Spaces:
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Running
Jason Adrian
commited on
Commit
•
95b697c
1
Parent(s):
c80976f
Changes on layout
Browse files- app.py +52 -2
- figures/resnet-residual-block-for-resnet18-from-scratch-using-pytorch.png +0 -0
- figures/resnet18-basic-blocks-1.png +0 -0
- index.html +51 -0
- sample/1.2.392.200036.9125.4.0.1964921730.2349552188.1786966286.dcm.jpeg +0 -0
- sample/10.127.133.1137.156.1251.20190404101039.dcm.jpeg +0 -0
- sample/1b6a707131f787fe37d3ea40d2011d43.dicom.jpeg +0 -0
- sample/2e3204c2bb7a8fcdd6ec1ed547e2967e.dicom.jpeg +0 -0
- sample/badaec3e4d5f382ebf0b51ba2c917cea.dicom.jpeg +0 -0
- style.css +83 -0
- utils/page_utils.py +51 -0
app.py
CHANGED
@@ -4,6 +4,7 @@ from torchvision.transforms import transforms
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import numpy as np
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from typing import Optional
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import torch.nn as nn
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class BasicBlock(nn.Module):
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"""ResNet Basic Block.
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@@ -148,6 +149,8 @@ model.eval()
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class_names = ['abdominal', 'adult', 'others', 'pediatric', 'spine']
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class_names.sort()
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transformation_pipeline = transforms.Compose([
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transforms.ToPILImage(),
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transforms.Grayscale(num_output_channels=1),
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@@ -206,5 +209,52 @@ def image_classifier(inp):
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return labeled_result
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import numpy as np
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from typing import Optional
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import torch.nn as nn
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import os
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class BasicBlock(nn.Module):
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"""ResNet Basic Block.
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class_names = ['abdominal', 'adult', 'others', 'pediatric', 'spine']
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class_names.sort()
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examples_dir = "sample"
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transformation_pipeline = transforms.Compose([
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transforms.ToPILImage(),
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transforms.Grayscale(num_output_channels=1),
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return labeled_result
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# gradio code block for input and output
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with gr.Blocks() as app:
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gr.Markdown("# Lung Cancer Classification")
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with open('index.html', encoding="utf-8") as f:
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description = f.read()
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# gradio code block for input and output
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with gr.Blocks(theme=gr.themes.Default(primary_hue=page_utils.KALBE_THEME_COLOR, secondary_hue=page_utils.KALBE_THEME_COLOR).set(
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button_primary_background_fill="*primary_600",
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button_primary_background_fill_hover="*primary_500",
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button_primary_text_color="white",
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)) as app:
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with gr.Column():
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gr.HTML(description)
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with gr.Row():
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with gr.Column():
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inp_img = gr.Image()
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with gr.Row():
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clear_btn = gr.Button(value="Clear")
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process_btn = gr.Button(value="Process", variant="primary")
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with gr.Column():
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out_txt = gr.Label(label="Probabilities", num_top_classes=3)
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process_btn.click(image_classifier, inputs=inp_img, outputs=out_txt)
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clear_btn.click(lambda:(
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gr.update(value=None),
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gr.update(value=None)
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),
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inputs=None,
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outputs=[inp_img, out_txt])
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gr.Markdown("## Image Examples")
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gr.Examples(
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examples=[os.path.join(examples_dir, "1.2.392.200036.9125.4.0.1964921730.2349552188.1786966286.dcm.jpeg"),
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os.path.join(examples_dir, "1b6a707131f787fe37d3ea40d2011d43.dicom.jpeg"),
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os.path.join(examples_dir, "2e3204c2bb7a8fcdd6ec1ed547e2967e.dicom.jpeg"),
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os.path.join(examples_dir, "10.127.133.1137.156.1251.20190404101039.dcm.jpeg"),
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os.path.join(examples_dir, "badaec3e4d5f382ebf0b51ba2c917cea.dicom.jpeg"),
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],
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inputs=inp_img,
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outputs=out_txt,
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fn=image_classifier,
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cache_examples=False,
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)
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# demo = gr.Interface(fn=image_classifier, inputs="image", outputs="label")
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app.launch(share=True)
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figures/resnet-residual-block-for-resnet18-from-scratch-using-pytorch.png
ADDED
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figures/resnet18-basic-blocks-1.png
ADDED
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index.html
ADDED
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<!DOCTYPE html>
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<html>
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<head>
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<link rel="stylesheet" href="file/style.css" />
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<link rel="preconnect" href="https://fonts.googleapis.com" />
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<link rel="preconnect" href="https://fonts.gstatic.com" crossorigin />
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<link href="https://fonts.googleapis.com/css2?family=Source+Sans+Pro:wght@400;600;700&display=swap" rel="stylesheet" />
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<title><strong>Body Part Classification</strong></title>
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</head>
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<body>
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<div class="container">
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<h1 class="title"><strong> Body Part Classification</strong></h1>
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<h2 class="subtitle"><strong>Kalbe Digital Lab</strong></h2>
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<section class="overview">
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<div class="grid-container">
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<h3 class="overview-heading"><span class="vl">Overview</span></h3>
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<p class="overview-content">
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The Body Part Classification program serves the critical purpose of categorizing body parts from DICOM x-ray scans into five distinct classes: abdominal, adult chest, pediatric chest, spine, and others. This program trained using ResNet18 model.
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</p>
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</div>
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<div class="grid-container">
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<h3 class="overview-heading"><span class="vl">Dataset</span></h3>
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<div>
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<p class="overview-content">
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The program has been meticulously trained on a robust and diverse dataset, specifically <a href="https://vindr.ai/datasets/bodypartxr" target="_blank">VinDrBodyPartXR Dataset.</a>.
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<br/>
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This dataset is introduced by Vingroup of Big Data Institute which include 16,093 x-ray images that are collected and manually annotated. It is a highly valuable resource that has been instrumental in the training of our model.
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</p>
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<ul>
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<li>Objective: Body Part Identification</li>
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<li>Task: Classification</li>
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<li>Modality: Grayscale Images</li>
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</ul>
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</div>
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</div>
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<div class="grid-container">
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<h3 class="overview-heading"><span class="vl">Model Architecture</span></h3>
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<div>
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<p class="overview-content">
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The model architecture of ResNet18 to train x-ray images for classifying body part.
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</p>
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<img class="content-image" src="file/figures/resnet18-basic-blocks-1.png" alt="model-architecture" />
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<img class="content-image" src="file/figures/resnet-residual-block-for-resnet18-from-scratch-using-pytorch.png" alt="model-architecture" />
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</div>
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</div>
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</section>
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<h3 class="overview-heading"><span class="vl">Demo</span></h3>
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<p class="overview-content">Please select or upload a body part x-ray scan image to see the capabilities of body part classification with this model</p>
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</div>
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</body>
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</html>
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sample/1.2.392.200036.9125.4.0.1964921730.2349552188.1786966286.dcm.jpeg
ADDED
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sample/10.127.133.1137.156.1251.20190404101039.dcm.jpeg
ADDED
![]() |
sample/1b6a707131f787fe37d3ea40d2011d43.dicom.jpeg
ADDED
![]() |
sample/2e3204c2bb7a8fcdd6ec1ed547e2967e.dicom.jpeg
ADDED
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sample/badaec3e4d5f382ebf0b51ba2c917cea.dicom.jpeg
ADDED
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style.css
ADDED
@@ -0,0 +1,83 @@
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* {
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box-sizing: border-box;
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}
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body {
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font-family: 'Source Sans Pro', sans-serif;
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font-size: 16px;
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}
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.container {
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width: 100%;
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margin: 0 auto;
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}
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.title {
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font-size: 24px !important;
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font-weight: 600 !important;
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letter-spacing: 0em;
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text-align: center;
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color: #374159 !important;
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}
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.subtitle {
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font-size: 24px !important;
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font-style: italic;
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font-weight: 400 !important;
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letter-spacing: 0em;
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text-align: center;
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color: #1d652a !important;
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padding-bottom: 0.5em;
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}
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.overview-heading {
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font-size: 24px !important;
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font-weight: 600 !important;
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letter-spacing: 0em;
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text-align: left;
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}
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.overview-content {
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font-size: 14px !important;
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font-weight: 400 !important;
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line-height: 30px !important;
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letter-spacing: 0em;
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text-align: left;
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}
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.content-image {
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width: 100% !important;
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height: auto !important;
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}
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.vl {
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border-left: 5px solid #1d652a;
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padding-left: 20px;
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color: #1d652a !important;
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}
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.grid-container {
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display: grid;
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grid-template-columns: 1fr 2fr;
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gap: 20px;
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align-items: flex-start;
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margin-bottom: 0.7em;
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}
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.grid-container:nth-child(2) {
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align-items: center;
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}
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@media screen and (max-width: 768px) {
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.container {
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width: 90%;
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}
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.grid-container {
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display: block;
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}
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.overview-heading {
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font-size: 18px !important;
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}
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}
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utils/page_utils.py
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from typing import Optional
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class ColorPalette:
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"""Color Palette Container."""
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all = []
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def __init__(
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self,
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c50: str,
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c100: str,
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c200: str,
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c300: str,
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c400: str,
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c500: str,
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c600: str,
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c700: str,
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c800: str,
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c900: str,
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c950: str,
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name: Optional[str] = None,
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):
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self.c50 = c50
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self.c100 = c100
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self.c200 = c200
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self.c300 = c300
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self.c400 = c400
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self.c500 = c500
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self.c600 = c600
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self.c700 = c700
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self.c800 = c800
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self.c900 = c900
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self.c950 = c950
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self.name = name
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ColorPalette.all.append(self)
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KALBE_THEME_COLOR = ColorPalette(
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name='kalbe',
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c50='#f2f9e8',
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c100='#dff3c4',
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c200='#c2e78d',
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c300='#9fd862',
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c400='#7fc93f',
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c500='#3F831C',
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c600='#31661a',
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c700='#244c13',
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c800='#18340c',
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c900='#0c1b06',
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c950='#050a02',
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)
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