comparison clinker.xml @ 1:b2eb9231d95d draft default tip

planemo upload for repository https://github.com/quadram-institute-bioscience/galaxy-tools/tree/master/tools/clinker commit a8db5ed4544fd91f7ff43284d1ddfcb9ff76d84c-dirty

0:315f554107d7

    <version_command>clinker --version</version_command>
    <command detect_errors="exit_code"><![CDATA[
        #import re
        mkdir gbk &&
        #for $counter, $input in enumerate($gbk):
            #set $_input_file = re.sub(r'(\s|\(|\)|:|!)', '_', str($input.element_identifier))
            ln -sf '$input' 'gbk/${$_input_file}' &&
        #end for
        clinker
        $no_align
        --identity $identity
        --jobs \${GALAXY_SLOTS:-4}

1:b2eb9231d95d

    <version_command>clinker --version</version_command>
    <command detect_errors="exit_code"><![CDATA[
        #import re
        mkdir gbk &&
        #for $counter, $input in enumerate($gbk):
            #set $_input_file = re.sub(r'(\s|\(|\)|:|!)|\.gbk', '_', str($input.element_identifier))
            ln -sf '$input' 'gbk/${$_input_file}.gbk' &&
        #end for
        clinker
        $no_align
        --identity $identity
        --jobs \${GALAXY_SLOTS:-4}