Mercurial > repos > bgruening > deeptools_compute_matrix

comparison computeMatrix.xml @ 12:babca70c3586 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/fidelram/deepTools/tree/master/galaxy/wrapper/ commit 09975f870c75347fba5c6777c9f3b442bdeeb289
author bgruening
date Fri, 31 Mar 2017 09:28:45 -0400
parents 6f334c8bd52f
children 5335711251f6
comparison
equal deleted inserted replaced
11:6b592142ce93 12:babca70c3586
5 <import>deepTools_macros.xml</import> 5 <import>deepTools_macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements" /> 7 <expand macro="requirements" />
8 <command> 8 <command>
9 <![CDATA[ 9 <![CDATA[
10 #import re
10 #import tempfile 11 #import tempfile
11 #set bw_files=[] 12 #set bw_files=[]
12 #for $counter, $bigwig in enumerate($scoreFileName): 13 #for $counter, $bigwig, in enumerate($scoreFileName):
13 ln -s "${bigwig}" "file_${counter}.bw" && 14 #set identifier = re.sub('[^\s\w\-]', '_', str($bigwig.element_identifier))
14 #silent $bw_files.append('file_%s.bw' % $counter) 15 ln -f -s "${bigwig}" "${identifier}_${counter}.bw" &&
16 #silent $bw_files.append('%s_%s.bw' % ($identifier, $counter))
15 #end for 17 #end for
16 18
17 #set bed_files=[] 19 #set bed_files=[]
18 #for $counter, $rf in enumerate($regionsFiles): 20 #for $counter, $rf, in enumerate($regionsFiles):
19 ln -s "${rf.regionsFile}" "group_${counter}.bed" && 21 #set identifier = re.sub('[^\s\w\-]', '_', str($rf.regionsFile.element_identifier))
20 #silent $bed_files.append('group_%s.bed' % $counter) 22 ln -f -s "${rf.regionsFile}" "${identifier}_${counter}.bed" &&
23 #silent $bed_files.append('%s_%s.bed' % ($identifier, $counter))
21 #end for 24 #end for
22 25
23 @BINARY@ 26 @BINARY@
24 27
25 $mode.mode_select 28 $mode.mode_select