Mercurial > repos > mingchen0919 > aurora_deseq2

annotate expose-outputs-to-galaxy-history.sh @ 1:68d9fe14d4cb draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
author mingchen0919
date Sun, 30 Dec 2018 14:04:26 -0500
parents 55d2db17c67c
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
1 # change directory to tool outputs directory
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
2 cd ${REPORT_FILES_PATH}
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
3
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
4 # copy outputs from tool outputs directory to corresponding galaxy output path
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
5 if [ -e "rmarkdown_report.html" ]; then
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
6 cp rmarkdown_report.html ${REPORT}
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
7 fi
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
8
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
9 if [ -e "index.html" ]; then
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
10 cp index.html ${REPORT}
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
11 fi
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
12
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
13 if [ -e "padj-sorted-significant-genes.txt" ]; then
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
14 cp padj-sorted-significant-genes.txt ${X_J}
55d2db17c67c planemo upload commit 841d8b22bf9f1aaed6bfe8344b60617f45b275b2-dirty
mingchen0919
parents:
diff changeset
15 fi