Mercurial > repos > kkonganti > cfsan_centriflaken

comparison cfsan_centriflaken.xml @ 128:d4439431d12c

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planemo upload
author kkonganti
date Wed, 03 Jul 2024 15:00:37 -0400
parents 2b6b44652357
children 1bb0dacefa6d
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127:2b6b44652357 128:d4439431d12c
5 </requirements> 5 </requirements>
6 <version_command>nextflow -version</version_command> 6 <version_command>nextflow -version</version_command>
7 <command detect_errors="exit_code"><![CDATA[ 7 <command detect_errors="exit_code"><![CDATA[
8 time_stamp=\$(date +%Y-%m-%d-%s); 8 time_stamp=\$(date +%Y-%m-%d-%s);
9 work_dir="/galaxy/nf-work-dirs/centriflaken_work_dir-"\${time_stamp}; 9 work_dir="/galaxy/nf-work-dirs/centriflaken_work_dir-"\${time_stamp};
10 #input_path="\${work_dir}/cpipes-input";
11 input_path=\$(pwd)/cpipes-input; 10 input_path=\$(pwd)/cpipes-input;
12 mkdir -p \$work_dir || exit 1; 11 mkdir -p "\${work_dir}" || exit 1;
13 mkdir -p "\${input_path}" || exit 1; 12 mkdir -p "\${input_path}" || exit 1;
14 #import re 13 #import re
15 #if (str($input_read_type_cond.input_read_type) == "single_long"): 14 #if (str($input_read_type_cond.input_read_type) == "single_long"):
16 #for _, $unpaired in enumerate($input_read_type_cond.input): 15 #for _, $unpaired in enumerate($input_read_type_cond.input):
17 #set read1 = str($unpaired.name) 16 #set read1 = str($unpaired.name)