Merge pull request #518 from dozy/spatial_filter_file_names

change naming of spatial_filter stats files for spatial_filter check
wtsi-npg · May 29, 2018 · 0eeda38 · 0eeda38
2 parents 7c65e66 + f1096a3
commit 0eeda38
Show file tree

Hide file tree

Showing 2 changed files with 2 additions and 1 deletion.
diff --git a/Changes b/Changes
@@ -6,6 +6,7 @@ LIST OF CHANGES FOR NPG-QC PACKAGE
  - tag_metics matches_pf_percent only stored to three decimals places now
    so trim in viewer
  - modified spatial filter qc check to read all run_lane filter.stats files
+ - changed naming of spatial_filter stats files to <run>_<lane>*.spatial_filter.stats
  - upstream_tags qc check - replaced bamindexdecoder with bambi decode
  - dropped ability for qc checks to sub-sample input fastq
      instead run the checks directly off the cached fastq files

diff --git a/lib/npg_qc/autoqc/checks/spatial_filter.pm b/lib/npg_qc/autoqc/checks/spatial_filter.pm
@@ -10,7 +10,7 @@ our $VERSION = '0';
 
 override 'execute' => sub {
 	my ($self) = @_;
-  my $filter_stats_file_name_glob = $self->qc_in . q{/} . $self->id_run . '_' . $self->position . q{*.filter.stats};
+  my $filter_stats_file_name_glob = $self->qc_in . q{/} . $self->id_run . '_' . $self->position . q{*.spatial_filter.stats};
   my @filter_stats_files = glob $filter_stats_file_name_glob or
     croak "Cannot find any filter stats files using $filter_stats_file_name_glob";
   $self->result->parse_output(\@filter_stats_files); #read stderr from spatial_filter -a for each sample