|
0
|
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> |
