# HG changeset patch # User greg # Date 1700766172 0 # Node ID f959d99d1758423e64ce58c8c4f1195299ba5bb7 # Parent 610251aac6ef2400e3f3e7eaf40055c21e6f4ac2 Uploaded diff -r 610251aac6ef -r f959d99d1758 cfsan_snp_pipeline_snp_matrix.xml --- a/cfsan_snp_pipeline_snp_matrix.xml Wed Nov 22 22:40:03 2023 +0000 +++ b/cfsan_snp_pipeline_snp_matrix.xml Thu Nov 23 19:02:52 2023 +0000 @@ -6,9 +6,9 @@ <expand macro="requirements"/> <command detect_errors="exit_code"><![CDATA[ #if str($reference_cond.reference_source) == 'cached' - set reference = '$reference_cond.reference.fields.path' + #set reference = $reference_cond.reference.fields.path #else: - set reference = '$reference_cond.reference' + #set reference = $reference_cond.reference #end if python '$__tool_directory__/snp_wind.py' ./ -p 'consensus.fasta'