M Bernt
release 4.6.8 prints version 4.7. This is slightly misleading and horrible in terms of reproducibility.
When running: ``` cd-hit -i "/tmp/tmpN5gjOx/files/000/dataset_4.dat" -o rep_seq -c 0.9 -n 5 -t 2 -b 20 -l 10 -G 0 -aL 0.0 -AL 99999999 -aS 0.0 -AS 99999999 -A 0...
Running this command line (from Galaxy): ``` diamond blastp --quiet --threads "${GALAXY_SLOTS:-12}" --db ./database --query '/tmp/tmpeyzj5kt3/files/b/b/1/dataset_bb1793d6-dc15-4f75-bd67-09516886d297.dat' --no-self-hits --outfmt '6' qseqid sseqid pident length mismatch gapopen qstart qend sstart send evalue...
is it possible to create multiple types of output in one run, eg. blast tabular + Taxonomic classification (102)? Btw. 102 is not yet included in `diamond help`.
I'm working on the Galaxy wrapper for the eggnog mapper. We observe very low CPU usage (~1% for each of the 10 cores). While debugging I noticed approx 4-5000 failed...
like all other `*spades*` tools FOR CONTRIBUTOR: * [x] - I have read the [CONTRIBUTING.md](https://github.com/galaxyproject/tools-iuc/blob/master/CONTRIBUTING.md) document and this tool is appropriate for the tools-iuc repo. * [x] - License permits...
size of bcf output changed when the container was updated to quay.io/biocontainers/sansa:0.0.8--h4a2b439_2 so I added delta FOR CONTRIBUTOR: * [x] - I have read the [CONTRIBUTING.md](https://github.com/galaxyproject/tools-iuc/blob/master/CONTRIBUTING.md) document and this tool...
f37ce4136944e04dc14952bbfdca489ceda88d7d fixes current CI failure Instead of 879ce2ee31c993faf0183f27d6d13bb1458c1e20 we could also define the `operation_mode` parameter in all tools? FOR CONTRIBUTOR: * [x] - I have read the [CONTRIBUTING.md](https://github.com/galaxyproject/tools-iuc/blob/master/CONTRIBUTING.md) document and...
CI is currently failing due to a core dump that happens if 2 slots are used seems to be fixed in a newer version new version seems to have quite...
library opens the file `r+` because it assumes that src and dst can be the same https://github.com/open2c/cooler/blob/987e87dd357c99a0a070b8a25cb7aaef86f1655c/cooler/fileops.py#L277 FOR CONTRIBUTOR: * [x] - I have read the [CONTRIBUTING.md](https://github.com/galaxyproject/tools-iuc/blob/master/CONTRIBUTING.md) document and this...