Timeline



Jan 16, 2025:

9:23 PM Ticket #16638 (Crash on exit [NSTouch dealloc]) created by tavaresa@…
[…]
5:07 PM Ticket #16633 (Runtime error installing CollabFold) closed by Tom Goddard
fixed: Fixed. Does not require updating ChimeraX. Google Colab script was …
4:56 PM Ticket #16334 (DICOM: index is out of bounds) closed by Zach Pearson
duplicate: Use the daily build
4:12 PM Ticket #16637 (Session restore: HDF5: file signature not found) closed by Tom Goddard
can't reproduce: Online posts say this HDF "file signature not found" error means …
3:57 PM Ticket #16634 (Graphics crash, macOS 14.3, Intel UHD Graphics 617) closed by Tom Goddard
nonchimerax: Apple Intel graphics driver crash.
3:56 PM Ticket #16636 (Find Cavities crash) closed by pett
duplicate: Duplicate of #16461
3:53 PM Ticket #16635 (Crash in chem_group) closed by pett
can't reproduce
3:52 PM Ticket #16630 (Graphics crash, macOS 14.7.2, NVIDIA GeForce GT 640M) closed by Tom Goddard
nonchimerax: The traceback shows no calls to the graphics driver in progress, but …
3:48 PM Ticket #16629 (FoldSeek: Permission denied writing temp file) closed by Tom Goddard
duplicate: This is fixed in the current ChimeraX daily build. Unfortunately …
3:39 PM Ticket #16632 (All hydrogen names for ATP N6) closed by pett
not a bug: In the user's structure, ATP N6 must be being typed as something other …
3:26 PM Ticket #16631 (Safesave: file missing) closed by pett
fixed: Now also embed process start time.
2:32 PM Ticket #16628 (Duplicate bond in SDF file) closed by pett
fixed
2:05 PM NIAID2024 edited by Elaine Meng
(diff)
1:47 PM NIAID2024 edited by Elaine Meng
(diff)
11:58 AM Ticket #16572 (Bug when QTWebengine is not built ChimeraX 1.6.1 and 1.7) closed by Greg Couch
limitation
10:07 AM Ticket #16637 (Session restore: HDF5: file signature not found) created by chimerax-bug-report@…
[…]
9:36 AM Ticket #16636 (Find Cavities crash) created by chimerax-bug-report@…
[…]
8:22 AM Ticket #16635 (Crash in chem_group) created by chimerax-bug-report@…
[…]
7:54 AM Ticket #16634 (Graphics crash, macOS 14.3, Intel UHD Graphics 617) created by chimerax-bug-report@…
[…]
7:01 AM Ticket #16633 (Runtime error installing CollabFold) created by tavaresa@…
[…] Screenshot 2025-01-16 at 9.49.53 AM.png
6:32 AM Ticket #16632 (All hydrogen names for ATP N6) created by chimerax-bug-report@…
[…]
6:16 AM Ticket #16631 (Safesave: file missing) created by chimerax-bug-report@…
[…]
4:43 AM Ticket #16630 (Graphics crash, macOS 14.7.2, NVIDIA GeForce GT 640M) created by chimerax-bug-report@…
[…]
4:08 AM Ticket #16629 (FoldSeek: Permission denied writing temp file) created by james.lecornu@…
[…]

Jan 15, 2025:

10:16 PM Ticket #16610 (Session restore: AtomicShapeDrawing parent is None) closed by Greg Couch
limitation: Each shape in an AtomicShapeDrawing has it's own atoms associated with …
7:38 PM Ticket #16628 (Duplicate bond in SDF file) created by ytao.phd@…
[…] reh9-1.sdf
6:19 PM Ticket #16627 (ChimeraX with Qt 6.8 crashes at exit nearly every time on Mac) created by goddard@…
[…]
4:22 PM Ticket #16626 (glGetString: out of memory) closed by Tom Goddard
can't reproduce: Looks like your computer Intel graphics driver is broken. It gives …
4:14 PM Ticket #16625 (glGenVertexArrays: out of memory) closed by Tom Goddard
nonchimerax: Bad graphics driver. Every opengl call gives "out of memory" at startup.
2:48 PM Ticket #16626 (glGetString: out of memory) created by cybelen@…
[…]
2:47 PM Ticket #16625 (glGenVertexArrays: out of memory) created by chimerax-bug-report@…
[…]
12:05 PM Ticket #16505 (error in running kvfinder) closed by pett
fixed: That's great to hear! Thanks for checking it out. --Eric
12:03 PM Ticket #16624 (Foldseeks mishandles Content-Length header) closed by Tom Goddard
fixed: Fixed. Added conversion of string to integer when reporting the size …
11:56 AM Ticket #16624 (Foldseeks mishandles Content-Length header) created by Lukas.Bauer@…
[…]
11:51 AM Ticket #16623 (MemoryError opening mmCIF file) closed by pett
duplicate
11:48 AM Ticket #16622 (Cannot save to public desktop) closed by pett
duplicate
11:47 AM Ticket #16621 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by pett
duplicate
11:35 AM Ticket #16619 (Crash in garbage collection) closed by pett
duplicate
11:18 AM Ticket #16623 (MemoryError opening mmCIF file) created by chimerax-bug-report@…
[…]
8:29 AM Ticket #16622 (Cannot save to public desktop) created by chimerax-bug-report@…
[…]
7:24 AM Ticket #16621 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by chimerax-bug-report@…
[…]
7:12 AM Ticket #16620 (Installing SEQCROW nukes multiple unrelated commands) created by Tristan Croll
[…]
12:00 AM Ticket #16619 (Crash in garbage collection) created by chimerax-bug-report@…
[…]

Jan 14, 2025:

3:35 PM Ticket #16582 (Problem with rotation and labels) closed by Tom Goddard
fixed: Fixed. The 3d labels reorient to face the camera when the scene is …
11:13 AM Dev2025-1-20 created by Tom Goddard
11:12 AM 2025-1-16 created by Tom Goddard
11:11 AM DeveloperMeetings edited by Tom Goddard
(diff)
11:03 AM Ticket #16616 (Crash in draw_elements) closed by Tom Goddard
nonchimerax: Crashed in GL.glDrawElementsInstanced(element_type, ne, …
10:31 AM Ticket #16611 (Crash in readcif::CIFFile::parse_row) closed by Greg Couch
can't reproduce: Tom, can you get me some AlphaFold 3 mmCIF output? I want to run it …
10:19 AM Ticket #16618 (Crash on Mac waking from sleep) closed by pett
duplicate
10:18 AM Ticket #16617 (Crash on Mac waking from sleep) closed by pett
duplicate
10:14 AM Ticket #16615 (Mutate to ALA) closed by pett
not a bug: Hi Su Datt, There are no rotamers for alanine obviously, so you …
10:09 AM Ticket #16614 (Crash on Mac waking from sleep) closed by pett
duplicate
10:05 AM Ticket #16612 (Crash using open/save dialog or drawing background) closed by pett
can't reproduce
9:52 AM Ticket #16618 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
5:25 AM Ticket #16617 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
5:09 AM Ticket #16616 (Crash in draw_elements) created by mai.nguyen@…
[…]
1:58 AM Ticket #16615 (Mutate to ALA) created by sudatt.lam@…
[…]
1:39 AM Ticket #16614 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
12:32 AM Ticket #16613 (ISOLDE: "running error 250114") created by seyoen0895@…
[…]

Jan 13, 2025:

11:18 PM Ticket #16612 (Crash using open/save dialog or drawing background) created by chimerax-bug-report@…
[…]
9:43 PM Ticket #16611 (Crash in readcif::CIFFile::parse_row) created by chimerax-bug-report@…
[…]
5:35 PM Dev2025-1-13 edited by Tom Goddard
(diff)
4:02 PM Ticket #16610 (Session restore: AtomicShapeDrawing parent is None) created by pett
[…] aniso.cxs
11:32 AM Ticket #16607 (Crash moving window between screens(?)) closed by Tom Goddard
duplicate
11:25 AM Ticket #16605 (Crash drawing status bar) closed by Tom Goddard
can't reproduce: Crashed in swap_buffers(). Only idea I have is that it was in the …
9:43 AM Ticket #16609 (Crash in event loop at startup) closed by pett
can't reproduce
9:41 AM Ticket #16608 (Crash on Mac waking from sleep) closed by pett
duplicate
9:39 AM Ticket #16606 (Problem destroying in-window status bar: wrapped C/C++ object of type ...) closed by pett
can't reproduce: ChimeraX 1.2.5, so likely no longer relevant
9:33 AM Ticket #16604 (Crash drawing status bar) closed by pett
can't reproduce
8:57 AM Ticket #16609 (Crash in event loop at startup) created by chimerax-bug-report@…
[…]
7:25 AM Ticket #16608 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]

Jan 12, 2025:

5:42 PM Ticket #16607 (Crash moving window between screens(?)) created by chimerax-bug-report@…
[…]
3:36 AM Ticket #16606 (Problem destroying in-window status bar: wrapped C/C++ object of type ...) created by chimerax-bug-report@…
[…]

Jan 10, 2025:

10:58 PM Ticket #16605 (Crash drawing status bar) created by chimerax-bug-report@…
[…]
9:05 PM Ticket #16604 (Crash drawing status bar) created by chimerax-bug-report@…
[…]
6:27 PM Ticket #16603 (ArrayGridData' object has no attribute 'dicom_data') created by chimerax-bug-report@…
[…]
5:42 PM Ticket #16600 (ChimeraX fails to start on Rocky 9) closed by Greg Couch
fixed: The workaround to force XWayland, appears to not be needed anymore. …
4:56 PM Ticket #16601 (Save session: GLTF cycle detected) closed by Tom Goddard
duplicate: Fixed 1.5 years ago, ticket #9594
4:48 PM Ticket #16597 (volume zone: ArrayMemoryError) closed by Tom Goddard
can't reproduce: Unclear how they ran out of memory allocating 76 Mbytes when less than …
4:42 PM Ticket #16592 (FoldSeek temp file on Windows) closed by Tom Goddard
fixed: Fixed. Thanks for diagnosing this. I saw this error reported before …
3:49 PM Ticket #16591 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: This crash is caused by a bug in the Qt window toolkit used by …
3:45 PM Ticket #16590 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: User got the "This is a known crash..." error message but decided to …
3:42 PM Ticket #16586 (Failed to create vertex shader) closed by Tom Goddard
nonchimerax: Qt warns it has graphics problems at startup, then our graphics code …
8:52 AM Ticket #16602 (Crash in Open File dialog on Windows) closed by pett
can't reproduce: Still dicey whether faulthandler is a net positive in these bug reports.
8:39 AM Ticket #16599 (Crash in python_instances_of_class) closed by pett
duplicate
8:38 AM Ticket #16598 (Crash in event loop) closed by pett
can't reproduce
8:27 AM Ticket #16596 (Crash in garbage collection) closed by pett
duplicate
8:25 AM Ticket #16595 (Crash in garbage collection) closed by pett
duplicate
8:25 AM Ticket #16594 (Crash in garbage collection) closed by pett
duplicate
8:24 AM Ticket #16593 (Crash on Mac waking from sleep) closed by pett
duplicate
8:16 AM Ticket #16589 (Crash in garbage collection) closed by pett
duplicate
8:15 AM Ticket #16588 (Crash in chem_group.find_group) closed by pett
can't reproduce: I would need the structure file to have any hope of tracking this down.
7:27 AM Ticket #16602 (Crash in Open File dialog on Windows) created by chimerax-bug-report@…
[…]
5:49 AM Ticket #16580 (Memory leak) reopened by Tristan Croll
Huh... as luck would have it, I happened to be doing something else …
12:55 AM Ticket #16601 (Save session: GLTF cycle detected) created by chimerax-bug-report@…
[…]
12:07 AM Ticket #16600 (ChimeraX fails to start on Rocky 9) created by Greg Couch
On a fresh, fully updated, Rocky 9 VM with ChimeraX 1.9 installed, it …

Jan 9, 2025:

9:44 PM Ticket #16549 (ImportError: libGLU.so.1: cannot open shared object file: No such file ...) closed by Greg Couch
limitation: It is unclear how ChimeraX was installed. There is no tarball for …
5:35 PM Ticket #16599 (Crash in python_instances_of_class) created by chimerax-bug-report@…
[…]
5:01 PM Ticket #16598 (Crash in event loop) created by chimerax-bug-report@…
[…]
4:23 PM Ticket #16565 (Crash reading .cif file) closed by Greg Couch
can't reproduce: Need a test case.
4:10 PM Ticket #16597 (volume zone: ArrayMemoryError) created by chimerax-bug-report@…
[…]
3:13 PM 2025-1-9 edited by Tom Goddard
(diff)
2:10 PM Ticket #16366 (segmentations mouse mode: list index out of range) closed by Zach Pearson
fixed: This should be fixed in the 1.9 release or the daily builds. Sorry for …
1:02 PM Ticket #16596 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
12:46 PM Ticket #16595 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
11:28 AM Ticket #16594 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
8:48 AM Ticket #16593 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
8:37 AM Ticket #16592 (FoldSeek temp file on Windows) created by Tristan Croll
[…]
8:30 AM Ticket #16591 (Crash on Mac waking from sleep) created by martik39@…
[…]
5:47 AM Ticket #16590 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
3:51 AM Ticket #16589 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
2:41 AM Ticket #16580 (Memory leak) closed by Tristan Croll
can't reproduce: Ugh. Never mind. Turns out that (a) tracemalloc itself uses oodles …
1:54 AM Ticket #16588 (Crash in chem_group.find_group) created by chimerax-bug-report@…
[…]
12:55 AM Ticket #16587 (Hang while fetching UniProt) created by yapyuen03@…
[…]
12:23 AM Ticket #16586 (Failed to create vertex shader) created by chimerax-bug-report@…
[…]

Jan 8, 2025:

6:01 PM Ticket #16585 (Volume Viewer after session restore: wrapped C/C++ object of type ...) closed by pett
duplicate: Duplicate of #7103
6:00 PM Ticket #16584 (Volume Viewer after session restore: wrapped C/C++ object of type ...) closed by pett
duplicate: Duplicate of #7103
3:45 PM Ticket #16583 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics) closed by Tom Goddard
nonchimerax: Apple Intel graphics driver crash.
3:09 PM Ticket #16578 (volume splitbyzone: ArrayMemoryError) closed by Tom Goddard
limitation: Ran out of memory in volume splitbyzone on a modest size map 64 Mbytes …
3:05 PM Ticket #16576 (Graphics crash, macOS 15.2, Radeon Pro Vega 56) closed by Tom Goddard
nonchimerax: Crash in Apple AMD graphics driver. Same reporter, same crash …
3:03 PM Ticket #16573 (glDrawBuffer: invalid operation drawing silhouettes) closed by Tom Goddard
can't reproduce: Have seen this reported before on Linux. OpenGL framebuffer seems to …
3:01 PM Ticket #16566 (glTexImage2D: out of memory while drawing silhouettes) closed by Tom Goddard
can't reproduce: Out of memory creating a texture for silhouette edge calculation. …
2:57 PM Ticket #16585 (Volume Viewer after session restore: wrapped C/C++ object of type ...) created by chimerax-bug-report@…
[…]
2:57 PM Ticket #16584 (Volume Viewer after session restore: wrapped C/C++ object of type ...) created by chimerax-bug-report@…
[…]
11:03 AM Ticket #16583 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics) created by chimerax-bug-report@…
[…]
10:54 AM Ticket #16571 (Python shell warning -- pickleshare not installed) closed by pett
fixed: Added the pickleshare module to the app requirements
9:45 AM Ticket #16579 (Crash opening PDB file) closed by pett
can't reproduce
9:42 AM Ticket #16577 (Crash in python_instances_of_class) closed by pett
duplicate
9:27 AM Ticket #16570 (Crash opening mmCIF) closed by pett
can't reproduce: I assume you would need the input file in order to reproduce this.
7:32 AM Ticket #16582 (Problem with rotation and labels) created by jeroen.vanweperen@…
[…]
4:20 AM Ticket #16581 (ui view fourup: OpenGL texture was not deleted before graphics.Texture ...) created by chimerax-bug-report@…
[…]
3:49 AM Ticket #16580 (Memory leak) created by Tristan Croll
[…]
3:20 AM Ticket #16579 (Crash opening PDB file) created by chimerax-bug-report@…
[…]

Jan 7, 2025:

9:59 PM Ticket #16578 (volume splitbyzone: ArrayMemoryError) created by chimerax-bug-report@…
[…]
9:01 PM Ticket #16577 (Crash in python_instances_of_class) created by chimerax-bug-report@…
[…]
5:28 PM Dev2025-1-13 created by Tom Goddard
5:27 PM DeveloperMeetings edited by Tom Goddard
(diff)
5:26 PM 2025-1-9 edited by Tom Goddard
(diff)
1:18 PM Ticket #16576 (Graphics crash, macOS 15.2, Radeon Pro Vega 56) created by chimerax-bug-report@…
[…]
11:44 AM Ticket #16575 (Orthoplanes: 'MRCGrid' object has no attribute 'dicom_data') created by chimerax-bug-report@…
[…]
10:47 AM Ticket #16574 (ORCA/TDDFT output: could not convert string to float) created by william.robinson223@…
[…]
10:23 AM Ticket #16573 (glDrawBuffer: invalid operation drawing silhouettes) created by chimerax-bug-report@…
[…]
4:23 AM Ticket #16572 (Bug when QTWebengine is not built ChimeraX 1.6.1 and 1.7) created by karho@…
[…]
1:47 AM Ticket #16571 (Python shell warning -- pickleshare not installed) created by Tristan Croll
[…]
12:11 AM Ticket #16570 (Crash opening mmCIF) created by chimerax-bug-report@…
[…]

Jan 6, 2025:

4:36 PM Ticket #16569 (Presets / Initial Styles / Original Look does not change tube helices ...) created by goddard@…
[…]
3:48 PM Dev2025-1-6 edited by Tom Goddard
(diff)
3:48 PM Dev2025-1-6 edited by Tom Goddard
(diff)
1:44 PM Ticket #16568 (matchmaker with altlocs shown: No matrix compatible with both ...) created by goddard@…
[…]
1:41 PM Ticket #16567 (Option to omit labels for short missing-loop segments) created by olibclarke@…
One related suggestion here - there is an option to "label missing …
1:20 PM Ticket #16566 (glTexImage2D: out of memory while drawing silhouettes) created by chimerax-bug-report@…
[…]
12:08 PM Ticket #16565 (Crash reading .cif file) created by chimerax-bug-report@…
[…]
11:56 AM Ticket #16564 (volume flip: 'NoneType' object is not subscriptable) closed by Tom Goddard
duplicate: I believe this is fixed in ChimeraX version 1.9. The code had a bug …
11:39 AM Ticket #16563 (Graphics crash, macOS 15.2, Radeon Pro Vega 56) closed by Tom Goddard
nonchimerax: Apple AMD graphics driver crash. Same reporter, same crash as #16560
11:37 AM Ticket #16562 (Graphics crash, macOS 15.2, Radeon Pro Vega 56) closed by Tom Goddard
nonchimerax: Apple AMD graphics driver crash. Same reporter, same crash as #16560
11:36 AM Ticket #16561 (Graphics crash, macOS 15.2, Radeon Pro Vega 56) closed by Tom Goddard
nonchimerax: Apple AMD graphics driver crash. Same reporter, same crash as #16560
11:35 AM Ticket #16560 (Graphics crash, macOS 15.2, Radeon Pro Vega 56) closed by Tom Goddard
nonchimerax: Apple AMD graphics driver crash.
10:51 AM Ticket #16556 ("Demoted" StructureSeq does not save/restore correctly) closed by pett
duplicate: Duplicate of #15396
10:47 AM Ticket #16564 (volume flip: 'NoneType' object is not subscriptable) created by um18fa@…
[…]
10:46 AM Ticket #16555 (Crash on Mac waking from sleep) closed by pett
duplicate
10:43 AM Ticket #16554 (Crash on Mac waking from sleep) closed by pett
duplicate
10:35 AM Ticket #16553 (Crash on Mac waking from sleep) closed by pett
duplicate
9:24 AM Ticket #16563 (Graphics crash, macOS 15.2, Radeon Pro Vega 56) created by chimerax-bug-report@…
[…]
8:29 AM Ticket #16562 (Graphics crash, macOS 15.2, Radeon Pro Vega 56) created by chimerax-bug-report@…
[…]
8:28 AM Ticket #16561 (Graphics crash, macOS 15.2, Radeon Pro Vega 56) created by chimerax-bug-report@…
[…]
8:26 AM Ticket #16560 (Graphics crash, macOS 15.2, Radeon Pro Vega 56) created by chimerax-bug-report@…
[…]
6:28 AM Ticket #16559 (SEQCROW: could not convert string to float: 'TITLE') created by 2529108683@…
[…] 曲线校正-solid-L-Ala-KBr-0.15-5000-1.csv
1:10 AM Ticket #16558 (Cannot 'pip install pyKVFinger') created by chimerax-bug-report@…
[…]
12:56 AM Ticket #16557 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
12:27 AM Ticket #16556 ("Demoted" StructureSeq does not save/restore correctly) created by chimerax-bug-report@…
[…]
12:02 AM Ticket #16555 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]

Jan 4, 2025:

10:20 AM Ticket #16554 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]

Jan 3, 2025:

5:03 PM Ticket #9732 (Option to always show model number in label) closed by pett
fixed: Available in next daily build as the "Always show structure model …
3:05 PM Ticket #16553 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
1:58 PM Ticket #16546 (Silhouette outlines incorrect in saved image) closed by Tom Goddard
nonchimerax: Unfortunately this is a bug in Apple's Intel graphics driver on a …
1:44 PM Ticket #16536 (Render By Attribute: switching attributes does not preserve marker radius) closed by pett
fixed: Tool is not saved in session, so that part is moot.
9:48 AM Ticket #16552 (Crash on Mac waking from sleep) closed by pett
duplicate
9:44 AM Ticket #16551 (Find Cavities crash) closed by pett
duplicate: Hi Fenwick, Thanks for reporting this problem. We are aware of this …
9:35 AM Ticket #16550 (ImportError: libGLU.so.1: cannot open shared object file: No such file ...) closed by pett
duplicate
9:31 AM Ticket #16548 (Crash in python_instances_of_class) closed by pett
duplicate
5:05 AM Ticket #16552 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
2:39 AM Ticket #16545 (Problem reading MTZ file) closed by Tristan Croll
not a bug: Glad to hear it's working! No, I don't think it's the spaces - at …

Jan 2, 2025:

10:57 PM Ticket #16551 (Find Cavities crash) created by fenwickantonyer@…
[…] best_model.pdb
10:45 PM Ticket #16550 (ImportError: libGLU.so.1: cannot open shared object file: No such file ...) created by chimerax-bug-report@…
[…]
10:45 PM Ticket #16549 (ImportError: libGLU.so.1: cannot open shared object file: No such file ...) created by chimerax-bug-report@…
[…]
6:51 PM Ticket #16548 (Crash in python_instances_of_class) created by chimerax-bug-report@…
[…]
2:14 PM Ticket #16547 (Save X3D failure saving 2D labels) created by ubaumann@…
[…]
1:34 PM Ticket #16546 (Silhouette outlines incorrect in saved image) created by hyunmin.kim@…
[…] model1-full.png
12:06 PM DeveloperMeetings edited by Tom Goddard
(diff)
12:06 PM DeveloperMeetings2024 created by Tom Goddard
12:05 PM 2025-1-9 created by Tom Goddard
12:04 PM DeveloperMeetings edited by Tom Goddard
(diff)
12:03 PM Dev2025-1-6 created by Tom Goddard
12:02 PM GroupMeetings2024 edited by Tom Goddard
(diff)
12:01 PM GroupMeetings2024 created by Tom Goddard
12:01 PM DeveloperMeetings edited by Tom Goddard
(diff)
11:55 AM Ticket #16543 (AlphaFold prediction is very slow) closed by Tom Goddard
can't reproduce: I ran your sequences using ChimeraX alphafold 2 prediction and it took …
11:38 AM Ticket #16544 (Infinite event-handling loop) closed by pett
can't reproduce
11:29 AM Ticket #16542 (Crash on Mac waking from sleep) closed by pett
duplicate
1:32 AM Ticket #16545 (Problem reading MTZ file) created by rd716@…
[…] [[Image(...)]]

Jan 1, 2025:

9:12 AM Ticket #16544 (Infinite event-handling loop) created by chimerax-bug-report@…
[…]

Dec 31, 2024:

9:14 PM Ticket #16543 (AlphaFold prediction is very slow) created by rajaram511@…
[…]
11:59 AM Ticket #16542 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
7:43 AM Ticket #16541 (Crash dock prepping 3max) created by kaiken@…
[…]

Dec 30, 2024:

5:52 AM Ticket #16540 (AddH: ambiguous side-chain flips) created by Tristan Croll
[…]

Dec 27, 2024:

11:48 AM Ticket #16539 (Crash in python_instances_of_class) closed by pett
duplicate
11:44 AM Ticket #16538 (Coordinates are NaN) closed by pett
duplicate: PDB reading has been revised to exclude this since then
11:42 AM Ticket #16537 (Crash in python_instances_of_class) closed by pett
duplicate
11:19 AM Ticket #16535 (Crash moving window between screens) closed by pett
duplicate
11:18 AM Ticket #16534 (Crash on Mac waking from sleep) closed by pett
duplicate
11:11 AM Ticket #16532 (Crash running open/save dialog) closed by pett
can't reproduce
11:07 AM Ticket #16531 (Crash on Mac waking from sleep) closed by pett
duplicate
11:05 AM Ticket #16530 (UnicodeError open PDBQT file) closed by pett
can't reproduce: Probably needs some Windows codec; would need input file.
10:50 AM Ticket #16528 (Crash on Mac waking from sleep) closed by pett
duplicate
10:11 AM Ticket #16527 (Error restoring alignment: Sequence does not have match maps) closed by pett
duplicate: Duplicate of #16478
9:17 AM Ticket #16526 (Crash in event loop) closed by pett
can't reproduce

Dec 26, 2024:

10:22 PM Ticket #16539 (Crash in python_instances_of_class) created by chimerax-bug-report@…
[…]
7:42 PM Ticket #16538 (Coordinates are NaN) created by chimerax-bug-report@…
[…]
4:33 PM Ticket #16537 (Crash in python_instances_of_class) created by chimerax-bug-report@…
[…]
1:33 PM Ticket #16536 (Render By Attribute: switching attributes does not preserve marker radius) created by chimerax-bug-report@…
[…]
7:00 AM Ticket #16535 (Crash moving window between screens) created by chimerax-bug-report@…
[…]
12:37 AM Ticket #16534 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]

Dec 25, 2024:

11:49 PM Ticket #16533 (DLL load failed while importing _pyKVFinder: The specified module ...) created by chimerax-bug-report@…
[…]
10:48 PM Ticket #16532 (Crash running open/save dialog) created by chimerax-bug-report@…
[…]
7:32 PM Ticket #16531 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
7:45 AM Ticket #16530 (UnicodeError open PDBQT file) created by chimerax-bug-report@…
[…]
1:48 AM Ticket #16529 (Crash at startup) created by chimerax-bug-report@…
[…]

Dec 24, 2024:

9:57 PM Ticket #16528 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
6:03 PM Ticket #16527 (Error restoring alignment: Sequence does not have match maps) created by chimerax-bug-report@…
[…]
4:35 AM Ticket #16526 (Crash in event loop) created by chimerax-bug-report@…
[…]

Dec 23, 2024:

4:51 PM Ticket #16525 (Problem installing XMAS) created by chimerax-bug-report@…
[…]
11:16 AM Ticket #16524 (Flatpak success/fail message is wrong in nightly emails) created by Zach Pearson
10:58 AM Ticket #16522 (KeyError (platform) checking for updates) closed by pett
duplicate: Duplicate of #15775
10:54 AM Ticket #16521 (Ribbon: Array argument has non-numeric values) closed by pett
duplicate: duplicate of #16520
10:52 AM Ticket #16519 (glGetIntegerv: invalid operation) closed by Tom Goddard
limitation: As the error message said: error | ChimeraX requires OpenGL graphics …
10:50 AM Ticket #16516 (Surface Color tool: list index out of range) closed by Tom Goddard
duplicate: The Surface Color panel can only display color palettes of 8 or fewer …
10:44 AM Ticket #16517 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by pett
duplicate

Dec 22, 2024:

11:57 PM Ticket #16523 (Crash in chem_group on Windows) created by chimerax-bug-report@…
[…]
11:35 PM Ticket #16522 (KeyError (platform) checking for updates) created by chimerax-bug-report@…
[…]
10:17 AM Ticket #16521 (Ribbon: Array argument has non-numeric values) created by chimerax-bug-report@…
[…]
10:09 AM Ticket #16520 (Ribbon: Array argument has non-numeric values) created by chimerax-bug-report@…
[…]
8:21 AM Ticket #16519 (glGetIntegerv: invalid operation) created by chimerax-bug-report@…
[…]
4:11 AM Ticket #16518 (Session save: '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file)) created by chimerax-bug-report@…
[…]

Dec 21, 2024:

8:07 PM Ticket #16517 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by chimerax-bug-report@…
[…]
2:43 PM Ticket #16516 (Surface Color tool: list index out of range) created by abhisek.mondal@…
[…]
2:00 PM Ticket #16515 (Startup errors from the 12/21 daily build) closed by Zach Pearson
not a bug: I notice that ChimeraX says you have two versions of matplotlib. One …
9:52 AM Ticket #16512 (Various startup errors) closed by pett
duplicate: Closing this one since #16515 is from the actual daily build rather …
9:49 AM Ticket #16514 (Regular PDB file opened in MD Viewer) closed by pett
duplicate
9:49 AM Ticket #16513 (Regular PDB file opened in MD Viewer) closed by pett
limitation
9:47 AM Ticket #16515 (Startup errors from the 12/21 daily build) created by pett
[…]
5:03 AM Ticket #16514 (Regular PDB file opened in MD Viewer) created by chimerax-bug-report@…
[…]
4:27 AM Ticket #16513 (Regular PDB file opened in MD Viewer) created by chimerax-bug-report@…
[…]

Dec 20, 2024:

6:24 PM Ticket #16512 (Various startup errors) created by pett
[…]
6:19 PM Ticket #16510 (Crash in swap_buffers) closed by pett
can't reproduce
5:59 PM Ticket #16511 (Qt fatal error: Failed to initialize graphics backend for OpenGL) created by chimerax-bug-report@…
[…]
2:28 PM Ticket #16489 (C++ libraries programmer documentation is blank) reopened by Tom Goddard
The C++ libraries page still looks blank to me …
2:25 PM Ticket #16489 (C++ libraries programmer documentation is blank) closed by pett
fixed: It's not blank now.
2:14 PM Ticket #16500 (Could not install pyKVFinder module from PyPi repository) closed by pett
fixed: Improved error reporting (I hope)
1:57 PM Ticket #16502 (Alignment observer not in observer list) closed by pett
can't reproduce: I don't see how the widget can't be in the list of observers when …
1:20 PM Ticket #16510 (Crash in swap_buffers) created by chimerax-bug-report@…
[…]
12:15 PM Ticket #16506 (Crash accessing StructureSeq.structure) closed by pett
fixed: Lesson learned: don't run commands (which can fire triggers) in a …
11:44 AM Ticket #16509 (Crash moving window between screens) closed by Tom Goddard
duplicate: Same crash, same reporter as #16504
9:40 AM Ticket #16508 (Registration server unavailable) closed by pett
can't reproduce: Hi Alexis, Thanks for reporting this. I was able to register from …
9:36 AM Ticket #16504 (Crash moving window between screens(?)) closed by Tom Goddard
duplicate
9:20 AM Ticket #16509 (Crash moving window between screens) created by chimerax-bug-report@…
[…]
8:41 AM Ticket #16508 (Registration server unavailable) created by rohou.alexis@…
[…]
7:26 AM Ticket #16507 (Crash running Modeller job) created by chimerax-bug-report@…
[…]
6:00 AM Ticket #16506 (Crash accessing StructureSeq.structure) created by chimerax-bug-report@…
[…]
3:05 AM Ticket #16409 (Failure importing clipper_python) closed by Tristan Croll
can't reproduce: This is the sort of issue that in my experience is near-impossible to …
2:38 AM Ticket #16435 (ISOLDE: itemgetter expected 1 argument, got 0) closed by Tristan Croll
fixed: Oops... upshot here is that the DBSCAN algorithm ISOLDE uses to find …
12:22 AM Ticket #16505 (error in running kvfinder) created by vincent.chaptal@…
[…]

Dec 19, 2024:

3:21 PM Ticket #16501 (Out of memory saving immense image) closed by Tom Goddard
limitation
1:29 PM Ticket #16498 (Crash in event loop) closed by pett
can't reproduce
1:02 PM Ticket #16504 (Crash moving window between screens(?)) created by chimerax-bug-report@…
[…]
12:52 PM 2024-12-19 edited by Tom Goddard
(diff)
10:57 AM Ticket #16503 (Include directory not added to compile command) created by Roden Deng Luo
[…] sample_code_compile_error.txt
10:14 AM Ticket #16502 (Alignment observer not in observer list) created by chimerax-bug-report@…
[…]
9:00 AM Ticket #16501 (Out of memory saving immense image) created by chimerax-bug-report@…
[…]
8:01 AM Ticket #16500 (Could not install pyKVFinder module from PyPi repository) created by chimerax-bug-report@…
[…]
7:41 AM Ticket #16499 (open 3MWP: URL can't contain control characters. 'ssh -D') created by chimerax-bug-report@…
[…]

Dec 18, 2024:

11:44 PM Ticket #16498 (Crash in event loop) created by chimerax-bug-report@…
[…]
4:39 PM Ticket #16488 (Sample code link broken) closed by pett
fixed: Fixed. The git code checkout had changed file systems, so git config …
4:26 PM Ticket #16490 (Segmentation model(?) has no positions (is closed?)) closed by Zach Pearson
wontfix: Anyway this is unreproducible on 1.9 or the daily builds.
4:25 PM Ticket #16491 (Tried to get the position of deleted drawing "sagittal segmentation cursor") closed by Zach Pearson
fixed: Use 1.9 or a daily build.
2:31 PM Ticket #16497 (PSF/PDB combo) created by chimerax-bug-report@…
[…]
11:58 AM phenix-12-19-24 edited by pett
(diff)
11:45 AM phenix-12-19-24 edited by pett
(diff)
11:44 AM by-depth.png attached to phenix-12-19-24 by pett
11:44 AM phenix-12-19-24 edited by pett
(diff)
11:16 AM phenix-12-19-24 edited by pett
(diff)
10:54 AM Ticket #16496 (Startup crash / Unrecognized OpenGL version) created by chimerax-bug-report@…
[…]
10:00 AM phenix-12-19-24 created by pett
9:59 AM Features edited by pett
(diff)
9:52 AM Ticket #16495 (Crash using open/save dialog) closed by pett
can't reproduce
9:50 AM Ticket #16494 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by pett
duplicate
9:48 AM Ticket #16493 (XTC file with Unicode path) closed by pett
limitation: xdrfile uses fopen with a const char * path to open the file. Will …
9:23 AM Ticket #16492 (Crash in python_instances_of_class) closed by pett
duplicate
8:51 AM Ticket #16495 (Crash using open/save dialog) created by chimerax-bug-report@…
[…]
8:25 AM Ticket #16494 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by chimerax-bug-report@…
[…]
1:02 AM Ticket #16487 (Antechamber: permission denied) closed by Zach Pearson
fixed: That seems to have worked
12:56 AM Ticket #16493 (XTC file with Unicode path) created by chimerax-bug-report@…
[…]
12:22 AM Ticket #16492 (Crash in python_instances_of_class) created by chimerax-bug-report@…
[…]

Dec 17, 2024:

5:34 PM Ticket #16478 (Error restoring alignment: Sequence does not have match maps) closed by pett
fixed: I had added copying of sequences during alignment initialization so …
2:08 PM Ticket #16491 (Tried to get the position of deleted drawing "sagittal segmentation cursor") created by zhu.qiao@…
[…]
2:08 PM Ticket #16490 (Segmentation model(?) has no positions (is closed?)) created by chimerax-bug-report@…
[…]
12:06 PM Ticket #16469 (Sequence wrong length during session restore) closed by pett
can't reproduce: Hi Isabelle, Without access to your input files I can't reproduce the …
11:13 AM Ticket #16489 (C++ libraries programmer documentation is blank) created by deng.luo@…
[…]
11:10 AM Ticket #16488 (Sample code link broken) created by deng.luo@…
[…]
10:16 AM 2024-12-19 created by Tom Goddard
10:15 AM DeveloperMeetings edited by Tom Goddard
(diff)
9:27 AM Ticket #16487 (Antechamber: permission denied) created by chimerax-bug-report@…
[…]
9:11 AM Ticket #16486 (regarding the chimera_x) closed by pett
duplicate: Asked and answered on the chimerax-users list.
9:01 AM Ticket #16485 (Crash showing Side View) closed by pett
can't reproduce
8:57 AM Ticket #16482 (Crash on Mac waking from sleep) closed by pett
duplicate
12:20 AM Ticket #16486 (regarding the chimera_x) created by premdorjeetamang3@…
[…]
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