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Changelog

User-facing features and improvements, most recent first.

2026-11-03 Usage guidelines and hosting details on the front page
2026-11-02 Submitting the same file again from the same browser while it is still running takes you to that job
2026-11-02 Files with residues stacked on top of each other stop early, naming the stacked residues
2026-11-02 Moorhen updated to 1.1.3, and its hotspot colors now clear when you reset or pick another hotspot
2026-10-29 DNA and RNA no longer show false missing atoms (OP3, O2', or the 5' phosphate at the start of a strand)
2026-10-27 Multi-model PDB files missing ENDMDL records now load, and a failed analysis says why and marks the step that failed
2026-10-20 Rebuilding tutorial pictures sit beside the step they illustrate, with eight new ones
2026-10-19 Rebuilding tutorial revised: reworked Levels 1-4, a file preparation section, and select-all-that-apply questions
2026-10-18 Arg chi5 twist gets its own column in the residue table, and Rama-Z is scored for every model of an ensemble
2026-10-18 The 3D viewers load mmCIF files whose entity table is incomplete
2026-10-17 One consistent set of fonts across the site
2026-10-16 A clash between two atoms of the same residue counts once in that residue's clash total
2026-10-12 Ramachandran plots page with a panel per category, an ensemble model selector, and PNG, SVG and print export
2026-10-12 Residue table: search outliers by name, sort columns by severity, and colors that match the compact table
2026-10-12 Moorhen edits show a before-and-after Ramachandran plot for the residues you changed
2026-10-11 Arg chi5 twists and planarity outliers now count toward the MP-Triage score
2026-10-11 New Carbohydrate Geometry checks for sugar N-acetyl and Asn-glycan link twists
2026-10-09 Water validation works on structures with ligands the monomer library does not know
2026-10-09 Faster analyses: the kinemage and water stages reuse the clash stage's hydrogen-added model
2026-10-07 Choose whether Asn/Gln/His side chains may be flipped; flipped residues are tagged and can be flipped in Moorhen
2026-09-21 Hydrogen-added CIF downloads work again for most structures
2026-09-10 Old results links now explain that analyses expire after 7 days instead of showing a bare error
2026-09-10 DNA structures now say that sugar pucker analysis covers RNA residues only
2026-09-06 Atoms sharing the same space are flagged (atomic intersections), including ones clash analysis cannot see
2026-08-30 Ligands missing from the monomer library get restraints estimated from the CCD
2026-08-26 Clear size limits for very large structures and long ensembles, instead of a failure
2026-08-19 Spatial hotspots split into Priority and Secondary tiers
2026-08-03 Rotamer names shown in the residue details table
2026-07-27 Improved error handling during analyses
2026-07-21 Privacy and Data page, plus one-click delete for your uploaded structures and results
2026-05-06 Interactive rebuilding tutorial with live classroom voting
2026-04-15 Moorhen (Coot) 3D viewer now works in Safari
2026-04-15 3D Crystal Sandbox — explore 3D crystallographic space groups
2026-04-13 Symmetry Sandbox — learn crystal symmetry through the 17 wallpaper groups
2026-04-10 Download the residue details table as a standalone HTML page
2026-03-15 Download hydrogen-added structure files (PDB or CIF with _FH suffix)
2026-03-15 Acknowledgements page with heritage, citations, and software credits
2026-03-13 MP-Triage help popovers and badge color legend in residue tables
2026-03-12 Bug report form on error and results pages
2026-03-09 Kinemage viewer tab — probe dots and outlier markup overlaid on structure
2026-03-07 3D Protein Coloring Book — color secondary structure on ribbon diagrams
2026-03-07 Full covalent geometry and chi angles for all residues in detailed table
2026-03-07 Compact table shows only relevant metrics per residue (badge-driven details)
2026-03-05 Multicrit kinemage download on results page
2026-03-01 Spatial hotspot detection — clusters of nearby problem residues with severity tiers
2026-02-28 Moorhen (Coot) 3D viewer as alternative to Mol*, with toggle switch
2026-02-28 Results page reorganized into Overview and Details tabs
2026-02-28 Covalent geometry validation for all molecule types, not just proteins
2026-02-28 Renamed scoring system to MP-Triage for clarity
2026-02-25 Water validation (Undowser) flags questionable waters with recommendations
2026-02-23 Hydrogen handling options and improved upload page layout
2026-02-22 Fetch structures directly from RCSB PDB by ID
2026-02-20 Amino acid identification game (AA.ID.LE) with daily mode
2026-02-15 Custom ligand restraint CIF file upload for clashscore
2026-02-13 Validation guide with metric explanations and learn-more links
2026-02-12 AlphaFold/ESMFold prediction metadata and pLDDT filtering
2026-02-10 Cancel running analyses, time estimation, rate limiting
2026-02-09 Consensus view for multi-model NMR ensembles
2026-02-05 Multi-model PDB/mmCIF support
2026-02-04 Outlier coloring in interactive Mol* 3D viewer
2026-02-03 PDB header info extraction and compact residue table
2026-01-21 Structure composition counts (chains, residues, atoms) on results page
2025-11-11 Progress page shows queue status when analysis workers are busy
2025-11-11 Parallel analysis workers for faster processing
2025-09-25 Detailed per-residue validation results table
2025-09-18 At-a-glance validation summary (MolProbity score, clashscore, outlier rates)
2025-09-10 RNA backbone conformation (suite) validation
2025-09-06 Interactive Mol* 3D structure viewer
2025-08-27 Multi-criterion kinemage validation markup on the results page
2025-08-26 First working version — upload a structure for MolProbity validation with a live progress bar

This is a curated list of visible changes. For development history, see the project repository.