modified: cre.filter_by_ensembl_gene_id.py

modified: cre.sh
naumenko-sa · Jul 26, 2018 · 406d264 · 406d264
1 parent 6e7e6a6
commit 406d264
Show file tree

Hide file tree

Showing 2 changed files with 2 additions and 1 deletion.
diff --git a/cre.filter_by_ensembl_gene_id.py b/cre.filter_by_ensembl_gene_id.py
@@ -27,6 +27,7 @@
 	with open(panel_report,'w') as f_panel_report:
 
 	    f_panel_report.write('"'+'","'.join(header)+'"')
+	    f_panel_report.write('\n')
 	    for row in reader:
 		if (row['Ensembl_gene_id'] in genes):
 		    row['UCSC_Link'] = 'UCSC_Link' #a bug with quotes

diff --git a/cre.sh b/cre.sh
@@ -100,7 +100,7 @@ function f_make_report
 	export depth_threshold=10
 	export severity_filter=ALL
     else
-	export depth_threshold=10
+	export depth_threshold=5
 	export severity_filter=HIGHMED
     fi