Revise README to simplify content and remove private visibility

Removed sections on access restrictions and copyright details.

.github/workflows/latex-lint.yml

@@ -0,0 +1,52 @@
+name: LaTeX Lint
+
+on:
+  push:
+    branches:
+      - main
+      - dev
+    paths:
+      - 'latex/**/*.tex'
+      - 'latex/main.tex'
+  workflow_dispatch:
+  
+jobs:
+  lint:
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+      - name: Install chktex
+        run: |
+          sudo apt-get update
+          sudo apt-get install -y chktex
+
+      - name: Run chktex inside latex/
+        working-directory: latex
+        run: |
+          TEX_FILES=$(find . -type f -name "*.tex")
+          if [ -z "$TEX_FILES" ]; then
+            echo "No .tex files found in latex/. Skipping lint."
+            exit 0
+          fi
+          
+          echo "🔍 Linting .tex files with chktex..."
+          FAIL=0
+          
+          for f in $TEX_FILES; do
+            echo "▶ Checking $f"
+            # Run chktex and show output; capture error status
+            if ! chktex "$f"; then
+              echo "::warning file=$f::ChkTeX found issues in $f"
+              FAIL=1
+            fi
+          done
+          
+          if [ $FAIL -ne 0 ]; then
+            echo "::error::❌ Lint errors or warnings were found in one or more .tex files above."
+            exit 1
+          else
+            echo "✅ All files passed chktex lint."
+          fi

.github/workflows/latexdiff.yml

@@ -0,0 +1,102 @@
+name: LaTeX Diff
+
+on:
+  workflow_dispatch:
+    inputs:
+      base_branch:
+        description: 'Base branch (older version)'
+        required: true
+      compare_branch:
+        description: 'Compare branch (new version)'
+        required: true
+
+jobs:
+  latexdiff:
+    runs-on: ubuntu-latest
+    container:
+      image: ghcr.io/xu-cheng/texlive-full:latest
+      options: --user root
+
+    steps:
+      - name: Install latexpand (Perl script)
+        run: |
+          tlmgr init-usertree
+          tlmgr install latexpand
+        
+      - name: Checkout base branch
+        uses: actions/checkout@v4
+        with:
+          ref: ${{ github.event.inputs.base_branch }}
+          path: base
+
+      - name: Checkout compare branch
+        uses: actions/checkout@v4
+        with:
+          ref: ${{ github.event.inputs.compare_branch }}
+          path: compare
+
+
+      - name: Create output folder
+        run: mkdir -p diff_output
+
+      - name: Flatten base/main.tex (with latexpand)
+        run: |
+          cd base/latex
+          echo "📂 Listing files in base/latex:"
+          ls -R
+          echo "🔄 Flattening with latexpand..."
+          latexpand --verbose --keep-comments --output=../../diff_output/base_flat.tex main.tex
+          echo "✅ Preview of base_flat.tex:"
+          head -n 50 ../../diff_output/base_flat.tex
+
+
+      - name: Flatten compare/main.tex (with latexpand)
+        run: |
+          cd compare/latex
+          echo "📂 Listing files in compare/latex:"
+          ls -R
+          echo "🔄 Flattening with latexpand..."
+          latexpand --verbose --keep-comments --output=../../diff_output/compare_flat.tex main.tex
+          echo "✅ Preview of compare_flat.tex:"
+          head -n 50 ../../diff_output/compare_flat.tex
+
+      - name: Generate diff.tex using latexdiff
+        run: |
+          latexdiff diff_output/base_flat.tex diff_output/compare_flat.tex > diff_output/diff.tex
+            
+      - name: Copy thesis.cls to diff_output
+        run: cp compare/latex/thesis.cls diff_output/
+
+      - name: Copy chapters/img into diff_output
+        run: |
+          # Create the same chapters/img path inside diff_output
+          mkdir -p diff_output/chapters/img
+          # Copy all images from compare branch into diff_output
+          cp -R compare/latex/chapters/img/* diff_output/chapters/img/
+          
+      - name: Copy .bib files into diff_output
+        run: |
+          mkdir -p diff_output
+          cp compare/latex/*.bib diff_output/
+        
+      - name: Override “\input{preamble/fonts}” in diff.tex
+        run: |
+          sed -i "/\\input{preamble\/fonts}/c % — replaced by CI: use TeX Gyre fonts instead of Times New Roman\/Arial\n\\\setmainfont{TeX Gyre Termes}\n\\\setsansfont{TeX Gyre Heros}\n\\\setmonofont{TeX Gyre Cursor}" diff_output/diff.tex
+          
+      - name: Print preview of diff.tex (after font override)
+        run: |
+          echo "📄 Preview of diff_output/diff.tex after font override:"
+          head -n 50 diff_output/diff.tex
+        
+      - name: Compile diff.tex to PDF
+        working-directory: diff_output
+        continue-on-error: true
+        run: |
+          xelatex -interaction=nonstopmode diff.tex
+          xelatex -interaction=nonstopmode diff.tex
+
+      - name: Upload diff output files
+        uses: actions/upload-artifact@v4
+        with:
+          name: latex-diff-output
+          path: diff_output/

.github/workflows/latexmk.yml

@@ -0,0 +1,29 @@
+name: Render XeLaTeX on PR to dev
+
+on:
+  pull_request:
+    branches:
+      - dev
+
+jobs:
+  build-pdf:
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+      - name: Compile XeLaTeX
+        uses: dante-ev/latex-action@2021-A
+        with:
+          root_file: main.tex
+          working_directory: latex
+          compiler: xelatex
+          args: -interaction=nonstopmode -halt-on-error -file-line-error
+          extra_system_packages: "fonts-freefont-otf"
+
+      - name: Upload compiled PDF
+        uses: actions/upload-artifact@v4
+        with:
+          name: compiled-pdf
+          path: latex/main.pdf

.gitignore

@@ -2,3 +2,4 @@
 data/**/*.csv
 .venv/
 *.pyc
+*.egg-info/

.gitmessage

@@ -21,6 +21,7 @@
 # 
 # Scope:
 #   latex    (changes to thesis LaTeX)
+#   documentclass (LaTeX in-house document class changes)
 #   src      (changes to Python source code)
 #   nb       (changes to notebooks)
 #   ml       (ML model specific changes)

.vscode/settings.json

@@ -1,3 +1,4 @@
 {
-  "python.analysis.extraPaths": ["./code/src/features"]
+  "python.analysis.extraPaths": ["./code/src/features"],
+  "jupyter.notebookFileRoot": "${workspaceFolder}/code"
 }

README.md

@@ -4,15 +4,14 @@ This repository contains the work related to my thesis, which focuses on damage
 
 **Note:** This repository does not contain the secondary data used in the analysis. The code is designed to work with data from the [QUGS (Qatar University Grandstand Simulator)](https://www.structuralvibration.com/benchmark/qugs/) dataset, which is not included here.
 
-The repository is private and access is restricted only to those who have been given explicit permission by the owner. Access is provided solely for the purpose of brief review or seeking technical guidance.
-
 ## Restrictions
 
 - **No Derivative Works or Cloning:** Any form of copying, cloning, or creating derivative works based on this repository is strictly prohibited.
-- **Limited Access:** Use beyond brief review or collaboration is not allowed without prior permission from the owner.
-
----
-
-All contents of this repository, including the thesis idea, code, and associated data, are copyrighted © 2024 by Rifqi Panuluh. Unauthorized use or duplication is prohibited.
 
 [LICENSE](https://github.com/nuluh/thesis?tab=License-1-ov-file#readme)
+
+## How to Run `stft.ipynb`
+
+1. run `pip install -e .` in root project first
+
+2. run the notebook

code/notebooks/stft.ipynb

@@ -155,7 +155,7 @@
     "import pandas as pd\n",
     "import numpy as np\n",
     "from scipy.signal import stft, hann\n",
-    "from multiprocessing import Pool\n",
+    "# from multiprocessing import Pool\n",
     "\n",
     "# Function to compute and append STFT data\n",
     "def process_stft(args):\n",
@@ -321,9 +321,9 @@
    "source": [
     "import pandas as pd\n",
     "import matplotlib.pyplot as plt\n",
-    "ready_data1 = []\n",
+    "ready_data1a = []\n",
     "for file in os.listdir('D:/thesis/data/converted/raw/sensor1'):\n",
-    "    ready_data1.append(pd.read_csv(os.path.join('D:/thesis/data/converted/raw/sensor1', file)))\n",
+    "    ready_data1a.append(pd.read_csv(os.path.join('D:/thesis/data/converted/raw/sensor1', file)))\n",
     "# colormesh give title x is frequency and y is time and rotate/transpose the data\n",
     "# Plotting the STFT Data"
    ]
@@ -334,8 +334,8 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "ready_data1[0]\n",
+    "len(ready_data1a)\n",
-    "plt.pcolormesh(ready_data1[0])"
+    "# plt.pcolormesh(ready_data1[0])"
    ]
   },
   {
@@ -345,7 +345,7 @@
    "outputs": [],
    "source": [
     "for i in range(6):\n",
-    "    plt.pcolormesh(ready_data1[i])\n",
+    "    plt.pcolormesh(ready_data1a[i])\n",
     "    plt.title(f'STFT Magnitude for case {i} sensor 1')\n",
     "    plt.xlabel(f'Frequency [Hz]')\n",
     "    plt.ylabel(f'Time [sec]')\n",
@@ -358,9 +358,9 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "ready_data2 = []\n",
+    "ready_data2a = []\n",
     "for file in os.listdir('D:/thesis/data/converted/raw/sensor2'):\n",
-    "    ready_data2.append(pd.read_csv(os.path.join('D:/thesis/data/converted/raw/sensor2', file)))"
+    "    ready_data2a.append(pd.read_csv(os.path.join('D:/thesis/data/converted/raw/sensor2', file)))"
    ]
   },
   {
@@ -369,8 +369,8 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "print(len(ready_data1))\n",
+    "print(len(ready_data1a))\n",
-    "print(len(ready_data2))"
+    "print(len(ready_data2a))"
    ]
   },
   {
@@ -379,10 +379,16 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "x1 = 0\n",
+    "x1a = 0\n",
-    "print(type(ready_data1[0]))\n",
+    "print(type(ready_data1a[0]))\n",
-    "ready_data1[0].iloc[:,0]\n",
+    "ready_data1a[0].iloc[:,0]"
-    "# x1 = x1 + ready_data1[0].shape[0]"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "#### Checking length of the total array"
    ]
   },
   {
@@ -391,16 +397,14 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "x1 = 0\n",
+    "x1a = 0\n",
-    "print(type(x1))\n",
+    "print(type(x1a))\n",
-    "for i in range(len(ready_data1)):\n",
+    "for i in range(len(ready_data1a)):\n",
-    "    # print(ready_data1[i].shape)\n",
+    "    print(type(ready_data1a[i].shape[0]))\n",
-    "    # print(ready_data1[i].)\n",
+    "    x1a = x1a + ready_data1a[i].shape[0]\n",
-    "    print(type(ready_data1[i].shape[0]))\n",
+    "    print(type(x1a))\n",
-    "    x1 = x1 + ready_data1[i].shape[0]\n",
-    "    print(type(x1))\n",
     "\n",
-    "print(x1)"
+    "print(x1a)"
    ]
   },
   {
@@ -409,13 +413,20 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "x2 = 0\n",
+    "x2a = 0\n",
     "\n",
-    "for i in range(len(ready_data2)):\n",
+    "for i in range(len(ready_data2a)):\n",
-    "    print(ready_data2[i].shape)\n",
+    "    print(ready_data2a[i].shape)\n",
-    "    x2 = x2 + ready_data2[i].shape[0]\n",
+    "    x2a = x2a + ready_data2a[i].shape[0]\n",
     "\n",
-    "print(x2)"
+    "print(x2a)"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "### Flatten 6 array into one array"
    ]
   },
   {
@@ -424,28 +435,22 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "x1 = ready_data1[0]\n",
+    "# Combine all dataframes in ready_data1a into a single dataframe\n",
-    "# print(x1)\n",
+    "if ready_data1a:  # Check if the list is not empty\n",
-    "print(type(x1))\n",
+    "    # Use pandas concat function instead of iterative concatenation\n",
-    "for i in range(len(ready_data1) - 1):\n",
+    "    combined_data = pd.concat(ready_data1a, axis=0, ignore_index=True)\n",
-    "    #print(i)\n",
+    "    \n",
-    "    x1 = np.concatenate((x1, ready_data1[i + 1]), axis=0)\n",
+    "    print(f\"Type of combined data: {type(combined_data)}\")\n",
-    "# print(x1)\n",
+    "    print(f\"Shape of combined data: {combined_data.shape}\")\n",
-    "pd.DataFrame(x1)"
+    "    \n",
-   ]
+    "    # Display the combined dataframe\n",
-  },
+    "    combined_data\n",
-  {
+    "else:\n",
-   "cell_type": "code",
+    "    print(\"No data available in ready_data1a list\")\n",
-   "execution_count": null,
+    "    combined_data = pd.DataFrame()\n",
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "x2 = ready_data2[0]\n",
     "\n",
-    "for i in range(len(ready_data2) - 1):\n",
+    "# Store the result in x1a for compatibility with subsequent code\n",
-    "    #print(i)\n",
+    "x1a = combined_data"
-    "    x2 = np.concatenate((x2, ready_data2[i + 1]), axis=0)\n",
-    "pd.DataFrame(x2)"
    ]
   },
   {
@@ -454,20 +459,29 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "print(x1.shape)\n",
+    "# Combine all dataframes in ready_data1a into a single dataframe\n",
-    "print(x2.shape)"
+    "if ready_data2a:  # Check if the list is not empty\n",
+    "    # Use pandas concat function instead of iterative concatenation\n",
+    "    combined_data = pd.concat(ready_data2a, axis=0, ignore_index=True)\n",
+    "    \n",
+    "    print(f\"Type of combined data: {type(combined_data)}\")\n",
+    "    print(f\"Shape of combined data: {combined_data.shape}\")\n",
+    "    \n",
+    "    # Display the combined dataframe\n",
+    "    combined_data\n",
+    "else:\n",
+    "    print(\"No data available in ready_data1a list\")\n",
+    "    combined_data = pd.DataFrame()\n",
+    "\n",
+    "# Store the result in x1a for compatibility with subsequent code\n",
+    "x2a = combined_data"
    ]
   },
   {
-   "cell_type": "code",
+   "cell_type": "markdown",
-   "execution_count": null,
    "metadata": {},
-   "outputs": [],
    "source": [
-    "y_1 = [1,1,1,1]\n",
+    "### Creating the label"
-    "y_2 = [0,1,1,1]\n",
-    "y_3 = [1,0,1,1]\n",
-    "y_4 = [1,1,0,0]"
    ]
   },
   {
@@ -490,7 +504,8 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "y_data = [y_1, y_2, y_3, y_4, y_5, y_6]"
+    "y_data = [y_1, y_2, y_3, y_4, y_5, y_6]\n",
+    "y_data"
    ]
   },
   {
@@ -500,7 +515,7 @@
    "outputs": [],
    "source": [
     "for i in range(len(y_data)):\n",
-    "    print(ready_data1[i].shape[0])"
+    "    print(ready_data1a[i].shape[0])"
    ]
   },
   {
@@ -509,9 +524,9 @@
    "metadata": {},
    "outputs": [],
    "source": [
+    "import numpy as np\n",
     "for i in range(len(y_data)):\n",
-    "    y_data[i] = [y_data[i]]*ready_data1[i].shape[0]\n",
+    "    y_data[i] = [y_data[i]]*ready_data1a[i].shape[0]"
-    "    y_data[i] = np.array(y_data[i])"
    ]
   },
   {
@@ -520,6 +535,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
+    "# len(y_data[0])\n",
     "y_data"
    ]
   },
@@ -552,10 +568,10 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "from sklearn.model_selection import train_test_split\n",
+    "from src.ml.model_selection import create_ready_data\n",
     "\n",
-    "x_train1, x_test1, y_train, y_test = train_test_split(x1, y, test_size=0.2, random_state=2)\n",
+    "X1a, y = create_ready_data('D:/thesis/data/converted/raw/sensor1')\n",
-    "x_train2, x_test2, y_train, y_test = train_test_split(x2, y, test_size=0.2, random_state=2)"
+    "X2a, y = create_ready_data('D:/thesis/data/converted/raw/sensor2')"
    ]
   },
   {
@@ -565,6 +581,17 @@
    "outputs": [],
    "source": [
     "from sklearn.model_selection import train_test_split\n",
+    "\n",
+    "x_train1, x_test1, y_train, y_test = train_test_split(X1a, y, test_size=0.2, random_state=2)\n",
+    "x_train2, x_test2, y_train, y_test = train_test_split(X2a, y, test_size=0.2, random_state=2)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
     "from sklearn.metrics import accuracy_score\n",
     "from sklearn.ensemble import RandomForestClassifier, BaggingClassifier\n",
     "from sklearn.tree import DecisionTreeClassifier\n",
@@ -597,16 +624,17 @@
     "\n",
     "\n",
     "# 1. Random Forest\n",
-    "rf_model = RandomForestClassifier()\n",
+    "rf_model1 = RandomForestClassifier()\n",
-    "rf_model.fit(x_train1, y_train)\n",
+    "rf_model1.fit(x_train1, y_train)\n",
-    "rf_pred1 = rf_model.predict(x_test1)\n",
+    "rf_pred1 = rf_model1.predict(x_test1)\n",
     "acc1 = accuracy_score(y_test, rf_pred1) * 100\n",
     "accuracies1.append(acc1)\n",
     "# format with color coded if acc1 > 90\n",
     "acc1 = f\"\\033[92m{acc1:.2f}\\033[00m\" if acc1 > 90 else f\"{acc1:.2f}\"\n",
     "print(\"Random Forest Accuracy for sensor 1:\", acc1)\n",
-    "rf_model.fit(x_train2, y_train)\n",
+    "rf_model2 = RandomForestClassifier()\n",
-    "rf_pred2 = rf_model.predict(x_test2)\n",
+    "rf_model2.fit(x_train2, y_train)\n",
+    "rf_pred2 = rf_model2.predict(x_test2)\n",
     "acc2 = accuracy_score(y_test, rf_pred2) * 100\n",
     "accuracies2.append(acc2)\n",
     "# format with color coded if acc2 > 90\n",
@@ -616,16 +644,17 @@
     "# print(y_test)\n",
     "\n",
     "# 2. Bagged Trees\n",
-    "bagged_model = BaggingClassifier(estimator=DecisionTreeClassifier(), n_estimators=10)\n",
+    "bagged_model1 = BaggingClassifier(estimator=DecisionTreeClassifier(), n_estimators=10)\n",
-    "bagged_model.fit(x_train1, y_train)\n",
+    "bagged_model1.fit(x_train1, y_train)\n",
-    "bagged_pred1 = bagged_model.predict(x_test1)\n",
+    "bagged_pred1 = bagged_model1.predict(x_test1)\n",
     "acc1 = accuracy_score(y_test, bagged_pred1) * 100\n",
     "accuracies1.append(acc1)\n",
     "# format with color coded if acc1 > 90\n",
     "acc1 = f\"\\033[92m{acc1:.2f}\\033[00m\" if acc1 > 90 else f\"{acc1:.2f}\"\n",
     "print(\"Bagged Trees Accuracy for sensor 1:\", acc1)\n",
-    "bagged_model.fit(x_train2, y_train)\n",
+    "bagged_model2 = BaggingClassifier(estimator=DecisionTreeClassifier(), n_estimators=10)\n",
-    "bagged_pred2 = bagged_model.predict(x_test2)\n",
+    "bagged_model2.fit(x_train2, y_train)\n",
+    "bagged_pred2 = bagged_model2.predict(x_test2)\n",
     "acc2 = accuracy_score(y_test, bagged_pred2) * 100\n",
     "accuracies2.append(acc2)\n",
     "# format with color coded if acc2 > 90\n",
@@ -641,8 +670,9 @@
     "# format with color coded if acc1 > 90\n",
     "acc1 = f\"\\033[92m{acc1:.2f}\\033[00m\" if acc1 > 90 else f\"{acc1:.2f}\"\n",
     "print(\"Decision Tree Accuracy for sensor 1:\", acc1)\n",
-    "dt_model.fit(x_train2, y_train)\n",
+    "dt_model2 = DecisionTreeClassifier()\n",
-    "dt_pred2 = dt_model.predict(x_test2)\n",
+    "dt_model2.fit(x_train2, y_train)\n",
+    "dt_pred2 = dt_model2.predict(x_test2)\n",
     "acc2 = accuracy_score(y_test, dt_pred2) * 100\n",
     "accuracies2.append(acc2)\n",
     "# format with color coded if acc2 > 90\n",
@@ -658,8 +688,9 @@
     "# format with color coded if acc1 > 90\n",
     "acc1 = f\"\\033[92m{acc1:.2f}\\033[00m\" if acc1 > 90 else f\"{acc1:.2f}\"\n",
     "print(\"KNeighbors Accuracy for sensor 1:\", acc1)\n",
-    "knn_model.fit(x_train2, y_train)\n",
+    "knn_model2 = KNeighborsClassifier()\n",
-    "knn_pred2 = knn_model.predict(x_test2)\n",
+    "knn_model2.fit(x_train2, y_train)\n",
+    "knn_pred2 = knn_model2.predict(x_test2)\n",
     "acc2 = accuracy_score(y_test, knn_pred2) * 100\n",
     "accuracies2.append(acc2)\n",
     "# format with color coded if acc2 > 90\n",
@@ -675,8 +706,9 @@
     "# format with color coded if acc1 > 90\n",
     "acc1 = f\"\\033[92m{acc1:.2f}\\033[00m\" if acc1 > 90 else f\"{acc1:.2f}\"\n",
     "print(\"Linear Discriminant Analysis Accuracy for sensor 1:\", acc1)\n",
-    "lda_model.fit(x_train2, y_train)\n",
+    "lda_model2 = LinearDiscriminantAnalysis()\n",
-    "lda_pred2 = lda_model.predict(x_test2)\n",
+    "lda_model2.fit(x_train2, y_train)\n",
+    "lda_pred2 = lda_model2.predict(x_test2)\n",
     "acc2 = accuracy_score(y_test, lda_pred2) * 100\n",
     "accuracies2.append(acc2)\n",
     "# format with color coded if acc2 > 90\n",
@@ -692,8 +724,9 @@
     "# format with color coded if acc1 > 90\n",
     "acc1 = f\"\\033[92m{acc1:.2f}\\033[00m\" if acc1 > 90 else f\"{acc1:.2f}\"\n",
     "print(\"Support Vector Machine Accuracy for sensor 1:\", acc1)\n",
-    "svm_model.fit(x_train2, y_train)\n",
+    "svm_model2 = SVC()\n",
-    "svm_pred2 = svm_model.predict(x_test2)\n",
+    "svm_model2.fit(x_train2, y_train)\n",
+    "svm_pred2 = svm_model2.predict(x_test2)\n",
     "acc2 = accuracy_score(y_test, svm_pred2) * 100\n",
     "accuracies2.append(acc2)\n",
     "# format with color coded if acc2 > 90\n",
@@ -709,8 +742,9 @@
     "# format with color coded if acc1 > 90\n",
     "acc1 = f\"\\033[92m{acc1:.2f}\\033[00m\" if acc1 > 90 else f\"{acc1:.2f}\"\n",
     "print(\"XGBoost Accuracy:\", acc1)\n",
-    "xgboost_model.fit(x_train2, y_train)\n",
+    "xgboost_model2 = XGBClassifier()\n",
-    "xgboost_pred2 = xgboost_model.predict(x_test2)\n",
+    "xgboost_model2.fit(x_train2, y_train)\n",
+    "xgboost_pred2 = xgboost_model2.predict(x_test2)\n",
     "acc2 = accuracy_score(y_test, xgboost_pred2) * 100\n",
     "accuracies2.append(acc2)\n",
     "# format with color coded if acc2 > 90\n",
@@ -787,51 +821,10 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "def spectograph(data_dir: str):\n",
+    "from src.ml.model_selection import create_ready_data\n",
-    "    # print(os.listdir(data_dir))\n",
-    "    for damage in os.listdir(data_dir):\n",
-    "        # print(damage)\n",
-    "        d = os.path.join(data_dir, damage)\n",
-    "        # print(d)\n",
-    "        for file in os.listdir(d):\n",
-    "            # print(file)\n",
-    "            f = os.path.join(d, file)\n",
-    "            print(f)\n",
-    "            # sensor1 = pd.read_csv(f, skiprows=1, sep=';')\n",
-    "            # sensor2 = pd.read_csv(f, skiprows=1, sep=';')\n",
     "\n",
-    "            # df1 = pd.DataFrame()\n",
+    "X1b, y = create_ready_data('D:/thesis/data/converted/raw_B/sensor1')\n",
-    "\n",
+    "X2b, y = create_ready_data('D:/thesis/data/converted/raw_B/sensor2')"
-    "            # df1['s1'] = sensor1[sensor1.columns[-1]]\n",
-    "            # df1['s2'] = sensor2[sensor2.columns[-1]]\n",
-    "ed\n",
-    "            # # Combined Plot for sensor 1 and sensor 2 from data1 file in which motor is operated at 800 rpm\n",
-    "\n",
-    "            # plt.plot(df1['s2'], label='sensor 2')\n",
-    "            # plt.plot(df1['s1'], label='sensor 1')\n",
-    "            # plt.xlabel(\"Number of samples\")\n",
-    "            # plt.ylabel(\"Amplitude\")\n",
-    "            # plt.title(\"Raw vibration signal\")\n",
-    "            # plt.legend()\n",
-    "            # plt.show()\n",
-    "\n",
-    "            # from scipy import signal\n",
-    "            # from scipy.signal.windows import hann\n",
-    "\n",
-    "            # vibration_data = df1['s1']\n",
-    "\n",
-    "            # # Applying STFT\n",
-    "            # window_size = 1024\n",
-    "            # hop_size = 512\n",
-    "            # window = hann(window_size)  # Creating a Hanning window\n",
-    "            # frequencies, times, Zxx = signal.stft(vibration_data, window=window, nperseg=window_size, noverlap=window_size - hop_size)\n",
-    "\n",
-    "            # # Plotting the STFT Data\n",
-    "            # plt.pcolormesh(times, frequencies, np.abs(Zxx), shading='gouraud')\n",
-    "            # plt.title(f'STFT Magnitude for case 1 signal sensor 1 ')\n",
-    "            # plt.ylabel('Frequency [Hz]')\n",
-    "            # plt.xlabel('Time [sec]')\n",
-    "            # plt.show()"
    ]
   },
   {
@@ -840,7 +833,115 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "spectograph('D:/thesis/data/converted/raw')"
+    "y.shape"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "from sklearn.metrics import accuracy_score, classification_report\n",
+    "# 4. Validate on Dataset B\n",
+    "y_pred_svm = svm_model.predict(X1b)\n",
+    "\n",
+    "# 5. Evaluate\n",
+    "print(\"Accuracy on Dataset B:\", accuracy_score(y, y_pred_svm))\n",
+    "print(classification_report(y, y_pred_svm))"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "from sklearn.metrics import accuracy_score, classification_report\n",
+    "# 4. Validate on Dataset B\n",
+    "y_pred = rf_model2.predict(X2b)\n",
+    "\n",
+    "# 5. Evaluate\n",
+    "print(\"Accuracy on Dataset B:\", accuracy_score(y, y_pred))\n",
+    "print(classification_report(y, y_pred))"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "y_predict = svm_model2.predict(X2b.iloc[[5312],:])\n",
+    "print(y_predict)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "y[5312]"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "### Confusion Matrix"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "import matplotlib.pyplot as plt\n",
+    "from sklearn.metrics import confusion_matrix, ConfusionMatrixDisplay\n",
+    "\n",
+    "\n",
+    "cm = confusion_matrix(y, y_pred_svm) # -> ndarray\n",
+    "\n",
+    "# get the class labels\n",
+    "labels = svm_model.classes_\n",
+    "\n",
+    "# Plot\n",
+    "disp = ConfusionMatrixDisplay(confusion_matrix=cm, display_labels=labels)\n",
+    "disp.plot(cmap=plt.cm.Blues)  # You can change colormap\n",
+    "plt.title(\"SVM Sensor1 CM Train w/ Dataset A Val w/ Dataset B\")\n",
+    "plt.show()"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "#### Self-test CM"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "# 1. Predict sensor 1 on Dataset A\n",
+    "y_train_pred = svm_model.predict(x_train1)\n",
+    "\n",
+    "# 2. Import confusion matrix tools\n",
+    "from sklearn.metrics import confusion_matrix, ConfusionMatrixDisplay\n",
+    "import matplotlib.pyplot as plt\n",
+    "\n",
+    "# 3. Create and plot confusion matrix\n",
+    "cm_train = confusion_matrix(y_train, y_train_pred)\n",
+    "labels = svm_model.classes_\n",
+    "\n",
+    "disp = ConfusionMatrixDisplay(confusion_matrix=cm_train, display_labels=labels)\n",
+    "disp.plot(cmap=plt.cm.Blues)\n",
+    "plt.title(\"Confusion Matrix: Train & Test on Dataset A\")\n",
+    "plt.show()\n"
    ]
   }
  ],

code/src/ml/model_selection.py

@@ -0,0 +1,57 @@
+import numpy as np
+import pandas as pd
+import os
+from sklearn.model_selection import train_test_split as sklearn_split
+
+
+def create_ready_data(
+    stft_data_path: str,
+    stratify: np.ndarray = None,
+) -> tuple:
+    """
+    Create a stratified train-test split from STFT data.
+
+    Parameters:
+    -----------
+    stft_data_path : str
+        Path to the directory containing STFT data files (e.g. 'data/converted/raw/sensor1')
+    stratify : np.ndarray, optional
+        Labels to use for stratified sampling
+
+    Returns:
+    --------
+    tuple
+        (X_train, X_test, y_train, y_test) - Split datasets
+    """
+    ready_data = []
+    for file in os.listdir(stft_data_path):
+        ready_data.append(pd.read_csv(os.path.join(stft_data_path, file)))
+
+    y_data = [i for i in range(len(ready_data))]
+
+    # Combine all dataframes in ready_data into a single dataframe
+    if ready_data:  # Check if the list is not empty
+        # Use pandas concat function instead of iterative concatenation
+        combined_data = pd.concat(ready_data, axis=0, ignore_index=True)
+
+        print(f"Type of combined data: {type(combined_data)}")
+        print(f"Shape of combined data: {combined_data.shape}")
+    else:
+        print("No data available in ready_data list")
+        combined_data = pd.DataFrame()
+
+    # Store the result in x1a for compatibility with subsequent code
+    X = combined_data
+
+    for i in range(len(y_data)):
+        y_data[i] = [y_data[i]] * ready_data[i].shape[0]
+        y_data[i] = np.array(y_data[i])
+
+    if y_data:
+        # Use numpy concatenate function instead of iterative concatenation
+        y = np.concatenate(y_data, axis=0)
+    else:
+        print("No labels available in y_data list")
+        y = np.array([])
+
+    return X, y

latex/frontmatter/maketitle.tex

@@ -1,31 +1,30 @@
 \begin{titlepage}
-    \centering
+\centering
-    \vspace*{1cm}
+\vspace*{1cm}
 
-    {\fontsize{14pt}{16pt}\selectfont \textbf{\MakeUppercase{Tugas Akhir}}\par}
+{\fontsize{14pt}{16pt}\selectfont \textbf{\MakeUppercase{Tugas Akhir}}\par}
-    \vspace{1.5cm}
+\vspace{1.5cm}
 
-    {\fontsize{14pt}{16pt}\selectfont \textbf{\MakeUppercase{\thesistitle}}\par}
+{\fontsize{14pt}{16pt}\selectfont \textbf{\MakeUppercase{\thetitle}}\par}
-    \vspace{1.5cm}
+\vspace{1.5cm}
 
-    \includegraphics[width=5cm]{frontmatter/img/logo.png}
+\includegraphics[width=5cm]{frontmatter/img/logo.png}
-    \vspace{1.5cm}
+\vspace{1.5cm}
 
 
-    \textbf{Disusun oleh:} \\
+\textbf{Disusun oleh:} \\
-    {\fontsize{14pt}{16pt}\selectfont \textbf{\studentname}} \\
+{\fontsize{14pt}{16pt}\selectfont \textbf{\theauthor}} \\
-    {\fontsize{14pt}{16pt}\selectfont \textbf{\studentid}} \\
+{\fontsize{14pt}{16pt}\selectfont \textbf{\studentid}} \\
 
 
-    \vfill
+\vfill
 
-    {\fontsize{12pt}{14pt}\selectfont
+{\fontsize{12pt}{14pt}\selectfont
-    \textbf{\program} \\
+\textbf{\program} \\
-    \textbf{\faculty} \\
+\textbf{\faculty} \\
-    \textbf{\university} \\
+\textbf{\university} \\
-    \textbf{\yearofsubmission}
+\textbf{\yearofsubmission}
-    }
+}
-    
-    \end{titlepage}%
 
+\end{titlepage}%
 

latex/frontmatter/maketitle_secondary.tex

@@ -0,0 +1,29 @@
+\begin{titlepage}
+\centering
+{\fontsize{14pt}{16pt}\selectfont \textbf{\MakeUppercase{Tugas Akhir}}\par}
+\vspace{1.5cm}
+
+{\fontsize{14pt}{16pt}\selectfont \textbf{\MakeUppercase{\thetitle}}\par}
+\vspace{1cm}
+{\normalsize\selectfont Diajukan guna melengkapi persyaratan untuk memenuhi gelar Sarjana Teknik di Program Studi Teknik Sipil, Fakultas Teknik, Universitas Muhammadiyah Yogyakarta\par}
+\vspace{1.5cm}
+
+\includegraphics[width=5cm]{frontmatter/img/logo.png}
+\vspace{1.5cm}
+
+
+\textbf{Disusun oleh:} \\
+{\fontsize{14pt}{16pt}\selectfont \textbf{\theauthor}} \\
+{\fontsize{14pt}{16pt}\selectfont \textbf{\studentid}} \\
+
+
+\vfill
+
+{\fontsize{12pt}{14pt}\selectfont
+\textbf{\program} \\
+\textbf{\faculty} \\
+\textbf{\university} \\
+\textbf{\yearofsubmission}
+}
+
+\end{titlepage}%

latex/thesis.cls

@@ -21,17 +21,25 @@
 \RequirePackage{tocloft}
 \RequirePackage{tocbibind}
 \RequirePackage{amsmath,amsfonts,amssymb}
+\RequirePackage{svg}           % Allows including SVG images directly
+\RequirePackage{indentfirst}   % Makes first paragraph after headings indented
+\RequirePackage{float}         % Provides [H] option to force figure/table placement
 
 % Polyglossia set language
-\setmainlanguage{bahasai}
++ \setdefaultlanguage[variant=indonesian]{malay}  % Proper Indonesian language setup
-% \setotherlanguage{english}
++ \setotherlanguage{english}             % Enables English as secondary language
+
++ \DefineBibliographyStrings{english}{%  % Customizes bibliography text
++   andothers={dkk\adddot},              % Changes "et al." to "dkk."
++   pages={hlm\adddot},                  % Changes "pp." to "hlm."
++ }
 
 % Conditionally load the watermark package and settings
 \if@draftmark
   \RequirePackage{draftwatermark}
-  \SetWatermarkText{Draft: \today [wip]}
+  \SetWatermarkText{nuluh/thesis (wip) draft: \today}
-  \SetWatermarkColor[gray]{0.7}
+  \SetWatermarkColor[gray]{0.8}                    % Opacity: 0.8 = 20% transparent  
-  \SetWatermarkFontSize{2cm}
+  \SetWatermarkFontSize{1.5cm}
   \SetWatermarkAngle{90}
   \SetWatermarkHorCenter{1.5cm}
 \fi
@@ -79,7 +87,10 @@
 }
 
 % Chapter formatting
-\titlespacing{\chapter}{0pt}{0pt}{*1.5}
+\titlespacing{\chapter}{0pt}{0cm}{*1.5}    % 0pt→0cm: same value, different unit
+                                             % 0pt = no space above chapter title
+                                             % *1.5 = 1.5× line spacing after title
+
 \titleformat{\chapter}[display]
   {\normalsize\bfseries\centering}
   {BAB~\Roman{chapter}} % << display format
@@ -91,6 +102,10 @@
 \titleformat{\subsection}
     {\normalsize\bfseries}{\thesubsection}{1em}{}
 
+% Section numbering depth
+\setcounter{secnumdepth}{3}               % Enables numbering for:
+                                          % 1 = chapters, 2 = sections, 3 = subsections
+
 % Ensure chapter reference in TOC matches
 \renewcommand{\cftchappresnum}{BAB~}
 \renewcommand{\cftchapaftersnum}{\quad}
@@ -108,16 +123,22 @@
 
 
 % Dot leaders, spacing, indentation
+\setlength{\cftbeforetoctitleskip}{0cm}   % Space above "DAFTAR ISI" title
+\setlength{\cftbeforeloftitleskip}{0cm}   % Space above "DAFTAR GAMBAR" title  
+\setlength{\cftbeforelottitleskip}{0cm}   % Space above "DAFTAR TABEL" title
+
 \setlength{\cftbeforechapskip}{0em}
 \setlength{\cftchapindent}{0pt}
 \setlength{\cftsecindent}{0em}
-\setlength{\cftsubsecindent}{2.5em}
+\setlength{\cftsubsecindent}{2em}
 \setlength{\cftchapnumwidth}{3.5em}
-\setlength{\cftsecnumwidth}{3.5em}
+\setlength{\cftsecnumwidth}{2em}
 \setlength{\cftsubsecnumwidth}{2.5em}
 \setlength{\cftfignumwidth}{5em}
 \setlength{\cfttabnumwidth}{4em}
-\renewcommand \cftchapdotsep{4.5} % https://tex.stackexchange.com/a/273764
+\renewcommand \cftchapdotsep{1}           % Denser dots (closer together) https://tex.stackexchange.com/a/273764
+\renewcommand \cftsecdotsep{1}            % Apply to sections too
+\renewcommand \cftsubsecdotsep{1}         % Apply to subsections too
 \renewcommand{\cftchapleader}{\normalfont\cftdotfill{\cftsecdotsep}}
 \renewcommand{\cftchappagefont}{\normalfont}
 \renewcommand{\cftfigpresnum}{\figurename~}

setup.py

@@ -0,0 +1,8 @@
+from setuptools import setup, find_packages
+
+setup(
+    name="thesisrepo",
+    version="0.1",
+    packages=find_packages(where="code"),
+    package_dir={"": "code"},
+)