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annotate build-and-run-job-scripts.sh @ 3:9d42c3633b3f draft

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planemo upload for repository https://github.com/feltus/BDSS
author mingchen0919
date Mon, 11 Jun 2018 23:50:58 -0400
parents 0d15928a648c
children f54745885931
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b12c945daf86 planemo upload for repository https://github.com/feltus/BDSS
mingchen0919
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1 # run job scripts within the tool outputs directory
b12c945daf86 planemo upload for repository https://github.com/feltus/BDSS
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2 cd ${REPORT_FILES_PATH}
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a110308993be planemo upload for repository https://github.com/feltus/BDSS
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3 mkdir download_dir
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b12c945daf86 planemo upload for repository https://github.com/feltus/BDSS
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a110308993be planemo upload for repository https://github.com/feltus/BDSS
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5 #========== build and run bdss-download.sh script ============
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0d15928a648c planemo upload for repository https://github.com/feltus/BDSS
mingchen0919
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6 echo 'for u in $(echo $X_u | sed "s/,/ /g");' > bdss-download.sh
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a110308993be planemo upload for repository https://github.com/feltus/BDSS
mingchen0919
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7 echo 'do' >> bdss-download.sh
a110308993be planemo upload for repository https://github.com/feltus/BDSS
mingchen0919
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8 echo ' bdss transfer --destination download_dir -u $u' >> bdss-download.sh
a110308993be planemo upload for repository https://github.com/feltus/BDSS
mingchen0919
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9 echo 'done' >> bdss-download.sh
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b12c945daf86 planemo upload for repository https://github.com/feltus/BDSS
mingchen0919
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b12c945daf86 planemo upload for repository https://github.com/feltus/BDSS
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0d15928a648c planemo upload for repository https://github.com/feltus/BDSS
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12 echo 'export PATH=/main/sites/galaxy/galaxy/tools/_conda/bin:$PATH'
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b12c945daf86 planemo upload for repository https://github.com/feltus/BDSS
mingchen0919
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13 sh bdss-download.sh