Mercurial > repos > greg > affy2vcf

changeset 10:8f1660b17f90 draft

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Uploaded
author greg
date Thu, 11 Oct 2018 14:23:39 -0400
parents e981015b6b46
children 55f227ba9972
files affy2vcf.xml
diffstat 1 files changed, 2 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- 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'