Mercurial > repos > davidvanzessen > argalaxy_tools

comparison report_clonality/r_wrapper.sh @ 1:90a05ff900db draft

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author davidvanzessen
date Mon, 05 Sep 2016 04:46:06 -0400
parents afe85eb6572e
children 4f8a1d121384
comparison
equal deleted inserted replaced
0:afe85eb6572e 1:90a05ff900db
52 52
53 mkdir $outputDir/circos 53 mkdir $outputDir/circos
54 cp $dir/circos/* $outputDir/circos/ 54 cp $dir/circos/* $outputDir/circos/
55 CIRCOSTOOLS="/data/galaxy/galaxy-dist/toolsheddependencies/circos/0.64/saskia-hiltemann/cg_circos_plots/bbfdd52d64fd/circos-tools-0.21/tools" 55 CIRCOSTOOLS="/data/galaxy/galaxy-dist/toolsheddependencies/circos/0.64/saskia-hiltemann/cg_circos_plots/bbfdd52d64fd/circos-tools-0.21/tools"
56 CIRCOSDIR="/data/galaxy/galaxy-dist/toolsheddependencies/circos/0.64/saskia-hiltemann/cg_circos_plots/bbfdd52d64fd/bin/" 56 CIRCOSDIR="/data/galaxy/galaxy-dist/toolsheddependencies/circos/0.64/saskia-hiltemann/cg_circos_plots/bbfdd52d64fd/bin/"
57
58 CIRCOSTOOLS="/home/galaxy/circos/circos-tools-0.22/tools"
59 CIRCOSDIR="/home/galaxy/Anaconda3/bin"
60
57 USECIRCOS="no" 61 USECIRCOS="no"
58 if [ -d "$CIRCOSDIR" ]; then 62 if [ -d "$CIRCOSDIR" ]; then
59 USECIRCOS="yes" 63 USECIRCOS="yes"
60 fi 64 fi
61 echo "Using Circos: $USECIRCOS" 65 echo "Using Circos: $USECIRCOS"