Mercurial > repos > devteam > windowsplitter

comparison windowSplitter.xml @ 3:d8515fe22ac8 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/windowsplitter commit 6960b37b09831a1b83f18775677b83a3cc5c2cd0"
author devteam
date Wed, 03 Jun 2020 09:45:06 -0400
parents 592089499ae7
children
comparison
equal deleted inserted replaced
2:592089499ae7 3:d8515fe22ac8
1 <tool id="winSplitter" name="Make windows" version="1.0.0"> 1 <tool id="winSplitter" name="Make windows" version="1.0.1">
2 <description></description> 2 <description></description>
3 <command interpreter="python">windowSplitter.py $input $size $out_file1 ${wintype.choice} ${wintype.offset} -l ${input.metadata.chromCol},${input.metadata.startCol},${input.metadata.endCol},${input.metadata.strandCol}</command> 3 <requirements>
4 <inputs> 4 <requirement type="package" version="0.8.8">bx-python</requirement>
5 <!--<param label="Genome" name="dbkey" type="genomebuild"/>--> 5 </requirements>
6 <param format="interval" name="input" type="data" label="Select data"/> 6 <command>
7 <param name="size" type="integer" value="500" label="Window size"/> 7 python $__tool_directory__/windowSplitter.py
8 <conditional name="wintype"> 8 $input
9 <param name="choice" type="select" label="Make sliding windows?"> 9 $size
10 <option value="0" selected="true">No</option> 10 $out_file1
11 <option value="1">Yes</option> 11 ${wintype.choice}
12 </param> 12 ${wintype.offset}
13 <when value="0"> 13 -l ${input.metadata.chromCol},${input.metadata.startCol},${input.metadata.endCol},${input.metadata.strandCol}
14 <param name="offset" type="hidden" value="0" /> 14 </command>
15 </when> 15 <inputs>
16 <when value="1"> 16 <!--<param label="Genome" name="dbkey" type="genomebuild"/>-->
17 <param name="offset" type="integer" value="10" label="Offset size"/> 17 <param format="interval" name="input" type="data" label="Select data"/>
18 </when> 18 <param name="size" type="integer" value="500" label="Window size"/>
19 </conditional> 19 <conditional name="wintype">
20 </inputs> 20 <param name="choice" type="select" label="Make sliding windows?">
21 <outputs> 21 <option value="0" selected="true">No</option>
22 <data format="interval" name="out_file1" metadata_source="input"/> 22 <option value="1">Yes</option>
23 </outputs> 23 </param>
24 <tests> 24 <when value="0">
25 <test> 25 <param name="offset" type="hidden" value="0" />
26 <param name="input" value="4.bed"/> 26 </when>
27 <param name="size" value="5000"/> 27 <when value="1">
28 <param name="choice" value="1"/> 28 <param name="offset" type="integer" value="10" label="Offset size"/>
29 <param name="offset" value="4000"/> 29 </when>
30 <output name="out_file1" file="4_windows.bed"/> 30 </conditional>
31 </test> 31 </inputs>
32 </tests> 32 <outputs>
33 <help> 33 <data format="interval" name="out_file1" metadata_source="input"/>
34 </outputs>
35 <tests>
36 <test>
37 <param name="input" value="4.bed"/>
38 <param name="size" value="5000"/>
39 <param name="choice" value="1"/>
40 <param name="offset" value="4000"/>
41 <output name="out_file1" file="4_windows.bed"/>
42 </test>
43 </tests>
44 <help>
34 45
35 .. class:: infomark 46 .. class:: infomark
36 47
37 **What it does** 48 **What it does**
38 49
96 chr22 2000 3000 NM_174568 0 + 107 chr22 2000 3000 NM_174568 0 +
97 chr22 2500 3500 NM_174568 0 + 108 chr22 2500 3500 NM_174568 0 +
98 chr22 3000 4000 NM_174568 0 + 109 chr22 3000 4000 NM_174568 0 +
99 chr22 3500 4500 NM_174568 0 + 110 chr22 3500 4500 NM_174568 0 +
100 111
101 </help> 112 </help>
102
103
104 </tool> 113 </tool>