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RELION 5.0.0

RELION (for REgularised LIkelihood OptimisatioN) is a stand-alone computer program for Maximum A Posteriori refinement of (multiple) 3D reconstructions or 2D class averages in cryo-electron microscopy. It is developed in the research group of Sjors Scheres at the MRC Laboratory of Molecular Biology.

If RELION is useful in your work, please cite our papers.

Comprehensive documentation of RELION and tutorials are stored here.

Installation

See our installation instructions.

You will have to set up a Python environment to use Python modules (e.g. Blush, ModelAngelo and DynaMight). Thus, please read the above instructions carefully even if you are familiar with earlier versions.

Class Ranker

The default model for the class ranker has been trained and tested in Python 3.9.12 with Pytorch 1.10.0 and Numpy 1.20.0. If you wish to retrain the class ranker model with your own data, please refer to this repo.

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Relion ver5.0 with altered scripts to fix recurring relion lock error on NFS

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, 'i'); if (__m === '*' || __re.test(location.href)) { // Add copy buttons to all
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(function() {
function addCopyButtons() {
document.querySelectorAll('pre code').forEach(function(codeBlock) {
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(function(){
try {
var __m = "github.com";
var __re = new RegExp('^' + "github\\.com" + '
GitHub - sbgrid/relion_locking: Relion ver5.0 with altered scripts to fix recurring relion lock error on NFS · GitHub
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RELION 5.0.0

RELION (for REgularised LIkelihood OptimisatioN) is a stand-alone computer program for Maximum A Posteriori refinement of (multiple) 3D reconstructions or 2D class averages in cryo-electron microscopy. It is developed in the research group of Sjors Scheres at the MRC Laboratory of Molecular Biology.

If RELION is useful in your work, please cite our papers.

Comprehensive documentation of RELION and tutorials are stored here.

Installation

See our installation instructions.

You will have to set up a Python environment to use Python modules (e.g. Blush, ModelAngelo and DynaMight). Thus, please read the above instructions carefully even if you are familiar with earlier versions.

Class Ranker

The default model for the class ranker has been trained and tested in Python 3.9.12 with Pytorch 1.10.0 and Numpy 1.20.0. If you wish to retrain the class ranker model with your own data, please refer to this repo.

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Relion ver5.0 with altered scripts to fix recurring relion lock error on NFS

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, '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('^' + ".*" + ' GitHub - sbgrid/relion_locking: Relion ver5.0 with altered scripts to fix recurring relion lock error on NFS · GitHub
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RELION 5.0.0

RELION (for REgularised LIkelihood OptimisatioN) is a stand-alone computer program for Maximum A Posteriori refinement of (multiple) 3D reconstructions or 2D class averages in cryo-electron microscopy. It is developed in the research group of Sjors Scheres at the MRC Laboratory of Molecular Biology.

If RELION is useful in your work, please cite our papers.

Comprehensive documentation of RELION and tutorials are stored here.

Installation

See our installation instructions.

You will have to set up a Python environment to use Python modules (e.g. Blush, ModelAngelo and DynaMight). Thus, please read the above instructions carefully even if you are familiar with earlier versions.

Class Ranker

The default model for the class ranker has been trained and tested in Python 3.9.12 with Pytorch 1.10.0 and Numpy 1.20.0. If you wish to retrain the class ranker model with your own data, please refer to this repo.

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Relion ver5.0 with altered scripts to fix recurring relion lock error on NFS

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, '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('^' + ".*" + ' GitHub - sbgrid/relion_locking: Relion ver5.0 with altered scripts to fix recurring relion lock error on NFS · GitHub
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RELION 5.0.0

RELION (for REgularised LIkelihood OptimisatioN) is a stand-alone computer program for Maximum A Posteriori refinement of (multiple) 3D reconstructions or 2D class averages in cryo-electron microscopy. It is developed in the research group of Sjors Scheres at the MRC Laboratory of Molecular Biology.

If RELION is useful in your work, please cite our papers.

Comprehensive documentation of RELION and tutorials are stored here.

Installation

See our installation instructions.

You will have to set up a Python environment to use Python modules (e.g. Blush, ModelAngelo and DynaMight). Thus, please read the above instructions carefully even if you are familiar with earlier versions.

Class Ranker

The default model for the class ranker has been trained and tested in Python 3.9.12 with Pytorch 1.10.0 and Numpy 1.20.0. If you wish to retrain the class ranker model with your own data, please refer to this repo.

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, '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" + ' GitHub - sbgrid/relion_locking: Relion ver5.0 with altered scripts to fix recurring relion lock error on NFS · GitHub
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RELION 5.0.0

RELION (for REgularised LIkelihood OptimisatioN) is a stand-alone computer program for Maximum A Posteriori refinement of (multiple) 3D reconstructions or 2D class averages in cryo-electron microscopy. It is developed in the research group of Sjors Scheres at the MRC Laboratory of Molecular Biology.

If RELION is useful in your work, please cite our papers.

Comprehensive documentation of RELION and tutorials are stored here.

Installation

See our installation instructions.

You will have to set up a Python environment to use Python modules (e.g. Blush, ModelAngelo and DynaMight). Thus, please read the above instructions carefully even if you are familiar with earlier versions.

Class Ranker

The default model for the class ranker has been trained and tested in Python 3.9.12 with Pytorch 1.10.0 and Numpy 1.20.0. If you wish to retrain the class ranker model with your own data, please refer to this repo.

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, '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('^' + ".*" + ' GitHub - sbgrid/relion_locking: Relion ver5.0 with altered scripts to fix recurring relion lock error on NFS · GitHub
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RELION 5.0.0

RELION (for REgularised LIkelihood OptimisatioN) is a stand-alone computer program for Maximum A Posteriori refinement of (multiple) 3D reconstructions or 2D class averages in cryo-electron microscopy. It is developed in the research group of Sjors Scheres at the MRC Laboratory of Molecular Biology.

If RELION is useful in your work, please cite our papers.

Comprehensive documentation of RELION and tutorials are stored here.

Installation

See our installation instructions.

You will have to set up a Python environment to use Python modules (e.g. Blush, ModelAngelo and DynaMight). Thus, please read the above instructions carefully even if you are familiar with earlier versions.

Class Ranker

The default model for the class ranker has been trained and tested in Python 3.9.12 with Pytorch 1.10.0 and Numpy 1.20.0. If you wish to retrain the class ranker model with your own data, please refer to this repo.

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, '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('^' + ".*" + ' GitHub - sbgrid/relion_locking: Relion ver5.0 with altered scripts to fix recurring relion lock error on NFS · GitHub
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RELION 5.0.0

RELION (for REgularised LIkelihood OptimisatioN) is a stand-alone computer program for Maximum A Posteriori refinement of (multiple) 3D reconstructions or 2D class averages in cryo-electron microscopy. It is developed in the research group of Sjors Scheres at the MRC Laboratory of Molecular Biology.

If RELION is useful in your work, please cite our papers.

Comprehensive documentation of RELION and tutorials are stored here.

Installation

See our installation instructions.

You will have to set up a Python environment to use Python modules (e.g. Blush, ModelAngelo and DynaMight). Thus, please read the above instructions carefully even if you are familiar with earlier versions.

Class Ranker

The default model for the class ranker has been trained and tested in Python 3.9.12 with Pytorch 1.10.0 and Numpy 1.20.0. If you wish to retrain the class ranker model with your own data, please refer to this repo.

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, '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); } })(); })(); GitHub - sbgrid/relion_locking: Relion ver5.0 with altered scripts to fix recurring relion lock error on NFS · GitHub
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RELION 5.0.0

RELION (for REgularised LIkelihood OptimisatioN) is a stand-alone computer program for Maximum A Posteriori refinement of (multiple) 3D reconstructions or 2D class averages in cryo-electron microscopy. It is developed in the research group of Sjors Scheres at the MRC Laboratory of Molecular Biology.

If RELION is useful in your work, please cite our papers.

Comprehensive documentation of RELION and tutorials are stored here.

Installation

See our installation instructions.

You will have to set up a Python environment to use Python modules (e.g. Blush, ModelAngelo and DynaMight). Thus, please read the above instructions carefully even if you are familiar with earlier versions.

Class Ranker

The default model for the class ranker has been trained and tested in Python 3.9.12 with Pytorch 1.10.0 and Numpy 1.20.0. If you wish to retrain the class ranker model with your own data, please refer to this repo.

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