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comparison data_manager/omamer.xml @ 0:e1502e4f8725 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_omamer commit 8ff9ada22d22cb94ddfff51bcdd3ab7d30104f1a
author iuc
date Wed, 21 Feb 2024 19:26:53 +0000
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children 57db282ca204
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-1:000000000000 0:e1502e4f8725
1 <tool id="data_manager_omamer" name="OMAmer data manager" version="2.0.2" tool_type="manage_data" profile="20.01">
2 <macros>
3 <import>macros.xml</import>
4 </macros>
5 <version_command></version_command>
6 <command detect_errors="exit_code"><![CDATA[
7 python '$__tool_directory__/omamer.py'
8 --name '$name'
9 --json '$output_file'
10 ]]></command>
11 <inputs>
12 <param name="output_dir" type="text" label="Output Directory" value=""/>
13 <param name="name" type="select" label="Database">
14 <option value="Primates">Primates</option>
15 <option value="Viridiplantae">Viridiplantae</option>
16 <option value="Metazoa">Metazoa</option>
17 <option value="LUCA">LUCA</option>
18 </param>
19 </inputs>
20
21 <outputs>
22 <data name="output_file" format="data_manager_json" label="OMAmer data manager: JSON"/>
23 </outputs>
24
25 <tests>
26 <test>
27 <param name="output_dir" value="test_galaxy"/>
28 <param name="name" value="Primates"/>
29 <output name="output_file">
30 <assert_contents>
31 <has_text text="Primates-v2.0"/>
32 <has_text text="database_omamer"/>
33 </assert_contents>
34 </output>
35 </test>
36 </tests>
37
38 <help><![CDATA[
39 This data manager retrieves data from various pre-built databases.
40
41 .. _omamer: https://github.com/DessimozLab/omamer
42 ]]></help>
43 <citations>
44 <citation type="doi">10.1093/bioinformatics/btab219</citation>
45 </citations>
46 </tool>