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comparison data_manager/dada2_fetcher.xml @ 1:1c50cfb0c0ab draft

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planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/data_managers/data_manager_dada2 commit 42eb67646e47bef13eed672ff6b9d06b1d82ae3d-dirty
author matthias
date Thu, 07 Mar 2019 11:48:18 -0500
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children b4c303665291
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0:419037fe1150 1:1c50cfb0c0ab
1 <?xml version="1.0"?>
2 <tool id="dada_fetcher" name="dada2 dada manager" tool_type="manage_data" version="0.0.2">
3 <description>Download reference data sets</description>
4 <command detect_errors="exit_code">
5 <![CDATA[
6 python '$__tool_directory__/data_manager.py'
7 --out '${out_file}'
8 --file '$type_cond.database_name'
9 ]]>
10 </command>
11 <inputs>
12 <param name="database_name" type="select" label="mapping data">
13 <option value="silva132">Silva version 132</option>
14 <option value="silva128">Silva version 128</option>
15 <option value="rdp16">RDP trainset 16 + RDP database release 11.5</option>
16 <option value="rdp14">RDP trainset 14</option>
17 <option value="gg13.84">GreenGenes version 13.8</option>
18 <!-- <option value="unite8.0">UNITE: General Fasta release 8.0 </option>
19 <option value="RefSeq_RDP">NCBI RefSeq 16S rRNA database supplemented by RDP</option>
20 <option value="gtdb">GTDB: Genome Taxonomy Database (More info: http://gtdb.ecogenomic.org/)</option>
21 <option value="hitdb1">HitDB version 1 (Human InTestinal 16S rRNA)</option>
22 <option value="silva132_euk">Silva Eukaryotic 18S, v132 &amp; v128</option>
23 <option value="PR2v4.11.0">Protist Ribosomal Reference database 2 version 4.11.0</option>-->
24 </param>
25 </inputs>
26 <outputs>
27 <data name="out_file" format="data_manager_json" />
28 </outputs>
29 <tests>
30 <test>
31 <param name="database_name" value="silva132"/>
32 <output name="out_file" file="silva132_json"/>
33 </test>
34 </tests>
35 <help>
36 http://www.arb-silva.de/silva-license-information
37 </help>
38 </tool>
39