# HG changeset patch
# User chrisw
# Date 1574217777 0
# Node ID 5656cfea6d97acf9b954cbce9703524e8aaa0737
# Parent ad4b5855143bbd26421e30e8396ffc47b144c03e
Uploaded
diff -r ad4b5855143b -r 5656cfea6d97 Snakefile
--- a/Snakefile Wed Nov 20 00:47:20 2019 +0000
+++ b/Snakefile Wed Nov 20 02:42:57 2019 +0000
@@ -47,7 +47,7 @@
import re
#limit the outputs/steps to only 1) STAR called junctions 2) all reads per-base coverage (BigWigs) 3) all reads exon summarized coverage 4) AUC (for QC)
-STEPS_FILES_FILTER=re.compile(r'(unmapped)|(download)|(salmon)|(extract_jx)|(jx_bed)|(manifest)|(nonref)|(Chimeric)(fastq_check)|(frag)|(unique)')
+STEPS_FILES_FILTER=re.compile(r'(unmapped)|(download)|(salmon)|(extract_jx)|(jx_bed)|(manifest)|(nonref)|(Chimeric)|(fastq_check)|(frag)|(unique)')
def remove_steps_files():
#modify STEP and FILES
#so we don't run download or unmapped steps
diff -r ad4b5855143b -r 5656cfea6d97 monorail.xml
--- a/monorail.xml Wed Nov 20 00:47:20 2019 +0000
+++ b/monorail.xml Wed Nov 20 02:42:57 2019 +0000
@@ -17,28 +17,27 @@