3dmol/3Dmol.js issues and pull requests

#812 - Issue with v2.3.0 and above

Issue - State: open - Opened by rodrigoalcarazdelaosa 10 days ago - 5 comments

#811 - Dashed cylinder for chain breaks/discontinuities

Issue - State: open - Opened by JavierSanchez-Utges 17 days ago
Labels: enhancement

#810 - Consider modified amino acid residues as protein atoms (hetflag: false)

Issue - State: closed - Opened by JavierSanchez-Utges 19 days ago - 13 comments
Labels: enhancement

#809 - Unable to implement a XYZ file in embedded viewer through data-href [BUG]

Issue - State: closed - Opened by adaudon 19 days ago - 2 comments
Labels: bug

#808 - Implementation of convenience functions showAllLabels() and hideAllLabels()

Issue - State: open - Opened by JavierSanchez-Utges 20 days ago
Labels: enhancement

#807 - Implementation of showing and hiding Cylinders

Issue - State: closed - Opened by JavierSanchez-Utges 23 days ago - 2 comments
Labels: enhancement

#806 - Bump webpack from 5.92.1 to 5.94.0

Pull Request - State: closed - Opened by dependabot[bot] 29 days ago
Labels: dependencies

#805 - Request for viewer.showLabel(label);

Issue - State: closed - Opened by JavierSanchez-Utges about 1 month ago - 3 comments
Labels: enhancement

#804 - [BUG?] Complex selections with OR gate

Issue - State: open - Opened by JavierSanchez-Utges about 1 month ago - 2 comments
Labels: bug

#803 - Dynamic label rendering for multiple cylinder shapes

Issue - State: open - Opened by JavierSanchez-Utges about 1 month ago - 2 comments
Labels: enhancement

#803 - Dynamic label rendering for multiple cylinder shapes

Issue - State: closed - Opened by JavierSanchez-Utges about 1 month ago - 2 comments
Labels: enhancement

#803 - Dynamic label rendering for multiple cylinder shapes

Issue - State: open - Opened by JavierSanchez-Utges about 1 month ago
Labels: enhancement

#802 - Create custom style

Issue - State: closed - Opened by S0udy about 1 month ago - 2 comments

#801 - ViewStyle outline width to self adjust

Issue - State: closed - Opened by JavierSanchez-Utges about 2 months ago - 3 comments
Labels: enhancement

#800 - [BUG] Background Alpha Non-Functional

Issue - State: closed - Opened by gplewy about 2 months ago - 3 comments
Labels: bug

#799 - [BUG] Broken link in docs tutorial

Issue - State: closed - Opened by dflock about 2 months ago - 1 comment
Labels: bug

#798 - Changing residue colors in real time!

Issue - State: closed - Opened by louetadelie1 2 months ago - 5 comments

#797 - fix: parse error for atomSymbol separate with one space

Pull Request - State: closed - Opened by Rasic2 2 months ago - 2 comments

#796 - remove leftover debug code: console.log() calls

Pull Request - State: closed - Opened by NicolasCARPi 2 months ago - 2 comments

#796 - remove leftover debug code: console.log() calls

Pull Request - State: closed - Opened by NicolasCARPi 2 months ago - 1 comment

#795 - [BUG] - When trying to display multiple viewers, an error occurs specifically when trying to display over 16 structures in Chrome, Brave, JupyterLab App

Issue - State: closed - Opened by coltonbh 2 months ago - 37 comments

#794 - [BUG] Dependencies creeping out again

Issue - State: closed - Opened by NicolasCARPi 3 months ago - 2 comments
Labels: bug

#793 - [BUG]? - Animate does not appear to work

Issue - State: closed - Opened by coltonbh 3 months ago - 5 comments
Labels: bug

#792 - Color per BetaFactor ('prop':'b') with CIF as input

Issue - State: closed - Opened by tubiana 3 months ago - 4 comments
Labels: enhancement

#792 - Color per BetaFactor ('prop':'b') with CIF as input

Issue - State: closed - Opened by tubiana 3 months ago - 4 comments
Labels: enhancement

#791 - Improvements to VASP.ts

Pull Request - State: closed - Opened by Rasic2 3 months ago - 1 comment

#790 - Using a slider bar to navigate between different models in a pdb

Issue - State: open - Opened by ebettler 3 months ago - 1 comment
Labels: enhancement

#789 - Bump braces from 3.0.2 to 3.0.3

Pull Request - State: closed - Opened by dependabot[bot] 3 months ago
Labels: dependencies

#788 - Bump ws

Pull Request - State: closed - Opened by dependabot[bot] 3 months ago - 1 comment
Labels: dependencies

#787 - How to use native in React Js and Next Js 14

Issue - State: closed - Opened by H92L 4 months ago - 2 comments
Labels: enhancement

#786 - Dinamic protein visualization

Issue - State: closed - Opened by ASGMc17 4 months ago - 1 comment
Labels: enhancement

#785 - refactor: LAMMPSTRJ.ts

Pull Request - State: closed - Opened by prajwalkulkarni 4 months ago

#784 - use less CPU for animations

Issue - State: closed - Opened by mhellstr 5 months ago - 13 comments
Labels: enhancement

#783 - refactor: GRO parser

Pull Request - State: closed - Opened by prajwalkulkarni 5 months ago

#782 - Contextmenu updates

Pull Request - State: closed - Opened by donbyron02 6 months ago - 1 comment

#781 - Highlighting specific residues

Issue - State: closed - Opened by KeaunAmani 7 months ago - 7 comments
Labels: enhancement

#780 - Refactor CIF.ts & CUBE.ts

Pull Request - State: closed - Opened by prajwalkulkarni 7 months ago

#779 - PRMTOP needs to parse residue names

Issue - State: open - Opened by dkoes 7 months ago
Labels: enhancement

#778 - Update README.md

Pull Request - State: closed - Opened by dkoes 7 months ago

#777 - Opening MANY models efficiently

Issue - State: closed - Opened by JavierSanchez-Utges 7 months ago - 3 comments

#776 - [BUG] WRONG BONDS BEING DRAWN

Issue - State: closed - Opened by JavierSanchez-Utges 7 months ago - 8 comments
Labels: bug

#775 - Stick representation for IONS

Issue - State: closed - Opened by JavierSanchez-Utges 7 months ago - 2 comments

#774 - View multiple models with absolute positions (i.e. no centering)

Issue - State: closed - Opened by antoszewski 7 months ago - 8 comments
Labels: enhancement

#773 - Assign Property to selection, select and colour by property

Issue - State: closed - Opened by JavierSanchez-Utges 7 months ago - 2 comments

#772 - Can't select properly, nor generate cartoon & multiple structures

Issue - State: closed - Opened by JavierSanchez-Utges 7 months ago - 9 comments

#771 - Enable Model Translation on Right-Click and Mouse Movement.

Issue - State: open - Opened by perminder-17 7 months ago - 3 comments
Labels: enhancement

#770 - [BUG] Crystal supercell displays in a very weird way

Issue - State: closed - Opened by fxcoudert 7 months ago - 10 comments
Labels: bug

#769 - Add og meta tags and icon

Pull Request - State: closed - Opened by prajwalkulkarni 7 months ago - 1 comment

#768 - Support wireframe and opacity for addIsoSurface in VRML Export

Issue - State: closed - Opened by dxdc 8 months ago - 2 comments
Labels: enhancement

#767 - [BUG] Double bonds rendered out of plane (CID: 243, 2244)

Issue - State: closed - Opened by dxdc 8 months ago - 2 comments
Labels: bug

#766 - py3Dmol is not working [BUG]

Issue - State: closed - Opened by jiywang3 8 months ago - 4 comments
Labels: bug

#765 - Improvements to learning-environments.md

Pull Request - State: open - Opened by prajwalkulkarni 8 months ago

#764 - [BUG] defaultcolors not applied when using addModelsAsFrames

Issue - State: closed - Opened by dsvatunek 8 months ago - 1 comment
Labels: bug

#763 - .render() is not showing updated representation of models

Issue - State: closed - Opened by sdr0598 8 months ago - 2 comments

#762 - Move all URLs to a separate file & improve getbin method

Pull Request - State: open - Opened by prajwalkulkarni 8 months ago - 2 comments

#761 - Refactor remaining files in parser/utils

Pull Request - State: closed - Opened by prajwalkulkarni 8 months ago - 1 comment

#760 - Refactor remaining files in parser/utils

Pull Request - State: closed - Opened by prajwalkulkarni 8 months ago

#759 - Discrepancy in Atom Rendering Between 3Dmol.js and VESTA for Al1Cd2_H.cif File

Issue - State: closed - Opened by yliu7949 8 months ago - 4 comments

#758 - Is it possible to have post-translational modifications (PTMs) features in 3Dmol?

Issue - State: closed - Opened by huajianmao 8 months ago - 1 comment
Labels: enhancement

#757 - Not showing Hydrogen atoms

Issue - State: closed - Opened by JavierSanchez-Utges 8 months ago - 4 comments

#756 - Refactor ts files parser utils

Pull Request - State: closed - Opened by prajwalkulkarni 8 months ago - 1 comment

#755 - Visualizing multiple protein structures in the same viewer

Issue - State: closed - Opened by OreFoX18 8 months ago - 8 comments
Labels: enhancement

#754 - Add strict equality operator to TS files src/*

Pull Request - State: closed - Opened by prajwalkulkarni 8 months ago - 3 comments

#753 - Add strict equality to TS files(src/*)

Pull Request - State: closed - Opened by prajwalkulkarni 8 months ago - 2 comments

#752 - Implement binaryCIF

Issue - State: closed - Opened by dkoes 8 months ago - 7 comments
Labels: enhancement

#751 - Use strict equality operator over equality operator

Issue - State: closed - Opened by prajwalkulkarni 8 months ago - 6 comments

#750 - Use yarn or pnpm as the default package manager

Issue - State: closed - Opened by prajwalkulkarni 9 months ago - 11 comments
Labels: enhancement

#749 - Remove redundant argument from package.json

Pull Request - State: closed - Opened by prajwalkulkarni 9 months ago - 2 comments

#748 - Remove redundant argument from package.json scripts

Issue - State: closed - Opened by prajwalkulkarni 9 months ago - 2 comments

#747 - Atom's coordinate movement

Issue - State: closed - Opened by heoSuKyeong 9 months ago - 7 comments

#746 - Export the 3D model in the view as an .STL or .OBJ file

Issue - State: closed - Opened by sinemete 9 months ago - 2 comments
Labels: enhancement

#745 - [BUG] cannot completely destroy the viewer when switch the pages

Issue - State: open - Opened by wunderbarr 9 months ago - 7 comments
Labels: bug

#744 - [BUG] Issue with `eval` usage in codebase

Issue - State: open - Opened by NicolasCARPi 9 months ago - 4 comments
Labels: bug

#743 - 3Dmol.js Error: 'Cannot read properties of undefined (reading 'atom')'

Issue - State: closed - Opened by zongyangdu 9 months ago - 2 comments

#742 - Link to API documentation for $3Dmol.GLViewer is broken

Issue - State: closed - Opened by sdr0598 9 months ago - 1 comment

#741 - Show unit cell axis separately and keep the origin of the lattice vectors on a fixed point on the screen

Issue - State: open - Opened by Kvieta1990 10 months ago - 4 comments
Labels: enhancement

#740 - Dashed bonds for bond order < 1 (revised)

Pull Request - State: closed - Opened by dxdc 10 months ago - 3 comments

#739 - Showing sidechains as stick representation while maintaining cartoon representation for backbone

Issue - State: closed - Opened by sdr0598 10 months ago - 2 comments

#738 - DSN6 map format

Issue - State: closed - Opened by publcif 10 months ago - 5 comments
Labels: enhancement

#737 - [Question] how to use the clickable interaction

Issue - State: closed - Opened by Kvieta1990 10 months ago - 2 comments

#736 - Drawing contacts/interactions between atoms

Issue - State: closed - Opened by JavierSanchez-Utges 11 months ago - 6 comments

#735 - Get property from selection

Issue - State: closed - Opened by JavierSanchez-Utges 11 months ago - 2 comments

#734 - addResLabels with custom text/remove labels from atom selection

Issue - State: closed - Opened by JavierSanchez-Utges 11 months ago - 2 comments

#733 - Export visualisation to PyMol/Chimera session, PDB, CIF format

Issue - State: closed - Opened by JavierSanchez-Utges 11 months ago - 2 comments

#732 - set bonds to have identical radii regardless of bond order

Issue - State: closed - Opened by dxdc 12 months ago - 3 comments
Labels: enhancement

#732 - set bonds to have identical radii regardless of bond order

Issue - State: closed - Opened by dxdc 12 months ago - 3 comments
Labels: enhancement

#731 - Bump @babel/traverse from 7.22.20 to 7.23.2

Pull Request - State: closed - Opened by dependabot[bot] 12 months ago
Labels: dependencies

#730 - Unable to access viewer object created using viewer_3Dmoljs[BUG]

Issue - State: closed - Opened by sdr0598 12 months ago - 2 comments
Labels: question

#729 - Colour existing surface without having to remove, and add new surface?

Issue - State: closed - Opened by JavierSanchez-Utges 12 months ago - 10 comments
Labels: enhancement

#728 - Include ranges in typing for resi `AtomSelectionSpec`

Pull Request - State: closed - Opened by randyn 12 months ago - 1 comment

#727 - [BUG] color is supposed to override colorscheme in SphereStyleSpec and other StyleSpec, but it does not.

Issue - State: closed - Opened by MaximeScope 12 months ago - 2 comments
Labels: bug

#726 - [BUG] Colorfunc is documented on colorscheme but taken on style

Issue - State: closed - Opened by Luthaf 12 months ago - 1 comment
Labels: bug

#725 - Bump postcss from 8.4.24 to 8.4.31

Pull Request - State: closed - Opened by dependabot[bot] 12 months ago - 1 comment
Labels: dependencies

#724 - [BUG] Dev dependency `clean-jsdoc-them` wrongly marked as dependency

Issue - State: closed - Opened by NicolasCARPi 12 months ago - 2 comments
Labels: bug

#723 - [BUG] Cannot install or upgrade to 2.0.4, using pnpm

Issue - State: closed - Opened by dflock about 1 year ago - 2 comments
Labels: bug

#722 - Fix SDF parsing to avoid overflow error

Pull Request - State: closed - Opened by dxdc about 1 year ago

#721 - [BUG] py3Dmol hover label in viewergrid mode

Issue - State: closed - Opened by cbouy about 1 year ago - 2 comments
Labels: bug

#720 - [Feat] - Updated Types - v2

Pull Request - State: open - Opened by adithyaakrishna about 1 year ago

#719 - [Feat] - Added More Types for Parsers and WebGL and GL Files

Pull Request - State: closed - Opened by adithyaakrishna about 1 year ago - 1 comment

#718 - [Feat] - Added More Types for Parsers and WebGL and GL Files

Pull Request - State: closed - Opened by adithyaakrishna about 1 year ago

GitHub / 3dmol/3Dmol.js issues and pull requests