Mercurial > repos > md-anderson-bioinformatics > heat_map_creation

comparison mda_heatmap_gen.xml @ 35:6ad3c487987d draft

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Uploaded ng-chm version 2.5.3 handles java 8 issue and updates to heatmap viewer
author insilico-bob
date Mon, 05 Nov 2018 11:17:23 -0500
parents 58437af2d675
children 11a5827d5559
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34:58437af2d675 35:6ad3c487987d
1 <?xml version="1.0" encoding="UTF-8" ?> 1 <?xml version="1.0" encoding="UTF-8" ?>
2 <tool id="mda_heatmap_gen" name="NG-CHM Generator" version="2.3"> 2 <tool id="mda_heatmap_gen" name="NG-CHM Generator" version="2.5">
3 <requirements> 3 <requirements>
4 <requirement type="package" version="3.4.1">r-base</requirement> 4 <requirement type="package" version="3.4.1">r-base</requirement>
5 <requirement type="package" version="1.8">java</requirement>
5 </requirements> 6 </requirements>
6 <description>Create Clustered Heat Maps</description> 7 <description>Create Clustered Heat Maps</description>
7 <command interpreter="bash" detect_errors="aggressive">$__tool_directory__/heatmap.sh "standard" "Heat_Map_$hmname" "$hmdesc" '$inputmatrix' ${d_rows.rowOrderMethod} ${d_rows.rowDistanceMeasure} ${d_rows.rowAgglomerationMethod} ${d_cols.columnOrderMethod} ${d_cols.columnDistanceMeasure} ${d_cols.columnAgglomerationMethod} $summarymethod '$__tool_directory__;$__tool_data_path__/' 0 0 labels labels 'None' 8 <command interpreter="bash" detect_errors="aggressive">$__tool_directory__/heatmap.sh "standard" "Heat_Map_$hmname" "$hmdesc" '$inputmatrix' ${d_rows.rowOrderMethod} ${d_rows.rowDistanceMeasure} ${d_rows.rowAgglomerationMethod} ${d_cols.columnOrderMethod} ${d_cols.columnDistanceMeasure} ${d_cols.columnAgglomerationMethod} $summarymethod '$__tool_directory__;$__tool_data_path__/' 0 0 labels labels 'None'
8 #for $op in $operations 9 #for $op in $operations
9 ${op.class_name} 10 '${op.class_name}'
10 ${op.repeatinput.file_name} 11 '${op.repeatinput.file_name}'
11 ${op.cat} 12 '${op.cat}'
12 #end for 13 #end for
13 '$output' 14 '$output'
14 </command> 15 </command>
15 <stdio> 16 <stdio>
16 <exit_code range="1:" level="fatal" /> 17 <exit_code range="1:" level="fatal" />