# HG changeset patch
# User luca_milaz
# Date 1760002361 0
# Node ID 7726a4a7173f6e0156c74f622989ac510e557acc
# Parent  ded8a0d6cb6dd04987777bd54b6e8133c6a6d660
Uploaded

diff -r ded8a0d6cb6d -r 7726a4a7173f COBRAxy/flux_simulation.xml
--- a/COBRAxy/flux_simulation.xml	Thu Oct 09 09:32:09 2025 +0000
+++ b/COBRAxy/flux_simulation.xml	Thu Oct 09 09:32:41 2025 +0000
@@ -17,6 +17,7 @@
         <![CDATA[
         python $__tool_directory__/flux_simulation.py
         --tool_dir $__tool_directory__
+        
         --model_and_bounds $model_and_bounds.model_and_bounds
         
         #if $model_and_bounds.model_and_bounds == 'True':
@@ -64,6 +65,13 @@
         #end if
         
         --out_log $log
+        --out_fluxes $fluxes_results
+        --out_mean $mean_results
+        --out_median $median_results
+        --out_quantiles $quantile_results
+        --out_fva $fva_results
+        --out_pfba $pFBA_results
+        --out_sensitivity $sensitivity_results
         ]]>
     </command>
 
@@ -148,12 +156,31 @@
 
     <outputs>
         <data format="txt" name="log" label="Flux Simulation - Log" />
-        <data name="output" format="tabular" label="Flux Simulation - Output">
+        <!---<data name="output" format="tabular" label="Fluxes">
             <discover_datasets pattern="__name_and_ext__" directory="flux_simulation" visible="true" />
+        </data>-->
+        <collection name="fluxes_results" type="list" label="Fluxes">
+            <filter>'fluxes' in str($sampling_params.output_types)</filter>
+            <discover_datasets name = "collection" pattern="__name_and_ext__" directory="flux_simulation"/>
+        </collection>
+        <data format="tabular" name="mean_results" label="Mean">
+            <filter>'mean' in str($sampling_params.output_types)</filter>
+        </data>
+        <data format="tabular" name="median_results" label="Median">
+            <filter>'median' in str($sampling_params.output_types)</filter>
+        </data>
+        <data format="tabular" name="quantile_results" label="Quantiles">
+            <filter>'quantiles' in str($sampling_params.output_types)</filter>
         </data>
         <data format="tabular" name="fva_results" label="FVA">
             <filter>'FVA' in str($output_types_analysis)</filter>
         </data>
+        <data format="tabular" name="pFBA_results" label="pFBA">
+            <filter>'pFBA' in str($output_types_analysis)</filter>
+        </data>
+        <data format="tabular" name="sensitivity_results" label="Sensitivity">
+            <filter>'sensitivity' in str($output_types_analysis)</filter>
+        </data>
     </outputs>
 
     <help>