alignments... [18.5003s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.56344s] Building query seed array... [2.95261s] Computing hash join... [2.19905s] Building seed filter... [0.07974s] Searching alignments... [18.407s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.66873s] Building query seed array... [3.0867s] Computing hash join... [2.07006s] Building seed filter... [0.075814s] Searching alignments... [14.2743s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.56952s] Building query seed array... [3.41792s] Computing hash join... [2.13243s] Building seed filter... [0.074958s] Searching alignments... [13.9111s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.56335s] Building query seed array... [3.37101s] Computing hash join... [2.11752s] Building seed filter... [0.073079s] Searching alignments... [14.4477s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.5024s] Building query seed array... [3.0005s] Computing hash join... [2.06344s] Building seed filter... [0.07153s] Searching alignments... [14.1545s] Deallocating buffers... [0.042076s] Opening temporary output file... [0.033606s] Computing alignments... [61.7903s] Deallocating reference... [0.030231s] Loading reference sequences... [5.1e-05s] Deallocating buffers... [0.013519s] Joining output blocks... [2.55701s] Deallocating queries... [0.061702s] Loading query sequences... [2.8e-05s] Closing the input file... [4.4e-05s] Closing the output file... [0.040195s] Closing the database file... [0.000271s] Deallocating taxonomy... [1.1e-05s] Total time = 4772.14s Reported 1765305 pairwise alignments, 1765794 HSPs. 255208 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 64M_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.4s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.6s) Total reads: 255,208 With hits: 255,208 Alignments: 1,765,794 Assig. Taxonomy: 255,207 Assig. EGGNOG: 1,085 Assig. INTERPRO2GO: 1,009 MinSupport set to: 127 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 922 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 79 Class. EGGNOG: 503 Class. INTERPRO2GO: 391 Total time: 16s Peak memory: 3.6 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/64M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... a8ff32021ea490955750dfb0ef6a7f98 /gscratch/srlab/sam/data/C_virginica/BSseq/64M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000151s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005301s] Opening the output file... [0.000293s] Loading query sequences... [156.266s] Masking queries... [113.886s] Building query seed set... [0.499556s] Algorithm: Double-indexed Building query histograms... [4.73946s] Allocating buffers... [0.000874s] Loading reference sequences... [377.841s] Masking reference... [57.7324s] Initializing temporary storage... [0.004773s] Building reference histograms... [13.8165s] Allocating buffers... [0.000315s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.50906s] Building query seed array... [3.1404s] Computing hash join... [4.97189s] Building seed filter... [0.124831s] Searching alignments... [43.7555s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.6625s] Building query seed array... [3.45521s] Computing hash join... [4.78629s] Building seed filter... [0.142672s] Searching alignments... [42.8441s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.61s] Building query seed array... [3.69352s] Computing hash join... [4.78289s] Building seed filter... [0.147137s] Searching alignments... [42.8s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.68673s] Building query seed array... [3.09563s] Computing hash join... [4.85567s] Building seed filter... [0.123796s] Searching alignments... [42.3924s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.28684s] Building query seed array... [2.87349s] Computing hash join... [4.59826s] Building seed filter... [0.121881s] Searching alignments... [33.4206s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.1619s] Building query seed array... [3.24631s] Computing hash join... [4.66159s] Building seed filter... [0.139196s] Searching alignments... [33.8843s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.3289s] Building query seed array... [3.30027s] Computing hash join... [4.72789s] Building seed filter... [0.117203s] Searching alignments... [33.4803s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.22618s] Building query seed array... [2.81024s] Computing hash join... [4.63388s] Building seed filter... [0.13493s] Searching alignments... [32.7769s] Deallocating buffers... [0.103511s] Opening temporary output file... [0.000942s] Computing alignments... [58.798s] Deallocating reference... [0.080633s] Loading reference sequences... [346.043s] Masking reference... [57.7154s] Initializing temporary storage... [0.004186s] Building reference histograms... [13.0631s] Allocating buffers... [0.000341s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.65234s] Building query seed array... [3.13612s] Computing hash join... [4.82628s] Building seed filter... [0.12969s] Searching alignments... [40.2132s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [11.9166s] Building query seed array... [3.66754s] Computing hash join... [4.8826s] Building seed filter... [0.13268s] Searching alignments... [40.0429s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.4937s] Building query seed array... [3.70812s] Computing hash join... [4.73438s] Building seed filter... [0.137194s] Searching alignments... [39.4376s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.21422s] Building query seed array... [3.03084s] Computing hash join... [4.7235s] Building seed filter... [0.121977s] Searching alignments... [38.7681s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.41104s] Building query seed array... [2.92555s] Computing hash join... [4.70304s] Building seed filter... [0.117822s] Searching alignments... [30.5582s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.0683s] Building query seed array... [3.30144s] Computing hash join... [4.63668s] Building seed filter... [0.123636s] Searching alignments... [30.6092s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.1209s] Building query seed array... [3.4045s] Computing hash join... [4.75533s] Building seed filter... [0.12001s] Searching alignments... [30.3631s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.31435s] Building query seed array... [2.79598s] Computing hash join... [4.59212s] Building seed filter... [0.119705s] Searching alignments... [30.3248s] Deallocating buffers... [0.106754s] Opening temporary output file... [0.001016s] Computing alignments... [60.448s] Deallocating reference... [0.069161s] Loading reference sequences... [347.297s] Masking reference... [57.7724s] Initializing temporary storage... [0.004127s] Building reference histograms... [12.9599s] Allocating buffers... [0.000345s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.76288s] Building query seed array... [3.25938s] Computing hash join... [4.8374s] Building seed filter... [0.128787s] Searching alignments... [40.8807s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.1285s] Building query seed array... [3.51711s] Computing hash join... [4.76154s] Building seed filter... [0.132659s] Searching alignments... [40.5617s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.7465s] Building query seed array... [3.54996s] Computing hash join... [4.75502s] Building seed filter... [0.134467s] Searching alignments... [40.209s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.49843s] Building query seed array... [3.02019s] Computing hash join... [4.81108s] Building seed filter... [0.128523s] Searching alignments... [39.4384s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.11789s] Building query seed array... [2.77694s] Computing hash join... [4.57184s] Building seed filter... [0.12063s] Searching alignments... [31.5044s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.2625s] Building query seed array... [3.34494s] Computing hash join... [4.71565s] Building seed filter... [0.116637s] Searching alignments... [31.4774s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [11.8784s] Building query seed array... [3.41112s] Computing hash join... [4.64421s] Building seed filter... [0.116262s] Searching alignments... [31.1044s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.31236s] Building query seed array... [2.8441s] Computing hash join... [4.63866s] Building seed filter... [0.13006s] Searching alignments... [30.5665s] Deallocating buffers... [0.103985s] Opening temporary output file... [0.001022s] Computing alignments... [60.2305s] Deallocating reference... [0.06815s] Loading reference sequences... [320.038s] Masking reference... [57.7462s] Initializing temporary storage... [0.004175s] Building reference histograms... [13.485s] Allocating buffers... [0.000335s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.88847s] Building query seed array... [3.20011s] Computing hash join... [4.88446s] Building seed filter... [0.133326s] Searching alignments... [43.8834s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.3875s] Building query seed array... [3.6153s] Computing hash join... [4.85579s] Building seed filter... [0.133779s] Searching alignments... [43.0494s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [11.9341s] Building query seed array... [3.46618s] Computing hash join... [4.7581s] Building seed filter... [0.132674s] Searching alignments... [42.9007s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.5463s] Building query seed array... [3.10287s] Computing hash join... [4.85534s] Building seed filter... [0.128092s] Searching alignments... [41.94s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [10.2073s] Building query seed array... [2.95852s] Computing hash join... [4.69579s] Building seed filter... [0.117126s] Searching alignments... [33.5733s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.5582s] Building query seed array... [3.05906s] Computing hash join... [4.66049s] Building seed filter... [0.11976s] Searching alignments... [33.9446s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.522s] Building query seed array... [3.27695s] Computing hash join... [4.77789s] Building seed filter... [0.121779s] Searching alignments... [33.5648s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.29826s] Building query seed array... [2.81194s] Computing hash join... [4.64864s] Building seed filter... [0.125349s] Searching alignments... [33.6231s] Deallocating buffers... [0.106049s] Opening temporary output file... [0.000938s] Computing alignments... [60.0292s] Deallocating reference... [0.063412s] Loading reference sequences... [313.623s] Masking reference... [58.5034s] Initializing temporary storage... [0.00412s] Building reference histograms... [13.2868s] Allocating buffers... [0.000321s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.66159s] Building query seed array... [3.23843s] Computing hash join... [4.87097s] Building seed filter... [0.1348s] Searching alignments... [43.631s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.0241s] Building query seed array... [3.49374s] Computing hash join... [4.84454s] Building seed filter... [0.125457s] Searching alignments... [43.1346s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [11.9798s] Building query seed array... [3.51253s] Computing hash join... [4.85966s] Building seed filter... [0.143765s] Searching alignments... [42.5063s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.73766s] Building query seed array... [3.03902s] Computing hash join... [4.80572s] Building seed filter... [0.124664s] Searching alignments... [41.6741s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.72537s] Building query seed array... [2.91187s] Computing hash join... [4.6917s] Building seed filter... [0.127569s] Searching alignments... [33.536s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.9977s] Building query seed array... [3.2755s] Computing hash join... [4.72967s] Building seed filter... [0.148322s] Searching alignments... [33.3446s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.2414s] Building query seed array... [3.3015s] Computing hash join... [4.7227s] Building seed filter... [0.1367s] Searching alignments... [33.0765s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.24893s] Building query seed array... [2.90542s] Computing hash join... [4.59394s] Building seed filter... [0.148988s] Searching alignments... [32.9145s] Deallocating buffers... [0.108678s] Opening temporary output file... [0.000959s] Computing alignments... [62.3311s] Deallocating reference... [0.062184s] Loading reference sequences... [135.494s] Masking reference... [21.666s] Initializing temporary storage... [0.003976s] Building reference histograms... [5.18149s] Allocating buffers... [0.000315s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.72985s] Building query seed array... [3.04279s] Computing hash join... [2.27021s] Building seed filter... [0.082678s] Searching alignments... [17.9124s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.58188s] Building query seed array... [3.37682s] Computing hash join... [2.24131s] Building seed filter... [0.086368s] Searching alignments... [17.7112s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.71184s] Building query seed array... [3.5118s] Computing hash join... [2.26981s] Building seed filter... [0.088817s] Searching alignments... [17.4893s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.50321s] Building query seed array... [2.96452s] Computing hash join... [2.2501s] Building seed filter... [0.082471s] Searching alignments... [17.1545s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.67279s] Building query seed array... [2.89475s] Computing hash join... [2.12293s] Building seed filter... [0.075562s] Searching alignments... [13.5375s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.5386s] Building query seed array... [3.3132s] Computing hash join... [2.15613s] Building seed filter... [0.076481s] Searching alignments... [13.3198s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.81784s] Building query seed array... [3.32898s] Computing hash join... [2.18149s] Building seed filter... [0.073672s] Searching alignments... [13.3179s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.61016s] Building query seed array... [2.8218s] Computing hash join... [2.16588s] Building seed filter... [0.077983s] Searching alignments... [13.4046s] Deallocating buffers... [0.037269s] Opening temporary output file... [0.00149s] Computing alignments... [60.1715s] Deallocating reference... [0.02779s] Loading reference sequences... [4.8e-05s] Deallocating buffers... [0.013824s] Joining output blocks... [2.15911s] Deallocating queries... [0.060338s] Loading query sequences... [2.5e-05s] Closing the input file... [4.2e-05s] Closing the output file... [0.034534s] Closing the database file... [2.8e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 5304.71s Reported 1285217 pairwise alignments, 1285455 HSPs. 191852 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 64M_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.1s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (4.8s) Total reads: 191,852 With hits: 191,852 Alignments: 1,285,455 Assig. Taxonomy: 191,852 Assig. EGGNOG: 748 Assig. INTERPRO2GO: 631 MinSupport set to: 95 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 849 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 76 Class. EGGNOG: 390 Class. INTERPRO2GO: 298 Total time: 15s Peak memory: 3.7 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/6M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... d07927ac6ef83d170bae19e373b6520b /gscratch/srlab/sam/data/C_virginica/BSseq/6M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.039983s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.007415s] Opening the output file... [0.000401s] Loading query sequences... [152.439s] Masking queries... [93.7299s] Building query seed set... [0.499433s] Algorithm: Double-indexed Building query histograms... [4.59694s] Allocating buffers... [0.000855s] Loading reference sequences... [43.9172s] Masking reference... [57.9291s] Initializing temporary storage... [0.004732s] Building reference histograms... [13.112s] Allocating buffers... [0.000334s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.65151s] Building query seed array... [3.34815s] Computing hash join... [4.93712s] Building seed filter... [0.132928s] Searching alignments... [42.2468s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.2539s] Building query seed array... [3.67915s] Computing hash join... [4.9861s] Building seed filter... [0.15285s] Searching alignments... [42.8263s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.6275s] Building query seed array... [3.60587s] Computing hash join... [4.87803s] Building seed filter... [0.134048s] Searching alignments... [42.8715s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.45999s] Building query seed array... [3.24187s] Computing hash join... [4.85714s] Building seed filter... [0.133516s] Searching alignments... [40.7251s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.35372s] Building query seed array... [3.12129s] Computing hash join... [4.73841s] Building seed filter... [0.127111s] Searching alignments... [31.5423s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.549s] Building query seed array... [3.33519s] Computing hash join... [4.74974s] Building seed filter... [0.128229s] Searching alignments... [32.6064s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [11.9684s] Building query seed array... [3.3642s] Computing hash join... [4.70777s] Building seed filter... [0.129594s] Searching alignments... [32.5231s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.35219s] Building query seed array... [3.10962s] Computing hash join... [4.73567s] Building seed filter... [0.128109s] Searching alignments... [32.5358s] Deallocating buffers... [0.106618s] Opening temporary output file... [0.000978s] Computing alignments... [62.7601s] Deallocating reference... [0.075388s] Loading reference sequences... [45.6692s] Masking reference... [58.8312s] Initializing temporary storage... [0.004282s] Building reference histograms... [13.6375s] Allocating buffers... [0.000347s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.7779s] Building query seed array... [3.32989s] Computing hash join... [4.80235s] Building seed filter... [0.121908s] Searching alignments... [39.2677s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.4022s] Building query seed array... [3.61057s] Computing hash join... [4.85348s] Building seed filter... [0.134373s] Searching alignments... [40.4786s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.5913s] Building query seed array... [3.71911s] Computing hash join... [4.88732s] Building seed filter... [0.136134s] Searching alignments... [40.0269s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.32317s] Building query seed array... [3.49956s] Computing hash join... [4.89291s] Building seed filter... [0.124659s] Searching alignments... [38.1862s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.60669s] Building query seed array... [3.0172s] Computing hash join... [4.70495s] Building seed filter... [0.119532s] Searching alignments... [29.657s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.6363s] Building query seed array... [3.48164s] Computing hash join... [4.62675s] Building seed filter... [0.11675s] Searching alignments... [30.2184s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.4848s] Building query seed array... [3.46583s] Computing hash join... [4.67967s] Building seed filter... [0.130662s] Searching alignments... [29.671s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.39576s] Building query seed array... [3.07955s] Computing hash join... [4.73852s] Building seed filter... [0.124073s] Searching alignments... [29.7846s] Deallocating buffers... [0.10385s] Opening temporary output file... [0.001031s] Computing alignments... [62.3612s] Deallocating reference... [0.07016s] Loading reference sequences... [49.0522s] Masking reference... [58.6277s] Initializing temporary storage... [0.004164s] Building reference histograms... [13.95s] Allocating buffers... [0.000318s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.35185s] Building query seed array... [3.23652s] Computing hash join... [4.92868s] Building seed filter... [0.129974s] Searching alignments... [39.5995s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.3007s] Building query seed array... [3.69072s] Computing hash join... [4.89133s] Building seed filter... [0.126945s] Searching alignments... [40.4896s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.4597s] Building query seed array... [3.6702s] Computing hash join... [4.93379s] Building seed filter... [0.127778s] Searching alignments... [40.1215s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.29387s] Building query seed array... [3.17644s] Computing hash join... [4.75153s] Building seed filter... [0.129985s] Searching alignments... [38.1182s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.11299s] Building query seed array... [3.01621s] Computing hash join... [4.71793s] Building seed filter... [0.119259s] Searching alignments... [30.0789s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.1535s] Building query seed array... [3.37077s] Computing hash join... [4.65844s] Building seed filter... [0.132885s] Searching alignments... [30.0748s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.338s] Building query seed array... [3.45941s] Computing hash join... [4.6687s] Building seed filter... [0.124852s] Searching alignments... [30.7139s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.39626s] Building query seed array... [3.15728s] Computing hash join... [4.75254s] Building seed filter... [0.137229s] Searching alignments... [30.0311s] Deallocating buffers... [0.104631s] Opening temporary output file... [0.000923s] Computing alignments... [62.6948s] Deallocating reference... [0.068621s] Loading reference sequences... [48.0824s] Masking reference... [58.8099s] Initializing temporary storage... [0.004031s] Building reference histograms... [13.465s] Allocating buffers... [0.00034s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [10.2467s] Building query seed array... [3.28827s] Computing hash join... [4.97499s] Building seed filter... [0.13146s] Searching alignments... [42.3872s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [11.8571s] Building query seed array... [3.6721s] Computing hash join... [4.95994s] Building seed filter... [0.134519s] Searching alignments... [42.766s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.3422s] Building query seed array... [3.79904s] Computing hash join... [4.88477s] Building seed filter... [0.129353s] Searching alignments... [42.9075s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.79048s] Building query seed array... [3.25631s] Computing hash join... [4.77824s] Building seed filter... [0.129807s] Searching alignments... [40.4248s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.8042s] Building query seed array... [3.07495s] Computing hash join... [4.65395s] Building seed filter... [0.129062s] Searching alignments... [31.3883s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.4408s] Building query seed array... [3.37823s] Computing hash join... [4.62159s] Building seed filter... [0.131923s] Searching alignments... [32.1096s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.3031s] Building query seed array... [3.47832s] Computing hash join... [4.74668s] Building seed filter... [0.124961s] Searching alignments... [32.0277s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [8.89081s] Building query seed array... [3.13914s] Computing hash join... [4.65019s] Building seed filter... [0.126427s] Searching alignments... [32.3894s] Deallocating buffers... [0.105114s] Opening temporary output file... [0.001784s] Computing alignments... [61.7483s] Deallocating reference... [0.063777s] Loading reference sequences... [47.5008s] Masking reference... [59.3287s] Initializing temporary storage... [0.004214s] Building reference histograms... [13.5934s] Allocating buffers... [0.000319s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.67055s] Building query seed array... [3.25433s] Computing hash join... [4.96639s] Building seed filter... [0.136105s] Searching alignments... [42.3742s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.4193s] Building query seed array... [3.62369s] Computing hash join... [4.86949s] Building seed filter... [0.129405s] Searching alignments... [42.8784s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.599s] Building query seed array... [3.67685s] Computing hash join... [4.84805s] Building seed filter... [0.135874s] Searching alignments... [43.0688s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.24773s] Building query seed array... [3.05473s] Computing hash join... [4.84613s] Building seed filter... [0.130836s] Searching alignments... [40.2118s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.33529s] Building query seed array... [2.95833s] Computing hash join... [4.75279s] Building seed filter... [0.126312s] Searching alignments... [31.8084s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.9406s] Building query seed array... [3.4509s] Computing hash join... [4.72756s] Building seed filter... [0.124589s] Searching alignments... [31.8434s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.3022s] Building query seed array... [3.50505s] Computing hash join... [4.68277s] Building seed filter... [0.124074s] Searching alignments... [31.9003s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.38043s] Building query seed array... [3.05064s] Computing hash join... [4.69585s] Building seed filter... [0.133039s] Searching alignments... [32.6484s] Deallocating buffers... [0.105976s] Opening temporary output file... [0.001246s] Computing alignments... [65.0544s] Deallocating reference... [0.062887s] Loading reference sequences... [20.2522s] Masking reference... [21.4961s] Initializing temporary storage... [0.003276s] Building reference histograms... [4.8776s] Allocating buffers... [0.00033s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.66723s] Building query seed array... [3.40046s] Computing hash join... [2.28178s] Building seed filter... [0.090214s] Searching alignments... [17.2363s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.85139s] Building query seed array... [3.53614s] Computing hash join... [2.31725s] Building seed filter... [0.080739s] Searching alignments... [17.0329s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.69186s] Building query seed array... [3.74025s] Computing hash join... [2.27094s] Building seed filter... [0.085796s] Searching alignments... [17.1582s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.62259s] Building query seed array... [3.15241s] Computing hash join... [2.25773s] Building seed filter... [0.078737s] Searching alignments... [16.6723s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.56981s] Building query seed array... [3.07725s] Computing hash join... [2.13724s] Building seed filter... [0.077066s] Searching alignments... [12.6881s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.63473s] Building query seed array... [3.43065s] Computing hash join... [2.11976s] Building seed filter... [0.075314s] Searching alignments... [12.7917s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.67176s] Building query seed array... [3.41913s] Computing hash join... [2.13748s] Building seed filter... [0.077136s] Searching alignments... [12.7832s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.64543s] Building query seed array... [2.98735s] Computing hash join... [2.12448s] Building seed filter... [0.077846s] Searching alignments... [12.9763s] Deallocating buffers... [0.043082s] Opening temporary output file... [0.015032s] Computing alignments... [60.7041s] Deallocating reference... [0.028704s] Loading reference sequences... [6.1e-05s] Deallocating buffers... [0.013894s] Joining output blocks... [2.12033s] Deallocating queries... [0.059053s] Loading query sequences... [2.7e-05s] Closing the input file... [4.4e-05s] Closing the output file... [0.039179s] Closing the database file... [2.9e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 3685.72s Reported 1683173 pairwise alignments, 1684105 HSPs. 257312 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 6M_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.4s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.9s) Total reads: 257,312 With hits: 257,312 Alignments: 1,684,105 Assig. Taxonomy: 257,312 Assig. EGGNOG: 1,175 Assig. INTERPRO2GO: 1,034 MinSupport set to: 128 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 936 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 85 Class. EGGNOG: 501 Class. INTERPRO2GO: 426 Total time: 16s Peak memory: 5.3 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/6M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 417cdb726d8cb28ca4e7fa1fef4a3cd3 /gscratch/srlab/sam/data/C_virginica/BSseq/6M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000214s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005141s] Opening the output file... [0.000339s] Loading query sequences... [154.093s] Masking queries... [84.7651s] Building query seed set... [0.51014s] Algorithm: Double-indexed Building query histograms... [4.55684s] Allocating buffers... [0.000891s] Loading reference sequences... [364.758s] Masking reference... [57.6507s] Initializing temporary storage... [0.004145s] Building reference histograms... [12.9921s] Allocating buffers... [0.000357s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.65038s] Building query seed array... [3.07672s] Computing hash join... [4.89033s] Building seed filter... [0.135038s] Searching alignments... [40.2116s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.3872s] Building query seed array... [3.48578s] Computing hash join... [4.79983s] Building seed filter... [0.133863s] Searching alignments... [39.835s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.4363s] Building query seed array... [3.4876s] Computing hash join... [4.79784s] Building seed filter... [0.135242s] Searching alignments... [38.994s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.6192s] Building query seed array... [3.10072s] Computing hash join... [4.89949s] Building seed filter... [0.132724s] Searching alignments... [38.8604s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.33684s] Building query seed array... [2.74029s] Computing hash join... [4.63908s] Building seed filter... [0.129022s] Searching alignments... [30.6237s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.4121s] Building query seed array... [3.22152s] Computing hash join... [4.72336s] Building seed filter... [0.138133s] Searching alignments... [30.357s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.5367s] Building query seed array... [3.20684s] Computing hash join... [4.61714s] Building seed filter... [0.12864s] Searching alignments... [30.4657s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.43712s] Building query seed array... [2.75329s] Computing hash join... [4.7382s] Building seed filter... [0.128765s] Searching alignments... [30.0633s] Deallocating buffers... [0.109263s] Opening temporary output file... [0.002387s] Computing alignments... [62.1427s] Deallocating reference... [0.076159s] Loading reference sequences... [339.35s] Masking reference... [57.494s] Initializing temporary storage... [0.004205s] Building reference histograms... [12.8064s] Allocating buffers... [0.000346s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.62415s] Building query seed array... [3.79797s] Computing hash join... [4.91217s] Building seed filter... [0.135746s] Searching alignments... [37.1009s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.5609s] Building query seed array... [3.36499s] Computing hash join... [4.86534s] Building seed filter... [0.136019s] Searching alignments... [37.4362s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.688s] Building query seed array... [3.50042s] Computing hash join... [4.81357s] Building seed filter... [0.135198s] Searching alignments... [36.785s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.66741s] Building query seed array... [3.02557s] Computing hash join... [4.79551s] Building seed filter... [0.135398s] Searching alignments... [36.2307s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.48659s] Building query seed array... [2.85811s] Computing hash join... [4.66308s] Building seed filter... [0.12475s] Searching alignments... [28.9838s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.4614s] Building query seed array... [3.21814s] Computing hash join... [4.66681s] Building seed filter... [0.122358s] Searching alignments... [28.9909s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.191s] Building query seed array... [3.25623s] Computing hash join... [4.69874s] Building seed filter... [0.127021s] Searching alignments... [28.6289s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.32221s] Building query seed array... [2.74966s] Computing hash join... [4.60511s] Building seed filter... [0.137468s] Searching alignments... [28.06s] Deallocating buffers... [0.10686s] Opening temporary output file... [0.002531s] Computing alignments... [62.1874s] Deallocating reference... [0.069731s] Loading reference sequences... [342.188s] Masking reference... [57.5537s] Initializing temporary storage... [0.004072s] Building reference histograms... [13.1215s] Allocating buffers... [0.000313s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [10.2256s] Building query seed array... [3.0925s] Computing hash join... [4.9027s] Building seed filter... [0.130108s] Searching alignments... [37.4186s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.9385s] Building query seed array... [3.60577s] Computing hash join... [4.84374s] Building seed filter... [0.127221s] Searching alignments... [37.7413s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.3347s] Building query seed array... [3.53336s] Computing hash join... [4.8009s] Building seed filter... [0.128267s] Searching alignments... [37.3607s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.42754s] Building query seed array... [2.97459s] Computing hash join... [4.92356s] Building seed filter... [0.134857s] Searching alignments... [36.3158s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.53205s] Building query seed array... [2.80861s] Computing hash join... [4.67514s] Building seed filter... [0.130204s] Searching alignments... [29.0101s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [11.86s] Building query seed array... [3.21822s] Computing hash join... [4.67575s] Building seed filter... [0.138125s] Searching alignments... [29.5008s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.6431s] Building query seed array... [3.32076s] Computing hash join... [4.79226s] Building seed filter... [0.126917s] Searching alignments... [28.8345s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.4658s] Building query seed array... [2.76031s] Computing hash join... [4.75356s] Building seed filter... [0.135374s] Searching alignments... [28.3872s] Deallocating buffers... [0.108033s] Opening temporary output file... [0.001005s] Computing alignments... [61.7261s] Deallocating reference... [0.067858s] Loading reference sequences... [318.569s] Masking reference... [57.4802s] Initializing temporary storage... [0.003911s] Building reference histograms... [13.2274s] Allocating buffers... [0.000314s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [10.021s] Building query seed array... [3.14682s] Computing hash join... [4.79734s] Building seed filter... [0.15041s] Searching alignments... [39.6766s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.0295s] Building query seed array... [3.54529s] Computing hash join... [4.79603s] Building seed filter... [0.136574s] Searching alignments... [40.2469s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.3601s] Building query seed array... [3.50354s] Computing hash join... [4.86989s] Building seed filter... [0.139685s] Searching alignments... [39.4575s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.42694s] Building query seed array... [3.10912s] Computing hash join... [4.80346s] Building seed filter... [0.140565s] Searching alignments... [38.9942s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.38638s] Building query seed array... [2.76585s] Computing hash join... [4.65755s] Building seed filter... [0.123237s] Searching alignments... [30.8914s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.1914s] Building query seed array... [3.2222s] Computing hash join... [4.74151s] Building seed filter... [0.133213s] Searching alignments... [31.2224s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.2617s] Building query seed array... [3.30968s] Computing hash join... [4.78799s] Building seed filter... [0.136638s] Searching alignments... [31.1189s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.7864s] Building query seed array... [2.89319s] Computing hash join... [4.6955s] Building seed filter... [0.132327s] Searching alignments... [30.0657s] Deallocating buffers... [0.102632s] Opening temporary output file... [0.002222s] Computing alignments... [61.0686s] Deallocating reference... [0.063272s] Loading reference sequences... [306.208s] Masking reference... [57.5287s] Initializing temporary storage... [0.00408s] Building reference histograms... [12.8209s] Allocating buffers... [0.000317s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.7754s] Building query seed array... [3.12917s] Computing hash join... [4.92656s] Building seed filter... [0.132846s] Searching alignments... [39.725s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [11.6309s] Building query seed array... [3.4977s] Computing hash join... [4.81044s] Building seed filter... [0.145066s] Searching alignments... [40.043s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.2787s] Building query seed array... [3.57095s] Computing hash join... [4.88128s] Building seed filter... [0.138438s] Searching alignments... [39.3114s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.42703s] Building query seed array... [3.05324s] Computing hash join... [4.83712s] Building seed filter... [0.136683s] Searching alignments... [39.6167s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.91447s] Building query seed array... [2.88663s] Computing hash join... [4.75565s] Building seed filter... [0.133397s] Searching alignments... [30.6212s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.5855s] Building query seed array... [3.10159s] Computing hash join... [4.67951s] Building seed filter... [0.139899s] Searching alignments... [31.0461s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.7518s] Building query seed array... [3.26391s] Computing hash join... [4.73136s] Building seed filter... [0.124511s] Searching alignments... [30.4034s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.63604s] Building query seed array... [2.87478s] Computing hash join... [4.66397s] Building seed filter... [0.124676s] Searching alignments... [30.145s] Deallocating buffers... [0.105912s] Opening temporary output file... [0.000529s] Computing alignments... [62.3219s] Deallocating reference... [0.065541s] Loading reference sequences... [135.938s] Masking reference... [21.2214s] Initializing temporary storage... [0.004032s] Building reference histograms... [4.88292s] Allocating buffers... [0.000315s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.73057s] Building query seed array... [3.19583s] Computing hash join... [2.27724s] Building seed filter... [0.08854s] Searching alignments... [16.3059s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.73653s] Building query seed array... [3.53521s] Computing hash join... [2.25591s] Building seed filter... [0.085097s] Searching alignments... [16.3794s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.75235s] Building query seed array... [3.38706s] Computing hash join... [2.23971s] Building seed filter... [0.094486s] Searching alignments... [15.9938s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.54659s] Building query seed array... [2.97536s] Computing hash join... [2.29062s] Building seed filter... [0.09005s] Searching alignments... [15.738s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.63571s] Building query seed array... [2.85364s] Computing hash join... [2.13264s] Building seed filter... [0.082374s] Searching alignments... [12.1327s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.59889s] Building query seed array... [3.39868s] Computing hash join... [2.10429s] Building seed filter... [0.08241s] Searching alignments... [12.4063s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.6357s] Building query seed array... [3.29187s] Computing hash join... [2.11979s] Building seed filter... [0.080779s] Searching alignments... [12.3679s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.63954s] Building query seed array... [2.84023s] Computing hash join... [2.10424s] Building seed filter... [0.082464s] Searching alignments... [12.1803s] Deallocating buffers... [0.041613s] Opening temporary output file... [0.001633s] Computing alignments... [60.0375s] Deallocating reference... [0.029739s] Loading reference sequences... [5.1e-05s] Deallocating buffers... [0.012957s] Joining output blocks... [2.35888s] Deallocating queries... [0.061818s] Loading query sequences... [3.8e-05s] Closing the input file... [4.1e-05s] Closing the output file... [0.035761s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1.2e-05s] Total time = 5124.61s Reported 1599065 pairwise alignments, 1599917 HSPs. 245905 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 6M_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.6s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (1.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.4s) Total reads: 245,905 With hits: 245,905 Alignments: 1,599,917 Assig. Taxonomy: 245,905 Assig. EGGNOG: 1,030 Assig. INTERPRO2GO: 763 MinSupport set to: 122 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 876 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 76 Class. EGGNOG: 468 Class. INTERPRO2GO: 397 Total time: 17s Peak memory: 4.5 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/76F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... fae56f3ddf54b15f09877c23487cd231 /gscratch/srlab/sam/data/C_virginica/BSseq/76F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.074373s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.005984s] Opening the output file... [0.000331s] Loading query sequences... [149.523s] Masking queries... [87.7241s] Building query seed set... [0.502173s] Algorithm: Double-indexed Building query histograms... [4.48832s] Allocating buffers... [0.000841s] Loading reference sequences... [43.5483s] Masking reference... [58.1245s] Initializing temporary storage... [0.004681s] Building reference histograms... [12.9283s] Allocating buffers... [0.000341s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.69645s] Building query seed array... [3.37067s] Computing hash join... [4.90134s] Building seed filter... [0.117018s] Searching alignments... [46.6746s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.1772s] Building query seed array... [3.71377s] Computing hash join... [4.82498s] Building seed filter... [0.122558s] Searching alignments... [47.4126s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.3779s] Building query seed array... [3.69269s] Computing hash join... [4.74894s] Building seed filter... [0.123627s] Searching alignments... [45.5646s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [8.98639s] Building query seed array... [3.19686s] Computing hash join... [4.72737s] Building seed filter... [0.14087s] Searching alignments... [45.0544s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.78427s] Building query seed array... [3.06045s] Computing hash join... [4.58385s] Building seed filter... [0.120974s] Searching alignments... [35.5511s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9983s] Building query seed array... [3.43857s] Computing hash join... [4.58616s] Building seed filter... [0.117811s] Searching alignments... [34.5853s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.0226s] Building query seed array... [3.44887s] Computing hash join... [4.59285s] Building seed filter... [0.123085s] Searching alignments... [37.0926s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.20113s] Building query seed array... [2.94396s] Computing hash join... [4.64351s] Building seed filter... [0.125897s] Searching alignments... [34.91s] Deallocating buffers... [0.118711s] Opening temporary output file... [0.000965s] Computing alignments... [59.6264s] Deallocating reference... [0.075212s] Loading reference sequences... [48.4814s] Masking reference... [59.2127s] Initializing temporary storage... [0.005651s] Building reference histograms... [13.0848s] Allocating buffers... [0.000334s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.9933s] Building query seed array... [3.32741s] Computing hash join... [4.9123s] Building seed filter... [0.115194s] Searching alignments... [44.8143s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [11.9406s] Building query seed array... [3.59122s] Computing hash join... [4.84661s] Building seed filter... [0.115894s] Searching alignments... [44.4471s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.4787s] Building query seed array... [3.7004s] Computing hash join... [4.73277s] Building seed filter... [0.1196s] Searching alignments... [42.508s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.59967s] Building query seed array... [3.31776s] Computing hash join... [4.67934s] Building seed filter... [0.121077s] Searching alignments... [41.9266s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.47718s] Building query seed array... [3.02578s] Computing hash join... [4.62637s] Building seed filter... [0.114253s] Searching alignments... [33.2148s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.5785s] Building query seed array... [3.36001s] Computing hash join... [4.65014s] Building seed filter... [0.117274s] Searching alignments... [32.8829s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.2889s] Building query seed array... [3.40821s] Computing hash join... [4.72768s] Building seed filter... [0.120239s] Searching alignments... [33.7833s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.37401s] Building query seed array... [2.98745s] Computing hash join... [4.64451s] Building seed filter... [0.115448s] Searching alignments... [31.2947s] Deallocating buffers... [0.116062s] Opening temporary output file... [0.001074s] Computing alignments... [59.6633s] Deallocating reference... [0.073091s] Loading reference sequences... [343.425s] Masking reference... [57.4998s] Initializing temporary storage... [0.00406s] Building reference histograms... [12.909s] Allocating buffers... [0.00033s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.67127s] Building query seed array... [3.34491s] Computing hash join... [4.79968s] Building seed filter... [0.758698s] Searching alignments... [47.7766s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.0994s] Building query seed array... [3.70157s] Computing hash join... [4.74517s] Building seed filter... [0.119519s] Searching alignments... [44.6717s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.3246s] Building query seed array... [3.76623s] Computing hash join... [4.80328s] Building seed filter... [0.125946s] Searching alignments... [42.7191s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.27059s] Building query seed array... [3.29395s] Computing hash join... [4.73757s] Building seed filter... [0.127047s] Searching alignments... [42.532s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.65684s] Building query seed array... [2.99045s] Computing hash join... [4.67321s] Building seed filter... [0.116914s] Searching alignments... [33.7226s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.1115s] Building query seed array... [3.36994s] Computing hash join... [4.65027s] Building seed filter... [0.117652s] Searching alignments... [32.925s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.5627s] Building query seed array... [3.4442s] Computing hash join... [4.6676s] Building seed filter... [0.120363s] Searching alignments... [34.5087s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.23102s] Building query seed array... [2.92943s] Computing hash join... [4.61006s] Building seed filter... [0.118741s] Searching alignments... [31.484s] Deallocating buffers... [0.108702s] Opening temporary output file... [0.000526s] Computing alignments... [59.4064s] Deallocating reference... [0.068514s] Loading reference sequences... [323.695s] Masking reference... [57.5405s] Initializing temporary storage... [0.004043s] Building reference histograms... [12.7183s] Allocating buffers... [0.000315s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.78738s] Building query seed array... [3.1128s] Computing hash join... [4.72672s] Building seed filter... [0.128557s] Searching alignments... [47.3409s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.2991s] Building query seed array... [3.67628s] Computing hash join... [4.81136s] Building seed filter... [0.119748s] Searching alignments... [47.6206s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.446s] Building query seed array... [3.76176s] Computing hash join... [4.73091s] Building seed filter... [0.126257s] Searching alignments... [45.6829s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.54134s] Building query seed array... [3.27876s] Computing hash join... [4.69692s] Building seed filter... [0.122726s] Searching alignments... [45.5579s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.56828s] Building query seed array... [3.06832s] Computing hash join... [4.64287s] Building seed filter... [0.121721s] Searching alignments... [35.6192s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.918s] Building query seed array... [3.44513s] Computing hash join... [4.60688s] Building seed filter... [0.120949s] Searching alignments... [34.8886s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.6644s] Building query seed array... [3.6996s] Computing hash join... [4.66621s] Building seed filter... [0.114665s] Searching alignments... [36.5138s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.28794s] Building query seed array... [2.9865s] Computing hash join... [4.57792s] Building seed filter... [0.124216s] Searching alignments... [33.7087s] Deallocating buffers... [0.105671s] Opening temporary output file... [0.000955s] Computing alignments... [59.5418s] Deallocating reference... [0.064043s] Loading reference sequences... [312.861s] Masking reference... [57.7623s] Initializing temporary storage... [0.004026s] Building reference histograms... [13.2327s] Allocating buffers... [0.000338s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.96938s] Building query seed array... [3.30991s] Computing hash join... [4.86942s] Building seed filter... [0.125191s] Searching alignments... [53.2792s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.0174s] Building query seed array... [3.66049s] Computing hash join... [4.83266s] Building seed filter... [0.123784s] Searching alignments... [47.7636s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.5475s] Building query seed array... [3.70447s] Computing hash join... [4.81526s] Building seed filter... [0.138315s] Searching alignments... [46.029s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.0869s] Building query seed array... [3.19197s] Computing hash join... [4.79332s] Building seed filter... [0.136745s] Searching alignments... [46.0553s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.5354s] Building query seed array... [2.99284s] Computing hash join... [4.66162s] Building seed filter... [0.115309s] Searching alignments... [35.8051s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.984s] Building query seed array... [3.43636s] Computing hash join... [4.62154s] Building seed filter... [0.118727s] Searching alignments... [35.5706s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.2707s] Building query seed array... [3.49415s] Computing hash join... [4.60349s] Building seed filter... [0.119759s] Searching alignments... [36.5442s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.21148s] Building query seed array... [2.84929s] Computing hash join... [4.59226s] Building seed filter... [0.12052s] Searching alignments... [33.3691s] Deallocating buffers... [0.108386s] Opening temporary output file... [0.000551s] Computing alignments... [61.0647s] Deallocating reference... [0.061766s] Loading reference sequences... [136.087s] Masking reference... [21.8916s] Initializing temporary storage... [0.006064s] Building reference histograms... [5.01459s] Allocating buffers... [0.000317s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.69345s] Building query seed array... [3.23267s] Computing hash join... [2.22667s] Building seed filter... [0.088188s] Searching alignments... [22.0351s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.7506s] Building query seed array... [3.71968s] Computing hash join... [2.25773s] Building seed filter... [0.075181s] Searching alignments... [19.308s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.51223s] Building query seed array... [3.58332s] Computing hash join... [2.21418s] Building seed filter... [0.089038s] Searching alignments... [18.5568s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.76995s] Building query seed array... [3.19018s] Computing hash join... [2.20125s] Building seed filter... [0.074292s] Searching alignments... [18.4427s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.73772s] Building query seed array... [3.10363s] Computing hash join... [2.17817s] Building seed filter... [0.072848s] Searching alignments... [14.803s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.63751s] Building query seed array... [3.73023s] Computing hash join... [2.18892s] Building seed filter... [0.070861s] Searching alignments... [14.1495s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.88604s] Building query seed array... [3.50172s] Computing hash join... [2.14666s] Building seed filter... [0.075368s] Searching alignments... [14.6344s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.66759s] Building query seed array... [3.01162s] Computing hash join... [2.11462s] Building seed filter... [0.069342s] Searching alignments... [13.4931s] Deallocating buffers... [0.043599s] Opening temporary output file... [0.010078s] Computing alignments... [57.8275s] Deallocating reference... [0.027915s] Loading reference sequences... [4.6e-05s] Deallocating buffers... [0.013904s] Joining output blocks... [2.74598s] Deallocating queries... [0.061101s] Loading query sequences... [4e-05s] Closing the input file... [4.3e-05s] Closing the output file... [0.043045s] Closing the database file... [2.9e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 4774.74s Reported 1864674 pairwise alignments, 1865100 HSPs. 254579 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 76F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.6s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.9s) Total reads: 254,579 With hits: 254,579 Alignments: 1,865,100 Assig. Taxonomy: 254,579 Assig. EGGNOG: 1,358 Assig. INTERPRO2GO: 1,568 MinSupport set to: 127 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Min-supp. changes: 836 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 90 Class. EGGNOG: 508 Class. INTERPRO2GO: 436 Total time: 17s Peak memory: 5 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/76F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... 692b4f30479b5ee24f92b77004f341f7 /gscratch/srlab/sam/data/C_virginica/BSseq/76F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000211s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.040567s] Opening the output file... [0.000325s] Loading query sequences... [152.403s] Masking queries... [110.578s] Building query seed set... [0.531201s] Algorithm: Double-indexed Building query histograms... [4.57568s] Allocating buffers... [0.000874s] Loading reference sequences... [379.185s] Masking reference... [57.9742s] Initializing temporary storage... [0.004126s] Building reference histograms... [13.7828s] Allocating buffers... [0.000322s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [10.1578s] Building query seed array... [3.02073s] Computing hash join... [4.92279s] Building seed filter... [0.144178s] Searching alignments... [43.003s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.2338s] Building query seed array... [3.43686s] Computing hash join... [4.90767s] Building seed filter... [0.137514s] Searching alignments... [42.8175s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.8158s] Building query seed array... [3.49928s] Computing hash join... [4.86287s] Building seed filter... [0.131401s] Searching alignments... [42.7648s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.45569s] Building query seed array... [3.08621s] Computing hash join... [4.79343s] Building seed filter... [0.12543s] Searching alignments... [41.8926s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.79191s] Building query seed array... [2.9164s] Computing hash join... [4.67562s] Building seed filter... [0.129163s] Searching alignments... [33.0135s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.5869s] Building query seed array... [3.29111s] Computing hash join... [4.72114s] Building seed filter... [0.1327s] Searching alignments... [32.9014s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.447s] Building query seed array... [3.21281s] Computing hash join... [4.68156s] Building seed filter... [0.125016s] Searching alignments... [33.4895s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.52611s] Building query seed array... [2.86899s] Computing hash join... [4.69285s] Building seed filter... [0.131702s] Searching alignments... [32.8583s] Deallocating buffers... [0.105722s] Opening temporary output file... [0.001038s] Computing alignments... [59.2261s] Deallocating reference... [0.080061s] Loading reference sequences... [349.963s] Masking reference... [58.3526s] Initializing temporary storage... [0.004628s] Building reference histograms... [13.0941s] Allocating buffers... [0.00032s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.84688s] Building query seed array... [3.11553s] Computing hash join... [4.81347s] Building seed filter... [0.126618s] Searching alignments... [39.8965s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.2822s] Building query seed array... [3.44671s] Computing hash join... [4.82209s] Building seed filter... [0.125576s] Searching alignments... [39.5025s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.5724s] Building query seed array... [3.41291s] Computing hash join... [4.86449s] Building seed filter... [0.15029s] Searching alignments... [39.201s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.57056s] Building query seed array... [2.99948s] Computing hash join... [4.79098s] Building seed filter... [0.134517s] Searching alignments... [38.592s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.77146s] Building query seed array... [2.86291s] Computing hash join... [4.67057s] Building seed filter... [0.125856s] Searching alignments... [29.8524s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.6763s] Building query seed array... [3.14227s] Computing hash join... [4.60486s] Building seed filter... [0.122789s] Searching alignments... [30.8234s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.4277s] Building query seed array... [3.19108s] Computing hash join... [4.64983s] Building seed filter... [0.124534s] Searching alignments... [30.4668s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.50798s] Building query seed array... [2.90845s] Computing hash join... [4.62229s] Building seed filter... [0.133935s] Searching alignments... [30.3731s] Deallocating buffers... [0.105071s] Opening temporary output file... [0.001s] Computing alignments... [60.096s] Deallocating reference... [0.068979s] Loading reference sequences... [345.435s] Masking reference... [59.6592s] Initializing temporary storage... [0.0052s] Building reference histograms... [12.9388s] Allocating buffers... [0.000324s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.56955s] Building query seed array... [3.07578s] Computing hash join... [4.90865s] Building seed filter... [0.12375s] Searching alignments... [42.5396s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.9769s] Building query seed array... [3.54255s] Computing hash join... [4.83955s] Building seed filter... [0.123506s] Searching alignments... [39.5887s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.2315s] Building query seed array... [3.49404s] Computing hash join... [4.80456s] Building seed filter... [0.126042s] Searching alignments... [39.7804s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.46045s] Building query seed array... [2.96113s] Computing hash join... [4.73369s] Building seed filter... [0.122418s] Searching alignments... [38.6471s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.36228s] Building query seed array... [2.79037s] Computing hash join... [4.72901s] Building seed filter... [0.118083s] Searching alignments... [30.8901s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.0769s] Building query seed array... [3.31952s] Computing hash join... [4.73529s] Building seed filter... [0.119363s] Searching alignments... [30.7923s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [11.8142s] Building query seed array... [3.23892s] Computing hash join... [4.7764s] Building seed filter... [0.128545s] Searching alignments... [30.7354s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.05506s] Building query seed array... [2.86657s] Computing hash join... [4.70671s] Building seed filter... [0.128235s] Searching alignments... [30.3103s] Deallocating buffers... [0.106102s] Opening temporary output file... [0.000841s] Computing alignments... [58.3938s] Deallocating reference... [0.068661s] Loading reference sequences... [322.77s] Masking reference... [57.7663s] Initializing temporary storage... [0.00408s] Building reference histograms... [13.2279s] Allocating buffers... [0.000317s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [10.1926s] Building query seed array... [3.47488s] Computing hash join... [4.74452s] Building seed filter... [0.127796s] Searching alignments... [42.8282s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [11.8631s] Building query seed array... [3.39989s] Computing hash join... [4.84808s] Building seed filter... [0.125111s] Searching alignments... [42.3509s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.5158s] Building query seed array... [3.42183s] Computing hash join... [4.76599s] Building seed filter... [0.126151s] Searching alignments... [41.7776s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.64424s] Building query seed array... [3.18258s] Computing hash join... [4.76977s] Building seed filter... [0.130454s] Searching alignments... [41.4583s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.3231s] Building query seed array... [2.95634s] Computing hash join... [4.63647s] Building seed filter... [0.134392s] Searching alignments... [33.0313s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.5523s] Building query seed array... [3.28043s] Computing hash join... [4.58723s] Building seed filter... [0.126857s] Searching alignments... [32.9896s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.5177s] Building query seed array... [3.1732s] Computing hash join... [4.68139s] Building seed filter... [0.124193s] Searching alignments... [32.6043s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.34919s] Building query seed array... [2.78183s] Computing hash join... [4.72161s] Building seed filter... [0.131828s] Searching alignments... [32.6147s] Deallocating buffers... [0.105701s] Opening temporary output file... [0.010461s] Computing alignments... [57.5327s] Deallocating reference... [0.063263s] Loading reference sequences... [324.928s] Masking reference... [58.0171s] Initializing temporary storage... [0.004033s] Building reference histograms... [13.4265s] Allocating buffers... [0.00032s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.81833s] Building query seed array... [3.08957s] Computing hash join... [4.84128s] Building seed filter... [0.1474s] Searching alignments... [42.1991s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.7461s] Building query seed array... [3.42638s] Computing hash join... [4.87272s] Building seed filter... [0.13258s] Searching alignments... [42.2954s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.4931s] Building query seed array... [3.6324s] Computing hash join... [4.76983s] Building seed filter... [0.128793s] Searching alignments... [43.2455s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.4898s] Building query seed array... [3.11477s] Computing hash join... [4.87152s] Building seed filter... [0.128847s] Searching alignments... [41.8457s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.41116s] Building query seed array... [2.87468s] Computing hash join... [4.63134s] Building seed filter... [0.145321s] Searching alignments... [33.2381s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.9132s] Building query seed array... [3.20659s] Computing hash join... [4.71075s] Building seed filter... [0.126766s] Searching alignments... [32.8963s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.4113s] Building query seed array... [3.12384s] Computing hash join... [4.72608s] Building seed filter... [0.121419s] Searching alignments... [32.2639s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.62309s] Building query seed array... [2.90126s] Computing hash join... [4.6681s] Building seed filter... [0.120175s] Searching alignments... [32.4394s] Deallocating buffers... [0.103377s] Opening temporary output file... [0.000498s] Computing alignments... [61.4686s] Deallocating reference... [0.06238s] Loading reference sequences... [139.87s] Masking reference... [21.3876s] Initializing temporary storage... [0.003947s] Building reference histograms... [4.99646s] Allocating buffers... [0.000337s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.67113s] Building query seed array... [3.01906s] Computing hash join... [2.26619s] Building seed filter... [0.07676s] Searching alignments... [19.3455s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.76463s] Building query seed array... [3.49161s] Computing hash join... [2.24198s] Building seed filter... [0.076735s] Searching alignments... [17.5662s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.73481s] Building query seed array... [3.53779s] Computing hash join... [2.2404s] Building seed filter... [0.078342s] Searching alignments... [17.1721s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.67469s] Building query seed array... [3.0251s] Computing hash join... [2.24209s] Building seed filter... [0.079206s] Searching alignments... [17.1068s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.72035s] Building query seed array... [2.86707s] Computing hash join... [2.11036s] Building seed filter... [0.07792s] Searching alignments... [13.5537s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.81744s] Building query seed array... [3.28633s] Computing hash join... [2.15562s] Building seed filter... [0.073986s] Searching alignments... [13.3603s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.63593s] Building query seed array... [3.18937s] Computing hash join... [2.12182s] Building seed filter... [0.074908s] Searching alignments... [13.325s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.5856s] Building query seed array... [2.85491s] Computing hash join... [2.13004s] Building seed filter... [0.079702s] Searching alignments... [13.1813s] Deallocating buffers... [0.042949s] Opening temporary output file... [0.001973s] Computing alignments... [57.5987s] Deallocating reference... [0.029342s] Loading reference sequences... [5e-05s] Deallocating buffers... [0.013548s] Joining output blocks... [2.27107s] Deallocating queries... [0.065802s] Loading query sequences... [3.7e-05s] Closing the input file... [6e-05s] Closing the output file... [0.045481s] Closing the database file... [3.2e-05s] Deallocating taxonomy... [2.5e-05s] Total time = 5300.87s Reported 1499607 pairwise alignments, 1499905 HSPs. 210355 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 76F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.2s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.5s) Total reads: 210,355 With hits: 210,355 Alignments: 1,499,905 Assig. Taxonomy: 210,355 Assig. EGGNOG: 1,058 Assig. INTERPRO2GO: 1,009 MinSupport set to: 105 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.5s) Min-supp. changes: 788 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 89 Class. EGGNOG: 481 Class. INTERPRO2GO: 374 Total time: 16s Peak memory: 3.8 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/77F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... a1b05d758a96d4ae120d1f2f46fa7a96 /gscratch/srlab/sam/data/C_virginica/BSseq/77F_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.045704s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.055806s] Opening the output file... [0.000341s] Loading query sequences... [180.366s] Masking queries... [94.3961s] Building query seed set... [0.67995s] Algorithm: Double-indexed Building query histograms... [5.4114s] Allocating buffers... [0.000907s] Loading reference sequences... [42.2993s] Masking reference... [57.3675s] Initializing temporary storage... [0.004594s] Building reference histograms... [12.8446s] Allocating buffers... [0.000326s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.82458s] Building query seed array... [3.83483s] Computing hash join... [5.0107s] Building seed filter... [0.129957s] Searching alignments... [53.6702s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.0087s] Building query seed array... [4.46367s] Computing hash join... [4.93353s] Building seed filter... [0.122908s] Searching alignments... [53.984s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.4785s] Building query seed array... [4.38166s] Computing hash join... [5.01658s] Building seed filter... [0.135854s] Searching alignments... [50.7555s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.78827s] Building query seed array... [3.6886s] Computing hash join... [4.95232s] Building seed filter... [0.129869s] Searching alignments... [53.0759s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.20937s] Building query seed array... [3.62877s] Computing hash join... [4.79279s] Building seed filter... [0.11967s] Searching alignments... [39.3574s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [11.9901s] Building query seed array... [3.89097s] Computing hash join... [4.83551s] Building seed filter... [0.13051s] Searching alignments... [40.6042s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.7264s] Building query seed array... [4.10862s] Computing hash join... [4.73594s] Building seed filter... [0.120422s] Searching alignments... [39.8388s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.23393s] Building query seed array... [3.60177s] Computing hash join... [4.75579s] Building seed filter... [0.125076s] Searching alignments... [40.6407s] Deallocating buffers... [0.114486s] Opening temporary output file... [0.001108s] Computing alignments... [72.8302s] Deallocating reference... [0.087433s] Loading reference sequences... [48.4798s] Masking reference... [57.7743s] Initializing temporary storage... [0.005361s] Building reference histograms... [13.0165s] Allocating buffers... [0.000926s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [10.0105s] Building query seed array... [3.95024s] Computing hash join... [4.95456s] Building seed filter... [0.125099s] Searching alignments... [49.0806s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.3748s] Building query seed array... [4.23666s] Computing hash join... [4.90108s] Building seed filter... [0.116797s] Searching alignments... [49.7012s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.7986s] Building query seed array... [4.45055s] Computing hash join... [5.00613s] Building seed filter... [0.119265s] Searching alignments... [46.6907s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.26248s] Building query seed array... [3.73666s] Computing hash join... [4.91709s] Building seed filter... [0.121617s] Searching alignments... [48.7215s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.49492s] Building query seed array... [3.61776s] Computing hash join... [4.76272s] Building seed filter... [0.115807s] Searching alignments... [36.784s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.3724s] Building query seed array... [4.24497s] Computing hash join... [4.7529s] Building seed filter... [0.138294s] Searching alignments... [37.1273s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.5042s] Building query seed array... [4.1327s] Computing hash join... [4.71886s] Building seed filter... [0.144902s] Searching alignments... [36.3347s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.62691s] Building query seed array... [3.59019s] Computing hash join... [4.81959s] Building seed filter... [0.123104s] Searching alignments... [37.1177s] Deallocating buffers... [0.110188s] Opening temporary output file... [0.000969s] Computing alignments... [71.9838s] Deallocating reference... [0.074725s] Loading reference sequences... [52.4955s] Masking reference... [59.083s] Initializing temporary storage... [0.299577s] Building reference histograms... [12.6682s] Allocating buffers... [0.000824s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.76865s] Building query seed array... [3.88307s] Computing hash join... [5.0276s] Building seed filter... [0.12694s] Searching alignments... [52.7995s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.0738s] Building query seed array... [4.28043s] Computing hash join... [4.89531s] Building seed filter... [0.127012s] Searching alignments... [50.6698s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.3083s] Building query seed array... [4.28518s] Computing hash join... [5.00225s] Building seed filter... [0.133085s] Searching alignments... [46.8808s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.15764s] Building query seed array... [3.76662s] Computing hash join... [4.82121s] Building seed filter... [0.13076s] Searching alignments... [49.7522s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.55711s] Building query seed array... [3.57107s] Computing hash join... [4.79365s] Building seed filter... [0.121055s] Searching alignments... [37.5738s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.31s] Building query seed array... [4.10403s] Computing hash join... [4.75934s] Building seed filter... [0.114785s] Searching alignments... [37.7608s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.3802s] Building query seed array... [4.12676s] Computing hash join... [4.78214s] Building seed filter... [0.117086s] Searching alignments... [36.8859s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.02632s] Building query seed array... [3.58122s] Computing hash join... [4.73597s] Building seed filter... [0.116582s] Searching alignments... [38.3957s] Deallocating buffers... [0.111899s] Opening temporary output file... [0.001069s] Computing alignments... [72.7559s] Deallocating reference... [0.072132s] Loading reference sequences... [51.5224s] Masking reference... [57.8729s] Initializing temporary storage... [0.004741s] Building reference histograms... [13.1437s] Allocating buffers... [0.00084s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.84386s] Building query seed array... [3.93469s] Computing hash join... [5.00247s] Building seed filter... [0.122363s] Searching alignments... [53.0935s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.3426s] Building query seed array... [4.78514s] Computing hash join... [5.00342s] Building seed filter... [0.121311s] Searching alignments... [53.5938s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.2468s] Building query seed array... [4.32739s] Computing hash join... [4.97586s] Building seed filter... [0.128158s] Searching alignments... [51.1845s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.60896s] Building query seed array... [3.64647s] Computing hash join... [4.96391s] Building seed filter... [0.120049s] Searching alignments... [53.1273s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.30336s] Building query seed array... [3.6072s] Computing hash join... [4.66717s] Building seed filter... [0.1202s] Searching alignments... [39.8516s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.3044s] Building query seed array... [4.10027s] Computing hash join... [4.81304s] Building seed filter... [0.134058s] Searching alignments... [40.3437s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.3966s] Building query seed array... [4.10668s] Computing hash join... [4.73035s] Building seed filter... [0.129794s] Searching alignments... [40.0103s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.22572s] Building query seed array... [3.53669s] Computing hash join... [4.79192s] Building seed filter... [0.124851s] Searching alignments... [40.6243s] Deallocating buffers... [0.105717s] Opening temporary output file... [0.000965s] Computing alignments... [71.5559s] Deallocating reference... [0.065683s] Loading reference sequences... [46.2177s] Masking reference... [57.6303s] Initializing temporary storage... [0.004701s] Building reference histograms... [12.9727s] Allocating buffers... [0.000885s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.7052s] Building query seed array... [3.9378s] Computing hash join... [4.99748s] Building seed filter... [0.134586s] Searching alignments... [56.3737s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.3855s] Building query seed array... [4.2953s] Computing hash join... [4.99944s] Building seed filter... [0.128774s] Searching alignments... [52.9554s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.1251s] Building query seed array... [4.26038s] Computing hash join... [4.92873s] Building seed filter... [0.122028s] Searching alignments... [50.4103s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.18947s] Building query seed array... [3.81152s] Computing hash join... [4.96289s] Building seed filter... [0.130386s] Searching alignments... [52.469s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.74804s] Building query seed array... [3.57342s] Computing hash join... [4.77413s] Building seed filter... [0.128447s] Searching alignments... [39.7516s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.1212s] Building query seed array... [4.01778s] Computing hash join... [4.75551s] Building seed filter... [0.13372s] Searching alignments... [40.4629s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [11.9514s] Building query seed array... [4.06909s] Computing hash join... [4.7966s] Building seed filter... [0.123853s] Searching alignments... [39.1266s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.2649s] Building query seed array... [3.59076s] Computing hash join... [4.80129s] Building seed filter... [0.143349s] Searching alignments... [39.6692s] Deallocating buffers... [0.106315s] Opening temporary output file... [0.000652s] Computing alignments... [75.9095s] Deallocating reference... [0.061737s] Loading reference sequences... [19.7497s] Masking reference... [21.4051s] Initializing temporary storage... [0.003968s] Building reference histograms... [5.09953s] Allocating buffers... [0.000314s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.6064s] Building query seed array... [3.85239s] Computing hash join... [3.01195s] Building seed filter... [0.086223s] Searching alignments... [23.5296s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.78203s] Building query seed array... [4.27088s] Computing hash join... [2.41846s] Building seed filter... [0.089101s] Searching alignments... [21.5605s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.59109s] Building query seed array... [4.21029s] Computing hash join... [2.40407s] Building seed filter... [0.089432s] Searching alignments... [20.875s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.57745s] Building query seed array... [3.66505s] Computing hash join... [2.41773s] Building seed filter... [0.084627s] Searching alignments... [21.6112s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.4478s] Building query seed array... [3.56569s] Computing hash join... [2.24362s] Building seed filter... [0.080726s] Searching alignments... [16.0805s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.6291s] Building query seed array... [4.0235s] Computing hash join... [2.23416s] Building seed filter... [0.076193s] Searching alignments... [16.1957s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.69993s] Building query seed array... [4.02737s] Computing hash join... [2.24291s] Building seed filter... [0.080478s] Searching alignments... [15.9758s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.53779s] Building query seed array... [3.49202s] Computing hash join... [2.26963s] Building seed filter... [0.078279s] Searching alignments... [16.3437s] Deallocating buffers... [0.042518s] Opening temporary output file... [0.007197s] Computing alignments... [71.9221s] Deallocating reference... [0.027988s] Loading reference sequences... [4.8e-05s] Deallocating buffers... [0.01683s] Joining output blocks... [3.52376s] Deallocating queries... [0.068445s] Loading query sequences... [4.4e-05s] Closing the input file... [4.9e-05s] Closing the output file... [0.078481s] Closing the database file... [3.3e-05s] Deallocating taxonomy... [1.2e-05s] Total time = 4203.13s Reported 2731103 pairwise alignments, 2731917 HSPs. 270100 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 77F_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (3.5s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (8.2s) Total reads: 270,100 With hits: 270,100 Alignments: 2,731,917 Assig. Taxonomy: 270,099 Assig. EGGNOG: 2,377 Assig. INTERPRO2GO: 2,248 MinSupport set to: 135 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 1,307 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 132 Class. EGGNOG: 1,001 Class. INTERPRO2GO: 768 Total time: 20s Peak memory: 11.4 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/77F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... abce45c1394e482319bd55ddc3abf088 /gscratch/srlab/sam/data/C_virginica/BSseq/77F_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000198s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.007372s] Opening the output file... [0.00031s] Loading query sequences... [183.907s] Masking queries... [137.198s] Building query seed set... [0.568659s] Algorithm: Double-indexed Building query histograms... [5.87698s] Allocating buffers... [0.001161s] Loading reference sequences... [44.9756s] Masking reference... [58.7992s] Initializing temporary storage... [0.005946s] Building reference histograms... [13.0135s] Allocating buffers... [0.000359s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.45409s] Building query seed array... [3.79942s] Computing hash join... [5.1503s] Building seed filter... [0.135013s] Searching alignments... [50.3348s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.1493s] Building query seed array... [4.14585s] Computing hash join... [5.05143s] Building seed filter... [0.133734s] Searching alignments... [50.4183s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.3978s] Building query seed array... [4.13897s] Computing hash join... [4.93326s] Building seed filter... [0.153473s] Searching alignments... [49.3642s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.3668s] Building query seed array... [3.56294s] Computing hash join... [5.0325s] Building seed filter... [0.140199s] Searching alignments... [48.5768s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.3949s] Building query seed array... [3.33752s] Computing hash join... [4.79758s] Building seed filter... [0.133463s] Searching alignments... [38.664s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.1432s] Building query seed array... [3.81965s] Computing hash join... [4.76901s] Building seed filter... [0.128114s] Searching alignments... [39.1695s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.6725s] Building query seed array... [3.84126s] Computing hash join... [4.88231s] Building seed filter... [0.132619s] Searching alignments... [39.6238s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.13421s] Building query seed array... [3.36095s] Computing hash join... [4.76958s] Building seed filter... [0.136361s] Searching alignments... [39.0202s] Deallocating buffers... [0.107001s] Opening temporary output file... [0.000619s] Computing alignments... [71.8457s] Deallocating reference... [0.078383s] Loading reference sequences... [354.091s] Masking reference... [57.9578s] Initializing temporary storage... [0.005329s] Building reference histograms... [14.0597s] Allocating buffers... [0.00067s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.463s] Building query seed array... [4.50215s] Computing hash join... [5.14342s] Building seed filter... [0.135977s] Searching alignments... [46.8722s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.1708s] Building query seed array... [4.05221s] Computing hash join... [4.96285s] Building seed filter... [0.138156s] Searching alignments... [46.7318s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.3083s] Building query seed array... [4.18582s] Computing hash join... [4.97014s] Building seed filter... [0.149342s] Searching alignments... [45.3374s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.78347s] Building query seed array... [3.56395s] Computing hash join... [4.88973s] Building seed filter... [0.136534s] Searching alignments... [45.3458s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.44755s] Building query seed array... [3.47473s] Computing hash join... [4.83025s] Building seed filter... [0.12793s] Searching alignments... [35.5099s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.4797s] Building query seed array... [3.77463s] Computing hash join... [4.77839s] Building seed filter... [0.132448s] Searching alignments... [35.5486s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.6414s] Building query seed array... [3.8714s] Computing hash join... [4.89809s] Building seed filter... [0.124038s] Searching alignments... [35.737s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.65369s] Building query seed array... [3.29556s] Computing hash join... [4.84086s] Building seed filter... [0.130477s] Searching alignments... [35.6844s] Deallocating buffers... [0.105056s] Opening temporary output file... [0.001057s] Computing alignments... [70.8187s] Deallocating reference... [0.074231s] Loading reference sequences... [374.207s] Masking reference... [57.8215s] Initializing temporary storage... [0.004744s] Building reference histograms... [13.4111s] Allocating buffers... [0.000855s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.53562s] Building query seed array... [3.64264s] Computing hash join... [5.12773s] Building seed filter... [0.143752s] Searching alignments... [49.3382s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [12.327s] Building query seed array... [4.12493s] Computing hash join... [5.53501s] Building seed filter... [0.136364s] Searching alignments... [46.6127s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.9851s] Building query seed array... [4.221s] Computing hash join... [5.0446s] Building seed filter... [0.140122s] Searching alignments... [46.3516s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.40312s] Building query seed array... [3.61436s] Computing hash join... [5.16241s] Building seed filter... [0.149978s] Searching alignments... [47.0412s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.60267s] Building query seed array... [3.29773s] Computing hash join... [4.85294s] Building seed filter... [0.12323s] Searching alignments... [36.2762s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.1308s] Building query seed array... [3.88506s] Computing hash join... [4.80553s] Building seed filter... [0.127887s] Searching alignments... [36.5086s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.4828s] Building query seed array... [3.91572s] Computing hash join... [4.81802s] Building seed filter... [0.126166s] Searching alignments... [36.669s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.3425s] Building query seed array... [3.31507s] Computing hash join... [4.84197s] Building seed filter... [0.132093s] Searching alignments... [36.3058s] Deallocating buffers... [0.119039s] Opening temporary output file... [0.000722s] Computing alignments... [71.9164s] Deallocating reference... [0.071394s] Loading reference sequences... [329.953s] Masking reference... [57.8695s] Initializing temporary storage... [0.004126s] Building reference histograms... [13.0639s] Allocating buffers... [0.00084s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.63632s] Building query seed array... [3.67775s] Computing hash join... [5.04329s] Building seed filter... [0.13615s] Searching alignments... [50.3873s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.2531s] Building query seed array... [4.2472s] Computing hash join... [4.94733s] Building seed filter... [0.137833s] Searching alignments... [49.8083s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.314s] Building query seed array... [4.22381s] Computing hash join... [4.96075s] Building seed filter... [0.140066s] Searching alignments... [49.0834s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.9434s] Building query seed array... [3.80103s] Computing hash join... [5.0225s] Building seed filter... [0.145251s] Searching alignments... [49.6694s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.50419s] Building query seed array... [3.1467s] Computing hash join... [4.79067s] Building seed filter... [0.142603s] Searching alignments... [38.4138s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [11.8941s] Building query seed array... [3.88686s] Computing hash join... [4.83978s] Building seed filter... [0.151236s] Searching alignments... [38.9563s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.8344s] Building query seed array... [3.96378s] Computing hash join... [4.8589s] Building seed filter... [0.137065s] Searching alignments... [39.616s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.49081s] Building query seed array... [3.359s] Computing hash join... [4.7418s] Building seed filter... [0.143669s] Searching alignments... [38.6427s] Deallocating buffers... [0.11199s] Opening temporary output file... [0.000682s] Computing alignments... [71.7738s] Deallocating reference... [0.064251s] Loading reference sequences... [311.313s] Masking reference... [59.7921s] Initializing temporary storage... [0.005266s] Building reference histograms... [13.9467s] Allocating buffers... [0.000841s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.39933s] Building query seed array... [3.67968s] Computing hash join... [5.02259s] Building seed filter... [0.155694s] Searching alignments... [52.1043s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [12.1211s] Building query seed array... [4.08567s] Computing hash join... [5.27258s] Building seed filter... [0.155704s] Searching alignments... [50.8048s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.214s] Building query seed array... [4.26557s] Computing hash join... [4.96753s] Building seed filter... [0.145194s] Searching alignments... [48.9686s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.51209s] Building query seed array... [3.5902s] Computing hash join... [5.02195s] Building seed filter... [0.131586s] Searching alignments... [48.8707s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.66099s] Building query seed array... [3.35167s] Computing hash join... [4.94107s] Building seed filter... [0.132989s] Searching alignments... [38.7252s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [11.871s] Building query seed array... [3.79948s] Computing hash join... [4.8661s] Building seed filter... [0.13272s] Searching alignments... [38.564s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.4046s] Building query seed array... [4.04456s] Computing hash join... [4.84512s] Building seed filter... [0.128286s] Searching alignments... [38.3858s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.25186s] Building query seed array... [3.35118s] Computing hash join... [4.83768s] Building seed filter... [0.143164s] Searching alignments... [38.0921s] Deallocating buffers... [0.109618s] Opening temporary output file... [0.001088s] Computing alignments... [73.4762s] Deallocating reference... [0.063394s] Loading reference sequences... [137.788s] Masking reference... [21.382s] Initializing temporary storage... [0.004002s] Building reference histograms... [4.95538s] Allocating buffers... [0.000474s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.68393s] Building query seed array... [3.65811s] Computing hash join... [2.41747s] Building seed filter... [0.096594s] Searching alignments... [21.6011s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.53722s] Building query seed array... [4.07241s] Computing hash join... [2.43295s] Building seed filter... [0.091307s] Searching alignments... [20.5495s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.53164s] Building query seed array... [4.08475s] Computing hash join... [2.41651s] Building seed filter... [0.087771s] Searching alignments... [20.2219s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.67465s] Building query seed array... [3.49371s] Computing hash join... [2.38637s] Building seed filter... [0.086463s] Searching alignments... [20.1663s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.58479s] Building query seed array... [3.3797s] Computing hash join... [2.26924s] Building seed filter... [0.086957s] Searching alignments... [15.8789s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.53841s] Building query seed array... [3.76256s] Computing hash join... [2.3067s] Building seed filter... [0.080401s] Searching alignments... [15.8742s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.79933s] Building query seed array... [3.93697s] Computing hash join... [2.29408s] Building seed filter... [0.084792s] Searching alignments... [15.6553s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.57617s] Building query seed array... [3.32253s] Computing hash join... [2.26859s] Building seed filter... [0.094143s] Searching alignments... [15.631s] Deallocating buffers... [0.042194s] Opening temporary output file... [0.001538s] Computing alignments... [70.9691s] Deallocating reference... [0.028231s] Loading reference sequences... [4.6e-05s] Deallocating buffers... [0.016262s] Joining output blocks... [2.2708s] Deallocating queries... [0.072657s] Loading query sequences... [2.8e-05s] Closing the input file... [4.1e-05s] Closing the output file... [0.074893s] Closing the database file... [3.3e-05s] Deallocating taxonomy... [1.2e-05s] Total time = 5446.21s Reported 2122911 pairwise alignments, 2123347 HSPs. 208447 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 77F_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.9s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (6.5s) Total reads: 208,447 With hits: 208,447 Alignments: 2,123,347 Assig. Taxonomy: 208,445 Assig. EGGNOG: 1,881 Assig. INTERPRO2GO: 1,523 MinSupport set to: 104 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 1,239 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.6s) Binning reads Syncing 100% (0.1s) Class. Taxonomy: 134 Class. EGGNOG: 875 Class. INTERPRO2GO: 701 Total time: 18s Peak memory: 4.1 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/7M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz... 6a2cc4c8011da5cc6cbb5b065246215f /gscratch/srlab/sam/data/C_virginica/BSseq/7M_R1_val_1.fq.gz_unmapped_reads_1.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.000175s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.008776s] Opening the output file... [0.000262s] Loading query sequences... [146.458s] Masking queries... [75.752s] Building query seed set... [0.524529s] Algorithm: Double-indexed Building query histograms... [4.4754s] Allocating buffers... [0.000812s] Loading reference sequences... [44.9463s] Masking reference... [58.8453s] Initializing temporary storage... [0.083218s] Building reference histograms... [12.939s] Allocating buffers... [0.000346s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.58295s] Building query seed array... [3.17289s] Computing hash join... [4.81548s] Building seed filter... [0.132727s] Searching alignments... [46.9777s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.0636s] Building query seed array... [3.33771s] Computing hash join... [4.76943s] Building seed filter... [0.120476s] Searching alignments... [45.877s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.6769s] Building query seed array... [3.46512s] Computing hash join... [4.76945s] Building seed filter... [0.114686s] Searching alignments... [44.1485s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.55806s] Building query seed array... [3.06525s] Computing hash join... [4.76145s] Building seed filter... [0.122493s] Searching alignments... [44.9859s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.24842s] Building query seed array... [2.98517s] Computing hash join... [4.66666s] Building seed filter... [0.124037s] Searching alignments... [34.6636s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.5238s] Building query seed array... [3.39536s] Computing hash join... [4.60292s] Building seed filter... [0.11997s] Searching alignments... [36.3568s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.2193s] Building query seed array... [3.42453s] Computing hash join... [4.52469s] Building seed filter... [0.121782s] Searching alignments... [36.0796s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.651s] Building query seed array... [2.96084s] Computing hash join... [4.62759s] Building seed filter... [0.115917s] Searching alignments... [35.1703s] Deallocating buffers... [0.118344s] Opening temporary output file... [0.00118s] Computing alignments... [57.0319s] Deallocating reference... [0.075223s] Loading reference sequences... [49.1709s] Masking reference... [58.344s] Initializing temporary storage... [0.004748s] Building reference histograms... [12.6903s] Allocating buffers... [0.000682s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.7413s] Building query seed array... [3.14691s] Computing hash join... [4.78396s] Building seed filter... [0.124946s] Searching alignments... [42.8212s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.5015s] Building query seed array... [3.48376s] Computing hash join... [4.7424s] Building seed filter... [0.119192s] Searching alignments... [42.5525s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.4235s] Building query seed array... [3.60485s] Computing hash join... [4.77597s] Building seed filter... [0.117216s] Searching alignments... [41.5943s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.29734s] Building query seed array... [2.99778s] Computing hash join... [4.707s] Building seed filter... [0.115273s] Searching alignments... [41.8393s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.36247s] Building query seed array... [3.08777s] Computing hash join... [4.58907s] Building seed filter... [0.120063s] Searching alignments... [31.779s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.368s] Building query seed array... [3.3585s] Computing hash join... [4.61932s] Building seed filter... [0.109716s] Searching alignments... [33.4368s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.4686s] Building query seed array... [3.38012s] Computing hash join... [4.65554s] Building seed filter... [0.124352s] Searching alignments... [32.5933s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.10186s] Building query seed array... [2.91626s] Computing hash join... [4.54557s] Building seed filter... [0.114031s] Searching alignments... [31.9082s] Deallocating buffers... [0.104258s] Opening temporary output file... [0.001039s] Computing alignments... [58.0439s] Deallocating reference... [0.072247s] Loading reference sequences... [350.744s] Masking reference... [58.0521s] Initializing temporary storage... [0.004719s] Building reference histograms... [12.9481s] Allocating buffers... [0.000424s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.46345s] Building query seed array... [3.11755s] Computing hash join... [4.71157s] Building seed filter... [0.1174s] Searching alignments... [43.0752s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.9152s] Building query seed array... [3.48969s] Computing hash join... [4.7516s] Building seed filter... [0.114977s] Searching alignments... [42.4535s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [13.07s] Building query seed array... [3.64112s] Computing hash join... [4.67684s] Building seed filter... [0.116189s] Searching alignments... [41.5239s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.4836s] Building query seed array... [3.08521s] Computing hash join... [4.65086s] Building seed filter... [0.123596s] Searching alignments... [42.0129s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.40379s] Building query seed array... [3.03548s] Computing hash join... [4.60956s] Building seed filter... [0.116104s] Searching alignments... [32.8562s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.4272s] Building query seed array... [3.39956s] Computing hash join... [4.57004s] Building seed filter... [0.108755s] Searching alignments... [34.5247s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.5211s] Building query seed array... [3.29657s] Computing hash join... [4.54977s] Building seed filter... [0.116045s] Searching alignments... [32.9105s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.70399s] Building query seed array... [2.95036s] Computing hash join... [4.55015s] Building seed filter... [0.112724s] Searching alignments... [33.2808s] Deallocating buffers... [0.113408s] Opening temporary output file... [0.00056s] Computing alignments... [59.5651s] Deallocating reference... [0.067648s] Loading reference sequences... [325.198s] Masking reference... [59.465s] Initializing temporary storage... [0.005259s] Building reference histograms... [12.8311s] Allocating buffers... [0.000313s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.79174s] Building query seed array... [3.11524s] Computing hash join... [4.81597s] Building seed filter... [0.132875s] Searching alignments... [45.975s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.2962s] Building query seed array... [3.47631s] Computing hash join... [4.70414s] Building seed filter... [0.132015s] Searching alignments... [45.2914s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.317s] Building query seed array... [3.675s] Computing hash join... [4.73936s] Building seed filter... [0.127005s] Searching alignments... [43.9416s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.63052s] Building query seed array... [2.99749s] Computing hash join... [4.72769s] Building seed filter... [0.120681s] Searching alignments... [45.2002s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.48273s] Building query seed array... [3.0548s] Computing hash join... [4.66366s] Building seed filter... [0.111247s] Searching alignments... [34.8746s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.4883s] Building query seed array... [3.33008s] Computing hash join... [4.56053s] Building seed filter... [0.109614s] Searching alignments... [36.0268s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [12.3447s] Building query seed array... [3.38415s] Computing hash join... [4.61099s] Building seed filter... [0.118556s] Searching alignments... [35.789s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.16849s] Building query seed array... [2.93383s] Computing hash join... [4.49909s] Building seed filter... [0.114784s] Searching alignments... [35.0216s] Deallocating buffers... [0.11053s] Opening temporary output file... [0.001s] Computing alignments... [58.4205s] Deallocating reference... [0.06417s] Loading reference sequences... [313.092s] Masking reference... [57.6367s] Initializing temporary storage... [0.004011s] Building reference histograms... [13.1094s] Allocating buffers... [0.000316s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [9.70736s] Building query seed array... [3.11546s] Computing hash join... [4.80152s] Building seed filter... [0.113027s] Searching alignments... [46.9182s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [11.8247s] Building query seed array... [3.44124s] Computing hash join... [4.73567s] Building seed filter... [0.114115s] Searching alignments... [45.4829s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.5369s] Building query seed array... [3.54807s] Computing hash join... [4.78478s] Building seed filter... [0.129016s] Searching alignments... [44.1039s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.44054s] Building query seed array... [3.09129s] Computing hash join... [4.63774s] Building seed filter... [0.121515s] Searching alignments... [45.0463s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.37196s] Building query seed array... [2.949s] Computing hash join... [4.60162s] Building seed filter... [0.114868s] Searching alignments... [34.6723s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.4218s] Building query seed array... [3.32929s] Computing hash join... [4.60947s] Building seed filter... [0.111532s] Searching alignments... [36.0868s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.501s] Building query seed array... [3.49252s] Computing hash join... [4.65773s] Building seed filter... [0.110654s] Searching alignments... [35.0693s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.37993s] Building query seed array... [2.9341s] Computing hash join... [4.60675s] Building seed filter... [0.141472s] Searching alignments... [34.7855s] Deallocating buffers... [0.117075s] Opening temporary output file... [0.001019s] Computing alignments... [58.6324s] Deallocating reference... [0.061712s] Loading reference sequences... [135.35s] Masking reference... [21.6304s] Initializing temporary storage... [0.003816s] Building reference histograms... [5.03331s] Allocating buffers... [0.000315s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.62654s] Building query seed array... [3.09027s] Computing hash join... [2.20319s] Building seed filter... [0.087493s] Searching alignments... [19.2115s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.65544s] Building query seed array... [3.33942s] Computing hash join... [2.20843s] Building seed filter... [0.075995s] Searching alignments... [18.55s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.86771s] Building query seed array... [3.39911s] Computing hash join... [2.19646s] Building seed filter... [0.074434s] Searching alignments... [18.4121s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.69534s] Building query seed array... [2.96531s] Computing hash join... [2.17275s] Building seed filter... [0.075247s] Searching alignments... [18.6899s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.77658s] Building query seed array... [3.01343s] Computing hash join... [2.11652s] Building seed filter... [0.072216s] Searching alignments... [14.4124s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.70794s] Building query seed array... [3.30007s] Computing hash join... [2.1148s] Building seed filter... [0.070035s] Searching alignments... [14.7084s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.79848s] Building query seed array... [3.38131s] Computing hash join... [2.0864s] Building seed filter... [0.072158s] Searching alignments... [14.6491s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.70385s] Building query seed array... [2.92887s] Computing hash join... [2.08645s] Building seed filter... [0.071457s] Searching alignments... [13.948s] Deallocating buffers... [0.040681s] Opening temporary output file... [0.003022s] Computing alignments... [56.026s] Deallocating reference... [0.028069s] Loading reference sequences... [0.000359s] Deallocating buffers... [0.013424s] Joining output blocks... [2.97418s] Deallocating queries... [0.06062s] Loading query sequences... [3e-05s] Closing the input file... [4.2e-05s] Closing the output file... [0.040431s] Closing the database file... [3.9e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 4719.82s Reported 1975653 pairwise alignments, 1976330 HSPs. 296119 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 7M_R1_val_1.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.6s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.2s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (7.3s) Total reads: 296,119 With hits: 296,119 Alignments: 1,976,330 Assig. Taxonomy: 296,119 Assig. EGGNOG: 1,412 Assig. INTERPRO2GO: 1,324 MinSupport set to: 148 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.3s) Min-supp. changes: 848 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 93 Class. EGGNOG: 533 Class. INTERPRO2GO: 457 Total time: 18s Peak memory: 5 of 195.3G Generating MD5 checksum for /gscratch/srlab/sam/data/C_virginica/BSseq/7M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz... fd37caed0b90574b6d263771a2f70b7c /gscratch/srlab/sam/data/C_virginica/BSseq/7M_R2_val_2.fq.gz_unmapped_reads_2.fq.gz diamond v0.9.29.130 | by Benjamin Buchfink Licensed under the GNU GPL Check http://github.com/bbuchfink/diamond for updates. #CPU threads: 40 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Temporary directory: Opening the database... [0.029846s] Percentage range of top alignment score to report hits: 5 Opening the input file... [0.006647s] Opening the output file... [0.00033s] Loading query sequences... [148.045s] Masking queries... [74.6549s] Building query seed set... [0.56752s] Algorithm: Double-indexed Building query histograms... [4.50421s] Allocating buffers... [0.000826s] Loading reference sequences... [44.147s] Masking reference... [58.6714s] Initializing temporary storage... [0.020169s] Building reference histograms... [13.0808s] Allocating buffers... [0.000343s] Processing query block 0, reference block 0, shape 0, index chunk 0. Building reference seed array... [9.70421s] Building query seed array... [3.00178s] Computing hash join... [4.95682s] Building seed filter... [0.131548s] Searching alignments... [41.8878s] Processing query block 0, reference block 0, shape 0, index chunk 1. Building reference seed array... [12.3315s] Building query seed array... [3.3906s] Computing hash join... [4.82914s] Building seed filter... [0.138848s] Searching alignments... [41.4432s] Processing query block 0, reference block 0, shape 0, index chunk 2. Building reference seed array... [12.4883s] Building query seed array... [3.50845s] Computing hash join... [4.81877s] Building seed filter... [0.129757s] Searching alignments... [41.3792s] Processing query block 0, reference block 0, shape 0, index chunk 3. Building reference seed array... [9.26594s] Building query seed array... [2.99579s] Computing hash join... [4.78136s] Building seed filter... [0.139525s] Searching alignments... [40.5778s] Processing query block 0, reference block 0, shape 1, index chunk 0. Building reference seed array... [9.80612s] Building query seed array... [2.71588s] Computing hash join... [4.75866s] Building seed filter... [0.128108s] Searching alignments... [32.1941s] Processing query block 0, reference block 0, shape 1, index chunk 1. Building reference seed array... [12.5139s] Building query seed array... [3.12159s] Computing hash join... [4.77515s] Building seed filter... [0.126934s] Searching alignments... [32.5221s] Processing query block 0, reference block 0, shape 1, index chunk 2. Building reference seed array... [12.6289s] Building query seed array... [3.2062s] Computing hash join... [4.71748s] Building seed filter... [0.138261s] Searching alignments... [32.4699s] Processing query block 0, reference block 0, shape 1, index chunk 3. Building reference seed array... [9.45398s] Building query seed array... [2.76981s] Computing hash join... [4.61817s] Building seed filter... [0.130361s] Searching alignments... [32.0094s] Deallocating buffers... [0.117782s] Opening temporary output file... [0.002975s] Computing alignments... [59.1671s] Deallocating reference... [0.074414s] Loading reference sequences... [343.672s] Masking reference... [57.5857s] Initializing temporary storage... [0.004162s] Building reference histograms... [13.1409s] Allocating buffers... [0.000339s] Processing query block 0, reference block 1, shape 0, index chunk 0. Building reference seed array... [9.92152s] Building query seed array... [3.05105s] Computing hash join... [4.90246s] Building seed filter... [0.140153s] Searching alignments... [38.8538s] Processing query block 0, reference block 1, shape 0, index chunk 1. Building reference seed array... [12.4555s] Building query seed array... [3.25526s] Computing hash join... [4.84181s] Building seed filter... [0.132007s] Searching alignments... [37.9547s] Processing query block 0, reference block 1, shape 0, index chunk 2. Building reference seed array... [12.8259s] Building query seed array... [3.45476s] Computing hash join... [4.78012s] Building seed filter... [0.137053s] Searching alignments... [37.8065s] Processing query block 0, reference block 1, shape 0, index chunk 3. Building reference seed array... [9.48676s] Building query seed array... [2.9263s] Computing hash join... [4.88105s] Building seed filter... [0.123848s] Searching alignments... [37.9837s] Processing query block 0, reference block 1, shape 1, index chunk 0. Building reference seed array... [9.52667s] Building query seed array... [2.73653s] Computing hash join... [4.62907s] Building seed filter... [0.123718s] Searching alignments... [29.8001s] Processing query block 0, reference block 1, shape 1, index chunk 1. Building reference seed array... [12.3553s] Building query seed array... [3.17817s] Computing hash join... [4.60052s] Building seed filter... [0.13111s] Searching alignments... [29.7748s] Processing query block 0, reference block 1, shape 1, index chunk 2. Building reference seed array... [12.0367s] Building query seed array... [3.08135s] Computing hash join... [4.70967s] Building seed filter... [0.139194s] Searching alignments... [29.7108s] Processing query block 0, reference block 1, shape 1, index chunk 3. Building reference seed array... [9.37962s] Building query seed array... [2.79302s] Computing hash join... [4.62102s] Building seed filter... [0.138782s] Searching alignments... [29.4821s] Deallocating buffers... [0.105947s] Opening temporary output file... [0.002873s] Computing alignments... [56.8156s] Deallocating reference... [0.069389s] Loading reference sequences... [343.43s] Masking reference... [57.6481s] Initializing temporary storage... [0.012395s] Building reference histograms... [13.0448s] Allocating buffers... [0.000284s] Processing query block 0, reference block 2, shape 0, index chunk 0. Building reference seed array... [9.56219s] Building query seed array... [3.06563s] Computing hash join... [4.76265s] Building seed filter... [0.130732s] Searching alignments... [38.9488s] Processing query block 0, reference block 2, shape 0, index chunk 1. Building reference seed array... [11.8957s] Building query seed array... [3.4369s] Computing hash join... [4.81484s] Building seed filter... [0.132307s] Searching alignments... [39.1014s] Processing query block 0, reference block 2, shape 0, index chunk 2. Building reference seed array... [12.5045s] Building query seed array... [3.48477s] Computing hash join... [4.83112s] Building seed filter... [0.141903s] Searching alignments... [39.3103s] Processing query block 0, reference block 2, shape 0, index chunk 3. Building reference seed array... [9.35587s] Building query seed array... [3.05093s] Computing hash join... [4.90328s] Building seed filter... [0.129461s] Searching alignments... [38.3054s] Processing query block 0, reference block 2, shape 1, index chunk 0. Building reference seed array... [9.41586s] Building query seed array... [2.87857s] Computing hash join... [4.63822s] Building seed filter... [0.121308s] Searching alignments... [30.6948s] Processing query block 0, reference block 2, shape 1, index chunk 1. Building reference seed array... [12.357s] Building query seed array... [3.05782s] Computing hash join... [4.60791s] Building seed filter... [0.128024s] Searching alignments... [30.4057s] Processing query block 0, reference block 2, shape 1, index chunk 2. Building reference seed array... [12.0924s] Building query seed array... [3.16067s] Computing hash join... [4.66756s] Building seed filter... [0.130869s] Searching alignments... [30.419s] Processing query block 0, reference block 2, shape 1, index chunk 3. Building reference seed array... [9.17866s] Building query seed array... [2.77216s] Computing hash join... [4.6903s] Building seed filter... [0.124376s] Searching alignments... [29.9636s] Deallocating buffers... [0.105465s] Opening temporary output file... [0.001985s] Computing alignments... [57.3336s] Deallocating reference... [0.068671s] Loading reference sequences... [318.828s] Masking reference... [57.8385s] Initializing temporary storage... [0.00401s] Building reference histograms... [13.3427s] Allocating buffers... [0.000317s] Processing query block 0, reference block 3, shape 0, index chunk 0. Building reference seed array... [9.54061s] Building query seed array... [2.99658s] Computing hash join... [4.78056s] Building seed filter... [0.127368s] Searching alignments... [41.828s] Processing query block 0, reference block 3, shape 0, index chunk 1. Building reference seed array... [12.2511s] Building query seed array... [3.4081s] Computing hash join... [4.8917s] Building seed filter... [0.127074s] Searching alignments... [41.5727s] Processing query block 0, reference block 3, shape 0, index chunk 2. Building reference seed array... [12.4497s] Building query seed array... [3.44626s] Computing hash join... [4.77548s] Building seed filter... [0.129341s] Searching alignments... [41.0755s] Processing query block 0, reference block 3, shape 0, index chunk 3. Building reference seed array... [9.56545s] Building query seed array... [2.94647s] Computing hash join... [4.84898s] Building seed filter... [0.125958s] Searching alignments... [40.7194s] Processing query block 0, reference block 3, shape 1, index chunk 0. Building reference seed array... [9.82597s] Building query seed array... [2.85492s] Computing hash join... [4.74881s] Building seed filter... [0.118378s] Searching alignments... [32.5861s] Processing query block 0, reference block 3, shape 1, index chunk 1. Building reference seed array... [12.0504s] Building query seed array... [3.27201s] Computing hash join... [4.76694s] Building seed filter... [0.132355s] Searching alignments... [32.2909s] Processing query block 0, reference block 3, shape 1, index chunk 2. Building reference seed array... [11.9775s] Building query seed array... [3.22707s] Computing hash join... [4.66451s] Building seed filter... [0.122913s] Searching alignments... [32.2081s] Processing query block 0, reference block 3, shape 1, index chunk 3. Building reference seed array... [9.23829s] Building query seed array... [2.80772s] Computing hash join... [4.66464s] Building seed filter... [0.135273s] Searching alignments... [32.1183s] Deallocating buffers... [0.119574s] Opening temporary output file... [0.002205s] Computing alignments... [57.7929s] Deallocating reference... [0.063209s] Loading reference sequences... [309.1s] Masking reference... [57.556s] Initializing temporary storage... [0.00394s] Building reference histograms... [13.2468s] Allocating buffers... [0.000315s] Processing query block 0, reference block 4, shape 0, index chunk 0. Building reference seed array... [10.0074s] Building query seed array... [3.0047s] Computing hash join... [4.84624s] Building seed filter... [0.130487s] Searching alignments... [41.591s] Processing query block 0, reference block 4, shape 0, index chunk 1. Building reference seed array... [11.8654s] Building query seed array... [3.39689s] Computing hash join... [4.81519s] Building seed filter... [0.129502s] Searching alignments... [41.5933s] Processing query block 0, reference block 4, shape 0, index chunk 2. Building reference seed array... [12.7155s] Building query seed array... [3.43849s] Computing hash join... [4.76255s] Building seed filter... [0.12683s] Searching alignments... [40.8623s] Processing query block 0, reference block 4, shape 0, index chunk 3. Building reference seed array... [9.31551s] Building query seed array... [2.96815s] Computing hash join... [4.7931s] Building seed filter... [0.131497s] Searching alignments... [40.3394s] Processing query block 0, reference block 4, shape 1, index chunk 0. Building reference seed array... [9.42552s] Building query seed array... [2.82398s] Computing hash join... [4.64681s] Building seed filter... [0.126206s] Searching alignments... [32.1325s] Processing query block 0, reference block 4, shape 1, index chunk 1. Building reference seed array... [12.0418s] Building query seed array... [3.14987s] Computing hash join... [4.59252s] Building seed filter... [0.119503s] Searching alignments... [32.1347s] Processing query block 0, reference block 4, shape 1, index chunk 2. Building reference seed array... [12.7392s] Building query seed array... [3.13146s] Computing hash join... [4.65958s] Building seed filter... [0.133999s] Searching alignments... [32.1158s] Processing query block 0, reference block 4, shape 1, index chunk 3. Building reference seed array... [9.70194s] Building query seed array... [2.71268s] Computing hash join... [4.67742s] Building seed filter... [0.128248s] Searching alignments... [31.731s] Deallocating buffers... [0.120712s] Opening temporary output file... [0.002194s] Computing alignments... [59.2259s] Deallocating reference... [0.062518s] Loading reference sequences... [138.083s] Masking reference... [21.6049s] Initializing temporary storage... [0.003925s] Building reference histograms... [5.05512s] Allocating buffers... [0.000319s] Processing query block 0, reference block 5, shape 0, index chunk 0. Building reference seed array... [3.6263s] Building query seed array... [3.05182s] Computing hash join... [2.26975s] Building seed filter... [0.084337s] Searching alignments... [16.9598s] Processing query block 0, reference block 5, shape 0, index chunk 1. Building reference seed array... [4.69344s] Building query seed array... [3.20991s] Computing hash join... [2.20066s] Building seed filter... [0.080937s] Searching alignments... [16.9806s] Processing query block 0, reference block 5, shape 0, index chunk 2. Building reference seed array... [4.72673s] Building query seed array... [3.46179s] Computing hash join... [2.20828s] Building seed filter... [0.086675s] Searching alignments... [16.9119s] Processing query block 0, reference block 5, shape 0, index chunk 3. Building reference seed array... [3.70549s] Building query seed array... [2.92516s] Computing hash join... [2.2195s] Building seed filter... [0.083376s] Searching alignments... [16.8497s] Processing query block 0, reference block 5, shape 1, index chunk 0. Building reference seed array... [3.65584s] Building query seed array... [2.73398s] Computing hash join... [2.10565s] Building seed filter... [0.074445s] Searching alignments... [13.0182s] Processing query block 0, reference block 5, shape 1, index chunk 1. Building reference seed array... [4.5446s] Building query seed array... [3.30093s] Computing hash join... [2.11413s] Building seed filter... [0.07682s] Searching alignments... [12.955s] Processing query block 0, reference block 5, shape 1, index chunk 2. Building reference seed array... [4.72369s] Building query seed array... [3.12603s] Computing hash join... [2.12689s] Building seed filter... [0.076272s] Searching alignments... [12.9683s] Processing query block 0, reference block 5, shape 1, index chunk 3. Building reference seed array... [3.61698s] Building query seed array... [2.72094s] Computing hash join... [2.15608s] Building seed filter... [0.075876s] Searching alignments... [12.8038s] Deallocating buffers... [0.043069s] Opening temporary output file... [0.001441s] Computing alignments... [56.9439s] Deallocating reference... [0.027783s] Loading reference sequences... [4.8e-05s] Deallocating buffers... [0.013383s] Joining output blocks... [2.66017s] Deallocating queries... [0.05689s] Loading query sequences... [2.9e-05s] Closing the input file... [4.1e-05s] Closing the output file... [0.042007s] Closing the database file... [2.7e-05s] Deallocating taxonomy... [1.1e-05s] Total time = 4840.06s Reported 1441767 pairwise alignments, 1442159 HSPs. 229034 queries aligned. Version MEGAN Community Edition (version 6.22.0, built 19 Feb 2022) Author(s) Daniel H. Huson Copyright (C) 2022 Daniel H. Huson. This program comes with ABSOLUTELY NO WARRANTY. Java version: 17.0.2 Functional classifications to use: EGGNOG, INTERPRO2GO Loading ncbi.map: 2,396,736 Loading ncbi.tre: 2,396,740 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/prot_acc2tax-Jul2019X1.abin Loading eggnog.map: 30,875 Loading eggnog.tre: 30,986 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2eggnog-Jul2019X.abin Loading interpro2go.map: 14,242 Loading interpro2go.tre: 28,907 Opening file: /gscratch/srlab/sam/data/databases/MEGAN/acc2interpro-Jul2019X.abin Meganizing: 7M_R2_val_2.blastx.meganized.daa Meganizing init Annotating DAA file using EXTENDED mode Annotating references 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (2.1s) Writing 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.1s) Binning reads Initializing... Initializing binning... Using 'Naive LCA' algorithm for binning: Taxonomy Using Best-Hit algorithm for binning: EGGNOG Using Best-Hit algorithm for binning: INTERPRO2GO Binning reads... Binning reads Analyzing alignments 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (5.2s) Total reads: 229,034 With hits: 229,034 Alignments: 1,442,159 Assig. Taxonomy: 229,034 Assig. EGGNOG: 1,018 Assig. INTERPRO2GO: 814 MinSupport set to: 114 Binning reads Applying min-support & disabled filter to Taxonomy... 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Min-supp. changes: 752 Binning reads Writing classification tables 10% 20% 30% 40% 50% 60% 70% 80% 90% 100% (0.4s) Binning reads Syncing 100% (0.0s) Class. Taxonomy: 95 Class. EGGNOG: 456 Class. INTERPRO2GO: 339 Total time: 15s Peak memory: 4.7 of 195.3G Generating MD5 checksums for 12M_R1_val_1.blastx.meganized.daa: 99048dc23a33038f614761bb3c106513 12M_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 12M_R2_val_2.blastx.meganized.daa: 2f32998fca5b997dd444aae0f2e8357c 12M_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 13M_R1_val_1.blastx.meganized.daa: 699b59be1458057e34d4158e3337c9e4 13M_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 13M_R2_val_2.blastx.meganized.daa: 9e6cc645c4a36d74a2699bc811c336bf 13M_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 16F_R1_val_1.blastx.meganized.daa: 503856aa2562c76c5737f82b948e00b9 16F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 16F_R2_val_2.blastx.meganized.daa: cdb623bc83e97c000752a77873aa02cd 16F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 19F_R1_val_1.blastx.meganized.daa: 9a378476c8a896fc1d3ee86164cd5dab 19F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 19F_R2_val_2.blastx.meganized.daa: 2de87118ba5bac0c49f77d2f95c183df 19F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 20220302-cvir-diamond-meganizer-unmapped_bsseq.sh: 1e6a4683f5be439a2e494160e389d716 20220302-cvir-diamond-meganizer-unmapped_bsseq.sh Generating MD5 checksums for 22F_R1_val_1.blastx.meganized.daa: c082527387d40fbc8ae27d09dce51e53 22F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 22F_R2_val_2.blastx.meganized.daa: d0d68480c7290d4c846c607b013647ce 22F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 23M_R1_val_1.blastx.meganized.daa: 1b9732a4f4c181544fc0a0069c1ff3e3 23M_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 23M_R2_val_2.blastx.meganized.daa: b95ac9cad54cc11398f834c9f285633e 23M_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 29F_R1_val_1.blastx.meganized.daa: 7f20b235adbc856bd74c84759641550a 29F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 29F_R2_val_2.blastx.meganized.daa: 943b978b95acfe3cb8c580e100dd3d32 29F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 31M_R1_val_1.blastx.meganized.daa: b0f8bc2bed3cd8bcf83cdfdc987fbe03 31M_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 31M_R2_val_2.blastx.meganized.daa: a5e96606294ad61bbc48d69ac42f6e8f 31M_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 35F_R1_val_1.blastx.meganized.daa: 2df63295329d586b3f5e5ae898bcc566 35F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 35F_R2_val_2.blastx.meganized.daa: 71b0af0e5405faf40644a46439f73459 35F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 36F_R1_val_1.blastx.meganized.daa: c34d8a7f85ea859aec898ff4f699d884 36F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 36F_R2_val_2.blastx.meganized.daa: a4fa154e408c5f2f8c34a092306af99d 36F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 39F_R1_val_1.blastx.meganized.daa: 2fb1bac4266b75298ffb57064f056e49 39F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 39F_R2_val_2.blastx.meganized.daa: 804b0d8f7d67f6b90923c418c8d92364 39F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 3F_R1_val_1.blastx.meganized.daa: 2aedf9d0b7200d8fa403940f72125fc5 3F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 3F_R2_val_2.blastx.meganized.daa: b927935df59e6c51fee1f5718e17c9cd 3F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 41F_R1_val_1.blastx.meganized.daa: 44ffe0d4e6c359ffef3d97a3cd7d04c3 41F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 41F_R2_val_2.blastx.meganized.daa: e9f2909c9e3b5c58792eefd9d3f6d6e4 41F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 44F_R1_val_1.blastx.meganized.daa: 818c9f6f2feb0680719ffe4cb9a222c2 44F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 44F_R2_val_2.blastx.meganized.daa: e049eecef2237c74b79e96bbd6bc3a44 44F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 48M_R1_val_1.blastx.meganized.daa: 14c90e1a513c53bf401551abd6130550 48M_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 48M_R2_val_2.blastx.meganized.daa: 2f1f3b4fab687d6f813ff61719139bb0 48M_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 50F_R1_val_1.blastx.meganized.daa: cbb0fbdabbe8fd9be44f9b668950b1b8 50F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 50F_R2_val_2.blastx.meganized.daa: ef19a15889346d9340a3d3b5c09224fb 50F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 52F_R1_val_1.blastx.meganized.daa: a6584890b5cecc8913ac21f7a6e7a444 52F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 52F_R2_val_2.blastx.meganized.daa: 2bf91dd85776be8c7fb9a23850c63ee3 52F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 53F_R1_val_1.blastx.meganized.daa: 1749f9ca43449b36b906b342f996a5a9 53F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 53F_R2_val_2.blastx.meganized.daa: b2bf708836fcc58bedf267f0c830cec4 53F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 54F_R1_val_1.blastx.meganized.daa: 8702c89f718001dcb7977cd982a925ba 54F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 54F_R2_val_2.blastx.meganized.daa: 5c6d185ff1577eba487c36d1c1e1881f 54F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 59M_R1_val_1.blastx.meganized.daa: 8a6f38c01c2892a724a0845da7c9b777 59M_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 59M_R2_val_2.blastx.meganized.daa: 64a71573ba573209a48cc692530e0d26 59M_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 64M_R1_val_1.blastx.meganized.daa: 7a6582ff28b7f377bcec432133b00c3a 64M_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 64M_R2_val_2.blastx.meganized.daa: 5e66d77e34dd024429cb6c7255043b0a 64M_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 6M_R1_val_1.blastx.meganized.daa: 63b5e758b0ac05b5ba6c06f758dc9f86 6M_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 6M_R2_val_2.blastx.meganized.daa: 63393ae99f0e12bff00890a17d6efa2e 6M_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 76F_R1_val_1.blastx.meganized.daa: dfa4b12d6cf711b785bde12ca565b56f 76F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 76F_R2_val_2.blastx.meganized.daa: e77ecaff61d3b0afedc6b7beb680a2f2 76F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 77F_R1_val_1.blastx.meganized.daa: 17321173b0f9ffe96ad61ec4d798b419 77F_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 77F_R2_val_2.blastx.meganized.daa: 7e77541217dc869351da2256b7d47ef8 77F_R2_val_2.blastx.meganized.daa Generating MD5 checksums for 7M_R1_val_1.blastx.meganized.daa: 94f6fe04adedcea682816bbb27c7f2f5 7M_R1_val_1.blastx.meganized.daa Generating MD5 checksums for 7M_R2_val_2.blastx.meganized.daa: 5fde2744487e8b7bb5e640fb5f25dc4d 7M_R2_val_2.blastx.meganized.daa Generating MD5 checksums for input_fastqs.md5: 09556252032e2fda63d44423a413c0a4 input_fastqs.md5 Generating MD5 checksums for slurm-2578859.out: ef43147742661115a94c2a0604bb6a28 slurm-2578859.out Logging program options... Finished logging programs options. Logging system /gscratch/sw/intel-201703/compilers_and_libraries_2017.2.174/linux/mpi/intel64/bin:/gscratch/sw/intel-201703/compilers_and_libraries_2017.2.174/linux/bin/intel64:/gscratch/sw/intel-201703/debugger_2017/gdb/intel64_mic/bin:/sw/intel-python-2017.2.045/intelpython3/bin:/gscratch/srlab/programs/anaconda3/condabin:/usr/lusers/samwhite/bin:/gscratch/srlab/programs/cmake-3.12.1/bin:/usr/lusers/samwhite/perl5/bin:/sw/local/bin:/usr/lib64/qt-3.3/bin:/sw/modules-1.775/bin:/usr/lpp/mmfs/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/gscratch/srlab/programs/bowtie2-2.3.5.1-linux-x86_64:/gscratch/srlab/programs/Augustus-3.3.2/bin:/gscratch/srlab/programs/FastQC:/gscratch/srlab/programs/jellyfish-2.3.0/bin:/gscratch/srlab/programs/salmon-1.1.0_linux_x86_64/bin:/gscratch/srlab/programs/samtools-1.10:/gscratch/srlab/programs/pcre2-10.37:/gscratch/srlab/programs/R-4.1.1/bin:/gscratch/srlab/programs/tree-1.8.0:/usr/lusers/samwhite/bin:/usr/lusers/samwhite/edirect... Finished logging system /gscratch/sw/intel-201703/compilers_and_libraries_2017.2.174/linux/mpi/intel64/bin:/gscratch/sw/intel-201703/compilers_and_libraries_2017.2.174/linux/bin/intel64:/gscratch/sw/intel-201703/debugger_2017/gdb/intel64_mic/bin:/sw/intel-python-2017.2.045/intelpython3/bin:/gscratch/srlab/programs/anaconda3/condabin:/usr/lusers/samwhite/bin:/gscratch/srlab/programs/cmake-3.12.1/bin:/usr/lusers/samwhite/perl5/bin:/sw/local/bin:/usr/lib64/qt-3.3/bin:/sw/modules-1.775/bin:/usr/lpp/mmfs/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/gscratch/srlab/programs/bowtie2-2.3.5.1-linux-x86_64:/gscratch/srlab/programs/Augustus-3.3.2/bin:/gscratch/srlab/programs/FastQC:/gscratch/srlab/programs/jellyfish-2.3.0/bin:/gscratch/srlab/programs/salmon-1.1.0_linux_x86_64/bin:/gscratch/srlab/programs/samtools-1.10:/gscratch/srlab/programs/pcre2-10.37:/gscratch/srlab/programs/R-4.1.1/bin:/gscratch/srlab/programs/tree-1.8.0:/usr/lusers/samwhite/bin:/usr/lusers/samwhite/edirect.