diff feelnc2asko.xml @ 0:e323c49b8bcc draft

planemo upload for repository https://github.com/genouest/galaxy-tools/tree/master/tools/feelnc2asko commit 92849224db1963d090fbb25d410cc659a5449241

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/feelnc2asko.xml	Thu Apr 12 06:05:23 2018 -0400
@@ -0,0 +1,36 @@
+<tool id="feelnc2asko" name="Convert FeelNC GTF" version="0.1">
+    <description>to GFF3 for AskOmics</description>
+    <requirements>
+        <requirement type="package" version="1.6.924">perl-bioperl</requirement>
+    </requirements>
+
+    <command detect_errors="exit_code"><![CDATA[
+        perl '$__tool_directory__/feelnc2asko.pl' --ann '${anngff}' --lnc '${lncgtf}' --new '${newgtf}' > '${outgff}'
+    ]]></command>
+
+    <inputs>
+        <param format="gff" name="anngff" type="data" label="Initial annotation file" />
+        <param format="gtf" name="lncgtf" type="data" label="FeelNC lncRNA annotation" />
+        <param format="gtf" name="newgtf" type="data" label="FeelNC new mRNA annotation" />
+    </inputs>
+
+    <outputs>
+        <data format="gff" name="outgff" label="${tool.name} on ${on_string} : FeelNC GFF" />
+    </outputs>
+
+    <tests>
+        <test>
+            <param name="anngff" ftype="gff" value="initial.gff3" />
+            <param name="lncgtf" ftype="gtf" value="feelnc_lncRNA.gtf" />
+            <param name="newgtf" ftype="gtf" value="feelnc_mRNA.gtf" />
+            <output name="outgff" ftype="gff" file="completeAnnot.gff3" compare="sim_size" />
+        </test>
+    </tests>
+
+    <help>
+        Generates a GFF compliant to AskOmics from the FeelNC output files merged with the initial annotation file.
+    </help>
+
+    <citations>
+    </citations>
+</tool>