# Change Log All notable changes to this project will be documented in this file, following the suggestions of [Keep a CHANGELOG](http://keepachangelog.com/). This project adheres to [Semantic Versioning](http://semver.org/) for its most widely used - and defacto - public interfaces. Note that since we don't clearly distinguish between a public and private interfaces there will be changes in non-major versions that are potentially breaking. If we make breaking changes to less used interfaces we will highlight it in here. ## [Unreleased] ## [v2.2.1] - 2021-08-02 - Add surrounding atoms (5 Angstrom) structure selection query - [Breaking] Add maxDistance prop to ``IndexPairBonds`` - Fix coordinateSystem not handled in ``Structure.asParent`` - Add ``dynamicBonds`` to ``Structure`` props (force re-calc on model change) - Expose as optional param in root structure transform helper - Add overpaint support to geometry exporters - ``InputObserver`` improvements - normalize wheel speed across browsers/platforms - support Safari gestures (used by ``TrackballControls``) - ``PinchInput.fractionDelta`` and use it in ``TrackballControls`` ## [v2.2.0] - 2021-07-31 - Add ``tubularHelices`` parameter to Cartoon representation - Add ``SdfFormat`` and update SDF parser to be able to parse data headers according to spec (hopefully :)) #230 - Fix mononucleotides detected as polymer components (#229) - Set default outline scale back to 1 - Improved DCD reader cell angle handling (interpret near 0 angles as 90 deg) - Handle more residue/atom names commonly used in force-fields - Add USDZ support to ``geo-export`` extension. - Fix ``includeParent`` support for multi-instance bond visuals. - Add ``operator`` Loci granularity, selecting everything with the same operator name. - Prefer ``_label_seq_id`` fields in secondary structure assignment. - Support new EMDB API (https://www.ebi.ac.uk/emdb/api/entry/map/[EMBD-ID]) for EM volume contour levels. - ``Canvas3D`` tweaks: - Update ``forceDraw`` logic. - Ensure the scene is re-rendered when viewport size changes. - Support ``noDraw`` mode in ``PluginAnimationLoop``. ## [v2.1.0] - 2021-07-05 - Add parameter for to display aromatic bonds as dashes next to solid cylinder/line. - Add backbone representation - Fix outline in orthographic mode and set default scale to 2. ## [v2.0.7] - 2021-06-23 - Add ability to specify ``volumeIndex`` in ``Viewer.loadVolumeFromUrl`` to better support Volume Server inputs. - Support in-place reordering for trajectory ``Frame.x/y/z`` arrays for better memory efficiency. - Fixed text CIF encoder edge cases (most notably single whitespace not being escaped). ## [v2.0.6] - 2021-06-01 - Add glTF (GLB) and STL support to ``geo-export`` extension. - Protein crosslink improvements - Change O-S bond distance to allow for NOS bridges (doi:10.1038/s41586-021-03513-3) - Added NOS-bridges query & improved disulfide-bridges query - Fix #178: ``IndexPairBonds`` for non-single residue structures (bug due to atom reordering). - Add volumetric color smoothing for MolecularSurface and GaussianSurface representations (#173) - Fix nested 3d grid lookup that caused results being overwritten in non-covalent interactions computation. - Basic implementation of ``BestDatabaseSequenceMapping`` (parse from CIF, color theme, superposition). - Add atom id ranges support to Selection UI. ## [v2.0.5] - 2021-04-26 - Ability to pass ``Canvas3DContext`` to ``PluginContext.fromCanvas``. - Relative frame support for ``Canvas3D`` viewport. - Fix bug in screenshot copy UI. - Add ability to select residues from a list of identifiers to the Selection UI. - Fix SSAO bugs when used with ``Canvas3D`` viewport. - Support for full pausing (no draw) rendering: ``Canvas3D.pause(true)``. - Add ``MeshBuilder.addMesh``. - Add ``Torus`` primitive. - Lazy volume loading support. - [Breaking] ``Viewer.loadVolumeFromUrl`` signature change. - ``loadVolumeFromUrl(url, format, isBinary, isovalues, entryId)`` => ``loadVolumeFromUrl({ url, format, isBinary }, isovalues, { entryId, isLazy })`` - Add ``TextureMesh`` support to ``geo-export`` extension. ## [v2.0.4] - 2021-04-20 - [WIP] Mesh export extension - ``Structure.eachAtomicHierarchyElement`` (#161) - Fixed reading multi-line values in SDF format - Fixed Measurements UI labels (#166) ## [v2.0.3] - 2021-04-09 ### Added - Support for ``ColorTheme.palette`` designed for providing gradient-like coloring. ### Changed - [Breaking] The ``zip`` function is now asynchronous and expects a ``RuntimeContext``. Also added ``Zip()`` returning a ``Task``. - [Breaking] Add ``CubeGridFormat`` in ``alpha-orbitals`` extension. ## [v2.0.2] - 2021-03-29 ### Added - ``Canvas3D.getRenderObjects``. - [WIP] Animate state interpolating, including model trajectories ### Changed - Recognise MSE, SEP, TPO, PTR and PCA as non-standard amino-acids. ### Fixed - VolumeFromDensityServerCif transform label ## [v2.0.1] - 2021-03-23 ### Fixed - Exclude tsconfig.commonjs.tsbuildinfo from npm bundle ## [v2.0.0] - 2021-03-23 Too many changes to list as this is the start of the changelog... Notably, default exports are now forbidden.