changeset 40:a2fdcf1a2e50 draft

Uploaded
author davidvanzessen
date Tue, 26 Jan 2016 02:58:17 -0500
parents 2e0a7c35082e
children 85566b336a72
files report_clonality/r_wrapper.sh
diffstat 1 files changed, 2 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/report_clonality/r_wrapper.sh	Fri Jan 22 10:54:01 2016 -0500
+++ b/report_clonality/r_wrapper.sh	Tue Jan 26 02:58:17 2016 -0500
@@ -58,7 +58,8 @@
 	circos_file="$outputDir/${sample}_VJ_circos.txt"
 	echo -e -n "labels$(cat ${circos_file})" > ${circos_file}
 	cat "${circos_file}" | $CIRCOSTOOLS/tableviewer/bin/parse-table -configfile $dir/circos/parse-table.conf 2>&1 | $CIRCOSTOOLS/tableviewer/bin/make-conf -dir $outputDir/circos/
-	/home/galaxy/Downloads/circos-master/bin/circos -conf $outputDir/circos/circos.conf 2>&1
+	#/home/galaxy/Downloads/circos-master/bin/circos -conf $outputDir/circos/circos.conf 2>&1
+	circos -conf $outputDir/circos/circos.conf 2>&1
 	mv $outputDir/circos/circos.png $outputDir/circosVJ_${sample}.png