# HG changeset patch
# User luca_milaz
# Date 1758561276 0
# Node ID 6e9eabe58298aa98f5018e2d34cd4a926338f596
# Parent  816e5b9b6f845f4120c39755c13bb7d18860ad26
Uploaded

diff -r 816e5b9b6f84 -r 6e9eabe58298 COBRAxy/integrated_tool_panel.xml
--- a/COBRAxy/integrated_tool_panel.xml	Mon Sep 22 16:54:41 2025 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,6 +0,0 @@
-<section id="metabolic_analysis" name="Metabolic Analysis" version="">
-  <tool id="ras_generator" />      <!-- This will appear first -->
-  <tool id="rps_generator" />  <!-- This will appear second -->
-  <tool id="marea_cluster" />      <!-- This will appear third -->
-</section>
-    
\ No newline at end of file
diff -r 816e5b9b6f84 -r 6e9eabe58298 COBRAxy/local/pickle files/HMRcore_genes.p
diff -r 816e5b9b6f84 -r 6e9eabe58298 COBRAxy/local/pickle files/HMRcore_rules.p
diff -r 816e5b9b6f84 -r 6e9eabe58298 COBRAxy/local/pickle files/Recon_genes.p
diff -r 816e5b9b6f84 -r 6e9eabe58298 COBRAxy/local/pickle files/Recon_rules.p
diff -r 816e5b9b6f84 -r 6e9eabe58298 COBRAxy/marea_cluster.py
diff -r 816e5b9b6f84 -r 6e9eabe58298 COBRAxy/marea_macros.xml
diff -r 816e5b9b6f84 -r 6e9eabe58298 COBRAxy/ras_generator_beta.xml
--- a/COBRAxy/ras_generator_beta.xml	Mon Sep 22 16:54:41 2025 +0000
+++ b/COBRAxy/ras_generator_beta.xml	Mon Sep 22 17:14:36 2025 +0000
@@ -25,7 +25,7 @@
     </command>
     <inputs>
         <param name="model_upload" argument="--model_upload" type="data" format="csv,tsv,tabular" 
-                label="Model rules file:" help="Upload a CSV/TSV file containing reaction rules generated by the Model Initialization tool." />
+                label="Model file:" help="Upload a CSV/TSV file containing the information generated by the Model Initialization tool." />
         <param name="input" argument="--input" type="data" format="tabular,csv,tsv" label="Gene Expression dataset:" />
         <param name="name" argument="--name" type="text" label="Dataset's name:" value="Dataset_RAS" 
                 help="Default: Dataset_RAS. Do not use white spaces or special symbols." />
@@ -103,3 +103,4 @@
 <expand macro="citations" />
 </tool>
 	
+