comparison macros.xml @ 14:f1d33e4c7bd8 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/umi_tools commit 31bad8c5bf75981eafcd19ec6b00593f184fdeb8"

13:aa9a4233c641

<macros>

    <!-- macros applying to all umi_tools -->

    <token name="@TOOL_VERSION@">1.1.2</token>
    <token name="@VERSION_SUFFIX@">1</token>
    <token name="@PROFILE@">21.01</token>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@TOOL_VERSION@">umi_tools</requirement>
            <yield />

                <add value="&#91;"/> <!-- left square bracket -->
                <add value="&#93;"/> <!-- right square bracket -->
                <add value="&#123;"/><!-- left brace -->
                <add value="&#125;"/><!-- right brace -->
                <add value="&#94;"/> <!-- caret -->
                <add value="-"/>
                <add value="!"/>
            </valid>
        </sanitizer>
    </macro>

    <xml name="fastq_barcode_extraction_options_macro">
        <conditional name="extract_method_cond">
            <param argument="--extract-method" type="select" label="Barcode Extraction Method"
                   help="If bracketed expressions are used in the above barcode pattern, then set this to 'regex'. Otherwise leave as 'string'" >
                <option value="string" selected="true" />
                <option value="regex" />
            </param>
            <when value="string">
                <param argument="--3prime" name="prime3" type="boolean" label="Is barcode on 3' end of the read?"
                    truevalue="--3prime" falsevalue=""
                    help="By default the barcode is assumed to be on the 5' end of the read, but

14:f1d33e4c7bd8

<macros>

    <!-- macros applying to all umi_tools -->

    <token name="@TOOL_VERSION@">1.1.2</token>
    <token name="@VERSION_SUFFIX@">2</token>
    <token name="@PROFILE@">21.01</token>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@TOOL_VERSION@">umi_tools</requirement>
            <yield />

                <add value="&#91;"/> <!-- left square bracket -->
                <add value="&#93;"/> <!-- right square bracket -->
                <add value="&#123;"/><!-- left brace -->
                <add value="&#125;"/><!-- right brace -->
                <add value="&#94;"/> <!-- caret -->
                <add value="&#36;"/> <!-- dollar sign-->
                <add value="&#43;" /><!-- plus sign -->
                <add value="-"/>
                <add value="!"/>
            </valid>
        </sanitizer>
    </macro>

    <xml name="fastq_barcode_extraction_options_macro">
        <conditional name="extract_method_cond">
            <param argument="--extract-method" type="select" label="Barcode Extraction Method"
                   help="If bracketed expressions are used in the above barcode pattern, then set this to 'regex'. Otherwise leave as 'string'" >
                <option value="string" selected="true">String</option>
                <option value="regex">Regex</option>
            </param>
            <when value="string">
                <param argument="--3prime" name="prime3" type="boolean" label="Is barcode on 3' end of the read?"
                    truevalue="--3prime" falsevalue=""
                    help="By default the barcode is assumed to be on the 5' end of the read, but