Mercurial > repos > mingchen0919 > aurora_htseq_site

annotate expose-outputs-to-galaxy-history.sh @ 0:dcf65671e56a draft

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planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
author mingchen0919
date Sun, 30 Dec 2018 12:52:51 -0500
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dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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1 # change directory to tool outputs directory
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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2 cd ${REPORT_FILES_PATH}
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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3
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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4 # copy outputs from tool outputs directory to corresponding galaxy output path
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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5 if [ -e "rmarkdown_report.html" ]; then
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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6 cp rmarkdown_report.html ${REPORT}
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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7 fi
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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8
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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9 if [ -e "index.html" ]; then
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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10 cp index.html ${REPORT}
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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11 fi
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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12
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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13 if [ -e "count_data.csv" ];then
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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14 cp count_data.csv ${X_c}
dcf65671e56a planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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15 fi