Mercurial > repos > bgruening > hicexplorer_hicplotdistvscounts

comparison hicPlotDistVsCounts.xml @ 15:a370923a657f draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit fa19d3b6a9d0160a13f8d1e4a99f20c4dbe937b2"
author iuc
date Mon, 16 Dec 2019 22:33:44 +0000
parents a0f796482cff
children 746becb5d022
comparison
equal deleted inserted replaced
14:a0f796482cff 15:a370923a657f
9 #import re 9 #import re
10 #set matrices_path=[] 10 #set matrices_path=[]
11 #set matrices_labels=[] 11 #set matrices_labels=[]
12 #for $counter, $m, in enumerate($matrices): 12 #for $counter, $m, in enumerate($matrices):
13 #set identifier = re.sub('[^\s\w\-]', '_', str($m.element_identifier)) 13 #set identifier = re.sub('[^\s\w\-]', '_', str($m.element_identifier))
14 ln -f -s '${m}' '${identifier}_${counter}' && 14 ln -f -s '${m}' '${identifier}_${counter}.$m.ext' &&
15 #silent $matrices_path.append("'%s_%s'" % ($identifier, $counter)) 15 #silent $matrices_path.append("'%s_%s.%s'" % ($identifier, $counter, $m.ext))
16 #silent $matrices_labels.append("'%s'" % ($identifier)) 16 #silent $matrices_labels.append("'%s'" % ($identifier))
17 #end for 17 #end for
18 18
19 @BINARY@ 19 @BINARY@
20 --matrices #echo " ".join($matrices_path)# 20 --matrices #echo " ".join($matrices_path)#
62 <filter>outFileData_Boolean</filter> 62 <filter>outFileData_Boolean</filter>
63 </data> 63 </data>
64 </outputs> 64 </outputs>
65 <tests> 65 <tests>
66 <test> 66 <test>
67 <param name="matrices" ftype="h5" value="small_test_matrix_50kb_res.h5"/> 67 <param name="matrices" ftype="h5" value="small_test_matrix.h5"/>
68 <param name="skipDiagonal" value="False"/> 68 <param name="skipDiagonal" value="False"/>
69 <output name="plotFile" file="hicPlotDistVsCounts_result1.png" ftype="png" compare="sim_size"/> 69 <output name="plotFile" file="hicPlotDistVsCounts_result1.png" ftype="png" compare="sim_size"/>
70 </test> 70 </test>
71 <test> 71 <test>
72 <param name="matrices" ftype="h5" value="small_test_matrix_50kb_res.h5"/> 72 <param name="matrices" ftype="h5" value="small_test_matrix.h5"/>
73 <param name="skipDiagonal" value="False"/> 73 <param name="skipDiagonal" value="False"/>
74 <param name='outFileData_Boolean' value='True'/> 74 <param name='outFileData_Boolean' value='True'/>
75 <output name="plotFile" file="hicPlotDistVsCounts_result1.png" ftype="png" compare="sim_size"/> 75 <output name="plotFile" file="hicPlotDistVsCounts_result1.png" ftype="png" compare="sim_size"/>
76 <output name="outFileData" file="distVsCounts.txt" ftype="txt" compare="sim_size" delta='600'/> 76 <output name="outFileData" file="distVsCounts.txt" ftype="txt" compare="sim_size" delta='600'/>
77 </test> 77 </test>
78 <test> 78 <test>
79 <param name="matrices" ftype="h5" value="small_test_matrix_50kb_res.h5,small_test_matrix_50kb_res.h5"/> 79 <param name="matrices" ftype="h5" value="small_test_matrix.h5,small_test_matrix.h5"/>
80 <param name="skipDiagonal" value="False"/> 80 <param name="skipDiagonal" value="False"/>
81 <param name="perchr" value="True" /> 81 <param name="perchr" value="True" />
82 <repeat name="chromosomeExclude"> 82 <repeat name="chromosomeExclude">
83 <param name="chromosomeExclude" value="chrUextra"/> 83 <param name="chromosomeExclude" value="chrUextra"/>
84 </repeat> 84 </repeat>