Updated requirements.txt. Updated server.py to pull a new environment variable, PAPER_FINAL_PATH_PREFIX, which provides the directory prefix for the path keys in paper_final.json, and is then read in at the point of format_papers_context() calls. Hoping that's enough to fix any dir issues with those files...

example/backend/requirements.txt

@@ -55,7 +55,7 @@ tenacity==9.1.2
 tokenizers==0.21.1
 torch==2.7.0
 tqdm==4.67.1
-transformers==4.51.3
+transformers==4.52.4
 typer==0.15.2
 typing-inspection==0.4.0
 typing_extensions==4.13.2

example/backend/server.py

@@ -1,6 +1,7 @@
 from decouple import config
 from fastapi import FastAPI, HTTPException
 from fastapi.middleware.cors import CORSMiddleware
+from pathlib import Path
 from pydantic import BaseModel
 import uvicorn
 import json
@@ -16,6 +17,7 @@ from typing import List, Dict, Any, Optional
 VOYAGE_API_KEY = config("VOYAGE_API_KEY")
 EMBEDDINGS_FINAL = config("EMBEDDINGS_FINAL")
 PAPER_FINAL = config("PAPER_FINAL")
+PAPER_FINAL_PATH_PREFIX = config("PAPER_FINAL_PATH_PREFIX")
 
 # Initialize FastAPI
 app = FastAPI(title="BioPACIFIC MIP Research Paper RAG API")
@@ -100,7 +102,7 @@ def format_papers_context(papers, similarities):
     relevant_papers = []
     context = "Based on the following relevant papers:\n\n"
     for paper, similarity in zip(papers, similarities):
-        original_paper = json.load(open(paper['path']))
+        original_paper = json.load(open(Path(PAPER_FINAL_PATH_PREFIX, paper['path'])))
         relevant_papers.append(original_paper)
         context += f"Title: {original_paper['title']}\n\n"
         context += f"Published Time: {original_paper['published_time']}\n\n"

example/src/routes/+layout.svelte

@@ -1,81 +1,81 @@
 <script>
-  import '../app.css';
+	import '../app.css';
 </script>
 
 <div class="app">
-  <header>
-    <div class="header-content">
-      <h1>Research Paper Assistant</h1>
-      <nav>
-        <a href="/">Home</a>
-        <a href="/about">About</a>
-      </nav>
-    </div>
-  </header>
-  
-  <main>
-    <slot />
-  </main>
-  
-  <footer>
-    <p>&copy; {new Date().getFullYear()} Research Paper RAG System - Built with Svelte</p>
-  </footer>
+	<header>
+		<div class="header-content">
+			<h1>Research Paper Assistant</h1>
+			<nav>
+				<a href="/">Home</a>
+				<a href="/about">About</a>
+			</nav>
+		</div>
+	</header>
+
+	<main>
+		<slot />
+	</main>
+
+	<footer>
+		<p>&copy; {new Date().getFullYear()} Research Paper RAG System - Built with Svelte</p>
+	</footer>
 </div>
 
 <style>
-  .app {
-    display: flex;
-    flex-direction: column;
-    min-height: 100vh;
-  }
-  
-  header {
-    background-color: #2c3e50;
-    color: white;
-    padding: 1rem 0;
-    box-shadow: 0 2px 4px rgba(0,0,0,0.1);
-  }
-  
-  .header-content {
-    max-width: 1200px;
-    margin: 0 auto;
-    padding: 0 20px;
-    display: flex;
-    justify-content: space-between;
-    align-items: center;
-  }
-  
-  header h1 {
-    margin: 0;
-    font-size: 1.5rem;
-  }
-  
-  nav {
-    display: flex;
-    gap: 20px;
-  }
-  
-  nav a {
-    color: white;
-    text-decoration: none;
-    font-weight: 500;
-    padding: 5px;
-  }
-  
-  nav a:hover {
-    text-decoration: underline;
-  }
-  
-  main {
-    flex: 1;
-  }
-  
-  footer {
-    background-color: #f8f9fa;
-    padding: 1rem 0;
-    text-align: center;
-    font-size: 0.875rem;
-    color: #7f8c8d;
-    border-top: 1px solid #ecf0f1;
-  }
-</style>
+	.app {
+		display: flex;
+		flex-direction: column;
+		min-height: 100vh;
+	}
+
+	header {
+		background-color: #2c3e50;
+		color: white;
+		padding: 1rem 0;
+		box-shadow: 0 2px 4px rgba(0, 0, 0, 0.1);
+	}
+
+	.header-content {
+		max-width: 1200px;
+		margin: 0 auto;
+		padding: 0 20px;
+		display: flex;
+		justify-content: space-between;
+		align-items: center;
+	}
+
+	header h1 {
+		margin: 0;
+		font-size: 1.5rem;
+	}
+
+	nav {
+		display: flex;
+		gap: 20px;
+	}
+
+	nav a {
+		color: white;
+		text-decoration: none;
+		font-weight: 500;
+		padding: 5px;
+	}
+
+	nav a:hover {
+		text-decoration: underline;
+	}
+
+	main {
+		flex: 1;
+	}
+
+	footer {
+		background-color: #f8f9fa;
+		padding: 1rem 0;
+		text-align: center;
+		font-size: 0.875rem;
+		color: #7f8c8d;
+		border-top: 1px solid #ecf0f1;
+	}
+</style>

example/src/routes/+page.svelte

@@ -1,246 +1,261 @@
-<script>
-  import { onMount } from 'svelte';
-  
-  // State variables
-  let question = '';
-  let isLoading = false;
-  let response = '';
-  let papers = [
-    { title: '', abstract: '', similarity: '' },
-    { title: '', abstract: '', similarity: '' },
-    { title: '', abstract: '', similarity: '' }
-  ];
-  
-  // Example questions
-  const examples = [
-    "Can you recommend some papers about perovskite which are published in last 5 years?",
-    "Explain the concept of attention mechanisms in deep learning.",
-    "What are the main challenges in few-shot learning?"
-  ];
-  
-  // Function to handle form submission
-  async function handleSubmit() {
-    if (!question.trim()) return;
-    
-    isLoading = true;
-    response = '';
-    
-    try {
-      const res = await fetch('/api/query', {
-        method: 'POST',
-        headers: {
-          'Content-Type': 'application/json'
-        },
-        body: JSON.stringify({ message: question })
-      });
-      
-      if (!res.ok) throw new Error('Failed to get response');
-      
-      const data = await res.json();
-      
-      // Update state with response data
-      response = data.response;
-      papers = [
-        { 
-          title: data.papers[0].title, 
-          abstract: data.papers[0].abstract, 
-          similarity: data.papers[0].similarity 
-        },
-        { 
-          title: data.papers[1].title, 
-          abstract: data.papers[1].abstract, 
-          similarity: data.papers[1].similarity 
-        },
-        { 
-          title: data.papers[2].title, 
-          abstract: data.papers[2].abstract, 
-          similarity: data.papers[2].similarity 
-        }
-      ];
-    } catch (error) {
-      console.error('Error:', error);
-      response = `An error occurred: ${error.message}`;
-    } finally {
-      isLoading = false;
-    }
-  }
-  
-  // Function to use an example question
-  function useExample(example) {
-    question = example;
-  }
+<script lang="ts">
+	import { onMount } from 'svelte';
+
+	// State variables
+	let question = '';
+	let isLoading = false;
+	let response = '';
+	let papers = [
+		{ title: '', abstract: '', similarity: '' },
+		{ title: '', abstract: '', similarity: '' },
+		{ title: '', abstract: '', similarity: '' }
+	];
+
+	// Example questions
+	const examples = [
+		'Can you recommend some papers about perovskite which are published in last 5 years?',
+		'Explain the concept of attention mechanisms in deep learning.',
+		'What are the main challenges in few-shot learning?'
+	];
+
+	// Function to handle form submission
+	async function handleSubmit() {
+		if (!question.trim()) return;
+
+		isLoading = true;
+		response = '';
+
+		try {
+			const res = await fetch('/api/query', {
+				method: 'POST',
+				headers: {
+					'Content-Type': 'application/json'
+				},
+				body: JSON.stringify({ message: question })
+			});
+
+			if (!res.ok) throw new Error('Failed to get response');
+
+			const data = await res.json();
+
+			// Update state with response data
+			response = data.response;
+			papers = [
+				{
+					title: data.papers[0].title,
+					abstract: data.papers[0].abstract,
+					similarity: data.papers[0].similarity
+				},
+				{
+					title: data.papers[1].title,
+					abstract: data.papers[1].abstract,
+					similarity: data.papers[1].similarity
+				},
+				{
+					title: data.papers[2].title,
+					abstract: data.papers[2].abstract,
+					similarity: data.papers[2].similarity
+				}
+			];
+		} catch (error: any) {
+			console.error('Error:', error);
+			response = `An error occurred: ${error.message}`;
+		} finally {
+			isLoading = false;
+		}
+	}
+
+	// Function to use an example question
+	function useExample(example: string) {
+		question = example;
+	}
 </script>
 
 <svelte:head>
-  <title>RAG-Enhanced Llama-3.1 Chat Interface</title>
+	<title>RAG-Enhanced Llama-3.1 Chat Interface</title>
 </svelte:head>
 
 <main class="container">
-  <h1>RAG-Enhanced Llama-3.1 Chat Interface</h1>
-  <p>Ask questions about papers in the database. The system will find relevant papers and use them to generate informed responses.</p>
-  
-  <div class="query-section">
-    <textarea 
-      bind:value={question} 
-      rows="3" 
-      placeholder="Enter your question..."
-      aria-label="Question"
-    ></textarea>
-    
-    <button on:click={handleSubmit} disabled={isLoading}>
-      {isLoading ? 'Processing...' : 'Submit'}
-    </button>
-  </div>
-  
-  <div class="examples-section">
-    <h3>Examples:</h3>
-    <div class="examples-list">
-      {#each examples as example}
-        <button class="example-button" on:click={() => useExample(example)}>
-          {example}
-        </button>
-      {/each}
-    </div>
-  </div>
-  
-  {#if response}
-    <div class="response-section">
-      <h2>Generated Response</h2>
-      <div class="response-box">
-        {response}
-      </div>
-    </div>
-  {/if}
-  
-  {#if papers[0].title}
-    <div class="papers-section">
-      <h2>Relevant Papers</h2>
-      <div class="papers-grid">
-        {#each papers as paper, i}
-          <div class="paper-card">
-            <h3>Paper {i+1}</h3>
-            <h4>{paper.title}</h4>
-            <p class="similarity">{paper.similarity}</p>
-            <div class="abstract">
-              <h5>Abstract</h5>
-              <p>{paper.abstract}</p>
-            </div>
-          </div>
-        {/each}
-      </div>
-    </div>
-  {/if}
+	<h1>RAG-Enhanced Llama-3.1 Chat Interface</h1>
+	<p>
+		Ask questions about papers in the database. The system will find relevant papers and use them to
+		generate informed responses.
+	</p>
+
+	<div class="query-section">
+		<textarea
+			bind:value={question}
+			rows="3"
+			placeholder="Enter your question..."
+			aria-label="Question"
+		></textarea>
+
+		<button on:click={handleSubmit} disabled={isLoading}>
+			{isLoading ? 'Processing...' : 'Submit'}
+		</button>
+	</div>
+
+	<div class="examples-section">
+		<h3>Examples:</h3>
+		<div class="examples-list">
+			{#each examples as example}
+				<button class="example-button" on:click={() => useExample(example)}>
+					{example}
+				</button>
+			{/each}
+		</div>
+	</div>
+
+	{#if response}
+		<div class="response-section">
+			<h2>Generated Response</h2>
+			<div class="response-box">
+				{response}
+			</div>
+		</div>
+	{/if}
+
+	{#if papers[0].title}
+		<div class="papers-section">
+			<h2>Relevant Papers</h2>
+			<div class="papers-grid">
+				{#each papers as paper, i}
+					<div class="paper-card">
+						<h3>Paper {i + 1}</h3>
+						<h4>{paper.title}</h4>
+						<p class="similarity">{paper.similarity}</p>
+						<div class="abstract">
+							<h5>Abstract</h5>
+							<p>{paper.abstract}</p>
+						</div>
+					</div>
+				{/each}
+			</div>
+		</div>
+	{/if}
 </main>
 
 <style>
-  .container {
-    max-width: 1200px;
-    margin: 0 auto;
-    padding: 20px;
-    font-family: system-ui, -apple-system, BlinkMacSystemFont, 'Segoe UI', Roboto, Oxygen, Ubuntu, Cantarell, 'Open Sans', 'Helvetica Neue', sans-serif;
-  }
-  
-  h1 {
-    color: #2c3e50;
-    margin-bottom: 10px;
-  }
-  
-  .query-section {
-    margin: 20px 0;
-  }
-  
-  textarea {
-    width: 100%;
-    padding: 12px;
-    border: 1px solid #ddd;
-    border-radius: 4px;
-    font-size: 16px;
-    margin-bottom: 10px;
-    font-family: inherit;
-  }
-  
-  button {
-    background-color: #3498db;
-    color: white;
-    border: none;
-    padding: 10px 20px;
-    border-radius: 4px;
-    cursor: pointer;
-    font-size: 16px;
-    transition: background-color 0.3s;
-  }
-  
-  button:hover:not(:disabled) {
-    background-color: #2980b9;
-  }
-  
-  button:disabled {
-    background-color: #95a5a6;
-    cursor: not-allowed;
-  }
-  
-  .examples-section {
-    margin: 20px 0;
-  }
-  
-  .examples-list {
-    display: flex;
-    flex-direction: column;
-    gap: 10px;
-  }
-  
-  .example-button {
-    background-color: #ecf0f1;
-    color: #2c3e50;
-    text-align: left;
-    padding: 10px;
-  }
-  
-  .response-section, .papers-section {
-    margin-top: 30px;
-  }
-  
-  .response-box {
-    background-color: #f8f9fa;
-    padding: 15px;
-    border-radius: 4px;
-    border-left: 4px solid #3498db;
-    white-space: pre-wrap;
-  }
-  
-  .papers-grid {
-    display: grid;
-    grid-template-columns: repeat(auto-fill, minmax(300px, 1fr));
-    gap: 20px;
-    margin-top: 20px;
-  }
-  
-  .paper-card {
-    border: 1px solid #ddd;
-    border-radius: 4px;
-    padding: 15px;
-    background-color: #fff;
-    box-shadow: 0 2px 4px rgba(0,0,0,0.1);
-  }
-  
-  .similarity {
-    font-size: 14px;
-    color: #7f8c8d;
-    margin: 5px 0;
-  }
-  
-  .abstract {
-    margin-top: 10px;
-  }
-  
-  .abstract h5 {
-    margin-bottom: 5px;
-  }
-  
-  .abstract p {
-    font-size: 14px;
-    line-height: 1.5;
-    max-height: 200px;
-    overflow-y: auto;
-  }
-</style>
+	.container {
+		max-width: 1200px;
+		margin: 0 auto;
+		padding: 20px;
+		font-family:
+			system-ui,
+			-apple-system,
+			BlinkMacSystemFont,
+			'Segoe UI',
+			Roboto,
+			Oxygen,
+			Ubuntu,
+			Cantarell,
+			'Open Sans',
+			'Helvetica Neue',
+			sans-serif;
+	}
+
+	h1 {
+		color: #2c3e50;
+		margin-bottom: 10px;
+	}
+
+	.query-section {
+		margin: 20px 0;
+	}
+
+	textarea {
+		width: 100%;
+		padding: 12px;
+		border: 1px solid #ddd;
+		border-radius: 4px;
+		font-size: 16px;
+		margin-bottom: 10px;
+		font-family: inherit;
+	}
+
+	button {
+		background-color: #3498db;
+		color: white;
+		border: none;
+		padding: 10px 20px;
+		border-radius: 4px;
+		cursor: pointer;
+		font-size: 16px;
+		transition: background-color 0.3s;
+	}
+
+	button:hover:not(:disabled) {
+		background-color: #2980b9;
+	}
+
+	button:disabled {
+		background-color: #95a5a6;
+		cursor: not-allowed;
+	}
+
+	.examples-section {
+		margin: 20px 0;
+	}
+
+	.examples-list {
+		display: flex;
+		flex-direction: column;
+		gap: 10px;
+	}
+
+	.example-button {
+		background-color: #ecf0f1;
+		color: #2c3e50;
+		text-align: left;
+		padding: 10px;
+	}
+
+	.response-section,
+	.papers-section {
+		margin-top: 30px;
+	}
+
+	.response-box {
+		background-color: #f8f9fa;
+		padding: 15px;
+		border-radius: 4px;
+		border-left: 4px solid #3498db;
+		white-space: pre-wrap;
+	}
+
+	.papers-grid {
+		display: grid;
+		grid-template-columns: repeat(auto-fill, minmax(300px, 1fr));
+		gap: 20px;
+		margin-top: 20px;
+	}
+
+	.paper-card {
+		border: 1px solid #ddd;
+		border-radius: 4px;
+		padding: 15px;
+		background-color: #fff;
+		box-shadow: 0 2px 4px rgba(0, 0, 0, 0.1);
+	}
+
+	.similarity {
+		font-size: 14px;
+		color: #7f8c8d;
+		margin: 5px 0;
+	}
+
+	.abstract {
+		margin-top: 10px;
+	}
+
+	.abstract h5 {
+		margin-bottom: 5px;
+	}
+
+	.abstract p {
+		font-size: 14px;
+		line-height: 1.5;
+		max-height: 200px;
+		overflow-y: auto;
+	}
+</style>

example/src/routes/about/+page.svelte

@@ -1,118 +1,121 @@
-<script>
-  // Any specific about page logic can go here
+<script lang="ts">
+	// Any specific about page logic can go here
 </script>
 
 <svelte:head>
-  <title>About - Research Paper Assistant</title>
+	<title>About - Research Paper Assistant</title>
 </svelte:head>
 
 <div class="container">
-  <h1>About This Project</h1>
-  
-  <div class="card mb-4">
-    <div class="card-body">
-      <h2>RAG-Enhanced Research Paper Assistant</h2>
-      <p>
-        This application uses a Retrieval-Augmented Generation (RAG) system to provide intelligent responses 
-        to research queries. The system searches through a database of scientific papers to find relevant 
-        information and uses the Llama-3.1 language model to generate responses.
-      </p>
-    </div>
-  </div>
-  
-  <div class="mb-4">
-    <h2>How It Works</h2>
-    <p>Our system follows these steps to answer your research questions:</p>
-    
-    <ol>
-      <li>Your question is converted into a vector embedding using VoyageAI's embedding model.</li>
-      <li>This embedding is compared against our database of paper embeddings to find the most relevant papers.</li>
-      <li>The top papers are retrieved and provided as context to the Llama-3.1 language model.</li>
-      <li>The model generates a response based on the relevant papers and your question.</li>
-      <li>Both the response and the relevant papers are displayed to you.</li>
-    </ol>
-  </div>
-  
-  <div class="mb-4">
-    <h2>Technology Stack</h2>
-    <div class="tech-grid">
-      <div class="tech-item">
-        <h3>Frontend</h3>
-        <ul>
-          <li>Svelte & SvelteKit</li>
-          <li>Modern CSS</li>
-        </ul>
-      </div>
-      
-      <div class="tech-item">
-        <h3>Backend</h3>
-        <ul>
-          <li>Python</li>
-          <li>OpenScholar/Llama-3.1_OpenScholar-8B</li>
-          <li>VoyageAI Embeddings</li>
-          <li>FAISS Vector Database</li>
-        </ul>
-      </div>
-      
-      <div class="tech-item">
-        <h3>Data</h3>
-        <ul>
-          <li>Scientific paper database</li>
-          <li>Pre-computed vector embeddings</li>
-        </ul>
-      </div>
-    </div>
-  </div>
-  
-  <div>
-    <h2>Using The System</h2>
-    <p>
-      To use the system, simply enter your research question in the input field on the homepage and click "Submit". 
-      Try to be specific with your questions to get the most relevant results. You can also use one of the example 
-      questions to get started.
-    </p>
-    <p>
-      The system will display both the AI-generated response and the top relevant papers that were used to inform 
-      that response. You can explore these papers further by reading their abstracts.
-    </p>
-  </div>
+	<h1>About This Project</h1>
+
+	<div class="card mb-4">
+		<div class="card-body">
+			<h2>RAG-Enhanced Research Paper Assistant</h2>
+			<p>
+				This application uses a Retrieval-Augmented Generation (RAG) system to provide intelligent
+				responses to research queries. The system searches through a database of scientific papers
+				to find relevant information and uses the Llama-3.1 language model to generate responses.
+			</p>
+		</div>
+	</div>
+
+	<div class="mb-4">
+		<h2>How It Works</h2>
+		<p>Our system follows these steps to answer your research questions:</p>
+
+		<ol>
+			<li>Your question is converted into a vector embedding using VoyageAI's embedding model.</li>
+			<li>
+				This embedding is compared against our database of paper embeddings to find the most
+				relevant papers.
+			</li>
+			<li>The top papers are retrieved and provided as context to the Llama-3.1 language model.</li>
+			<li>The model generates a response based on the relevant papers and your question.</li>
+			<li>Both the response and the relevant papers are displayed to you.</li>
+		</ol>
+	</div>
+
+	<div class="mb-4">
+		<h2>Technology Stack</h2>
+		<div class="tech-grid">
+			<div class="tech-item">
+				<h3>Frontend</h3>
+				<ul>
+					<li>Svelte & SvelteKit</li>
+					<li>Modern CSS</li>
+				</ul>
+			</div>
+
+			<div class="tech-item">
+				<h3>Backend</h3>
+				<ul>
+					<li>Python</li>
+					<li>OpenScholar/Llama-3.1_OpenScholar-8B</li>
+					<li>VoyageAI Embeddings</li>
+					<li>FAISS Vector Database</li>
+				</ul>
+			</div>
+
+			<div class="tech-item">
+				<h3>Data</h3>
+				<ul>
+					<li>Scientific paper database</li>
+					<li>Pre-computed vector embeddings</li>
+				</ul>
+			</div>
+		</div>
+	</div>
+
+	<div>
+		<h2>Using The System</h2>
+		<p>
+			To use the system, simply enter your research question in the input field on the homepage and
+			click "Submit". Try to be specific with your questions to get the most relevant results. You
+			can also use one of the example questions to get started.
+		</p>
+		<p>
+			The system will display both the AI-generated response and the top relevant papers that were
+			used to inform that response. You can explore these papers further by reading their abstracts.
+		</p>
+	</div>
 </div>
 
 <style>
-  .tech-grid {
-    display: grid;
-    grid-template-columns: repeat(auto-fill, minmax(250px, 1fr));
-    gap: 20px;
-    margin-top: 20px;
-  }
-  
-  .tech-item {
-    background-color: #f8f9fa;
-    border-radius: 8px;
-    padding: 20px;
-    border-left: 4px solid #3498db;
-  }
-  
-  .tech-item h3 {
-    margin-bottom: 10px;
-    color: #2c3e50;
-  }
-  
-  .tech-item ul {
-    list-style-type: disc;
-    padding-left: 20px;
-  }
-  
-  .tech-item li {
-    margin-bottom: 5px;
-  }
-  
-  ol {
-    padding-left: 20px;
-    margin: 15px 0;
-  }
-  
-  ol li {
-    margin-bottom: 10px;
-  }
-</style>
+	.tech-grid {
+		display: grid;
+		grid-template-columns: repeat(auto-fill, minmax(250px, 1fr));
+		gap: 20px;
+		margin-top: 20px;
+	}
+
+	.tech-item {
+		background-color: #f8f9fa;
+		border-radius: 8px;
+		padding: 20px;
+		border-left: 4px solid #3498db;
+	}
+
+	.tech-item h3 {
+		margin-bottom: 10px;
+		color: #2c3e50;
+	}
+
+	.tech-item ul {
+		list-style-type: disc;
+		padding-left: 20px;
+	}
+
+	.tech-item li {
+		margin-bottom: 5px;
+	}
+
+	ol {
+		padding-left: 20px;
+		margin: 15px 0;
+	}
+
+	ol li {
+		margin-bottom: 10px;
+	}
+</style>

example/src/routes/api/query/+server.js

@@ -1,68 +0,0 @@
-import { json } from '@sveltejs/kit';
-
-// Replace this with your actual backend URL when deployed
-const PYTHON_BACKEND_URL = 'http://localhost:8000/api/generate';
-
-/**
- * @type {import('@sveltejs/kit').RequestHandler}
- */
-export async function POST({ request }) {
-  try {
-    const { message } = await request.json();
-    
-    if (!message?.trim()) {
-      return json({
-        error: 'No message provided'
-      }, { status: 400 });
-    }
-    
-    // Option 1: Forward to Python backend (if running separately)
-    try {
-      const response = await fetch(PYTHON_BACKEND_URL, {
-        method: 'POST',
-        headers: {
-          'Content-Type': 'application/json',
-        },
-        body: JSON.stringify({ message }),
-      });
-      
-      if (!response.ok) {
-        throw new Error(`Backend responded with status: ${response.status}`);
-      }
-      
-      const data = await response.json();
-      return json(data);
-      
-    } catch (error) {
-      console.error('Error communicating with Python backend:', error);
-      
-      // Fallback to dummy data if backend is not available (for development purposes)
-      // Remove this in production and handle errors appropriately
-      return json({
-        response: "This is a fallback response. The Python backend appears to be offline. Please ensure your backend server is running.",
-        papers: [
-          {
-            title: "Sample Paper 1",
-            abstract: "This is a placeholder abstract for development purposes only.",
-            similarity: "Similarity Score: 0.000"
-          },
-          {
-            title: "Sample Paper 2",
-            abstract: "This is a placeholder abstract for development purposes only.",
-            similarity: "Similarity Score: 0.000"
-          },
-          {
-            title: "Sample Paper 3",
-            abstract: "This is a placeholder abstract for development purposes only.",
-            similarity: "Similarity Score: 0.000"
-          }
-        ]
-      });
-    }
-  } catch (error) {
-    console.error('Error processing request:', error);
-    return json({
-      error: 'Internal server error'
-    }, { status: 500 });
-  }
-}

example/src/routes/settings/+layout.svelte

@@ -1,81 +0,0 @@
-<script>
-  import '../app.css';
-</script>
-
-<div class="app">
-  <header>
-    <div class="header-content">
-      <h1>Research Paper Assistant</h1>
-      <nav>
-        <a href="/">Home</a>
-        <a href="/about">About</a>
-      </nav>
-    </div>
-  </header>
-  
-  <main>
-    <slot />
-  </main>
-  
-  <footer>
-    <p>&copy; {new Date().getFullYear()} Research Paper RAG System - Built with Svelte</p>
-  </footer>
-</div>
-
-<style>
-  .app {
-    display: flex;
-    flex-direction: column;
-    min-height: 100vh;
-  }
-  
-  header {
-    background-color: #2c3e50;
-    color: white;
-    padding: 1rem 0;
-    box-shadow: 0 2px 4px rgba(0,0,0,0.1);
-  }
-  
-  .header-content {
-    max-width: 1200px;
-    margin: 0 auto;
-    padding: 0 20px;
-    display: flex;
-    justify-content: space-between;
-    align-items: center;
-  }
-  
-  header h1 {
-    margin: 0;
-    font-size: 1.5rem;
-  }
-  
-  nav {
-    display: flex;
-    gap: 20px;
-  }
-  
-  nav a {
-    color: white;
-    text-decoration: none;
-    font-weight: 500;
-    padding: 5px;
-  }
-  
-  nav a:hover {
-    text-decoration: underline;
-  }
-  
-  main {
-    flex: 1;
-  }
-  
-  footer {
-    background-color: #f8f9fa;
-    padding: 1rem 0;
-    text-align: center;
-    font-size: 0.875rem;
-    color: #7f8c8d;
-    border-top: 1px solid #ecf0f1;
-  }
-</style>

example/src/routes/settings/+page.svelte

@@ -1,54 +0,0 @@
-<script lang="ts">
-	/**
-	 * Developed by: Christopher S. Dunham
-	 * Contact: csdunham@ucsb.edu, csdunham@protonmail.com
-	 *
-	 * Copyright © Reagents of the University of California,
-	 * BioPACIFIC MIP, and their affiliates.
-	 *
-	 * This source code is licensed according to the LICENSE file
-	 * found in the root directory of this source tree and on the
-	 * project page on Github.
-	 *
-	 */
-</script>
-
-<section class="section">
-	<h2 class="header">Settings Home</h2>
-	<p class="text">Here, you can find various settings associated with your ELN account.</p>
-	<h4 class="header">Current Features</h4>
-	<ol class="list">
-		<li>
-			The ability to transfer ownership of your entire ELN notebook to a user of your choosing (via
-			the Ownership tab)
-		</li>
-		<li>
-			The ability to "publish" (make publicly accessible to the BioPACIFIC MIP Laboratory
-			Information Management System (LIMS)) the data of selected notebooks and/or pages
-		</li>
-	</ol>
-	<p>This page will fill with more features as users request them.</p>
-</section>
-
-<style lang="scss">
-	.section {
-		display: flex;
-		flex-direction: column;
-		align-items: center;
-		margin-left: 10px;
-	}
-
-	.header {
-		text-align: center;
-	}
-
-	.text {
-		text-align: center;
-		max-width: 60%;
-	}
-
-	.list {
-		color: #003660;
-		max-width: 60%;
-	}
-</style>

example/src/routes/settings/publishing/+page.server.ts

@@ -1,331 +0,0 @@
-/**
- * Developed by: Christopher S. Dunham
- * Contact: csdunham@ucsb.edu, csdunham@protonmail.com
- *
- * Copyright © Reagents of the University of California,
- * BioPACIFIC MIP, and their affiliates.
- *
- * This source code is licensed according to the LICENSE file
- * found in the root directory of this source tree and on the
- * project page on Github.
- *
- */
-
-import { fail } from '@sveltejs/kit';
-import { API_ENDPOINT_ROOT, LIMS_API_URL } from '$env/static/private';
-import {
-	createFileTree,
-	getAllPages,
-	getNotebookStructure
-} from '$lib/utilities/notebooks/utilities';
-
-export async function load({ locals }) {
-	const userID = locals.user.userId;
-
-	// Request body for API call to get all notebooks.
-	const getAllNotebooksBody: GetAllNotebooksRequestBody = {
-		user_id: userID
-	};
-
-	// Request body for API call to get all pages.
-	const getAllNotebookPagesBody: GetAllPagesRequestBody = {
-		user_id: userID
-	};
-
-	// Get user's Notebooks
-	const allNotebooksForUser = await getNotebookStructure(getAllNotebooksBody);
-
-	// Get user's Pages
-	const allPagesForUser = await getAllPages(getAllNotebookPagesBody);
-
-	// Create the file tree (pagesAndNotebooks object)
-	const pagesAndNotebooks = await createFileTree(
-		allNotebooksForUser as FormattedNotebookResponse[],
-		allPagesForUser as PageResponse[]
-	);
-
-	return {
-		userNotebooks: pagesAndNotebooks
-	};
-}
-
-export const actions = {
-	publishAllUserPages: async ({ locals, request }) => {
-		const data = await request.formData();
-		const user_id = locals.user.userId;
-		console.log('publishAllUserPages, Data:');
-		console.log(data);
-
-		try {
-			const published_at = new Date(); // time for published_at
-			const body: PublishRetractAllRequestBody = {
-				is_private: false,
-				published_at,
-				user_id
-			};
-
-			console.log(`publishAllUserPages Body:`);
-			console.log(body);
-
-			// Complete ELN ops first, then perform LIMS ops
-			const response = await fetch(
-				`${API_ENDPOINT_ROOT}/publish-all-pages`,
-				// "http://127.0.0.1:8000/api/save-notebook",
-				{
-					body: JSON.stringify(body),
-					headers: {
-						'Content-Type': 'application/json'
-					},
-					method: 'POST',
-					mode: 'cors'
-				}
-			);
-
-			const resData: GenericApiResponse = await response.json();
-			console.log(`Response (publishAllUserPages, ELN): ${JSON.stringify(resData, null, 4)}`);
-
-			console.log(`Status: ${resData.status} type ${typeof resData.status}`);
-
-			if (resData.status !== '200 OK')
-				return fail(422, {
-					error: true,
-					message: `ELN publish all pages operation failed. Aborting LIMS effort.`
-				});
-
-			const limsResponse = await fetch(
-				`${LIMS_API_URL}/eln-publish-all-pages/`,
-				// "http://127.0.0.1:7878/api-lims/transfer-ownership",
-				{
-					body: JSON.stringify(body),
-					headers: {
-						'Content-Type': 'application/json'
-					},
-					method: 'POST',
-					mode: 'cors'
-				}
-			);
-
-			const resDataLims = await limsResponse.json();
-
-			console.log(`Response (publishAllUserPages, LIMS): ${JSON.stringify(resDataLims, null, 4)}`);
-		} catch (error: any) {
-			return fail(422, {
-				error: true,
-				message: `Error when publishing all ELN pages: ${error.message}`
-			});
-		}
-	},
-
-	publishSelectedNotebookPages: async ({ locals, request }) => {
-		const data = await request.formData();
-		const page_ids = data.getAll('page_ids') as unknown as UUID[];
-		const user_id = locals.user.userId;
-		console.log('publishSelectedNotebookPages, Data:');
-		console.log(data);
-
-		console.log(`page_ids`);
-		console.log(page_ids);
-
-		try {
-			const published_at = new Date(); // time for published_at
-			const body: PublishRetractSelectRequestBody = {
-				is_private: false,
-				page_ids,
-				published_at,
-				user_id
-			};
-
-			console.log(`publishSelectedNotebookPages Body:`);
-			console.log(body);
-
-			// Complete ELN ops first, then perform LIMS ops
-			const response = await fetch(
-				`${API_ENDPOINT_ROOT}/publish-select-pages`,
-				// "http://127.0.0.1:8000/api/save-notebook",
-				{
-					body: JSON.stringify(body),
-					headers: {
-						'Content-Type': 'application/json'
-					},
-					method: 'POST',
-					mode: 'cors'
-				}
-			);
-
-			const resData: GenericApiResponse = await response.json();
-			console.log(
-				`Response (publishSelectedNotebookPages, ELN): ${JSON.stringify(resData, null, 4)}`
-			);
-
-			console.log(`Status: ${resData.status} type ${typeof resData.status}`);
-
-			if (resData.status !== '200 OK')
-				return fail(422, {
-					error: true,
-					message: `ELN publish select pages operations failed. Aborting LIMS effort.`
-				});
-
-			const limsResponse = await fetch(
-				`${LIMS_API_URL}/eln-publish-select-pages/`,
-				// "http://127.0.0.1:7878/api-lims/transfer-ownership",
-				{
-					body: JSON.stringify(body),
-					headers: {
-						'Content-Type': 'application/json'
-					},
-					method: 'POST',
-					mode: 'cors'
-				}
-			);
-
-			const resDataLims = await limsResponse.json();
-
-			console.log(
-				`Response (publishSelectedNotebookPages, LIMS): ${JSON.stringify(resDataLims, null, 4)}`
-			);
-		} catch (error: any) {
-			return fail(422, {
-				error: true,
-				message: `Error when publishing selected ELN pages: ${error.message}`
-			});
-		}
-	},
-
-	retractAllUserPages: async ({ locals, request }) => {
-		const data = await request.formData();
-		const user_id = locals.user.userId;
-		console.log('retractAllUserPages, Data:');
-		console.log(data);
-
-		try {
-			const published_at = new Date(); // time for published_at
-			const body: PublishRetractAllRequestBody = {
-				is_private: true,
-				published_at,
-				user_id
-			};
-
-			console.log(`retractAllUserPages Body:`);
-			console.log(body);
-
-			// Complete ELN ops first, then perform LIMS ops
-			const response = await fetch(
-				`${API_ENDPOINT_ROOT}/retract-all-pages`,
-				// "http://127.0.0.1:8000/api/save-notebook",
-				{
-					body: JSON.stringify(body),
-					headers: {
-						'Content-Type': 'application/json'
-					},
-					method: 'POST',
-					mode: 'cors'
-				}
-			);
-
-			const resData: GenericApiResponse = await response.json();
-			console.log(`Response (retractAllUserPages, ELN): ${JSON.stringify(resData, null, 4)}`);
-
-			console.log(`Status: ${resData.status} type ${typeof resData.status}`);
-
-			if (resData.status !== '200 OK')
-				return fail(422, {
-					error: true,
-					message: `ELN retract all pages operation failed. Aborting LIMS effort.`
-				});
-
-			const limsResponse = await fetch(
-				`${LIMS_API_URL}/eln-retract-all-pages/`,
-				// "http://127.0.0.1:7878/api-lims/transfer-ownership",
-				{
-					body: JSON.stringify(body),
-					headers: {
-						'Content-Type': 'application/json'
-					},
-					method: 'POST',
-					mode: 'cors'
-				}
-			);
-
-			const resDataLims = await limsResponse.json();
-
-			console.log(`Response (retractAllUserPages, LIMS): ${JSON.stringify(resDataLims, null, 4)}`);
-		} catch (error: any) {
-			return fail(422, {
-				error: true,
-				message: `Error when retracting all ELN pages: ${error.message}`
-			});
-		}
-	},
-
-	retractSelectedNotebookPages: async ({ locals, request }) => {
-		const data = await request.formData();
-		const page_ids = data.getAll('page_ids') as unknown as UUID[];
-		const user_id = locals.user.userId;
-		console.log('retractSelectedNotebookPages, Data:');
-		console.log(data);
-
-		try {
-			const published_at = null; // time for published_at
-			const body: PublishRetractSelectRequestBody = {
-				is_private: true,
-				page_ids,
-				published_at,
-				user_id
-			};
-
-			console.log(`retractSelectedNotebookPages Body:`);
-			console.log(body);
-
-			// Complete ELN ops first, then perform LIMS ops
-			const response = await fetch(
-				`${API_ENDPOINT_ROOT}/retract-select-pages`,
-				// "http://127.0.0.1:8000/api/save-notebook",
-				{
-					body: JSON.stringify(body),
-					headers: {
-						'Content-Type': 'application/json'
-					},
-					method: 'POST',
-					mode: 'cors'
-				}
-			);
-
-			const resData: GenericApiResponse = await response.json();
-			console.log(
-				`Response (retractSelectedNotebookPages, ELN): ${JSON.stringify(resData, null, 4)}`
-			);
-
-			console.log(`Status: ${resData.status} type ${typeof resData.status}`);
-
-			if (resData.status !== '200 OK')
-				return fail(422, {
-					error: true,
-					message: `ELN retract select pages operations failed. Aborting LIMS effort.`
-				});
-
-			const limsResponse = await fetch(
-				`${LIMS_API_URL}/eln-retract-select-pages/`,
-				// "http://127.0.0.1:7878/api-lims/transfer-ownership",
-				{
-					body: JSON.stringify(body),
-					headers: {
-						'Content-Type': 'application/json'
-					},
-					method: 'POST',
-					mode: 'cors'
-				}
-			);
-
-			const resDataLims = await limsResponse.json();
-
-			console.log(
-				`Response (retractSelectedNotebookPages, LIMS): ${JSON.stringify(resDataLims, null, 4)}`
-			);
-		} catch (error: any) {
-			return fail(422, {
-				error: true,
-				message: `Error when retracting selected ELN pages: ${error.message}`
-			});
-		}
-	}
-};

example/src/routes/settings/publishing/+page.svelte

@@ -1,464 +0,0 @@
-<script lang="ts">
-	/**
-	 * Developed by: Christopher S. Dunham
-	 * Contact: csdunham@ucsb.edu, csdunham@protonmail.com
-	 *
-	 * Copyright © Reagents of the University of California,
-	 * BioPACIFIC MIP, and their affiliates.
-	 *
-	 * This source code is licensed according to the LICENSE file
-	 * found in the root directory of this source tree and on the
-	 * project page on Github.
-	 *
-	 */
-	import { enhance } from '$app/forms';
-	import type { ActionData, PageData } from './$types';
-	import { fade } from 'svelte/transition';
-
-	interface Props {
-		data: PageData;
-		form: ActionData;
-	}
-
-	let { data, form }: Props = $props();
-
-	type NotebookResponse = {
-		notebook_id: UUID;
-		name: string;
-		parent_id?: UUID;
-	};
-
-	type PageResponse = {
-		id: UUID;
-		name: string;
-		contents: object;
-		parent_notebook_id: UUID;
-		is_private: boolean;
-		published_at: string | null; // really a timezone-aware datetime
-	};
-
-	type FormattedNotebookResponse = NotebookResponse & {
-		pages: PageResponse[];
-	};
-
-	/**
-	 * Type Guard. Checks whether the obj is a NotebookResponse
-	 * @param obj
-	 * @returns
-	 */
-	function isNotebooksArray(obj: any): obj is FormattedNotebookResponse[] {
-		return (obj as FormattedNotebookResponse[]).length > 0;
-	}
-
-	let notebooks = $state(isNotebooksArray(data.userNotebooks) ? data.userNotebooks : null);
-	let publishRetractMode: 'publish' | 'retract' | null = $state(null);
-	let allOrSelect: 'all' | 'select' | null = $state(null);
-	let showSuccessMsg: boolean = $state(false);
-	let enablePublishOrRetractAll: boolean = $state(false);
-	let enablePublishOrRetractSelected: boolean = $state(false);
-	let selectedNotebook: FormattedNotebookResponse | null = $state(notebooks ? notebooks[0] : null);
-	let selectedNotebookId: UUID | null = $state(notebooks ? notebooks[0].notebook_id : null);
-
-	const publishAllFormAct = '/settings/publishing?/publishAllUserPages';
-	const publishSelectFormAct = '/settings/publishing?/publishSelectedNotebookPages';
-	const retractAllFormAct = '/settings/publishing?/retractAllUserPages';
-	const retractSelectFormAct = '/settings/publishing?/retractSelectedNotebookPages';
-
-	$inspect(selectedNotebook);
-
-	/**
-	 * Check whether the input matches the operational mode.
-	 */
-	function checkInput() {
-		const confirm = (document.getElementById('publish-confirm-input') as HTMLInputElement)?.value;
-
-		if (confirm === publishRetractMode?.toUpperCase()) {
-			return true;
-		}
-		return false;
-	}
-
-	/**
-	 * Check whether the value of the selection matches an existing notebook name
-	 * @param selectedNotebookId
-	 */
-	function checkSelect(selectedNotebookId: UUID | null) {
-		const confirm = (document.getElementById('publish-confirm-selection') as HTMLInputElement)
-			?.value as string;
-
-		const notebook = notebooks?.find((notebook) => {
-			if (notebook.notebook_id === selectedNotebookId) return notebook;
-		});
-
-		if (notebook?.name === confirm) return true;
-		return false;
-	}
-
-	/**
-	 * Get the selected notebook from 'notebooks', based on the selectedNotebookId,
-	 * and return it.
-	 * @param selectedNotebookId
-	 */
-	function getSelectedNotebook(selectedNotebookId: UUID | null) {
-		const notebook = notebooks?.find((notebook) => {
-			if (notebook.notebook_id === selectedNotebookId) return notebook;
-		});
-		if (notebook) return notebook;
-		return null;
-	}
-</script>
-
-<section class="section">
-	<h2 class="header">Publishing & Retraction</h2>
-	<h3 class="header">What is 'publishing'?</h3>
-	<p class="text">
-		Publishing in the ELN means taking the data in your ELN notebooks and making them publicly
-		available, such as through the BioPACIFIC MIP Laboratory Information Management System (LIMS)
-		Data Viewer. This means that other registered users of the BioPACIFIC MIP will be able to view
-		published experiment data in the Data Viewer. Likewise, Retracting in the ELN does the exact
-		opposite of publishing, reverting the specified content to a private state that is only visible
-		to you.
-	</p>
-	<p class="text">
-		Individual notebook pages can be published (or retracted) by clicking the ‘Publish’ (or
-		‘Retract’) button at the top right of the page. However, you can also publish (or retract) the
-		entire contents of your account (i.e. all notebooks and associated pages), as well as all pages
-		of a selected notebook.
-	</p>
-	<p class="text">
-		All BioPACIFIC MIP users agree to submit data and/or a small volume of materials developed as
-		part of their BioPACIFIC MIP research to the BioPACIFIC MIP digital ecosystem and/or libraries.
-		Submission of data and/or materials may be made after publication or filing of IP through the
-		appropriate channels, but within one year of a project’s end date. The materials and data in the
-		BioPACIFIC MIP libraries are to be used only for non-commercial research and educational
-		purposes.
-	</p>
-	<p class="text">
-		Before you publish (or retract) content from your ELN, please make sure you understand the
-		ramifications behind making information public or private. Consult with your BioPACIFIC MIP
-		Project Scientist and/or User Coordinator for more information.
-	</p>
-	<h3 class="header">Publish/Retract Pages</h3>
-	{#if publishRetractMode === 'publish' || publishRetractMode === 'retract'}
-		<div class="btn-group">
-			<button
-				class="btn"
-				onclick={() => {
-					allOrSelect = 'all';
-					enablePublishOrRetractAll = false;
-					enablePublishOrRetractSelected = false;
-				}}
-			>
-				{publishRetractMode === 'publish'
-					? 'Publish All?'
-					: publishRetractMode === 'retract'
-						? 'Retract All?'
-						: ''}
-			</button>
-			<button
-				class="btn"
-				onclick={() => {
-					allOrSelect = 'select';
-					enablePublishOrRetractAll = false;
-					enablePublishOrRetractSelected = false;
-				}}
-			>
-				{publishRetractMode === 'publish'
-					? 'Publish Notebook?'
-					: publishRetractMode === 'retract'
-						? 'Retract Notebook?'
-						: ''}
-			</button>
-		</div>
-
-		{#if allOrSelect === 'all'}
-			<div class="container">
-				<h3 class="header">
-					{publishRetractMode === 'publish'
-						? 'Publish'
-						: publishRetractMode === 'retract'
-							? 'Retract'
-							: null}
-					All Pages
-				</h3>
-				<p class="text">
-					{publishRetractMode === 'publish'
-						? 'Publish'
-						: publishRetractMode === 'retract'
-							? 'Retract'
-							: null}
-					<strong>all</strong> of the pages from <strong>all</strong> of your notebooks.
-				</p>
-				<form
-					id="publish-retract-all"
-					class="form"
-					method="POST"
-					action={publishRetractMode === 'publish'
-						? publishAllFormAct
-						: publishRetractMode === 'retract'
-							? retractAllFormAct
-							: null}
-					use:enhance={({ formData }) => {
-						return async ({ update, result }) => {
-							await update();
-							if (result.type === 'success') {
-								enablePublishOrRetractAll = false;
-								allOrSelect = null;
-								showSuccessMsg = true;
-							}
-						};
-					}}
-				>
-					<input
-						id="publish-confirm-input"
-						class="input"
-						type="text"
-						placeholder="Type {publishRetractMode === 'publish'
-							? 'PUBLISH'
-							: publishRetractMode === 'retract'
-								? 'RETRACT'
-								: ''} to {publishRetractMode === 'publish'
-							? 'publish'
-							: publishRetractMode === 'retract'
-								? 'retract'
-								: ''} all pages."
-						autocomplete="off"
-						onkeyup={() => {
-							enablePublishOrRetractAll = checkInput();
-						}}
-					/>
-					{#if enablePublishOrRetractAll}
-						<i transition:fade class="ri-thumb-up-fill"></i>
-					{/if}
-					<button
-						class="btn"
-						class:disabled={!enablePublishOrRetractAll}
-						disabled={!enablePublishOrRetractAll}
-					>
-						{publishRetractMode === 'publish'
-							? 'Publish All'
-							: publishRetractMode === 'retract'
-								? 'Retract All'
-								: ''}
-					</button>
-				</form>
-			</div>
-		{:else if allOrSelect === 'select'}
-			<div class="container">
-				<h3 class="header">
-					{publishRetractMode === 'publish'
-						? 'Publish'
-						: publishRetractMode === 'retract'
-							? 'Retract'
-							: null}
-					Pages from the Selected Notebook
-				</h3>
-				{#if notebooks}
-					<form
-						id="publish-retract-all"
-						class="form"
-						method="POST"
-						action={publishRetractMode === 'publish'
-							? publishSelectFormAct
-							: publishRetractMode === 'retract'
-								? retractSelectFormAct
-								: null}
-						use:enhance={({ formData }) => {
-							return async ({ update, result }) => {
-								await update();
-								if (result.type === 'success') {
-									enablePublishOrRetractSelected = false;
-									allOrSelect = null;
-									showSuccessMsg = true;
-								}
-							};
-						}}
-					>
-						<select
-							name="notebook"
-							class="select"
-							bind:value={selectedNotebookId}
-							onchange={() => {
-								selectedNotebook = getSelectedNotebook(selectedNotebookId);
-								enablePublishOrRetractSelected = false;
-							}}
-						>
-							{#each notebooks as notebook}
-								{#if notebook.pages.length > 0}
-									<option value={notebook.notebook_id}>{notebook.name}</option>
-								{/if}
-							{/each}
-						</select>
-						<input
-							id="publish-confirm-selection"
-							class="input"
-							type="text"
-							placeholder="Type the notebook name to {publishRetractMode === 'publish'
-								? 'publish'
-								: publishRetractMode === 'retract'
-									? 'retract'
-									: ''} your selection."
-							autocomplete="off"
-							onkeyup={() => (enablePublishOrRetractSelected = checkSelect(selectedNotebookId))}
-						/>
-						{#if selectedNotebook && selectedNotebook.pages.length > 0}
-							{#each selectedNotebook.pages as page}
-								<input name="page_ids" type="hidden" value={page.id} />
-							{/each}
-						{/if}
-						{#if enablePublishOrRetractSelected}
-							<i transition:fade class="ri-thumb-up-fill"></i>
-						{/if}
-						<button
-							class="btn"
-							class:disabled={!enablePublishOrRetractSelected}
-							disabled={!enablePublishOrRetractSelected}
-							type="submit"
-						>
-							{publishRetractMode === 'publish'
-								? 'Publish Pages from Selected Notebook'
-								: publishRetractMode === 'retract'
-									? 'Retract Pages from Selected Notebook'
-									: ''}
-						</button>
-					</form>
-				{/if}
-			</div>
-		{/if}
-		{#if showSuccessMsg}
-			<p class="text-success">You've successfully {publishRetractMode}ed your notebook pages!</p>
-		{/if}
-		<button
-			class="btn"
-			onclick={() => {
-				publishRetractMode = null;
-				allOrSelect = null;
-				showSuccessMsg = false;
-			}}
-		>
-			Cancel
-		</button>
-	{:else}
-		<div class="btn-group">
-			<button class="btn" onclick={() => (publishRetractMode = 'publish')}>Publish Pages</button>
-			<button class="btn" onclick={() => (publishRetractMode = 'retract')}>Retract Pages</button>
-		</div>
-	{/if}
-</section>
-
-<style lang="scss">
-	/* Mixins */
-	@mixin icons {
-		margin: 0px 2px 0px 2px;
-		padding: 0px 0px 0px 0px;
-		border: none;
-		border-radius: 5px;
-		width: 2.5rem;
-		height: 2.5rem;
-		display: flex;
-		justify-content: center;
-		align-items: center;
-	}
-
-	@mixin formElementDims {
-		width: 400px;
-		height: 30px;
-		margin: 0px 0px 5px 0px;
-	}
-
-	.section {
-		display: flex;
-		flex-direction: column;
-		align-items: center;
-		margin-left: 10px;
-	}
-
-	.container {
-		margin: 10px 0px 0px 0px;
-		display: flex;
-		flex-direction: column;
-		align-items: center;
-		// gap: 10px;
-		width: 100%;
-	}
-
-	.header {
-		text-align: center;
-		margin-bottom: 10px;
-	}
-
-	.text {
-		margin: 0px 0px 10px 0px;
-		text-align: center;
-		max-width: 60%;
-	}
-
-	.form {
-		margin-top: 10px;
-		display: flex;
-		flex-direction: column;
-		align-items: center;
-		gap: 10px;
-	}
-
-	.input {
-		@include formElementDims;
-		border: 1px solid #003660;
-		border-radius: 5px;
-		text-align: center;
-	}
-
-	.select {
-		@include formElementDims;
-		background-color: white;
-		border: 1px solid #003660;
-		border-radius: 5px;
-		text-align: center;
-	}
-
-	.btn-group {
-		margin-top: 20px;
-		display: flex;
-		flex-direction: column;
-		// gap: 10px;
-	}
-
-	.btn {
-		@include formElementDims;
-		color: white;
-		background-color: #003660;
-		border: 1px solid #003660;
-		border-radius: 5px;
-		width: 300px;
-	}
-
-	.btn:hover {
-		cursor: pointer;
-		color: #fec11b;
-	}
-
-	.btn:disabled {
-		background-color: #00366071;
-	}
-
-	.btn:disabled:hover {
-		cursor: not-allowed;
-		color: white;
-	}
-
-	.text-success {
-		font-size: large;
-		font-weight: 600;
-		color: #3bbaff;
-		margin-bottom: 10px;
-	}
-
-	/* Icons */
-	.ri-thumb-up-fill {
-		@include icons;
-		background-image: url('$lib/assets/icons/RemixIcon_Svg_v3.3.0/icons/System/thumb-up-fill.svg');
-		// Hex: #3bbaff
-		filter: brightness(0) saturate(100%) invert(80%) sepia(44%) saturate(5917%) hue-rotate(173deg)
-			brightness(101%) contrast(101%);
-	}
-</style>