Timeline



Oct 25, 2021:

7:52 PM Ticket #5471 (Crash after hiding atomic model, Windows) created by yen-li.li@…
[…]
4:06 PM Ticket #5438 (Build frequently breaks installing cxservices) closed by Zach Pearson
fixed: I made the distclean target that gets called by …
2:42 PM Ticket #5463 (Structure.delete_alt_locs() failing) closed by pett
fixed: alt loc ANISOU info was being used after the altloc map had been …
2:31 PM Ticket #5470 (Crash in atomstruct::Atom::default_radius()) created by muhammad.obk@…
[…]
12:20 PM Ticket #5469 (Request for help in debugging) created by Tristan Croll
[…]
11:53 AM Ticket #5468 (Cannot restore session: _pickle.UnpicklingError: invalid load key) closed by pett
not a bug: Hi Nitesh, We believe this error occurs when you try to restore a …
11:52 AM Ticket #5468 (Cannot restore session: _pickle.UnpicklingError: invalid load key) created by nkkhandelwal@…
The following bug report has been submitted: Platform: …
11:35 AM Ticket #5467 (Allow reading Amira version 3.0 volume data) created by deng.luo@…
[…]
11:23 AM Ticket #5466 (Crash showing rapid access at startup) closed by pett
duplicate
11:21 AM Ticket #5466 (Crash showing rapid access at startup) created by chimerax-bug-report@…
[…]
11:00 AM Ticket #5465 (Unknown crash) closed by pett
can't reproduce
10:51 AM Ticket #5461 (Graphics driver crash, macOS 11.6, Intel UHD Graphics 617) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
10:08 AM Ticket #5462 (Crash with largely trashed stack) closed by pett
can't reproduce
10:04 AM Ticket #5460 (problem with displaying secondary structures) closed by pett
not a bug: Forwarded to chimerax-users list and answered there.
9:37 AM Ticket #5458 (Unknown crash) closed by pett
can't reproduce
9:20 AM Ticket #5465 (Unknown crash) created by chimerax-bug-report@…
[…]
7:27 AM Ticket #5464 (better template residue support) created by Tristan Croll
[…]
5:45 AM Ticket #5463 (Structure.delete_alt_locs() failing) created by Tristan Croll
[…]

Oct 24, 2021:

6:36 PM Ticket #5462 (Crash with largely trashed stack) created by chimerax-bug-report@…
[…]

Oct 23, 2021:

5:01 PM Ticket #5461 (Graphics driver crash, macOS 11.6, Intel UHD Graphics 617) created by chimerax-bug-report@…
[…]
3:06 PM Ticket #5460 (problem with displaying secondary structures) created by elzbieta.wator@…
[…] [[Image(...)]]
12:19 AM Ticket #5459 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by chimerax-bug-report@…
[…]

Oct 22, 2021:

6:02 PM Ticket #5458 (Unknown crash) created by chimerax-bug-report@…
[…]
4:09 PM Ticket #5453 (Problem saving blast table info in session) closed by pett
fixed: Fixed in the latest daily build.
3:58 PM Ticket #5446 (Modeller residue indices wrong) closed by pett
fixed: Okay, even *more* fixed now! :-)
3:42 PM Ticket #5441 (Crash with Qt 6.2 showing Shell tool) closed by Tom Goddard
fixed: Closing this ticket since the crash is now avoided. Will add the …
2:36 PM Ticket #5456 (Graphics driver crash, macOS 11.6, Intel Iris Plus Graphics 655) closed by Tom Goddard
nonchimerax: Apple graphics driver crash. Unfortunately Apple graphics drivers are …
2:17 PM Ticket #5455 (Difficulty panning/zooming) closed by Tom Goddard
duplicate: Follow up to #5454. Since the loss of multitouch trackpad events …
1:02 PM Ticket #5457 (Mac multitouch rotation does not work after Log undocked) created by goddard@…
[…]
11:03 AM Ticket #5446 (Modeller residue indices wrong) reopened by pett
For the UniProt sequence it remodels well past the point it should, …
10:23 AM Dev2021-10-14 edited by pett
(diff)
5:45 AM Ticket #5456 (Graphics driver crash, macOS 11.6, Intel Iris Plus Graphics 655) created by spencer.bliven@…
[…]
4:46 AM Ticket #5455 (Difficulty panning/zooming) created by ruggero.gabbrielli@…
[…]
4:42 AM Ticket #5454 (Difficulty panning/zooming) created by ruggero.gabbrielli@…
[…]
12:22 AM Ticket #5453 (Problem saving blast table info in session) created by nishaj@…
[…]

Oct 21, 2021:

7:06 PM 2021-10-21 edited by Tom Goddard
(diff)
6:42 PM Ticket #5451 (Crash in ctypes) closed by Tom Goddard
duplicate: Yep, looks like garbage collection crash. Still don't have any leads …
6:30 PM Ticket #5448 (Check if EMDB maps can be fetched by https instead of ftp) closed by Tom Goddard
fixed: Made EMDB fetch use Japan mirror if hostname ends in ".jp".
6:08 PM Ticket #5452 (Crash in garbage collection during new-object allocation) closed by pett
duplicate
6:00 PM Ticket #5452 (Crash in garbage collection during new-object allocation) created by chimerax-bug-report@…
[…]
5:57 PM Ticket #5445 (coordination number does not match sum of ligand denticity) closed by pett
not a bug: Hi Tony, Sorry to waste a bunch of your time, but this report was …
5:55 PM Ticket #5451 (Crash in ctypes) created by chimerax-bug-report@…
[…]
5:53 PM Ticket #5449 (Will NIH 3D pipeline script work with new EMDB metadata format?) closed by pett
not a bug
5:26 PM Ticket #5446 (Modeller residue indices wrong) closed by pett
fixed
5:05 PM Ticket #5447 (Crash after AlphaFold prediction finishes) closed by Tom Goddard
can't reproduce: Oh, I see. So they were rather indirectly AlphaFold related, just …
4:50 PM Ticket #5450 (crash taking sqrt()?!?) created by chimerax-bug-report@…
[…]
4:33 PM Ticket #5432 (Support chain merging in Structure.combine()) closed by pett
limitation: Upon further reflection, preservation of custom attributes depends …
4:12 PM Ticket #5449 (Will NIH 3D pipeline script work with new EMDB metadata format?) created by phil.cruz@…
Will the change to EMDB data model v3 effect how the NIH 3D ChimeraX …
3:25 PM Ticket #5443 (glGetFramebufferAttachmentParameteriv: invalid enumerant) closed by Tom Goddard
nonchimerax: ChimeraX runs on Windows 10. It is not supported on Windows 7. This …
2:18 PM NTTData edited by Elaine Meng
(diff)
2:10 PM NTTData edited by Elaine Meng
(diff)
1:45 PM NTTData edited by Elaine Meng
(diff)
1:39 PM Ticket #5448 (Check if EMDB maps can be fetched by https instead of ftp) created by philip.macmenamin@…
NIH 3D pipeline is fetching EMDB maps by ftp. That is frowned on in …
1:03 PM Ticket #5447 (Crash after AlphaFold prediction finishes) created by chimerax-bug-report@…
[…]
10:29 AM Ticket #5446 (Modeller residue indices wrong) created by Elaine Meng
[…] bloop.cxs
9:57 AM Ticket #5444 (Crash reading PDB file) closed by pett
can't reproduce
8:50 AM GrantAims2 edited by Elaine Meng
(diff)
7:28 AM Ticket #5445 (coordination number does not match sum of ligand denticity) created by chimerax-bug-report@…
[…]
4:03 AM Ticket #5444 (Crash reading PDB file) created by chimerax-bug-report@…
[…]
2:19 AM WikiStart edited by Tom Goddard
(diff)
2:16 AM GrantAims2 edited by Tom Goddard
(diff)
2:15 AM GrantAims2 edited by Tom Goddard
(diff)
2:14 AM GrantAims2 edited by Tom Goddard
(diff)
2:12 AM GrantAims2 edited by Tom Goddard
(diff)
2:05 AM GrantAims2 edited by Tom Goddard
(diff)
2:04 AM GrantAims2 edited by Tom Goddard
(diff)
2:04 AM GrantAims2 edited by Tom Goddard
(diff)
2:01 AM GrantAims2 edited by Tom Goddard
(diff)
1:46 AM GrantAims2 created by Tom Goddard
1:32 AM Grants edited by Tom Goddard
(diff)
1:28 AM Grants edited by Tom Goddard
(diff)
1:26 AM Grants created by Tom Goddard

Oct 20, 2021:

11:06 PM Ticket #5443 (glGetFramebufferAttachmentParameteriv: invalid enumerant) created by zengqh99@…
[…]
5:21 PM Ticket #5249 (RFE: model-restriction widget for clashes/contacts) closed by pett
fixed: Implemented an 'ignoreHiddenModels' option to the command, default …
5:16 PM Ticket #5442 (multiple columns of options) created by Elaine Meng
Currently a set options is constrained to be in a single column. …
12:56 PM Ticket #5433 (Bond connectivity changes don't update ribbon) closed by pett
fixed: Adding chain-forming bond now updates ribbons.
10:31 AM Ticket #5441 (Crash with Qt 6.2 showing Shell tool) created by goddard@…
[…]
10:21 AM Ticket #5436 (peptide ligand not labeled when only cartoon shown) closed by Tom Goddard
wontfix: Bad input data. The PDB should fix this entry so the 5 residues are …
9:37 AM Ticket #5440 (Unknown crash) closed by pett
can't reproduce
9:35 AM Ticket #5439 (Daily build download error) closed by pett
fixed: Hi Guillaume, Thanks for reporting this problem. We believe it is …
9:32 AM Ticket #5435 (Crash reading PDB file) closed by pett
can't reproduce: Possibly duplicate. Would need actual PDB file to debug.
9:08 AM Ticket #5440 (Unknown crash) created by chimerax-bug-report@…
[…]
12:19 AM Ticket #5439 (Daily build download error) created by guillaume.petit@…
[…]

Oct 19, 2021:

6:00 PM 2021-10-21 created by Tom Goddard
5:58 PM DeveloperMeetings edited by Tom Goddard
(diff)
5:51 PM Ticket #5438 (Build frequently breaks installing cxservices) created by Tom Goddard
In recent months my developer builds often break with some problem …
4:07 PM Ticket #5429 (QWindowsWindow::setGeometry: Unable to set geometry) closed by Tom Goddard
can't reproduce: The ChimeraX crash info is not very informative. It looks like it was …
3:30 PM Ticket #5437 (split into chains loses chain info) created by Elaine Meng
If I open a structure and show the sequence of a chain it includes the …
1:45 PM Ticket #5436 (peptide ligand not labeled when only cartoon shown) created by Elaine Meng
Although I can select cartoon on the main protein and label all its …
1:19 PM Ticket #5435 (Crash reading PDB file) created by chimerax-bug-report@…
[…]
11:18 AM Ticket #5431 (Crash showing Rapid access at startup) closed by pett
duplicate
8:54 AM Ticket #5434 (metadata interchange) created by Tristan Croll
[…]
7:37 AM Ticket #5433 (Bond connectivity changes don't update ribbon) created by Tristan Croll
[…]
7:32 AM Ticket #5432 (Support chain merging in Structure.combine()) created by Tristan Croll
[…] test_session.cxs
6:28 AM Ticket #5431 (Crash showing Rapid access at startup) created by chimerax-bug-report@…
[…]
6:10 AM Ticket #5430 (Crash saving session) created by kasperhb@…
[…]
4:40 AM Ticket #5429 (QWindowsWindow::setGeometry: Unable to set geometry) created by peng@…
[…]

Oct 18, 2021:

10:47 PM Ticket #5422 (Installation problems on Debian "Bullseye") closed by Greg Couch
limitation: Unfortunately, we have currently limited our Linux support to Ubuntu …
4:08 PM Ticket #5428 ('measure volume' doesn't return value) closed by Tom Goddard
fixed: Fixed. Made measure volume and measure area return total volume and …
1:31 PM Ticket #5428 ('measure volume' doesn't return value) created by pett
run(session, "measure volume #1") logs the volume, but doesn't return it.
11:54 AM Ticket #5427 (Read EMAN format: cannot load .dylibs/libhdf5.200.dylib) created by peter.kirchweger@…
[…]
11:50 AM Ticket #5425 (no 'contacts' in interfaces.cmd) closed by Tom Goddard
fixed: Fixed. Contacts command was renamed interfaces but programmer docs …
10:41 AM Ticket #5426 (Unknown crash) created by p.albanese@…
[…]
10:41 AM Ticket #5425 (no 'contacts' in interfaces.cmd) created by pett
WARNING: autodoc: failed to import function 'contacts' from module …
10:35 AM Ticket #5424 (Direct model panel editing) created by 2wswer@…
I would like to suggest/request that the "Models" panel should be able …
10:24 AM Ticket #5423 (Unknown crash) closed by pett
can't reproduce
10:21 AM Ticket #5421 (Close event on already closed window) closed by pett
can't reproduce
10:15 AM Ticket #5419 (Bug Reporter failure on Windows) closed by Tom Goddard
nonchimerax: This is a Windows system problem. Online info says "Error Code …
10:03 AM Ticket #5420 (restore session in older ChimeraX) closed by pett
fixed: Hi Ira, As you figured out yourself, ChimeraX 1.2.5 can't restore …
9:38 AM Ticket #5423 (Unknown crash) created by chimerax-bug-report@…
[…]
4:12 AM Ticket #5282 (Ramachandran plot clashes: wrapped C/C++ object of type QComboBox has ...) closed by Tristan Croll
can't reproduce: Thank you very much for sharing the model and structure factors. …
12:59 AM Ticket #5422 (Installation problems on Debian "Bullseye") created by kostrewa@…
[…]

Oct 17, 2021:

9:16 AM Ticket #5421 (Close event on already closed window) created by chimerax-bug-report@…
[…]

Oct 16, 2021:

10:44 AM Ticket #5420 (restore session in older ChimeraX) created by ira.lacdao@…
[…]

Oct 15, 2021:

11:34 PM Ticket #5419 (Bug Reporter failure on Windows) created by chimerax-bug-report@…
[…]
2:26 PM Ticket #5412 (AlphaFold unzipping of results: expected str, bytes or os.PathLike ...) closed by Tom Goddard
fixed: Fixed. In case user manages to start two results.zip downloads before …
9:38 AM Ticket #5418 (Crash "access violation", no traceback) closed by pett
can't reproduce: Though this crash is possibly while using the SEQCROW "Manage Models" …
1:53 AM Ticket #5349 (blast results load/align structure only aligns first model in NMR ensemble) closed by Zach Pearson
fixed: Should be fixed by …

Oct 14, 2021:

6:26 PM Ticket #5418 (Crash "access violation", no traceback) created by chimerax-bug-report@…
[…]
4:52 PM Ticket #5415 (Coulombic coloring fails on 7mjo, sqm on ligand) closed by pett
limitation
4:52 PM Ticket #5414 (Coulombic coloring fails on 7mjo, sqm cannot handle HIS+HIS) closed by pett
limitation
4:45 PM Ticket #5413 (Dual display crash) closed by Tom Goddard
nonchimerax: It appears ChimeraX crashed in the Qt window toolkit when an external …
4:40 PM Ticket #5402 (ctypes access violation) closed by pett
fixed
4:19 PM Dev2021-10-14 edited by Tom Goddard
(diff)
4:19 PM Dev2021-10-14 edited by Tom Goddard
(diff)
4:15 PM Ticket #5417 (Hide Windows installer signing password) created by Tom Goddard
Make Windows build redirect installer build to separate log so …
4:13 PM Ticket #5416 (Put checksums from download page on a separate page) created by Tom Goddard
Put link in Notes field of downloads table to checksums. Want to …
3:49 PM Ticket #5415 (Coulombic coloring fails on 7mjo, sqm on ligand) created by philip.macmenamin@…
[…]
3:42 PM Ticket #5414 (Coulombic coloring fails on 7mjo, sqm cannot handle HIS+HIS) created by philip.macmenamin@…
[…]
3:37 PM Ticket #5411 (Hung saving TIFF?) closed by Tom Goddard
can't reproduce: User typed ctrl-C to the shell (Linux) where ChimeraX started …
3:19 PM 2021-10-14 edited by Tom Goddard
(diff)
1:17 PM Ticket #5404 (Fix residue: Not enough connected atoms to form a dihedral) closed by Tristan Croll
fixed: I *think* everything in here has been taken care of by recent bug-fixes…
12:58 PM Ticket #5403 (debloat Blast input and output dialogs) closed by Zach Pearson
fixed: Great! Fixed in …
12:49 PM Ticket #5410 (Crash report: Permission denied) closed by pett
duplicate
12:48 PM Ticket #5409 (ChimeraX bug report submission) closed by pett
fixed
12:47 PM Ticket #5409 (ChimeraX bug report submission) reopened by pett
12:45 PM Ticket #5408 (Save settings: No such file or directory) closed by pett
duplicate
12:43 PM Ticket #5406 (color byattr: min() arg is an empty sequence) closed by pett
duplicate
12:14 PM 2021-10-14 edited by Tom Goddard
(diff)
12:00 PM 2021-10-14 edited by Tom Goddard
(diff)
11:56 AM 2021-10-14 edited by Tom Goddard
(diff)
11:53 AM 2021-10-14 edited by Tom Goddard
(diff)
11:53 AM Ticket #5413 (Dual display crash) created by hrishikesh.das@…
[…]
11:49 AM 2021-10-14 edited by Tom Goddard
(diff)
11:22 AM 2021-10-14 edited by Tom Goddard
(diff)
11:22 AM 2021-10-14 edited by Tom Goddard
(diff)
11:15 AM Ticket #5412 (AlphaFold unzipping of results: expected str, bytes or os.PathLike ...) created by chimerax-bug-report@…
[…]
9:33 AM Ticket #5409 (ChimeraX bug report submission) closed by Zach Pearson
not a bug: The AlphaFold bundle import was fixed in #5399 yesterday, so on …
7:18 AM Ticket #5411 (Hung saving TIFF?) created by chimerax-bug-report@…
[…]
7:02 AM Ticket #5410 (Crash report: Permission denied) created by chimerax-bug-report@…
[…]
5:56 AM Ticket #5409 (ChimeraX bug report submission) created by Tristan Croll
[…]

Oct 13, 2021:

7:54 PM Ticket #5408 (Save settings: No such file or directory) created by chimerax-bug-report@…
[…]
3:05 PM Ticket #5407 (Display HTML within table) created by Zach Pearson
Involves implementing a QStyledItemDelegate subclass.
2:18 PM Ticket #5398 (hide-dust shortcut: local variable 'maps' referenced before assignment) closed by Tom Goddard
duplicate: Fixed 4 months ago. #4829
2:16 PM Ticket #5406 (color byattr: min() arg is an empty sequence) created by chimerax-bug-report@…
[…]
2:02 PM Ticket #5405 (Problem coloring chains) created by hernando.sosa@…
[…]
1:45 PM Ticket #5404 (Fix residue: Not enough connected atoms to form a dihedral) created by chimerax-bug-report@…
[…]
1:05 PM Ticket #5403 (debloat Blast input and output dialogs) created by Elaine Meng
From: Eric Pettersen <pett@…> Subject: Widget spacing Date: …
12:31 PM Ticket #5402 (ctypes access violation) created by amith.rangarajan@…
[…]
11:30 AM Ticket #5401 (Blast Protein: Ligand Formulas (chemical formulas) hard to read) created by Elaine Meng
The Ligand Formulas (chemical formulas of ligand residues) are hard to …
11:28 AM Ticket #5394 (Blast Protein empty Ligand Symbols column) closed by Zach Pearson
fixed: I had the wrong graphql query, sorry! …
11:15 AM Ticket #5394 (Blast Protein empty Ligand Symbols column) reopened by Elaine Meng
10:22 AM Dev2021-10-14 edited by Zach Pearson
(diff)
9:22 AM Ticket #4963 (residue_graph: edges should be a n x 2 array of unsigned ints) closed by Tristan Croll
fixed: Really sorry for my ridiculously slow response to this - it's been a …
9:12 AM Ticket #5400 (ISOLDE simulation: No compatible CUDA device is available) closed by Tristan Croll
not a bug: Looks like your display driver version is too old. OpenMM uses CUDA …
9:10 AM Ticket #5399 (AlphaFold failure due to blast reorganization) closed by Zach Pearson
fixed: Fixed in …
8:53 AM Ticket #5397 (Crash in Qt on exit) closed by pett
duplicate
8:14 AM Ticket #4964 (residue_graph: edges should be a n x 2 array of unsigned ints) closed by Tristan Croll
fixed: Shouldn't hit this traceback anymore. ISOLDE still won't rebuild …
7:15 AM Ticket #5400 (ISOLDE simulation: No compatible CUDA device is available) created by shabir.najmudin@…
[…]
7:01 AM Ticket #5399 (AlphaFold failure due to blast reorganization) created by juliingaramo.98@…
[…]
6:28 AM Ticket #5398 (hide-dust shortcut: local variable 'maps' referenced before assignment) created by chimerax-bug-report@…
[…]
5:35 AM Ticket #4976 (Possibly fetching 'residues' of dead Structure) closed by Tristan Croll
fixed
5:25 AM Ticket #5026 ('SplitStereoCamera' object has no attribute 'field_width') closed by Tristan Croll
fixed: field width is now only used when the camera is orthographic.
5:22 AM Ticket #5037 (Update ISOLDE rotamers: wrapped C/C++ object of type QTableWidget has ...) closed by Tristan Croll
fixed
5:21 AM Ticket #5085 (ISOLDE: wrapped C/C++ object of type QTableWidget has been deleted) closed by Tristan Croll
fixed
5:21 AM Ticket #5140 (OpenMM: Error initializing CUDA: CUDA_ERROR_UNKNOWN) closed by Tristan Croll
can't reproduce: Actually, looking at where it crashed it's probably not a memory …
5:14 AM Ticket #5236 (Crash in OpenMM finding clashes) closed by Tristan Croll
can't reproduce: Not much to go on here, I'm afraid. Best advice is to update to …
5:11 AM Ticket #5272 (ISOLDE: All atoms for zone mask must be from a single model!) closed by Tristan Croll
fixed
4:02 AM Ticket #5277 (ISOLDE: various dead widgets being accessed) closed by Tristan Croll
duplicate: See my response to #5282 - for now, this can be avoided by not closing …
3:44 AM Ticket #5296 (PEE template incorrect) closed by Tristan Croll
fixed: Will close this as "fixed". The issue of possible out-of-date …
3:42 AM Ticket #5322 (OpenMMException: Error compiling program: nvrtc: error: invalid value ...) closed by Tristan Croll
duplicate: Sorry about the slow response. This problem is caused by the CUDA 11.0 …
2:13 AM Ticket #5397 (Crash in Qt on exit) created by chimerax-bug-report@…
[…]

Oct 12, 2021:

5:35 PM Ticket #5387 (After 'split': 'Sequence' object has no attribute 'structure') closed by pett
fixed: Fixed on both develop and release.
5:21 PM Ticket #5384 (volume style image: graphics out of memory) closed by Tom Goddard
nonchimerax: Improved the error reporting so the OpenGL "out of memory" message …
3:41 PM Ticket #5396 (Renew SSL certificate for vr.ucsf.edu before November 2021) created by Tom Goddard
-------- Forwarded Message -------- Subject: WARNING: Expiration …
2:56 PM Ticket #5390 (Graphics driver crash, macoOS 11.6, Intel Iris Plus Graphics 655) closed by Tom Goddard
nonchimerax: Apple graphics driver crash. Unfortunately Apple OpenGL graphics is …
2:16 PM 2021-10-14 created by Tom Goddard
2:15 PM Ticket #5395 (Create tutorial for putting model on web page) created by Tom Goddard
Maybe export as GLTF and figure out some javascript library that can …
2:09 PM DeveloperMeetings edited by Tom Goddard
(diff)
1:51 PM Ticket #5385 (Sequence Viewer scrollbar does not adjust for change in panel height) closed by pett
fixed: Fixed on develop and 1.3 branch
12:26 PM Ticket #5228 (Blastprotein: Visual fixes) closed by Zach Pearson
fixed: Looks like the last thing to do is the column widths. I spun that off …
12:24 PM Ticket #5394 (Blast Protein empty Ligand Symbols column) closed by Zach Pearson
fixed: Fixed in …
12:24 PM Ticket #5393 (blast command defaults to maxseqs 500, should be 100) closed by Zach Pearson
fixed: Fixed in …
12:06 PM Ticket #5394 (Blast Protein empty Ligand Symbols column) created by Elaine Meng
Seems like something went awry with parsing ligand symbols. E.g. open …
12:03 PM Ticket #5392 (Blast Protein won't start: No module named 'chimerax.blastprotein.tool') closed by Zach Pearson
fixed
11:42 AM Ticket #5393 (blast command defaults to maxseqs 500, should be 100) created by Elaine Meng
Tested in UCSF ChimeraX version: 1.3.dev202110120902 (2021-10-12) …
11:30 AM Ticket #5392 (Blast Protein won't start: No module named 'chimerax.blastprotein.tool') created by Elaine Meng
[…]
10:50 AM Ticket #5391 (Crash in Qt on exit) closed by pett
duplicate
10:06 AM Ticket #5388 (Crash setting style) closed by pett
can't reproduce
9:58 AM Ticket #5391 (Crash in Qt on exit) created by chimerax-bug-report@…
[…]
9:55 AM Ticket #5390 (Graphics driver crash, macoOS 11.6, Intel Iris Plus Graphics 655) created by tobias.starborg@…
[…]
8:38 AM Ticket #5381 (ISOLDE: wrapped C/C++ object of type QTableWidget has been deleted) closed by Tristan Croll
fixed: Forgot to clean up the last selected model's changes trigger on …
7:20 AM Ticket #5389 (Build warnings) created by Tristan Croll
[…]
4:37 AM Ticket #5388 (Crash setting style) created by chimerax-bug-report@…
[…]

Oct 11, 2021:

4:55 PM Ticket #5387 (After 'split': 'Sequence' object has no attribute 'structure') created by Elaine Meng
[…]
4:26 PM Ticket #5383 (v.session is None) closed by Tom Goddard
can't reproduce: The user closed model #3 which was a volume, then closed it again a …
3:45 PM Ticket #5379 (Missing Python traceback) closed by Tom Goddard
can't reproduce: C++ stack trace gives no useful info. Should have Python traceback …
3:41 PM Ticket #5377 (Graphics error with vr roomCamera) closed by Tom Goddard
can't reproduce: This glUniformMatrix4fv error when drawing the scene suggests the …
3:35 PM Ticket #5371 (Graphics driver crash, macOS 11.5.1, Intel Iris Graphics 6100) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
1:29 PM Ticket #5386 (Model Loops should allow mismatches in unmodeled part) created by Elaine Meng
[…] 2mnr3toy.cxs
1:20 PM Ticket #5385 (Sequence Viewer scrollbar does not adjust for change in panel height) created by Elaine Meng
E.g. show some alignment, then add a header. The scrollbar no longer …
12:02 PM Ticket #5384 (volume style image: graphics out of memory) created by chimerax-bug-report@…
[…]
12:01 PM Ticket #5383 (v.session is None) created by chimerax-bug-report@…
[…]
10:53 AM Ticket #5382 (Crash removing destroyed tool/dock widget) created by ypan@…
[…]
10:13 AM Ticket #5378 (Unable to open file for writing PDB) closed by pett
can't reproduce
10:06 AM Ticket #5375 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by pett
duplicate
10:02 AM Ticket #5381 (ISOLDE: wrapped C/C++ object of type QTableWidget has been deleted) created by rsr2169@…
[…]
9:39 AM Ticket #5374 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by pett
duplicate
9:37 AM Ticket #5373 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by pett
duplicate
9:35 AM Ticket #5372 (Save FASTA) closed by pett
not a bug: Hi Hui-Ting, You can save any sequence viewer's contents as a FASTA …
9:28 AM Ticket #5380 (Unknown crash) created by chimerax-bug-report@…
[…]
8:53 AM Ticket #5379 (Missing Python traceback) created by shujun.cai@…
[…]

Oct 10, 2021:

11:55 PM Ticket #5378 (Unable to open file for writing PDB) created by chimerax-bug-report@…
[…]
11:10 PM Ticket #5377 (Graphics error with vr roomCamera) created by chimerax-bug-report@…
[…]

Oct 8, 2021:

10:43 PM Ticket #5375 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by chimerax-bug-report@…
[…]
10:43 PM Ticket #5374 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by chimerax-bug-report@…
[…]
10:43 PM Ticket #5373 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by chimerax-bug-report@…
[…]
5:46 PM Ticket #5370 (matchmaker takes 45 seconds to align one small chain to virus capsid ...) closed by pett
duplicate: This is not actually because of chain matching, it is because DSSP on …
2:56 PM Ticket #5372 (Save FASTA) created by hchou01@…
[…]
2:08 PM Ticket #5371 (Graphics driver crash, macOS 11.5.1, Intel Iris Graphics 6100) created by tape9291@…
[…]
1:35 PM Ticket #5086 (Improve attribute-registration error reporting) closed by pett
fixed: Fixed on develop, not release 1.3
1:25 PM Ticket #5318 (Hang opening MRC files) closed by Tom Goddard
can't reproduce: No reply from reporter.
12:51 PM Ticket #5367 (Various graphics errors) closed by Tom Goddard
nonchimerax: This is a Mac Qt window toolkit bug "Could not find virtual screen for …
12:28 PM Dev2021-10-14 created by Tom Goddard
12:26 PM DeveloperMeetings edited by Tom Goddard
(diff)
11:44 AM Ticket #5365 (errors in tutorials for developers + fixes) closed by pett
fixed: Again, thanks for the feedback. Fixed #1 as per your suggestion. I …
10:58 AM Ticket #5370 (matchmaker takes 45 seconds to align one small chain to virus capsid ...) created by goddard@…
[…]
10:02 AM Ticket #5369 (Crash processing atom spec) closed by pett
duplicate
10:00 AM Ticket #5368 (Crash removing destroyed tool/dock widget) closed by pett
can't reproduce
7:12 AM Ticket #5369 (Crash processing atom spec) created by chimerax-bug-report@…
[…]
6:57 AM Ticket #5368 (Crash removing destroyed tool/dock widget) created by chimerax-bug-report@…
[…]
6:25 AM Ticket #5367 (Various graphics errors) created by aleutz@…
[…]

Oct 7, 2021:

6:13 PM Ticket #5366 (Volume contour level for NIH 3D printable surface) created by phil.cruz@…
At today's NIAID meeting (Oct 7, 2021) we discussed a problem with the …
6:01 PM 2021-10-7 edited by Tom Goddard
(diff)
4:55 PM Ticket #5364 (ChimeraX Molecular Dynamics Viewer) closed by pett
duplicate: Duplicate of #5363
4:54 PM Ticket #5363 (MolecularDynamicsViewer format) closed by pett
not a bug: Hi Tyler, I believe the MolecularDynamicsViewer plugin expects the …
4:42 PM Ticket #5361 (Trying to save Color object as setting) closed by pett
fixed: Hi Luis, Thanks for reporting this problem. I have fixed it now and …
2:03 PM NTTData edited by Elaine Meng
(diff)
2:01 PM NTTData edited by Elaine Meng
(diff)
1:58 PM NTTData edited by Elaine Meng
(diff)
1:55 PM NTTData edited by Elaine Meng
(diff)
1:06 PM ChangeLog edited by Elaine Meng
(diff)
12:50 PM Ticket #5365 (errors in tutorials for developers + fixes) created by rgizinski@…
[…]
11:35 AM Ticket #5364 (ChimeraX Molecular Dynamics Viewer) created by finnegan.73@…
[…] CAR_traj_testing.pdb
11:09 AM Ticket #5363 (MolecularDynamicsViewer format) created by finnegan.73@…
[…] CAR_traj_testing.pdb
10:55 AM Ticket #5362 (Cannot restore session: _pickle.UnpicklingError: invalid load key) closed by pett
duplicate: As far as we know, opening a new session in an old version.
7:37 AM Ticket #5362 (Cannot restore session: _pickle.UnpicklingError: invalid load key) created by chimerax-bug-report@…
[…]
6:57 AM Ticket #5361 (Trying to save Color object as setting) created by fcofas@…
[…]

Oct 6, 2021:

6:00 PM Ticket #5305 (loop modeling dimer, one loop goes crazy) closed by pett
nonchimerax: Modeling long loops is unreliable, as per Ben: On Oct 4, 2021, at …
5:33 PM Ticket #5359 (Blast Protein results processing: ValueError: substring not found) closed by Zach Pearson
fixed: [https://github.com/RBVI/ChimeraX/commit/16dfdbdd3a29510c516678e54aedd9
1:58 PM Ticket #5358 (crystalcontacts finds no unit cell info for PDB mmCIF restored from session) closed by Tom Goddard
fixed: Fixed. Made code look for mmcif tables in metadata to identify …
1:41 PM Ticket #5360 (Blast Protein "Default" button does not restore columns previously ...) closed by pett
fixed: Fixed the problem where 'Default' was restoring the standard columns. …
1:05 PM Ticket #5357 (Error creating HTML widget profile) closed by pett
duplicate: duplicate of #5283
12:57 PM Ticket #5356 (Read PDB file: Can't bond an atom to itself) closed by pett
duplicate
12:46 PM Ticket #5355 (Read PDB file: Can't bond an atom to itself) closed by pett
fixed
12:40 PM Ticket #5360 (Blast Protein "Default" button does not restore columns previously ...) created by Elaine Meng
In today's daily build UCSF ChimeraX version: 1.3.dev202110060041 …
12:24 PM Ticket #5359 (Blast Protein results processing: ValueError: substring not found) created by Elaine Meng
[…]
12:06 PM 2021-10-7 created by Tom Goddard
12:03 PM DeveloperMeetings edited by Tom Goddard
(diff)
11:50 AM Ticket #5354 (Crystal Contacts: name 'm' is not defined) closed by Tom Goddard
fixed: Fixed. The crystalcontacts command was trying to report that "No unit …
11:48 AM Ticket #5358 (crystalcontacts finds no unit cell info for PDB mmCIF restored from session) created by macbas@…
[…]
10:47 AM Ticket #5357 (Error creating HTML widget profile) created by chimerax-bug-report@…
[…]
9:39 AM Ticket #5356 (Read PDB file: Can't bond an atom to itself) created by apate31@…
[…]
9:37 AM Ticket #5355 (Read PDB file: Can't bond an atom to itself) created by apate31@…
[…]
8:55 AM Ticket #5353 (Crash in Qt on exit) closed by pett
duplicate
8:54 AM Ticket #5352 (Crash in garbage collection during new-object allocation) closed by pett
duplicate: Seemingly fixed by going to newer version of Python
8:44 AM Ticket #5346 (Cannot restore session: _pickle.UnpicklingError: invalid load key) closed by pett
duplicate: As far as we know, opening a new session in an old version.
8:39 AM Ticket #5345 (Crash in Qt on exit) closed by pett
nonchimerax
6:15 AM Ticket #5354 (Crystal Contacts: name 'm' is not defined) created by macbas@…
[…]
3:23 AM Ticket #5353 (Crash in Qt on exit) created by chimerax-bug-report@…
[…]
3:17 AM Ticket #5352 (Crash in garbage collection during new-object allocation) created by chimerax-bug-report@…
[…]
12:04 AM Ticket #5351 (HTML widgets blank) created by Ben.Tatman@…
[…] chimeraxlog.png

Oct 5, 2021:

7:20 PM Ticket #5350 (faulthandler tracebacks with no ChimeraX crash) closed by Tom Goddard
not a bug: Apparently faulthandler appears not intended to guarantee that only …
7:13 PM Ticket #5348 (Windows crashes faulthandler sometimes reports many fatal exceptions) closed by Tom Goddard
not a bug: Conclusion: Be aware that the faulthandler python tracebacks in …
4:42 PM Ticket #5350 (faulthandler tracebacks with no ChimeraX crash) created by goddard@…
[…] crash_traceback.txt
4:05 PM Ticket #5349 (blast results load/align structure only aligns first model in NMR ensemble) created by Elaine Meng
For example if you search PDB using 1t2p chain A, then hits 1ija, …
3:30 PM Ticket #5348 (Windows crashes faulthandler sometimes reports many fatal exceptions) created by Tom Goddard
How is it that the Python faulthandler module is reporting many fatal …
3:02 PM Ticket #5347 (Saving a session registers all commands reducing reliability) created by Tom Goddard
When saving a session it calls core.commands.list_aliases() and that …
1:21 PM Ticket #5346 (Cannot restore session: _pickle.UnpicklingError: invalid load key) created by chimerax-bug-report@…
[…]
1:21 PM Ticket #5345 (Crash in Qt on exit) created by chimerax-bug-report@…
[…]
12:01 PM Ticket #3761 (Warning when quitting about WebEnginePage profile released too soon) reopened by Tom Goddard
Unfortunately this fix was not a real fix. It simply made the …
11:55 AM Ticket #5344 (Logger: RuntimeError: wrapped C/C++ object of type QTimer has been deleted) closed by Tom Goddard
fixed: Fixed. The "--exit" option was not cleaning up the gui by calling …
10:35 AM Ticket #5344 (Logger: RuntimeError: wrapped C/C++ object of type QTimer has been deleted) created by guillaume.gaullier@…
Begin forwarded message: From: Guillaume Gaullier via ChimeraX-users …
9:39 AM Ticket #5341 (Crash in Qt on exit) closed by pett
can't reproduce: I guess there's a remote chance that this is the destroyed-signal bug, …
9:35 AM Ticket #5340 (Crash opening session) closed by pett
can't reproduce: Possibly the destroyed-signal bug fixed a few days ago.
9:32 AM Ticket #5339 (Crash in garbage collection during new-object allocation) closed by pett
duplicate: Hi Samuel, Thanks for reporting this problem. We have not had this …
9:28 AM Ticket #5338 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by pett
duplicate
9:27 AM Ticket #5337 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by pett
duplicate
9:26 AM Ticket #5336 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by pett
duplicate
9:25 AM Ticket #5335 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by pett
duplicate
9:22 AM Ticket #5334 (Unknown crash) closed by pett
can't reproduce
9:21 AM Ticket #5333 (Unknown crash) closed by pett
can't reproduce
9:19 AM Ticket #5332 (Crash saving session) closed by pett
can't reproduce: The information you provided _was_ helpful -- it was the automatic …
9:08 AM ChangeLog edited by Elaine Meng
(diff)
8:55 AM Ticket #5343 (Session tries to restore non-StateManager as StateManager) created by chimerax-bug-report@…
[…]
7:22 AM Ticket #5342 (Crash with largely trashed stack) created by ypan@…
[…]
7:13 AM Ticket #5341 (Crash in Qt on exit) created by chimerax-bug-report@…
[…]
3:19 AM Ticket #5340 (Crash opening session) created by chimerax-bug-report@…
[…]
3:00 AM Ticket #5339 (Crash in garbage collection during new-object allocation) created by bssfh@…
[…]
12:51 AM Ticket #5326 (Blastprotein: Some NR results don't have all the columns) closed by Zach Pearson
fixed: Should be fixed by …

Oct 4, 2021:

11:59 PM Ticket #5338 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by chimerax-bug-report@…
[…]
11:58 PM Ticket #5337 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by chimerax-bug-report@…
[…]
11:58 PM Ticket #5336 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by chimerax-bug-report@…
[…]
11:58 PM Ticket #5335 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by chimerax-bug-report@…
[…]
8:10 PM Ticket #5334 (Unknown crash) created by chimerax-bug-report@…
[…]
7:33 PM Ticket #5333 (Unknown crash) created by chimerax-bug-report@…
[…]
5:49 PM Ticket #5332 (Crash saving session) created by cesar.menor@…
[…]
5:07 PM Ticket #5327 (Blastprotein: Parse Description for PDB, NR blast hits into Title + Species) closed by Zach Pearson
fixed: [https://github.com/RBVI/ChimeraX/commit/7b77976a437db3c07328674a7d08e6
11:19 AM Ticket #5330 (Graphics driver crash, macOS 11.2.3, Intel Iris Plus Graphics 650) closed by Tom Goddard
nonchimerax: Apple graphics driver crash. For more info …
11:17 AM Ticket #5329 (Graphics driver crash, macOS 10.15.7, AMD Radeon Pro 5500M) closed by Tom Goddard
nonchimerax: Apple graphics driver crash. For more info …
10:49 AM Ticket #5321 (Crash in garbage collection) closed by pett
fixed: Hi Juyong, As Tom mentioned, this bug has not been reported in recent …
10:29 AM Ticket #5331 (Unknown crash) closed by pett
can't reproduce
10:26 AM Ticket #5328 (Crash in AtomSearchTree implementation) closed by pett
can't reproduce: If the Python stack trace is to be believed, the user was opening a …
9:37 AM Ticket #5325 (Can't save settings file (in use by another process)) closed by pett
duplicate: dup of #3187

Oct 3, 2021:

11:16 PM Ticket #5331 (Unknown crash) created by chimerax-bug-report@…
[…]
3:08 PM Ticket #5330 (Graphics driver crash, macOS 11.2.3, Intel Iris Plus Graphics 650) created by jeffreycampos11@…
[…]
2:50 PM Ticket #5329 (Graphics driver crash, macOS 10.15.7, AMD Radeon Pro 5500M) created by Agnieszka.Obarska-Kosinska@…
[…]

Oct 2, 2021:

8:37 AM Ticket #5328 (Crash in AtomSearchTree implementation) created by chimerax-bug-report@…
[…]

Oct 1, 2021:

5:22 PM Ticket #5194 (Meta: Rewrite BLAST GUI in Qt) closed by Zach Pearson
fixed
5:20 PM Ticket #5327 (Blastprotein: Parse Description for PDB, NR blast hits into Title + Species) created by Zach Pearson
From Elaine: […]
5:18 PM Ticket #5326 (Blastprotein: Some NR results don't have all the columns) created by Zach Pearson
Spinoff of #5228
5:18 PM Ticket #5325 (Can't save settings file (in use by another process)) created by chimerax-bug-report@…
[…]
4:34 PM Ticket #5089 (Crash in save dialog) closed by pett
can't reproduce: Failed to reproduce this on rbvi-gassho
3:42 PM Ticket #5323 (Crash showing open dialog) closed by pett
can't reproduce: Same weird behavior where the same thread is reported a bazillion …
3:29 PM Ticket #5324 (Shorten blast results column titles if they're the longest thing in ...) created by Zach Pearson
Split off from #5228
2:46 PM Ticket #5323 (Crash showing open dialog) created by chimerax-bug-report@…
[…]
2:26 PM Ticket #5322 (OpenMMException: Error compiling program: nvrtc: error: invalid value ...) created by soumya-joseph@…
[…]

Sep 30, 2021:

8:24 PM Ticket #5320 (Tile command layout is wrong if one model is rotated) closed by Tom Goddard
fixed
8:24 PM Ticket #5320 (Tile command layout is wrong if one model is rotated) reopened by Tom Goddard
8:22 PM Ticket #5320 (Tile command layout is wrong if one model is rotated) closed by Tom Goddard
fixed: Fixed. The tile command did not handle models with different …
7:41 PM 2021-9-30 edited by Tom Goddard
(diff)
7:30 PM Dev2021-9-30 edited by Tom Goddard
(diff)
7:02 PM Ticket #5321 (Crash in garbage collection) created by juyong.lee@…
[…]
5:40 PM Ticket #5320 (Tile command layout is wrong if one model is rotated) created by p.shah.lab@…
[…]
2:02 PM Ticket #5319 (bundle_info.xml needs a doctype) created by Greg Couch
Would like to be able valididate bundle_info.xml files, but there's no …
9:52 AM Ticket #5317 (Crash in garbage collection) closed by pett
duplicate: Hi Yen-Li, Looking at the log in your report, this looks like a bug …
9:28 AM Ticket #5318 (Hang opening MRC files) created by p.drougkas@…
Hi ChimeraX heroes, I feel bad for contacting you so often with all …
12:46 AM Ticket #5316 (Cannot save session in today's daily build if blastprotein was used) closed by Zach Pearson
fixed: Tracebacks were caused by the same bad variable name as #5315; the …

Sep 29, 2021:

8:01 PM Ticket #5317 (Crash in garbage collection) created by yen-li.li@…
[…]
6:47 PM Ticket #5316 (Cannot save session in today's daily build if blastprotein was used) created by fred.mast@…
[…]
3:30 PM Ticket #5315 (Can't save blastprotein session in latest daily build) closed by Zach Pearson
fixed: Fixed in …
3:29 PM Ticket #5311 (crossfade command incorrectly starts from solid black when file ...) closed by Tom Goddard
fixed: Fixed. The crossfade command was using the rendering to the graphics …
3:09 PM Ticket #5315 (Can't save blastprotein session in latest daily build) created by Elaine Meng
[…]
1:22 PM Ticket #5314 (Movie encode on Redhat Enterprise Linux 8 fails to find libbz2.so) created by guillaume.gaullier@…
Begin forwarded message: From: Guillaume Gaullier via ChimeraX-users …
1:16 PM Ticket #5313 (Add an undo move capability) created by olibclarke@…
Begin forwarded message: From: Oliver Clarke via ChimeraX-users …
1:06 PM Ticket #5312 (Add a trackpad twist speed preference setting) created by olibclarke@…
Begin forwarded message: On Sep 29, 2021, at 12:42 PM, Oliver Clarke …
12:08 PM Ticket #5306 (Graphics crash, macOS 10.13.6, Intel Iris Graphics 6100) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
11:58 AM Ticket #5311 (crossfade command incorrectly starts from solid black when file ...) created by guillaume.gaullier@…
[…]
11:56 AM Ticket #5307 (blast protein checkboxes semi-not working again) closed by Zach Pearson
fixed: I believe this was fixed in …
9:38 AM Ticket #5309 (Unknown crash) closed by pett
can't reproduce
9:37 AM Ticket #5308 (Crash in garbage collection) closed by pett
duplicate: Duplicate of #5303
9:32 AM Ticket #5304 (Crash in sseq.structure) closed by pett
duplicate
6:37 AM Ticket #5310 (Unknown crash) created by biswambhar.biswas@…
[…]
1:53 AM Ticket #5309 (Unknown crash) created by chimerax-bug-report@…
[…]

Sep 28, 2021:

6:34 PM Ticket #5287 (Blast NR search omits the sequence hits) closed by Zach Pearson
fixed
6:31 PM Ticket #5308 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
5:36 PM Ticket #5307 (blast protein checkboxes semi-not working again) created by Elaine Meng
I say "semi-not working" because after you click them on and off …
5:23 PM Ticket #5306 (Graphics crash, macOS 10.13.6, Intel Iris Graphics 6100) created by chimerax-bug-report@…
[…]
2:30 PM Ticket #5303 (Crash in garbage collection) closed by pett
fixed: Using del seems to work fine.
1:53 PM Ticket #5305 (loop modeling dimer, one loop goes crazy) created by Elaine Meng
(1) open 1qo7 (2) click in Log to open corresponding UniProt sequence …
1:38 PM Ticket #5304 (Crash in sseq.structure) created by chimerax-bug-report@…
[…]
1:29 PM Ticket #5302 (Unknown crash) closed by pett
can't reproduce
1:13 PM Ticket #5303 (Crash in garbage collection) created by p.drougkas@…
[…]
1:02 PM Ticket #5302 (Unknown crash) created by chimerax-bug-report@…
[…]
12:55 PM Ticket #5301 (Crash in QOpenGLContext.swapBuffers() rendering side view on Windows) closed by Tom Goddard
can't reproduce: Possible graphics driver crash. Or maybe Qt problem with window being …
12:48 PM Ticket #5285 (ChimeraX hangs at startup) closed by Tom Goddard
can't reproduce: Eric was not able to reproduce the hang at startup. For the separate …
12:22 PM Dev2021-9-30 created by Tom Goddard
12:21 PM 2021-9-30 created by Tom Goddard
12:21 PM DeveloperMeetings edited by Tom Goddard
(diff)
12:04 PM Ticket #5300 (Graphics crash, macOS 10.15.6, Intel UHD Graphics 617) closed by Tom Goddard
nonchimerax: Apple graphics drive crash.
11:59 AM Ticket #5297 (Graphics crash, macOS 10.14.6, Intel Iris Plus Graphics 650, report 2) closed by Tom Goddard
duplicate: Duplicate of #5291
10:12 AM Ticket #5301 (Crash in QOpenGLContext.swapBuffers() rendering side view on Windows) created by chimerax-bug-report@…
[…]
9:11 AM Ticket #5299 (Session code trying to take len() of 'SurfaceUpdaters') closed by pett
duplicate: Hi Leonie, Thanks for reporting this problem. It was fixed about 5 …
8:20 AM Ticket #5300 (Graphics crash, macOS 10.15.6, Intel UHD Graphics 617) created by chimerax-bug-report@…
[…]
8:09 AM Ticket #5299 (Session code trying to take len() of 'SurfaceUpdaters') created by la2859@…
[…]
5:56 AM Ticket #5298 (RDkit dependency) created by Tristan Croll
[…]

Sep 27, 2021:

7:31 PM Ticket #5297 (Graphics crash, macOS 10.14.6, Intel Iris Plus Graphics 650, report 2) created by chimerax-bug-report@…
[…]
7:10 PM Ticket #5296 (PEE template incorrect) created by rohou.alexis@…
[…]
6:27 PM Ticket #3852 (Attempt to install ISOLDE into ChimeraX 1.1.1) closed by Greg Couch
duplicate: This was fixed.
5:41 PM Ticket #5295 (toolshed uninstall should be able to unistall user bundles that ...) created by Greg Couch
For example, if the UI bundle is installed from the toolshed, then it …
4:59 PM Ticket #5289 (Dependency conflict trying to install ISOLDE into 1.2.5) closed by Greg Couch
limitation: Incompatible version of UI bundle was installed. Unfortunately to …
4:40 PM Ticket #4664 (Please change the CentOS rpm so that it installs in other locations easily) closed by Greg Couch
fixed: I believe this is fixed. Please file a new bug report if not.
4:39 PM Ticket #3244 ("toolshed uninstall" failure) closed by Greg Couch
fixed: This error should be no more. Much better compatibility testing …
4:07 PM Ticket #3580 (Toolshed uninstall: permission denied: install-timestamp) closed by Greg Couch
fixed: This was fixed in April. commit 84e390fe782a36c18bd26ad5348b06b66c5c3301
3:56 PM Ticket #5267 (blast jobs given nonunique names) closed by Zach Pearson
fixed: [https://github.com/RBVI/ChimeraX/commit/a8a1667c14792e53b38e162f8f3562
1:38 PM Ticket #5216 (need better parsing of BlastProtein AlphaFold results) closed by Zach Pearson
fixed: Thank you! …
1:20 PM Ticket #5294 (Add flat transparency option) created by kastner@…
Begin forwarded message: From: David William Kastner via …
1:13 PM Ticket #5293 (Crash opening EM map) closed by Tom Goddard
can't reproduce: This is likely an Apple graphics driver crash. Details …
12:56 PM Ticket #5291 (Graphics crash, macOS 10.14.6, Intel Iris Plus Graphics 650) closed by Tom Goddard
nonchimerax: Apple graphics driver crash. Details …
12:49 PM Ticket #5290 (Graphics crash, macOS 10.14.6, Intel HD Graphics 4000) closed by Tom Goddard
nonchimerax: Apple graphics driver crash. Details …
12:02 PM Ticket #5288 (Cannot save movie to public desktop) closed by Tom Goddard
nonchimerax: I guess you are using Microsoft OneDrive. It replaces your personal …
10:34 AM Ticket #5293 (Crash opening EM map) created by batras@…
[…]
10:29 AM Ticket #5133 (Blast REST service error) closed by Zach Pearson
fixed
10:23 AM Ticket #5292 (Session code trying to take len() of 'SurfaceUpdaters') closed by pett
duplicate: Hi Yen-Li, Thanks for reporting this problem. It was fixed 4 days …
2:56 AM Ticket #5292 (Session code trying to take len() of 'SurfaceUpdaters') created by yen-li.li@…
[…]

Sep 26, 2021:

10:04 PM Ticket #5291 (Graphics crash, macOS 10.14.6, Intel Iris Plus Graphics 650) created by chimerax-bug-report@…
[…]
1:17 PM Ticket #5290 (Graphics crash, macOS 10.14.6, Intel HD Graphics 4000) created by heinz.nasheuer@…
[…]
1:53 AM Ticket #5289 (Dependency conflict trying to install ISOLDE into 1.2.5) created by benhaijing@…
[…]

Sep 25, 2021:

7:35 AM Ticket #5288 (Cannot save movie to public desktop) created by daniel_moretti.m@…
[…]
12:14 AM Ticket #3967 (Toolshed json parsing error and volume session-restore error) closed by Greg Couch
fixed: Something corrupted the avaailable.json file. Going to wait for …
Note: See TracTimeline for information about the timeline view.