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comparison macs2_refinepeak.xml @ 18:640d3af5d833 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/macs2 commit e8307adcc6ee9245fa2bb9ecb6de1cbe008dc2c3"
author iuc
date Sat, 02 Apr 2022 21:37:38 +0000
parents 424aefbd7777
children 86e2413cf3f8
comparison
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17:424aefbd7777 18:640d3af5d833
1 <tool id="macs2_refinepeak" name="MACS2 refinepeak" version="@VERSION_STRING@.1"> 1 <tool id="macs2_refinepeak" name="MACS2 refinepeak" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01">
2 <description>Refine peak summits and give scores measuring balance of forward- backward tags (Experimental)</description> 2 <description>Refine peak summits and give scores measuring balance of forward- backward tags (Experimental)</description>
3 <expand macro="bio_tools"/>
3 <macros> 4 <macros>
4 <import>macs2_macros.xml</import> 5 <import>macs2_macros.xml</import>
5 </macros> 6 </macros>
6 <expand macro="requirements" /> 7 <expand macro="requirements" />
7 <expand macro="stdio" /> 8 <expand macro="stdio" />
13 -i '${ infile }' 14 -i '${ infile }'
14 --format '${ infile.extension.upper() }' 15 --format '${ infile.extension.upper() }'
15 --cutoff '${ cutoff }' 16 --cutoff '${ cutoff }'
16 --window-size '${ winsize }' 17 --window-size '${ winsize }'
17 --ofile '${ outfile }' 18 --ofile '${ outfile }'
19 @buffer_size@
18 ]]></command> 20 ]]></command>
19 <inputs> 21 <inputs>
20 <param name="infile" type="data" format="bam,bed" label="Sequencing alignment file" /> 22 <param name="infile" type="data" format="bam,bed" label="Sequencing alignment file" />
21 <param name="bed_infile" type="data" format="bed" label="Candidate peak file in BED format" /> 23 <param name="bed_infile" type="data" format="bed" label="Candidate peak file in BED format" />
22 <param name="cutoff" type="float" label="Cutoff" value="5.0" help="default: 5.0 (--cutoff)"/> 24 <param name="cutoff" type="float" label="Cutoff" value="5.0" help="default: 5.0 (--cutoff)"/>
23 <param name="winsize" type="integer" value="200" label="Scan window size on both side of the summit" help="default: 200bp (--window-size)" /> 25 <param name="winsize" type="integer" value="200" label="Scan window size on both side of the summit" help="default: 200bp (--window-size)" />
26 <expand macro="buffer_size"/>
24 </inputs> 27 </inputs>
25 28
26 <outputs> 29 <outputs>
27 <data name="outfile" format="bed" label="${tool.name} on ${on_string}" /> 30 <data name="outfile" format="bed" label="${tool.name} on ${on_string}" />
28 </outputs> 31 </outputs>