diff longORF.xml @ 0:c0f423210af0 draft default tip

planemo upload for repository https://github.com/bernt-matthias/mb-galaxy-tools/blob/master/tools/longorf/ commit 82ae2fa7e7a4a51f7583c6a95bdafc5f843c7c3b

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/longORF.xml	Mon Aug 07 13:52:15 2023 +0000
@@ -0,0 +1,35 @@
+<tool id="longORF" name="Obtain longest ORFs" version="0.3.0">
+    <description> in six-frame translations</description>
+    <command><![CDATA[
+        python $__tool_directory__/getLongestORF.py $input $output_longestORF $output_ORFs
+    ]]>
+    </command>
+    <inputs>
+        <param name="input" format="fasta" type="data" label="sequences"/>
+    </inputs>
+    <outputs>
+        <data name="output_longestORF" format="fasta"/>
+        <data name="output_ORFs" format="tabular"/>
+    </outputs>
+
+    <tests>
+        <test>
+            <param name="input" value="test_input.fasta"/>
+            <output name="output_longestORF" file="test_output.fasta"/>
+            <output name="output_ORFs" file="test_output.tab"/>
+        </test>
+    </tests>
+    <help><![CDATA[
+**What it does**
+
+This tool identifies the longest Open Reading Frames within the six-frame translations of a set of sequences. 
+
+**Input**
+
+It takes an amino acid fasta file with all open reading frames (+ and - strand) listed by the correspondng transcript. The tool is designed to process the output of the Galaxy tool "getorf" from the EMBOSS package.
+
+**Output**
+
+For each transcript, the respected longest ORF is identified and listed in fasta format. Furthermore, table with information about seqID, start, end, length, orientation, longest for all ORFs is given.]]>
+    </help>
+</tool>