<?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="InterMine" id="intermine" tool_type="data_source" version="1.0.0">
    <description>server</description>
    <edam_operations>
        <edam_operation>operation_0224</edam_operation>
    </edam_operations>
    <command><![CDATA[
python '$__tool_directory__/data_source.py' '$output' $__app__.config.output_size_limit
    ]]></command>
    <inputs action="http://registry.intermine.org/im-to-galaxy" check_values="false" method="get">
        <display>go to InterMine server $GALAXY_URL</display>
        <param name="GALAXY_URL" type="baseurl" value="/tool_runner?tool_id=intermine" />
    </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="organism" missing="" />
        <request_param galaxy_name="table" remote_name="table" missing="" />
        <request_param galaxy_name="description" remote_name="description" missing="" />
        <request_param galaxy_name="name" remote_name="name" missing="InterMine query" />
        <request_param galaxy_name="info" remote_name="info" missing="" />
        <request_param galaxy_name="data_type" remote_name="data_type" missing="auto" >
            <value_translation>
                <value galaxy_value="auto" remote_value="txt" /> <!-- intermine currently always provides 'txt', make this auto detect -->
            </value_translation>
        </request_param>
    </request_param_translation>
    <uihints minwidth="800"/>
    <outputs>
        <data name="output" format="txt" />
    </outputs>
    <options sanitize="False" refresh="True"/>
</tool>