Mercurial > repos > geert-vandeweyer > bamtools_wrappers

diff SplitOnRg.xml @ 0:afa51021226c draft

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author geert-vandeweyer
date Tue, 18 Feb 2014 04:18:08 -0500
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children 76aff7bca1b2
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/SplitOnRg.xml	Tue Feb 18 04:18:08 2014 -0500
@@ -0,0 +1,18 @@
+<tool id="bamtools_SplitOnRG" name="Split BAM on ReadGroups" force_history_refresh="True">
+<description/>
+<requirements>
+	<requirement type="package" version="2.3.0">bamtools</requirement>
+</requirements>
+<command interpreter="perl">
+SplitOnRG.pl -i '$input1' -o $output1 -O $output1.id -k $dbkey -p $__new_file_path__ 
+</command>
+<inputs>
+<param format="bam" name="input1" type="data" label="BAM file"/>
+</inputs>
+<outputs>
+<data format="txt" name="output1" metadata_source="input1"  />
+</outputs>
+<help>
+**What it does** This tools splits a bam file by RG-ids. ------- *bamtools split* is part of the `BAMTools package` by Derek Barnett. : https://github.com/pezmaster31/bamtools
+</help>
+</tool>