comparison pyega3.xml @ 5:f9db47f68e5e draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pyega3 commit 428637d89592a970388339a4ab68db9df8d68cdc

4:9564758e8638

<tool id="pyega3" name="EGA Download Client" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.01" >
    <macros>
        <token name="@TOOL_VERSION@">4.0.5</token>
        <token name="@VERSION_SUFFIX@">2</token>
    </macros>
    <requirements>
        <requirement type="package" version="@TOOL_VERSION@">pyega3</requirement>
    </requirements>
    <version_command><![CDATA[

            <param name="action_type" value="download_file"/>
            <param name="file_id" value="EGAF00001753756"/>
            <param name="reference_name" value="1"/>
            <param name="start" value="0"/>
            <param name="end" value="10000"/>
            <output name="downloaded_file" ftype="bam" md5="e576a38748feec45aa45191f6e902ce2"/>
        </test>
        <!-- download multiple files -->
        <test expect_num_outputs="1">
            <param name="action_type" value="download_files"/>
            <param name="id_table" value="filelist.tabular"/>

            <param name="id_column" value="1"/>
            <param name="reference_name" value="1"/>
            <param name="start" value="0"/>
            <param name="end" value="10000"/>
            <output_collection name="downloaded_file_collection" count="2">
                <element name="NA19239_genomic_range_1_0_10000" md5="bcdcf18846233cbe5cc8afd95168552c" />
                <element name="NA19240_genomic_range_1_0_10000" md5="e576a38748feec45aa45191f6e902ce2" />
            </output_collection>
            <assert_stderr>
                <has_text text="Ignoring &quot;File ID&quot;: no EGA file ID"/>
            </assert_stderr>
        </test>

5:f9db47f68e5e

<tool id="pyega3" name="EGA Download Client" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.01" >
    <macros>
        <token name="@TOOL_VERSION@">5.0.2</token>
        <token name="@VERSION_SUFFIX@">0</token>
    </macros>
    <requirements>
        <requirement type="package" version="@TOOL_VERSION@">pyega3</requirement>
    </requirements>
    <version_command><![CDATA[

            <param name="action_type" value="download_file"/>
            <param name="file_id" value="EGAF00001753756"/>
            <param name="reference_name" value="1"/>
            <param name="start" value="0"/>
            <param name="end" value="10000"/>
            <output name="downloaded_file" md5="4b5344ad094c2bed7787430259205098"/>
        </test>
        <!-- download multiple files -->
        <test expect_num_outputs="1">
            <param name="action_type" value="download_files"/>
            <param name="id_table" value="filelist.tabular"/>

            <param name="id_column" value="1"/>
            <param name="reference_name" value="1"/>
            <param name="start" value="0"/>
            <param name="end" value="10000"/>
            <output_collection name="downloaded_file_collection" count="2">
                <element name="NA19239_genomic_range_1_0_10000" md5="497f443830a6a3ec2e5bb5a19c4db638" />
                <element name="NA19240_genomic_range_1_0_10000" md5="4b5344ad094c2bed7787430259205098" />
            </output_collection>
            <assert_stderr>
                <has_text text="Ignoring &quot;File ID&quot;: no EGA file ID"/>
            </assert_stderr>
        </test>