Mercurial > repos > iuc > featurecounts
changeset 27:ce44c6f2ba38 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/featurecounts commit c2db6daac834eea9b88388aed840d484544f0786"
| author | iuc |
|---|---|
| date | Tue, 13 Jul 2021 12:14:05 +0000 |
| parents | ea04b737afa0 |
| children | 7db9d3ea71c9 |
| files | featurecounts.xml test-data/output.bam |
| diffstat | 2 files changed, 8 insertions(+), 3 deletions(-) [+] |
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--- a/featurecounts.xml Sat Nov 21 10:22:09 2020 +0000 +++ b/featurecounts.xml Tue Jul 13 12:14:05 2021 +0000 @@ -1,7 +1,12 @@ -<tool id="featurecounts" name="featureCounts" version="2.0.1" profile="16.04"> +<tool id="featurecounts" name="featureCounts" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.05"> <description>Measure gene expression in RNA-Seq experiments from SAM or BAM files.</description> + <macros> + <token name="@TOOL_VERSION@">2.0.1</token> + <token name="@VERSION_SUFFIX@">1</token> + </macros> + <requirements> - <requirement type="package" version="2.0.1">subread</requirement> + <requirement type="package" version="@TOOL_VERSION@">subread</requirement> <requirement type="package" version="1.11">samtools</requirement> <requirement type="package" version="8.31">coreutils</requirement> </requirements> @@ -120,7 +125,7 @@ #end if #if $extended_parameters.R: - && samtools sort -o '$output_bam' -@ \${GALAXY_SLOTS:-2} -T "\${TMPDIR:-.}" *.featureCounts.bam + && samtools sort --no-PG -o '$output_bam' -@ \${GALAXY_SLOTS:-2} -T "\${TMPDIR:-.}" *.featureCounts.bam #end if && sed -e 's|${alignment}|${alignment.element_identifier}|g' 'output.summary' > '${output_summary}' ]]></command>