Mercurial > repos > devteam > gffread
changeset 2:6562753c6bdc draft
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/cufflinks/gffread commit 82ee6fc860c52c531b7a57bbb346ab1a67a434a5
| author | devteam |
|---|---|
| date | Sun, 19 Feb 2017 12:09:17 -0500 |
| parents | 96c4d0e18546 |
| children | 29769f789b8f |
| files | cuff_macros.xml gffread.xml tool_dependencies.xml |
| diffstat | 3 files changed, 2 insertions(+), 17 deletions(-) [+] |
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--- a/cuff_macros.xml Tue Feb 07 18:39:51 2017 -0500 +++ b/cuff_macros.xml Sun Feb 19 12:09:17 2017 -0500 @@ -8,14 +8,6 @@ </requirements> </xml> - <xml name="stdio"> - <stdio> - <exit_code range="1:" /> - <exit_code range=":-1" /> - <regex match="Error" /> - <regex match="Exception" /> - </stdio> - </xml> <xml name="condition_inputs"> <!-- DEFAULT : use BAM/SAM files --> <conditional name="in_type">
--- a/gffread.xml Tue Feb 07 18:39:51 2017 -0500 +++ b/gffread.xml Sun Feb 19 12:09:17 2017 -0500 @@ -1,4 +1,4 @@ -<tool id="gffread" name="gffread" version="@VERSION@.0"> +<tool id="gffread" name="gffread" version="@VERSION@.1"> <description>Filters and/or converts GFF3/GTF2 records</description> <macros> <import>cuff_macros.xml</import> @@ -48,8 +48,7 @@ </xml> </macros> <expand macro="requirements" /> - <expand macro="stdio" /> - <command> + <command detect_errors="aggressive"> <![CDATA[ #if $reference_genome.source == 'history': ln -s '$reference_genome.genome_fasta' genomeref.fa &&
--- a/tool_dependencies.xml Tue Feb 07 18:39:51 2017 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,6 +0,0 @@ -<?xml version="1.0"?> -<tool_dependency> - <package name="cufflinks" version="2.2.1"> - <repository changeset_revision="87f239da61af" name="package_cufflinks_2_2_1" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu" /> - </package> -</tool_dependency>