From 65cf83efe7d395449f3855f4be3a865ace579582 Mon Sep 17 00:00:00 2001
From: Andrew Yates <ayates@ebi.ac.uk>
Date: Tue, 12 Jun 2012 13:25:57 +0000
Subject: [PATCH] gave the wrong object. needed to give it a file path not a
glob
---
modules/Bio/EnsEMBL/Pipeline/FASTA/DumpFile.pm | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/modules/Bio/EnsEMBL/Pipeline/FASTA/DumpFile.pm b/modules/Bio/EnsEMBL/Pipeline/FASTA/DumpFile.pm
index f8203de453..67b757ae69 100644
--- a/modules/Bio/EnsEMBL/Pipeline/FASTA/DumpFile.pm
+++ b/modules/Bio/EnsEMBL/Pipeline/FASTA/DumpFile.pm
@@ -224,7 +224,7 @@ sub _dump_dna {
foreach my $s (@non_chromosomes) {
$self->_dump_slice($s, $other_serializer, $other_rm_serializer);
}
- my ($hard_mask_fh, $hard_mask_file) = $self->_convert_softmask_to_hardmask($rm_non_specific_fh);
+ my ($hard_mask_fh, $hard_mask_file) = $self->_convert_softmask_to_hardmask($rm_non_specific_file);
$self->tidy_file_handle( $non_specific_fh, $non_specific_file );
$self->tidy_file_handle( $rm_non_specific_fh, $rm_non_specific_file );
$self->tidy_file_handle( $hard_mask_fh, $hard_mask_file);
@@ -244,7 +244,7 @@ sub _dump_dna {
$self->_dump_slice($s, $chromo_serializer, $rm_chromo_serializer);
- my ($chromo_hard_mask_fh, $chromo_hard_mask_file) = $self->_convert_softmask_to_hardmask($rm_chromo_fh);
+ my ($chromo_hard_mask_fh, $chromo_hard_mask_file) = $self->_convert_softmask_to_hardmask($rm_chromo_file_name);
$self->tidy_file_handle($chromo_fh, $chromo_file_name);
$self->tidy_file_handle($rm_chromo_fh, $rm_chromo_file_name);
--
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