Mercurial > repos > davidvanzessen > fetch_vep_cache_data

comparison data_manager/fetch_vep_cache_data.xml @ 0:de3516853bde draft default tip

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author davidvanzessen
date Fri, 30 Nov 2018 09:56:38 -0500
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1 <tool id="fetch_vep_cache_data" name="VEP Cache" version="0.0.1" tool_type="manage_data">
2 <requirements>
3 <requirement type="package" version="94.5">ensembl-vep</requirement>
4 </requirements>
5 <description>fetching</description>
6
7 <command detect_errors="exit_code">
8 python $__tool_directory__/fetch_vep_cache_data.py
9 --output-file ${ out_file }
10 --output-dir ${ out_file.extra_files_path }
11 --assembly ${ dbkey }${ extra }
12 </command>
13 <inputs>
14 <param name="dbkey" type="select" label="Species">
15 <option value="homo_sapiens">Human</option>
16 <option value="mus_musculus">Mouse</option>
17 </param>
18 <param name="extra" type="select" label="Get the Ensembl, Refseq or merged Ensembl/Refseq">
19 <option value="" selected="true">Ensembl</option>
20 <option value="_refseq">Refseq</option>
21 <option value="_merged">Merged</option>
22 </param>
23 </inputs>
24 <outputs>
25 <data name="out_file" format="data_manager_json"/>
26 </outputs>
27 <!--
28 <tests>
29 <test>
30 DON'T FORGET TO DEFINE SOME TOOL TESTS
31 </test>
32 </tests>
33 -->
34 <help>
35 There is no help
36 </help>
37 </tool>