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comparison MDSplot/mdsplot.xml @ 8:6bf69b40365c draft

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author dereeper
date Wed, 07 Feb 2018 21:37:59 -0500
parents ec22fcacb66c
children c6640c49fd01
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7:24336e3d3dd8 8:6bf69b40365c
4 <description> IBS matrix / multi-dimensional scaling</description> 4 <description> IBS matrix / multi-dimensional scaling</description>
5 5
6 <!-- [OPTIONAL] 3rd party tools, binaries, modules... required for the tool to work --> 6 <!-- [OPTIONAL] 3rd party tools, binaries, modules... required for the tool to work -->
7 <requirements> 7 <requirements>
8 <requirement type="binary">perl</requirement> 8 <requirement type="binary">perl</requirement>
9 <requirement type="package" version="1.07">plink</requirement> 9 <requirement type="package" version="1.6.924">perl-bioperl</requirement>
10 <requirement type="package" version="1.90b4">plink</requirement>
10 </requirements> 11 </requirements>
11 12
12 <!-- [STRONGLY RECOMMANDED] Exit code rules --> 13 <!-- [STRONGLY RECOMMANDED] Exit code rules -->
13 <stdio> 14 <stdio>
14 <!-- [HELP] If no exit code rule is defined, the tool will stop if anything is written to STDERR --> 15 <!-- [HELP] If no exit code rule is defined, the tool will stop if anything is written to STDERR -->
23 --> 24 -->
24 </version_command> 25 </version_command>
25 26
26 <!-- [REQUIRED] The command to execute --> 27 <!-- [REQUIRED] The command to execute -->
27 <command interpreter="bash"> 28 <command interpreter="bash">
28 mdsplot.sh $fileped $filemap $fileout_matrix $fileout_plot $fileout_log 29 mdsplot.sh $fileped $filemap $fileout_matrix $fileout_plot $fileout_log $groups
29 </command> 30 </command>
30 31
31 <!-- [REQUIRED] Input files and tool parameters --> 32 <!-- [REQUIRED] Input files and tool parameters -->
32 <inputs> 33 <inputs>
33 <param name="fileped" type="data" format="txt" optional="false" label="PED input" /> 34 <param name="fileped" type="data" format="txt" optional="false" label="PED input" />
34 <param name="filemap" type="data" format="txt" optional="false" label="MAP input" help="4 columns tabular file: chromosome, snp id, genetic distance, bp position"/> 35 <param name="filemap" type="data" format="txt" optional="false" label="MAP input" help="4 columns tabular file: chromosome, snp id, genetic distance, bp position"/>
36 <param name="groups" type="data" format="txt" optional="true" label="Groups" help="Groups defined by sNMF"/>
35 <param name="fileout_label" type="text" value="analyse" label="Output name" help="Output name for tabular files" /> 37 <param name="fileout_label" type="text" value="analyse" label="Output name" help="Output name for tabular files" />
36 </inputs> 38 </inputs>
37 39
38 <!-- [REQUIRED] Output files --> 40 <!-- [REQUIRED] Output files -->
39 <outputs> 41 <outputs>