comparison macros.xml @ 2:9859ee671832 draft default tip

"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"

1:446eee605ac1

    ]]></token>

    <token name="@DATA_DIR@">\$GALAXY_TRIPAL_SHARED_DIR</token>

    <token name="@AUTH@"><![CDATA[
        echo "__default: local" > '.auth.yml' &&
        echo "local:" >> '.auth.yml' &&
        echo "    tripal_url: \"\$GALAXY_TRIPAL_URL\"" >> '.auth.yml' &&
        echo "    username: \"\$GALAXY_TRIPAL_USER\"" >> '.auth.yml' &&
        echo "    password: \"\$GALAXY_TRIPAL_PASSWORD\"" >> '.auth.yml' &&

        TRIPAILLE_GLOBAL_CONFIG_PATH='.auth.yml'
    ]]></token>

    <xml name="wait_for">
        <param name="wait_for"
               type="data"

    <xml name="matching">
        <section name="matching" title="Feature matching" expanded="True">
            <param name="query_type"
                   type="text"
                   label="The feature type of the blast query"
                   help="It must be a valid Sequence Ontology term. e.g. 'contig', 'gene', 'mRNA', 'polypeptide'" />

            <param name="query_uniquename"
                   type="boolean"
                   checked="false"
                   truevalue="--query_uniquename"
                   falsevalue=""
                   label="Find blast query features using their Unique name"
                   help="Feature name will be used otherwise" />

            <param name="query_re"
                   type="text"
                   optional="true"
                   label="Regular expression to extract the feature name from the blast query name"
                   help="leave empty if the first word in query name is sufficient">
                <expand macro="sanitized"/>
            </param>
        </section>
    </xml>

2:9859ee671832

    ]]></token>

    <token name="@DATA_DIR@">\$GALAXY_TRIPAL_SHARED_DIR</token>

    <token name="@AUTH@"><![CDATA[
        if [ -z "\$TRIPAILLE_GLOBAL_CONFIG_PATH" ]; then
          echo "__default: local" > '.auth.yml' &&
          echo "local:" >> '.auth.yml' &&
          echo "    tripal_url: \"\$GALAXY_TRIPAL_URL\"" >> '.auth.yml' &&
          echo "    username: \"\$GALAXY_TRIPAL_USER\"" >> '.auth.yml' &&
          echo "    password: \"\$GALAXY_TRIPAL_PASSWORD\"" >> '.auth.yml' &&

          export TRIPAILLE_GLOBAL_CONFIG_PATH='.auth.yml'
        ; fi &&
    ]]></token>

    <xml name="wait_for">
        <param name="wait_for"
               type="data"

    <xml name="matching">
        <section name="matching" title="Feature matching" expanded="True">
            <param name="query_type"
                   type="text"
                   label="The feature type of the query"
                   help="It must be a valid Sequence Ontology term. e.g. 'contig', 'gene', 'mRNA', 'polypeptide'" />

            <param name="query_uniquename"
                   type="boolean"
                   checked="false"
                   truevalue="--query_uniquename"
                   falsevalue=""
                   label="Find query features using their Unique name"
                   help="Feature name will be used otherwise" />

            <param name="query_re"
                   type="text"
                   optional="true"
                   label="Regular expression to extract the feature name from the query name"
                   help="leave empty if the first word in query name is sufficient">
                <expand macro="sanitized"/>
            </param>
        </section>
    </xml>