comparison macros.xml @ 4:1e76bd67fb73 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_collapser commit fd099d17eceaa319fbfe429f4725328d88b18c9f

3:7bda0f25191f

<?xml version="1.0"?>
<macros>
    <token name="@CATS@">
        #if $input.is_of_type('fasta.gz', 'fastqsanger.gz', 'fastqsolexa.gz', 'fastqillumina.gz'):
            zcat -f '$input' |
        #elif $input.is_of_type('fastqsanger.bz2', 'fastqsolexa.bz2', 'fastqillumina.bz2'):
            bzcat -f '$input' |
        #else:
            cat '$input' |
        #end if

            #elif $input.is_of_type('fastqsolexa', 'fastqsolexa.gz', 'fastqsolexa.bz2', 'fastqillumina', 'fastqillumina.gz', 'fastqillumina.bz2'):
                -Q 64
            #end if
        ]]>
    </token>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@VERSION@">fastx_toolkit</requirement>
            <yield />
        </requirements>
    </xml>
    <token name="@VERSION@">0.0.14</token>
    <token name="@SANGER@">fastqsanger,fastqsanger.gz,fastqsanger.bz2</token>
    <token name="@SOLEXA@">fastqsolexa,fastqsolexa.gz,fastqsolexa.bz2</token>
    <token name="@ILLUMINA@">fastqillumina,fastqillumina.gz,fastqillumina.bz2</token>
    <token name="@FASTQS@">@SANGER@,@SOLEXA@,@ILLUMINA@</token>
    <token name="@FASTAS@">fasta,fasta.gz</token>

4:1e76bd67fb73

<?xml version="1.0"?>
<macros>
    <token name="@CATS@">
        #if $input.is_of_type('fasta.gz', 'fastqsanger.gz', 'fastqsolexa.gz', 'fastqillumina.gz'):
            gunzip -c -f '$input' |
        #elif $input.is_of_type('fastqsanger.bz2', 'fastqsolexa.bz2', 'fastqillumina.bz2'):
            bzcat -f '$input' |
        #else:
            cat '$input' |
        #end if

            #elif $input.is_of_type('fastqsolexa', 'fastqsolexa.gz', 'fastqsolexa.bz2', 'fastqillumina', 'fastqillumina.gz', 'fastqillumina.bz2'):
                -Q 64
            #end if
        ]]>
    </token>
    <token name="@GZIP@">
        <![CDATA[
            #if $input.is_of_type('fasta.gz', 'fastqsanger.gz', 'fastqsolexa.gz', 'fastqillumina.gz'):
                | gzip -c
            #elif $input.is_of_type('fastqsanger.bz2', 'fastqsolexa.bz2', 'fastqillumina.bz2'):
                | bzip2 -c
            #end if
        ]]>
    </token>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@VERSION@">fastx_toolkit</requirement>
            <yield />
        </requirements>
    </xml>
    <token name="@VERSION@">0.0.14</token>
    <token name="@VERSION_SUFFIX@">2</token>
    <token name="@SANGER@">fastqsanger,fastqsanger.gz,fastqsanger.bz2</token>
    <token name="@SOLEXA@">fastqsolexa,fastqsolexa.gz,fastqsolexa.bz2</token>
    <token name="@ILLUMINA@">fastqillumina,fastqillumina.gz,fastqillumina.bz2</token>
    <token name="@FASTQS@">@SANGER@,@SOLEXA@,@ILLUMINA@</token>
    <token name="@FASTAS@">fasta,fasta.gz</token>