comparison macros.xml @ 1:f415e44e71de draft

planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/genenotebook commit a04f273adbc0ebb95bf42bf5bad8b41ba7aba91d

0:22f22c3e81bf

<?xml version="1.0"?>
<macros>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@TOOL_VERSION@">genenotebook</requirement>
            <yield/>
        </requirements>
    </xml>

    <token name="@TOOL_VERSION@">0.3.2</token>
    <token name="@WRAPPER_VERSION@">@TOOL_VERSION@+galaxy0</token>

    <xml name="citation">
        <citations>
            <citation type="doi">10.1093/bioinformatics/btz491</citation>
        </citations>
    </xml>

    <token name="@CONNECT_INFO@">-u admin -p admin --port \$GNB_PORT</token>

    <!--
    This runs GeneNoteBook, and a local mongodb server listening only on a unix socket, created in the work dir.
    The bind_ip option is a trick to prevent mongod from opening a TCP socket.
    For some unknwon reason, unixSocketPrefix needs an absolute path
    -->
    <token name="@START_GNB@"><![CDATA[
        export GNB_PORT=\$(bash '$__tool_directory__/find_free_port.sh');
        export MONGO_URI=\$(pwd | sed 's|/|%2F|g');
        #if $existing
            tar -xf '${existing}' mongo_db;
        #else
            mkdir ./mongo_db/;
        #end if

1:f415e44e71de

<?xml version="1.0"?>
<macros>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@TOOL_VERSION@">genoboo</requirement>
            <yield/>
        </requirements>
    </xml>

    <token name="@TOOL_VERSION@">0.4.1</token>
    <token name="@WRAPPER_VERSION@">@TOOL_VERSION@+galaxy0</token>

    <xml name="citation">
        <citations>
            <citation type="doi">10.1093/bioinformatics/btz491</citation>
        </citations>
    </xml>

    <xml name="sanitized">
        <sanitizer>
            <valid initial="string.printable">
                <remove value="&apos;"/>
            </valid>
            <mapping initial="none">
                <add source="&apos;" target="&apos;&quot;&apos;&quot;&apos;"/>
                <add source="(" target="\("/>
                <add source=")" target="\)"/>
            </mapping>
        </sanitizer>
    </xml>

    <token name="@CONNECT_INFO@">-u admin -p admin --port \$GNB_PORT</token>

    <!--
    This runs GeneNoteBook, and a local mongodb server listening only on a unix socket, created in the work dir.
    The bind_ip option is a trick to prevent mongod from opening a TCP socket.
    For some unknwon reason, unixSocketPrefix needs an absolute path
    -->
    <token name="@START_GNB@"><![CDATA[
        export GNB_PORT="\$(bash '$__tool_directory__/find_free_port.sh')";
        export MONGO_URI="\$(pwd | sed 's|/|%2F|g')";
        #if $existing
            tar -xf '${existing}' mongo_db;
        #else
            mkdir ./mongo_db/;
        #end if