comparison macros.xml @ 26:3ea5a2a63fa2 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rgrnastar commit 7474e67190d0dcf2bd54c6b3cbfa30e54134c8a0

25:c7c55b694974

    whenever you make changes to the @TOOL_VERSION@ token!
    The data manager uses a symlink to this macro file to keep the STAR and
    the index versions in sync, but you should manually update @IDX_VERSION_SUFFIX@ -->
    <!-- STAR version to be used -->
    <token name="@TOOL_VERSION@">2.7.10b</token>
    <token name="@VERSION_SUFFIX@">2</token>
    <token name="@PROFILE@">21.01</token>
    <!-- STAR index version compatible with this version of STAR
    This is the STAR version that introduced the index structure expected
    by the current version.
    It can be found for any specific version of STAR with:

        <param name="outWigTypeSecondWord" type="select" label="Input for coverage">
            <option value="">Default (everything that mapped)</option>
            <option value="read_5p">signal from only 5’ of the 1st read</option>
            <option value="read2">signal from only 2nd read</option>
        </param>
        <param argument="--outWigStrand" type="boolean" truevalue="Stranded" falsevalue="Unstranded" checked="true" label="collapse strands (unstranded coverage)" help="By default, the strands are separated."/>
        <param argument="--outWigReferencesPrefix" type="text" value="-" label="prefix matching reference name" help="For example, set 'chr' if you mapped on an ensembl genome but you want to display on UCSC"/>
        <param argument="--outWigNorm" type="boolean" truevalue="RPM" falsevalue="None" checked="true" label="Normalize coverage to million of mapped reads (RPM)"/>
    </xml>
    <token name="@OUTWIG@"><![CDATA[
        #if str($outWig.outWigType) != 'None':

26:3ea5a2a63fa2

    whenever you make changes to the @TOOL_VERSION@ token!
    The data manager uses a symlink to this macro file to keep the STAR and
    the index versions in sync, but you should manually update @IDX_VERSION_SUFFIX@ -->
    <!-- STAR version to be used -->
    <token name="@TOOL_VERSION@">2.7.10b</token>
    <token name="@VERSION_SUFFIX@">3</token>
    <token name="@PROFILE@">21.01</token>
    <!-- STAR index version compatible with this version of STAR
    This is the STAR version that introduced the index structure expected
    by the current version.
    It can be found for any specific version of STAR with:

        <param name="outWigTypeSecondWord" type="select" label="Input for coverage">
            <option value="">Default (everything that mapped)</option>
            <option value="read_5p">signal from only 5’ of the 1st read</option>
            <option value="read2">signal from only 2nd read</option>
        </param>
        <param argument="--outWigStrand" type="boolean" truevalue="Stranded" falsevalue="Unstranded" checked="true" label="Generate a coverage for each strand (stranded coverage)"/>
        <param argument="--outWigReferencesPrefix" type="text" value="-" label="prefix matching reference name" help="For example, set 'chr' if you mapped on an ensembl genome but you want to display on UCSC"/>
        <param argument="--outWigNorm" type="boolean" truevalue="RPM" falsevalue="None" checked="true" label="Normalize coverage to million of mapped reads (RPM)"/>
    </xml>
    <token name="@OUTWIG@"><![CDATA[
        #if str($outWig.outWigType) != 'None':