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33 lines
1014 B
XML
33 lines
1014 B
XML
<tool id="sam_merge" name="Merge BAM Files" version="1.0.0">
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<description>merges BAM files together</description>
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<command interpreter="python">
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sam_merge.py
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$input1
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$output1
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$input2
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#for $i in $inputs
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${i.input}
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#end for
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</command>
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<inputs>
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<param name="input1" label="First file" type="data" format="bam" />
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<param name="input2" label="with file" type="data" format="bam" help="Need to add more files? Use controls below." />
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<repeat name="inputs" title="Input Files">
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<param name="input" label="Add file" type="data" format="bam" />
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</repeat>
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</inputs>
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<outputs>
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<data name="output1" format="bam" />
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</outputs>
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<!-- bam files are binary and not sniffable so can't be uploaded without being corrupted, so no tests -->
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<help>
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**What it does**
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This tool uses SAMTools_' merge command to merge any number of BAM files together into one BAM file.
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.. _SAMTools: http://samtools.sourceforge.net/samtools.shtml
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</help>
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</tool>
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