Timeline



Mar 19, 2022:

9:13 PM Ticket #6414 (Crash creating QWebEngineProfile) created by chimerax-bug-report@…
[…]
11:13 AM Ticket #6413 (Windows Qt6 editable combobox font problematic) created by Tony Schaefer
[…] cmd line descenders.zip
3:09 AM Ticket #6412 (Crash while running AlphaFold prediction) created by chimerax-bug-report@…
[…]
2:45 AM Ticket #6411 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
2:03 AM Ticket #6410 (Crash in VerletIntegrator) created by chimerax-bug-report@…
[…]

Mar 18, 2022:

11:58 PM Ticket #6409 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
6:01 PM Ticket #6408 (Saving GLTF: Structure' object has no attribute 'is_visible') closed by Tom Goddard
fixed: Fixed. Code was using is_visible attribute instead of visible …
5:58 PM Ticket #6408 (Saving GLTF: Structure' object has no attribute 'is_visible') created by goddard@…
[…]
5:55 PM Ticket #5031 (How to copy a Sequence Viewer subsequence to the clip board) closed by pett
fixed: Implemented same copy-sequence feature set that Chimera had. Dialog …
5:49 PM Ticket #6405 ("label height" not accepting non-integer) closed by Tom Goddard
duplicate: I see now. The error is from the label height GUI, menu entry Actions …
5:42 PM Ticket #6407 (Make combine command create shorter new chain ids) created by goddard@…
[…]
11:14 AM Ticket #6404 (Menu items not properly displayed in Segment Map pane) closed by Tom Goddard
fixed: If you mean the menu bar on the Segment Map (Segger) panel has …
9:17 AM Ticket #6406 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
4:21 AM Ticket #6406 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
2:02 AM Ticket #6405 ("label height" not accepting non-integer) created by j.r.lewandowski@…
[…]

Mar 17, 2022:

8:00 PM Ticket #6404 (Menu items not properly displayed in Segment Map pane) created by mcm35@…
[…]
4:19 PM Ticket #6370 (Breaking QCheckbox stateChanged signal change in Qt6) closed by Zach Pearson
wontfix: Closing for now since a workaround has been decided on. If at any …
3:34 PM Ticket #6392 (cannot import name 'QWebEngineDownloadRequest' from 'Qt.QtWebEngineCore') closed by Zach Pearson
fixed: Thank you for your bug report. I believe this problem was fixed some …
3:27 PM Ticket #6356 (PrefersNonDefaultGPU=true) closed by Greg Couch
nonchimerax: What is the output of "lspci | grep VGA"? I want to confirm that the …
2:19 PM Ticket #6362 (uic not in Qt shim) closed by Zach Pearson
not a bug: OK, closing for now but feel free to send me an email if you need me …
2:00 PM Ticket #6399 (Crash using File→Open dialog on Windows and/or returning from function) closed by pett
can't reproduce
1:56 PM Ticket #6398 (Crash in garbage collection during new object allocation) closed by pett
duplicate: Hi Kasey, Thanks for reporting this problem. We believe it was a …
1:50 PM Ticket #6403 (Add a centering option when saving GLTF) created by phil.cruz@…
Phil Cruz mentioned in today's NIAID / ChimeraX meeting that he needed …
1:49 PM Ticket #6397 (Crash using File→Open dialog on Windows and/or returning from function) closed by pett
can't reproduce
1:46 PM Ticket #6396 (Crash in event loop after matchmaker) closed by pett
can't reproduce
1:45 PM Ticket #6395 (Crash in event loop) closed by pett
can't reproduce
1:43 PM Ticket #6402 (QWebEnginePage has no view() method) created by pett
Reproduce by opening 5uhb and clicking on "rifampicin" in the …
1:40 PM NTTData edited by pett
(diff)
1:39 PM NTTData edited by pett
(diff)
1:36 PM NTTData edited by Elaine Meng
(diff)
1:23 PM NTTData edited by Elaine Meng
(diff)
1:00 PM Ticket #6394 (Crash using File→Open dialog on Windows and/or adding trigger handler) closed by pett
can't reproduce
12:53 PM Ticket #6393 (Crash in event loop) closed by pett
can't reproduce
12:20 PM 2022-3-17 edited by Tom Goddard
(diff)
12:20 PM 2022-3-17 edited by Tom Goddard
(diff)
11:04 AM Ticket #6401 (problem opening solid state NMR structures (7K3G)) created by J.Procter@…
[…]
10:56 AM Ticket #6400 (Toolshed offers Install button for ISOLDE when dependencies not met) created by goddard@…
[…]
10:54 AM Ticket #6391 (Phenix douse log link crashes ChimeraX) closed by pett
duplicate: It's because of the long atom spec issued by the link's "sel" command. …
7:42 AM Ticket #6399 (Crash using File→Open dialog on Windows and/or returning from function) created by chimerax-bug-report@…
[…]
7:15 AM Ticket #6398 (Crash in garbage collection during new object allocation) created by kaseyc327@…
[…]
7:06 AM Ticket #6397 (Crash using File→Open dialog on Windows and/or returning from function) created by chimerax-bug-report@…
[…]
3:06 AM Ticket #6396 (Crash in event loop after matchmaker) created by chimerax-bug-report@…
[…]
2:44 AM Ticket #6395 (Crash in event loop) created by chimerax-bug-report@…
[…]

Mar 16, 2022:

11:48 PM Ticket #6394 (Crash using File→Open dialog on Windows and/or adding trigger handler) created by chimerax-bug-report@…
[…]
11:26 PM Ticket #6393 (Crash in event loop) created by chimerax-bug-report@…
[…]
8:20 PM Ticket #6330 (KeyError handling Blast results) closed by Zach Pearson
fixed: I added some defensive code to the blastprotein bundle to handle the …
5:35 PM Ticket #6392 (cannot import name 'QWebEngineDownloadRequest' from 'Qt.QtWebEngineCore') created by murpholinox@…
[…]
2:00 PM Ticket #6391 (Phenix douse log link crashes ChimeraX) created by pett
[…]
10:51 AM Ticket #6388 (Crash using File→Open on Windows) closed by pett
can't reproduce
10:48 AM Ticket #6387 (Found H-bonds differ) closed by pett
not a bug: Hi, It looks like that when you used the tool you unchecked the …
10:33 AM Ticket #6385 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
10:30 AM Ticket #6390 (Crash using File→Open on Windows and/or in return statement) created by adrian.young@…
[…]
9:47 AM Ticket #6389 (Toolshed list of bundle developers gives error) created by Tom Goddard
Using the Toolshed web page "Bundle Developers" link gives a long …
9:03 AM Ticket #6388 (Crash using File→Open on Windows) created by chimerax-bug-report@…
[…]
5:31 AM Ticket #6387 (Found H-bonds differ) created by Qchao.sun@…
[…]
4:03 AM Ticket #6386 (Avoid opening a zillion alignments) created by chimerax-bug-report@…
[…]
3:17 AM Ticket #6385 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]

Mar 15, 2022:

5:13 PM Ticket #6384 (Host Trac using a cloud service) created by Tom Goddard
We should investigate hosting our Trac databases for Chimera and …
2:45 PM Ticket #6383 (MD Viewer: could not broadcast input array from shape (0) into shape (0,3)) created by parmar@…
[…] coords.pdb
1:54 PM Ticket #6380 (Qt6: SortOrder no longer castable to int) closed by pett
fixed: Hi Gulriz, This is fixed in tomorrow's daily build. --Eric Eric …
12:46 PM Ticket #6382 (Bad Qt6 import in help viewer causing Qt5 problems) closed by Zach Pearson
fixed: I believe this problem was fixed in …
12:29 PM Ticket #6382 (Bad Qt6 import in help viewer causing Qt5 problems) created by chimerax-bug-report@…
[…]
11:25 AM Ticket #4692 (Loading coordsets does not bring up slider + related problems) closed by pett
fixed: Was fixed in September of last year when the 'slider' option (default …
11:17 AM Ticket #6381 (Add a tug command) created by Tom Goddard
Would be nice to have a tug command that would allow tugging specified …
10:06 AM Ticket #6377 (Crash saving/encoding movie(?)) closed by Tom Goddard
can't reproduce: Top hits for this error code "Windows fatal exception: code …
9:57 AM 2022-3-17 created by Tom Goddard
9:56 AM DeveloperMeetings edited by Tom Goddard
(diff)
6:50 AM Ticket #6380 (Qt6: SortOrder no longer castable to int) created by gulriz.kurban@…
[…]
6:39 AM Ticket #6379 (Crash using File→Open on Windows and/or in return statement) created by martti.tolvanen@…
[…]
4:27 AM Ticket #6378 (Registration check: 'utf-8' codec can't decode byte) created by weberm@…
[…]

Mar 14, 2022:

9:38 PM Ticket #6377 (Crash saving/encoding movie(?)) created by chimerax-bug-report@…
[…]
5:48 PM Ticket #6376 (Segger menu bar text squished on Mac with Qt 6) closed by Tom Goddard
fixed: Fixed. Work around Qt bug with explicit width and height for File and …
5:42 PM Ticket #6376 (Segger menu bar text squished on Mac with Qt 6) created by goddard@…
[…]
5:17 PM Ticket #6375 (Segger make_surfaces recursion) closed by Tom Goddard
fixed: Fixed. The Segger menu entry Regions / Regions Overlapping Current …
3:58 PM Ticket #6371 (Graphics crash, macOS 10.14.6, Intel Iris Plus Graphics 650) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
1:27 PM Ticket #6348 (Parsing BlastProtein results failed: 'hits') closed by Zach Pearson
fixed: [https://github.com/RBVI/ChimeraX/commit/ffd748d1417c0346643bc57287d768
12:38 PM Ticket #6375 (Segger make_surfaces recursion) created by chimerax-bug-report@…
[…]
12:00 PM Ticket #6374 (Crash in removeDockWidget()) closed by pett
can't reproduce
11:59 AM ChangeLog edited by Tom Goddard
(diff)
11:57 AM Ticket #6372 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
11:53 AM Ticket #6369 (Qt6 shell tab-completion crash) closed by pett
duplicate: Duplicate of #6363; adding Tony to recipient list for that ticket
11:51 AM Ticket #6368 (H-bonds: acc_phi_psi() takes 8 positional arguments but 9 were given) closed by pett
can't reproduce: This *typically* happens for structures with bad connectivity, but I …

Mar 12, 2022:

10:48 PM Ticket #6374 (Crash in removeDockWidget()) created by chimerax-bug-report@…
[…]
10:58 AM Ticket #6373 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
7:42 AM Ticket #6372 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]

Mar 12, 2022:

11:06 PM Ticket #6371 (Graphics crash, macOS 10.14.6, Intel Iris Plus Graphics 650) created by chimerax-bug-report@…
[…]
10:41 PM Ticket #6370 (Breaking QCheckbox stateChanged signal change in Qt6) created by Tony Schaefer
[…]
10:18 PM Ticket #6369 (Qt6 shell tab-completion crash) created by Tony Schaefer
[…]
7:27 PM Ticket #6368 (H-bonds: acc_phi_psi() takes 8 positional arguments but 9 were given) created by chimerax-bug-report@…
[…]

Mar 11, 2022:

6:33 PM Ticket #6367 (Crash opening PDB file) created by heather.noriega@…
[…] Pert_2PEG_400_model_cordUNG.pdb
2:09 PM Ticket #6268 (Release PyQt6 to the daily builds) closed by Zach Pearson
fixed: It's out!
1:18 PM Ticket #6366 ("log metadata" info not preserved through sessions) created by Elaine Meng
[…]
12:19 PM Ticket #6365 (Loading pickled file in thread crashes) created by Tristan Croll
[…]
12:06 PM Ticket #6364 (Qt6 shell tab-completion crash) closed by pett
duplicate
11:44 AM Ticket #6360 (Graphics crash, macOS 12.2.1, Intel HD Graphics 615) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
11:44 AM Ticket #6364 (Qt6 shell tab-completion crash) created by pett
[…]
11:42 AM Ticket #6359 (Graphics crash, macOS 10.13.6, Intel Iris Plus Graphics 655) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
11:40 AM Ticket #6358 (Graphics crash, macOS 11.6.4, Intel Iris Plus Graphics 655, dual display) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
11:03 AM Ticket #6363 (Qt6 shell tab-completion crash) created by Tristan Croll
[…]
10:15 AM Ticket #6361 (ISOLDE Qt6 splash screen crash) closed by Tristan Croll
invalid: Wait, crap - my bad. Seems somehow I forgot to actually commit the fix …
9:54 AM Ticket #6362 (uic not in Qt shim) created by Tristan Croll
[…]
9:50 AM Ticket #6361 (ISOLDE Qt6 splash screen crash) created by Tristan Croll
[…]
9:43 AM Ticket #6357 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
8:45 AM Ticket #6360 (Graphics crash, macOS 12.2.1, Intel HD Graphics 615) created by chimerax-bug-report@…
[…]
6:44 AM Ticket #6359 (Graphics crash, macOS 10.13.6, Intel Iris Plus Graphics 655) created by chimerax-bug-report@…
[…]
3:24 AM Ticket #6358 (Graphics crash, macOS 11.6.4, Intel Iris Plus Graphics 655, dual display) created by chimerax-bug-report@…
[…]
12:52 AM Ticket #6357 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]

Mar 10, 2022:

6:32 PM Ticket #6356 (PrefersNonDefaultGPU=true) created by moimaian@…
[…] UCSF-ChimeraX-1.3.desktop
6:00 PM Ticket #6355 (Toolbar: AttributeError: 'QDropEvent' object has no attribute 'pos') created by Greg Couch
[…]
3:56 PM Dev2022-3-10 edited by Tom Goddard
(diff)
3:56 PM Ticket #6345 (BLAST search takes 60 seconds in daily build, 7 seconds in ChimeraX 1.3) closed by Zach Pearson
fixed
3:07 PM Ticket #6354 (Session restore: invalid load key) closed by pett
duplicate
3:05 PM Ticket #6353 (model loops: chain not in match maps) closed by pett
duplicate
3:04 PM Ticket #6352 (model loops: chain not in match maps) closed by pett
fixed
2:57 PM Ticket #6347 (Matchmaker: no reference chains) closed by pett
can't reproduce
2:55 PM Ticket #6351 (Crash in event loop) closed by pett
can't reproduce: Classic
2:47 PM Ticket #6350 (no region.destroy() method) closed by pett
fixed
2:46 PM 2022-3-10 edited by Tom Goddard
(diff)
12:05 PM Ticket #6349 (glClear: invalid framebuffer operation) closed by Tom Goddard
duplicate: OpenGL error trying to draw status line. Possibly related to …
10:39 AM Ticket #6354 (Session restore: invalid load key) created by chimerax-bug-report@…
[…]
9:49 AM Ticket #6353 (model loops: chain not in match maps) created by chimerax-bug-report@…
[…]
9:49 AM Ticket #6352 (model loops: chain not in match maps) created by chimerax-bug-report@…
[…]
9:45 AM Ticket #6344 (Various old errors) closed by pett
duplicate
6:52 AM Ticket #6351 (Crash in event loop) created by chimerax-bug-report@…
[…]
5:06 AM Ticket #6350 (no region.destroy() method) created by chimerax-bug-report@…
[…]
1:30 AM Ticket #6349 (glClear: invalid framebuffer operation) created by chimerax-bug-report@…
[…]

Mar 9, 2022:

7:25 PM Ticket #6336 (RealSense camera view clips VR gui elements) closed by Tom Goddard
fixed: Fixed. Code had TODO comment about exactly this problem saying VR …
5:21 PM ChangeLog edited by Tom Goddard
(diff)
5:14 PM ChangeLog edited by Tom Goddard
(diff)
4:27 PM Ticket #6348 (Parsing BlastProtein results failed: 'hits') created by goddard@…
[…]
3:37 PM Ticket #6303 (Help viewer context menu not working in Qt6) closed by Zach Pearson
fixed: [https://github.com/RBVI/ChimeraX/commit/8ec79323819f453f2bb6c3b12a6fdc
3:05 PM Ticket #6347 (Matchmaker: no reference chains) created by chimerax-bug-report@…
[…]
2:41 PM Ticket #6346 (Speed up AlphaFold database search possibly with mmseqs2) created by Tom Goddard
Currently the "alphafold match" command currently takes about 12 …
2:32 PM Ticket #6345 (BLAST search takes 60 seconds in daily build, 7 seconds in ChimeraX 1.3) created by goddard@…
[…]
12:05 PM Ticket #6271 (in techpreview Help Viewer (browser), trying to copy text gives traceback) closed by Zach Pearson
fixed: As I said in comment:4:ticket:6270, QWebEnginePage moved to …
12:04 PM Ticket #6270 (in techpreview, trying to get context menu in ChimeraX help viewer ...) closed by Zach Pearson
fixed: As I said in comment:3:ticket:6303, QWebEnginePage moved to …
12:03 PM Ticket #6344 (Various old errors) created by chimerax-bug-report@…
[…]
12:02 PM Ticket #6343 (Update search of AlphaFold database to January 2022 version) closed by Tom Goddard
fixed: Updated and tested. BLAST search of AlphaFold now takes 60 seconds.
12:02 PM Ticket #6343 (Update search of AlphaFold database to January 2022 version) created by Tom Goddard
EBI made their 3rd update to the AlphaFold database on January 27, …
11:51 AM Ticket #6335 (Toolshed install of bundles broken with Qt 6) closed by Zach Pearson
fixed: Should be fixed by …
10:03 AM Ticket #6341 (Graphics crash, macOS 11.6.3, Intel Iris Pro) closed by Tom Goddard
nonchimerax: Apple graphics driver crash on very old Mac laptop. Only Apple can …
9:59 AM Ticket #6339 (Failure creating downloads directory: No such file or directory) closed by Tom Goddard
wontfix: This user must have deleted their Downloads directory. This is so …
9:26 AM Ticket #6340 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
9:22 AM Ticket #6338 (Crash getting Structure._graphics_changeds attribute after selection ...) closed by pett
can't reproduce
8:48 AM Ticket #6342 (Crash registering webcam command during session save) created by chimerax-bug-report@…
[…]
4:34 AM Ticket #6341 (Graphics crash, macOS 11.6.3, Intel Iris Pro) created by georgios.hatzopoulos@…
[…]
4:10 AM Ticket #6340 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
1:36 AM Ticket #6339 (Failure creating downloads directory: No such file or directory) created by chimerax-bug-report@…
[…]
1:10 AM Ticket #6338 (Crash getting Structure._graphics_changeds attribute after selection ...) created by chimerax-bug-report@…
[…]

Mar 8, 2022:

6:20 PM Ticket #6337 (Try newer RealSense depth cameras for mixed reality video capture) created by Tom Goddard
Begin forwarded message: From: Tom Goddard Subject: ChimeraX mixed …
5:34 PM Ticket #6336 (RealSense camera view clips VR gui elements) created by goddard@…
[…]
4:39 PM Ticket #6335 (Toolshed install of bundles broken with Qt 6) created by goddard@…
[…]
4:26 PM Ticket #6334 (Say Windows 11 supported on Download page) created by Tom Goddard
We should say that ChimeraX is supported on Windows 11 on the download …
2:09 PM Ticket #6333 (Show AlphaFold predicted aligned error (PAE) for selected residues) created by Tristan Croll
[…] P0C7U0_questionable_interface.cxs
1:17 PM Ticket #6332 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
1:15 PM Ticket #6331 (Unknown crash) closed by pett
can't reproduce
1:09 PM Ticket #6329 (Saving command history: No space left on device) closed by pett
nonchimerax
1:04 PM Ticket #6327 (Crash showing Rapid Access at startup) closed by pett
can't reproduce
1:00 PM Ticket #6326 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
10:24 AM 2022-3-10 created by Tom Goddard
10:23 AM DeveloperMeetings edited by Tom Goddard
(diff)
8:58 AM Ticket #6332 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
7:22 AM Ticket #6331 (Unknown crash) created by chimerax-bug-report@…
[…]
4:25 AM Ticket #6330 (KeyError handling Blast results) created by chimerax-bug-report@…
[…]
3:41 AM Ticket #6329 (Saving command history: No space left on device) created by chimerax-bug-report@…
[…]
2:00 AM Ticket #6328 (Crash using File→Open on Windows and/or in return statement) created by wh-chung2@…
[…]
1:11 AM Ticket #6327 (Crash showing Rapid Access at startup) created by chimerax-bug-report@…
[…]

Mar 7, 2022:

1:13 PM Ticket #6326 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
11:54 AM Ticket #6085 (No QAbstractVideoSurface in Qt6) closed by Tom Goddard
fixed: Fixed. Made webcam command work with Qt6. Qt 6 greatly changed the …
11:45 AM Ticket #6323 (Crashed on quit using webcam command with Qt6) closed by Tom Goddard
fixed: Fixed. ChimeraX Python code was not holding references to the …
11:41 AM Ticket #6325 (Crash on exit after webcam off command deleting QMediaCaptureSession ...) closed by Tom Goddard
fixed: Fixed. Apparently if the QCamera is deleted by "webcam off" and later …
10:53 AM Ticket #6324 (Matchmaker: 'NoneType' object has no attribute 'setChecked') closed by pett
duplicate: Duplicate of #5207
10:46 AM Ticket #6325 (Crash on exit after webcam off command deleting QMediaCaptureSession ...) created by goddard@…
[…]
10:44 AM Ticket #6324 (Matchmaker: 'NoneType' object has no attribute 'setChecked') created by chimerax-bug-report@…
[…]
10:36 AM Ticket #6323 (Crashed on quit using webcam command with Qt6) created by goddard@…
[…]
10:28 AM Ticket #6211 (Problem querying for new version: 'DefaultApi' object has no attribute ...) closed by Zach Pearson
duplicate: Should be fixed in any build from after 01/24
10:06 AM Ticket #6314 (Error while fetching from AlphaFold database) closed by Zach Pearson
fixed: Switched the default version on the backend from 2 to 1 and ran those …
9:55 AM Ticket #6319 (Crash saving .cmap file) closed by Tom Goddard
can't reproduce: PyTables crashes saving hdf5 file (*.cmap) on this user's Ubuntu 18.04 …
9:46 AM Ticket #6322 (Bad pseudobond / group attributes) closed by pett
can't reproduce: Would need the alternative_cox_position.cxs session file to have any …
9:23 AM Ticket #6321 (Crash saving .cmap file) closed by pett
duplicate
9:22 AM Ticket #6320 (Crash saving .cmap file) closed by pett
duplicate
4:51 AM Ticket #6322 (Bad pseudobond / group attributes) created by chimerax-bug-report@…
[…]
3:41 AM Ticket #6321 (Crash saving .cmap file) created by chimerax-bug-report@…
[…]
3:40 AM Ticket #6320 (Crash saving .cmap file) created by chimerax-bug-report@…
[…]
3:38 AM Ticket #6319 (Crash saving .cmap file) created by chimerax-bug-report@…
[…]

Mar 6, 2022:

9:12 AM Ticket #6318 (Crash creating QWebEngineProfile) created by chimerax-bug-report@…
[…]

Mar 5, 2022:

12:41 AM Ticket #6317 (Crash in event loop) created by kunkungking@…
[…]

Mar 4, 2022:

6:06 PM Ticket #6305 (VR hands and gui clipped by scene clip planes) closed by Tom Goddard
fixed: Fixed. In the past I made depth cue not apply to the VR gui elements. …
2:35 PM Ticket #6316 (Crash drawin silhouettes) closed by Tom Goddard
nonchimerax: OpenGL driver crash. Not surprising with a 13 year old graphics card …
2:24 PM Ticket #6312 (ColabFold-MMSEQs2 notebook much faster than AlphaFold2 notebook) closed by Tom Goddard
fixed: Yeah, I have wanted to try mmseq2 with AlphaFold for about 3 months …
2:20 PM Ticket #6310 (Unknown problem) closed by Tom Goddard
duplicate: Steven was just providing machine info for the faulty silhouette edge …
11:27 AM Ticket #6311 (Crash computing secondary structure) closed by pett
fixed: Hi Drew, Thanks for reporting this problem. I have applied a fix and …
10:23 AM Ticket #6315 (Crash computing secondary structure) closed by pett
duplicate: Duplicate of #6311
9:34 AM Ticket #6313 (atom_search_lib missing) closed by pett
fixed: Yes, as you noted, fixed. It was broken for one day. There are other …
9:18 AM Ticket #6309 (Long atom spec crashes ChimeraX) closed by pett
duplicate
8:04 AM Ticket #6316 (Crash drawin silhouettes) created by chimerax-bug-report@…
[…]
7:40 AM Ticket #6315 (Crash computing secondary structure) created by chimerax-bug-report@…
[…]
6:59 AM Ticket #6314 (Error while fetching from AlphaFold database) created by m.bienstein@…
[…]
4:19 AM Ticket #6313 (atom_search_lib missing) created by Tristan Croll
[…]
3:43 AM Ticket #6312 (ColabFold-MMSEQs2 notebook much faster than AlphaFold2 notebook) created by Tristan Croll
[…]
2:07 AM Ticket #6311 (Crash computing secondary structure) created by drew.parsons@…
[…] 2lby.pdb

Mar 3, 2022:

11:24 PM Ticket #6310 (Unknown problem) created by stdegiet@…
[…]
7:05 PM Ticket #6308 (traceback using "measure center" on map model that hasn't been shown ...) closed by Tom Goddard
fixed: Fixed. Made measure center command use all voxels if volume has no …
6:51 PM Ticket #6309 (Long atom spec crashes ChimeraX) created by chimerax-bug-report@…
[…]
6:40 PM Ticket #6308 (traceback using "measure center" on map model that hasn't been shown ...) created by Elaine Meng
For example, use measure center #1 after opening the DICOM folder …
6:37 PM Ticket #6307 (Vive Tracker for RealSense camera not aligned with Oculus headsets) created by Tom Goddard
Doing mixed reality video capture with VR and a RealSense depth …
5:43 PM Ticket #6306 (Crash finding clashing atoms) created by 839727090@…
[…]
4:51 PM Ticket #6305 (VR hands and gui clipped by scene clip planes) created by goddard@…
[…]
4:39 PM Ticket #6266 ('cd' as command vs. menu) closed by pett
can't reproduce: Hi Fred, I guess we'll chalk this one up to cosmic rays. :-). Thanks …
4:21 PM Ticket #6300 (Region not in region_browser.sequence_regions) closed by pett
fixed: Hi Alvin, Thanks for reporting this problem. Though it doesn't help …
4:03 PM Ticket #6302 (Crash in GL.glDrawElementsInstanced) closed by Tom Goddard
can't reproduce: Crash calling GL.glDrawElementsInstanced(element_type, ne, …
3:59 PM Ticket #6301 (Rendering on macOS Monterey) closed by Tom Goddard
nonchimerax: This is a problem in Apple's graphics driver. I have only seen it on …
3:54 PM Ticket #6296 (Crash showing Rapid Access at startup) closed by Tom Goddard
can't reproduce: Hoping this Qt bug is fixed in Qt 6. So far not seen in Qt 6.
2:17 PM NTTData edited by Elaine Meng
(diff)
2:15 PM NTTData edited by Elaine Meng
(diff)
2:13 PM NTTData edited by Elaine Meng
(diff)
1:54 PM NTTData edited by Elaine Meng
(diff)
1:51 PM NTTData edited by Elaine Meng
(diff)
1:49 PM NTTData edited by Elaine Meng
(diff)
12:10 PM 2022-3-3 edited by Tom Goddard
(diff)
12:08 PM Ticket #6298 (Crash in event loop after matchmaker) closed by pett
can't reproduce
11:28 AM Ticket #5985 (Download page Ubuntu install command is wrong) closed by Greg Couch
fixed: Name now matches.
11:26 AM Ticket #6304 (Various errors) created by satyshur@…
[…]
11:25 AM Dev2022-3-10 created by Tom Goddard
11:22 AM DeveloperMeetings edited by Tom Goddard
(diff)
11:18 AM Ticket #6303 (Help viewer context menu not working in Qt6) created by Zach Pearson
[…]
11:06 AM 2022-3-3 created by Tom Goddard
11:06 AM DeveloperMeetings edited by Tom Goddard
(diff)
10:57 AM Ticket #6294 (Signal callback crash) closed by pett
can't reproduce
8:46 AM Ticket #6302 (Crash in GL.glDrawElementsInstanced) created by chimerax-bug-report@…
[…]
6:35 AM Ticket #6301 (Rendering on macOS Monterey) created by Steven.De.Gieter@…
[…] [[Image(...)]]
3:49 AM Ticket #6300 (Region not in region_browser.sequence_regions) created by chew0357@…
[…]
3:48 AM Ticket #6299 (Region not in region_browser.sequence_regions) created by chimerax-bug-report@…
[…]

Mar 2, 2022:

9:20 PM Ticket #6298 (Crash in event loop after matchmaker) created by chimerax-bug-report@…
[…]
6:23 PM Ticket #4759 (dssp unexpectedly slow) closed by pett
fixed: Reduced 6r83 from 30 seconds to 2.8 seconds and 4yd9 from 20 seconds …
4:44 PM Training edited by Tom Goddard
(diff)
4:37 PM Ticket #5964 (Optimizing ISOLDE map zoning using JAX) closed by Tom Goddard
fixed: Fixed. Improved the mesh edge performance, about 6x faster, tickets …
4:32 PM Ticket #6243 (Mesh calculation from triangles very slow) closed by Tom Goddard
fixed: Fixed. The masked edges calculation now uses C++ vector, sort, and …
4:30 PM Ticket #6297 (Graphics is computing mesh edges for surface twice) closed by Tom Goddard
fixed: Fixed. I made the selection highlight reuse the mesh edges from the …
4:28 PM Ticket #6297 (Graphics is computing mesh edges for surface twice) created by Tom Goddard
The graphics code computes the mesh edges for a triangulated surface …
4:23 PM Ticket #6279 (Reading *.cmap file: No module named 'chimera') closed by Tom Goddard
fixed: Fixed. Reading .cmap file failed if it had a non-zero rotation angle …
3:40 PM Ticket #6274 (Graphics crash, macOS 10.15.7, AMD Radeon Pro 580X) closed by Tom Goddard
nonchimerax: Apple graphics driver crash. Was drawing Qt user interface, not …
3:40 PM Ticket #6296 (Crash showing Rapid Access at startup) created by chimerax-bug-report@…
[…]
3:33 PM Ticket #6265 (Problem restoring clip caps when volume surface not restored) closed by Tom Goddard
fixed: Fixed. Restoring a session where a volume file was not found and not …
3:17 PM Ticket #6264 (Crash in event loop after or while clearing selection) closed by Tom Goddard
can't reproduce: No clues.
3:09 PM Ticket #6259 (Permission denied saving image to desktop (and other errors)) closed by Tom Goddard
duplicate: There are 3 ChimeraX errors in this report. First ChimeraX crashed. …
2:18 PM Ticket #6295 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
2:06 PM Ticket #6294 (Signal callback crash) created by chimerax-bug-report@…
[…]
1:11 PM Ticket #6293 (Errors checking for new versions) closed by pett
duplicate
1:10 PM Ticket #6292 (Errors checking for new versions) closed by pett
duplicate
11:29 AM Ticket #6290 (Crash in QOpenGLContext.makeCurrent()) closed by Tom Goddard
can't reproduce: Crashed in making the opengl context current during a window resize …
11:26 AM Ticket #6293 (Errors checking for new versions) created by chimerax-bug-report@…
[…]
11:07 AM Ticket #6292 (Errors checking for new versions) created by chimerax-bug-report@…
[…]
9:26 AM Ticket #6291 (Crash using color editor) closed by pett
can't reproduce
9:18 AM Ticket #6289 (Crash in event loop) closed by pett
can't reproduce
9:18 AM Ticket #6288 (Errors checking for new versions) closed by pett
duplicate
9:16 AM Ticket #6287 (Crash in event loop) closed by pett
can't reproduce
9:13 AM Ticket #6285 (Unknown crash) closed by pett
can't reproduce
8:27 AM Ticket #6291 (Crash using color editor) created by chimerax-bug-report@…
[…]
7:10 AM Ticket #6290 (Crash in QOpenGLContext.makeCurrent()) created by chimerax-bug-report@…
[…]
6:57 AM Ticket #6289 (Crash in event loop) created by chimerax-bug-report@…
[…]
6:23 AM Ticket #6288 (Errors checking for new versions) created by chimerax-bug-report@…
[…]
2:24 AM Ticket #6287 (Crash in event loop) created by chimerax-bug-report@…
[…]
1:22 AM Ticket #6286 (Give a good error message if RBVI resources unavailable) created by chimerax-bug-report@…
[…]

Mar 1, 2022:

7:56 PM Ticket #6281 (Cannot show tomogram as surface or volume) closed by Tom Goddard
not a bug: The error message means the file was not readable. OSError: [Errno 5] …
7:51 PM Ticket #6282 (3D stereo not correct.) closed by Tom Goddard
not a bug: The eye separation is specified by the camera command options …
7:16 PM Ticket #6285 (Unknown crash) created by chimerax-bug-report@…
[…]
7:07 PM Ticket #6284 (Errors checking for new versions) created by chimerax-bug-report@…
[…]
2:39 PM Ticket #6280 (Traceback fetching available ChimeraX versions) closed by pett
duplicate: Hi Kenneth, Thanks for reporting this problem. You can safely ignore …
2:13 PM Ticket #6283 (phi-psi in isolde does not show current selection.) created by kenneth.satyshur@…
[…] restrict-current-sel.png
1:57 PM Ticket #6282 (3D stereo not correct.) created by kenneth.satyshur@…
[…] 3d-stereo-chimerax-isolde.png
1:57 PM Ticket #6281 (Cannot show tomogram as surface or volume) created by weijianz@…
[…]
1:31 PM Ticket #6280 (Traceback fetching available ChimeraX versions) created by satyshur@…
[…]
11:00 AM Ticket #6279 (Reading *.cmap file: No module named 'chimera') created by Elaine Meng
[…]
10:15 AM Ticket #6273 (Infinite recursion drawing alignment) closed by pett
can't reproduce
10:14 AM Ticket #6278 (Isolde will not install.) created by kenneth.satyshur@…
[…] isolde-stuck.png
9:58 AM Ticket #6267 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
9:33 AM Ticket #6262 (Crash using File→Open on Windows and/or in show_surface_clip_caps()) closed by pett
can't reproduce
9:31 AM Ticket #6261 (Crash using File→Open on Windows) closed by pett
can't reproduce
9:30 AM Ticket #6258 (ISOLDE: KeyError in find_glycan_template_name_and_link) closed by Tristan Croll
fixed: Ancient version of ISOLDE. Traceback is long-since fixed (problem is …
9:27 AM Ticket #6260 (Can't destroy status bar) closed by pett
duplicate
9:16 AM Ticket #6257 (Crash in event loop after downloading new SEQCROW) closed by pett
can't reproduce
9:14 AM Ticket #6256 (Crash in swap_buffers) closed by pett
can't reproduce: Hi Sid, This is either a problem with your graphics driver or with …
8:46 AM Ticket #6277 (Can't get to isolde under tools.) created by kenneth.satyshur@…
[…]
7:08 AM Ticket #6276 (Errors getting available bundles list) created by yunrong_gao@…
[…]
5:57 AM Ticket #6275 (Errors getting available bundles list) created by gyadav@…
[…]
5:50 AM Ticket #6274 (Graphics crash, macOS 10.15.7, AMD Radeon Pro 580X) created by chimerax-bug-report@…
[…]
3:57 AM Ticket #6273 (Infinite recursion drawing alignment) created by chimerax-bug-report@…
[…]

Feb 28, 2022:

9:06 PM Ticket #6272 (Errors getting available bundles list) created by kklee@…
[…]
6:40 PM Ticket #6271 (in techpreview Help Viewer (browser), trying to copy text gives traceback) created by Elaine Meng
trying to copy text from ChimeraX browser by highlighting it and using …
6:38 PM Ticket #6270 (in techpreview, trying to get context menu in ChimeraX help viewer ...) created by Elaine Meng
Ctrl-click in main body of ChimeraX help viewer (browser) window which …
6:33 PM Ticket #6269 (trying to use Report a Bug when our system is down gives traceback) created by Elaine Meng
Failed to send bug report. Error while sending follows: Traceback …
3:45 PM Ticket #6268 (Release PyQt6 to the daily builds) created by Zach Pearson
This is (for the most part) a bookkeeping ticket to track what other …
8:48 AM Ticket #6267 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
7:32 AM Ticket #6266 ('cd' as command vs. menu) created by hughson@…
[…]
6:12 AM Ticket #6265 (Problem restoring clip caps when volume surface not restored) created by zhangxiaofeng@…
[…]
1:33 AM Ticket #6264 (Crash in event loop after or while clearing selection) created by chimerax-bug-report@…
[…]

Feb 27, 2022:

9:52 PM Ticket #6263 (Molecular Dynamics Viewer: Values array length does not match objects ...) created by venkatareddy@…
[…]
1:07 PM Ticket #6262 (Crash using File→Open on Windows and/or in show_surface_clip_caps()) created by chimerax-bug-report@…
[…]
8:33 AM Ticket #6261 (Crash using File→Open on Windows) created by chimerax-bug-report@…
[…]

Feb 26, 2022:

6:20 PM Ticket #6260 (Can't destroy status bar) created by chimerax-bug-report@…
[…]
9:09 AM Ticket #6259 (Permission denied saving image to desktop (and other errors)) created by zhangya1@…
[…] 屏幕截囟(376).png
6:13 AM Ticket #6258 (ISOLDE: KeyError in find_glycan_template_name_and_link) created by chimerax-bug-report@…
[…]
12:35 AM Ticket #6257 (Crash in event loop after downloading new SEQCROW) created by chimerax-bug-report@…
[…]

Feb 25, 2022:

6:55 PM Ticket #6256 (Crash in swap_buffers) created by 839727090@…
[…]
6:02 PM Ticket #6255 (Make DICOM reader read time series from 2D images) created by goddard@…
Jason Rubenstein asked about displaying a DICOM time series consisting …
5:00 PM Ticket #5143 (Avoid recalculating idatm_types for entire model after changes?) closed by pett
wontfix: After further reflection, the simple Residue dirty bit I was …
4:29 PM Ticket #6254 (opening 1plx as trajectory (coordset true) omits inter-residue bonds) closed by pett
duplicate: Duplicate of #6253
4:27 PM Ticket #6254 (opening 1plx as trajectory (coordset true) omits inter-residue bonds) created by goddard@…
[…]
4:25 PM Ticket #6252 (perframe surface zone keeps showing whole surface) closed by Tom Goddard
limitation: Ok, this isn't pretty but here are some solutions. The problem is …
3:28 PM Ticket #6246 (Crash running AlphaFold prediction) closed by Tom Goddard
can't reproduce: Probably a crash in the Qt html panel. No info to help debug it.
3:26 PM Ticket #6253 (opening 1plx as trajectory (coordset true) omits inter-residue bonds) created by Elaine Meng
This is a short peptide NMR ensemble. If I open the regular way the …
3:16 PM Ticket #6252 (perframe surface zone keeps showing whole surface) created by J.R.Lewandowski@…
From: "Lewandowski, Jozef" <J.R.Lewandowski@…> via …
2:51 PM Ticket #6251 (Crash in Qt on exit) closed by Tom Goddard
nonchimerax: Ok. The crash report is ChimeraX crashing when you were quitting it …
1:37 PM Ticket #6250 (Crash in event loop) closed by pett
can't reproduce: Possibly while doing something with rotamers
1:23 PM Ticket #6249 (Crash opening BILD file) closed by pett
can't reproduce
1:14 PM Ticket #6251 (Crash in Qt on exit) created by wxh180@…
[…]
1:04 PM Ticket #6250 (Crash in event loop) created by chimerax-bug-report@…
[…]
11:58 AM Ticket #6249 (Crash opening BILD file) created by chimerax-bug-report@…
[…]
11:53 AM Ticket #6248 (Qt6 problems) created by j.r.lewandowski@…
[…]
11:30 AM Ticket #6244 (ViewdockX after rows deleted: KeyError: 'stars') closed by pett
fixed: Fixed in tomorrow's daily build
10:11 AM Ticket #6242 (wrapped C/C++ object of type QScreen has been deleted) closed by pett
duplicate
9:16 AM Ticket #6228 (Surface values not reported) closed by Tom Goddard
nonchimerax: Reporter replied that status line messages giving chain info do not …
4:44 AM Ticket #6247 (CGSGetSurfaceBinding failed) created by 839727090@…
[…]
2:25 AM Ticket #6246 (Crash running AlphaFold prediction) created by chimerax-bug-report@…
[…]
12:06 AM Ticket #6112 (No vseries help) closed by Greg Couch
fixed
12:02 AM Ticket #6158 (Open BILD file: float division by zero) closed by Greg Couch
fixed: No response. Assume the fix worked.

Feb 24, 2022:

11:01 PM Ticket #6245 (ISOLDE _show_selected_clash: 'residues' is empty) created by chimerax-bug-report@…
[…]
9:57 PM Ticket #6244 (ViewdockX after rows deleted: KeyError: 'stars') created by shahriar.arab@…
[…]
7:27 PM Ticket #6192 (Segger fit dialog tried to save a closed volume model in a session) closed by Tom Goddard
fixed: Fixed. Fixed session save when segmented map deleted. But Segger is …
6:24 PM Ticket #6233 ("camera stereo" interferes with up-arrow selection) closed by Tom Goddard
fixed: Fixed. Switching camera mode to stereo made a new graphics window …
6:13 PM Ticket #6171 (camera stereo: 'NoneType' object has no attribute 'opengl_buffer) closed by Tom Goddard
fixed: Fixed. Added check to make sure OpenGL code does not try to set …
6:12 PM Ticket #6171 (camera stereo: 'NoneType' object has no attribute 'opengl_buffer) reopened by Tom Goddard
6:06 PM Ticket #6186 (ghosting of left eye on 3D stereo of a selected atom.) closed by Tom Goddard
fixed: Fixed. Made opengl code use correct glDrawMode() in stereo and when …
4:50 PM Ticket #6243 (Mesh calculation from triangles very slow) created by tic20@…
As indicated in comments in ticket #5964 computing mesh edges from …
3:05 PM Ticket #6242 (wrapped C/C++ object of type QScreen has been deleted) created by chimerax-bug-report@…
[…]
2:59 PM Ticket #6239 (graphics out of memory) closed by Tom Goddard
nonchimerax: The OpenGL out of memory errors doing operations that should not use …
2:54 PM Ticket #6235 (Can save movie but not image to desktop) closed by Tom Goddard
nonchimerax: Is the file image1.png already on your Desktop? Maybe ChimeraX does …
2:04 PM Dev2022-2-24 edited by Tom Goddard
(diff)
2:03 PM 2022-2-24 edited by Tom Goddard
(diff)
10:05 AM Ticket #6230 (Crash in QOpenGLFunctions::initializeOpenGLFunctions()) closed by pett
can't reproduce
10:03 AM Ticket #6229 (Crash using File→Open on Windows and/or in show_surface_clip_caps()) closed by pett
can't reproduce
9:58 AM Ticket #6241 (Crash in return statement) closed by pett
can't reproduce
9:58 AM Ticket #6241 (Crash in return statement) created by chimerax-bug-report@…
The following bug report has been submitted: Platform: …
9:55 AM Ticket #6240 (OpenMM runtime error: Release Object) created by chimerax-bug-report@…
The following bug report has been submitted: Platform: …
9:23 AM Ticket #6239 (graphics out of memory) created by chimerax-bug-report@…
The following bug report has been submitted: Platform: …
9:19 AM Ticket #6238 (Crash in event loop, possibly due to bad graphics) closed by pett
can't reproduce
9:19 AM Ticket #6238 (Crash in event loop, possibly due to bad graphics) created by chimerax-bug-report@…
The following bug report has been submitted: Platform: …
9:15 AM Ticket #6237 (Problem switching GPU) created by sergei.gurianov@…
The following bug report has been submitted: Platform: …
9:12 AM Ticket #6236 (Bundle already installed produces traceback) created by safia.aljedani@…
The following bug report has been submitted: Platform: …
9:07 AM Ticket #6235 (Can save movie but not image to desktop) created by weberm@…
The following bug report has been submitted: Platform: …
9:02 AM Ticket #6234 (Cannot save session including volumes bigger than 4 Gbytes) created by linda.franken@…
The following bug report has been submitted: Platform: …
8:56 AM Ticket #6233 ("camera stereo" interferes with up-arrow selection) created by goddard@…
The following bug report has been submitted: Platform: …
8:53 AM Ticket #6232 (Toolshed install button blank) created by yuanqingning@…
The following bug report has been submitted: Platform: …
3:00 AM Ticket #6230 (Crash in QOpenGLFunctions::initializeOpenGLFunctions()) created by chimerax-bug-report@…
[…]

Feb 23, 2022:

9:45 PM Ticket #6086 (VR menus broken with Qt 6) closed by Tom Goddard
fixed: Fixed. Qt6 QMouseEvent constructors require a local widget position …
7:14 PM Ticket #6229 (Crash using File→Open on Windows and/or in show_surface_clip_caps()) created by chimerax-bug-report@…
[…]
7:09 PM Ticket #6228 (Surface values not reported) created by 2173910144@…
The following bug report has been submitted: Platform: …
6:57 PM Ticket #6193 (Volume contour mouse mode broken when outline box shown) closed by Tom Goddard
fixed: Fixed. Code for picking volume under mouse found outline box instead.
6:01 PM Dev2022-2-24 edited by Zach Pearson
(diff)
5:54 PM Ticket #6184 (color byattribute failure) closed by pett
fixed: If the conservation header is set to show Clustal characters, it now …
9:54 AM Ticket #6227 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
6:46 AM Ticket #6219 (Clipper: Floating point exception) closed by Tristan Croll
fixed: Fixed. When deciding on the grid spacing for each cell dimension, …
12:32 AM Ticket #5854 (Crash creating QWebEngineProfile) closed by Tom Goddard
can't reproduce: We have a Qt 6 techpreview ChimeraX build on the download page and so …
12:29 AM Ticket #5876 (Crash recording spin movie) closed by Tom Goddard
can't reproduce: No info about what caused this crash while recording a spin movie.
12:25 AM Ticket #5947 (Crash in GL.glUniform1f) closed by Tom Goddard
can't reproduce: No response from reporter.
12:23 AM Ticket #6084 (Log fails to start: cannot import name 'ChimeraXHtmlView' from ...) closed by Tom Goddard
fixed: Fixed in Qt 6. Won't try to work around this in Qt 5.
12:16 AM Ticket #6195 (Attempt to retrieve context when no valid context) closed by Tom Goddard
can't reproduce

Feb 22, 2022:

11:39 PM Ticket #6222 (resize() needs refcheck=False) closed by Tom Goddard
nonchimerax: This appears to be a bug in profiler behavior. It is not a bug in the …
6:58 PM Ticket #6220 (Cannot install ISOLDE) closed by Greg Couch
can't reproduce: I can't reproduce the problem on Windows 10. In fact, when I tried a …
6:16 PM Ticket #6171 (camera stereo: 'NoneType' object has no attribute 'opengl_buffer) closed by Tom Goddard
can't reproduce
4:17 PM Dev2022-2-24 edited by Zach Pearson
(diff)
4:15 PM Ticket #6226 (Maestro file not recognized by ViewdockX) closed by pett
not a bug: For ViewDockX to show results, the .mae or .maegz files have to have …
2:43 PM Dev2022-2-24 edited by Zach Pearson
(diff)
1:18 PM Ticket #6216 (Crash in chem group) closed by pett
fixed: Hi Amith, Thanks for reporting this problem. I have committed a fix, …
1:14 PM Ticket #6227 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
1:09 PM Dev2022-2-24 edited by Zach Pearson
(diff)
12:50 PM Ticket #6226 (Maestro file not recognized by ViewdockX) created by Elaine Meng
From: "Rangarajan, Amith via ChimeraX-users" …
12:23 PM Ticket #6190 (SEQCROW: No module named 'pwd') closed by Greg Couch
nonchimerax: Sounds good. We'll consider this as an AaronTools bug.
11:18 AM Ticket #6214 (Graphics driver crash, macOS 10.15.7, Intel HD Graphics 4000, dual display) closed by Tom Goddard
nonchimerax: Crash in Apple graphics driver in 10 year old Mac laptop. We have no …
11:06 AM Ticket #6212 (Fragmented image when molecule and surface is clipped) closed by Tom Goddard
nonchimerax: The image you sent appears to be an atomic model with a surface …
10:31 AM Ticket #6225 (Check for new version: name '_getuser' is not defined) closed by pett
duplicate
10:29 AM Ticket #6225 (Check for new version: name '_getuser' is not defined) created by chimerax-bug-report@…
[…]
9:41 AM Ticket #6224 (Crash deleting structure) closed by pett
duplicate
9:39 AM Dev2022-2-24 created by Tom Goddard
9:38 AM Ticket #6223 (Crash in grako parsing) closed by pett
can't reproduce: Doesn't seem to be the big atom spec problem.
9:37 AM 2022-2-24 created by Tom Goddard
9:36 AM 2022-2-17 edited by Tom Goddard
(diff)
9:30 AM DeveloperMeetings edited by Tom Goddard
(diff)
9:30 AM Ticket #6221 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
5:42 AM Ticket #6224 (Crash deleting structure) created by chimerax-bug-report@…
[…]
5:36 AM Ticket #6223 (Crash in grako parsing) created by chimerax-bug-report@…
[…]
1:38 AM Ticket #6222 (resize() needs refcheck=False) created by Tristan Croll
[…]

Feb 21, 2022:

11:43 PM Ticket #6221 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
7:57 PM Ticket #6220 (Cannot install ISOLDE) created by yuanqingning@…
[…] 1645170641411.png
10:46 AM Ticket #6219 (Clipper: Floating point exception) created by andong.li@…
[…]
9:01 AM Ticket #6218 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
8:59 AM Ticket #6217 (Crash using File→Open on Windows and/or in show_surface_clip_caps()) closed by pett
can't reproduce
8:55 AM Ticket #6215 (Crash removing dock widget from main window) closed by pett
can't reproduce
8:52 AM Ticket #6213 (Crash using File→Open on Windows or clearing set) closed by pett
can't reproduce
8:47 AM Ticket #6210 (Crash during coulombic calculation) closed by pett
can't reproduce
8:44 AM Ticket #6209 (Crash using File→Open on Windows) closed by pett
can't reproduce
8:39 AM Ticket #6206 (MatchMaker: wrapped C/C++ object of type ChainMenuButton has been deleted) closed by pett
duplicate
8:37 AM Ticket #6205 (Crash in event loop) closed by pett
can't reproduce
8:34 AM Ticket #6203 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
2:58 AM Ticket #6218 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
1:17 AM Ticket #6217 (Crash using File→Open on Windows and/or in show_surface_clip_caps()) created by chimerax-bug-report@…
[…]

Feb 20, 2022:

2:50 PM Ticket #6216 (Crash in chem group) created by amith.rangarajan@…
[…]
1:08 PM Ticket #6215 (Crash removing dock widget from main window) created by chimerax-bug-report@…
[…]
11:38 AM Ticket #6214 (Graphics driver crash, macOS 10.15.7, Intel HD Graphics 4000, dual display) created by deys@…
[…]
11:30 AM Ticket #6213 (Crash using File→Open on Windows or clearing set) created by chimerax-bug-report@…
[…]
1:04 AM Ticket #6212 (Fragmented image when molecule and surface is clipped) created by pengshuman@…
[…] [[Image(...)]]

Feb 19, 2022:

8:56 PM Ticket #6211 (Problem querying for new version: 'DefaultApi' object has no attribute ...) created by chimerax-bug-report@…
[…]
7:09 PM Ticket #6210 (Crash during coulombic calculation) created by chimerax-bug-report@…
[…]
6:10 PM Ticket #6209 (Crash using File→Open on Windows) created by chimerax-bug-report@…
[…]
9:47 AM Ticket #6208 (Crash deleting structure) created by rhloring@…
[…] Mu-Conotoxin P0C349.pdb

Feb 18, 2022:

11:49 PM Ticket #6207 (Allow AlphaFold to use additonal databases for making sequence alignments) created by cruzrey@…
Suggested by Jorge Cruz-Reyes Begin forwarded message: From: Tom …
11:36 PM Ticket #6175 (Stopping sim in stereo: 'NoneType' object has no attribute 'opengl_buffer') closed by Tom Goddard
duplicate: Error caused by same bug as #6171 although it does not wipe out until …
11:33 PM Ticket #6173 ('graphics restart' crash) closed by Tom Goddard
duplicate: The crash restarting graphics appears to be a graphics driver bug. …
11:19 PM Ticket #6196 (Crash creating QWebEngineProfile) closed by Tom Goddard
duplicate: Yes, the recorded log file is not cleared at startup until the first …
11:12 PM Ticket #6199 (Graphics driver crash, macOS 10.15.7, Intel HD Graphics 4000, dual display) closed by Tom Goddard
nonchimerax
11:06 PM Ticket #6201 (Black specs visible on silhouetted image) closed by Tom Goddard
nonchimerax: Unfortunately the graphics drivers on your exact model of Mac laptop …
5:43 PM Ticket #6206 (MatchMaker: wrapped C/C++ object of type ChainMenuButton has been deleted) created by chimerax-bug-report@…
[…]
2:37 PM Ticket #6205 (Crash in event loop) created by chimerax-bug-report@…
[…]
2:10 PM Ticket #6204 (Crash using File→Open on Windows and/or in return statement) created by mfarrugi@…
[…]
1:55 PM Ticket #6203 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
1:20 PM Ticket #4812 (Selection Inspector: make bfactor/occupancy editable) closed by pett
fixed: Thanks for clarifying. I won't add this to any to-do list until …
10:00 AM Ticket #6202 (Add ChimeraX logo to movies) created by Tristan Croll
[…]
9:27 AM Ticket #6201 (Black specs visible on silhouetted image) created by stdegiet@…
[…] J554_local_e.png
9:08 AM Ticket #6198 (surfvalues.py) closed by pett
duplicate: Asked and answered on chimerax-users list
9:06 AM Ticket #6197 (Crash using File→Open on Windows and/or in show_surface_clip_caps()) closed by pett
can't reproduce
8:51 AM Ticket #6200 (Crash using File→Open on Windows and/or in trigger.activate()) created by esther.shin@…
[…]
4:47 AM Ticket #6199 (Graphics driver crash, macOS 10.15.7, Intel HD Graphics 4000, dual display) created by chimerax-bug-report@…
[…]
12:11 AM Ticket #6174 (different position from commands typed vs. commands in script) closed by Tom Goddard
limitation: Since I see not tractable solution to this and it seems a very rare …

Feb 17, 2022:

9:55 PM Ticket #6198 (surfvalues.py) created by faye.feiyu@…
[…] [[Image(...)]] …
9:26 PM Ticket #6197 (Crash using File→Open on Windows and/or in show_surface_clip_caps()) created by chimerax-bug-report@…
[…]
7:46 PM Ticket #6196 (Crash creating QWebEngineProfile) created by chimerax-bug-report@…
[…]
4:49 PM Training edited by Tom Goddard
(diff)
4:46 PM Ticket #6194 (Crash in event loop) closed by pett
can't reproduce
4:42 PM Ticket #6179 (Crash showing Rapid Access at startup) closed by Tom Goddard
duplicate: We have dozens of reports of this ChimeraX startup error, all on …
4:24 PM Ticket #6165 (Graphics driver crash, macOS 10.15.7, Intel HD Graphics 4000, dual display) closed by Tom Goddard
nonchimerax: This is an ancient 2013 laptop.
3:06 PM NTTData edited by Elaine Meng
(diff)
2:55 PM NTTData edited by Elaine Meng
(diff)
2:41 PM NTTData edited by Elaine Meng
(diff)
2:40 PM Ticket #6195 (Attempt to retrieve context when no valid context) created by sabarik@…
[…]
2:31 PM NTTData edited by Elaine Meng
(diff)
2:12 PM NTTData edited by Elaine Meng
(diff)
1:22 PM NTTData edited by Elaine Meng
(diff)
10:58 AM Ticket #6194 (Crash in event loop) created by phil.cruz@…
[…]
10:39 AM Ticket #6189 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
10:39 AM Ticket #6193 (Volume contour mouse mode broken when outline box shown) created by goddard@…
[…]
10:37 AM Ticket #6192 (Segger fit dialog tried to save a closed volume model in a session) created by chimerax-bug-report@…
[…]
10:35 AM Ticket #6188 (Crash using File→Open on Windows and/or in return statement) closed by pett
can't reproduce
10:02 AM Ticket #6185 (Crash calling signal handler) closed by pett
can't reproduce
9:36 AM Ticket #6183 (Sequence viewer not tracked by alignments manager) closed by pett
can't reproduce
9:28 AM Ticket #6181 (Infinite recursion drawing alignment) closed by pett
can't reproduce
9:09 AM Ticket #6191 (QT bug?) created by kenneth.satyshur@…
[…]
8:06 AM Ticket #6190 (SEQCROW: No module named 'pwd') created by chimerax-bug-report@…
[…]
5:04 AM Ticket #6189 (Crash using File→Open on Windows and/or in return statement) created by chimerax-bug-report@…
[…]
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