Mercurial > repos > iuc > data_manager_gemini_database_downloader

comparison data_manager/data_manager_gemini_download.xml @ 3:172815da3d41 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gemini_database_downloader commit 8652f36a3a3838dca989426961561e81432acf4f
author iuc
date Tue, 04 Apr 2017 18:09:05 -0400
parents 345412d58d75
children fe5a9a7d95b0
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2:345412d58d75 3:172815da3d41
1 <tool id="data_manager_gemini_download" name="GEMINI Download" version="0.18.1" tool_type="manage_data"> 1 <tool id="data_manager_gemini_download" name="GEMINI Download" version="0.18.1" tool_type="manage_data">
2 <description>Download a new database</description> 2 <description>Download a new database</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="0.18.1">gemini</requirement> 4 <requirement type="package" version="0.18.1">gemini</requirement>
5 </requirements> 5 </requirements>
6 <stdio> 6 <command detect_errors="exit_code">
7 <exit_code range=":-1" level="fatal" description="Error: Cannot open file" /> 7 python '$__tool_directory__/data_manager_gemini_download.py' '$out_file'
8 <exit_code range="1:" level="fatal" description="Error" />
9 </stdio>
10 <command interpreter="python">
11 data_manager_gemini_download.py "$out_file"
12 </command> 8 </command>
13 <inputs> 9 <inputs>
14 <param name="cadd" type="boolean" truevalue="--extra cadd_score" falsevalue="" checked="True" 10 <param name="cadd" type="boolean" truevalue="--extra cadd_score" falsevalue="" checked="True"
15 label="Download CADD scores for GEMINI database annotation" help="(--extra cadd_score)"/> 11 label="Download CADD scores for GEMINI database annotation" help="(--extra cadd_score)"/>
16 <param name="gerp_bp" type="boolean" truevalue="--extra gerp_bp" falsevalue="" checked="True" 12 <param name="gerp_bp" type="boolean" truevalue="--extra gerp_bp" falsevalue="" checked="True"
17 label="Download GERP for GEMINI database annotation" help="(--extra gerp_bp)"/> 13 label="Download GERP for GEMINI database annotation" help="(--extra gerp_bp)"/>
18 </inputs> 14 </inputs>
19 <outputs> 15 <outputs>
20 <data name="out_file" format="data_manager_json" label="${tool.name}"/> 16 <data name="out_file" format="data_manager_json" label="${tool.name}"/>
21 </outputs> 17 </outputs>
22 <tests> 18 <tests>
23 </tests> 19 </tests>
24 <help> 20 <help>
25
26 This tool downloads the GEMINI databases. 21 This tool downloads the GEMINI databases.
27 22
28 For details about this tool, please go to http://gemini.readthedocs.org 23 For details about this tool, please go to http://gemini.readthedocs.org
29
30 </help> 24 </help>
31 <citations> 25 <citations>
32 <citation type="doi">10.1371/journal.pcbi.1003153</citation> 26 <citation type="doi">10.1371/journal.pcbi.1003153</citation>
33 <yield />
34 </citations> 27 </citations>
35 </tool> 28 </tool>
36 29