Mercurial > repos > iuc > data_manager_plant_tribes_scaffolds_downloader
comparison data_manager/data_manager_plant_tribes_scaffolds_download.xml @ 0:4c96b684f0fd draft
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author | iuc |
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date | Fri, 13 Jan 2017 10:34:15 -0500 |
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children | 13c235ded82e |
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-1:000000000000 | 0:4c96b684f0fd |
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1 <tool id="data_manager_plant_tribes_scaffolds_download" name="PlantTribes Scaffolds Download" version="1.0.0" tool_type="manage_data"> | |
2 <description></description> | |
3 <stdio> | |
4 <exit_code range=":-1" level="fatal" description="Error: Cannot open file" /> | |
5 <exit_code range="1:" level="fatal" description="Error" /> | |
6 </stdio> | |
7 <command> | |
8 <![CDATA[ | |
9 python $__tool_directory__/data_manager_plant_tribes_scaffolds_download.py | |
10 --name "$name" | |
11 --description "$description" | |
12 --web_url "$web_url" | |
13 --out_file "$out_file" | |
14 ]]> | |
15 </command> | |
16 <inputs> | |
17 <param name="name" type="text" value="" label="Data table entry unique ID"/> | |
18 <param name="description" type="text" value="" label="Description of the data" help="Value is optional"/> | |
19 <param name="web_url" type="text" value="" label="Web URL" optional="False" /> | |
20 </inputs> | |
21 <outputs> | |
22 <data name="out_file" format="data_manager_json" /> | |
23 </outputs> | |
24 <tests> | |
25 </tests> | |
26 <help> | |
27 .. class:: infomark | |
28 | |
29 **What it does** | |
30 | |
31 This tool fetches scaffolds data used by the PlantTribes Galaxy tools and populates the plant_tribes_scaffolds data table. | |
32 The scaffolds data can be imported using a URL, and an optional description can be provided that will appear next to the | |
33 scaffolds file name in the data table entry. Scaffolds data provided by the Floral Genome Project can be downloaded here: | |
34 | |
35 * 22 plant genomes (Angiosperms clusters, version 1.0): http://fgp.huck.psu.edu/planttribes_data/22Gv1.0.tar.bz2 | |
36 * 22 plant genomes (Angiosperms clusters, version 1.1): http://fgp.huck.psu.edu/planttribes_data/22Gv1.1.tar.bz2 | |
37 | |
38 </help> | |
39 <citations> | |
40 <citation type="bibtex"> | |
41 @unpublished{None, | |
42 author = {Greg Von Kuster}, | |
43 title = {None}, | |
44 year = {None}, | |
45 eprint = {None}, | |
46 url = {None} | |
47 }</citation> | |
48 </citations> | |
49 </tool> |