| Previous changeset 3:37d88f41c810 (2018-10-30) Next changeset 5:82398ba86ba7 (2021-11-27) |
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Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/velvetoptimiser commit 36de8aa1927d0204107371ffad76bdfe921be44a" |
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modified:
velvetoptimiser.xml |
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| diff -r 37d88f41c810 -r 4a53b89fa703 velvetoptimiser.xml --- a/velvetoptimiser.xml Tue Oct 30 20:29:42 2018 -0400 +++ b/velvetoptimiser.xml Wed Jan 13 15:31:18 2021 +0000 |
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| @@ -1,4 +1,4 @@ -<tool id="velvetoptimiser" name="VelvetOptimiser" version="2.2.6"> +<tool id="velvetoptimiser" name="VelvetOptimiser" version="2.2.6+galaxy1"> <description>Automatically optimize Velvet assemblies</description> <requirements> <requirement type="package" version="1.2.10">velvet</requirement> @@ -6,8 +6,11 @@ </requirements> <version_command>VelvetOptimiser.pl --version</version_command> <command detect_errors="exit_code"><![CDATA[ - export OMP_NUM_THREADS=2 && - export OMP_THREAD_LIMIT=2 && + ## In Galaxy we do not us mutlithreading for the velvet + ## subprocesses, but only run multiple velvet calls in + ## parallel. Otherwise CPUs are overutilized. + export OMP_NUM_THREADS=1 && + ## export OMP_THREAD_LIMIT=1 && VelvetOptimiser.pl -t "\${GALAXY_SLOTS:-1}" -s $start_kmer |