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

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7:24336e3d3dd8

    <description> IBS matrix / multi-dimensional scaling</description>
    
    <!-- [OPTIONAL] 3rd party tools, binaries, modules... required for the tool to work -->
    <requirements>
        <requirement type="binary">perl</requirement>
	<requirement type="package" version="1.07">plink</requirement>
    </requirements>

    <!-- [STRONGLY RECOMMANDED] Exit code rules -->
    <stdio>
            <!-- [HELP] If no exit code rule is defined, the tool will stop if anything is written to STDERR -->

-->
    </version_command>
    
    <!-- [REQUIRED] The command to execute -->
    <command interpreter="bash">
	mdsplot.sh $fileped $filemap $fileout_matrix $fileout_plot $fileout_log
    </command>
   
    <!-- [REQUIRED] Input files and tool parameters -->
    <inputs>
	<param name="fileped" type="data" format="txt" optional="false" label="PED input" />
	<param name="filemap" type="data" format="txt" optional="false" label="MAP input" help="4 columns tabular file: chromosome, snp id, genetic distance, bp position"/>
	<param name="fileout_label" type="text" value="analyse" label="Output name" help="Output name for tabular files" />
    </inputs>
    
    <!-- [REQUIRED] Output files -->
    <outputs>

8:6bf69b40365c

    <description> IBS matrix / multi-dimensional scaling</description>
    
    <!-- [OPTIONAL] 3rd party tools, binaries, modules... required for the tool to work -->
    <requirements>
        <requirement type="binary">perl</requirement>
        <requirement type="package" version="1.6.924">perl-bioperl</requirement>
        <requirement type="package" version="1.90b4">plink</requirement>
    </requirements>

    <!-- [STRONGLY RECOMMANDED] Exit code rules -->
    <stdio>
            <!-- [HELP] If no exit code rule is defined, the tool will stop if anything is written to STDERR -->

-->
    </version_command>
    
    <!-- [REQUIRED] The command to execute -->
    <command interpreter="bash">
	mdsplot.sh $fileped $filemap $fileout_matrix $fileout_plot $fileout_log $groups
    </command>
   
    <!-- [REQUIRED] Input files and tool parameters -->
    <inputs>
	<param name="fileped" type="data" format="txt" optional="false" label="PED input" />
	<param name="filemap" type="data" format="txt" optional="false" label="MAP input" help="4 columns tabular file: chromosome, snp id, genetic distance, bp position"/>
	<param name="groups" type="data" format="txt" optional="true" label="Groups" help="Groups defined by sNMF"/>
	<param name="fileout_label" type="text" value="analyse" label="Output name" help="Output name for tabular files" />
    </inputs>
    
    <!-- [REQUIRED] Output files -->
    <outputs>