Mercurial > repos > mingchen0919 > aurora_skewer

changeset 12:1a7af4f6b101 draft

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planemo upload commit 61448862dc9016969191967aeefb7f7acce1e1f9-dirty
author mingchen0919
date Tue, 01 May 2018 00:42:45 -0400
parents 70de0b9c4c76
children 151de1ea4d96
files build-and-run-job-scripts.sh rmarkdown_report.Rmd
diffstat 2 files changed, 3 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/build-and-run-job-scripts.sh	Tue May 01 00:28:38 2018 -0400
+++ b/build-and-run-job-scripts.sh	Tue May 01 00:42:45 2018 -0400
@@ -2,7 +2,7 @@
 cd ${REPORT_FILES_PATH}
 
 #========== build and run job 1 script ============
-cat >job-1-script.sh <<EOF
+cat >temp.sh <<EOF
 skewer \\
 	${X_A} \\
 	${X_B} \\
@@ -25,7 +25,7 @@
 	-qiime ${X_E} \\
 	-quiet ${X_F} \\
 	-i ${X_i} \\
-	-o trim > /dev/null 2>&1
+	-o trim > skewer.log.txt 2>&1
 EOF
 
 # remove empty input lines
--- a/rmarkdown_report.Rmd	Tue May 01 00:28:38 2018 -0400
+++ b/rmarkdown_report.Rmd	Tue May 01 00:42:45 2018 -0400
@@ -1,5 +1,5 @@
 ---
-title: 'Aurora Tool Report'
+title: 'Aurora Skewer Report'
 output:
     html_document:
       highlight: pygments