Mercurial > repos > bgruening > deeptools_multi_bam_summary

comparison multiBamSummary.xml @ 6:b319edc108a7 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 16:21:06 -0400
parents f2a582e0314d
children 6f67a9da7fce
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5:f89672f49f94 6:b319edc108a7
14 @BINARY@ 14 @BINARY@
15 $mode.modeOpt 15 $mode.modeOpt
16 @THREADS@ 16 @THREADS@
17 17
18 --outFileName '$outFile' 18 --outFileName '$outFile'
19 --bamfiles '#echo "' '".join($files)#' 19 --bamfiles #echo " ".join($files)#
20 --labels '#echo "' '".join($labels)#' 20 --labels #echo " ".join($labels)#
21 21
22 #if $outRawCounts: 22 #if $outRawCounts:
23 --outRawCounts '$outFileRawCounts' 23 --outRawCounts '$outFileRawCounts'
24 #end if 24 #end if
25 25
83 <filter>outRawCounts is True</filter> 83 <filter>outRawCounts is True</filter>
84 </data> 84 </data>
85 </outputs> 85 </outputs>
86 <tests> 86 <tests>
87 <test> 87 <test>
88 <param name="bamfiles" value="bowtie2-test1.bam,bowtie2-test1.bam" ftype="bam" /> 88 <param name="bamfiles" value="bowtie2 test1.bam,bowtie2 test1.bam" ftype="bam" />
89 <param name="modeOpt" value="bins" /> 89 <param name="modeOpt" value="bins" />
90 <param name="binSize" value="10" /> 90 <param name="binSize" value="10" />
91 <output name="outFile" file="multiBamSummary_result1.npz" ftype="deeptools_coverage_matrix" compare="sim_size" /> 91 <output name="outFile" file="multiBamSummary_result1.npz" ftype="deeptools_coverage_matrix" compare="sim_size" />
92 </test> 92 </test>
93 <test> 93 <test>
94 <param name="bamfiles" value="bowtie2-test1.bam,bowtie2-test1.bam" ftype="bam" /> 94 <param name="bamfiles" value="bowtie2 test1.bam,bowtie2 test1.bam" ftype="bam" />
95 <param name="modeOpt" value="BED-file" /> 95 <param name="modeOpt" value="BED-file" />
96 <param name="region_file" value="multiBamSummary_regions.bed" /> 96 <param name="region_file" value="multiBamSummary_regions.bed" />
97 <output name="outFile" file="multiBamSummary_result2.npz" ftype="deeptools_coverage_matrix" compare="sim_size" /> 97 <output name="outFile" file="multiBamSummary_result2.npz" ftype="deeptools_coverage_matrix" compare="sim_size" />
98 </test> 98 </test>
99 99