From 826da3acaca861ec7a5a68a60ed3fa4923db2cf2 Mon Sep 17 00:00:00 2001
From: Greg Von Kuster <greg@bx.psu.edu>
Date: Thu, 14 Jan 2010 10:24:37 -0500
Subject: [PATCH] Add a tool config for the new bx_browser data source tool.

---
 tool_conf.xml.sample             |  1 +
 tools/data_source/bx_browser.xml | 41 ++++++++++++++++++++++++++++++++
 2 files changed, 42 insertions(+)
 create mode 100644 tools/data_source/bx_browser.xml

diff --git a/tool_conf.xml.sample b/tool_conf.xml.sample
index 0e9e4161133..654cf5f10f9 100644
--- a/tool_conf.xml.sample
+++ b/tool_conf.xml.sample
@@ -5,6 +5,7 @@
     <tool file="data_source/ucsc_tablebrowser.xml" />
     <tool file="data_source/ucsc_tablebrowser_test.xml" /> 
     <tool file="data_source/ucsc_tablebrowser_archaea.xml" />
+    <tool file="data_source/bx_browser.xml" />
     <tool file="data_source/microbial_import.xml" />
     <tool file="data_source/biomart.xml" />
     <tool file="data_source/biomart_test.xml" />
diff --git a/tools/data_source/bx_browser.xml b/tools/data_source/bx_browser.xml
new file mode 100644
index 00000000000..46902462265
--- /dev/null
+++ b/tools/data_source/bx_browser.xml
@@ -0,0 +1,41 @@
+<?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="BX main" id="bx_browser" tool_type="data_source">
+    <description>browser</description>
+    <command interpreter="python">data_source.py $output $__app__.config.output_size_limit</command>
+    <inputs action="http://main.genome-browser.bx.psu.edu/" check_values="false" method="get">
+        <display>go to BX Browser $GALAXY_URL</display>
+        <param name="GALAXY_URL" type="baseurl" value="/tool_runner" />
+        <param name="tool_id" type="hidden" value="bx_browser" />
+        <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="tabular" >
+            <value_translation>
+                <value galaxy_value="tabular" remote_value="primaryTable" />
+                <value galaxy_value="tabular" 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_translation>
+        </request_param>
+    </request_param_translation>
+    <uihints minwidth="800"/>
+    <outputs>
+        <data name="output" format="tabular" />
+    </outputs>
+    <options sanitize="False" refresh="True"/>
+</tool>