annotate get_online_data.xml @ 0:2538366eb8fb draft default tip

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/chemicaltoolbox/data_source/get_online_data commit aed18d7d09e332efe57d00b33c2b8249abefaedb

<tool id="ctb_online_data_fetch" name="Online data" version="0.4">
    <description>fetching</description>
    <requirements>
        <requirement type="package" version="3">python</requirement>
    </requirements>
    <command>
<![CDATA[
      python '$__tool_directory__/get_online_data.py'
        --url '$url_paste'
        --out '$output'
        --whitelist '$whitelist'
]]>
    </command>
    <inputs>
        <param name="url_paste" type="text" area="true" size="5x55" label="URLs" help="List of URLs (one per line)."/>
        <param name="whitelist" type="text" area="true" size="10x20"
            label="Whitelist of filename extensions"
            help="Specify a list of file extensions which should be extracted (default: sdf, mol, smi, inchi). Each extension should be placed on a new line."/>
    </inputs>
    <outputs>
        <data format="txt" name="output" />
    </outputs>
    <tests>
        <test>
            <param name="url_paste" value="https://github.com/simonbray/test-files/blob/master/get_online_data/1AKI.pdb.gz?raw=true" />
            <param name="whitelist" value=".pdb"/>
            <output name="output" file="gztest.txt" />
        </test>
        <test>
            <param name="url_paste" value="https://github.com/simonbray/test-files/blob/master/get_online_data/sdfs.zip?raw=true" />
            <output name="output" file="ziptest.txt" />
        </test>
    </tests>
    <help>
<![CDATA[

.. class:: infomark

**What this tool does**

Fetch data via FTP or HTTP and store them in your history. Supply one or more URLs; all files with the chosen file extensions will be extracted. Caution: all files are concatenated together.

-----

.. class:: infomark

**Input**

Supported filetypes are:
	- gz/gzip
	- ZIP (with recursive extracting of specific filetypes)


]]>
    </help>
    <citations>
    </citations>
</tool>