Mercurial > repos > cpt > cpt_convert_mga

diff cpt_convert_mga_to_gff3.xml @ 10:4100ee965124 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit 94b0cd1fff0826c6db3e7dc0c91c0c5a8be8bb0c
author cpt
date Mon, 05 Jun 2023 02:40:41 +0000
parents
children 4738b01e6dc0
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/cpt_convert_mga_to_gff3.xml	Mon Jun 05 02:40:41 2023 +0000
@@ -0,0 +1,38 @@
+<tool id="edu.tamu.cpt2.util.mga_to_gff3" name="MGA to GFF3" version="19.1.0.0">
+    <description/>
+    <macros>
+        <import>cpt-macros.xml</import>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements"/>
+    <command detect_errors="aggressive"><![CDATA[
+@GENOME_SELECTOR_PRE@
+
+python '$__tool_directory__/cpt_convert_mga_to_gff3.py'
+'$mga'
+@GENOME_SELECTOR@
+> '$data' ]]>
+</command>
+    <inputs>
+        <param label="MGA Output" name="mga" type="data" format="txt"/>
+        <expand macro="genome_selector"/>
+    </inputs>
+    <outputs>
+        <data format="gff3" name="data">
+		</data>
+    </outputs>
+    <tests>
+        <test>
+            <param name="reference_genome_source" value="history"/>
+            <param name="genome_fasta" value="ConvMga_In.fa"/>
+            <param name="mga" value="ConvMga_In.out"/>
+            <output name="data" file="ConvMga_Out.gff3"/>
+        </test>
+    </tests>
+    <help>
+**What it does**
+
+Converts an input MetaGeneAnnotator table to the GFF3 format.
+	</help>
+    <expand macro="citations"/>
+</tool>