From 831c28699b02915bcfff0312a64549a310f812bf Mon Sep 17 00:00:00 2001 From: Sergey Koren Date: Fri, 28 Jun 2024 10:16:25 -0400 Subject: [PATCH] use new popbubbles args --- src/Snakefiles/5-untip.sm | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/src/Snakefiles/5-untip.sm b/src/Snakefiles/5-untip.sm index 9849bce2..8bec798f 100644 --- a/src/Snakefiles/5-untip.sm +++ b/src/Snakefiles/5-untip.sm @@ -102,8 +102,8 @@ echo Fix coverage echo Pop bubbles based on coverage {PYTHON} {VERKKO}/scripts/pop_bubbles_coverage_based.py \\\\ + unitig-connected-tip.gfa \\\\ ./nodecov_hifi_fix.csv {params.haploid} \\\\ -< unitig-connected-tip.gfa \\\\ > popped-connected-tip.gfa \\\\ 2> popinfo_round1.err @@ -151,8 +151,8 @@ echo Fix coverage echo Pop bubbles based on coverage round 2 {PYTHON} {VERKKO}/scripts/pop_bubbles_coverage_based.py \\\\ + unitig-unrolled-popped-connected-tip.gfa \\\\ ./nodecov_hifi_fix.csv {params.haploid} \\\\ - < unitig-unrolled-popped-connected-tip.gfa \\\\ > popped-unitig-unrolled-popped-connected-tip.gfa \\\\ 2> popinfo_round2.err