Mercurial > repos > xuebing > sharplabtool
comparison tools/data_source/gramene_mart.xml @ 0:9071e359b9a3
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author | xuebing |
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date | Fri, 09 Mar 2012 19:37:19 -0500 |
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-1:000000000000 | 0:9071e359b9a3 |
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1 <?xml version="1.0"?> | |
2 <!-- | |
3 If the value of 'URL_method' is 'get', the request will consist of the value of 'URL' coming back in | |
4 the initial response. If value of 'URL_method' is 'post', any additional params coming back in the | |
5 initial response ( in addition to 'URL' ) will be encoded and appended to URL and a post will be performed. | |
6 | |
7 TODO: Hack to get biomart to work - the 'add_to_URL' param can be eliminated when the Biomart team encodes URL prior to sending, meanwhile | |
8 everything including and beyond the first '&' is truncated from URL. They said they'll let us know when this is fixed at their end. | |
9 --> | |
10 <tool name="GrameneMart" id="gramenemart" tool_type="data_source" version="1.0.1"> | |
11 <description> Central server</description> | |
12 <command interpreter="python">data_source.py $output $__app__.config.output_size_limit</command> | |
13 <inputs action="http://www.gramene.org/biomart/martview" check_values="false" method="get" target="_top"> | |
14 <display>go to GrameneMart Central $GALAXY_URL</display> | |
15 <param name="GALAXY_URL" type="baseurl" value="/tool_runner/biomart" /> | |
16 </inputs> | |
17 <request_param_translation> | |
18 <request_param galaxy_name="URL" remote_name="URL" missing=""> | |
19 <append_param separator="&" first_separator="?" join="="> | |
20 <value name="_export" missing="1" /> | |
21 <value name="GALAXY_URL" missing="0" /> | |
22 </append_param> | |
23 </request_param> | |
24 <request_param galaxy_name="data_type" remote_name="exportView_outputformat" missing="tabular"> | |
25 <value_translation> | |
26 <value galaxy_value="tabular" remote_value="TSV" /> | |
27 </value_translation> | |
28 </request_param> | |
29 <request_param galaxy_name="URL_method" remote_name="URL_method" missing="get" /> | |
30 <request_param galaxy_name="dbkey" remote_name="dbkey" missing="?" /> | |
31 <request_param galaxy_name="organism" remote_name="organism" missing="" /> | |
32 <request_param galaxy_name="table" remote_name="table" missing="" /> | |
33 <request_param galaxy_name="description" remote_name="description" missing="" /> | |
34 <request_param galaxy_name="name" remote_name="name" missing="Biomart query" /> | |
35 <request_param galaxy_name="info" remote_name="info" missing="" /> | |
36 </request_param_translation> | |
37 <uihints minwidth="800"/> | |
38 <outputs> | |
39 <data name="output" format="tabular" /> | |
40 </outputs> | |
41 <options sanitize="False" refresh="True"/> | |
42 </tool> |