Frontpage update (#179)

This PR introduces an overhaul for the front page and login features while keeping the rest of the application intact.

## Major Changes

- TailwindCSS + DaisyUI Integration: Add  modern CSS framework for component-based utility styling
- Build System: Added pnpm for CSS building; can be extended for updated frontend builds in the future
- Navbar + Footer: Redesigned and includable; old version retained for unstyled elements
- Optimized Assets: Added minified and CSS-stylable logos

## New Features

- Static Pages: Added comprehensive mockups of static pages (legal, privacy policy, terms of use, contact, etc.). **Note:** These have to be fixed before a public release, as their content is largely unreviewed and incorrect. Probably best to do in a separate PR that only contains updates to these.
- Discourse API: Implement minimal features based on RestAPI for controllable results.

## Current bugs
- [x] The static pages include the default navbar and footer on the login page. This will likely not work, as users need to access it before logging in; no good workaround so far (problem with Django templating system).
- [ ] The front page predict link is currently non-functional; the redesigned page is almost ready but better done in a separate PR as it also touches Django code.
- [x] Visual bug with the news cards. Still intend to fix for this PR

Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#179
Reviewed-by: jebus <lorsbach@envipath.com>
Co-authored-by: Tobias O <tobias.olenyi@envipath.com>
Co-committed-by: Tobias O <tobias.olenyi@envipath.com>
This commit is contained in:
2025-11-12 01:09:39 +13:00
committed by jebus
parent 34589efbde
commit ddf1fd3515
47 changed files with 4271 additions and 999 deletions

View File

@ -1,186 +1,360 @@
{% extends "framework.html" %}
{% extends "framework_modern.html" %}
{% load static %}
{% block content %}
<!-- TODO rename ids as well as remove pathways if modal is closed!-->
<div class="modal fade" tabindex="-1" id="foundMatching" role="dialog" aria-labelledby="foundModal"
aria-hidden="true">
<div class="modal-dialog">
<div class="modal-content">
<div class="modal-header">
<button type="button" class="close" data-dismiss="modal">
<span aria-hidden="true">&times;</span>
<span class="sr-only">Close</span>
</button>
<h4 class="modal-title" id="newPackMod">Found Pathway in Database</h4>
</div>
<div class="modal-body">
<p>We found at least one pathway in the database with the given root
compound. Do you want to open any of the existing pathways or
predict a new one? To open an existing pathway, simply click
on the pathway, to predict a new one, click Predict. The predicted
pathway might differ from the ones in the database due to the
settings used in the prediction.</p>
<div id="foundPathways"></div>
</div>
<div class="modal-footer">
<a id="modal-predict" class="btn btn-primary" href="#">Predict</a>
<button type="button" id="cancel-predict" class="btn btn-default" data-dismiss="modal">Cancel
</button>
{% block main_content %}
<!-- Hero Section with Logo and Search -->
<section class="hero h-fit max-w-5xl w-full shadow-none mx-auto relative">
<div class="hero min-h-[calc(100vh*0.4)] bg-gradient-to-br from-primary-800 to-primary-600"
style="background-image: url('{% static "/images/hero.png" %}'); background-size: cover; background-position: center;"
>
<div class="hero-overlay"></div>
<!-- Predict Pathway text over the image -->
<div class="absolute bottom-40 left-1/8 -translate-x-8 z-10">
<h2 class="text-3xl text-base-100 text-shadow-lg text-left">Predict Your Pathway</h2>
</div>
</div>
</section>
<div class="shadow-md max-w-5xl mx-auto bg-base-200">
<!-- Predict Pathway Section -->
<div class="flex-col lg:flex-row-reverse w-full mx-auto -mt-32 relative z-20 mb-10 ">
<div class="card bg-base-100 shrink-0 shadow-xl w-3/4 mx-auto transition-all duration-300 ease-in-out">
<div class="card-body">
<!-- Input Mode Toggle - Fixed position outside fieldset -->
<div class="flex flex-row justify-start items-center h-fit ml-8 my-4">
<div class="flex items-center gap-2">
<!-- <span class="text-sm text-neutral-500">Input Mode:</span> -->
<label class="toggle text-base-content toggle-md">
<input type="checkbox" />
<svg aria-label="smiles mode" xmlns="http://www.w3.org/2000/svg" viewBox="0 0 20 20" class="size-5">
<g
stroke-linejoin="round"
stroke-linecap="round"
stroke-width="2"
fill="currentColor"
stroke="none"
>
<path fill-rule="evenodd" d="M8 2.75A.75.75 0 0 1 8.75 2h7.5a.75.75 0 0 1 0 1.5h-3.215l-4.483 13h2.698a.75.75 0 0 1 0 1.5h-7.5a.75.75 0 0 1 0-1.5h3.215l4.483-13H8.75A.75.75 0 0 1 8 2.75Z" clip-rule="evenodd" />
</g>
</svg>
<svg
aria-label="draw mode"
xmlns="http://www.w3.org/2000/svg"
viewBox="0 0 20 20"
fill="currentColor"
stroke="none"
class="size-5"
>
<path d="m2.695 14.762-1.262 3.155a.5.5 0 0 0 .65.65l3.155-1.262a4 4 0 0 0 1.343-.886L17.5 5.501a2.121 2.121 0 0 0-3-3L3.58 13.419a4 4 0 0 0-.885 1.343Z" />
</svg>
</label>
</div>
</div>
<fieldset class="fieldset transition-all duration-300 ease-in-out overflow-hidden">
<form id="index-form" action="{{ meta.current_package.url }}/pathway" method="POST">
{% csrf_token %}
<div id="text-input-container" class="transition-all duration-300 ease-in-out opacity-100 transform scale-100">
<div class="join w-full mx-auto">
<input type="text" id="index-form-text-input" placeholder="canonical SMILES string" class="input grow input-md join-item" />
<button class="btn btn-neutral join-item">Predict!</button>
</div>
<div class="label relative w-full mt-1" >
<div class="flex gap-2">
<a href="#" class="example-link cursor-pointer hover:text-primary"
data-smiles="CN1C=NC2=C1C(=O)N(C(=O)N2C)C"
title="load example">Caffeine</a>
<a href="#" class="example-link cursor-pointer hover:text-primary"
data-smiles="CC(C)CC1=CC=C(C=C1)C(C)C(=O)O"
title="load example">Ibuprofen</a>
</div>
<a class="absolute top-0 left-[calc(100%-5.4rem)]" href="#">Advanced</a>
</div>
</div>
<div id="ketcher-container" class="hidden w-full transition-all duration-300 ease-in-out opacity-0 transform scale-95">
<iframe id="index-ketcher" src="{% static '/js/ketcher2/ketcher.html' %}"
width="100%" height="400" class="rounded-lg"></iframe>
<button class="btn btn-lg bg-primary-950 text-primary-50 join-item w-full mt-2">Predict!</button>
<a class="label mx-auto w-full mt-1" href="#">Advanced</a>
</div>
<input type="hidden" id="index-form-smiles" name="smiles" value="smiles">
<input type="hidden" id="index-form-predict" name="predict" value="predict">
<input type="hidden" id="current-action" value="predict">
</form>
</fieldset>
</div>
</div>
</div>
<div class="row">
<div class="col-xs-8">
<div class="jumbotron">
<h1>
<img id="image-logo-long" class="img-responsive" alt="enviPath" width="1000ex"
src='{% static "/images/logo-long.svg" %}'/>
</h1>
<p>enviPath is a database and prediction system for the microbial
biotransformation of organic environmental contaminants. The
database provides the possibility to store and view experimentally
observed biotransformation pathways. The pathway prediction system
provides different relative reasoning models to predict likely biotransformation
pathways and products. You can try it out below.
</p>
<p>
<a class="btn" style="background-color:#222222;color:#9d9d9d" role="button" target="_blank"
href="https://wiki.envipath.org/index.php/Main_Page">Learn more &gt;&gt;</a>
</p>
<!-- Community News Section -->
<section class="py-16 bg-base-200 z-10 mx-8">
<div class="max-w-7xl mx-auto px-4">
<h2 class="h2 font-bold text-left mb-8">Community Updates</h2>
<div id="community-news-container" class="flex gap-4 justify-center">
<!-- News cards will be populated here -->
<div id="loading" class="flex justify-center w-full">
<span class="loading loading-spinner loading-lg"></span>
</div>
</div>
<div class="text-right mt-6">
<a href="https://community.envipath.org/c/announcements/10" target="_blank" class="btn btn-ghost btn-sm">
Read More Announcements
</a>
</div>
<!-- Discourse API integration -->
<script src="{% static 'js/discourse-api.js' %}"></script>
</div>
</section>
<!-- Mission Statement Section -->
<section class="py-16 from-base-200 to-base-100 bg-gradient-to-b">
<div class="mx-auto px-8 md:px-12">
<div class="flex flex-row gap-4">
<div class="w-1/3">
<img src="{% static "/images/ep-rule-artwork.png" %}" alt="rule-based iterative tree greneration" class="w-full h-full object-contain" />
</div>
<div class="space-y-4 text-left w-2/3 mr-8">
<h2 class="h2 font-bold mb-8">About enviPath</h2>
<p class="">
enviPath is a database and prediction system for the microbial
biotransformation of organic environmental contaminants. The
database provides the possibility to store and view experimentally
observed biotransformation pathways.
</p>
<p class="">
The pathway prediction system provides different relative reasoning models
to predict likely biotransformation pathways and products. Explore our tools
and contribute to advancing environmental biotransformation research.
</p>
<div class="flex flex-row gap-4 float-right">
<a href="/about" class="btn btn-ghost-neutral">Read More</a>
<a href="/about" class="btn btn-neutral">Publications</a>
</div>
</div>
</div>
</div>
<div id="loading"></div>
<div class="col-xs-4">
<d-topics-list discourse-url="https://community.envipath.org" per-page="10" category="10"
template="complete"></d-topics-list>
</div>
</div>
<div class="row">
<form id="index-form" action="{{ meta.current_package.url }}/pathway" method="POST">
{% csrf_token %}
<div class="input-group" id="index-form-bar">
<div class="input-group-btn">
<button type="button" class="btn btn-default dropdown-toggle" data-toggle="dropdown"
aria-expanded="false">
<span class="caret"></span>
</button>
<ul class="dropdown-menu" role="menu">
<li>
<iframe id="index-form-ketcher" src="{% static '/js/ketcher2/ketcher.html' %}" width="100%"
height="510"></iframe>
</li>
</ul>
</div>
<input type="text" class="form-control" id='index-form-text-input'
placeholder="Enter a SMILES to predict a Pathway or type something to search">
<div class="input-group-btn">
<button type="button" class="btn btn-default dropdown-toggle" data-toggle="dropdown"
aria-haspopup="true"
aria-expanded="false" id="action-button">Predict <span class="caret"></span></button>
<ul class="dropdown-menu">
<li><a id="dropdown-predict">Predict</a></li>
<li><a id="dropdown-search">Search</a></li>
</ul>
<button class="btn" style="background-color:#222222;color:#9d9d9d" type="button" id="run-button">Go!
</button>
</div>
</section>
<!-- Partners Section -->
<section class="py-14 sm:py-12 bg-base-100">
<div class="mx-auto px-6 lg:px-8">
<div class="divider"><h2 class="text-center text-lg/8 font-semibold">Backed by Science</h2></div>
<div class="mx-auto mt-10 grid max-w-lg grid-cols-4 items-center gap-x-8 gap-y-10 sm:max-w-xl sm:grid-cols-6 sm:gap-x-10 lg:mx-0 lg:max-w-none lg:grid-cols-3">
<img src="{% static "/images/uoa-logo-small.png" %}" alt="The University of Auckland" class=" max-h-20 w-full object-contain lg:col-span-1" />
<img src="{% static "/images/logo-eawag.svg" %}" alt="Eawag" class=" max-h-12 w-full object-contain lg:col-span-1" />
<img src="{% static "/images/uzh-logo.svg" %}" alt="University of Zurich" class="2 max-h-16 w-full object-contain lg:col-span-1" />
</div>
<input type="hidden" id="index-form-smiles" name="smiles" value="smiles">
<input type="hidden" id="index-form-predict" name="predict" value="predict">
</form>
</div>
<p></p>
</div>
</section>
</div>
<script language="javascript">
var currentPackage = "{{ meta.current_package.url }}";
function goButtonClicked() {
$(this).prop("disabled", true);
// Discourse API integration is now handled by discourse-api.js
var action = $('#action-button').text().trim();
// Function to render Discourse topics into cards
function renderDiscourseTopics(topics) {
const container = document.getElementById('community-news-container');
if (!container) return;
var textSmiles = $('#index-form-text-input').val().trim();
// Clear container
container.innerHTML = '';
if (textSmiles === '') {
$(this).prop("disabled", false);
return;
}
// Create cards for each topic
topics.forEach(topic => {
const card = createDiscourseCard(topic);
container.insertAdjacentHTML('beforeend', card);
});
}
var ketcherSmiles = getKetcher('index-form-ketcher').getSmiles().trim();
// Function to create HTML card for a topic
function createDiscourseCard(topic) {
const date = new Date(topic.created_at).toLocaleDateString();
if (action !== 'Search' && ketcherSmiles !== '' && textSmiles !== ketcherSmiles) {
console.log("Ketcher and TextInput differ!");
}
return `
<div class="card bg-white shadow-xs hover:shadow-lg transition-shadow duration-300 h-64 w-75 flex-shrink-0">
<div class="card-body flex flex-col h-full">
<h3 class="card-title leading-tight font-normal tracking-tight h-12 mb-2 line-clamp-2 text-ellipsis wrap-break-word overflow-hidden">
<a href="${topic.url}" target="_blank" class="hover:text-primary">
${topic.title}
</a>
</h3>
<div class="text-sm line-clamp-4 break-words" >
${topic.excerpt}
</div>
if (action === 'Search') {
var par = {};
par['search'] = textSmiles;
par['mode'] = 'text';
var queryString = $.param(par, true);
window.location.href = "/search?" + queryString;
<div class="flex flex-row items-center justify-between">
<div class="flex items-center gap-2">
<div class="avatar tooltip tooltip-right" data-tip="${topic.author}">
<div class="w-8 rounded-full">
<img src="${topic.author_avatar}" alt="${topic.author}" />
</div>
</div>
<span class="text-xs text-gray-500">${date}</span>
</div>
<a href="${topic.url}" target="_blank" class="btn btn-ghost text-neutral-500 rounded-full p-2">
<svg xmlns="http://www.w3.org/2000/svg" class="h-5 w-5" viewBox="0 0 24 24" fill="none" stroke="currentColor" stroke-width="2" stroke-linecap="round" stroke-linejoin="round">
<path d="M12 7v14"/>
<path d="M3 18a1 1 0 0 1-1-1V4a1 1 0 0 1 1-1h5a4 4 0 0 1 4 4 4 4 0 0 1 4-4h5a1 1 0 0 1 1 1v13a1 1 0 0 1-1 1h-6a3 3 0 0 0-3 3 3 3 0 0 0-3-3z"/>
</svg>
</a>
</div>
</div>
</div>
`;
}
// Make render function globally available
window.renderDiscourseTopics = renderDiscourseTopics;
// Toggle functionality with smooth animations
function toggleInputMode() {
const toggle = $('input[type="checkbox"]');
const textContainer = $('#text-input-container');
const ketcherContainer = $('#ketcher-container');
const formCard = $('.card');
const fieldset = $('.fieldset');
if (toggle.is(':checked')) {
// Draw mode - show Ketcher, hide text input
textContainer.addClass('opacity-0 transform scale-95');
textContainer.removeClass('opacity-100 transform scale-100');
// Adjust fieldset padding for Ketcher mode - reduce padding and make more compact
fieldset.removeClass('p-8');
fieldset.addClass('p-4');
// Wait for fade out to complete, then hide and show new content
setTimeout(() => {
textContainer.addClass('hidden');
ketcherContainer.removeClass('hidden opacity-0 transform scale-95');
ketcherContainer.addClass('opacity-100 transform scale-100');
// Force re-evaluation of iframe size
const iframe = document.getElementById('index-ketcher');
if (iframe) {
iframe.style.height = '400px';
}
}, 300);
} else {
$('#index-form-smiles').val(textSmiles);
$('#index-form').submit();
// SMILES mode - show text input, hide Ketcher
ketcherContainer.addClass('opacity-0 transform scale-95');
ketcherContainer.removeClass('opacity-100 transform scale-100');
// Restore fieldset padding for text input mode
fieldset.removeClass('p-4');
fieldset.addClass('p-8');
// Wait for fade out to complete, then hide and show new content
setTimeout(() => {
ketcherContainer.addClass('hidden');
textContainer.removeClass('hidden opacity-0 transform scale-95');
textContainer.addClass('opacity-100 transform scale-100');
}, 300);
// Transfer SMILES from Ketcher to text input if available
if (window.indexKetcher && window.indexKetcher.getSmiles) {
const smiles = window.indexKetcher.getSmiles();
if (smiles && smiles.trim() !== '') {
$('#index-form-text-input').val(smiles);
}
}
}
}
function actionDropdownClicked() {
var suffix = ' <span class="caret"></span>';
var dropdownVal = $(this).text();
if (dropdownVal === 'Search') {
$("#index-form").attr("action", '/search');
$("#index-form").attr("method", 'GET');
} else {
$("#index-form").attr("action", currentPackage + "/pathway");
}
$('#action-button').html(dropdownVal + suffix);
}
function ketcherToTextInput() {
$('#index-form-text-input').val(this.ketcher.getSmiles());
// Ketcher integration
function indexKetcherToTextInput() {
$('#index-form-smiles').val(this.ketcher.getSmiles());
}
$(function () {
// Initialize fieldset with proper padding
$('.fieldset').addClass('p-8');
$('#index-form').on("keydown", function (e) {
if (e.key === "Enter") {
e.preventDefault();
goButtonClicked();
}
});
// Toggle event listener
$('input[type="checkbox"]').on('change', toggleInputMode);
// Code that should be executed once DOM is ready goes here
$('#dropdown-predict').on('click', actionDropdownClicked);
$('#dropdown-search').on('click', actionDropdownClicked);
$('#run-button').on('click', goButtonClicked);
// Update Ketcher Width
var fullWidth = $('#index-form-bar').width();
$('#index-form-ketcher').width(fullWidth);
// add a listener that gets triggered whenever the structure in ketcher has changed
$('#index-form-ketcher').on('load', function () {
// Ketcher iframe load handler
$('#index-ketcher').on('load', function() {
const checkKetcherReady = () => {
win = this.contentWindow
const win = this.contentWindow;
if (win.ketcher && 'editor' in win.ketcher) {
window.indexKetcher = win.ketcher;
win.ketcher.editor.event.change.handlers.push({
once: false,
priority: 0,
f: ketcherToTextInput,
f: indexKetcherToTextInput,
ketcher: win.ketcher
});
} else {
setTimeout(checkKetcherReady, 100);
}
};
checkKetcherReady();
});
// Handle example link clicks
$('.example-link').on('click', function(e) {
e.preventDefault();
const smiles = $(this).data('smiles');
const title = $(this).attr('title');
// Check if we're in Ketcher mode or text input mode
if ($('input[type="checkbox"]').is(':checked')) {
// In Ketcher mode - set the SMILES in Ketcher
if (window.indexKetcher && window.indexKetcher.setMolecule) {
window.indexKetcher.setMolecule(smiles);
}
} else {
// In text input mode - set the SMILES in the text input
$('#index-form-text-input').val(smiles);
}
// Show a brief feedback
const originalText = $(this).text();
$(this).text(`loaded!`);
setTimeout(() => {
$(this).text(originalText);
}, 1000);
});
// Handle form submission on Enter
$('#index-form').on("submit", function (e) {
e.preventDefault();
var textSmiles = '';
// Check if we're in Ketcher mode and extract SMILES
if ($('input[type="checkbox"]').is(':checked') && window.indexKetcher) {
textSmiles = window.indexKetcher.getSmiles().trim();
} else {
textSmiles = $('#index-form-text-input').val().trim();
}
if (textSmiles === '') {
return;
}
$('#index-form-smiles').val(textSmiles);
$("#index-form").attr("action", currentPackage + "/pathway");
$("#index-form").attr("method", 'POST');
this.submit();
});
// Discourse topics are now loaded automatically by discourse-api.js
});
</script>
{% endblock content %}
{% endblock main_content %}