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comparison PlotAdjacencyMatrix.xml @ 0:8adf6ccd1077 draft

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author bornea
date Wed, 18 Oct 2017 15:29:03 -0400
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1 <tool id="plot_adjacency" name="Plot Adjacency Matrix">
2 <description></description>
3 <command interpreter="python">plot_adjacency.py $node_attr $edges $Adjacency \$INSTALL_RUN_PATH/</command>
4 <requirements>
5 <requirement type="set_environment">INSTALL_RUN_PATH</requirement>
6 </requirements>
7 <inputs>
8 <param format="tabular" name="node_attr" type="data" label="Node Attribute File"/>
9 <param type="sif" name="edges" type = data label="Network File"/>
10 </inputs>
11 <outputs>
12 <data format="html" name="Adjacency" label="Adjacency Matrix"/>
13 </outputs>
14 <stdio>
15 <regex match="Error|error"
16 source="stdout"
17 level="fatal"
18 description="Unknown error"/>
19 <regex match="Error|error"
20 source="stderr"
21 level="fatal"
22 description="Unknown error"/>
23 </stdio>
24
25 <tests>
26 <test>
27 <param name="input" value="fa_gc_content_input.fa"/>
28 <output name="out_file1" file="fa_gc_content_output.txt"/>
29 </test>
30 </tests>
31 <help>
32 Plot Adjacency Matrix
33 ----------------------------------------
34
35 This tool reads in a network SIF file and it's corresponding node attributes
36 and plots an interactive adjacency matrix in HMTL format
37
38 **1) Node Attributes File **
39 This file must be output from Network Attributes Tool of the network
40 file being input below.
41
42 **2) Network File**
43
44 Please input a network SIF file matching the Node Attribute file above
45 </help>
46 </tool>