Mercurial > repos > bgruening > hicexplorer_hicvalidatelocations

comparison hicValidateLocations.xml @ 2:61754e6c156d draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 4b602d427e0fc0da5353a4510798349de98e4ae4"
author iuc
date Wed, 11 Mar 2020 17:19:52 -0400
parents f011486cbaaa
children bccefbea9b8d
comparison
equal deleted inserted replaced
1:619805cff065 2:61754e6c156d
4 <token name="@BINARY@">hicValidateLocations</token> 4 <token name="@BINARY@">hicValidateLocations</token>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements" /> 7 <expand macro="requirements" />
8 <command detect_errors="exit_code"><![CDATA[ 8 <command detect_errors="exit_code"><![CDATA[
9 9
10 @BINARY@ 10 @BINARY@
11 --data '$data' 11 --data '$data'
12 --protein '$protein' 12 --protein '$protein'
13 --method loops 13 --method loops
14 --resolution '$resolution' 14 --resolution '$resolution'
25 label="Loop file" 25 label="Loop file"
26 help="The loop file from hicDetectLoops. To use files from other sources, ' 26 help="The loop file from hicDetectLoops. To use files from other sources, '
27 'please follow \'chr start end chr start end\' format." /> 27 'please follow \'chr start end chr start end\' format." />
28 <param argument="--resolution" type="integer" value="" 28 <param argument="--resolution" type="integer" value=""
29 label="Used resolution" 29 label="Used resolution"
30 help='The to be binned resolution.'/> 30 help='The to be binned resolution.'/>
31 31
32 <param name='addChrPrefixLoops' type='boolean' truevalue='--addChrPrefixLoops' falsevalue="" checked="false" label="Add chr prefix to loops." 32 <param name='addChrPrefixLoops' type='boolean' truevalue='--addChrPrefixLoops' falsevalue="" checked="false" label="Add chr prefix to loops."
33 help="Adding a \'chr\'-prefix to chromosome name of the loops."/> 33 help="Adding a \'chr\'-prefix to chromosome name of the loops."/>
34 34
35 <param name='addChrPrefixProtein' type='boolean' truevalue='--addChrPrefixLoops' falsevalue="" checked="false" label="Add chr prefix to protein." 35 <param name='addChrPrefixProtein' type='boolean' truevalue='--addChrPrefixLoops' falsevalue="" checked="false" label="Add chr prefix to protein."
36 help="Adding a \'chr\'-prefix to chromosome name of the protein."/> 36 help="Adding a \'chr\'-prefix to chromosome name of the protein."/>
37 37
38 </inputs> 38 </inputs>
39 <outputs> 39 <outputs>
40 <data name="statistic" from_work_dir="outfile_statistics" format="bed" label="${tool.name} on [${on_string}]: Statistic"/> 40 <data name="statistic" from_work_dir="outfile_statistics" format="bed" label="${tool.name} on [${on_string}]: Statistic"/>
41 <data name="mergedLoops" from_work_dir="outfile_matched_locations" format="bed" label="${tool.name} on [${on_string}]: Matched locations"/> 41 <data name="mergedLoops" from_work_dir="outfile_matched_locations" format="bed" label="${tool.name} on [${on_string}]: Matched locations"/>
42 </outputs> 42 </outputs>