Mercurial > repos > petr-novak > repeatexplorer2_testing
changeset 17:5cca2c9aa4ad draft
Uploaded
| author | petr-novak |
|---|---|
| date | Mon, 29 Jan 2024 15:58:25 +0000 |
| parents | 20ef42e81eeb |
| children | 4308d3e572ee |
| files | repex_full_clustering.xml |
| diffstat | 1 files changed, 4 insertions(+), 2 deletions(-) [+] |
line wrap: on
line diff
--- a/repex_full_clustering.xml Wed Dec 20 14:25:46 2023 +0000 +++ b/repex_full_clustering.xml Mon Jan 29 15:58:25 2024 +0000 @@ -1,4 +1,4 @@ -<tool id="repeatexplorer2" name="RepeatExplorer2 clustering: " version="2.3.8.3" > +<tool id="repeatexplorer2" name="RepeatExplorer2 clustering: " version="2.3.8.4" > <stdio> <regex match="lastdb: can't open file: NEAR" source="stderr" level="fatal" description="Version of last is too old, use ver 956 or higher\n" /> <regex match="Traceback" source="stderr" level="fatal" description="Unknown error" /> @@ -13,7 +13,9 @@ <command> export PYTHONHASHSEED=0; export TAREAN_CPU=\$GALAXY_SLOTS; - export TAREAN_MAX_MEM=\$GALAXY_MEMORY_MB; + export TAREAN_MAX_MEM=\$((GALAXY_MEMORY_MB*1024)); + echo \$GALAXY_MEMORY_MB; + echo "TAREAN_MAX_MEM=\$TAREAN_MAX_MEM" ; seqclust --sample ${read_sampling.sample} --output_dir=tarean_output --logfile=${log} --cleanup $paired --taxon $taxon #if $advanced_options.advanced: