From 387e6804b5958f07574f91dc7668f7a509140e59 Mon Sep 17 00:00:00 2001
From: Cedric Cabau <cedric.cabau@inra.fr>
Date: Tue, 21 May 2019 17:47:44 +0200
Subject: [PATCH] Modify regex in sub dbg_complete for Trinity-v2.8
compatibility
---
bin/AsmUtils.pm | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/bin/AsmUtils.pm b/bin/AsmUtils.pm
index 6fc59d4..646a710 100644
--- a/bin/AsmUtils.pm
+++ b/bin/AsmUtils.pm
@@ -402,7 +402,7 @@ sub dbg_complete {
} else {
my $log = get_more_recent_file("$opt->{outdir}/err_log", 'j2-.*\.o\d+$');
my $err = get_more_recent_file("$opt->{outdir}/err_log", 'j2-.*\.e\d+$');
- return [0, 3, $log] if (count_inside_file($log, "^Butterfly assemblies are written to ") == 0);
+ return [0, 3, $log] if (count_inside_file($log, "^(Butterfly|Trinity) assemblies are written to ") == 0);
return [0, 'empty', "$opt->{dir_list}->[0]/Trinity.fasta"] unless (-s "$opt->{dir_list}->[0]/Trinity.fasta");
return [0, 'error', $err] unless (-z $err);
return [0, 'qacct', get_job_id($log)] if (!$opt->{local} && qacct_status(get_job_id($log)) == 1);
--
GitLab