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comparison deepTools_macros.xml @ 40:20f8dafb554f draft

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Uploaded
author bgruening
date Mon, 03 Feb 2014 12:38:00 -0500
parents 9afae9d021cd
children c5787c91cab8
comparison
equal deleted inserted replaced
39:62786277147a 40:20f8dafb554f
1 <macros> 1 <macros>
2 <xml name="bamCorrelate_mode_actions"> 2 <xml name="bamCorrelate_mode_actions">
3 <param name="region" type="text" value="" 3
4 label="Region of the genome to limit the operation to" 4 <expand macro="region_limit_operation" />
5 help="This is useful when testing parameters to reduce the computing time. The format is chr:start:end, for example &quot;chr10&quot; or &quot;chr10:456700:891000&quot;" />
6 5
7 <conditional name="advancedOpt"> 6 <conditional name="advancedOpt">
8 <param name="showAdvancedOpt" type="select" label="Show advanced options" > 7 <param name="showAdvancedOpt" type="select" label="Show advanced options" >
9 <option value="no" selected="true">no</option> 8 <option value="no" selected="true">no</option>
10 <option value="yes">yes</option> 9 <option value="yes">yes</option>
35 34
36 <expand macro="colormap" /> 35 <expand macro="colormap" />
37 </when> 36 </when>
38 </conditional> 37 </conditional>
39 </xml> 38 </xml>
39
40 <xml name="region_limit_operation">
41 <param name="region" type="text" value=""
42 label="Region of the genome to limit the operation to"
43 help="This is useful when testing parameters to reduce the computing time. The format is chr:start:end, for example &quot;chr10&quot; or &quot;chr10:456700:891000&quot;" />
44 </xml>
45
40 <token name="@THREADS@">--numberOfProcessors "\${GALAXY_SLOTS:-4}"</token> 46 <token name="@THREADS@">--numberOfProcessors "\${GALAXY_SLOTS:-4}"</token>
41 <xml name="requirements"> 47 <xml name="requirements">
42 <requirements> 48 <requirements>
43 <requirement type="binary">@BINARY@</requirement> 49 <requirement type="binary">@BINARY@</requirement>
44 <requirement type="package" >samtools</requirement> 50 <requirement type="package" >samtools</requirement>
45 <requirement type="package" >deepTools</requirement> 51 <requirement type="package" >deepTools</requirement>
46 <requirement type="package" >ucsc_tools</requirement> 52 <requirement type="package" >ucsc_tools</requirement>
47 <requirement type="package" version="1.5.4_b2b025a382f00f05c46cabc16d2cbe90dbb5d63a">deepTools</requirement> 53 <requirement type="package" version="1.5.4_1093b2d281576f23ee04740bd5eae3f7b8422f7e">deepTools</requirement>
48 <requirement type="package" version="0.1">ucsc_tools</requirement> 54 <requirement type="package" version="0.1">ucsc_tools</requirement>
49 <requirement type="package" version="1.7.1">numpy</requirement> 55 <requirement type="package" version="1.7.1">numpy</requirement>
50 <requirement type="package" version="0.7.7">pysam</requirement> 56 <requirement type="package" version="0.7.7">pysam</requirement>
51 <requirement type="package" version="0.12.0">scipy</requirement> 57 <requirement type="package" version="0.12.0">scipy</requirement>
52 <requirement type="package" version="1.2.1">matplotlib</requirement> 58 <requirement type="package" version="1.2.1">matplotlib</requirement>