Parallel blast#280
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…o verify it runs functionally
… or PBS_NODEFILE entries
… way too much time debugging shell things
… my ram and being killed so will need to test some other way
…at version of diamond is used
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Waiting for VDBWRAIR/bio_bits#46 to be completed and also next version to be released |
…ast phylo where orf_filter was being incorrectly called for contig
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I'm integrating changes from VDBWRAIR/bio_bits#61 just to ensure parallel_blast is actually finally correct |
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TODO
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I'm running a test script that will run par_block_blast.pl and parallel_blast with the same parameters using blastx on a fasta file that has 304 entries. I'm running it on my local computer with 4 instances and have a job queued to run on the cluster with 10 cpus Hopefully this will show for sure if parallel_blast is faster or not(especially now that we are using |
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https://gist.github.com/necrolyte2/6ff2e4dab8183fd2a027 On my machine par_block and parallel_blast took almost the same amount of time.
Running on our cluster with a single node and 10 cpu now and then will run parallel-blast with a few nodes to see how fast it speeds up |
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Tracking progress in this badly formatted google doc |
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