| Previous changeset 5:2d4f69268768 (2014-11-21) Next changeset 7:64a012fe92e3 (2014-11-21) |
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Commit message:
Add flagstat |
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modified:
samtools_v1_1.xml |
| b |
| diff -r 2d4f69268768 -r 7a9c736bc13c samtools_v1_1.xml --- a/samtools_v1_1.xml Fri Nov 21 17:56:10 2014 +0900 +++ b/samtools_v1_1.xml Fri Nov 21 18:04:42 2014 +0900 |
| b |
| @@ -3,8 +3,7 @@ <requirement type="package" version="1.1">samtools</requirement> </requirements> <description>samtools version 1.1.</description> - <command interpreter="samtools index">$inputfile - 2>&1 </command> + <command interpreter="samtools flagstat">$inputfile > $outfile</command> <inputs> <conditional name="command_type"> <param name="command_type" type="select" label="Execute samtools command"> @@ -39,7 +38,7 @@ <param format="bam" name="inputfile" type="data" label="index bam file"/> </when> <when value="flagstat"> - <param format="bam" name="inputfile" type="data" label="Report bam stats"/> + <data format="txt" name="outfile" metadata_source="inputfile"/> </when> </conditional> </inputs> |