diamond v2.1.1.155 (C) Max Planck Society for the Advancement of Science
Documentation, support and updates available at http://www.diamondsearch.org
Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021)

#CPU threads: 28
Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1)
Temporary directory: 
#Target sequences to report alignments for: 1
Opening the database...  [0.434s]
Database: /gscratch/srlab/blastdbs/20230727-uniprot-swissprot-reviewed/uniprot_sprot.dmnd (type: Diamond database, sequences: 569793, letters: 206004162)
Block size = 15000000000
Opening the input file...  [0.326s]
Opening the output file...  [0s]
Loading query sequences...  [1.765s]
Masking queries...  [0.727s]
Algorithm: Double-indexed
Building query histograms...  [1.379s]
Loading reference sequences...  [0.551s]
Masking reference...  [0.541s]
Initializing temporary storage...  [0.019s]
Building reference histograms...  [1.612s]
Allocating buffers...  [0.003s]
Processing query block 1, reference block 1/1, shape 1/16, index chunk 1/4.
Building reference seed array...  [0.164s]
Building query seed array...  [0.174s]
Computing hash join...  [0.098s]
Masking low complexity seeds...  [0.022s]
Searching alignments...  [0.468s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4.
Building reference seed array...  [0.199s]
Building query seed array...  [0.166s]
Computing hash join...  [0.114s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.421s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4.
Building reference seed array...  [0.213s]
Building query seed array...  [0.163s]
Computing hash join...  [0.101s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.409s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4.
Building reference seed array...  [0.164s]
Building query seed array...  [0.136s]
Computing hash join...  [0.108s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.412s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4.
Building reference seed array...  [0.161s]
Building query seed array...  [0.137s]
Computing hash join...  [0.104s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.381s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4.
Building reference seed array...  [0.212s]
Building query seed array...  [0.158s]
Computing hash join...  [0.1s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.384s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4.
Building reference seed array...  [0.209s]
Building query seed array...  [0.168s]
Computing hash join...  [0.106s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.386s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4.
Building reference seed array...  [0.165s]
Building query seed array...  [0.127s]
Computing hash join...  [0.106s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.374s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4.
Building reference seed array...  [0.164s]
Building query seed array...  [0.159s]
Computing hash join...  [0.11s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.428s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4.
Building reference seed array...  [0.201s]
Building query seed array...  [0.162s]
Computing hash join...  [0.109s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.428s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4.
Building reference seed array...  [0.227s]
Building query seed array...  [0.174s]
Computing hash join...  [0.108s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.433s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4.
Building reference seed array...  [0.169s]
Building query seed array...  [0.142s]
Computing hash join...  [0.116s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.411s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4.
Building reference seed array...  [0.162s]
Building query seed array...  [0.141s]
Computing hash join...  [0.104s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.431s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4.
Building reference seed array...  [0.228s]
Building query seed array...  [0.196s]
Computing hash join...  [0.108s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.416s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4.
Building reference seed array...  [0.214s]
Building query seed array...  [0.172s]
Computing hash join...  [0.109s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.412s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4.
Building reference seed array...  [0.165s]
Building query seed array...  [0.136s]
Computing hash join...  [0.107s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.394s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4.
Building reference seed array...  [0.162s]
Building query seed array...  [0.137s]
Computing hash join...  [0.105s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.396s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4.
Building reference seed array...  [0.197s]
Building query seed array...  [0.164s]
Computing hash join...  [0.106s]
Masking low complexity seeds...  [0.022s]
Searching alignments...  [0.393s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4.
Building reference seed array...  [0.214s]
Building query seed array...  [0.17s]
Computing hash join...  [0.103s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.391s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4.
Building reference seed array...  [0.165s]
Building query seed array...  [0.14s]
Computing hash join...  [0.104s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.4s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4.
Building reference seed array...  [0.188s]
Building query seed array...  [0.141s]
Computing hash join...  [0.097s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.406s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4.
Building reference seed array...  [0.2s]
Building query seed array...  [0.16s]
Computing hash join...  [0.105s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.405s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4.
Building reference seed array...  [0.257s]
Building query seed array...  [0.177s]
Computing hash join...  [0.097s]
Masking low complexity seeds...  [0.029s]
Searching alignments...  [0.389s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4.
Building reference seed array...  [0.163s]
Building query seed array...  [0.165s]
Computing hash join...  [0.111s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.392s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4.
Building reference seed array...  [0.199s]
Building query seed array...  [0.17s]
Computing hash join...  [0.109s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.397s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4.
Building reference seed array...  [0.217s]
Building query seed array...  [0.161s]
Computing hash join...  [0.101s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.402s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4.
Building reference seed array...  [0.214s]
Building query seed array...  [0.168s]
Computing hash join...  [0.106s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.378s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4.
Building reference seed array...  [0.163s]
Building query seed array...  [0.136s]
Computing hash join...  [0.104s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.38s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4.
Building reference seed array...  [0.165s]
Building query seed array...  [0.136s]
Computing hash join...  [0.106s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.396s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4.
Building reference seed array...  [0.212s]
Building query seed array...  [0.158s]
Computing hash join...  [0.11s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.407s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4.
Building reference seed array...  [0.21s]
Building query seed array...  [0.17s]
Computing hash join...  [0.102s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.385s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4.
Building reference seed array...  [0.163s]
Building query seed array...  [0.138s]
Computing hash join...  [0.107s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.393s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4.
Building reference seed array...  [0.171s]
Building query seed array...  [0.141s]
Computing hash join...  [0.107s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.418s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4.
Building reference seed array...  [0.2s]
Building query seed array...  [0.163s]
Computing hash join...  [0.107s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.406s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 9/16, index chunk 3/4.
Building reference seed array...  [0.211s]
Building query seed array...  [0.199s]
Computing hash join...  [0.11s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.406s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4.
Building reference seed array...  [0.166s]
Building query seed array...  [0.14s]
Computing hash join...  [0.106s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.404s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4.
Building reference seed array...  [0.163s]
Building query seed array...  [0.137s]
Computing hash join...  [0.099s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.38s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4.
Building reference seed array...  [0.213s]
Building query seed array...  [0.159s]
Computing hash join...  [0.103s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.372s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4.
Building reference seed array...  [0.209s]
Building query seed array...  [0.167s]
Computing hash join...  [0.105s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.384s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4.
Building reference seed array...  [0.164s]
Building query seed array...  [0.126s]
Computing hash join...  [0.1s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.369s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4.
Building reference seed array...  [0.164s]
Building query seed array...  [0.15s]
Computing hash join...  [0.111s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.403s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4.
Building reference seed array...  [0.2s]
Building query seed array...  [0.164s]
Computing hash join...  [0.101s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.417s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4.
Building reference seed array...  [0.214s]
Building query seed array...  [0.171s]
Computing hash join...  [0.106s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.406s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4.
Building reference seed array...  [0.165s]
Building query seed array...  [0.138s]
Computing hash join...  [0.107s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.764s]
Deallocating memory...  [0.456s]
Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4.
Building reference seed array...  [0.217s]
Building query seed array...  [0.139s]
Computing hash join...  [0.096s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.39s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4.
Building reference seed array...  [0.261s]
Building query seed array...  [0.574s]
Computing hash join...  [0.116s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.398s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4.
Building reference seed array...  [0.213s]
Building query seed array...  [0.163s]
Computing hash join...  [0.114s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.386s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4.
Building reference seed array...  [0.163s]
Building query seed array...  [0.13s]
Computing hash join...  [0.105s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.382s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4.
Building reference seed array...  [0.163s]
Building query seed array...  [0.148s]
Computing hash join...  [0.104s]
Masking low complexity seeds...  [0.022s]
Searching alignments...  [0.376s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 13/16, index chunk 2/4.
Building reference seed array...  [0.197s]
Building query seed array...  [0.187s]
Computing hash join...  [0.108s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.404s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4.
Building reference seed array...  [0.212s]
Building query seed array...  [0.168s]
Computing hash join...  [0.109s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.393s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4.
Building reference seed array...  [0.164s]
Building query seed array...  [0.135s]
Computing hash join...  [0.107s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.378s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4.
Building reference seed array...  [0.164s]
Building query seed array...  [0.139s]
Computing hash join...  [0.106s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.397s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4.
Building reference seed array...  [0.197s]
Building query seed array...  [0.161s]
Computing hash join...  [0.104s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.384s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4.
Building reference seed array...  [0.211s]
Building query seed array...  [0.165s]
Computing hash join...  [0.104s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.398s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4.
Building reference seed array...  [0.179s]
Building query seed array...  [0.138s]
Computing hash join...  [0.109s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.385s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4.
Building reference seed array...  [0.164s]
Building query seed array...  [0.137s]
Computing hash join...  [0.11s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.406s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4.
Building reference seed array...  [0.201s]
Building query seed array...  [0.162s]
Computing hash join...  [0.105s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.392s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4.
Building reference seed array...  [0.218s]
Building query seed array...  [0.165s]
Computing hash join...  [0.103s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.391s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4.
Building reference seed array...  [0.163s]
Building query seed array...  [0.144s]
Computing hash join...  [0.104s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.38s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4.
Building reference seed array...  [0.163s]
Building query seed array...  [0.134s]
Computing hash join...  [0.101s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.379s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4.
Building reference seed array...  [0.199s]
Building query seed array...  [0.157s]
Computing hash join...  [0.102s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.56s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4.
Building reference seed array...  [0.212s]
Building query seed array...  [0.166s]
Computing hash join...  [0.11s]
Masking low complexity seeds...  [0.023s]
Searching alignments...  [0.382s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 16/16, index chunk 4/4.
Building reference seed array...  [0.162s]
Building query seed array...  [0.137s]
Computing hash join...  [0.107s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.385s]
Deallocating memory...  [0s]
Deallocating buffers...  [0.003s]
Clearing query masking...  [0.09s]
Computing alignments... Loading trace points...  [1.828s]
Sorting trace points...  [0.216s]
Computing alignments...  [6.789s]
Deallocating buffers...  [0.003s]
Loading trace points...  [0s]
 [9.061s]
Deallocating reference...  [0.001s]
Loading reference sequences...  [0s]
Deallocating buffers...  [0s]
Deallocating queries...  [0.002s]
Loading query sequences...  [0s]
Closing the input file...  [0s]
Closing the output file...  [0.002s]
Closing the database...  [0s]
Cleaning up...  [0s]
Total time = 73.995s
Reported 39699 pairwise alignments, 39699 HSPs.
39699 queries aligned.

Generating checksum for 20231109-mmag-transcriptome-diamond-blastx.sh.

8d5d09c57e0cb7915fafdc6edfdf65b9  20231109-mmag-transcriptome-diamond-blastx.sh


Generating checksum for slurm-4979676.out.

f0a7f065d13e2840584e277fca14462f  slurm-4979676.out


Generating checksum for trinity_denovo.Trinity.blastx.outfmt6.

f4d66e229b23a766b35c2d0601375741  trinity_denovo.Trinity.blastx.outfmt6

Generating checksum for /gscratch/srlab/sam/data/M_magister/transcriptomes/trinity_denovo.Trinity.fasta.

081e52972c316d4e45e643e669acb749  /gscratch/srlab/sam/data/M_magister/transcriptomes/trinity_denovo.Trinity.fasta
Logging program options...