adding filter in O/P and min max in conv

galaxyproject · Feb 10, 2025 · 243f1fc · 243f1fc
1 parent e74fa15
commit 243f1fc
Showing 1 changed file with 6 additions and 2 deletions.
diff --git a/tools/mmuphin/mmuphin.xml b/tools/mmuphin/mmuphin.xml
@@ -77,7 +77,7 @@
         <section name="additional_options" title="Additional Options" expanded="true">
             <param argument="zero_inflation" type="boolean" truevalue="zero_inflation TRUE" falsevalue="zero_inflation FALSE" checked="true" label="Run zero-inflated model"/>            
             <param argument="pseudo_count" type="float" optional="true" label="Pseudo_count" help="Pseudo count to add feature_abd before the methods' log transformation. Default to the half of the minimal non-zero values in feature_abd" />
-            <param argument="conv" type="float" value="0.0001"  optional="true" label="Convergence threshold" help="Convergence threshold for the method's iterative algorithm for shrinking batch effect parameters. Suggested Minimum convergence value = 1e-6, maximum convergence value = 1e-3"/>
+            <param argument="conv" type="float" value="0.0001"  min="0.000001" max="0.001" optional="true" label="Convergence threshold" help="Convergence threshold for the method's iterative algorithm for shrinking batch effect parameters."/>
             <param argument="maxit" type="float" optional="true" value="1000" label="Maximum number of iterations" help="Maximum number of iterations allowed for the method's iterative algorithm. Default to 1000"/>
             <param argument="verbose" type="hidden" truevalue="verbose TRUE" falsevalue="verbose FALSE" checked="true" label="Print verbose information"/> 
             <param argument="diagnostic_plot" type="boolean" truevalue="diagnostic_plot TRUE" falsevalue="diagnostic_plot FALSE" checked="true"  label="Generate diagnostic figure file"/>
@@ -86,7 +86,11 @@
 
     <outputs>
           <data name="output" format="tabular"  label="Adjusted abundance table"/>
-          <data name="diagnostic_plot_output" format="pdf" label="diagnostic figure file"/>
+          <data name="diagnostic_plot_output" format="pdf" label="diagnostic figure file">
+              <filter>
+                   additional_options['diagnostic_plot'] is True
+              </filter>
+          </data>
    </outputs>
 
     <tests>