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Allow for naming differences in unbarcoded bam files from SMRT Link deplexing #482

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merged 3 commits into from
Dec 12, 2024
Merged

Allow for naming differences in unbarcoded bam files from SMRT Link deplexing #482

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0a30950
Allow for naming differences in unbarcoded bam files from SMRT Link d…
ces Dec 4, 2024
1d391c5
Remove unnecessary json file
ces Dec 4, 2024
866f48d
Change to any
ces Dec 12, 2024
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4 changes: 2 additions & 2 deletions lib/WTSI/NPG/HTS/PacBio/AnalysisPublisher.pm
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Original file line number Diff line number Diff line change
Expand Up @@ -4,6 +4,7 @@ use namespace::autoclean;
use English qw[-no_match_vars];
use File::Basename;
use File::Spec::Functions qw[catdir];
use List::AllUtils qw[any];
use JSON;
use Moose;
use MooseX::StrictConstructor;
Expand Down Expand Up @@ -399,8 +400,7 @@ sub _get_tag_name_from_fname {

sub _is_allowed_fname {
my ($self, $file, $fnames) = @_;
my @exists = grep { $file =~ m{[.] $_ [.]}smx } @{ $fnames };
return @exists == 1 ? 1 : 0;
return (any { $file =~ m{[.] $_ [.]}smx } @{ $fnames } );
}

sub _dest_path {
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1 change: 0 additions & 1 deletion t/data/pacbio/analysis/0000019480/cromwell-job/call-lima/execution/mlwh_locations.json
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