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comparison bcftools_sort.xml @ 1:5486fb1fb923 draft default tip

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author greg
date Tue, 20 Nov 2018 09:50:12 -0500
parents 770db64c4cfc
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0:770db64c4cfc 1:5486fb1fb923
6 <import>macros.xml</import> 6 <import>macros.xml</import>
7 </macros> 7 </macros>
8 <expand macro="requirements"/> 8 <expand macro="requirements"/>
9 <command detect_errors="exit_code"><![CDATA[ 9 <command detect_errors="exit_code"><![CDATA[
10 @PREPARE_ENV@ 10 @PREPARE_ENV@
11 @PREPARE_INPUT_FILE@
12 #set temp_dir = 'tmp' 11 #set temp_dir = 'tmp'
13 mkdir $temp_dir && 12 mkdir $temp_dir &&
14 bcftools @EXECUTABLE@ 13 bcftools @EXECUTABLE@
15 @INPUT_FILE@ 14 $input_file
16 --output-file '$output_file' 15 --output-file '$output_file'
17 @OUTPUT_TYPE@ 16 @OUTPUT_TYPE@
18 --temp-dir '$temp_dir' 17 --temp-dir '$temp_dir'
19 ]]> 18 ]]>
20 </command> 19 </command>