Mercurial > repos > bgruening > deeptools_plot_coverage

comparison plotCoverage.xml @ 15:582a05c586ba draft

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planemo upload for repository https://github.com/fidelram/deepTools/tree/master/galaxy/wrapper/ commit 43d23f495200449aec91a41fd537603014aa93ba-dirty
author bgruening
date Sun, 24 Apr 2016 14:47:45 -0400
parents 752d2d85e6af
children 4e9fb57c5e7d
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14:8fefd05b0e3f 15:582a05c586ba
15 @BINARY@ 15 @BINARY@
16 16
17 @THREADS@ 17 @THREADS@
18 18
19 --plotFile '$outFileName' 19 --plotFile '$outFileName'
20 --bamfiles '#echo "' '".join($files)#' 20 --bamfiles #echo " ".join($files)#
21 --labels '#echo "' '".join($labels)#' 21 --labels #echo " ".join($labels)#
22 --plotFileFormat "$outFileFormat" 22 --plotFileFormat "$outFileFormat"
23 23
24 #if $outRawCounts: 24 #if $outRawCounts:
25 --outRawCounts '$outFileRawCounts' 25 --outRawCounts '$outFileRawCounts'
26 #end if 26 #end if
74 <filter>outRawCounts is True</filter> 74 <filter>outRawCounts is True</filter>
75 </data> 75 </data>
76 </outputs> 76 </outputs>
77 <tests> 77 <tests>
78 <test> 78 <test>
79 <param name="bamfiles" value="bowtie2-test1.bam,bowtie2-test1.bam" ftype="bam" /> 79 <param name="bamfiles" value="bowtie2 test1.bam,bowtie2 test1.bam" ftype="bam" />
80 <!--param name="outFileFormat" value="png" /--> 80 <!--param name="outFileFormat" value="png" /-->
81 <param name="showAdvancedOpt" value="yes" /> 81 <param name="showAdvancedOpt" value="yes" />
82 <param name="plotTitle" value="Test Title from Galaxy" /> 82 <param name="plotTitle" value="Test Title from Galaxy" />
83 <param name="outRawCounts" value="True" /> 83 <param name="outRawCounts" value="True" />
84 <output name="outFileRawCounts" file="plotCoverage_result1.tabular" ftype="tabular" /> 84 <output name="outFileRawCounts" file="plotCoverage_result1.tabular" ftype="tabular" />
85 <output name="outFileName" file="plotCoverage_result1.png" ftype="png" compare="sim_size" delta="2200" /> 85 <output name="outFileName" file="plotCoverage_result1.png" ftype="png" compare="sim_size" delta="2400" />
86 </test> 86 </test>
87 </tests> 87 </tests>
88 <help> 88 <help>
89 <![CDATA[ 89 <![CDATA[
90 What it does 90 What it does