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...  [0.081s]
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...  [0.066s]
Opening the output file...  [0s]
Loading query sequences...  [5.015s]
Masking queries...  [1.903s]
Algorithm: Double-indexed
Building query histograms...  [2.312s]
Loading reference sequences...  [0.429s]
Masking reference...  [0.542s]
Initializing temporary storage...  [0.011s]
Building reference histograms...  [1.534s]
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...  [0.269s]
Computing hash join...  [0.135s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.453s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 1/16, index chunk 2/4.
Building reference seed array...  [0.209s]
Building query seed array...  [0.245s]
Computing hash join...  [0.123s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.456s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 1/16, index chunk 3/4.
Building reference seed array...  [0.21s]
Building query seed array...  [0.26s]
Computing hash join...  [0.122s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.446s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 1/16, index chunk 4/4.
Building reference seed array...  [0.155s]
Building query seed array...  [0.22s]
Computing hash join...  [0.124s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.454s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 2/16, index chunk 1/4.
Building reference seed array...  [0.16s]
Building query seed array...  [0.226s]
Computing hash join...  [0.123s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.403s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 2/16, index chunk 2/4.
Building reference seed array...  [0.249s]
Building query seed array...  [0.285s]
Computing hash join...  [0.127s]
Masking low complexity seeds...  [0.026s]
Searching alignments...  [0.442s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 2/16, index chunk 3/4.
Building reference seed array...  [0.213s]
Building query seed array...  [0.29s]
Computing hash join...  [0.135s]
Masking low complexity seeds...  [0.026s]
Searching alignments...  [0.445s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 2/16, index chunk 4/4.
Building reference seed array...  [0.16s]
Building query seed array...  [0.229s]
Computing hash join...  [0.125s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.416s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 3/16, index chunk 1/4.
Building reference seed array...  [0.162s]
Building query seed array...  [0.234s]
Computing hash join...  [0.138s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.463s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 3/16, index chunk 2/4.
Building reference seed array...  [0.196s]
Building query seed array...  [0.265s]
Computing hash join...  [0.134s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.455s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 3/16, index chunk 3/4.
Building reference seed array...  [0.207s]
Building query seed array...  [0.254s]
Computing hash join...  [0.12s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.439s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 3/16, index chunk 4/4.
Building reference seed array...  [0.157s]
Building query seed array...  [0.236s]
Computing hash join...  [0.139s]
Masking low complexity seeds...  [0.026s]
Searching alignments...  [0.435s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 4/16, index chunk 1/4.
Building reference seed array...  [0.157s]
Building query seed array...  [0.218s]
Computing hash join...  [0.125s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.422s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 4/16, index chunk 2/4.
Building reference seed array...  [0.184s]
Building query seed array...  [0.239s]
Computing hash join...  [0.121s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.43s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 4/16, index chunk 3/4.
Building reference seed array...  [0.194s]
Building query seed array...  [0.248s]
Computing hash join...  [0.122s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.426s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 4/16, index chunk 4/4.
Building reference seed array...  [0.153s]
Building query seed array...  [0.204s]
Computing hash join...  [0.127s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.42s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 5/16, index chunk 1/4.
Building reference seed array...  [0.151s]
Building query seed array...  [0.204s]
Computing hash join...  [0.125s]
Masking low complexity seeds...  [0.026s]
Searching alignments...  [0.413s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 5/16, index chunk 2/4.
Building reference seed array...  [0.212s]
Building query seed array...  [0.266s]
Computing hash join...  [0.124s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.416s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 5/16, index chunk 3/4.
Building reference seed array...  [0.206s]
Building query seed array...  [0.281s]
Computing hash join...  [0.132s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.418s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 5/16, index chunk 4/4.
Building reference seed array...  [0.161s]
Building query seed array...  [0.231s]
Computing hash join...  [0.125s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.429s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 6/16, index chunk 1/4.
Building reference seed array...  [0.163s]
Building query seed array...  [0.233s]
Computing hash join...  [0.132s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.443s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 6/16, index chunk 2/4.
Building reference seed array...  [0.197s]
Building query seed array...  [0.26s]
Computing hash join...  [0.127s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.435s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 6/16, index chunk 3/4.
Building reference seed array...  [0.209s]
Building query seed array...  [0.258s]
Computing hash join...  [0.119s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.428s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 6/16, index chunk 4/4.
Building reference seed array...  [0.161s]
Building query seed array...  [0.246s]
Computing hash join...  [0.132s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.416s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 7/16, index chunk 1/4.
Building reference seed array...  [0.158s]
Building query seed array...  [0.231s]
Computing hash join...  [0.125s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.409s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 7/16, index chunk 2/4.
Building reference seed array...  [0.193s]
Building query seed array...  [0.263s]
Computing hash join...  [0.126s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.438s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 7/16, index chunk 3/4.
Building reference seed array...  [0.207s]
Building query seed array...  [0.276s]
Computing hash join...  [0.128s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.413s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 7/16, index chunk 4/4.
Building reference seed array...  [0.168s]
Building query seed array...  [0.229s]
Computing hash join...  [0.129s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.424s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 8/16, index chunk 1/4.
Building reference seed array...  [0.159s]
Building query seed array...  [0.229s]
Computing hash join...  [0.131s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.429s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 8/16, index chunk 2/4.
Building reference seed array...  [0.195s]
Building query seed array...  [0.319s]
Computing hash join...  [0.133s]
Masking low complexity seeds...  [0.026s]
Searching alignments...  [0.463s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 8/16, index chunk 3/4.
Building reference seed array...  [0.209s]
Building query seed array...  [0.274s]
Computing hash join...  [0.13s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.454s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 8/16, index chunk 4/4.
Building reference seed array...  [0.166s]
Building query seed array...  [0.213s]
Computing hash join...  [0.118s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.417s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 9/16, index chunk 1/4.
Building reference seed array...  [0.155s]
Building query seed array...  [0.234s]
Computing hash join...  [0.131s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.425s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 9/16, index chunk 2/4.
Building reference seed array...  [0.203s]
Building query seed array...  [0.251s]
Computing hash join...  [0.123s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.431s]
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...  [0.298s]
Computing hash join...  [0.137s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.456s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 9/16, index chunk 4/4.
Building reference seed array...  [0.162s]
Building query seed array...  [0.23s]
Computing hash join...  [0.132s]
Masking low complexity seeds...  [0.026s]
Searching alignments...  [0.458s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 10/16, index chunk 1/4.
Building reference seed array...  [0.16s]
Building query seed array...  [0.229s]
Computing hash join...  [0.126s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.415s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 10/16, index chunk 2/4.
Building reference seed array...  [0.193s]
Building query seed array...  [0.257s]
Computing hash join...  [0.129s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.405s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 10/16, index chunk 3/4.
Building reference seed array...  [0.208s]
Building query seed array...  [0.277s]
Computing hash join...  [0.13s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.423s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 10/16, index chunk 4/4.
Building reference seed array...  [0.162s]
Building query seed array...  [0.228s]
Computing hash join...  [0.129s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.419s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 11/16, index chunk 1/4.
Building reference seed array...  [0.174s]
Building query seed array...  [0.234s]
Computing hash join...  [0.124s]
Masking low complexity seeds...  [0.026s]
Searching alignments...  [0.459s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 11/16, index chunk 2/4.
Building reference seed array...  [0.196s]
Building query seed array...  [0.26s]
Computing hash join...  [0.127s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.429s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 11/16, index chunk 3/4.
Building reference seed array...  [0.211s]
Building query seed array...  [0.279s]
Computing hash join...  [0.126s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.425s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 11/16, index chunk 4/4.
Building reference seed array...  [0.166s]
Building query seed array...  [0.209s]
Computing hash join...  [0.115s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.419s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 12/16, index chunk 1/4.
Building reference seed array...  [0.16s]
Building query seed array...  [0.224s]
Computing hash join...  [0.124s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.397s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 12/16, index chunk 2/4.
Building reference seed array...  [0.204s]
Building query seed array...  [0.264s]
Computing hash join...  [0.125s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.417s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 12/16, index chunk 3/4.
Building reference seed array...  [0.228s]
Building query seed array...  [0.277s]
Computing hash join...  [0.124s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.432s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 12/16, index chunk 4/4.
Building reference seed array...  [0.168s]
Building query seed array...  [0.228s]
Computing hash join...  [0.123s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.413s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 13/16, index chunk 1/4.
Building reference seed array...  [0.16s]
Building query seed array...  [0.229s]
Computing hash join...  [0.13s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.41s]
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...  [0.262s]
Computing hash join...  [0.126s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.411s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 13/16, index chunk 3/4.
Building reference seed array...  [0.206s]
Building query seed array...  [0.268s]
Computing hash join...  [0.122s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.407s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 13/16, index chunk 4/4.
Building reference seed array...  [0.162s]
Building query seed array...  [0.227s]
Computing hash join...  [0.124s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.409s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 14/16, index chunk 1/4.
Building reference seed array...  [0.159s]
Building query seed array...  [0.23s]
Computing hash join...  [0.131s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.411s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 14/16, index chunk 2/4.
Building reference seed array...  [0.193s]
Building query seed array...  [0.264s]
Computing hash join...  [0.13s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.417s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 14/16, index chunk 3/4.
Building reference seed array...  [0.207s]
Building query seed array...  [0.279s]
Computing hash join...  [0.128s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.423s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 14/16, index chunk 4/4.
Building reference seed array...  [0.159s]
Building query seed array...  [0.23s]
Computing hash join...  [0.126s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.41s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 15/16, index chunk 1/4.
Building reference seed array...  [0.16s]
Building query seed array...  [0.232s]
Computing hash join...  [0.129s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.432s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 15/16, index chunk 2/4.
Building reference seed array...  [0.195s]
Building query seed array...  [0.265s]
Computing hash join...  [0.134s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.436s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 15/16, index chunk 3/4.
Building reference seed array...  [0.212s]
Building query seed array...  [0.253s]
Computing hash join...  [0.115s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.417s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 15/16, index chunk 4/4.
Building reference seed array...  [0.159s]
Building query seed array...  [0.214s]
Computing hash join...  [0.126s]
Masking low complexity seeds...  [0.025s]
Searching alignments...  [0.4s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 16/16, index chunk 1/4.
Building reference seed array...  [0.151s]
Building query seed array...  [0.214s]
Computing hash join...  [0.117s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.383s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 16/16, index chunk 2/4.
Building reference seed array...  [0.18s]
Building query seed array...  [0.242s]
Computing hash join...  [0.114s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.404s]
Deallocating memory...  [0s]
Processing query block 1, reference block 1/1, shape 16/16, index chunk 3/4.
Building reference seed array...  [0.201s]
Building query seed array...  [0.27s]
Computing hash join...  [0.129s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.395s]
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...  [0.226s]
Computing hash join...  [0.122s]
Masking low complexity seeds...  [0.024s]
Searching alignments...  [0.397s]
Deallocating memory...  [0s]
Deallocating buffers...  [0.004s]
Clearing query masking...  [0.222s]
Computing alignments... Loading trace points...  [0.911s]
Sorting trace points...  [0.051s]
Computing alignments...  [9.962s]
Deallocating buffers...  [0.001s]
Loading trace points...  [0s]
 [10.975s]
Deallocating reference...  [0.001s]
Loading reference sequences...  [0s]
Deallocating buffers...  [0s]
Deallocating queries...  [0.005s]
Loading query sequences...  [0s]
Closing the input file...  [0s]
Closing the output file...  [0.001s]
Closing the database...  [0s]
Cleaning up...  [0s]
Total time = 87.799s
Reported 5869 pairwise alignments, 5869 HSPs.
5869 queries aligned.

Generating checksum for 20230727-cvir-diamond-blastx-GCF_002022765.2_C_virginica-3.0-genes.sh.

769361c4fb989d059e761a04088c368b  20230727-cvir-diamond-blastx-GCF_002022765.2_C_virginica-3.0-genes.sh


Generating checksum for GCF_002022765.2_C_virginica-3.0-genes.blastx.outfmt6.

408f80aad2b4b9872418c4ebbdc0006d  GCF_002022765.2_C_virginica-3.0-genes.blastx.outfmt6


Generating checksum for slurm-4724600.out.

1645c110b6011fdb7ce4c9865441ca94  slurm-4724600.out

Generating checksum for /gscratch/srlab/sam/data/C_virginica/genomes/GCF_002022765.2_C_virginica-3.0-genes.fasta.

a0546fd42642673d80b3071089a6711b  /gscratch/srlab/sam/data/C_virginica/genomes/GCF_002022765.2_C_virginica-3.0-genes.fasta
Logging program options...