# HG changeset patch
# User drosofff
# Date 1403624134 14400
# Node ID 256a0b1aa83636423f7891a4da21e93b61efe75d
# Parent  f9032a86667566332fc70b4feded940b4897c9e2
Uploaded

diff -r f9032a866675 -r 256a0b1aa836 mississippi_gcc/annotation_collector.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/mississippi_gcc/annotation_collector.xml	Tue Jun 24 11:35:34 2014 -0400
@@ -0,0 +1,37 @@
+<tool id="annotation_collector" name="Collect Annotation counts" version="0.9.0">
+    <description> from matched fasta files</description>
+    <command interpreter="python">
+        annotation_collector.py
+        $out_file
+        $input1 $label1
+        #for $q in $queries
+            ${q.input2} ${q.label2}
+        #end for
+        $title
+    </command>
+    <inputs>
+       <param name="title" type="text" label="Annotation Title"/>
+       <param name="input1" type="data" label="fasta file to annotate"/>
+       <param name="label1" type="text" label="category label"/>
+        <repeat name="queries" title="Additional fasta file and label">
+            <param name="input2" type="data" label="Select" />
+            <param name="label2" type="text" label="Label" />
+        </repeat>
+    </inputs>
+    <outputs>
+        <data name="out_file" format="tabular" metadata_source="input1" label="Annotations"/>
+    </outputs>
+    <help>
+
+.. class:: warningmark
+
+**WARNING:** Be careful not to agregate datasets of different kinds (e.g., datasets must be matched fasta files). This tool does not check if the datasets being annotated are in the same format.
+
+-----
+
+**What it does**
+
+Generates Annotation Table from fasta files
+
+   </help>
+</tool>
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