# HG changeset patch
# User luca_milaz
# Date 1758551521 0
# Node ID 388b2bb55bf444679d61e0860bd3d870e25df4c5
# Parent  0559829e71177f017151c4c7a6cd38d0e6a48f43
Uploaded

diff -r 0559829e7117 -r 388b2bb55bf4 COBRAxy/flux_simulation_beta.xml
--- a/COBRAxy/flux_simulation_beta.xml	Mon Sep 22 14:25:05 2025 +0000
+++ b/COBRAxy/flux_simulation_beta.xml	Mon Sep 22 14:32:01 2025 +0000
@@ -77,9 +77,9 @@
                     label="Model file:"
                     help="Upload a CSV/TSV file containing information generated by the Model Initialization tool." />
 
-                <param name="inputs" argument="--inputs" multiple="true" type="data" format="tabular,csv,tsv"
-                    label="Bound file(s):"
-                    help="Upload one or more CSV/TSV files containing reaction bounds. Each file must include at least: ReactionID, lower_bound, upper_bound. Files are applied in the order provided; later files override earlier ones for the same ReactionID." />
+                <param name="inputs" argument="--inputs" type="data_collection" collection_type="list" format="tabular,csv,tsv"
+                    label="RAS bounds collection:"
+                    help="Select a collection containing CSV/TSV files with reaction bounds. Each file in the collection must include at least: ReactionID, lower_bound, upper_bound. Files are applied in the order they appear in the collection; later files override earlier ones for the same ReactionID." />
             </when>
 
             <when value="False">
@@ -106,7 +106,7 @@
                 <param name="n_samples" argument="--n_samples" type="integer" label="Samples:" value="1000" help="Number of samples to generate."/>
                 <param name="n_batches" argument="--n_batches" type="integer" label="Batches:" value="1" help="This is useful for computational performances."/>
 
-                <param type="select" argument="--output_types" multiple="true" name="output_types" label="Choose outputs from sampling">
+                <param type="select" argument="--output_types" multiple="true" name="output_types" label="Desired outputs from sampling">
                     <option value="mean" selected="true">Mean</option>
                     <option value="median" selected="false">Median</option>
                     <option value="quantiles" selected="false">Quantiles</option>
@@ -120,7 +120,7 @@
             </when>
         </conditional>
 
-        <param type="select" argument="--output_types_analysis" multiple="true" name="output_types_analysis" label="Choose outputs from optimization">
+        <param type="select" argument="--output_types_analysis" multiple="true" name="output_types_analysis" label="Desired outputs from optimization">
             <option value="pFBA" selected="false">pFBA</option>
             <option value="FVA" selected="true">FVA</option>
             <option value="sensitivity" selected="false">Sensitivity reaction knock-out (Biomass)</option>