From 4dd99683912236f433166889bb0b5667e9fa936d Mon Sep 17 00:00:00 2001 From: Wen-Wei Liao Date: Tue, 22 Mar 2022 22:53:49 -0400 Subject: [PATCH] Turn on genotype consolidation when using hap mode --- truvari/collapse.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/truvari/collapse.py b/truvari/collapse.py index 8d255c0a..30c700ca 100644 --- a/truvari/collapse.py +++ b/truvari/collapse.py @@ -75,7 +75,7 @@ def collapse_chunk(chunk): for key, val in ret.items(): logging.debug("Collapsing %s", key) - val[0] = collapse_into_entry(val[0], val[1]) + val[0] = collapse_into_entry(val[0], val[1], matcher.hap) ret = list(ret.values()) for i in chunk_dict['__filtered']: