Mercurial > repos > iuc > fastq_screen
changeset 2:81a0c1c27ec8 draft default tip
Uploaded
| author | iuc |
|---|---|
| date | Fri, 16 May 2014 19:46:52 -0400 |
| parents | 3480daf4ed27 |
| children | |
| files | fastq_screen.xml tool_dependencies.xml |
| diffstat | 2 files changed, 3 insertions(+), 3 deletions(-) [+] |
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--- a/fastq_screen.xml Fri May 16 19:26:18 2014 -0400 +++ b/fastq_screen.xml Fri May 16 19:46:52 2014 -0400 @@ -1,8 +1,8 @@ <tool id="fastq_screen" name="fastq_screen" version="0.4.2"> <description>Screen for contamination</description> <requirements> + <requirement type="package" version="2.1.0">bowtie2</requirement> <requirement type="package" version="0.4.2">fastq_screen</requirement> - <requirement type="package" version="2.1.0">package_bowtie2</requirement> </requirements> <command> fastq_screen --aligner="bowtie2" --outdir="." --conf="$fastqrunconf" @@ -62,7 +62,7 @@ <configfiles> <configfile name="fastqrunconf"> ###### autogenerated by fastq_screen.xml for fastq_screen run -BOWTIE2 /data/app/bin/bowtie2 +BOWTIE2 bowtie2 #for $refs in $refGenomes: DATABASE $refs.ref.fields.value $refs.ref.fields.path BOWTIE2 #end for
--- a/tool_dependencies.xml Fri May 16 19:26:18 2014 -0400 +++ b/tool_dependencies.xml Fri May 16 19:46:52 2014 -0400 @@ -1,6 +1,6 @@ <?xml version="1.0"?> <tool_dependency> - <package name="package_bowtie2" version="2.1.0"> + <package name="bowtie2" version="2.1.0"> <repository changeset_revision="606d435a57a4" name="package_bowtie2_2_1_0" owner="devteam" toolshed="http://testtoolshed.g2.bx.psu.edu" /> </package> <package name="fastq_screen" version="0.4.2">