Mercurial > repos > bornea > dotplot_runner

comparison dotplot_runner.xml @ 2:01854b858767 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author bornea
date Fri, 29 Jan 2016 09:57:38 -0500
parents
children dc2aed283637
comparison
equal deleted inserted replaced
1:7e98f893e9ae 2:01854b858767
1 <tool id="dotplot_runner" name="Dotplot ProHits">
2 <description></description>
3 <command interpreter="python">dotplot_runner.py $saint_file $FDR1 $FDR2 $spec_max $dotplot $heatmap $estimated $stats \$INSTALL_RUN_PATH/</command>
4 <requirements>
5 <requirement type="set_environment">INSTALL_RUN_PATH</requirement>
6 </requirements>
7 <inputs>
8 <param format="txt" name="saint_file" type="data" label="SAINT Output"/>
9 <param type="float" name="FDR1" label="False Discovery Rate 1" value="0.01"/>
10 <param type="float" name="FDR2" label="False Discovery Rate 2" value="0.025"/>
11 <param type="integer" name="spec_max" label="Maximum spectral count" value="50"/>
12 </inputs>
13 <outputs>
14 <data format="pdf" name="dotplot" label="DotPlot" />
15 <data format="pdf" name="heatmap" label="Heatmap" />
16 <data format="pdf" name="estimated" label="Estimated" />
17 <data format="pdf" name="stats" label="Stats" />
18 </outputs>
19 <stdio>
20 <regex match="Error|error"
21 source="stdout"
22 level="fatal"
23 description="Unknown error"/>
24 <regex match="Error|error"
25 source="stderr"
26 level="fatal"
27 description="Unknown error"/>
28 <regex match="Error: bad bait"
29 source="stdout"
30 level="fatal"
31 description="Error: bad bait"/>
32 </stdio>
33
34 <tests>
35 <test>
36 <param name="input" value="fa_gc_content_input.fa"/>
37 <output name="out_file1" file="fa_gc_content_output.txt"/>
38 </test>
39 </tests>
40 <help>
41 </help>
42 </tool>