From 75940b15e6c498490b2371fc292ca23ce22aa4b5 Mon Sep 17 00:00:00 2001 From: FelixKrueger Date: Mon, 22 May 2017 11:32:00 +0100 Subject: [PATCH] Commented warning message for some ambiguous alignments --- bismark | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/bismark b/bismark index 6743fd9..a1346a4 100755 --- a/bismark +++ b/bismark @@ -25,7 +25,7 @@ use lib "$RealBin/../lib"; my $parent_dir = getcwd(); -my $bismark_version = 'v0.18.0'; +my $bismark_version = 'v0.18.1_dev'; my $start_run = time(); # warn "Run started at: $start_run\n"; my $command_line = join (" ",@ARGV); @@ -4062,7 +4062,7 @@ sub check_bowtie_results_paired_ends_bowtie2{ $amb_same_thread = 1; } else{ - warn "This read pair has a worse alignment score than the best alignment so far and will be ignored even though it is ambiguous in itself\n"; + # warn "This read pair has a worse alignment score than the best alignment so far and will be ignored even though it is ambiguous in itself\n"; } ### if there is a better alignment later on -> fine. If not, the read will get booted altogether one way or another @@ -10322,6 +10322,6 @@ Bismark SAM OUTPUT (default): Each read of paired-end alignments is written out in a separate line in the above format. -Last edited on 03 May 2017 +Last edited on 22 May 2017 HOW_TO }