diff FormulaMapper.xml @ 0:c9f248f68f60 draft

planemo upload for repository https://forge.inrae.fr/metexplore/met4j-galaxy commit 538e93b3d7804d3e2d6a8d83aea3853279d37de3-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/FormulaMapper.xml	Tue Oct 28 15:01:20 2025 +0000
@@ -0,0 +1,26 @@
+<?xml version="1.0" encoding="UTF-8" standalone="no"?>
+<tool id="met4j_FormulaMapper" name="FormulaMapper" version="@TOOL_VERSION@">
+  <description>Map a list of formulas against metabolites from a SBML file</description>
+  <macros>
+    <import>macros.xml</import>
+  </macros>
+  <expand macro="bio_tools"/>
+  <expand macro="requirements"/>
+  <command detect_errors="exit_code"><![CDATA[met4j mapping.FormulaMapper -i "$sbmlPath"
+ -f "$inputPath"
+ $na
+ -o "$outputPath"
+]]></command>
+  <inputs>
+    <param argument="-i" format="sbml" label="input SBML file" name="sbmlPath" optional="false" type="data" value=""/>
+    <param argument="-f" format="tsv" label="input formula file (one per line)" name="inputPath" optional="false" type="data" value=""/>
+    <param argument="-na" checked="false" falsevalue="" label="Output formulas without match in model, with NA value" name="na" truevalue="-na" type="boolean" value="false"/>
+  </inputs>
+  <outputs>
+    <data format="tsv" name="outputPath"/>
+  </outputs>
+  <tests/>
+  <help><![CDATA[
+@ATTRIBUTION@]]></help>
+  <citations/>
+</tool>