Mercurial > repos > stef > falco
changeset 14:5d9546a5bad5 draft
Uploaded
author | stef |
---|---|
date | Wed, 08 Oct 2014 07:21:46 -0400 |
parents | 6d8144665015 |
children | d39b9c8741e8 |
files | falco.xml |
diffstat | 1 files changed, 8 insertions(+), 3 deletions(-) [+] |
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--- a/falco.xml Wed Oct 08 07:15:45 2014 -0400 +++ b/falco.xml Wed Oct 08 07:21:46 2014 -0400 @@ -8,9 +8,12 @@ <requirement type="package" version="2">varscan</requirement> <requirement type="package" version="2">bcftools</requirement> <!-- - --> + <requirement type="set_environment">JAVA_JAR_PATH</requirement> <requirement type="set_environment">SNPEFF_JAR_PATH</requirement> + --> + <requirement type="set_environment">JAR_PATH1</requirement> + <requirement type="set_environment">JAR_PATH2</requirement> <requirement type="set_environment">TOOL_DIR</requirement> </requirements> @@ -78,8 +81,10 @@ html_out=$html_output vcf_out=$vcf_output out_path=${html_output.files_path} - jar_path1=\$JAVA_JAR_PATH - jar_path2=\$SNPEFF_JAR_PATH + jar_path1=\$JAR_PATH1 + jar_path2=\$JAR_PATH2 + jar_path3=\$JAVA_JAR_PATH + jar_path4=\$SNPEFF_JAR_PATH </configfile> </configfiles>