https://github.com/galaxyproject/galaxy
Tip revision: 3ec7ad24fe6b821d157404caa497cc3ede2ac48b authored by John Chilton on 04 July 2020, 14:10:28 UTC
Version 20.5.0 of auth (tag galaxy-auth-20.5.0).
Version 20.5.0 of auth (tag galaxy-auth-20.5.0).
Tip revision: 3ec7ad2
ucsc_tablebrowser.xml
<?xml version="1.0"?>
<!--
If the value of 'URL_method' is 'get', the request will consist of the value of 'URL' coming back in
the initial response. If value of 'URL_method' is 'post', any additional params coming back in the
initial response ( in addition to 'URL' ) will be encoded and appended to URL and a post will be performed.
-->
<tool name="UCSC Main" id="ucsc_table_direct1" tool_type="data_source" version="1.0.0">
<description>table browser</description>
<command><![CDATA[
python '$__tool_directory__/data_source.py' '$output' $__app__.config.output_size_limit
]]></command>
<inputs action="https://genome.ucsc.edu/cgi-bin/hgTables" check_values="false" method="get">
<display>go to UCSC Table Browser $GALAXY_URL</display>
<param name="GALAXY_URL" type="baseurl" value="/tool_runner" />
<param name="tool_id" type="hidden" value="ucsc_table_direct1" />
<param name="sendToGalaxy" type="hidden" value="1" />
<param name="hgta_compressType" type="hidden" value="none" />
<param name="hgta_outputType" type="hidden" value="bed" />
</inputs>
<request_param_translation>
<request_param galaxy_name="URL_method" remote_name="URL_method" missing="post" />
<request_param galaxy_name="URL" remote_name="URL" missing="" />
<request_param galaxy_name="dbkey" remote_name="db" missing="?" />
<request_param galaxy_name="organism" remote_name="org" missing="unknown species" />
<request_param galaxy_name="table" remote_name="hgta_table" missing="unknown table" />
<request_param galaxy_name="description" remote_name="hgta_regionType" missing="no description" />
<request_param galaxy_name="data_type" remote_name="hgta_outputType" missing="auto" >
<value_translation>
<value galaxy_value="auto" remote_value="primaryTable" />
<value galaxy_value="auto" remote_value="selectedFields" />
<value galaxy_value="wig" remote_value="wigData" />
<value galaxy_value="interval" remote_value="tab" />
<value galaxy_value="html" remote_value="hyperlinks" />
<value galaxy_value="fasta" remote_value="sequence" />
<value galaxy_value="gtf" remote_value="gff" />
</value_translation>
</request_param>
</request_param_translation>
<uihints minwidth="800"/>
<outputs>
<data name="output" format="tabular" label="${tool.name} on ${organism}: ${table} (#if $description == 'range' then $getVar( 'position', 'unknown position' ) else $description#)"/>
</outputs>
<options sanitize="False" refresh="True"/>
<citations>
<citation type="doi">10.1093/database/bar011</citation>
<citation type="doi">10.1101/gr.229102</citation>
</citations>
</tool>