diff data_manager/data_manager_plant_tribes_scaffolds_download.xml @ 0:4c96b684f0fd draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/data_manager/data_manager_plant_tribes_scaffolds_download.xml	Fri Jan 13 10:34:15 2017 -0500
@@ -0,0 +1,49 @@
+<tool id="data_manager_plant_tribes_scaffolds_download" name="PlantTribes Scaffolds Download" version="1.0.0" tool_type="manage_data">
+    <description></description>
+    <stdio>
+        <exit_code range=":-1" level="fatal" description="Error: Cannot open file" />
+        <exit_code range="1:" level="fatal" description="Error" />
+    </stdio>
+    <command>
+        <![CDATA[
+            python $__tool_directory__/data_manager_plant_tribes_scaffolds_download.py
+            --name "$name"
+            --description "$description"
+            --web_url "$web_url"
+            --out_file "$out_file"
+        ]]>
+    </command>
+    <inputs>
+        <param name="name" type="text" value="" label="Data table entry unique ID"/>
+        <param name="description" type="text" value="" label="Description of the data" help="Value is optional"/>
+        <param name="web_url" type="text" value="" label="Web URL" optional="False" />
+    </inputs>
+    <outputs>
+        <data name="out_file" format="data_manager_json" />
+    </outputs>
+    <tests>
+    </tests>
+    <help>
+.. class:: infomark
+
+**What it does**
+
+This tool fetches scaffolds data used by the PlantTribes Galaxy tools and populates the plant_tribes_scaffolds data table.
+The scaffolds data can be imported using a URL, and an optional description can be provided that will appear next to the
+scaffolds file name in the data table entry.  Scaffolds data provided by the Floral Genome Project can be downloaded here:
+
+ * 22 plant genomes (Angiosperms clusters, version 1.0):        http://fgp.huck.psu.edu/planttribes_data/22Gv1.0.tar.bz2
+ * 22 plant genomes (Angiosperms clusters, version 1.1):        http://fgp.huck.psu.edu/planttribes_data/22Gv1.1.tar.bz2
+
+    </help>
+    <citations>
+        <citation type="bibtex">
+            @unpublished{None,
+            author = {Greg Von Kuster},
+            title = {None},
+            year = {None},
+            eprint = {None},
+            url = {None}
+        }</citation>
+    </citations>
+</tool>