|
0
|
1 <?xml version="1.0"?>
|
|
18
|
2 <tool name="GDCWebApp" id="data_source_gdcwebapp" tool_type="data_source_async" hidden="False" display_interface="False" version="1.0.0" force_history_refresh="True">
|
|
0
|
3 <description>an intuitive interface to filter, extract, and convert Genomic Data Commons experiments</description>
|
|
12
|
4 <requirements>
|
|
|
5 <requirement type="package" version="2.7.10">python</requirement>
|
|
|
6 </requirements>
|
|
0
|
7 <stdio>
|
|
|
8 <exit_code range="1:" />
|
|
|
9 <exit_code range=":-1" />
|
|
|
10 </stdio>
|
|
10
|
11 <command>
|
|
|
12 <![CDATA[
|
|
12
|
13 mkdir -p tmp &&
|
|
32
|
14 python ${__tool_directory__}/json_collect_data_source.py "${__app__.config.output_size_limit}" --json_param_file "${output1}" --path "." --appdata "tmp"
|
|
10
|
15 ]]>
|
|
|
16 </command>
|
|
24
|
17 <inputs check_values="False" action="http://bioinf.iasi.cnr.it/gdcwebapp/app.php">
|
|
0
|
18 <display>Go to GDCWebApp service $GALAXY_URL</display>
|
|
26
|
19 <param name="GALAXY_URL" type="baseurl" value="/async/data_source_gdcwebapp" />
|
|
0
|
20 </inputs>
|
|
|
21 <outputs>
|
|
10
|
22 <collection name="list_output" type="list:list" label="${tool.name} Output Collection">
|
|
16
|
23 <discover_datasets pattern="(?P<identifier_0>[^_]+)_(?P<identifier_1>[^_]+)_(?P<ext>[^_]+)_(?P<dbkey>[^_]+)" ext="auto" visible="False" directory="tmp" />
|
|
6
|
24 </collection>
|
|
28
|
25 <data name="output1" format="auto" label="${tool.name} Output Data" />
|
|
0
|
26 </outputs>
|
|
|
27 <options sanitize="False" refresh="True" />
|
|
|
28 </tool>
|
