comparison flexbar_no_split.xml @ 58:bbbae1ee87e0 draft default tip

fix for flexbar with small data issue

57:537657678b2b

        <requirement type="package" version="2.5">flexbar</requirement>
    </requirements>

    <version_command>flexbar --version</version_command>

    <command>

        flexbar

        --threads \${GALAXY_SLOTS:-1}

            $cLogging.numTags
            $cLogging.remTags
            $cLogging.rndTags
        #end if

        > $output;

        mv flexbar_1.fastq $output_1;
        mv flexbar_2.fastq $output_2;

    </command>


    <inputs>

        <param format="fasta,fastq,fastqsanger,fastqsolexa,fastqillumina,csfasta,fastqcssanger" name="reads" type="data" label="Sequencing reads" optional="false"/>

58:bbbae1ee87e0

        <requirement type="package" version="2.5">flexbar</requirement>
    </requirements>

    <version_command>flexbar --version</version_command>

    <command><![CDATA[

        flexbar

        --threads \${GALAXY_SLOTS:-1}

            $cLogging.numTags
            $cLogging.remTags
            $cLogging.rndTags
        #end if

        && mv flexbar_1.fastq $output_1
        && mv flexbar_2.fastq $output_2

        && sleep 20

    ]]></command>


    <inputs>

        <param format="fasta,fastq,fastqsanger,fastqsolexa,fastqillumina,csfasta,fastqcssanger" name="reads" type="data" label="Sequencing reads" optional="false"/>