Fix for tubular helices issue (Fixes #1422)
Volume UI improvements
- Render all volume entries instead of selecting them one-by-one
- Toggle visibility of all volumes
- More accessible iso value control
Support wheel event on sliders
MolViewSpec extension:
- Add validation for discriminated union params
- Primitives: remove triangle_colors, line_colors, have implicit grouping instead; rename many parameters
UI configuration options
- Support removal of independent selection controls in the viewport
- Support custom selection controls
- Support for custom granularity dropdown options
- Support for custom Sequence Viewer mode options
Add external-structure theme that colors any geometry by structure properties
Support float and half-float data type for direct-volume rendering and GPU isosurface extraction
Minor documentation updates
Add support for position-location to volume-value color theme
Add support for color themes to slice representation
Improve/fix palette support in volume color themes
Fix Plane3D.projectPoint
Fix marking related image rendering issues
- Handle pixels without a group
- Take fog into account
MolViewSpec extension: Initial support for customizable representation parameters
Quick Styles section reorganized
UI color improvements (scrollbar contrast, toggle button hover color)
Add overrideWater param for entity-id color theme
Renames PDB-Dev to PDB-IHM and adjusts data source
Fix vertex based themes for spheres shader
Add volume dot representation
Add volume-value size theme
Sequence panel: Mark focused loci (bold+underline)
Change modifier key behavior in Normal Mode (default = select only, Ctrl/Cmd = add to selection, Shift = extend last selected range)
Handle Firefox's limit on vertex ids per draw (#1116)

4.10.0

Diff

arose

published 4.10.0 • 2 months ago

Changelog

Source

[v4.10.0] - 2024-12-15

Add ModelWithCoordinates decorator transform.
Fix outlines on transparent background using illumination mode (#1364)
Fix transparent depth texture artifacts using illumination mode
Fix marking of consecutive gap elements (#876)
Allow React 19 in dependencies
Fix missing deflate header if CompressionStream is available
Fix is_iOS check for NodeJS
Added PluginCommands.Camera.FocusObject
Plugin state snapshot can have instructions to focus objects (PluginState.Snapshot.camera.focus)
MolViewSpec extension: Support for multi-state files (animations)
Fix units transform data not fully updated when structure child changes
Fix addIndexPairBonds quadratic runtime case
Use adjoint matrix to transform normals in shaders
Fix resize handling in tests/browser

4.9.1

Diff

arose

published 4.9.1 • 3 months ago

Changelog

Source

[v4.9.1] - 2024-12-05

Fix iOS check when running on Node

4.9.0

Diff

arose

published 4.9.0 • 3 months ago

Changelog

Source

[v4.9.0] - 2024-12-01

Fix artifacts when using xray shading with high xrayEdgeFalloff values
Enable double rounded capping on tubular helices
Fix single residue tubular helices not showing up
Fix outlines on volume and surface reps that do not disappear (#1326)
Add example glb-export
Membrane orientation: Improve isApplicable check and error handling (#1316)
Fix set fenceSync to null after deleteSync.
Fix operator key-based IndexPairBonds assignment
- Don't add bonds twice
- Add IndexPairs.bySameOperator to avoid looping over all bonds for each unit
Add Structure.intraUnitBondMapping
Add more structure-based visuals to avoid too many (small) render-objects
- structure-intra-bond, structure-ellipsoid-mesh, structure-element-point, structure-element-cross
Upgrade to express v5 (#1311)
Fix occupancy check using wrong index for inter-unit bond computation (@rxht, #1321)
Fix transparent SSAO for image rendering, e.g., volumne slices (#1332)
Fix bonds not shown with ignoreHydrogens on (#1315)
- Better handle mmCIF files with no entities defined by using label_asym_id
- Show bonds in water chains when ignoreHydorgensVariant is non-polar
Add MembraneServer API, generating data to be consumed in the context of MolViewSpec
Fix StructConn.isExhaustive for partial models (e.g., returned by the model server)
Refactor value swapping in molstar-math to fix SWC (Next.js) build (#1345)
Fix transform data not updated when structure child changes
Fix PluginStateSnapshotManager.syncCurrent to work as expected on re-loaded states.
Fix do not compute implicit hydrogens when unit is explicitly protonated (#1257)
ModelServer and VolumeServer: support for input files from Google Cloud Storage (gs://)
Fix color of missing partial charges for SB partial charges extension

4.8.0

Diff

arose

published 4.8.0 • 4 months ago

Changelog

Source

[v4.8.0] - 2024-10-27

Add SSAO support for transparent geometry
Fix SSAO color not updating
Improve blending of overlapping outlines from transparent & opaque geometries
Default to blended transparency on iOS due to wboit not being supported.
Fix direct-volume with fog off (and on with dpoit) and transparent background on (#1286)
Fix missing pre-multiplied alpha for blended & wboit with no fog (#1284)
Fix backfaces visible using blended transparency on impostors (#1285)
Fix StructureElement.Loci.isSubset() only considers common units (#1292)
Fix Scene.opacityAverage calculation never 1
Fix bloom in illumination mode
Fix findPredecessorIndex bug when repeating values
MolViewSpec: Support for transparency and custom properties
MolViewSpec: MVP Support for geometrical primitives (mesh, lines, line, label, distance measurement)
Mesoscale Explorer: Add support for 4-character PDB IDs (e.g., 8ZZC) in PDB-IHM/PDB-Dev loader
Fix Sequence View in Safari 18
Improve performance of IndexPairBonds assignment when operator keys are available
ModelArchive QualityAssessment extension:
- Add support for ma_qa_metric_local_pairwise mmCIF category
- Add PAE plot component
Add new AlphaFoldDB-PAE example app
Add support for LAMMPS data and dump formats
Remove extra anti-aliasing from text shader (fixes #1208 & #1306)

4.7.1

Diff

arose

published 4.7.1 • 5 months ago

Changelog

Source

[v4.7.1] - 2024-09-30

Improve resolutionMode (#1279)
- Add auto that picks scaled for mobile devices and native elsewhere
- Add resolution-mode Viewer GET param
- Add PluginConfig.General.ResolutionMode config item

4.7.0

Diff

arose

published 4.7.0 • 5 months ago

Changelog

Source

[v4.7.0] - 2024-09-29

Add illumination mode
- Path-traced SSGI
- Automatic thickness (estimate)
  - Base thickness as max(backface depth) - min(frontface depth)
  - Per object density factor to adjust thickness
- Progressively trace samples to keep viewport interactive
- Toggle on/off by pressing "G"
- illumination Viewer GET param
Enables dXrayShaded define when rendering depth
Fix handling of PDB files that have chains with same id separated by TER record (#1245)
Sequence Panel: Improve visuals of unmodeled sequence positions (#1248)
Fix no-compression xtc parser (#1258)
Mol2 Reader: Fix mol2 status_bit read error (#1251)
Fix shadows with multiple lights
Fix impostor sphere interior normal when using orthographic projection
Add resolutionMode parameter to Canvas3DContext
- scaled, divides by devicePixelRatio
- native, no changes
Add CustomProperty.Context.errorContext to support reporting errors during loading of custom properties (#1254)
- Use in MolViewSpec extension
Mesoscale Explorer: fix color & style issues
Remove use of deprecated SASS explicit color functions
Allow "Components" section to display nested components created by "Apply Action > Selection".

4.6.0

Diff

arose

published 4.6.0 • 6 months ago

Changelog

Source

[v4.6.0] - 2024-08-28

Add round-caps option on tubular alpha helices
Fix missing Sequence UI update on state object removal (#1219)
Improved prmtop format support (CTITLE, %COMMENT)
Avoid calculating bonds for water units when ignoreHydrogens is on
Add Water trait to Unit
Improve entity-id coloring for structures with multiple models from the same source (#1221)
Wrap screenshot & image generation in a Task
AlphaFold DB: Add BinaryCIF support when fetching data
PDB-IHM/PDB-Dev: Add support for 4-character PDB IDs (e.g., 8ZZC)
Fix polymer-gap visual coloring with cartoon theme
Add formal-charge color theme (#328)
Add more coloring options to cartoon theme
Use CompressionStream Browser API when available
Add pdbx_structure_determination_methodology mmcif field and Model helpers
Fix cartoon representation not updated when secondary structure changes
Add Zhang-Skolnick secondary-structure assignment method which handles coarse-grained models (#49)
Calculate bonds for coarse-grained models
VolumeServer: Add health-check endpoint + healthCheckPath config prop to report service health
ModelServer: Add health-check endpoint + healthCheckPath config prop to report service health

4.5.0

Diff

arose

published 4.5.0 • 7 months ago

Changelog

Source

[v4.5.0] - 2024-07-28

Separated postprocessing passes
Take into account explicit hydrogens when computing hydrogen bonds
Fix DoF with pixel ratios =! 1
Fix DoF missing transparent depth
Fix trackball pinch zoom and add pan
Fix aromatic link rendering when adjustCylinderLength is true
Change trackball animate spin speed unit to radians per second
Fix mol-plugin-ui/skin/base/components/misc.scss syntax to be in line with latest Sass syntax
Handle missing theme updates
- Fix trajectory-index color-theme not always updated (#896)
- Fix bond cylinders not updated on size-theme change with adjustCylinderLength enabled (#1215)
Use OES_texture_float_linear for SSAO when available

4.4.1

Diff

arose

published 4.4.1 • 8 months ago

Changelog

Source

[v4.4.1] - 2024-06-30

Clean solidInterior transparent cylinders
Create a transformer to deflate compressed data
Adjust Quick Styles panel button labels
Improve camera interpolation code (interpolate camera rotation instead of just position)
Mesoscale Explorer
- Add illustrative coloring option
- Press 'C' to toggle between center and zoom & center on click
- Add entities selection description
- Clicking a leaf node in the right panel tree will center each instance in turn
- Add measurement controls to right panel
- Mouse left click on label with snapshot key will load snapshot
- Mouse hover over label with protein name highlight entities with the same name
- Custom ViewportSnapshotDescription with custom MarkdowAnchor
  - # other snapshots with a given key [...](#key)
  - i highlight a protein with a given NAME [...](iNAME)
  - g highlight a group with a given group type and group name [...](ggrouptype.groupname)
  - h URLs with a given link [...](http...)
- Snapshot description panel window size and text can be resized and hidden with new icons
- Add styles controls to right panel
- Add viewport settings to left panel
- Add app info component to left panel with interactive tour and doc link
Fixes SSAO edge artifacts (#1122)
- Add reuseOcclusion parameter to multi-sample pass
- Add blurDepthBias parameter to occlusion pass
- Handle near clip in SSAO blur
Support reading score from B-factor in pLDDT color theme
Add Cel-shading support
- celShaded geometry parameter
- celSteps renderer parameter
Add the ability to customize the Snapshot Description component via PluginUISpec.components.viewport.snapshotDescription
Add doNotDisposeCanvas3DContext option to PluginContext.dispose
Remove support for density data from edmaps.rcsb.org

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molstar - npm Package Versions

4.11.0

.css-1z04cui{margin-bottom:var(--chakra-space-4);font-size:var(--chakra-fontSizes-md);}[v4.11.0] - 2025-01-26

4.10.0

[v4.10.0] - 2024-12-15

4.9.1

[v4.9.1] - 2024-12-05

4.9.0

[v4.9.0] - 2024-12-01

4.8.0

[v4.8.0] - 2024-10-27

4.7.1

[v4.7.1] - 2024-09-30

4.7.0

[v4.7.0] - 2024-09-29

4.6.0

[v4.6.0] - 2024-08-28

4.5.0

[v4.5.0] - 2024-07-28

4.4.1

[v4.4.1] - 2024-06-30

[v4.11.0] - 2025-01-26