Timeline



Dec 1, 2025:

9:55 PM Ticket #19463 (Crash in swap_buffers waking from sleep on Mac) created by chimerax-bug-report@…
[…]
7:50 PM Ticket #19462 (Find Cavities not disposing of deleted structures) created by chimerax-bug-report@…
[…]
7:12 PM PrivacyAndSecurity edited by Tom Goddard
(diff)
6:44 PM PrivacyAndSecurity created by Tom Goddard
5:41 PM WikiStart edited by Tom Goddard
(diff)
5:31 PM Ticket #19453 (MemoryError saving session) closed by Tom Goddard
fixed: I added an error message when saving a session file gets out of memory …
4:28 PM Ticket #19446 (alphafold contacts: atom KeyError) closed by Tom Goddard
can't reproduce: I tested a boltz 2 prediction of phosphorylated 9gi8 homodimer and …
4:14 PM Ticket #19458 (glClear: invalid framebuffer operation) closed by Tom Goddard
duplicate: glClear() error in status line on expose event. External Dell …
3:55 PM DeveloperMeetings edited by Tom Goddard
(diff)
3:54 PM Dev2025-12-1 edited by Tom Goddard
(diff)
3:00 PM Ticket #19461 (Crash deleting atoms/bonds) closed by Eric Pettersen
worksforme
3:00 PM Ticket #19461 (Crash deleting atoms/bonds) reopened by Eric Pettersen
3:00 PM Ticket #19461 (Crash deleting atoms/bonds) closed by Eric Pettersen
can't reproduce: The same structures/commands worked for me.
2:48 PM Ticket #19460 (H-Bonds: More than 2 coplanar positions specified) closed by Eric Pettersen
can't reproduce: Hi Shabir, We don't really have the capability to diagnose problems …
2:41 PM Ticket #19459 (Crash in event loop) closed by Eric Pettersen
can't reproduce
1:59 PM Ticket #19455 (MemoryError saving session including maps) closed by Tom Goddard
can't reproduce: It doesn't look like you have large maps or atomic models open in …
1:28 PM Ticket #19444 (Log blank) closed by Tom Goddard
nonchimerax: If you mean the Log panel of ChimeraX is blank, that indicates a …
1:24 PM Ticket #19442 (Crash in glBufferSubData changing volume level) closed by Tom Goddard
duplicate: Duplicate of #19441
1:23 PM Ticket #19441 (Crash in glBufferSubData changing volume level) closed by Tom Goddard
limitation: Mac M3 OpenGL graphics driver crash. Had 5 1024 x 1024 x 375 int8 …
12:03 PM Ticket #19457 (Crash deallocating UserError traceback stack) closed by Eric Pettersen
can't reproduce
12:00 PM Ticket #19456 (MemoryError saving session including maps) closed by Eric Pettersen
duplicate
11:53 AM Ticket #19451 (mshMIGPerform crash in NSAccessiblity native Mac APIs) closed by Eric Pettersen
duplicate
11:50 AM Ticket #19450 (Crash using open/save dialog) closed by Eric Pettersen
can't reproduce
11:43 AM Ticket #19449 (KVFinder on old MacOS) closed by Eric Pettersen
limitation
11:20 AM Ticket #19443 (Crash in connect_structure while opening mmCIF) closed by Eric Pettersen
can't reproduce: I don't see the problematic "open" command in the log. Possibly it's …
10:25 AM Ticket #19292 (Text entry area nearly invisible in dark mode) closed by Greg Couch
fixed: Fixed in the current release candidate and in the next daily build. …
10:01 AM Dev2025-12-1 edited by Greg Couch
(diff)
8:34 AM Ticket #19461 (Crash deleting atoms/bonds) created by chimerax-bug-report@…
[…]
7:28 AM Ticket #19460 (H-Bonds: More than 2 coplanar positions specified) created by shabir.najmudin@…
[…]
6:36 AM Ticket #19459 (Crash in event loop) created by chimerax-bug-report@…
[…]
3:15 AM Ticket #19458 (glClear: invalid framebuffer operation) created by chimerax-bug-report@…
[…]
2:24 AM Ticket #19457 (Crash deallocating UserError traceback stack) created by chimerax-bug-report@…
[…]

Nov 30, 2025:

8:05 PM Ticket #19456 (MemoryError saving session including maps) created by wangyue1@…
[…]
8:04 PM Ticket #19455 (MemoryError saving session including maps) created by wangyue1@…
[…]
7:25 AM Ticket #19454 (XMAS: find shortest: problem generating CSV/TSV file) created by Yokoyama@…
[…]
2:34 AM Ticket #19453 (MemoryError saving session) created by chimerax-bug-report@…
[…]
1:35 AM Ticket #19452 (mshMIGPerform crash in NSAccessiblity native Mac APIs) created by 1793794602@…
[…]
1:30 AM Ticket #19451 (mshMIGPerform crash in NSAccessiblity native Mac APIs) created by chimerax-bug-report@…
[…]

Nov 29, 2025:

7:34 AM Ticket #19450 (Crash using open/save dialog) created by chimerax-bug-report@…
[…]

Nov 28, 2025:

8:48 PM Ticket #19449 (KVFinder on old MacOS) created by chimerax-bug-report@…
[…]
5:36 PM Ticket #19448 (Supported coordinate set looping) created by Tony Schaefer
[…]
9:05 AM Ticket #19447 (Private SMILES fetching) created by Tristan Croll
[…] chimerax_openbabel-0.1-py3-none-any.whl​

Nov 27, 2025:

11:45 PM Ticket #19446 (alphafold contacts: atom KeyError) created by chimerax-bug-report@…
[…]
9:41 AM Ticket #19445 (Web service → ProtocolError) created by chimerax-bug-report@…
[…]
5:30 AM Ticket #19444 (Log blank) created by florear@…
[…]

Nov 26, 2025:

2:56 PM Ticket #19375 (Animations not calling interpolate_scene) closed by Eric Pettersen
fixed: Some over-aggressive optimizations you had in the scene manager's …
2:54 PM Ticket #19443 (Crash in connect_structure while opening mmCIF) created by chimerax-bug-report@…
[…]
12:18 PM Ticket #19442 (Crash in glBufferSubData changing volume level) created by chimerax-bug-report@…
[…]
12:13 PM Ticket #19441 (Crash in glBufferSubData changing volume level) created by chimerax-bug-report@…
[…]
11:51 AM Ticket #19440 ('invert' option of 'volume zone' requires 'newMap true') created by Eric Pettersen
I would like to invert the display on an existing map for the Phenix …
11:13 AM Ticket #19439 (Chain integrity in PDB format) closed by Eric Pettersen
fixed: Hi Krista, Thanks for reporting this problem. Please try the …
8:24 AM Ticket #19439 (Chain integrity in PDB format) created by kgf4@…
[…] J126_MA.cif​
3:21 AM Ticket #19438 (Render by Attr select histogram: cannot subtract numpy booleans) created by chimerax-bug-report@…
[…]

Nov 25, 2025:

6:33 PM Ticket #19407 (Crash on Mac waking from sleep in OpenGL swap_buffers on status line ...) closed by Tom Goddard
duplicate: Qt bug.
4:06 PM Ticket #19437 (Make it easier to open IHM files with .cif suffixes) closed by Tom Goddard
fixed: Made some improvements which should help a little in opening IHM data. …
3:52 PM Ticket #19437 (Make it easier to open IHM files with .cif suffixes) created by Tom Goddard
Brinda Vallat asks if ChimeraX can make it easier to open IHM files …
1:58 PM Ticket #19435 (Unable to install Boltz) closed by Tom Goddard
limitation: ChimeraX Boltz cannot be installed on Intel Mac. Unfortunately the …
1:28 PM Ticket #18009 (AllMetal3D: wrapped C/C++ object of type QLabel has been deleted) closed by Eric Pettersen
duplicate: Duplicate of #17193
1:28 PM Ticket #19434 (AllMetal3D: session save: 'AllMetal3D' object has no attribute 'line_edit') closed by Eric Pettersen
duplicate: Duplicate of #17193
1:24 PM Ticket #19433 (Crash in swap_buffers when status line exposed) closed by Tom Goddard
duplicate
1:24 PM Ticket #19432 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: The ChimeraX bug report panel said what we know about this crash: …
1:19 PM Ticket #19431 (Crash toggling from Rapid Access to 3D graphics) closed by Eric Pettersen
can't reproduce: Looks like the same change-GUI-from-a-thread crash
1:05 PM Ticket #19430 (Crash toggling from Rapid Access to 3D graphics) closed by Eric Pettersen
can't reproduce
12:35 PM Ticket #19436 (webcam: Access to camera not granted) closed by Tom Goddard
fixed: Fixed in ChimeraX 1.11 release candidate and daily build (Nov 25 or …
12:25 PM Ticket #19436 (webcam: Access to camera not granted) created by goddard@…
[…]
12:01 PM Ticket #19435 (Unable to install Boltz) created by aneel.aggarwal@…
[…]
10:55 AM Dev2025-12-1 edited by Tom Goddard
(diff)
10:55 AM Ticket #19434 (AllMetal3D: session save: 'AllMetal3D' object has no attribute 'line_edit') created by chimerax-bug-report@…
[…]
10:54 AM Dev2025-12-1 created by Tom Goddard
10:53 AM 2025-12-4 created by Tom Goddard
10:52 AM DeveloperMeetings edited by Tom Goddard
(diff)
2:40 AM Ticket #19433 (Crash in swap_buffers when status line exposed) created by chimerax-bug-report@…
[…]
12:46 AM Ticket #19432 (Crash on Mac waking from sleep) created by j.mocking@…
[…]

Nov 24, 2025:

9:12 PM Ticket #19431 (Crash toggling from Rapid Access to 3D graphics) created by chimerax-bug-report@…
[…]
8:48 PM Ticket #19430 (Crash toggling from Rapid Access to 3D graphics) created by chimerax-bug-report@…
[…]
7:47 PM Ticket #19423 (Black screen after loading session file) closed by Tom Goddard
can't reproduce: Ok, not sure what "close some tabs" means.
5:17 PM Ticket #19428 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: The ChimeraX bug report panel said what we know about this crash: …
5:02 PM Ticket #19429 (Local Modeller unnecessarily asking for license key) created by vinipant78@…
per summary
4:58 PM Ticket #19428 (Crash on Mac waking from sleep) created by zrizvi@…
[…]
4:57 PM Ticket #19427 (Crash computing secondary structure) created by 21122748r@…
[…]
4:40 PM Ticket #19415 (ui tool show: name 'commas' is not defined) closed by Eric Pettersen
fixed: Fix will be in tomorrow's daily build and release candidate
4:10 PM Ticket #19425 (Testing anonymous bug reporting with ChimeraX 1.11 release candidate) closed by Tom Goddard
worksforme
4:09 PM Ticket #19426 (Testing anonymous bug report from ChimeraX 1.12) closed by Tom Goddard
worksforme
4:03 PM Ticket #19426 (Testing anonymous bug report from ChimeraX 1.12) created by chimerax-bug-report@…
[…]
4:02 PM Ticket #19425 (Testing anonymous bug reporting with ChimeraX 1.11 release candidate) created by chimerax-bug-report@…
[…]
3:59 PM Ticket #19424 (Test of bug reporter in ChimeraX 1.11 release candidate) closed by Tom Goddard
fixed: Bug report worked with email address filled in. I did not try with no …
3:54 PM Dev2025-11-24 edited by Tom Goddard
(diff)
3:53 PM Dev2025-11-24 edited by Tom Goddard
(diff)
3:12 PM Ticket #19424 (Test of bug reporter in ChimeraX 1.11 release candidate) created by goddard@…
[…]
3:08 PM Ticket #19423 (Black screen after loading session file) created by mpatterson@…
[…]
2:12 PM Ticket #19421 (Crash in event loop) closed by Eric Pettersen
can't reproduce
2:10 PM Ticket #19420 (Crash garbage collecting file dialog) closed by Eric Pettersen
can't reproduce: Probably the save dialog with the "image" format
2:05 PM Ticket #19419 (alignment widget not properly destroying when tool closed) closed by Eric Pettersen
duplicate: Duplicate of #18702
11:59 AM Ticket #19418 (Cannot save session) closed by Eric Pettersen
not a bug: Hi Carolyn, ChimeraX session files end with a ".cxs" file suffix. So …
11:56 AM Ticket #19416 (Expose status bar: glClear: invalid framebuffer operation, macOS 26, ...) closed by Tom Goddard
duplicate: The usual glClear error with macOS 26, using an external Asus display …
11:55 AM Ticket #19417 (Segmentations: chimerax misspelled in import statement) closed by Eric Pettersen
duplicate
11:51 AM Ticket #19402 (ArrayMemoryError saving large image) closed by Tom Goddard
limitation: Out of memory trying to save an absurdly large image 6000 by 5414. …
11:45 AM Ticket #19401 (Expose status bar: glClear: invalid framebuffer operation) closed by Tom Goddard
duplicate: This error is a bug in the Qt window toolkit on Mac that ChimeraX uses …
11:36 AM Ticket #19412 (ChopChopMF should not declare non-existent ChopChopMF tool in its ...) closed by Eric Pettersen
duplicate: Duplicate of #19363
11:35 AM Ticket #19411 (ChopChopMF should not declare non-existent ChopChopMF tool in its ...) closed by Eric Pettersen
duplicate: Duplicate of #19363
11:30 AM Ticket #19406 (Crash in event loop) closed by Eric Pettersen
can't reproduce
11:28 AM Ticket #19405 (Crash using open/save dialog) closed by Eric Pettersen
can't reproduce
11:27 AM Ticket #19404 (Crash in event loop) closed by Eric Pettersen
can't reproduce
10:01 AM ChangeLog edited by Elaine Meng
(diff)
9:28 AM Ticket #19422 (The server encountered an internal error or misconfiguration) created by hakim.ahmed@…
[…]
2:55 AM Ticket #19421 (Crash in event loop) created by chimerax-bug-report@…
[…]
1:53 AM Ticket #19420 (Crash garbage collecting file dialog) created by chimerax-bug-report@…
[…]
12:30 AM Ticket #19419 (alignment widget not properly destroying when tool closed) created by chimerax-bug-report@…
[…]

Nov 23, 2025:

8:46 AM Ticket #19418 (Cannot save session) created by 2410928@…
[…]

Nov 22, 2025:

11:26 AM Ticket #19408 (Mac Intel build error making dmg, hdiutil cannot detach image) closed by Zach Pearson
fixed: I increased the number of detach retries (from whatever the default …
6:34 AM Ticket #19417 (Segmentations: chimerax misspelled in import statement) created by chimerax-bug-report@…
[…]
6:10 AM Ticket #19416 (Expose status bar: glClear: invalid framebuffer operation, macOS 26, ...) created by chimerax-bug-report@…
[…]
2:06 AM Ticket #19415 (ui tool show: name 'commas' is not defined) created by sevan.stroh@…
[…]

Nov 21, 2025:

12:16 PM Ticket #19414 (Clipper: MTZ: Cannot determine the correct value for the free ...) created by chimerax-bug-report@…
[…]
11:51 AM Ticket #19413 (Clipper: open MTZ: multiple experimental reflection datasets found) created by chimerax-bug-report@…
[…]
11:51 AM Ticket #19412 (ChopChopMF should not declare non-existent ChopChopMF tool in its ...) created by chimerax-bug-report@…
[…]
11:48 AM Ticket #19411 (ChopChopMF should not declare non-existent ChopChopMF tool in its ...) created by chimerax-bug-report@…
[…]
11:44 AM Ticket #19410 (Make a ChimeraX help chatbot using Google NotebookLM) created by Tom Goddard
In August 2025 Matthias Vorlander made a ChimeraX AI chatbot that …
11:24 AM Ticket #19409 (Document the --cmd option) created by Tom Goddard
The --cmd option when starting up ChimeraX does not appear in our …
11:19 AM Ticket #19408 (Mac Intel build error making dmg, hdiutil cannot detach image) created by Tom Goddard
The Intel Mac build failed in making a DMG with the following error. …
5:22 AM Ticket #19407 (Crash on Mac waking from sleep in OpenGL swap_buffers on status line ...) created by chimerax-bug-report@…
[…]
12:35 AM Ticket #19406 (Crash in event loop) created by chimerax-bug-report@…
[…]
12:32 AM Ticket #19405 (Crash using open/save dialog) created by chimerax-bug-report@…
[…]

Nov 20, 2025:

11:20 PM Ticket #19404 (Crash in event loop) created by chimerax-bug-report@…
[…]
9:18 PM Ticket #18237 (Show white-on-black SVGs for segmentations controls when in dark mode) closed by Zach Pearson
fixed: Fixed as of 0e7156f5a8dd2812b31164b7201138cba0f2824f
6:51 PM Dev2025-11-17 edited by Tom Goddard
(diff)
6:41 PM 2025-11-20 edited by Tom Goddard
(diff)
6:29 PM Ticket #19403 (Add structure coloring controls to mutation scores scatter plot) created by Tom Goddard
Willow suggested adding controls to the mutation scores scatter plot …
2:12 PM Ticket #19402 (ArrayMemoryError saving large image) created by chimerax-bug-report@…
[…]
1:53 PM Ticket #19397 (surface dust: ArrayMemoryError) closed by Tom Goddard
nonchimerax: User opened a 0.5 GB map on a Windows 11 machine with 8 GB, showed …
12:34 PM Ticket #19401 (Expose status bar: glClear: invalid framebuffer operation) created by dbrogan@…
[…]
12:19 PM Ticket #19400 (Have Render By Attribute externally controllable) created by Tom Goddard
Allow other code to bring up Render By Attribute showing desired …
10:47 AM Ticket #19399 (KVFinder on old MacOS) closed by Eric Pettersen
duplicate: Hi Chris, Unfortunately, the underlying pyKVFinder program that …
9:02 AM Ticket #19398 (Molecular Dynamics Viewer: list index out of range) closed by Eric Pettersen
limitation
8:58 AM Ticket #19396 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') closed by Eric Pettersen
duplicate
4:55 AM Ticket #19399 (KVFinder on old MacOS) created by cjh32@…
[…]

Nov 19, 2025:

10:09 PM Ticket #19398 (Molecular Dynamics Viewer: list index out of range) created by chimerax-bug-report@…
[…]
8:25 PM Ticket #19397 (surface dust: ArrayMemoryError) created by chimerax-bug-report@…
[…]
2:17 PM phenix-11-20-25 edited by Eric Pettersen
(diff)
2:11 PM phenix-11-20-25 edited by Eric Pettersen
(diff)
2:03 PM phenix-11-20-25 created by Eric Pettersen
1:28 PM Ticket #19396 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') created by chimerax-bug-report@…
[…]
1:23 PM Features edited by Eric Pettersen
(diff)
11:32 AM Ticket #19395 (PICKLUSTER treating PseudobondGroups as Structures) closed by Eric Pettersen
duplicate: Duplicate of #14628
11:22 AM Ticket #19393 (Crash in NSAccessibility routine) closed by Tom Goddard
can't reproduce: Probable Mac Qt bug in NSAccessibility code, crashed in …
11:20 AM Ticket #19390 (QDxgiVSyncService not destroyed in time) closed by Tom Goddard
can't reproduce: Qt or graphics problem.
11:17 AM Ticket #19387 (Crash creating QWebEngineProfile) closed by Tom Goddard
duplicate: Long standing Qt bug.
10:14 AM Ticket #19394 (ffmpeg: Permission denied) closed by Eric Pettersen
duplicate: Hi Milos, Thanks for reporting this problem. It is fixed in the …
10:08 AM Ticket #19392 (mshMIGPerform crash in NSAccessiblity native Mac APIs) closed by Eric Pettersen
duplicate
10:07 AM Ticket #19391 (mshMIGPerform crash in NSAccessiblity native Mac APIs) closed by Eric Pettersen
duplicate
10:01 AM Ticket #19389 (mshMIGPerform crash in NSAccessiblity native Mac APIs) closed by Eric Pettersen
duplicate
6:05 AM Ticket #19395 (PICKLUSTER treating PseudobondGroups as Structures) created by chimerax-bug-report@…
[…]
6:01 AM Ticket #19394 (ffmpeg: Permission denied) created by milos.cvetkovic@…
[…]
3:30 AM Ticket #19393 (Crash in NSAccessibility routine) created by chimerax-bug-report@…
[…]
1:26 AM Ticket #19392 (mshMIGPerform crash in NSAccessiblity native Mac APIs) created by chimerax-bug-report@…
[…]
1:18 AM Ticket #19391 (mshMIGPerform crash in NSAccessiblity native Mac APIs) created by chimerax-bug-report@…
[…]
1:03 AM Ticket #19390 (QDxgiVSyncService not destroyed in time) created by chimerax-bug-report@…
[…]
12:50 AM Ticket #19389 (mshMIGPerform crash in NSAccessiblity native Mac APIs) created by chimerax-bug-report@…
[…]
12:15 AM Ticket #19388 ('Segmentation' object has no attribute 'data') created by chimerax-bug-report@…
[…]

Nov 18, 2025:

8:15 PM Ticket #19387 (Crash creating QWebEngineProfile) created by chimerax-bug-report@…
[…]
5:56 PM Ticket #19247 (Scenes Add button refuses to add because name matches an existing scene) closed by Eric Pettersen
fixed: Available in next build
3:48 PM Ticket #19386 (Boltz batch ligand run gives error in nogui mode) closed by Tom Goddard
fixed: Fixed. Don't show ligand table if there is no gui. Unfortunately the …
3:29 PM Ticket #19386 (Boltz batch ligand run gives error in nogui mode) created by goddard@…
[…]
12:38 PM Ticket #19385 (Improving AI use of documentation with HTML semantic tags) created by Greg Couch
The documentation could be enhanced to make it easier for AI agents …
10:01 AM Dev2025-11-24 created by Tom Goddard
10:00 AM 2025-11-20 edited by Tom Goddard
(diff)
10:00 AM 2025-11-20 created by Tom Goddard
10:00 AM DeveloperMeetings edited by Tom Goddard
(diff)
9:49 AM Ticket #19384 (glClear: invalid framebuffer operation on statusbar expose) closed by Tom Goddard
duplicate: Three external displays (Dell) connected. OpenGL error in expose …
9:46 AM Ticket #19383 (Crash changing window focus in Mac NSAccessiblity) closed by Tom Goddard
can't reproduce: Crash in a QTreeWidget, and apparently in init_type_QFontComboBox. …
9:12 AM Ticket #19382 (Crash on Mac waking from sleep in OpenGL swap_buffers) closed by Eric Pettersen
duplicate
8:10 AM Ticket #19384 (glClear: invalid framebuffer operation on statusbar expose) created by chimerax-bug-report@…
[…]
4:26 AM Ticket #19383 (Crash changing window focus in Mac NSAccessiblity) created by chimerax-bug-report@…
[…]

Nov 17, 2025:

10:50 PM Ticket #19382 (Crash on Mac waking from sleep in OpenGL swap_buffers) created by chimerax-bug-report@…
[…]
2:30 PM Ticket #19184 (Find Cavities problem with insertion codes) closed by Eric Pettersen
can't reproduce: The contacting residue info returned by pyKVFinder.grid.constitutional …
11:57 AM Ticket #19378 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: The ChimeraX bug report panel said what we know about this crash: …
11:45 AM Ticket #19381 (ffmpeg: Permission Denied) closed by Eric Pettersen
duplicate: Hi Fiona, Thanks for reporting this problem. It is fixed in the …
11:41 AM Ticket #19380 (Crash on Mac waking from sleep in OpenGL swap_buffers on status line ...) closed by Eric Pettersen
duplicate
11:39 AM Ticket #19379 (Crash in Qt destructor during traceback release) closed by Eric Pettersen
can't reproduce
11:33 AM Ticket #19377 (Thanks for your help) closed by Eric Pettersen
not a bug: Hi Jeffrey, you're welcome! Another release coming out soon. :-)
11:31 AM Ticket #19376 (Crash deleting atoms after custom script) closed by Eric Pettersen
fixed: Hi Zeng, Thanks for reporting this problem. Please try the daily …
11:21 AM Ticket #19374 (Crash using open/save dialog) closed by Eric Pettersen
can't reproduce
11:21 AM Ticket #19381 (ffmpeg: Permission Denied) created by foyatsi@…
[…]
10:27 AM Ticket #19380 (Crash on Mac waking from sleep in OpenGL swap_buffers on status line ...) created by chimerax-bug-report@…
[…]
2:02 AM Ticket #19379 (Crash in Qt destructor during traceback release) created by chimerax-bug-report@…
[…]

Nov 16, 2025:

2:48 PM Ticket #19378 (Crash on Mac waking from sleep) created by yaohe@…
[…]
1:55 PM Ticket #19377 (Thanks for your help) created by openstomata@…
[…]
8:10 AM Ticket #19376 (Crash deleting atoms after custom script) created by zengjingwei1199@…
[…]
7:42 AM Ticket #19375 (Animations not calling interpolate_scene) created by Eric Pettersen
In the current daily build, the Animations tool is not calling …
6:06 AM Ticket #19374 (Crash using open/save dialog) created by chimerax-bug-report@…
[…]
3:13 AM Ticket #19373 (Out of memory converting Gromacs list of numpy coords to 2D numpy array) created by chimerax-bug-report@…
[…]

Nov 15, 2025:

9:11 AM Ticket #19372 ('DicomGrid' object has no attribute 'reference_data') created by calvingunther@…
[…]

Nov 14, 2025:

1:52 PM Ticket #17469 (Offer to stop long-running tasks) closed by Eric Pettersen
fixed: Now after 30 seconds, realignment jobs will bring up a dialog offering …
1:46 PM Ticket #19370 (Structure scene interpolation: KeyError: 'structure') closed by Eric Pettersen
fixed: Old scenes could be missing data that the interpolation code relied …
12:18 PM Ticket #19371 (Crash while docking tool) closed by Tom Goddard
duplicate: Crashed in QDockWidget::event(). This is probably the same crash I …
12:11 PM Ticket #19368 (Crash in garbage collection while PIL is saving image from save dialog) closed by Tom Goddard
can't reproduce: Seems the Python garbage collector tried to delete the Qt file dialog …
9:43 AM Ticket #19369 (Some kind of OpenGL or CUDA crash) closed by Eric Pettersen
can't reproduce
9:40 AM Ticket #19371 (Crash while docking tool) created by Elaine Meng
[…]
9:37 AM Ticket #19370 (Structure scene interpolation: KeyError: 'structure') created by Elaine Meng
[…] scenes2.cxs​
5:27 AM Ticket #19369 (Some kind of OpenGL or CUDA crash) created by chimerax-bug-report@…
[…]

Nov 13, 2025:

10:23 PM Ticket #19368 (Crash in garbage collection while PIL is saving image from save dialog) created by chimerax-bug-report@…
[…]
5:59 PM Ticket #19086 (Problem mapping features onto UniProt entry) closed by Eric Pettersen
fixed: Some features may have no blocks where both ends are known. Fix: …
4:02 PM Ticket #18994 (Alignment observer not in list) closed by Eric Pettersen
can't reproduce: Scripted the above commands, but bupkis.
3:58 PM Ticket #19367 (Replace RCSB ligand-expo URL which is being retired.) created by Tom Goddard
The Ligand Expo RCSB site is being retired and the following URL will …
3:49 PM Ticket #19366 (Out of memory saving huge image) closed by Tom Goddard
limitation: Trying to make a large image 10000 x 7000 using Intel graphics which …
3:46 PM Ticket #19365 (Spin movie: permission denied) closed by Tom Goddard
nonchimerax: Failed to launch ffmpeg process with PermissionError. Online reports …
3:39 PM 2025-11-13 edited by Tom Goddard
(diff)
3:33 PM Ticket #19254 (Missing bonds) closed by Eric Pettersen
not a bug: Hi, With no explicit bonding information provided (i.e. CONECT/LINK …
1:22 PM Ticket #19331 (Truncated session file) closed by Eric Pettersen
not a bug: The session reader could conceivably issue a more user-friendly error …
1:17 PM Ticket #19130 (Modeller: 'charmap' codec can't encode character) closed by Eric Pettersen
can't reproduce: Can't reproduce on my Mac or on a Windows machine. I do get a …
1:15 PM Ticket #19366 (Out of memory saving huge image) created by chimerax-bug-report@…
[…]
1:15 PM Ticket #19365 (Spin movie: permission denied) created by chimerax-bug-report@…
[…]
1:15 PM Ticket #19364 (ChimeraX tools not starting and other problems) created by chrisz@…
[…]
1:15 PM Ticket #19363 (ChopChopMF should not declare non-existent ChopChopMF tool in its ...) created by gkaur1@…
[…]

Nov 12, 2025:

10:42 AM Ticket #19331 (Truncated session file) created by chimerax-bug-report@…
[…]
10:34 AM Ticket #19326 (3D graphics white/blank) closed by Tom Goddard
nonchimerax: This is caused by a broken graphics driver. I see you are using a …
10:30 AM Ticket #19323 (Mutation Scores not handling InvalidAccessionError) closed by Tom Goddard
fixed: Fixed. Improved error checking for uniprot id argument when fetching …
9:26 AM Ticket #19329 (Multiple consecutive Find Cavities: dead models) closed by Eric Pettersen
can't reproduce: Possibly fixed by changes on 10/15/25 to immediately hide launcher window.
9:25 AM Ticket #19328 (Multiple consecutive Find Cavities: dead models) closed by Eric Pettersen
can't reproduce: Possibly fixed by changes on 10/15/25 to immediately hide launcher window.
9:24 AM Ticket #19327 (Multiple consecutive Find Cavities: dead models) closed by Eric Pettersen
can't reproduce: Possibly fixed by changes on 10/15/25 to immediately hide launcher window.
9:19 AM Ticket #19325 (Crash in swap_buffers on Mac waking from sleep) closed by Eric Pettersen
duplicate
9:17 AM Ticket #19324 (ffmpeg: Permission denied) closed by Eric Pettersen
duplicate: Hi Jeffrey, Thanks for reporting this problem. It is fixed in the …
8:21 AM Ticket #19330 (glTexImage3D: out of memory after "artiax view xy") created by huirene@…
[…]

Nov 11, 2025:

2:43 PM Ticket #19329 (Multiple consecutive Find Cavities: dead models) created by chimerax-bug-report@…
[…]
2:43 PM Ticket #19328 (Multiple consecutive Find Cavities: dead models) created by chimerax-bug-report@…
[…]
2:42 PM Ticket #19327 (Multiple consecutive Find Cavities: dead models) created by chimerax-bug-report@…
[…]
11:26 AM Dev2025-11-17 created by Tom Goddard
11:25 AM 2025-11-13 created by Tom Goddard
11:25 AM DeveloperMeetings edited by Tom Goddard
(diff)
9:53 AM Ticket #19326 (3D graphics white/blank) created by Adrian.young@…
[…]
9:08 AM Ticket #19325 (Crash in swap_buffers on Mac waking from sleep) created by chimerax-bug-report@…
[…]
3:32 AM Ticket #19324 (ffmpeg: Permission denied) created by openstomata@…
[…]

Nov 10, 2025:

5:39 PM Ticket #18879 (Scenes tool: using Delete leaves name filled in and Update button) closed by Eric Pettersen
fixed
5:26 PM Ticket #18878 (Somehow model.overall_color is being saved/restored) closed by Eric Pettersen
can't reproduce: Thanks for the session, but try as I might I cannot reproduce this. …
4:45 PM Ticket #18875 (Scenes involving deleted atoms needs better error handling) closed by Eric Pettersen
fixed
4:45 PM Ticket #18875 (Scenes involving deleted atoms needs better error handling) reopened by Eric Pettersen
4:45 PM Ticket #18875 (Scenes involving deleted atoms needs better error handling) closed by Eric Pettersen
wontfix: If atoms have been deleted, now a warning is issued about deleting …
3:37 PM DeveloperMeetings edited by Tom Goddard
(diff)
3:37 PM Dev2025-11-9 edited by Tom Goddard
(diff)
3:34 PM Dev2025-11-9 edited by Tom Goddard
(diff)
2:11 PM Ticket #19323 (Mutation Scores not handling InvalidAccessionError) created by chimerax-bug-report@…
[…]
12:02 PM Ticket #19320 (Save MRC: could not broadcast input array) closed by Tom Goddard
duplicate: This was fixed a month or two ago in the ChimeraX daily builds. This …
12:00 PM Ticket #19321 (glClear: invalid framebuffer operation) closed by Tom Goddard
duplicate: This ChimeraX OpenGL error I believe happens on Mac when the computer …
11:53 AM Ticket #19319 (AlphaFold JSON drag and drop: pae_path is None) closed by Tom Goddard
fixed: Fixed. User opened AlphaFold 3 structure then split it by chain then …
11:39 AM Ticket #19317 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: The ChimeraX bug report panel explained what we know about this crash: …
10:26 AM Ticket #19318 (Coulombic: residue already deleted) closed by Eric Pettersen
can't reproduce: Would need the input file
9:11 AM Ticket #19322 (SEQCROW XYZ reader returning None) created by chimerax-bug-report@…
[…]
5:04 AM Ticket #19321 (glClear: invalid framebuffer operation) created by dbrogan@…
[…]

Nov 9, 2025:

8:51 PM Ticket #19320 (Save MRC: could not broadcast input array) created by zeyu.chen@…
[…]
6:49 PM Ticket #19319 (AlphaFold JSON drag and drop: pae_path is None) created by chimerax-bug-report@…
[…]

Nov 8, 2025:

7:13 PM Ticket #19318 (Coulombic: residue already deleted) created by chimerax-bug-report@…
[…]
3:27 PM Ticket #19317 (Crash on Mac waking from sleep) created by ellen_goodall@…
[…]

Nov 7, 2025:

1:10 PM Ticket #19316 (ffmpeg: Permission denied) closed by Eric Pettersen
duplicate: Hi, Thanks for reporting this problem. It is fixed in the 1.10.1 …
11:17 AM Ticket #19314 (Crash moving window between screens) closed by Tom Goddard
duplicate: The ChimeraX bug report panel said what we know about this crash: …
11:12 AM Ticket #19311 (glClear: invalid framebuffer operation) closed by Tom Goddard
duplicate
10:42 AM Ticket #19316 (ffmpeg: Permission denied) created by oswanson@…
[…]
10:40 AM Ticket #19315 (Animation GUI example animations) created by Tom Goddard
Here are example animations that we hope the Animation GUI will be …
10:03 AM Ticket #19313 (kvfinder: self._positions is None) closed by Eric Pettersen
duplicate: Duplicate of #18297
10:02 AM Ticket #19312 (kvfinder: self._positions is None) closed by Eric Pettersen
duplicate: Duplicate of #18297
9:51 AM Ticket #19310 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') closed by Eric Pettersen
duplicate
9:50 AM Ticket #19309 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') closed by Eric Pettersen
duplicate
9:48 AM Ticket #19308 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') closed by Eric Pettersen
duplicate
9:40 AM Ticket #19314 (Crash moving window between screens) created by banco.miket@…
[…]
6:45 AM Ticket #19313 (kvfinder: self._positions is None) created by chimerax-bug-report@…
[…]
6:45 AM Ticket #19312 (kvfinder: self._positions is None) created by chimerax-bug-report@…
[…]
12:26 AM Ticket #19311 (glClear: invalid framebuffer operation) created by chimerax-bug-report@…
[…]

Nov 6, 2025:

8:39 PM Ticket #19310 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') created by chimerax-bug-report@…
[…]
8:38 PM Ticket #19309 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') created by chimerax-bug-report@…
[…]
8:37 PM Ticket #19308 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') created by chimerax-bug-report@…
[…]
5:48 PM Ticket #19203 (REST server attempting to encode Atom into response) closed by Eric Pettersen
fixed: The JSON was handling the direct return of atomic items, but not if …
4:25 PM 2025-11-6 edited by Tom Goddard
(diff)
4:24 PM 2025-11-6 edited by Tom Goddard
(diff)
4:21 PM DeveloperMeetings edited by Tom Goddard
(diff)
3:54 PM Ticket #19304 (glClear: invalid framebuffer operation) closed by Tom Goddard
duplicate: 5th duplicate of same glClear error from same reporter #19289. Mac …
3:54 PM Ticket #19306 (ffmpeg: Permission Denied) closed by Eric Pettersen
duplicate: Hi Swastik, Thanks for reporting this problem. It is fixed in the …
3:51 PM Ticket #19305 (Crash on Mac waking from sleep) closed by Eric Pettersen
duplicate
3:45 PM Ticket #19307 (Scene needs) created by Elaine Meng
9/25/25 as you said (this is mainly a note to self), cannot delete …
3:45 PM Ticket #19300 (Crash in swap_buffers) closed by Tom Goddard
duplicate: Crash in QOpenGLContext::swapBuffers() after waking from sleep and …
3:41 PM Ticket #19299 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: The ChimeraX bug report panel said what we know about this crash: …
3:39 PM Ticket #19298 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: The ChimeraX bug report panel said what we know about this crash: …
2:42 PM Ticket #19303 (Crash due to second screen: Cannot change screens) closed by Eric Pettersen
can't reproduce
2:39 PM Ticket #19302 (sequence align: 'StructureSeq' object has no attribute 'atomspec') closed by Eric Pettersen
fixed: Fixed the "sequence align" problem, which might also fix the follow-on …
1:54 PM Ticket #19301 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') closed by Eric Pettersen
duplicate
12:20 PM Ticket #19306 (ffmpeg: Permission Denied) created by sphulera@…
[…]
11:34 AM Ticket #19305 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
6:01 AM Ticket #19304 (glClear: invalid framebuffer operation) created by chimerax-bug-report@…
[…]
4:52 AM Ticket #19303 (Crash due to second screen: Cannot change screens) created by chimerax-bug-report@…
[…]
1:34 AM Ticket #19302 (sequence align: 'StructureSeq' object has no attribute 'atomspec') created by drorn@…
[…] log_06_11_25.html​ …
1:02 AM Ticket #19301 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') created by chimerax-bug-report@…
[…]

Nov 5, 2025:

11:39 PM windows-signing edited by Greg Couch
(diff)
11:31 PM Ticket #19300 (Crash in swap_buffers) created by chimerax-bug-report@…
[…]
6:09 PM Ticket #19299 (Crash on Mac waking from sleep) created by oswanson@…
[…]
5:39 PM Ticket #18886 (Associated structure with profile grid sequence is slow) closed by Eric Pettersen
limitation: Well, this is not particularly simple. The association algorithm …
4:20 PM WikiStart edited by Eric Pettersen
(diff)
3:04 PM Ticket #4168 (Show alternate locations simultaneously) closed by Eric Pettersen
fixed: In addition to the previously available "altlocs show" command, the …
12:26 PM Ticket #19298 (Crash on Mac waking from sleep) created by hrishikesh.das@…
[…]
11:30 AM Ticket #19297 (glClear: invalid framebuffer operation) closed by Tom Goddard
duplicate: Same reporter, same bug, #19289. Have seen this before involving usbc …
11:28 AM Ticket #19296 (glClear: invalid framebuffer operation) closed by Tom Goddard
duplicate: Same reporter, same bug, #19289. Have seen this before involving usbc …
11:27 AM Ticket #19291 (glClear: invalid framebuffer operation) closed by Tom Goddard
duplicate: Same reporter, same bug, #19289. Have seen this before involving usbc …
10:30 AM Ticket #19293 (Sequence viewer: lambda needs *args) closed by Eric Pettersen
fixed
9:35 AM Ticket #19297 (glClear: invalid framebuffer operation) created by chimerax-bug-report@…
[…]
6:02 AM Ticket #19296 (glClear: invalid framebuffer operation) created by chimerax-bug-report@…
[…]
2:18 AM Ticket #19295 (Find Cavities suggestions) created by Tristan Croll
[…]

Nov 4, 2025:

7:09 PM Ticket #19294 (Mutation score scatterplot mouse position wrong.) closed by Tom Goddard
fixed: Fixed. Updated ChimeraX to use matplotlib 3.10.7 instead of 3.10.5 …
7:03 PM Ticket #19294 (Mutation score scatterplot mouse position wrong.) created by goddard@…
[…]
4:35 PM Ticket #19255 (Adding charges to atoms) closed by Greg Couch
fixed: Confirmed that current x86_64 daily build flatpak works.
3:57 PM Ticket #19293 (Sequence viewer: lambda needs *args) created by chimerax-bug-report@…
[…]
2:35 PM Ticket #19292 (Text entry area nearly invisible in dark mode) created by morri361@…
[…] Screenshot from 2025-11-04 17-33-20.png​
12:05 PM Ticket #19291 (glClear: invalid framebuffer operation) created by chimerax-bug-report@…
[…]
11:00 AM Ticket #19289 (glClear: invalid framebuffer operation) closed by Tom Goddard
duplicate: This OpenGL error on Mac in glClear on expose of status line was …
10:41 AM Dev2025-11-9 created by Tom Goddard
10:40 AM 2025-11-6 created by Tom Goddard
10:39 AM 2025-10-30 edited by Tom Goddard
(diff)
10:38 AM DeveloperMeetings edited by Tom Goddard
(diff)
9:37 AM Ticket #19290 (SEQCROW: reading ORCA output: index 0 is out of bounds for axis 0 with ...) created by chimerax-bug-report@…
[…]
9:15 AM Ticket #19288 (Crash in event loop) closed by Eric Pettersen
can't reproduce
9:14 AM Ticket #19287 (mshMIGPerform crash in NSAccessiblity native Mac APIs) closed by Eric Pettersen
duplicate
9:06 AM Ticket #19285 (Not a PDB file) closed by Eric Pettersen
not a bug
9:03 AM Ticket #19284 (Crash on Mac waking from sleep) closed by Eric Pettersen
duplicate
8:50 AM Ticket #19282 (save pdb doesn't preserve segid) closed by Eric Pettersen
duplicate: Hi, Yes, ChimeraX currently does not preserve the segment ID. I am …
8:05 AM Ticket #19289 (glClear: invalid framebuffer operation) created by chimerax-bug-report@…
[…]
4:33 AM Ticket #19288 (Crash in event loop) created by chimerax-bug-report@…
[…]
12:42 AM Ticket #19287 (mshMIGPerform crash in NSAccessiblity native Mac APIs) created by chimerax-bug-report@…
[…]
12:21 AM Ticket #19286 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') created by chimerax-bug-report@…
[…]

Nov 3, 2025:

7:51 PM Ticket #19285 (Not a PDB file) created by chimerax-bug-report@…
[…]
7:07 PM Ticket #19284 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
6:20 PM Ticket #19283 (MemoryError processing surface) created by chimerax-bug-report@…
[…]
3:47 PM Dev2025-11-3 edited by Tom Goddard
(diff)
3:08 PM Dev2025-11-3 edited by Tom Goddard
(diff)
1:42 PM Ticket #19282 (save pdb doesn't preserve segid) created by yoyoq@…
[…]
12:43 PM Ticket #19281 (Crash during Boltz output) closed by Tom Goddard
can't reproduce: I suspect this crash was a graphics driver problem. The last messages …
12:39 PM Ticket #19280 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: The ChimeraX bug report panel said what we know about this crash: …
10:41 AM Ticket #19279 (Vina output in ViewDock: KeyError: 'RMSD l.b.') closed by Eric Pettersen
duplicate: Duplicate of #18804
10:38 AM Ticket #19278 (Combine into existing model) closed by Eric Pettersen
not a bug: This no longer raises a traceback.
10:21 AM Ticket #19275 (Orthoplanes: 'NoneType' object has no attribute 'image_colors') closed by Eric Pettersen
duplicate