# HG changeset patch
# User greg
# Date 1539282219 14400
# Node ID 8f1660b17f902db34db8d3097d89f35f5c6b2ac5
# Parent  e981015b6b46abe825dd56421baefbab8312f119
Uploaded

diff -r e981015b6b46 -r 8f1660b17f90 affy2vcf.xml
--- a/affy2vcf.xml	Thu Oct 11 14:22:25 2018 -0400
+++ b/affy2vcf.xml	Thu Oct 11 14:23:39 2018 -0400
@@ -9,9 +9,9 @@
 mkdir $text_outputs_dir &&
 bcftools +\$BCFTOOLS_PLUGINS/affy2vcf.so
 #if str($reference_genome_source_cond.reference_genome_source) == "history":
-    --fasta_ref '$reference_genome_source_cond.history_item'
+    --fasta-ref '$reference_genome_source_cond.history_item'
 #else:
-    --fasta_ref '$reference_genome_source_cond.locally_cached_item'
+    --fasta-ref '$reference_genome_source_cond.locally_cached_item'
 #end if
 --annot '$annot'
 --snp-posteriors '$text_outputs_dir/snp_posteriors.txt'