Mercurial > repos > iuc > snpsift

diff snpSift_annotate.xml @ 8:5fab4f81391d draft default tip

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpsift/snpsift commit df8a21df77acffe40c0bc0fe0409ca1b529cd7fc"
author iuc
date Sat, 11 Sep 2021 07:17:51 +0000
parents 2b3e65a4252f
children
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--- a/snpSift_annotate.xml	Sun Nov 29 21:14:56 2020 +0000
+++ b/snpSift_annotate.xml	Sat Sep 11 07:17:51 2021 +0000
@@ -10,12 +10,13 @@
     <expand macro="stdio" />
     <expand macro="version_command" />
     <command><![CDATA[
+ln -s '$dbSnp' 'dbSnp.vcf' &&
 SnpSift -Xmx8G annotate
 ${annotate.no_info}
 #if str($annotate.info_ids).strip():
     -info '$annotate.info_ids'
 #end if
--q '$dbSnp' '$input' > '$output'
+-q 'dbSnp.vcf' '$input' > '$output'
     ]]></command>
     <inputs>
         <param name="input" type="data" format="vcf" label="Variant input file in VCF format"/>