TUL-Dev · Yuanshan-Wu · Oct 17, 2025 · Oct 30, 2025 · Nov 7, 2025 · Nov 12, 2025
diff --git a/CLI-Demos/Bmode_voi_with_mc_P05_02.gif b/CLI-Demos/Bmode_voi_with_mc_P05_02.gif
diff --git a/CLI-Demos/CEUS_voi_with_mc_P05_02.gif b/CLI-Demos/CEUS_voi_with_mc_P05_02.gif
diff --git a/CLI-Demos/MC_3D_test.ipynb b/CLI-Demos/MC_3D_test.ipynb
diff --git a/CLI-Demos/Vevo2100_test.ipynb b/CLI-Demos/Vevo2100_test.ipynb
diff --git a/CLI-Demos/curve_loaded.ipynb b/CLI-Demos/curve_loaded.ipynb
@@ -174,7 +174,7 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "base",
+   "display_name": ".venv",
    "language": "python",
    "name": "python3"
   },
@@ -188,7 +188,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.11.5"
+   "version": "3.10.19"
   }
  },
  "nbformat": 4,

diff --git a/CLI-Demos/paramaps_generation_demo.ipynb b/CLI-Demos/paramaps_generation_demo.ipynb
@@ -2,16 +2,16 @@
  "cells": [
   {
    "cell_type": "code",
-   "execution_count": 21,
+   "execution_count": 1,
    "id": "864b1626",
    "metadata": {},
    "outputs": [
     {
      "name": "stdout",
      "output_type": "stream",
      "text": [
-      "/home/das/QuantUS_Projs/QuantUS-Plugins-CEUS\n",
-      "/home/das/QuantUS_Projs\n"
+      "/Users/wuyuanshan/Desktop/Github/QuantUS-Plugins-CEUS/CLI-Demos\n",
+      "/Users/wuyuanshan/Desktop/Github/QuantUS-Plugins-CEUS\n"
      ]
     }
    ],
@@ -37,15 +37,15 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 22,
+   "execution_count": 2,
    "id": "8171c88c",
    "metadata": {},
    "outputs": [
     {
      "name": "stdout",
      "output_type": "stream",
      "text": [
-      "Available scan loaders: ['nifti']\n"
+      "Available scan loaders: ['avi', 'nifti', 'custom_dicom', 'mp4']\n"
      ]
     }
    ],
@@ -524,7 +524,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.11.6"
+   "version": "3.10.18"
   }
  },
  "nbformat": 4,

diff --git a/CLI-Demos/ttc_demo.ipynb b/CLI-Demos/ttc_demo.ipynb
diff --git a/README.md b/README.md
@@ -76,6 +76,11 @@ The end goal here is to support this entire customizable workflow through a GUI.
 python src/gui/run.py
 ```
 
+```bash
+# If the couldn't find src module error message appears
+python -m src.gui.run  
+```
+
 4. **Parametric Map Viewing**
 
 Parametric maps generated from the workflow can be viewed in both 2D and 3D. A tutorial for achieving this is in the `CLI-Demos/paramaps_viewing_demo.ipynb` notebook.
@@ -84,6 +89,13 @@ Parametric maps generated from the workflow can be viewed in both 2D and 3D. A t
 
 Examples in `CLI-Demos` illustrate how each individual step in the workflow can be accessed via a packaged Python entrypoint. This can be used for advanced workflow customization directly in Python.
 
+6. **Trouble Shooting **
+```bash
+# If you encounter an error with 'cocoa'
+pip uninstall PyQt6 PyQt6-Qt6 PyQt6_sip 
+pip install PyQt6
+```
+
 ### Recommended workflow
 
 For projects starting with just CEUS scans and no segmentations, the recommended usage would be to first draw and save segmentations for each scan using the GUI. Next, an ideal analysis config can be found via trial and error using the CLI on a select few of the scan/segmentation pairs. Last, batch processing with the finalized config can be run with scripting.

diff --git a/requirements.txt b/requirements.txt
@@ -24,7 +24,7 @@ psutil==7.0.0
 pure_eval==0.2.3
 pydicom
 Pygments==2.19.1
-pyradiomics==3.0.1
+# pyradiomics==3.0.1
 python-dateutil==2.9.0.post0
 pyqtdarktheme
 PyQt6==6.7.1