comparison diamond.xml @ 54:9906fb4afc0b draft

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53:cb440b96fb43

                    <option value="4">Compositional matrix adjust unconditionally (Yu, 2005)</option>
                </param>
            </when>
        </conditional>
        <param argument="--query" type="data" format="fasta,fastq" label="Input query file in FASTA or FASTQ format" />
        <conditional name="ref_db_source">
            <param name="db_source" type="select" label="Will you select a reference database from your history or use a built-in index?" help="Built-ins were indexed using default options">
                <option value="indexed">Use a built-in index</option>
                <option value="history">Use one from the history</option>
            </param>
            <when value="indexed">
                <param name="index" type="select" label="Select a reference database" help="If your database of interest is not listed, contact your Galaxy admin">
                    <options from_data_table="pl_diamond_database" />
                </param>
            </when>
            <when value="history">
                <param name="reference_database" argument="--db" type="data" format="dmnd" label="Select the reference database" />
            </when>
        </conditional>
        <conditional name="tax_cond">
            <param name="tax_select" type="select" label="Restrict search taxonomically?" help="Any taxonomic rank can be used, and only reference sequences matching one of the specified taxon ids will be searched against.">
                <option value="no" selected="True">No</option>
                <option value="list">List of taxids entered manually</option>
                <option value="file">List of taxids from single column tabular file</option>

54:9906fb4afc0b

                    <option value="4">Compositional matrix adjust unconditionally (Yu, 2005)</option>
                </param>
            </when>
        </conditional>
        <param argument="--query" type="data" format="fasta,fastq" label="Input query file in FASTA or FASTQ format" />
        <conditional name="tax_cond">
            <param name="tax_select" type="select" label="Restrict search taxonomically?" help="Any taxonomic rank can be used, and only reference sequences matching one of the specified taxon ids will be searched against.">
                <option value="no" selected="True">No</option>
                <option value="list">List of taxids entered manually</option>
                <option value="file">List of taxids from single column tabular file</option>