Mercurial > repos > mingchen0919 > aurora_deseq2

annotate expose-outputs-to-galaxy-history.sh @ 0:55d2db17c67c draft

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planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
author mingchen0919
date Fri, 14 Dec 2018 00:21:26 -0500
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55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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1 # change directory to tool outputs directory
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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2 cd ${REPORT_FILES_PATH}
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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3
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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4 # copy outputs from tool outputs directory to corresponding galaxy output path
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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5 if [ -e "rmarkdown_report.html" ]; then
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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6 cp rmarkdown_report.html ${REPORT}
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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7 fi
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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8
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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9 if [ -e "index.html" ]; then
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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10 cp index.html ${REPORT}
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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11 fi
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
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12
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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13 if [ -e "padj-sorted-significant-genes.txt" ]; then
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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14 cp padj-sorted-significant-genes.txt ${X_J}
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
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15 fi