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/tools/data_source/ucsc_tablebrowser_test.xml

https://bitbucket.org/cistrome/cistrome-harvard/
XML | 42 lines | 37 code | 0 blank | 5 comment | 0 complexity | 4917f8591d04c93f5753c11fb7fb1cf8 MD5 | raw file
 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<tool name="UCSC Test" id="ucsc_table_direct_test1" tool_type="data_source">
 8    <description>table browser</description>
 9    <command interpreter="python">data_source.py $output $__app__.config.output_size_limit</command>
10    <inputs action="http://genome-test.cse.ucsc.edu/cgi-bin/hgTables" check_values="false" method="get">
11        <display>go to UCSC Table Browser $GALAXY_URL</display>
12        <param name="GALAXY_URL" type="baseurl" value="/tool_runner" />
13        <param name="tool_id" type="hidden" value="ucsc_table_direct_test1" />
14        <param name="sendToGalaxy" type="hidden" value="1" />
15        <param name="hgta_compressType" type="hidden" value="none" />
16        <param name="hgta_outputType" type="hidden" value="bed" />
17    </inputs>
18    <request_param_translation>
19        <request_param galaxy_name="URL_method" remote_name="URL_method" missing="post" />
20        <request_param galaxy_name="URL" remote_name="URL" missing="" />
21        <request_param galaxy_name="dbkey" remote_name="db" missing="?" />
22        <request_param galaxy_name="organism" remote_name="org" missing="unknown species" />
23        <request_param galaxy_name="table" remote_name="hgta_table" missing="unknown table" />
24        <request_param galaxy_name="description" remote_name="hgta_regionType" missing="no description" />
25        <request_param galaxy_name="data_type" remote_name="hgta_outputType" missing="auto" >
26            <value_translation>
27                <value galaxy_value="auto" remote_value="primaryTable" />
28                <value galaxy_value="auto" remote_value="selectedFields" />
29                <value galaxy_value="wig" remote_value="wigData" />
30                <value galaxy_value="interval" remote_value="tab" />
31                <value galaxy_value="html" remote_value="hyperlinks" />
32                <value galaxy_value="fasta" remote_value="sequence" />
33                <value galaxy_value="gtf" remote_value="gff" />
34            </value_translation>
35        </request_param>
36    </request_param_translation>
37    <uihints minwidth="800"/>
38    <outputs>
39        <data name="output" format="tabular" label="${tool.name} on ${organism}: ${table} (#if $description == 'range' then $getVar( 'position', 'unknown position' ) else $description#)"/>
40    </outputs>
41    <options sanitize="False" refresh="True"/>
42</tool>