Mercurial > repos > greg > cfsan_snp_pipeline_snp_matrix

diff cfsan_snp_pipeline_snp_matrix.xml @ 3:f959d99d1758 draft default tip

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Uploaded
author greg
date Thu, 23 Nov 2023 19:02:52 +0000
parents f3485a9e51a3
children
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line diff
--- 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'