diff add_scaffold.xml @ 0:fdcced0f4ae4 draft

Uploaded
author greg
date Tue, 22 May 2018 09:40:43 -0400
parents
children c6a05684ed31
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/add_scaffold.xml	Tue May 22 09:40:43 2018 -0400
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+<tool id="plant_tribes_add_scaffold" name="Add scaffold" version="@WRAPPER_VERSION@.0.0">
+    <description>to Galaxy PlantTribes database</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <command detect_errors="exit_code"><![CDATA[
+python add_scaffold.py
+--database_connection_string '$__app,config.plant_tribes_database_connection'
+--output '$output'
+--scaffold_path '$GALAXY_DATA_INDEX_DIR/plant_tribes/scaffolds/$scaffold'
+--output '$output']]></command>
+    <inputs>
+        <expand macro="param_scaffold" />
+    </inputs>
+    <outputs>
+        <data name="output" format="txt"/>
+    </outputs>
+    <tests>
+        <test>
+        </test>
+    </tests>
+    <help>
+
+-----
+
+**Required options**
+
+ * **Gene family scaffold** - one of the PlantTribes gene family scaffolds, installed into Galaxy by the PlantTribes Scaffold Data Manager tool, that has not yet been added to the Galaxy PlantTribes database.
+    </help>
+    <citations>
+        <citation type="bibtex">
+            @unpublished{None,
+            author = {Greg Von Kuster,Eric Wafula},
+            title = {None},
+            year = {None},
+            eprint = {None},
+            url = {https://github.com/dePamphilis/PlantTribes}}
+        </citation>
+    </citations>
+</tool>