Mercurial > repos > devteam > samtools_reheader
view samtools_reheader.xml @ 2:77a6694ebf7a draft
planemo upload commit 33927a87ba2eee9bf0ecdd376a66241b17b3d734
author | devteam |
---|---|
date | Tue, 13 Oct 2015 12:55:18 -0400 |
parents | c50efc142ad0 |
children | 0b97d4e945ab |
line wrap: on
line source
<tool id="samtools_reheader" name="Reheader" version="2.0"> <description>copy SAM/BAM header between datasets</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements"></expand> <expand macro="stdio"></expand> <expand macro="version_command"></expand> <command><![CDATA[samtools reheader "${input_header}" "${input_file}" > "${output}"]]></command> <inputs> <param name="input_header" type="data" format="sam,bam" label="Select source dataset" help="Header from this dataset will be used to replace header in the target dataset. May be either SAM or BAM dataset."/> <param name="input_file" type="data" format="bam" label="Select target dataset" help="Header from the source dataset will be inserted here. Should be a BAM dataset."/> </inputs> <outputs> <data format="bam" name="output" label="${tool.name} on ${on_string}" /> </outputs> <tests> <test> <param name="input_header" ftype="bam" value="reheader_input_header.bam"/> <param name="input_file" ftype="bam" value="reheader_input_file.bam"/> <output name="output" ftype="bam" file="reheader_out.bam"/> </test> </tests> <help> **What it does** Copies header from *source* dataset into *target* dataset using ``samtools reheader`` command. </help> <expand macro="citations"></expand> </tool>