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comparison clinker.xml @ 1:b2eb9231d95d draft default tip

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planemo upload for repository https://github.com/quadram-institute-bioscience/galaxy-tools/tree/master/tools/clinker commit a8db5ed4544fd91f7ff43284d1ddfcb9ff76d84c-dirty
author thanhlv
date Thu, 21 Jul 2022 15:32:21 +0000
parents 315f554107d7
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0:315f554107d7 1:b2eb9231d95d
9 <version_command>clinker --version</version_command> 9 <version_command>clinker --version</version_command>
10 <command detect_errors="exit_code"><![CDATA[ 10 <command detect_errors="exit_code"><![CDATA[
11 #import re 11 #import re
12 mkdir gbk && 12 mkdir gbk &&
13 #for $counter, $input in enumerate($gbk): 13 #for $counter, $input in enumerate($gbk):
14 #set $_input_file = re.sub(r'(\s|\(|\)|:|!)', '_', str($input.element_identifier)) 14 #set $_input_file = re.sub(r'(\s|\(|\)|:|!)|\.gbk', '_', str($input.element_identifier))
15 ln -sf '$input' 'gbk/${$_input_file}' && 15 ln -sf '$input' 'gbk/${$_input_file}.gbk' &&
16 #end for 16 #end for
17 clinker 17 clinker
18 $no_align 18 $no_align
19 --identity $identity 19 --identity $identity
20 --jobs \${GALAXY_SLOTS:-4} 20 --jobs \${GALAXY_SLOTS:-4}