Mercurial > repos > greg > affy2vcf

changeset 8:192da25388ec draft

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Uploaded
author greg
date Thu, 11 Oct 2018 14:20:31 -0400
parents 4dc497887a5c
children e981015b6b46
files affy2vcf.xml
diffstat 1 files changed, 2 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/affy2vcf.xml	Fri Oct 05 11:09:55 2018 -0400
+++ b/affy2vcf.xml	Thu Oct 11 14:20:31 2018 -0400
@@ -5,8 +5,9 @@
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
 #set text_outputs_dir = 'text_outputs'
+export BCFTOOLS_PLUGINS=\$(dirname `which bcftools`)/../libexec/bcftools &&
 mkdir $text_outputs_dir &&
-bcftools +affy2vcf.so
+bcftools +$BCFTOOLS_PLUGINS/affy2vcf.so
 #if str($reference_genome_source_cond.reference_genome_source) == "history":
     --fasta_ref '$reference_genome_source_cond.history_item'
 #else: