Timeline



Feb 26, 2024:

4:27 PM Dev2024-2-26 edited by Tom Goddard
(diff)
4:25 PM Dev2024-2-26 edited by Tom Goddard
(diff)
4:24 PM Dev2024-2-26 edited by Tom Goddard
(diff)
4:22 PM Dev2024-2-26 edited by Tom Goddard
(diff)
4:18 PM Ticket #14644 (Faster DICOM map registration) created by pett
Because add_map_format() is done from a custom initialization, many …
3:06 PM Dev2024-2-26 created by Tom Goddard
3:05 PM DeveloperMeetings edited by Tom Goddard
(diff)
2:52 PM Ticket #14643 (protein-molecule contact log issue) created by mrodriguez.81@…
[…]
2:49 PM Ticket #14642 (Crash deleting Structure) created by chimerax-bug-report@…
[…]
2:27 PM Ticket #14641 (Crash in _cleanup) created by chimerax-bug-report@…
[…]
2:19 PM Ticket #14640 (ArtiaX: wrapped C/C++ object of type QComboBox has been deleted) created by chimerax-bug-report@…
[…]
2:13 PM Training edited by Tom Goddard
(diff)
2:11 PM Training edited by Tom Goddard
(diff)
2:09 PM Training edited by Tom Goddard
(diff)
12:53 PM Ticket #14636 (MatchMaker: cannot access local variable 'concise_model_spec') closed by pett
fixed: Hi Luca, Thanks for reporting this problem. It only occurs when …
12:49 PM Ticket #14632 (Error in glBufferData) closed by Tom Goddard
can't reproduce: User opened a session and got a glBufferData() openGL error 1285 which …
12:42 PM Ticket #14635 (Crash processing focus-in touch event) closed by Tom Goddard
can't reproduce: This looks surely like a Qt window toolkit bug, it is deep in Qt …
12:16 PM Ticket #14639 (Looks like Mac daily build is not notarized) created by goddard@…
[…]
11:58 AM Ticket #14637 (Crash in garbage collection) closed by pett
can't reproduce
11:39 AM Ticket #14634 (Crash selecting aromatic rings) closed by pett
can't reproduce
10:45 AM Ticket #14630 (ISOLDE: crash in _background_load_ff) closed by Tristan Croll
fixed: Removed the background loading in ISOLDE 1.7.
7:56 AM Ticket #14638 (Crash in event loop) created by wxh180@…
[…]
7:35 AM Ticket #14637 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
7:17 AM Ticket #14636 (MatchMaker: cannot access local variable 'concise_model_spec') created by lp212@…
[…]
7:10 AM Ticket #14635 (Crash processing focus-in touch event) created by lp212@…
[…]
1:29 AM Ticket #14634 (Crash selecting aromatic rings) created by chimerax-bug-report@…
[…]

Feb 25, 2024:

3:14 PM Ticket #14633 (ISOLDE: 5-bond carbon) created by tmckeith@…
[…]

Feb 24, 2024:

9:53 PM Ticket #14632 (Error in glBufferData) created by chimerax-bug-report@…
[…]

Feb 23, 2024:

9:36 PM Ticket #14631 (ISOLDE: ResidueStepper references dead Structure) created by tmckeith@…
[…]
1:30 PM Ticket #14605 (Problem reading PSF file: invalid literal for int() with base 10) closed by pett
fixed: As per: …
1:00 PM Ticket #14630 (ISOLDE: crash in _background_load_ff) created by chimerax-bug-report@…
[…]
11:56 AM Ticket #14629 (Updates tool) created by pett
It seems to me that if you actually launch the Updates tool yourself, …
11:46 AM Ticket #14580 (preserve docked tool sizes) closed by pett
fixed: Okay, I preserve the docked tool's size as best I can, though it seems …
11:31 AM Ticket #14628 (PICKLUSTER treating PseudobondGroups as Structures) created by chimerax-bug-report@…
[…]
11:08 AM Ticket #14627 (Unknown MD coordinate format: psf) closed by pett
fixed: Hi Gema, Thanks for reporting this problem. You can't open a PSF …
10:48 AM Ticket #14626 (Session restore: invalid load key) closed by pett
duplicate

Feb 22, 2024:

8:08 PM Ticket #14623 (Drawing status: Attempt to retrieve context when no valid contex) closed by Tom Goddard
can't reproduce: ChimeraX OpenGL context seems to be invalid drawing status line after …
5:19 PM Ticket #14627 (Unknown MD coordinate format: psf) created by gemarcm@…
[…]
2:46 PM Ticket #7035 (Docked sequence viewer panels made main window 16000 pixels high) closed by pett
fixed: Changes made in response to #6386 prevents this scenario. If some …
2:10 PM Ticket #14550 (Could not find atom for bond) closed by pett
can't reproduce: Error is *somewhere* in the C++ layer, and likely in the …
1:01 PM Ticket #14626 (Session restore: invalid load key) created by chimerax-bug-report@…
[…]
11:25 AM Ticket #14625 (silhouettes → tiny boxes) closed by pett
nonchimerax
11:01 AM Ticket #14625 (silhouettes → tiny boxes) created by xin_gu@…
[…] Screenshot 2024-02-22 at 1.58.06 PM.png
10:57 AM Ticket #14624 (Crash in garbage collection) closed by pett
can't reproduce
10:54 AM Ticket #14622 (Crash using open/save dialog) closed by pett
can't reproduce
8:21 AM Ticket #14624 (Crash in garbage collection) created by chimerax-bug-report@…
[…]

Feb 21, 2024:

7:15 PM Ticket #14623 (Drawing status: Attempt to retrieve context when no valid contex) created by chimerax-bug-report@…
[…]
6:28 PM Ticket #14617 (Crash drawing moved marker) closed by Tom Goddard
can't reproduce: ChimeraX crashed in Apple's M3 graphics driver in glBufferSubData(). …
2:20 PM Ticket #14622 (Crash using open/save dialog) created by chimerax-bug-report@…
[…]
1:44 PM Ticket #14621 (Render by Attribute histogram: `bins` must be an integer, a string, or ...) created by goddard@…
[…]
1:06 PM ChangeLog edited by Elaine Meng
(diff)
11:46 AM Ticket #14620 (Segmentation tool freezes UI) created by pritam.mukherjee@…
[…]
10:58 AM Ticket #14619 (Crash in garbage collection) closed by pett
can't reproduce
10:24 AM Ticket #14619 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
9:33 AM Ticket #14618 (Cancel mouse movement callback if viewers closed) created by Zach Pearson
[…]
1:30 AM Ticket #14617 (Crash drawing moved marker) created by ranz@…
[…]

Feb 20, 2024:

6:45 PM DeveloperMeetings edited by Tom Goddard
(diff)
6:41 PM Ticket #14607 (Graphics crash, macOS 14.3.1, Intel Iris Plus Graphics) closed by Tom Goddard
nonchimerax: Mac Intel graphics driver crash.
6:34 PM Ticket #14603 (Graphics crash, macOS 12.7.3, Intel Iris Pro) closed by Tom Goddard
nonchimerax: Apple Intel graphics driver crash.
6:32 PM Ticket #14602 (Graphics crash, macOS 14.2.1, Intel Iris Plus Graphics) closed by Tom Goddard
nonchimerax: Apple Intel graphics driver crash.
6:30 PM Ticket #14600 (Graphics crash in ISOLDE, macOS 13.3.1, AMD Radeon Pro 5500M) closed by Tom Goddard
nonchimerax: Apple AMD graphics driver crash.
11:26 AM Ticket #14616 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
10:59 AM Ticket #14615 (MemoryError opening mmCIF files) closed by pett
duplicate
10:56 AM Ticket #14615 (MemoryError opening mmCIF files) created by chimerax-bug-report@…
[…]
9:38 AM Ticket #14614 (Crash while using open-file dialog) closed by pett
can't reproduce
8:12 AM Ticket #14608 (Saving movie: desktop does not exist) closed by Tom Goddard
nonchimerax: This is usually a problem caused by Microsoft OneDrive which has …
7:54 AM Ticket #14614 (Crash while using open-file dialog) created by chimerax-bug-report@…
[…]

Feb 19, 2024:

5:34 PM Ticket #14613 (Slices in orthoplane viewers should readjust to the shown region in 3D) created by Zach Pearson
When showing a volume in 3D as a surface or a volume the user can …
10:26 AM Ticket #14612 (Crash parsing atom spec) closed by pett
can't reproduce
10:24 AM Ticket #14611 (Crash in event loop) closed by pett
can't reproduce
10:17 AM Ticket #14609 (Crash in event loop) closed by pett
can't reproduce
7:15 AM Ticket #14612 (Crash parsing atom spec) created by chimerax-bug-report@…
[…]
6:46 AM Ticket #14611 (Crash in event loop) created by chimerax-bug-report@…
[…]

Feb 18, 2024:

6:03 PM Ticket #14610 (ArtiaX/pandas/numpy problem in 1.4) created by chimerax-bug-report@…
[…]

Feb 17, 2024:

6:39 PM Ticket #14609 (Crash in event loop) created by chimerax-bug-report@…
[…]
1:57 PM Ticket #14608 (Saving movie: desktop does not exist) created by esdras.e.lopez@…
[…]

Feb 16, 2024:

7:57 PM Ticket #14607 (Graphics crash, macOS 14.3.1, Intel Iris Plus Graphics) created by chimerax-bug-report@…
[…]
6:20 PM Ticket #14606 (Qt fatal error: Failed to initialize graphics backend for OpenGL) created by ea2941@…
[…]
6:12 PM Ticket #14605 (Problem reading PSF file: invalid literal for int() with base 10) created by alphataubio@…
[…]
6:06 PM Ticket #14604 (Crash processing window geometry change event) created by tmckeith@…
[…]
2:33 PM Ticket #14603 (Graphics crash, macOS 12.7.3, Intel Iris Pro) created by chimerax-bug-report@…
[…]
1:08 PM Ticket #14602 (Graphics crash, macOS 14.2.1, Intel Iris Plus Graphics) created by chimerax-bug-report@…
[…]
11:03 AM Ticket #14601 (openvr.error_code.CompositorError_TextureUsesUnsupportedFormat) created by rkrishnan@…
[…]
10:21 AM Ticket #14600 (Graphics crash in ISOLDE, macOS 13.3.1, AMD Radeon Pro 5500M) created by chimerax-bug-report@…
[…]
9:30 AM Ticket #14599 (ISOLDE session save: ResidueStepper referenced closed AtomicStructure) created by chimerax-bug-report@…
[…]
9:01 AM Ticket #14597 (Crash in garbage collection) closed by pett
can't reproduce
3:45 AM Ticket #14598 (Clipper session restore: self.cell and/or self.grid is None) created by sf314@…
[…] GapA_NADP.cxs
2:00 AM Ticket #14597 (Crash in garbage collection) created by chimerax-bug-report@…
[…]

Feb 15, 2024:

3:20 PM Ticket #14596 ("combine" with blank chain ID) closed by pett
duplicate: Hi Tony, As you discovered, ChimeraX atom specifiers cannot handle a …
3:09 PM Ticket #14594 (Crash getting secondary structure ID) closed by pett
can't reproduce
3:08 PM Ticket #14593 (Crash in garbage collection) closed by pett
can't reproduce: Hi Haaris, Thanks for reporting this problem. It is typically …
2:59 PM Ticket #14591 (Crash in garbage collection) closed by pett
can't reproduce: No crash log
2:58 PM Ticket #14590 (Crash in event loop) closed by pett
can't reproduce
2:56 PM Ticket #14589 (Crash in intra_bonds) closed by pett
can't reproduce
2:11 PM NIAID2023 edited by Elaine Meng
(diff)
1:36 PM NIAID2023 edited by Elaine Meng
(diff)
1:16 PM Ticket #14596 ("combine" with blank chain ID) created by Tony Schaefer
[…]
1:00 PM 2024-2-15 edited by Tom Goddard
(diff)
12:59 PM 2024-2-15 edited by pett
(diff)
12:54 PM Features edited by pett
(diff)
12:13 PM 2024-2-15 edited by Tom Goddard
(diff)
12:12 PM Ticket #14595 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
11:17 AM Ticket #14594 (Crash getting secondary structure ID) created by chimerax-bug-report@…
[…]
9:35 AM Ticket #14593 (Crash in garbage collection) created by haaris.safdari@…
[…]
6:25 AM Ticket #14592 (Crash in garbage collection) created by x.aran-guiu@…
[…]
6:17 AM Ticket #14591 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
1:41 AM Ticket #14590 (Crash in event loop) created by chimerax-bug-report@…
[…]

Feb 14, 2024:

6:13 PM Ticket #14589 (Crash in intra_bonds) created by chimerax-bug-report@…
[…]
5:16 PM ChangeLog edited by Elaine Meng
(diff)
3:30 PM phenix-2-14-24 edited by pett
(diff)
1:43 PM phenix-2-14-24 edited by pett
(diff)
11:58 AM phenix-2-14-24 created by pett
11:55 AM Ticket #14588 (ISOLDE: start sim: No dihedral with that name is registered for this ...) created by chimerax-bug-report@…
[…]
11:29 AM Features edited by pett
(diff)
11:15 AM Ticket #14587 (Crash iterating through collection) closed by pett
can't reproduce
11:12 AM Ticket #14585 (Non-ASCII PDB) closed by pett
can't reproduce
11:11 AM Ticket #14584 (Non-ASCII PDB) closed by pett
can't reproduce
11:10 AM Ticket #14583 (Non-ASCII PDB) closed by pett
can't reproduce
11:08 AM Ticket #14582 (Non-ASCII PDB) closed by pett
can't reproduce
11:07 AM Ticket #14581 (MemoryError opening mmCIF files) closed by pett
duplicate
10:44 AM Ticket #14587 (Crash iterating through collection) created by chimerax-bug-report@…
[…]
2:55 AM Ticket #14586 (ISOLDE: start sim: OpenMMException: Error compiling kernel) created by chimerax-bug-report@…
[…]

Feb 13, 2024:

10:16 PM Ticket #14585 (Non-ASCII PDB) created by chimerax-bug-report@…
[…]
10:15 PM Ticket #14584 (Non-ASCII PDB) created by chimerax-bug-report@…
[…]
10:15 PM Ticket #14583 (Non-ASCII PDB) created by chimerax-bug-report@…
[…]
9:01 PM Ticket #14582 (Non-ASCII PDB) created by chimerax-bug-report@…
[…]
12:15 PM Ticket #14581 (MemoryError opening mmCIF files) created by chimerax-bug-report@…
[…]
11:47 AM Ticket #14580 (preserve docked tool sizes) created by guillaume.gaullier@…
Hi Guillaume, As you have observed, for docked tools ChimeraX only …
11:37 AM 2024-2-15 created by Tom Goddard
11:36 AM DeveloperMeetings edited by Tom Goddard
(diff)
11:22 AM Ticket #14576 (DICOM/PIL: cannot find/load libXau) closed by Tom Goddard
limitation: Have to use ChimeraX 1.7 or older on macOS 10.14 to get working Pillow …
10:56 AM Ticket #14579 (ChimeraX 1.7 missing from older releases web page) created by Tom Goddard
The ChimeraX older releases web page is missing ChimeraX 1.7. I need …
9:58 AM Ticket #14578 (Crash showing open-file dialog) closed by pett
can't reproduce
9:55 AM Ticket #14577 (Crash handling color swatch favorite) closed by pett
can't reproduce
9:41 AM Ticket #14575 (Crash in garbage collection) closed by pett
can't reproduce
9:40 AM Ticket #14574 (Crash in garbage collection) closed by pett
can't reproduce
8:46 AM Ticket #14578 (Crash showing open-file dialog) created by chimerax-bug-report@…
[…]
5:46 AM Ticket #14577 (Crash handling color swatch favorite) created by chimerax-bug-report@…
[…]
4:28 AM Ticket #14576 (DICOM/PIL: cannot find/load libXau) created by wb104@…
[…]
12:05 AM Ticket #14575 (Crash in garbage collection) created by chimerax-bug-report@…
[…]

Feb 12, 2024:

9:59 PM Ticket #14574 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
4:34 PM Dev2024-2-12 edited by Tom Goddard
(diff)
3:45 PM Ticket #9608 (Registration mailing-list subscription: HTTP 404 failure) closed by Greg Couch
fixed: Just registered from home using my gmail account and received the invite.
1:35 PM Ticket #14568 (MemoryError saving session) closed by Greg Couch
can't reproduce: We don't set the block size for lz4 compression, so we get the default …
1:04 PM Ticket #14573 (mseries slider record button only recording 1 frame) closed by Tom Goddard
fixed: Fixed. If the slider was never moved then it has not set which model …
1:02 PM Ticket #14571 (Make mseries slider record button not overwrite existing file) closed by Tom Goddard
fixed: Done. The mseries slider (and coordset slider and other sliders with …
12:57 PM Ticket #14573 (mseries slider record button only recording 1 frame) created by goddard@…
[…]
11:15 AM Ticket #14572 (GUI placed at weird position on startup) created by roden.luo@…
Hi, (This is not a serious issue but annoying.) I'm on Win11 …
10:07 AM Ticket #14570 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by pett
duplicate
9:33 AM Ticket #14562 (Web services: Connection reset by peer) closed by pett
can't reproduce: Doesn't seem reproducible
8:41 AM Ticket #14571 (Make mseries slider record button not overwrite existing file) created by rf2366@…
[…]
4:19 AM Ticket #14570 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by chimerax-bug-report@…
[…]

Feb 11, 2024:

5:19 PM Ticket #14569 (Error Installing: Please Help) created by bmbrown317@…
[…] [[Image(...)]]
8:28 AM Ticket #14568 (MemoryError saving session) created by chimerax-bug-report@…
[…]

Feb 9, 2024:

7:12 PM Ticket #14567 (Garbage collection crash, ChimeraX 1.3, Mac) closed by Tom Goddard
duplicate
7:11 PM Ticket #14567 (Garbage collection crash, ChimeraX 1.3, Mac) created by goddard@…
[…]
7:05 PM Ticket #14566 (Garbage collection crash, Mac ChimeraX 1.4) closed by Tom Goddard
duplicate
7:03 PM Ticket #14566 (Garbage collection crash, Mac ChimeraX 1.4) created by goddard@…
[…]
6:59 PM Ticket #14565 (Garbage collection crash, ChimeraX 1.5) closed by Tom Goddard
duplicate
6:55 PM Ticket #14565 (Garbage collection crash, ChimeraX 1.5) created by goddard@…
[…]
6:54 PM Ticket #14564 (Crash in garbage collection) closed by Tom Goddard
duplicate
6:50 PM Ticket #14564 (Crash in garbage collection) created by goddard@…
[…]
2:43 PM Ticket #14563 (Connection reset by peer contacting RBVI servers) created by masato.kato@…
[…]
2:42 PM Ticket #14562 (Web services: Connection reset by peer) created by chimerax-bug-report@…
[…]
1:53 PM Ticket #14561 (Windows: sys.executable: The system cannot find the file specified) created by Tony Schaefer
[…]
12:42 PM Ticket #14560 (Surface transparency not preserved when coloring) created by goddard@…
[…]
9:59 AM Ticket #14559 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by pett
duplicate

Feb 8, 2024:

11:32 PM Ticket #14559 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by chimerax-bug-report@…
[…]
5:24 PM 2024-2-8 edited by Tom Goddard
(diff)
3:52 PM Ticket #14552 (ESMFold: name 'seg_uids' is not defined) closed by Tom Goddard
fixed: Fixed. The error is because Meta's ESMFold database SSL certificate …
2:40 PM Ticket #14551 ('Segmentation' object has no attribute 'map_path') closed by Tom Goddard
fixed: Fixed. Made segmentation reader handle missing map_path attribute.
12:51 PM Ticket #14558 (Crash handling mouse event) closed by pett
can't reproduce
12:49 PM Ticket #14557 (Crash in garbage collection) closed by pett
can't reproduce
12:37 PM 2024-2-8 edited by Greg Couch
(diff)
12:33 PM DeveloperMeetings edited by Greg Couch
(diff)
11:46 AM Ticket #14558 (Crash handling mouse event) created by chimerax-bug-report@…
[…]
10:59 AM Ticket #14557 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
10:58 AM Ticket #14555 (SyntaxError in volume.py) closed by pett
duplicate
10:46 AM Ticket #14553 (Logged 70K contacts) closed by pett
not a bug: User showed the contacts, then ran the exact same command with "log true".
8:11 AM Ticket #14556 (ArtiaX session save: Unknown class name 'MarkerSetPlus') created by bs17magg@…
[…]
8:09 AM Ticket #14555 (SyntaxError in volume.py) created by chimerax-bug-report@…
[…]
3:35 AM Ticket #14554 (Small checkboxes on second monitor) created by jakob.andersson@…
[…] chimera problem.png
2:37 AM Ticket #14553 (Logged 70K contacts) created by chimerax-bug-report@…
[…]

Feb 7, 2024:

1:47 PM Ticket #14552 (ESMFold: name 'seg_uids' is not defined) created by nhassan3@…
[…]
12:39 PM Training edited by Tom Goddard
(diff)
12:18 PM Ticket #14548 (Graphics glitches on external display) closed by Tom Goddard
nonchimerax: It seems like this has to be a problem with your graphics driver, …
11:46 AM Ticket #14551 ('Segmentation' object has no attribute 'map_path') created by chimerax-bug-report@…
[…]
10:36 AM Ticket #14550 (Could not find atom for bond) created by chimerax-bug-report@…
[…]
8:54 AM Ticket #14549 (Failed to initialize graphics backend for OpenGL) closed by pett
can't reproduce
8:09 AM Ticket #14549 (Failed to initialize graphics backend for OpenGL) created by chimerax-bug-report@…
[…]
7:05 AM Ticket #14548 (Graphics glitches on external display) created by Tristan Croll
[…] 2024-02-07 14-54-23.mkv

Feb 6, 2024:

2:33 PM Ticket #14544 (Various graphics errors) closed by Tom Goddard
can't reproduce: ChimeraX gave errors at startup and then appeared to not get a working …
2:20 PM Dev2024-2-12 created by Tom Goddard
2:19 PM 2024-2-8 created by Tom Goddard
2:09 PM 2024-2-1 edited by Tom Goddard
(diff)
2:04 PM DeveloperMeetings edited by Tom Goddard
(diff)
1:00 PM Ticket #14528 (Distance font size changes between coord sets) closed by pett
fixed: Fix: …
9:26 AM Ticket #14546 (MemoryError opening mmCIF files) closed by pett
duplicate
9:25 AM Ticket #14545 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by pett
duplicate
9:21 AM Ticket #14543 (Crash in QMenu::mouseReleaseEvent() closed by pett
can't reproduce: Hi Rosheny, Thanks for reporting this problem. The only thing I can …
7:02 AM Ticket #14547 (Plain sequence in structure associations) created by jae-hun.jeoung@…
[…]
4:51 AM Ticket #14546 (MemoryError opening mmCIF files) created by chimerax-bug-report@…
[…]
2:21 AM Ticket #14545 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by chimerax-bug-report@…
[…]

Feb 5, 2024:

9:41 PM Ticket #14544 (Various graphics errors) created by chimerax-bug-report@…
[…]
9:38 PM Ticket #14543 (Crash in QMenu::mouseReleaseEvent() created by rosheny21@…
[…]
6:24 PM Ticket #14542 (Log does not scroll to bottom after new command) created by rohou.alexis@…
[…]
4:05 PM Dev2024-2-5 edited by Tom Goddard
(diff)
2:18 PM Ticket #10384 (vop unroll: cannot select an axis to squeeze out which has size not ...) closed by Tom Goddard
fixed: Fixed. This error is caused by using "volume unroll" on a volume …
2:15 PM Ticket #14540 (vop unroll error in orthoplanes) closed by Tom Goddard
fixed: Fixed. Simple case reproducing bug #10384 where orthoplanes center …
2:14 PM Ticket #14541 (volume orthoplanes: could not broadcast input array from shape (0,) ...) closed by Tom Goddard
fixed: Fixed. If orthoplanes center is outside region bound then show …
1:55 PM Ticket #14539 (Color map from segmentation: unsupported operand type(s) for *: ...) closed by Tom Goddard
fixed: Fixed. Attempting to color uncomputed volume surfaces now gives no …
12:53 PM Ticket #14541 (volume orthoplanes: could not broadcast input array from shape (0,) ...) created by goddard@…
[…]
12:43 PM Ticket #14540 (vop unroll error in orthoplanes) created by goddard@…
[…]
12:28 PM Ticket #14537 (cannot select an axis to squeeze out which has size not equal to one) closed by Tom Goddard
can't reproduce: Duplicate of #14536. As described in the previous ticket the problem …
12:15 PM Ticket #14536 (Graphics crashed) closed by Tom Goddard
can't reproduce: The error message indicates that there was a problem reading one of …
12:04 PM Ticket #14535 (Load marker set: no element found. Opening empty marker set .cmm file.) closed by Tom Goddard
nonchimerax: User appears to be opening an empty marker set .cmm (XML) file and the …
10:51 AM Ticket #14534 (Crash in garbage collection) closed by pett
can't reproduce: Hi Melissa, Thanks for reporting this problem. It is typically …
10:47 AM Ticket #14533 (Crash in event loop at startup, M1 Mac running Intel ChimeraX) closed by pett
can't reproduce
10:32 AM Ticket #14539 (Color map from segmentation: unsupported operand type(s) for *: ...) created by mestroupe@…
[…] 3-seg_60c-HP.seg
7:18 AM Ticket #14538 (ISOLDE: ResidueStepper: self.positions is None) created by chimerax-bug-report@…
[…]

Feb 4, 2024:

5:06 AM Ticket #14537 (cannot select an axis to squeeze out which has size not equal to one) created by liesermphong@…
[…]
4:58 AM Ticket #14536 (Graphics crashed) created by liesermphong@…
[…]

Feb 3, 2024:

11:29 PM Ticket #14535 (Load marker set: no element found. Opening empty marker set .cmm file.) created by chimerax-bug-report@…
[…]
5:29 PM Ticket #14534 (Crash in garbage collection) created by mvshehat@…
[…]
5:51 AM Ticket #14533 (Crash in event loop at startup, M1 Mac running Intel ChimeraX) created by chimerax-bug-report@…
[…]

Feb 2, 2024:

5:08 PM Ticket #8616 (Multiple swapaa/na swaps) closed by pett
fixed: Swapaa/na now accept a comma-separated list of residue types (or, as …
1:06 PM Ticket #14532 (Unable to download) created by sbv5w@…
[…]
12:27 PM Ticket #14530 (Graphics crash, macOS 10.15.7, Intel Iris Plus Graphics) closed by Tom Goddard
nonchimerax: Apple Intel graphics driver crash.
12:11 PM Ticket #14529 (Rotation dis-aligns models) closed by Tom Goddard
can't reproduce: You's have to give an exact example of all your steps, for example, do …
12:08 PM Ticket #14531 (Crash creating QWebEngineProfile) closed by Tom Goddard
can't reproduce: It is really perplexing how such a simple seeming constructor as …
11:57 AM Ticket #14531 (Crash creating QWebEngineProfile) created by chimerax-bug-report@…
[…]
11:52 AM ChangeLog edited by Elaine Meng
(diff)
11:42 AM ChangeLog edited by Elaine Meng
(diff)
11:30 AM Ticket #14527 (Crash in garbage collection) closed by pett
can't reproduce
11:27 AM Ticket #14526 (Crash in garbage collection) closed by pett
can't reproduce: The log for this ticket is weird -- it seems to be missing the …
11:26 AM Ticket #14530 (Graphics crash, macOS 10.15.7, Intel Iris Plus Graphics) created by chimerax-bug-report@…
[…]
11:06 AM Ticket #14529 (Rotation dis-aligns models) created by landreol@…
[…]
10:58 AM Ticket #14524 (Crash in garbage collection) closed by pett
can't reproduce
10:56 AM Ticket #14523 (Crash in garbage collection) closed by pett
can't reproduce
10:52 AM Ticket #14521 (libGLU.so.1: cannot open shared object file: No such file or directory) closed by Greg Couch
limitation: User probably installed the tar ball version of ChimeraX and is …
9:41 AM Ticket #14522 (Crash in garbage collection) closed by pett
can't reproduce: Hi Amit, Thanks for reporting this problem. It is typically difficult …
9:25 AM Ticket #14481 (SEQCROW: read_psi4_out: could not convert string to float) closed by pett
fixed: Sorry it was such a hassle. Upgrading a bundle isn't usually this …
2:11 AM Ticket #14528 (Distance font size changes between coord sets) created by Tristan Croll
[…]

Feb 1, 2024:

10:27 PM Ticket #14527 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
9:52 PM Ticket #14526 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
4:31 PM Ticket #14525 (expand_alias: cmd.word_info is None) created by chimerax-bug-report@…
[…]
4:16 PM Ticket #14524 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
3:48 PM Ticket #14523 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
2:48 PM Ticket #14520 (sel down: array length mismatch) closed by Tom Goddard
duplicate: User tried to revert the selection with down arrow after expanding it …
1:45 PM Ticket #14522 (Crash in garbage collection) created by agautam@…
[…]
1:43 PM NIAID2023 edited by Elaine Meng
(diff)
1:39 PM NIAID2023 edited by Elaine Meng
(diff)
11:49 AM Ticket #14521 (libGLU.so.1: cannot open shared object file: No such file or directory) created by chimerax-bug-report@…
[…]
10:56 AM Ticket #14514 (Crash showing volume dialog) closed by Tom Goddard
can't reproduce: Looks like a Qt bug. Crashed showing Volume Viewer panel. Crashed in …
10:45 AM Ticket #14519 (Crash showing Rapid Access at startup) closed by pett
can't reproduce: Hi Fernando, Thanks for reporting this problem. It looks like …
10:39 AM Ticket #14517 (MemoryError opening mmCIF files) closed by pett
duplicate
10:29 AM Ticket #14515 (Logged a lot of contacts) closed by pett
not a bug: No actual error reported
7:52 AM Ticket #14520 (sel down: array length mismatch) created by chimerax-bug-report@…
[…]
6:33 AM Ticket #14519 (Crash showing Rapid Access at startup) created by f.bruno@…
[…]
5:59 AM Ticket #14518 (SEQCROW: normal modes: self.model_selector.currentData() is None) created by chimerax-bug-report@…
[…]
3:13 AM Ticket #14517 (MemoryError opening mmCIF files) created by chimerax-bug-report@…
[…]
2:04 AM Ticket #14516 (Marker "notes") created by Tristan Croll
[…]

Jan 31, 2024:

9:57 PM Ticket #14515 (Logged a lot of contacts) created by chimerax-bug-report@…
[…]
4:56 PM Ticket #14451 (Select→Contacts not selecting in both chains) closed by pett
fixed
4:38 PM Ticket #14514 (Crash showing volume dialog) created by chimerax-bug-report@…
[…]
4:27 PM Ticket #14413 (Region not in regions list) closed by pett
can't reproduce: Hi Jihun, Thanks for reporting this problem. I tried a few things …
12:21 PM Ticket #14511 (Re: [chimerax-users] transparency around the model only) closed by Tom Goddard
can't reproduce: I tried the steps you did to make this session and the session …
11:25 AM Ticket #14513 (Illegal PDB file) closed by pett
nonchimerax: Hi Francisco, As per the PDB standard, chain IDs have to be …
11:03 AM Ticket #14513 (Illegal PDB file) created by francisco.murphy@…
[…] superposition.pdb
11:00 AM Ticket #14512 (Crash in garbage collection) closed by pett
can't reproduce: Doesn't have the Python stack or the crash log
10:43 AM Ticket #14509 (Crash in garbage collection) closed by pett
can't reproduce: Hi Tiffany, Thanks for reporting this problem. It is typically …
9:50 AM Ticket #14506 (Crash in garbage collection) closed by pett
can't reproduce: Hi Mark, Thanks for reporting this problem. It is typically difficult …
9:41 AM Ticket #14512 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
9:08 AM Ticket #14511 (Re: [chimerax-users] transparency around the model only) created by Elaine Meng
[…] tzone.cxs […] [[Image(Screen Shot …
6:27 AM Ticket #14510 (KeyError restoring tasks) created by chimerax-bug-report@…
[…]
3:10 AM Ticket #14509 (Crash in garbage collection) created by tiffanytiffy0719@…
[…]

Jan 30, 2024:

3:37 PM Ticket #14508 (Allow 3d labels on models for tiling) closed by Tom Goddard
fixed: Done. The 3d label command now can label models, for example …
3:23 PM Ticket #14508 (Allow 3d labels on models for tiling) created by Tom Goddard
Currently 3d labels can only be placed on atoms, bonds, pseudobonds …
3:04 PM Ticket #14507 (Graphics crash labeling models) closed by Tom Goddard
fixed: Fixed. Crash happened because label drawing vertices was set to an …
2:46 PM Ticket #14507 (Graphics crash labeling models) created by goddard@…
[…]
2:22 PM Ticket #14506 (Crash in garbage collection) created by pett@…
[…]
11:10 AM Ticket #14505 (Crash in event loop) closed by pett
can't reproduce
11:08 AM Ticket #14504 (MemoryError opening mmCIF files) closed by pett
duplicate
10:42 AM Ticket #14503 (Crash in garbage collection) closed by pett
can't reproduce
10:41 AM Ticket #14502 (Crash in garbage collection) closed by pett
can't reproduce
10:24 AM Dev2024-2-5 created by Tom Goddard
10:23 AM 2024-2-1 created by Tom Goddard
10:22 AM DeveloperMeetings edited by Tom Goddard
(diff)
7:04 AM Ticket #14505 (Crash in event loop) created by chimerax-bug-report@…
[…]
2:25 AM Ticket #14504 (MemoryError opening mmCIF files) created by chimerax-bug-report@…
[…]

Jan 29, 2024:

11:54 PM Ticket #14503 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
7:46 PM Ticket #14502 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
6:41 PM Ticket #14501 (self.vertex_colors is empty) closed by Tom Goddard
fixed: Fixed. An empty molecular surface was created (using the obscure …
6:06 PM Ticket #14501 (self.vertex_colors is empty) created by chimerax-bug-report@…
[…]
6:05 PM Ticket #14500 (MemoryError opening mmCIF files) closed by pett
duplicate
6:04 PM Ticket #14500 (MemoryError opening mmCIF files) created by chimerax-bug-report@…
[…]
6:03 PM Ticket #14499 (Crash opening PDB file) closed by pett
can't reproduce
6:03 PM Ticket #14496 (Qt fatal error: Failed to initialize graphics backend for OpenGL) closed by Greg Couch
limitation: We don't support running ChimeraX remotely. You should copy your data …
6:00 PM Ticket #14499 (Crash opening PDB file) created by chimerax-bug-report@…
[…]
5:58 PM Ticket #14498 (ISOLDE: possible error in MD template) created by ray@…
[…]
5:57 PM Ticket #14497 (Crash using File→Open dialog on Windows and/or returning from function) closed by pett
can't reproduce: 1.3
5:55 PM Ticket #14497 (Crash using File→Open dialog on Windows and/or returning from function) created by chimerax-bug-report@…
[…]
5:55 PM Ticket #14493 (ffmpeg: Symbol not found) closed by Greg Couch
limitation: You are running macOS 11.6. And in the error log, it says: …
5:52 PM Ticket #14496 (Qt fatal error: Failed to initialize graphics backend for OpenGL) created by d1ban@…
[…]
5:51 PM Ticket #14495 (MatchMaker: 'NoneType' object has no attribute 'setChecked') closed by pett
duplicate
5:50 PM Ticket #14495 (MatchMaker: 'NoneType' object has no attribute 'setChecked') created by chimerax-bug-report@…
[…]
5:46 PM Ticket #14494 (Crash in garbage collection) closed by pett
can't reproduce
5:45 PM Ticket #14494 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
5:41 PM Ticket #14493 (ffmpeg: Symbol not found) created by serhatinceer@…
[…]
5:40 PM Ticket #14490 (MatchMaker: 'NoneType' object has no attribute 'setChecked') closed by pett
duplicate
5:19 PM Dev2024-1-29 edited by Tom Goddard
(diff)
3:55 PM Ticket #14492 (support binary mmCIF files) created by Greg Couch
The PDB appear to have committed to supporting BinaryCIF, …
3:18 PM Ticket #14491 (Make tile command set trackpad to independent rotation mode) closed by Tom Goddard
fixed: Done. Now the tile command sets the trackpad two-finger drag to do …
2:43 PM Ticket #14491 (Make tile command set trackpad to independent rotation mode) created by goddard@…
[…]
2:15 PM Ticket #14490 (MatchMaker: 'NoneType' object has no attribute 'setChecked') created by chimerax-bug-report@…
[…]
1:41 PM Ticket #14489 (MatchMaker: IndexError: vector) closed by pett
can't reproduce
1:37 PM Ticket #14489 (MatchMaker: IndexError: vector) created by chimerax-bug-report@…
[…]
1:36 PM Ticket #14488 (Crash while asking to register) closed by pett
can't reproduce: Strong chance this is actually the wake-from-sleep-with-dual-displays crash
12:09 PM Ticket #14488 (Crash while asking to register) created by chimerax-bug-report@…
[…]
12:08 PM Dev2024-1-29 edited by Tom Goddard
(diff)
11:41 AM Dev2024-1-29 edited by Tom Goddard
(diff)
11:41 AM Dev2024-1-29 edited by Tom Goddard
(diff)
11:25 AM Dev2024-1-29 edited by Tom Goddard
(diff)
Note: See TracTimeline for information about the timeline view.