From 276194bba52294ec166433f605c2828ed6235431 Mon Sep 17 00:00:00 2001 From: Jody Phelan Date: Tue, 12 Mar 2019 09:48:00 +0000 Subject: [PATCH] add large deletion --- pathogenprofiler/profiler.py | 1 - 1 file changed, 1 deletion(-) diff --git a/pathogenprofiler/profiler.py b/pathogenprofiler/profiler.py index 8617cfc..c094f4c 100644 --- a/pathogenprofiler/profiler.py +++ b/pathogenprofiler/profiler.py @@ -44,7 +44,6 @@ def profiler(conf_file,prefix,r1=None,r2=None,bam_file=None,call_method="low",mi delly_bcf = bam_obj.run_delly() deletions = delly_bcf.overlap_bed(conf["bed"]) results = db_compare(db_file=conf["json_db"],mutations=results,bed_file=conf["bed"],deletions=deletions) - print("asdnjasndasdnbuibdisbaidbaui") else: results = db_compare(db_file=conf["json_db"],mutations=results,bed_file=conf["bed"])