Timeline



Jan 3, 2022:

6:45 PM Ticket #5871 (Coordset slider doesn't start at current coordinate set) created by Tony Schaefer
[…]
5:22 PM Ticket #5870 (Crash in event loop) created by chimerax-bug-report@…
[…]
5:03 PM Ticket #5869 (Linux flavor) closed by pett
not a bug: Ah, I see. I was looking at #5864 and didn't even recognize "Zorin …
4:52 PM Ticket #5869 (Linux flavor) created by pett
Would it be possible to get the Linux flavor/release (lsb_release -a) …
4:46 PM Ticket #5868 (Chain-chooser error) created by pett
[…]
3:31 PM Ticket #5863 (Crash after/during saving session) closed by Tom Goddard
can't reproduce: User was saving a session save F:/ChimeraX/BMA/Simon/3NWV.cxs and it …
3:17 PM Ticket #5867 (Wrong download file name) created by pett
[…]
3:11 PM Ticket #5866 (Registration time-format error) created by pett
[…]
2:32 PM Ticket #5865 (CERTIFICATE_VERIFY_FAILED checking for newer version) created by pett
[…]
1:14 PM Ticket #5864 (Crash showing Rapid Access at startup) created by roberto.pestana@…
[…]
10:30 AM Ticket #5861 (Crash in garbage collection) closed by pett
duplicate
10:28 AM Ticket #5860 (Long atom spec crashes ChimeraX) closed by pett
duplicate
10:24 AM Ticket #5859 (Long atom spec crashes ChimeraX) closed by pett
duplicate: Duplicate of #4842
10:17 AM Ticket #5857 (Screen change crash) closed by pett
can't reproduce: version 0.91
9:37 AM Ticket #5855 ('Sequence' object has no attribute 'structure') closed by pett
duplicate

Jan 1, 2022:

1:29 PM Ticket #5863 (Crash after/during saving session) created by chimerax-bug-report@…
[…]
1:04 PM Ticket #5862 (Web server not responding to new-version check) created by chimerax-bug-report@…
[…]
3:07 AM Ticket #5861 (Crash in garbage collection) created by chimerax-bug-report@…
[…]

Dec 31, 2021:

10:00 PM Ticket #5848 (Crash recording movie) closed by Tom Goddard
nonchimerax: Probably graphics driver crash, Radeon, Windows. Crashed recording a …
9:54 PM Ticket #5841 (Crash showing side view) closed by Tom Goddard
duplicate: Side View just shown, got an expose event, was drawn with OpenGL and …
9:49 PM Ticket #5842 (Status bar destruction: wrapped C/C++ object of type QScreen has been ...) closed by Tom Goddard
duplicate: This ChimeraX error is fixed in the current version 1.3, was fixed …
9:46 PM Ticket #5845 (Graphics driver crash, macOS 11.6.1, Intel Iris Plus Graphics 640) closed by Tom Goddard
nonchimerax: Apple graphics driver crash. Was using 132 Gbytes of memory with a 9 …
9:41 PM Ticket #5832 (Graphics driver crash, macOS 10.15.7, GeForce GT 650M) closed by Tom Goddard
nonchimerax: Apple graphics driver crash. Ancient graphics, two displays.
6:31 PM Ticket #5826 (Crash in OpenVR waitGetPoses on Linuc) closed by Tom Goddard
nonchimerax: Appears to be a bug in SteamVR on Linux. Sad that that VR is still so …
3:16 PM ChangeLog edited by Elaine Meng
(diff)

Dec 30, 2021:

4:56 PM Ticket #5860 (Long atom spec crashes ChimeraX) created by chimerax-bug-report@…
[…]
4:55 PM Ticket #5859 (Long atom spec crashes ChimeraX) created by chimerax-bug-report@…
[…]
11:32 AM Ticket #5858 (Chain-selection menus too long when there are many chains, and some ...) created by Elaine Meng
On Dec 30, 2021, at 6:31 AM, Antón Vila-Sanjurjo via ChimeraX-users …
10:47 AM Ticket #5857 (Screen change crash) created by chimerax-bug-report@…
[…]
9:50 AM Ticket #5856 (Distances tool not updating) created by anton.vila@…
[…]
8:28 AM Ticket #5847 (CUDA_ERROR_UNKNOWN starting simulation) closed by Tristan Croll
fixed: Great to hear it's working now. Happy modelling!

Dec 29, 2021:

10:21 PM Ticket #5855 ('Sequence' object has no attribute 'structure') created by chimerax-bug-report@…
[…]
5:28 PM Ticket #5854 (Crash creating QWebEngineProfile) created by zel@…
[…]
3:51 PM Ticket #5853 (Make alphafold predict check that the correct AlphaFold version is ...) created by Tom Goddard
Have ChimeraX AlphaFold prediction google colab script check that the …
3:43 PM Ticket #5849 (bare "seq align" throws traceback) closed by pett
fixed
3:29 PM Ticket #5851 (Crash removing dock widget from main window after/during AlphaFold ...) closed by pett
can't reproduce: Maybe Qt6 will fix this? Several successful operations are performed …
3:07 PM Ticket #5852 (Ignore non-protein sequences for some operations) created by Elaine Meng
[…]
1:15 PM Ticket #5851 (Crash removing dock widget from main window after/during AlphaFold ...) created by chimerax-bug-report@…
[…]
11:31 AM Ticket #5846 (CUDA_ERROR_UNKNOWN starting simulation) closed by Tristan Croll
duplicate: Duplicate of #5487.
11:30 AM Ticket #5850 (Improve File→Save when multiple alignments open) created by Elaine Meng
[…]
10:14 AM Ticket #5849 (bare "seq align" throws traceback) created by Elaine Meng
[…]
9:47 AM Ticket #5844 (dark gray vs. gray) closed by Elaine Meng
not a bug
2:24 AM Ticket #5848 (Crash recording movie) created by chimerax-bug-report@…
[…]

Dec 28, 2021:

10:31 PM Ticket #5847 (CUDA_ERROR_UNKNOWN starting simulation) created by fanhongcheng20@…
[…]
10:29 PM Ticket #5846 (CUDA_ERROR_UNKNOWN starting simulation) created by chimerax-bug-report@…
[…]
2:50 PM Ticket #5845 (Graphics driver crash, macOS 11.6.1, Intel Iris Plus Graphics 640) created by chimerax-bug-report@…
[…]
11:16 AM Ticket #5844 (dark gray vs. gray) created by lochuynh@…
[…]
8:24 AM Ticket #5843 (VR clipping suggestions) created by Tristan Croll
[…]

Dec 27, 2021:

10:55 PM Ticket #5831 (Blast session-restore failure) closed by Zach Pearson
fixed: Should be fixed by …
10:55 PM Ticket #5836 (Blast session-restore failure) closed by Zach Pearson
fixed: Should be fixed by …
5:12 PM Ticket #5842 (Status bar destruction: wrapped C/C++ object of type QScreen has been ...) created by lochuynh@…
[…]
1:57 PM Ticket #5839 (Crash in event loop) closed by pett
can't reproduce
1:53 PM Ticket #5838 (new-version query not catching exception that getpass.getuser() throws) closed by pett
duplicate
1:40 PM Ticket #5837 (cant open chimerax) closed by pett
limitation: Hi Gustav, I'm sorry, but ChimeraX is not supported on Windows 7. …
1:35 PM Ticket #5835 (label-height check bad) closed by pett
fixed: Hi Wally! Thanks for reporting this. I've fixed the problem and the …
12:09 PM Ticket #5841 (Crash showing side view) created by chimerax-bug-report@…
[…]
11:26 AM Ticket #5840 (SSL failure on startup checking for new version) created by pett
[…]
11:25 AM Ticket #5834 (Long atom spec crashes ChimeraX) closed by pett
duplicate
11:16 AM Ticket #5833 (Long atom spec crashes ChimeraX) closed by pett
duplicate
3:09 AM Ticket #5839 (Crash in event loop) created by chimerax-bug-report@…
[…]
2:10 AM Ticket #5838 (new-version query not catching exception that getpass.getuser() throws) created by chimerax-bug-report@…
[…]

Dec 26, 2021:

10:24 PM Ticket #5837 (cant open chimerax) created by ngsundell@…
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6:19 PM Ticket #5836 (Blast session-restore failure) created by xinkaili@…
[…]
1:14 PM Ticket #5835 (label-height check bad) created by novakw@…
[…]

Dec 25, 2021:

11:14 PM Ticket #5834 (Long atom spec crashes ChimeraX) created by chimerax-bug-report@…
[…]
11:06 PM Ticket #5833 (Long atom spec crashes ChimeraX) created by chimerax-bug-report@…
[…]
6:32 PM Ticket #5832 (Graphics driver crash, macOS 10.15.7, GeForce GT 650M) created by chimerax-bug-report@…
[…]
1:08 AM Ticket #5831 (Blast session-restore failure) created by chimerax-bug-report@…
[…]

Dec 24, 2021:

9:45 AM Ticket #5830 (Heap corrupted) closed by pett
can't reproduce
9:44 AM Ticket #5829 (Coulombic failure with explicit palette) closed by pett
duplicate: Fixed a year ago.
9:35 AM Ticket #5830 (Heap corrupted) created by chimerax-bug-report@…
[…]

Dec 23, 2021:

10:29 PM Ticket #5829 (Coulombic failure with explicit palette) created by chimerax-bug-report@…
[…]
3:25 PM Ticket #5828 (Crash drawing frame) created by stxamalg@…
[…]
10:11 AM Ticket #5825 (Crash with trashed stack) closed by pett
can't reproduce: Hi Valerie, Thanks for getting back to us. For now, this crash will …
9:54 AM Ticket #5827 (Crash in event loop) closed by pett
can't reproduce: Heap corruption
1:52 AM Ticket #5827 (Crash in event loop) created by chimerax-bug-report@…
[…]

Dec 22, 2021:

9:45 AM Ticket #5824 (Crash in event loop) closed by pett
can't reproduce
3:13 AM Ticket #5826 (Crash in OpenVR waitGetPoses on Linuc) created by chimerax-bug-report@…
[…]
1:27 AM Ticket #5825 (Crash with trashed stack) created by biou@…
[…]

Dec 21, 2021:

6:50 PM Ticket #5824 (Crash in event loop) created by chimerax-bug-report@…
[…]
3:30 PM Ticket #1011 (atomspec should not include bonds with only one end specified) closed by pett
fixed: Changed the behavior of the '~' operator and the ~sel command to …
11:50 AM DeveloperMeetings edited by Tom Goddard
(diff)
11:50 AM DeveloperMeetings edited by Tom Goddard
(diff)
10:29 AM Ticket #5823 ('VolumeViewer' object has no attribute 'tool_window') closed by pett
duplicate: Duplicate of #5015
10:14 AM Ticket #5821 (new-version query not catching exception that getpass.getuser() throws) closed by pett
duplicate: Apparently this "extremely unlikely" event isn't actually that unlikely.
10:11 AM Ticket #5820 (Crash in event loop) closed by pett
can't reproduce

Dec 20, 2021:

8:19 PM Ticket #5823 ('VolumeViewer' object has no attribute 'tool_window') created by chimerax-bug-report@…
[…]
2:23 PM Ticket #5822 (ISOLDE: .cif does not appear to contain any valid residue templates) created by kirk.n@…
[…]
1:37 PM Ticket #4676 (color byattribute colors residues even if no residue atom has an ...) closed by pett
fixed: In one of the code paths in "color byattr", the length of the array of …
12:28 PM Ticket #5821 (new-version query not catching exception that getpass.getuser() throws) created by chimerax-bug-report@…
[…]
11:34 AM Ticket #5820 (Crash in event loop) created by chimerax-bug-report@…
[…]
11:12 AM Ticket #5808 (Rotamers calls changed size() directly) closed by pett
fixed: Hi Yen-Li, Thanks for reporting this problem. I have committed a fix …
10:12 AM Ticket #5814 (Windows 7 graphics error) closed by Tom Goddard
nonchimerax: Windows 7 is not supported.
10:11 AM Ticket #5812 (Windows 7 graphics error) closed by Tom Goddard
nonchimerax: Windows 7 is not supported.
10:10 AM Ticket #5810 (Crash getting cursor position) closed by Tom Goddard
can't reproduce: Can't believe Qt actually crashes in getting the cursor position. And …
9:42 AM Ticket #5819 (Crash opening PDB file) closed by pett
can't reproduce
9:41 AM Ticket #5818 (Crash in event loop) closed by pett
can't reproduce
9:39 AM Ticket #5817 (Crash in event loop) closed by pett
can't reproduce
9:38 AM Ticket #5816 (Index error opening regular PDB in MD Viewer) closed by pett
limitation
9:34 AM Ticket #5815 (Crash showing Rapid Access at startup) closed by pett
can't reproduce
4:10 AM Ticket #5819 (Crash opening PDB file) created by chimerax-bug-report@…
[…]
3:13 AM Ticket #5818 (Crash in event loop) created by chimerax-bug-report@…
[…]
3:02 AM Ticket #5817 (Crash in event loop) created by chimerax-bug-report@…
[…]
3:00 AM Ticket #5816 (Index error opening regular PDB in MD Viewer) created by chimerax-bug-report@…
[…]

Dec 19, 2021:

11:50 PM Ticket #5815 (Crash showing Rapid Access at startup) created by chimerax-bug-report@…
[…]
10:34 PM Ticket #5814 (Windows 7 graphics error) created by chimerax-bug-report@…
[…]
10:34 PM Ticket #5813 (Version conflict during ISOLDE initialization?!?) created by chimerax-bug-report@…
[…]
5:43 PM Ticket #5812 (Windows 7 graphics error) created by chimerax-bug-report@…
[…]

Dec 18, 2021:

8:51 AM Ticket #5811 (Add Charge: handle UNK as templated if appropriate) created by chimerax-bug-report@…
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6:41 AM Ticket #5810 (Crash getting cursor position) created by chimerax-bug-report@…
[…]
5:28 AM Ticket #5809 (Crash in event loop) created by p.albanese@…
[…]

Dec 17, 2021:

10:48 PM Ticket #5808 (Rotamers calls changed size() directly) created by yen-li.li@…
[…]
10:37 PM Ticket #5755 (Make AlphaFold search use latest version of AlphaFold database) closed by Tom Goddard
fixed: Fixed. Elaine has documented which version of the database is being …
10:27 PM Ticket #5800 (find_close_points_boxes crashes on large coordinate ranges) closed by Tom Goddard
fixed: Fixed. Made find_close_points() raise a Python exception for infinite …
9:56 PM Ticket #5804 (map windowing: '<' not supported between instances of 'list' and 'tuple') closed by Tom Goddard
fixed: Fixed. Somehow an image threshold which is normally a Python tuple …
8:28 PM Ticket #5807 (Session save crashes when it registers all aliased commands) created by Tom Goddard
Saving a session should not register every aliased command as a …
8:22 PM Ticket #5806 (Crash registering webcam command) closed by Tom Goddard
can't reproduce: ChimeraX crashed saving a session when importing QtMultimedia which is …
6:14 PM Ticket #5803 (MatchMaker chains within structure) closed by pett
fixed: Fixed the code that detects this problem.
6:05 PM Ticket #5805 (Cannot restore session: _pickle.UnpicklingError: invalid load key) closed by pett
duplicate
4:38 PM Ticket #5794 (new-version query not catching exception that getpass.getuser() throws) closed by Greg Couch
fixed: Make a robust version of getuser()
4:25 PM Ticket #5806 (Crash registering webcam command) created by kelvin.lau@…
[…]
1:23 PM Ticket #5805 (Cannot restore session: _pickle.UnpicklingError: invalid load key) created by chimerax-bug-report@…
[…]
10:54 AM Ticket #5804 (map windowing: '<' not supported between instances of 'list' and 'tuple') created by m-schmid@…
[…]
10:29 AM Ticket #5803 (MatchMaker chains within structure) created by nxb318@…
[…]
9:47 AM Ticket #5802 (Immediate crash, possible in QWebEngine) closed by pett
can't reproduce
1:20 AM Ticket #5802 (Immediate crash, possible in QWebEngine) created by chimerax-bug-report@…
[…]

Dec 16, 2021:

7:17 PM NTTData edited by Tom Goddard
(diff)
5:41 PM Ticket #5792 (setattr: local variable 'parser' referenced before assignment) closed by pett
fixed: Hi Chris, Thanks for reporting this problem. I have committed a fix …
4:56 PM Ticket #5801 (Crash creating QWebEngineProfile) closed by pett
duplicate
4:53 PM Ticket #5793 (Crash in subdivide_triangles() after calculating contour surface) closed by Tom Goddard
can't reproduce: Access violation in subdivide_triangles(). No clues. No other …
4:47 PM 2021-12-16 edited by Tom Goddard
(diff)
4:42 PM Dev2021-12-16 edited by Tom Goddard
(diff)
3:34 PM Ticket #5801 (Crash creating QWebEngineProfile) created by chimerax-bug-report@…
[…]
3:04 PM Ticket #5800 (find_close_points_boxes crashes on large coordinate ranges) created by Tristan Croll
[…]
2:05 PM NTTData edited by Elaine Meng
(diff)
2:04 PM NTTData edited by Elaine Meng
(diff)
1:52 PM NTTData edited by Elaine Meng
(diff)
1:36 PM NTTData edited by Elaine Meng
(diff)
1:28 PM NTTData edited by Elaine Meng
(diff)
12:54 PM Ticket #5797 (Crash involving MatchMaker) closed by pett
can't reproduce: Couldn't get it to happen on Windows either.
12:33 PM ChangeLog edited by Elaine Meng
(diff)
12:25 PM ChangeLog edited by Elaine Meng
(diff)
12:18 PM Ticket #5799 (ISOLDE crash in get_shell_of_residues: extremely deep recursion in ...) created by chimerax-bug-report@…
[…]
11:06 AM Ticket #5798 (Crash setting StructureSeq chain_id) closed by pett
duplicate
10:28 AM Ticket #5795 (Cannot save model panel settings) closed by pett
duplicate
10:19 AM Ticket #5791 (Crash opening PDB file) closed by pett
can't reproduce: Not much to go on. Could be the non-ASCII problem that's already been …
9:58 AM 2021-12-16 edited by Tom Goddard
(diff)
9:56 AM 2021-12-16 edited by Tom Goddard
(diff)
9:49 AM 2021-12-16 edited by Tom Goddard
(diff)
9:30 AM Ticket #5798 (Crash setting StructureSeq chain_id) created by chimerax-bug-report@…
[…]
8:11 AM Ticket #5797 (Crash involving MatchMaker) created by chimerax-bug-report@…
[…]
7:27 AM Ticket #5796 (Stack overflow, possibly due to screen locking) created by nxb318@…
[…]
3:19 AM Ticket #5795 (Cannot save model panel settings) created by chimerax-bug-report@…
[…]

Dec 15, 2021:

9:40 PM Ticket #5766 ("help define selector": 'NoneType' object has no attribute 'split') closed by Greg Couch
fixed: The command_url function should have raised an error when it didn't …
7:29 PM Ticket #5794 (new-version query not catching exception that getpass.getuser() throws) created by chimerax-bug-report@…
[…]
6:18 PM Ticket #5793 (Crash in subdivide_triangles() after calculating contour surface) created by chimerax-bug-report@…
[…]
4:33 PM Ticket #5756 (Make size command able to change atom radius by adding some amount) closed by pett
fixed: The command now accepts +/- deltas in addition to absolute amounts
2:21 PM Ticket #5792 (setattr: local variable 'parser' referenced before assignment) created by chris.moth@…
[…]
2:01 PM Ticket #5791 (Crash opening PDB file) created by chimerax-bug-report@…
[…]
1:08 PM Ticket #5788 (Crash initializing ISOLDE) closed by Tristan Croll
fixed: Will be fixed in the new release (GUI is now created on the next "new …
12:03 PM Ticket #5790 (AlphaFold disulphides missing) closed by Tom Goddard
wontfix: Good to know. This bug report should be filed with EBI AlphaFold
11:53 AM Ticket #5789 (Crash opening big alignment) closed by pett
can't reproduce
11:53 AM Ticket #5789 (Crash opening big alignment) reopened by pett
11:52 AM Ticket #5789 (Crash opening big alignment) closed by pett
can't reproduce: Crash was in adding text (likely a single alignment letter) to a large …
11:22 AM Ticket #5790 (AlphaFold disulphides missing) created by Tristan Croll
[…]
11:00 AM Ticket #5789 (Crash opening big alignment) created by chimerax-bug-report@…
[…]
10:32 AM Ticket #5787 (Crash registering webcam command) closed by Tom Goddard
can't reproduce
4:34 AM Ticket #5788 (Crash initializing ISOLDE) created by apate31@…
[…]

Dec 14, 2021:

11:26 PM Ticket #5780 (Error in newer-versions dialog) closed by Greg Couch
can't reproduce: I see the request logged at 2021/12/13 10:20:21 PST. Using the exact …
11:06 PM Ticket #5786 (Crash in event loop) closed by Tom Goddard
can't reproduce: Looks like ChimeraX crashed after opening a session file […] It …
11:04 PM Ticket #5787 (Crash registering webcam command) created by paulino@…
[…]
4:20 PM Ticket #5785 (Problem swapping pseudo symmetric side chains) closed by pett
duplicate: Follow-on error from previously reported error
4:19 PM Ticket #5784 (Problem swapping pseudo symmetric side chains) closed by pett
duplicate: Follow-on error from previously reported error
4:14 PM Ticket #5782 (Crash in event loop) closed by pett
can't reproduce
1:18 PM Ticket #5786 (Crash in event loop) created by angelica-12-02@…
[…]
1:14 PM Ticket #5785 (Problem swapping pseudo symmetric side chains) created by nxb318@…
[…]
1:14 PM Ticket #5784 (Problem swapping pseudo symmetric side chains) created by nxb318@…
[…]
1:10 PM Ticket #5783 (Problem swapping pseudo symmetric side chains) created by nxb318@…
[…]
12:21 PM Ticket #5782 (Crash in event loop) created by chimerax-bug-report@…
[…]
10:32 AM Dev2021-12-16 created by Tom Goddard
10:29 AM 2021-12-16 created by Tom Goddard
10:27 AM DeveloperMeetings edited by Tom Goddard
(diff)
9:52 AM Ticket #2933 (Window management UI suggestions) closed by pett
wontfix: E1) Make double click on floating tool title bar not dock the tool. …
9:07 AM Ticket #5781 (Qt crash during exit) closed by pett
can't reproduce
8:12 AM Ticket #5781 (Qt crash during exit) created by chimerax-bug-report@…
[…]

Dec 13, 2021:

11:06 PM Ticket #5780 (Error in newer-versions dialog) created by lihao9x@…
[…]
4:42 PM Ticket #5779 (AlphaFold search blast results: TypeError: not enough arguments for ...) closed by Zach Pearson
fixed: Should be fixed by …
4:16 PM Ticket #5779 (AlphaFold search blast results: TypeError: not enough arguments for ...) created by goddard@…
[…]
4:05 PM Ticket #5764 (Crash in Rings iteration) closed by pett
fixed: Had Rings collection immediately create its component rings. Not 100% …
3:55 PM Ticket #5777 (QOpenGLFramebufferObject: Framebuffer incomplete attachment) closed by Tom Goddard
nonchimerax: OpenGL reports out of memory trying to load just 3 Mbytes into an …
3:00 PM Ticket #5774 (AlphaFold blast job: Internal Server Error) closed by Zach Pearson
fixed: Up and running again!
2:38 PM Ticket #5776 (Crash processing event) closed by Tom Goddard
can't reproduce: This ChimeraX crash was caused by the Qt window toolkit calling a …
2:35 PM Ticket #5775 (Crash during or after saving session) closed by Tom Goddard
duplicate: Same report as of #5776. Identical crash report (same exact time...). …
2:26 PM Ticket #5778 (Save session: DLL load failed while importing _imaging: Insufficient ...) created by chimerax-bug-report@…
[…]
1:05 PM Ticket #5777 (QOpenGLFramebufferObject: Framebuffer incomplete attachment) created by chimerax-bug-report@…
[…]
1:02 PM Ticket #5776 (Crash processing event) created by xiang.feng@…
[…]
12:59 PM Ticket #5775 (Crash during or after saving session) created by chimerax-bug-report@…
[…]
12:17 PM Ticket #5774 (AlphaFold blast job: Internal Server Error) created by chimerax-bug-report@…
[…]
11:28 AM Ticket #5767 (Crash creating QWebEngineProfile) closed by Tom Goddard
duplicate: Crashed at startup creating file history html widget in …
11:15 AM Ticket #5771 (Crash, possibly while saving image) closed by Tom Goddard
can't reproduce: Crashed getting an atomic attribute Thread 0x00002fd4 (most recent …
11:07 AM Ticket #5773 (Cannot restore session: _pickle.UnpicklingError: invalid load key) closed by pett
duplicate
11:06 AM Ticket #5765 (glViewport: invalid operation) closed by Tom Goddard
can't reproduce: Appears to be an error on startup. Status line got an expose event, …
11:03 AM Ticket #5772 (Crash after running MatchMaker) closed by pett
can't reproduce
10:52 AM Ticket #5770 (Crash in numpy, probably .any()) closed by pett
can't reproduce
10:49 AM Ticket #5769 (Session code trying to take len() of 'SurfaceUpdaters') closed by pett
duplicate: Hi Kuen, Thanks for reporting this problem. It was fixed about 6 …
10:44 AM Ticket #5768 (Fatal Qt error during app initialization) closed by pett
duplicate: duplicate of #5749
9:48 AM Ticket #5763 (Useless Windows error reports) closed by pett
can't reproduce
7:43 AM Ticket #5773 (Cannot restore session: _pickle.UnpicklingError: invalid load key) created by chimerax-bug-report@…
[…]
7:04 AM Ticket #5772 (Crash after running MatchMaker) created by chimerax-bug-report@…
[…]
1:01 AM Ticket #5771 (Crash, possibly while saving image) created by chimerax-bug-report@…
[…]
12:06 AM Ticket #5770 (Crash in numpy, probably .any()) created by chimerax-bug-report@…
[…]

Dec 12, 2021:

10:47 PM Ticket #5769 (Session code trying to take len() of 'SurfaceUpdaters') created by kpwulab@…
[…]
10:10 PM Ticket #5768 (Fatal Qt error during app initialization) created by chimerax-bug-report@…
[…]
9:30 PM Ticket #5767 (Crash creating QWebEngineProfile) created by chimerax-bug-report@…
[…]
4:16 PM Ticket #5766 ("help define selector": 'NoneType' object has no attribute 'split') created by chimerax-bug-report@…
[…]
2:27 PM Ticket #5765 (glViewport: invalid operation) created by chimerax-bug-report@…
[…]
11:12 AM Ticket #5764 (Crash in Rings iteration) created by chimerax-bug-report@…
[…]

Dec 11, 2021:

2:45 PM Ticket #5763 (Useless Windows error reports) created by chimerax-bug-report@…
[…]
7:42 AM Ticket #5762 (Improve/remove "discussions" link) created by Tristan Croll
[…]
12:34 AM Ticket #5761 (Crash showing Rapid Access at startup) created by g18m8622@…
[…]

Dec 10, 2021:

12:41 PM Ticket #5669 (ISOLDE: restrain torsions: Each residue selection must be from a ...) closed by Tristan Croll
fixed: The error is pretty much what it says it is: the user should be …
12:35 PM Ticket #5760 (Crash rotating structure) closed by Tom Goddard
can't reproduce: Possibly a graphics driver crash. Could they have opened a PDB file …
12:32 PM Ticket #5672 (ISOLDE: 'NoneType' object has no attribute 'is_difference_map') closed by Tristan Croll
fixed
12:32 PM Ticket #5707 (OpenMM: Error compiling program: nvrtc: error: invalid value for ...) closed by Tristan Croll
fixed: If you install ChimeraX 1.3 and install ISOLDE 1.3 into that, this …
10:25 AM Ticket #5760 (Crash rotating structure) created by chimerax-bug-report@…
[…]
9:34 AM Ticket #5754 (Crash after close session) closed by pett
can't reproduce
9:31 AM Ticket #5753 (Toolshed using internal UI API) closed by pett
duplicate: Hi Ken, That error didn't actually cause any harm, so you can ignore. …
9:25 AM Ticket #5143 (Avoid recalculating idatm_types for entire model after changes?) reopened by pett
I have further ideas for speed up (namely, make the dirty bit …

Dec 9, 2021:

11:22 PM Ticket #5759 (Improve --script option documentation) created by goddard@…
[…]
10:30 PM Ticket #5758 (Add ability to publish session file to NIH 3D database) created by phil.cruz@…
Could be useful to upload not just GLTF, but also ChimeraX session …
10:26 PM Ticket #5757 (Make presets useful for 3D printing atomic models) created by phil.cruz@…
Phil Cruz has about 10 presets that help set dimensions and colors for …
10:23 PM Ticket #5756 (Make size command able to change atom radius by adding some amount) created by phil.cruz@…
Phil Cruz wants this for helping make suitable atomic model displays …
7:38 PM Ticket #5755 (Make AlphaFold search use latest version of AlphaFold database) created by Tom Goddard
The AlphaFold database just updated from version 1 to version 2 with …
6:58 PM Ticket #5754 (Crash after close session) created by chimerax-bug-report@…
[…]
5:58 PM Ticket #5143 (Avoid recalculating idatm_types for entire model after changes?) closed by pett
fixed: Well, I committed changes and tweaks that make IDATM computation take …
3:35 PM 2021-12-9 edited by Tom Goddard
(diff)
3:14 PM Ticket #5753 (Toolshed using internal UI API) created by satyshur@…
[…]
1:19 PM NTTData edited by Elaine Meng
(diff)
1:04 PM Ticket #5752 (ISOLDE downloaded but not installed) created by satyshur@…
[…]
1:02 PM NTTData edited by Elaine Meng
(diff)
12:31 PM NTTData edited by Elaine Meng
(diff)
12:26 PM NTTData edited by Elaine Meng
(diff)
11:05 AM Ticket #5747 (ISOLDE vs. 1.4) closed by Greg Couch
fixed
10:54 AM Ticket #5750 (Out of space writing file history) closed by Tom Goddard
not a bug: The file history is limited to 200 entries and the thumbnail images …
10:51 AM 2021-12-9 edited by Tom Ferrin
(diff)
10:43 AM 2021-12-9 edited by Tom Ferrin
(diff)
9:48 AM Ticket #5751 (Crash showing Rapid Access at startup) closed by pett
can't reproduce
9:43 AM Ticket #5749 (Fatal Qt error during app initialization) closed by pett
can't reproduce
6:51 AM Ticket #5751 (Crash showing Rapid Access at startup) created by chimerax-bug-report@…
[…]
6:30 AM Ticket #5750 (Out of space writing file history) created by venkatareddy@…
[…]
6:06 AM Ticket #5749 (Fatal Qt error during app initialization) created by chimerax-bug-report@…
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12:22 AM Ticket #5748 (Crash calculating contour surface) created by chimerax-bug-report@…
[…]

Dec 8, 2021:

2:48 PM Milestone 1.3 completed
== Approximate Schedule == * September 15 - November 1, 2021: First …
1:34 PM Ticket #5747 (ISOLDE vs. 1.4) created by tclevela@…
[…]
10:59 AM Ticket #5746 (OpenMMException: Error compiling program: nvrtc: error: failed to open ...) created by venkatareddy@…
The following bug report has been submitted: Platform: …
10:53 AM Ticket #5745 (OpenMM: Error compiling program: nvrtc: error: failed to open ...) created by pett
The following bug report has been submitted: Platform: …

Dec 7, 2021:

5:34 PM Ticket #5744 (Interfaces: 'ContactPlot' object has no attribute '_handler') closed by pett
duplicate: Hi Jonathan, The earlier error with the 'interfaces' command …
4:20 PM Ticket #5734 (Log and AlphaFold window are blank, plus various deprecation warnings) closed by Greg Couch
limitation: So I was able to duplicate this running Fedora 35 in a virtual …
3:54 PM Ticket #5744 (Interfaces: 'ContactPlot' object has no attribute '_handler') created by jonathan.sheehan@…
[…]
12:48 PM Ticket #5743 (Quick Start Guide: Linux Python missing bz2 module) created by jonathan.sheehan@…
[…]
12:15 PM ChangeLog edited by Elaine Meng
(diff)
10:34 AM Ticket #5741 (Can't restore session due to attr-registration conflict) closed by pett
fixed: I see. Default-value support is still present in 1.3, but you …
10:26 AM 2021-12-9 edited by Tom Goddard
(diff)
10:26 AM 2021-12-9 edited by Tom Goddard
(diff)
10:25 AM 2021-12-9 edited by Tom Goddard
(diff)
10:25 AM 2021-12-9 edited by Tom Goddard
(diff)
10:25 AM 2021-12-9 created by Tom Goddard
10:23 AM DeveloperMeetings edited by Tom Goddard
(diff)
9:44 AM Ticket #5742 (Crash calling QGuiApplication::mouseButtons()) closed by Tom Goddard
can't reproduce: Thread 0x00001204 (most recent call first): File "C:\Program …
9:13 AM Ticket #5739 (Crash reading mmCIF file) closed by pett
can't reproduce
3:13 AM Ticket #5742 (Crash calling QGuiApplication::mouseButtons()) created by chimerax-bug-report@…
[…]
1:38 AM Ticket #5741 (Can't restore session due to attr-registration conflict) created by Tristan Croll
[…]

Dec 6, 2021:

11:23 PM Ticket #5740 (please add aPNG format for movie output) closed by Greg Couch
fixed: Well, this was easier than I thought. So it will be in the next day's …
9:36 PM Ticket #5740 (please add aPNG format for movie output) created by Frank Irby <fourpaws3@…>
On 12/6/2021 8:21 PM, Frank Irby via Chimera-users wrote: > I produce …
5:02 PM Ticket #5739 (Crash reading mmCIF file) created by chimerax-bug-report@…
[…]
4:49 PM ChangeLog edited by Elaine Meng
(diff)
1:54 PM Ticket #5738 (No space left on device recording movie) closed by Tom Goddard
nonchimerax: User ran out of disk space saving images for a movie. Looks like a …
1:53 PM Ticket #5736 (Operation timed out reading volume) closed by Tom Goddard
nonchimerax: Was trying to read a few planes of data from an MRC file and the disk …
11:59 AM Ticket #5737 (Crash in swap_buffers) closed by pett
can't reproduce
11:55 AM Ticket #5735 (CrashReporter can't access ~/Library/Logs/DiagnosticReports) closed by pett
duplicate
11:47 AM Ticket #5733 (Crash closing session) closed by pett
can't reproduce: Earlier on, there was a "QMainWindowLayout::tabPosition called with …
6:33 AM Ticket #5738 (No space left on device recording movie) created by chimerax-bug-report@…
[…]
5:59 AM Ticket #5737 (Crash in swap_buffers) created by chimerax-bug-report@…
[…]
5:15 AM Ticket #5736 (Operation timed out reading volume) created by chimerax-bug-report@…
[…]
1:25 AM Ticket #5735 (CrashReporter can't access ~/Library/Logs/DiagnosticReports) created by chimerax-bug-report@…
[…]

Dec 5, 2021:

9:06 PM Ticket #5734 (Log and AlphaFold window are blank, plus various deprecation warnings) created by yuliang@…
[…] Screenshot from 2021-12-06 00-03-55.png
6:44 PM Ticket #5733 (Crash closing session) created by chimerax-bug-report@…
[…]
Note: See TracTimeline for information about the timeline view.