comparison data_manager/fetch_refseq.xml @ 2:5d2ef93c6314 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_fetch_refseq commit 57f71aa633a43ab02bbf05acd0c6d7f406e01f1e"

1:937f167631b1

<tool id="data_manager_fetch_refseq" name="RefSeq data manager" version="0.0.18" tool_type="manage_data">
    <description>Fetch FASTA data from NCBI RefSeq and update all_fasta data table</description>
    <requirements>
        <requirement type="package">python</requirement>
        <requirement type="package">requests</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
    python $__tool_directory__/fetch_refseq.py
      #if str( $advanced.advanced_selector ) == 'advanced':
        ${advanced.compress}
      #end if
      --galaxy_datamanager_filename '${output_file}'
      --division_names ${division_names}

            <param name="advanced_selector" value="basic"/>
            <output name="output_file">
                <assert_contents>
                    <has_text text="2018-03-14"/>
                    <has_text text="refseq_plastid"/>
                    <has_text text="/refseq_plastid."/>
                </assert_contents>
            </output>
        </test>
        <test>
            <param name="division_names" value="plastid"/>

            <param name="compress" value="" />
            <output name="output_file">
                <assert_contents>
                    <has_text text="2018-03-14"/>
                    <has_text text="refseq_plastid"/>
                    <has_text text="/refseq_plastid."/>
                </assert_contents>
            </output>
        </test>

    </tests>

2:5d2ef93c6314

<tool id="data_manager_fetch_refseq" name="RefSeq data manager" version="0.0.19" tool_type="manage_data" profile="19.05">
    <description>Fetch FASTA data from NCBI RefSeq and update all_fasta data table</description>
    <requirements>
        <requirement type="package" version="3.7">python</requirement>
        <requirement type="package" version="2.22.0">requests</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
    python '$__tool_directory__/fetch_refseq.py'
      #if str( $advanced.advanced_selector ) == 'advanced':
        ${advanced.compress}
      #end if
      --galaxy_datamanager_filename '${output_file}'
      --division_names ${division_names}

            <param name="advanced_selector" value="basic"/>
            <output name="output_file">
                <assert_contents>
                    <has_text text="2018-03-14"/>
                    <has_text text="refseq_plastid"/>
                </assert_contents>
            </output>
        </test>
        <test>
            <param name="division_names" value="plastid"/>

            <param name="compress" value="" />
            <output name="output_file">
                <assert_contents>
                    <has_text text="2018-03-14"/>
                    <has_text text="refseq_plastid"/>
                </assert_contents>
            </output>
        </test>

    </tests>