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lib/BioX/Workflow/StructureOutput.pm  view on Meta::CPAN

    my $cwd = getcwd();
    foreach my $sample ( @{ $self->samples } ) {
        print $fh <<EOF;
export SAMPLE=$sample && ./workflow.sh
EOF
    }

    close $fh;

    chmod 0777, 'run-workflow.sh';

    $self->samples( ["\${SAMPLE}"] );
}

=head3 process_by_sample_outdir

Make sure indir/outdirs are named appropriated for samples when using by

=cut