Mercurial > repos > jbrayet > annotatepeaks_1_0_docker

comparison annotatePeaks_wrapper.sh @ 3:dc07f8316977 draft default tip

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author jbrayet
date Mon, 04 Jan 2016 10:39:46 -0500
parents 246cbd0f39d0
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2:87661dd14297 3:dc07f8316977
85 85
86 LOCAL_PATH=`( cd -P $(dirname $0); pwd)` 86 LOCAL_PATH=`( cd -P $(dirname $0); pwd)`
87 DOCKER_PATH='/usr/bin/annotatePeaks' 87 DOCKER_PATH='/usr/bin/annotatePeaks'
88 88
89 OUTPUT_DIR=`dirname $OUTPUT` 89 OUTPUT_DIR=`dirname $OUTPUT`
90 R_PATH='/usr/bin/R-3.1.0/bin/Rscript --slave ' 90 R_PATH='Rscript --slave '
91 91
92 databasePath=$(find / -type d -name files | grep database) 92 databasePath=$(find / -type d -name files | grep database)
93 93
94 mkdir -p $databasePath/nebulaAnnotations 94 mkdir -p $databasePath/nebulaAnnotations
95 mkdir -p $databasePath/nebulaAnnotations/noIdenticalTransc 95 mkdir -p $databasePath/nebulaAnnotations/noIdenticalTransc