CHANGELOG.md

Change Log

All notable changes to this project will be documented in this file, following the suggestions of Keep a CHANGELOG. This project adheres to Semantic Versioning for its most widely used - and defacto - public interfaces.

[Unreleased]

• Mol* core dependency updated to 5.11.0
• Updated TypeScript build config
• Fix toggleSpin (broken since v3.11.0)

[v3.12.0] - 2026-04-24

• Mol* core dependency updated to 5.8.0
• Helper functions that use the last added structure work also for MVS structures

[v3.11.0] - 2026-04-02

• Mol* core dependency updated to 5.7.0
• MVSData.toMVSX - full support directly from Molstar
• .visual.select function supports opacity, nonSelectedOpacity, representationOpacity

[v3.10.1] - 2026-02-05

• Experimental: Added MVSData.toMVSX

[v3.10.0] - 2026-01-23

• Mol* core dependency updated to 5.6.1
• Options moleculeId and customData are optional (can load without initial structure)
• Fix left panel automatically expanding when calling update method
• Full support for MolViewSpec selectors (QueryParam is a supertype of MolViewSpec ComponentExpressionT)
• Fix wrench button initially appearing in FullLayoutNoControlsUnlessExpanded when not expanded
• Option hideCanvasControls accepts "snapshotControls" and "snapshotDescription" (e.g. for loading MolViewSpec)

[v3.9.0] - 2025-12-18

• Mol* core dependency updated to 5.4.2
• Option hideCanvasControls accepts "reset" and "all"
• Update options highlightColor, selectColor, granularity on update
• Added option modelId (select model from trajectory)
• Fix tooltip box flickering

[v3.8.0] - 2025-10-03

• Mol* core dependency updated to 5.0.0
• Selections support instance_id
• Added .visual.sequenceColor, .visual.clearSequenceColor

[v3.7.2] - 2025-09-22

• Fix missing PDBe logo

[v3.7.1] - 2025-09-15

• Modular layout: added FullLayoutNoControlsUnlessExpanded

[v3.7.0] - 2025-09-02

• Selections support type_symbol
• Complex superposition extension allows RNA superposition
• Option mapSettings.defaultView to set Volume Streaming view type

[v3.6.0] - 2025-08-12

• Option hideCanvasControls accepts "screenshot" value
• Method .visual.update reflects changes in layout parameters (expanded, hideCanvasControls...)
• Added .visual.setViewDirection
• Mol* core dependency updated to 4.18.0
• CSS building uses @use instead of @import
• Complex superposition extension (PDBeMolstarPlugin.extensions.Complexes)
• Selections with QueryParams implement AND-logic properly (all selector always taken into account)

[v3.5.0] - 2025-05-28

• Mol* core dependency updated to 4.17.0
• Custom interactions extension (PDBeMolstarPlugin.extensions.Interactions)
• MolViewSpec extension (PDBeMolstarPlugin.extensions.MVS)

[v3.4.0] - 2025-03-31

• Added .visual.interactivityFocus method

[v3.3.2] - 2024-11-25

• Fixed Domain Annotations crashing when no domains available

[v3.3.1] - 2024-11-13

• Mol* core dependency updated to 4.8.0
  • Fixes iOS volume rendering bug

[v3.3.0] - 2024-08-22

• Mol* core dependency updated to 4.5.0
  • Solves the bug with Export Models
• Use BCIF files for AlphaFold models (unless encoding: 'cif')
• Added options leftPanel, rightPanel, logPanel, tabs
• Option hideCanvasControls accepts "trajectory" value (for multi-model structures)
• All color options accept color names and hexcodes
• visualStyle option allows per-component specification
• Modular UI rendering (5 top-level components renderable separately)
• Foldseek extension (PDBeMolstarPlugin.extensions.Foldseek)
• StateGallery extension

[v3.2.0] - 2024-04-24

• Mol* core dependency updated to 3.45.0
• Removed Assembly Symmetry hack (now will hide assembly symmetry section for non-biological assemblies)
• Manual testing via portfolio.html
• Fixed hideStructure.nonStandard option
• hideStructure.het option also hides ions
• Removed loadCartoonsOnly option
• Setting highlight and selection color (by .visual.setColor()) includes the outline color
• Web-component attributes renamed to ligand-auth-asym-id and ligand-struct-asym-id (lowercase i)
• .visual.select() function:
  • Improved performance
  • Allows color: null (do not apply color)
  • keepColors and keepRepresentations parameters to avoid clearing previous selections
• Added .visual.tooltips and .visual.clearTooltips for setting custom tooltips
• Built files don't contain package version in the filename

[v3.1.3] - 2023-12-06

• Added Assembly Symmetry to structure controls, requires setting symmetryAnnotation in initialization parameters
• Keep sequence panel in settings even when initially hidden
• Changed tsconfig.json to place tsconfig.tsbuildinfo correctly (for incremental build)
• Fixed coloring after annotation is switched off (revert to chain-id, not polymer-id)
• Loading overlay with animated PDBe logo (requires initParam loadingOverlay)
• Use linting to keep code nice
• Correctly handle numeric value 0 in selections
• Fetch structures from static files when possible, instead of using ModelServer

[v3.1.2] - 2023-08-01

• Added PDBe Sifts Mappings module to solve UniPort mappings issue
• Split Webpack config file into separate files for Production and Development

[v3.1.1] - 2023-05-18

• Controls menu visible for AlphaFold view
• Reactive parameter addition for better responsive layout support

[v3.1.0] - 2022-10-24

• Mol* core dependency updated to V3.15.0
• Superposition view - added option to superpose AlphaFold model
• UniPort residue numbering param addition to higlight and selection helper methods
• New param to display Sequence panel 62

[v1.2.1] - 2021-12-03

• Selection helper method representationColor param issue fix

[v1.2.0] - 2021-09-20

• Add parameters to support AlphaFold Protein Structure DB view
• Add parameters to customize mouse events, issues #8
• Add parameter to customize lighting setting
• Extend Selection / highlight helper methods to support label_atom_id list, issues #32
• Extend helper methods support for multiple structures
• Extend hideCanvasControls
• Fix Frame rate drop issue while rotating the canvas
• Fix RGB color issue for params starting with r:0