Mercurial > repos > iuc > data_manager_gemini_database_downloader

comparison data_manager/data_manager_gemini_download.xml @ 2:345412d58d75 draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/data_managers/data_manager_gemini_database_downloader commit 4bbfca6f0e9cae9a8f263aad4eab7304c96358c4
author iuc
date Thu, 18 Feb 2016 08:49:06 -0500
parents a580422f6f1d
children 172815da3d41
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1:a580422f6f1d 2:345412d58d75
1 <tool id="data_manager_gemini_download" name="GEMINI Download" version="0.10.0" 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="0.10.0">gemini</requirement> 4 <requirement type="package" version="0.18.1">gemini</requirement>
5 </requirements> 5 </requirements>
6 <stdio>
7 <exit_code range=":-1" level="fatal" description="Error: Cannot open file" />
8 <exit_code range="1:" level="fatal" description="Error" />
9 </stdio>
6 <command interpreter="python"> 10 <command interpreter="python">
7 data_manager_gemini_download.py "$out_file" 11 data_manager_gemini_download.py "$out_file"
8 </command> 12 </command>
9 <inputs> 13 <inputs>
10 <param name="cadd" type="boolean" truevalue="--extra cadd_score" falsevalue="" checked="True" 14 <param name="cadd" type="boolean" truevalue="--extra cadd_score" falsevalue="" checked="True"
11 label="Download CADD scores for GEMINI database annotation" help="(--extra cadd_score)"/> 15 label="Download CADD scores for GEMINI database annotation" help="(--extra cadd_score)"/>
12 16 <param name="gerp_bp" type="boolean" truevalue="--extra gerp_bp" falsevalue="" checked="True"
13 <param name="gerp_bp" type="boolean" truevalue="--extra gerp_bp" falsevalue="" checked="True"
14 label="Download GERP for GEMINI database annotation" help="(--extra gerp_bp)"/> 17 label="Download GERP for GEMINI database annotation" help="(--extra gerp_bp)"/>
15 </inputs> 18 </inputs>
16 <outputs> 19 <outputs>
17 <data name="out_file" format="data_manager_json" label="${tool.name}"/> 20 <data name="out_file" format="data_manager_json" label="${tool.name}"/>
18 </outputs> 21 </outputs>
19 <stdio>
20 <exit_code range=":-1" level="fatal" description="Error: Cannot open file" />
21 <exit_code range="1:" level="fatal" description="Error" />
22 </stdio>
23 <tests> 22 <tests>
24 </tests> 23 </tests>
25 <help> 24 <help>
26 25
27 This tool downloads the GEMINI databases. 26 This tool downloads the GEMINI databases.
28 27
29 For details about this tool, please go to http://http://gemini.readthedocs.org 28 For details about this tool, please go to http://gemini.readthedocs.org
30 29
31 </help> 30 </help>
32 <citations> 31 <citations>
33 <citation type="doi">10.1371/journal.pcbi.1003153</citation> 32 <citation type="doi">10.1371/journal.pcbi.1003153</citation>
34 <yield /> 33 <yield />