Mercurial > repos > thondeboer > neat_genreads

comparison genMutModel.xml @ 7:fc1c7b6fb7b6 draft

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planemo upload commit e96b43f96afce6a7b7dfd4499933aad7d05c955e-dirty
author thondeboer
date Tue, 15 May 2018 18:12:29 -0400
parents 5bcfac4f8116
children dc383ecbf839
comparison
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6:5bcfac4f8116 7:fc1c7b6fb7b6
10 <command detect_errors="exit_code"> 10 <command detect_errors="exit_code">
11 <![CDATA[ 11 <![CDATA[
12 ## Filenames and extensions are important, so make some links to make life easier downstream 12 ## Filenames and extensions are important, so make some links to make life easier downstream
13 ln -s $mutation_file mutation_file.vcf 13 ln -s $mutation_file mutation_file.vcf
14 #if $in_type.input_type == "built-in": 14 #if $in_type.input_type == "built-in":
15 && ln ${in_type.reference.fields.path} reference.fa 15 && ln -s ${in_type.reference.fields.path} reference.fa
16 #else: 16 #else:
17 && ln ${in_type.reference} reference.fa 17 && ln ${in_type.reference} reference.fa
18 #end if 18 #end if
19 && python2 $__tool_directory__/utilities/genMutModel.py 19 && python2 $__tool_directory__/utilities/genMutModel.py
20 -r reference.fa 20 -r reference.fa