From 41de0c8494025c32af60a0f772b755a46b655a0a Mon Sep 17 00:00:00 2001
From: Andrew Yates <ayates@ebi.ac.uk>
Date: Tue, 19 Mar 2013 11:49:56 +0000
Subject: [PATCH] forgot the registry file parameter
---
.../EnsEMBL/Pipeline/PipeConfig/NcbiBlastReIndexer_conf.pm | 7 +++++++
1 file changed, 7 insertions(+)
diff --git a/modules/Bio/EnsEMBL/Pipeline/PipeConfig/NcbiBlastReIndexer_conf.pm b/modules/Bio/EnsEMBL/Pipeline/PipeConfig/NcbiBlastReIndexer_conf.pm
index 78fc86c947..c402253373 100644
--- a/modules/Bio/EnsEMBL/Pipeline/PipeConfig/NcbiBlastReIndexer_conf.pm
+++ b/modules/Bio/EnsEMBL/Pipeline/PipeConfig/NcbiBlastReIndexer_conf.pm
@@ -12,6 +12,7 @@ sub default_options {
# inherit other stuff from the base class
%{ $self->SUPER::default_options() },
+ # 'registry' => '', # registry file still needed for all species
# 'fa_dir' => '', # locate where the current fa files to look for are
# 'base_path' => '', # where do you want your files
@@ -77,6 +78,12 @@ sub pipeline_wide_parameters {
};
}
+# override the default method, to force an automatic loading of the registry in all workers
+sub beekeeper_extra_cmdline_options {
+ my $self = shift;
+ return "-reg_conf ".$self->o("registry");
+}
+
sub resource_classes {
my $self = shift;
return {
--
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