Mercurial > repos > bgruening > hicexplorer_hicmergeloops

comparison hicMergeLoops.xml @ 8:1511a8ebe906 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
author iuc
date Wed, 18 Oct 2023 11:01:55 +0000
parents 94b552c6830a
children ed900cd4a0a9
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7:420868438a99 8:1511a8ebe906
15 --inputFiles $m 15 --inputFiles $m
16 --lowestResolution $lowestResolution 16 --lowestResolution $lowestResolution
17 --outFileName merged_loops.bedgraph 17 --outFileName merged_loops.bedgraph
18 ]]> </command> 18 ]]> </command>
19 <inputs> 19 <inputs>
20 <param argument="--inputFiles" type="data" format='bed' multiple="true" label="Loop files to merge" help="The loop files from hicDetectLoops. To use files from other sources, 20 <param argument="--inputFiles" type="data" format="bed" multiple="true" label="Loop files to merge" help="The loop files from hicDetectLoops. To use files from other sources,
21 please follow \'chr start end chr start end\' format and remove any header." /> 21 please follow \'chr start end chr start end\' format and remove any header." />
22 <param argument="--lowestResolution" type="integer" value="" label="Lowest used resolution" help='The lowest resolution of all loop files, i.e. 5kb, 10kb and 25kb, please use 25000.' /> 22 <param argument="--lowestResolution" type="integer" value="" label="Lowest used resolution" help="The lowest resolution of all loop files, i.e. 5kb, 10kb and 25kb, please use 25000." />
23 </inputs> 23 </inputs>
24 <outputs> 24 <outputs>
25 <data name="mergedLoops" from_work_dir="merged_loops.bedgraph" format="bed" label="${tool.name} on [${on_string}]: Merged loops" /> 25 <data name="mergedLoops" from_work_dir="merged_loops.bedgraph" format="bed" label="${tool.name} on [${on_string}]: Merged loops" />
26 </outputs> 26 </outputs>
27 <tests> 27 <tests>
28 <test> 28 <test>
29 <param name="inputFiles" ftype='bed' value="hicMergeLoops/gm12878_10kb.bedgraph,hicMergeLoops/gm12878_5kb.bedgraph,hicMergeLoops/gm12878_25kb.bedgraph" /> 29 <param name="inputFiles" ftype="bed" value="hicMergeLoops/gm12878_10kb.bedgraph,hicMergeLoops/gm12878_5kb.bedgraph,hicMergeLoops/gm12878_25kb.bedgraph" />
30 <param name="lowestResolution" value="25000" /> 30 <param name="lowestResolution" value="25000" />
31 <output name="mergedLoops" file="hicMergeLoops/gm12878_all.bedgraph" ftype="bed" /> 31 <output name="mergedLoops" file="hicMergeLoops/gm12878_all.bedgraph" ftype="bed" />
32 </test> 32 </test>
33 </tests> 33 </tests>
34 <help><![CDATA[ 34 <help><![CDATA[