Skip to content

Changes by Jules - #104

Merged
jrfaeder merged 853 commits into
RuleWorld:mainfrom
akutuva21:main
Jul 20, 2026
Merged

Changes by Jules#104
jrfaeder merged 853 commits into
RuleWorld:mainfrom
akutuva21:main

Commits

This pull request is big! We're only showing the most recent 250 commits

Commits on Jun 2, 2026

Commits on Jun 3, 2026

Commits on Jun 4, 2026

Commits on Jun 5, 2026

Commits on Jun 9, 2026

Commits on Jun 10, 2026

Commits on Jun 16, 2026

Commits on Jun 17, 2026

Commits on Jul 20, 2026

, 'i'); if (__m === '*' || __re.test(location.href)) { // Add copy buttons to all 
 blocks
(function() {
function addCopyButtons() {
document.querySelectorAll('pre code').forEach(function(codeBlock) {
if (codeBlock.parentElement.hasAttribute('data-copy-added')) return;
codeBlock.parentElement.setAttribute('data-copy-added', 'true');
var btn = document.createElement('button');
btn.textContent = 'Copy';
btn.style.cssText = 'position:absolute;top:4px;right:4px;padding:2px 8px;font-size:11px;background:#4ecdc4;border:none;border-radius:4px;color:#1a1a2e;cursor:pointer;opacity:0.7;transition:opacity 0.2s;';
btn.onmouseover = function() { this.style.opacity = '1'; };
btn.onmouseout = function() { this.style.opacity = '0.7'; };
btn.onclick = function() {
navigator.clipboard.writeText(codeBlock.textContent).then(function() {
btn.textContent = 'Copied!';
setTimeout(function() { btn.textContent = 'Copy'; }, 1500);
});
};
codeBlock.parentElement.style.position = 'relative';
codeBlock.parentElement.appendChild(btn);
});
}
addCopyButtons();
// Re-run on dynamic content
var observer = new MutationObserver(addCopyButtons);
observer.observe(document.body, { childList: true, subtree: true });
})();
}
} catch(__e) { console.warn('[Userscript:Add Copy Buttons to Code Blocks]', __e); }
})();
(function(){
try {
var __m = "github.com";
var __re = new RegExp('^' + "github\\.com" + '
Changes by Jules by akutuva21 · Pull Request #104 · RuleWorld/PyBioNetGen · GitHub
Skip to content
Changes by Jules - #104
Merged
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Jul 20, 2026
Merged
Changes by Jules#104
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Commits
This pull request is big! We're only showing the most recent 250 commits
Commits on Jun 2, 2026
Commits on Jun 3, 2026
Commits on Jun 4, 2026
Commits on Jun 5, 2026
Commits on Jun 9, 2026
Commits on Jun 10, 2026
Commits on Jun 16, 2026
Commits on Jun 17, 2026
Commits on Jul 20, 2026

, 'i');
if (__m === '*' || __re.test(location.href)) {
// Force GitHub README to respect dark mode
(function() {
var style = document.createElement('style');
style.textContent = '
.markdown-body {
color-scheme: dark light;
}
.markdown-body pre { background: #161b22 !important; }
.markdown-body code { background: rgba(110, 118, 129, 0.4) !important; }
.markdown-body table th, .markdown-body table td { border-color: #30363d !important; }
.markdown-body img { background: #0d1117; }
.markdown-body blockquote { border-left-color: #8b949e; }
.markdown-body hr { border-color: #30363d; }
';
document.head.appendChild(style);
})();
}
} catch(__e) { console.warn('[Userscript:GitHub Dark Mode README Fix]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
Changes by Jules by akutuva21 · Pull Request #104 · RuleWorld/PyBioNetGen · GitHub
Skip to content
Changes by Jules - #104
Merged
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Jul 20, 2026
Merged
Changes by Jules#104
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Commits
This pull request is big! We're only showing the most recent 250 commits
Commits on Jun 2, 2026
Commits on Jun 3, 2026
Commits on Jun 4, 2026
Commits on Jun 5, 2026
Commits on Jun 9, 2026
Commits on Jun 10, 2026
Commits on Jun 16, 2026
Commits on Jun 17, 2026
Commits on Jul 20, 2026

, 'i');
if (__m === '*' || __re.test(location.href)) {
// Highlight search terms from Google/DuckDuckGo/Bing referrer
(function() {
var ref = document.referrer;
var terms = [];
if (ref.includes('google.com') || ref.includes('duckduckgo.com') || ref.includes('bing.com')) {
var url = new URL(ref);
var q = url.searchParams.get('q') || url.searchParams.get('p');
if (q) {
terms = q.split(/\s+/).filter(function(t) { return t.length > 2; });
}
}
if (terms.length === 0) return;
var style = document.createElement('style');
style.textContent = '.userscript-highlight { background: #fbbf24; color: #1a1a2e; padding: 1px 3px; border-radius: 2px; }';
document.head.appendChild(style);
function highlight(node) {
if (node.nodeType === 3) { // text node
var text = node.textContent;
var found = false;
terms.forEach(function(term) {
var regex = new RegExp('(' + term.replace(/[.*+?^${}()|[\]\\]/g, '\\') + ')', 'gi');
if (regex.test(text)) {
found = true;
var frag = document.createDocumentFragment();
var parts = text.split(regex);
parts.forEach(function(part, i) {
if (i % 2 === 0) {
frag.appendChild(document.createTextNode(part));
} else {
var span = document.createElement('span');
span.className = 'userscript-highlight';
span.textContent = part;
frag.appendChild(span);
}
});
node.parentNode.replaceChild(frag, node);
}
});
} else if (node.nodeType === 1 && node.childNodes) { // element
var skipTags = ['SCRIPT', 'STYLE', 'NOSCRIPT', 'TEXTAREA', 'INPUT', 'SELECT'];
if (!skipTags.includes(node.tagName)) {
Array.from(node.childNodes).forEach(highlight);
}
}
}
highlight(document.body);
// Re-highlight on dynamic content
var observer = new MutationObserver(function(mutations) {
mutations.forEach(function(m) {
m.addedNodes.forEach(function(node) {
if (node.nodeType === 1 || node.nodeType === 3) highlight(node);
});
});
});
observer.observe(document.body, { childList: true, subtree: true });
})();
}
} catch(__e) { console.warn('[Userscript:Highlight Search Terms]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
Changes by Jules by akutuva21 · Pull Request #104 · RuleWorld/PyBioNetGen · GitHub
Skip to content
Changes by Jules - #104
Merged
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Jul 20, 2026
Merged
Changes by Jules#104
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Commits
This pull request is big! We're only showing the most recent 250 commits
Commits on Jun 2, 2026
Commits on Jun 3, 2026
Commits on Jun 4, 2026
Commits on Jun 5, 2026
Commits on Jun 9, 2026
Commits on Jun 10, 2026
Commits on Jun 16, 2026
Commits on Jun 17, 2026
Commits on Jul 20, 2026

, 'i');
if (__m === '*' || __re.test(location.href)) {
// Strip utm_, fbclid, gclid, etc. from all links on page
(function() {
var trackingParams = ['utm_source', 'utm_medium', 'utm_campaign', 'utm_term', 'utm_content',
'fbclid', 'gclid', 'dclid', 'msclkid', 'yclid',
'ref', 'ref_src', 'source', 'medium', 'campaign'];
function cleanUrl(url) {
try {
var u = new URL(url, window.location.origin);
var changed = false;
trackingParams.forEach(function(p) {
if (u.searchParams.has(p)) {
u.searchParams.delete(p);
changed = true;
}
});
return changed ? u.toString() : url;
} catch (e) {
return url;
}
}
function cleanLinks() {
document.querySelectorAll('a[href]').forEach(function(a) {
var clean = cleanUrl(a.href);
if (clean !== a.href) a.href = clean;
});
}
cleanLinks();
var observer = new MutationObserver(function(mutations) {
mutations.forEach(function(m) {
m.addedNodes.forEach(function(node) {
if (node.nodeType === 1) {
if (node.tagName === 'A') cleanLinks();
node.querySelectorAll('a[href]').forEach(function(a) {
var clean = cleanUrl(a.href);
if (clean !== a.href) a.href = clean;
});
}
});
});
});
observer.observe(document.body, { childList: true, subtree: true });
})();
}
} catch(__e) { console.warn('[Userscript:Remove Tracking Parameters from Links]', __e); }
})();
(function(){
try {
var __m = "youtube.com";
var __re = new RegExp('^' + "youtube\\.com" + '
Changes by Jules by akutuva21 · Pull Request #104 · RuleWorld/PyBioNetGen · GitHub
Skip to content
Changes by Jules - #104
Merged
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Jul 20, 2026
Merged
Changes by Jules#104
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Commits
This pull request is big! We're only showing the most recent 250 commits
Commits on Jun 2, 2026
Commits on Jun 3, 2026
Commits on Jun 4, 2026
Commits on Jun 5, 2026
Commits on Jun 9, 2026
Commits on Jun 10, 2026
Commits on Jun 16, 2026
Commits on Jun 17, 2026
Commits on Jul 20, 2026

, 'i');
if (__m === '*' || __re.test(location.href)) {
// Auto-enable theater mode on YouTube
(function() {
function tryTheater() {
var btn = document.querySelector('button[aria-label="Theater mode"], ytd-player #player button[title="Theater mode"]');
if (btn && !btn.classList.contains('activated')) {
btn.click();
}
}
// Try immediately
tryTheater();
// Try after navigation (SPA)
var lastUrl = location.href;
setInterval(function() {
if (location.href !== lastUrl) {
lastUrl = location.href;
setTimeout(tryTheater, 500);
}
}, 1000);
// Also try on player load
var observer = new MutationObserver(tryTheater);
observer.observe(document.body, { childList: true, subtree: true });
})();
}
} catch(__e) { console.warn('[Userscript:YouTube Theater Mode Default]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
Changes by Jules by akutuva21 · Pull Request #104 · RuleWorld/PyBioNetGen · GitHub
Skip to content
Changes by Jules - #104
Merged
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Jul 20, 2026
Merged
Changes by Jules#104
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Commits
This pull request is big! We're only showing the most recent 250 commits
Commits on Jun 2, 2026
Commits on Jun 3, 2026
Commits on Jun 4, 2026
Commits on Jun 5, 2026
Commits on Jun 9, 2026
Commits on Jun 10, 2026
Commits on Jun 16, 2026
Commits on Jun 17, 2026
Commits on Jul 20, 2026

, 'i');
if (__m === '*' || __re.test(location.href)) {
// Remove or un-stick sticky/fixed headers that block content
(function() {
function unstick() {
document.querySelectorAll('header, nav, [role="banner"], .header, .navbar, .sticky, .fixed-top, [style*="position: fixed"], [style*="position:sticky"]').forEach(function(el) {
if (el.style.position === 'fixed' || el.style.position === 'sticky' || getComputedStyle(el).position === 'fixed' || getComputedStyle(el).position === 'sticky') {
el.style.position = 'static';
el.style.top = 'auto';
el.style.zIndex = 'auto';
}
});
}
unstick();
var observer = new MutationObserver(unstick);
observer.observe(document.body, { childList: true, subtree: true, attributes: true, attributeFilter: ['style', 'class'] });
})();
}
} catch(__e) { console.warn('[Userscript:Kill Sticky Headers]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
Changes by Jules by akutuva21 · Pull Request #104 · RuleWorld/PyBioNetGen · GitHub
Skip to content
Changes by Jules - #104
Merged
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Jul 20, 2026
Merged
Changes by Jules#104
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Commits
This pull request is big! We're only showing the most recent 250 commits
Commits on Jun 2, 2026
Commits on Jun 3, 2026
Commits on Jun 4, 2026
Commits on Jun 5, 2026
Commits on Jun 9, 2026
Commits on Jun 10, 2026
Commits on Jun 16, 2026
Commits on Jun 17, 2026
Commits on Jul 20, 2026

, 'i');
if (__m === '*' || __re.test(location.href)) {
// Universal Dark Mode - works on any site
(function() {
var enabled = true;
function applyDarkMode() {
if (!enabled) return;
// Create style element if it doesn't exist
var style = document.getElementById('universal-dark-mode-style');
if (!style) {
style = document.createElement('style');
style.id = 'universal-dark-mode-style';
document.head.appendChild(style);
}
// Dark mode CSS - inverts colors but preserves images/video
style.textContent = '
/* Invert everything except media */
html {
filter: invert(1) hue-rotate(180deg) !important;
background: #1a1a2e !important;
}
/* Restore images, videos, iframes, canvas */
img, video, iframe, canvas, svg, picture, [style*="background-image"] {
filter: invert(1) hue-rotate(180deg) !important;
}
/* Preserve specific elements that should not be inverted */
.no-dark-mode, .no-dark-mode *,
[data-theme="light"], [data-theme="light"],
.ace_editor, .ace_editor *,
.CodeMirror, .CodeMirror *,
.monaco-editor, .monaco-editor *,
.markdown-body pre, .markdown-body pre *,
.highlight, .highlight *,
pre code, pre code * {
filter: none !important;
}
/* Fix common UI elements */
.modal, .popup, .dropdown-menu, .tooltip, .popover {
filter: invert(1) hue-rotate(180deg) !important;
background: #2d2d44 !important;
border-color: #444 !important;
}
/* Scrollbars */
::-webkit-scrollbar { background: #1a1a2e !important; }
::-webkit-scrollbar-thumb { background: #444 !important; }
::-webkit-scrollbar-thumb:hover { background: #555 !important; }
/* Selection */
::selection { background: #4ecdc4 !important; color: #1a1a2e !important; }
::-moz-selection { background: #4ecdc4 !important; color: #1a1a2e !important; }
';
}
function removeDarkMode() {
var style = document.getElementById('universal-dark-mode-style');
if (style) style.remove();
}
// Toggle with Alt+Shift+D
document.addEventListener('keydown', function(e) {
if (e.altKey && e.shiftKey && e.key === 'D') {
e.preventDefault();
enabled = !enabled;
if (enabled) {
applyDarkMode();
console.log('[Universal Dark Mode] Enabled');
} else {
removeDarkMode();
console.log('[Universal Dark Mode] Disabled');
}
}
});
// Apply on load
applyDarkMode();
// Re-apply on dynamic content
var observer = new MutationObserver(function(mutations) {
if (enabled && !document.getElementById('universal-dark-mode-style')) {
applyDarkMode();
}
});
observer.observe(document.head, { childList: true });
console.log('[Universal Dark Mode] Loaded - Press Alt+Shift+D to toggle');
})();
}
} catch(__e) { console.warn('[Userscript:Universal Dark Mode]', __e); }
})();
})();
Changes by Jules by akutuva21 · Pull Request #104 · RuleWorld/PyBioNetGen · GitHub
Skip to content
Changes by Jules - #104
Merged
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Jul 20, 2026
Merged
Changes by Jules#104
jrfaeder merged 853 commits into
RuleWorld:mainfrom 
akutuva21:main
Commits
This pull request is big! We're only showing the most recent 250 commits
Commits on Jun 2, 2026
Commits on Jun 3, 2026
Commits on Jun 4, 2026
Commits on Jun 5, 2026
Commits on Jun 9, 2026
Commits on Jun 10, 2026
Commits on Jun 16, 2026
Commits on Jun 17, 2026
Commits on Jul 20, 2026