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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tool_collections/bamtools/bamtools_split commit 7d29261847d2514a1ac4246e0b8bff1d32463434
author iuc
date Wed, 11 Feb 2026 14:31:28 +0000
parents fa7b5520ae53
children
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3:fa7b5520ae53 4:90af4f8f59af
1 <tool id="bamtools_split_mapped" name="Split BAM by reads mapping status" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@"> 1 <tool id="bamtools_split_mapped" name="Split BAM by reads mapping status" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
2 <description>into a mapped and an unmapped dataset</description> 2 <description>into a mapped and an unmapped dataset</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="xrefs"/> 6 <expand macro="xrefs"/>
16 </command> 16 </command>
17 <inputs> 17 <inputs>
18 <param name="input_bam" type="data" format="bam" label="BAM dataset to split by mapped/unmapped"/> 18 <param name="input_bam" type="data" format="bam" label="BAM dataset to split by mapped/unmapped"/>
19 </inputs> 19 </inputs>
20 <outputs> 20 <outputs>
21 <data format="bam" name="mapped" label="${input_bam.name} mapped" from_work_dir="split_bam.MAPPED.bam" /> 21 <data format="bam" name="mapped" label="${tool.name} on ${on_string}: mapped" from_work_dir="split_bam.MAPPED.bam" />
22 <data format="bam" name="unmapped" label="${input_bam.name} unmapped" from_work_dir="split_bam.UNMAPPED.bam" /> 22 <data format="bam" name="unmapped" label="${tool.name} on ${on_string}: unmapped" from_work_dir="split_bam.UNMAPPED.bam" />
23 </outputs> 23 </outputs>
24 <tests> 24 <tests>
25 <test> 25 <test>
26 <param name="input_bam" ftype="bam" value="bamtools-input1.bam"/> 26 <param name="input_bam" ftype="bam" value="bamtools-input1.bam"/>
27 <output name="mapped" file="split_bam.MAPPED.bam" compare="sim_size" delta="200" /> 27 <output name="mapped" file="split_bam.MAPPED.bam" compare="sim_size" delta="200" />