Mercurial > repos > mingchen0919 > aurora_star_site

annotate expose-outputs-to-galaxy-history.sh @ 5:9681e90f3e28 draft

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planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b-dirty
author mingchen0919
date Tue, 01 May 2018 11:15:25 -0400
parents 42f9bad52d54
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
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1 # change directory to tool outputs directory
42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
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2 cd ${REPORT_FILES_PATH}
42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
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42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
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4 # copy outputs from tool outputs directory to corresponding galaxy output path
42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
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5 if [ -e "rmarkdown_report.html" ]; then
42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
mingchen0919
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6 cp rmarkdown_report.html ${REPORT}
42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
mingchen0919
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7 fi
42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
mingchen0919
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42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
mingchen0919
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9 if [ -e "index.html" ]; then
42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
mingchen0919
parents:
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10 cp index.html ${REPORT}
42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
mingchen0919
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11 fi
42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
mingchen0919
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42f9bad52d54 planemo upload commit 104ae24ee30761a0099eeb91362ed1e3e13aba4b
mingchen0919
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13 cp Aligned.out.sorted.bam ${X_S}