From 0e6e9b10bce712923f89c38e826383ed596c2421 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Andreas=20Kusalananda=20K=C3=A4h=C3=A4ri?=
<ak4@sanger.ac.uk>
Date: Thu, 3 Nov 2011 08:54:36 +0000
Subject: [PATCH] Honour the exonerate_concurrent_jobs setting in the config
file (defaults to 200).
---
modules/Bio/EnsEMBL/IdMapping/ExonScoreBuilder.pm | 10 +++++++---
1 file changed, 7 insertions(+), 3 deletions(-)
diff --git a/modules/Bio/EnsEMBL/IdMapping/ExonScoreBuilder.pm b/modules/Bio/EnsEMBL/IdMapping/ExonScoreBuilder.pm
index c2f27f04df..81dffca0e8 100644
--- a/modules/Bio/EnsEMBL/IdMapping/ExonScoreBuilder.pm
+++ b/modules/Bio/EnsEMBL/IdMapping/ExonScoreBuilder.pm
@@ -482,9 +482,13 @@ sub run_exonerate {
$self->logger->info("Submitting $num_jobs exonerate jobs to lsf.\n");
$self->logger->debug("$exonerate_job\n\n");
- my $bsub_cmd = sprintf( "|bsub -J%s[1-%d] -o %s/exonerate.%%I.out %s",
- $lsf_name, $num_jobs, $logpath,
- $self->conf()->param('lsf_opt_exonerate') );
+ my $bsub_cmd = sprintf(
+ "|bsub -J%s[1-%d]%%%d -o %s/exonerate.%%I.out %s",
+ $lsf_name,
+ $num_jobs,
+ $self->conf()->param('exonerate_concurrent_jobs') || 200,
+ $logpath,
+ $self->conf()->param('lsf_opt_exonerate') );
local *BSUB;
open( BSUB, $bsub_cmd )
--
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