Timeline



Nov 23, 2021:

11:10 PM 2021-12-2 created by Tom Goddard
11:08 PM DeveloperMeetings edited by Tom Goddard
(diff)
10:42 PM Ticket #5672 (ISOLDE: 'NoneType' object has no attribute 'is_difference_map') created by chimerax-bug-report@…
[…]
8:00 PM Ticket #5671 (ISOLDE: All atoms for zone mask must be from a single model) created by chimerax-bug-report@…
[…]
3:06 PM Ticket #5670 (OpenMM: Error uploading array TabulatedFunction) created by ria2@…
The following bug report has been submitted: Platform: …
3:00 PM Ticket #5669 (ISOLDE: restrain torsions: Each residue selection must be from a ...) created by pett
The following bug report has been submitted: Platform: …
2:24 PM Ticket #5668 (Antechamber failure) closed by pett
duplicate: Hi Michael, Thanks for reporting this problem. It is fixed in the …
9:27 AM Ticket #5668 (Antechamber failure) created by weberm@…
[…]
9:15 AM Ticket #5666 (Error executing custom "read CASTp" script) closed by pett
nonchimerax: Tried to read a directory as a regular file
9:10 AM Ticket #5665 (Crash fetching pseudobond group's _graphics_changed attribute) closed by pett
can't reproduce
9:04 AM Ticket #5664 (Unknown QWebEngine crash) closed by pett
can't reproduce
6:05 AM Ticket #5667 (ring/atom type "sticky") created by Tristan Croll
[…]
2:16 AM Ticket #5666 (Error executing custom "read CASTp" script) created by chimerax-bug-report@…
[…]
12:18 AM Ticket #5665 (Crash fetching pseudobond group's _graphics_changed attribute) created by chimerax-bug-report@…
[…]

Nov 22, 2021:

6:21 PM Ticket #5664 (Unknown QWebEngine crash) created by chimerax-bug-report@…
[…]
6:14 PM Ticket #5634 (Reading hdf5 files broken on Mac) closed by Tom Goddard
fixed
4:38 PM Ticket #5663 (surface vs. view) created by pett
I'm not sure you'll regard this as a bug, but if you have one residue …
4:23 PM Ticket #5649 (Add charge failure for J8A) closed by pett
fixed: Antechamber doesn't like the fact that the atom names are not of the …
3:39 PM Ticket #5662 (TypeError: hk_icosahedron_lattice() missing 1 required positional ...) closed by Tom Goddard
fixed: Fixed in 1.3 and 1.4. Adding alpha option to hkcage command broke …
3:22 PM Ticket #5662 (TypeError: hk_icosahedron_lattice() missing 1 required positional ...) created by goddard@…
[…]
3:16 PM Ticket #5656 (Failure fetching UniProt sequence/info) closed by pett
nonchimerax: It's an obsolete UniProt accession ID. Reported it to the RCSB.
12:43 PM Ticket #5661 (Crash deleting atoms) closed by pett
duplicate
12:39 PM Ticket #5661 (Crash deleting atoms) created by chimerax-bug-report@…
[…]
12:14 PM Ticket #5653 (Dual display crash) closed by Tom Goddard
nonchimerax: Crash in the Qt window toolkit used by ChimeraX. We have seen many of …
11:41 AM Ticket #5660 (ImportError: libGLU.so.1: cannot open shared object file: No such file ...) created by chimerax-bug-report@…
[…]
11:28 AM Ticket #5659 (Crash deleting atoms) closed by pett
duplicate
11:24 AM Ticket #5655 (OpenMM: Error launching CUDA compiler: Value 'sm_30' is not defined ...) closed by Tristan Croll
fixed: This will go away as soon as I manage to get ISOLDE 1.3 out the door. …
10:54 AM Ticket #5659 (Crash deleting atoms) created by chimerax-bug-report@…
[…]
10:52 AM Ticket #5658 (Crash deleting atoms) closed by pett
duplicate
10:51 AM Ticket #5657 (Crash deleting atoms) closed by pett
can't reproduce: Possibly duplicate.
10:46 AM Ticket #5654 (Crash resolving ctypes pointer) closed by pett
can't reproduce
10:43 AM Ticket #5652 (Crash in matplotlib) closed by pett
can't reproduce
10:42 AM Ticket #5658 (Crash deleting atoms) created by chimerax-bug-report@…
[…]
10:34 AM Ticket #5651 (Crash saving session including alphafold prediction) closed by pett
can't reproduce
10:31 AM Ticket #5657 (Crash deleting atoms) created by chimerax-bug-report@…
[…]
10:10 AM Ticket #5656 (Failure fetching UniProt sequence/info) created by pett
[…]
9:59 AM Ticket #5646 (Long atom spec crashes ChimeraX) closed by pett
duplicate
9:58 AM Ticket #5645 (Long atom spec crashes ChimeraX) closed by pett
duplicate
9:57 AM Ticket #5644 (Long atom spec crashes ChimeraX) closed by pett
duplicate
9:55 AM Ticket #5643 (Long atom spec crashes ChimeraX) closed by pett
duplicate
9:45 AM Ticket #5642 ('SaveModelOptionWidget' object has no attribute '_name') closed by pett
duplicate
6:35 AM Ticket #5655 (OpenMM: Error launching CUDA compiler: Value 'sm_30' is not defined ...) created by kostrewa@…
[…]
6:05 AM Ticket #5654 (Crash resolving ctypes pointer) created by chimerax-bug-report@…
[…]
2:40 AM Ticket #5653 (Dual display crash) created by karin.wallden@…
[…]

Nov 21, 2021:

9:00 PM Ticket #5652 (Crash in matplotlib) created by chimerax-bug-report@…
[…]

Nov 20, 2021:

11:35 AM Ticket #5651 (Crash saving session including alphafold prediction) created by chimerax-bug-report@…
[…]
8:43 AM Ticket #5650 (Crash starting MatchMaker) created by jribeiro@…
[…]
8:36 AM Ticket #5649 (Add charge failure for J8A) created by Tristan Croll
[…]
8:22 AM Ticket #5648 (Delete alt locs: access violation) created by Tristan Croll
[…]

Nov 19, 2021:

11:47 PM Ticket #5646 (Long atom spec crashes ChimeraX) created by chimerax-bug-report@…
[…]
11:41 PM Ticket #5645 (Long atom spec crashes ChimeraX) created by chimerax-bug-report@…
[…]
11:41 PM Ticket #5644 (Long atom spec crashes ChimeraX) created by chimerax-bug-report@…
[…]
10:56 PM Ticket #5643 (Long atom spec crashes ChimeraX) created by chimerax-bug-report@…
[…]
2:28 PM Ticket #5642 ('SaveModelOptionWidget' object has no attribute '_name') created by chimerax-bug-report@…
[…]
1:12 PM Ticket #5641 (new bond: map::at: key not found) closed by pett
can't reproduce: Would need more info to reproduce. If the atoms being bonded weren't …
12:18 PM Ticket #5640 (Failure calling _cpp_modified during atom deletion) closed by pett
can't reproduce
12:16 PM Ticket #5639 (Crash opening session or getting cursor position) closed by pett
can't reproduce
12:14 PM Ticket #5638 (Blast results problem: 'NoneType' object has no attribute 'split') closed by pett
duplicate
12:13 PM Ticket #5641 (new bond: map::at: key not found) created by chimerax-bug-report@…
[…]
12:13 PM Ticket #5637 (Blast results problem: 'NoneType' object has no attribute 'split') closed by pett
duplicate
12:12 PM Ticket #5636 (Delete status bar: wrapped C/C++ object of type QScreen has been deleted) closed by pett
duplicate
12:10 PM Ticket #5619 (Missing ANTECHAMBER library on Windows) closed by pett
fixed: Yeah, I have tried a variety of things to get rid of that /tmp …
11:14 AM Ticket #5640 (Failure calling _cpp_modified during atom deletion) created by chimerax-bug-report@…
[…]
6:04 AM Ticket #5639 (Crash opening session or getting cursor position) created by chimerax-bug-report@…
[…]
1:31 AM Ticket #5638 (Blast results problem: 'NoneType' object has no attribute 'split') created by chimerax-bug-report@…
[…]
1:31 AM Ticket #5637 (Blast results problem: 'NoneType' object has no attribute 'split') created by chimerax-bug-report@…
[…]
12:51 AM Ticket #5636 (Delete status bar: wrapped C/C++ object of type QScreen has been deleted) created by chimerax-bug-report@…
[…]

Nov 18, 2021:

10:54 PM Ticket #5629 (Attempt to retrieve context when no valid context) closed by Tom Goddard
can't reproduce: I see why the traceback does not show frames above draw_new_frame() -- …
3:52 PM Ticket #5635 (Windows 8: glBlitFramebuffer: invalid operation) closed by pett
limitation
3:07 PM Ticket #5635 (Windows 8: glBlitFramebuffer: invalid operation) created by chimerax-bug-report@…
[…]
2:07 PM Dev2021-11-18 created by Tom Goddard
2:07 PM Dev2021-11-11 edited by Tom Goddard
(diff)
2:06 PM DeveloperMeetings edited by Tom Goddard
(diff)
1:43 PM Ticket #5625 (Crash drawing scene, Windows, possible graphics driver crash) closed by Tom Goddard
can't reproduce: Possibly a graphics driver crash.
1:34 PM Ticket #5630 (ISOLDE: various errors) closed by Tristan Croll
fixed: First error (`RuntimeError: edges should be a n x 2 array of unsigned …
1:34 PM Ticket #5624 (Blast results problem: 'NoneType' object has no attribute 'split') closed by Zach Pearson
fixed: Thank you for this bug report. I believe the issue was fixed in a …
1:12 PM Ticket #5628 (Crash checking if change-tracker changed) closed by pett
can't reproduce
12:55 PM Ticket #5626 (Crash saving PDB file(?)) closed by pett
can't reproduce: Though according to the Windows error log the problem had to do with …
12:49 PM Ticket #5634 (Reading hdf5 files broken on Mac) created by goddard@…
[…]
12:38 PM 2021-11-18 edited by Tom Goddard
(diff)
12:29 PM Ticket #5623 (rotamers table: 'setVisibile') closed by pett
fixed: Hi Doyeon, Thanks for reporting this problem. It was fixed about 5 …
11:56 AM Ticket #5633 (libGLU.so.1: cannot open shared object file: No such file or directory) created by goldgury@…
[…]
11:55 AM Ticket #5632 (libGLU.so.1: cannot open shared object file: No such file or directory) created by chimerax-bug-report@…
[…]
7:34 AM Ticket #5631 (ISOLDE: fix unparameterized residues: Residue already deleted) created by chimerax-bug-report@…
[…]
7:25 AM Ticket #5630 (ISOLDE: various errors) created by chimerax-bug-report@…
[…]
6:31 AM Ticket #5629 (Attempt to retrieve context when no valid context) created by chimerax-bug-report@…
[…]
6:10 AM Ticket #5628 (Crash checking if change-tracker changed) created by chimerax-bug-report@…
[…]
3:00 AM Ticket #4890 (Have Updates report newer production releases) closed by Greg Couch
fixed: There is a separate dialog that pops up when there are newer …
2:59 AM Ticket #1968 (use ajax to update ChimeraX download page) closed by Greg Couch
fixed: Switched to using JSON files that are updated by the build tools.
2:58 AM Ticket #5500 (stop bothering me) closed by Greg Couch
fixed: Incorporated suggestions from Elaine and Tom. Kept the ability to …
2:14 AM Ticket #5627 (Problem installing matplotlib_venn dependency) created by i.m.lagerwaard@…
[…] matplotlib_venn_installation_error.txt

Nov 17, 2021:

11:45 PM Ticket #5626 (Crash saving PDB file(?)) created by chimerax-bug-report@…
[…]
9:22 PM Ticket #5625 (Crash drawing scene, Windows, possible graphics driver crash) created by chimerax-bug-report@…
[…]
7:10 PM Ticket #5624 (Blast results problem: 'NoneType' object has no attribute 'split') created by chimerax-bug-report@…
[…]
7:04 PM Ticket #5623 (rotamers table: 'setVisibile') created by doyeon.kim@…
[…] Rotamer error 21-11-17 Doyeon Kim.png
11:56 AM Ticket #5622 (Make _nonstd_charge() public) closed by pett
fixed: Okay, _nonstd_charge() has become nonstd_charge(), its "status" …
11:31 AM Ticket #5617 (Morph segmentSieve: empty rList) closed by Tom Goddard
fixed: Fixed in 1.3 and 1.4. User was going the an ATP synthase morph …
11:03 AM Ticket #5616 (Crash in numpy saving session after alphafold prediction returned structure) closed by Tom Goddard
can't reproduce: […] This numpy line is just setting a Python attribute, pure …
10:58 AM Ticket #5615 (Crash creating QWebEngineProfile) closed by Tom Goddard
nonchimerax: Seems like a Qt bug. Crashed in the Qt constructor. profile = …
10:35 AM Ticket #5536 (Duplicate pseudobond depiction) closed by Greg Couch
fixed: Nucleotides deliberately uses Atom.effective_coord() instead of …
10:23 AM Ticket #5618 (Changes trigger before pb group restored(?)) closed by pett
can't reproduce: >Hi Eric, > >Unfortunately I don't have that original .cxs file that …
9:38 AM Ticket #5621 (Fatal Qt error during app initialization) closed by pett
can't reproduce: The app name given in "Path:" in the report seems F'ed up.
9:33 AM Ticket #5620 (Crash setting StructureSeq chain_id) closed by pett
duplicate
8:43 AM Ticket #5622 (Make _nonstd_charge() public) created by Tristan Croll
[…]
8:17 AM Ticket #5621 (Fatal Qt error during app initialization) created by chimerax-bug-report@…
[…]
7:20 AM Ticket #5620 (Crash setting StructureSeq chain_id) created by chimerax-bug-report@…
[…]
6:48 AM Ticket #5619 (Missing ANTECHAMBER library on Windows) created by Tristan Croll
[…]

Nov 16, 2021:

11:55 PM Ticket #5618 (Changes trigger before pb group restored(?)) created by kimsk@…
[…]
11:39 PM Ticket #5611 (Segger model added to scene twice) closed by Tom Goddard
duplicate: This ChimeraX Segger bug was fixed over a year ago (bug #3778). You …
11:32 PM Ticket #5614 (Crash initialing OpenGL, probably while removing external display) closed by Tom Goddard
can't reproduce: Maybe a crash disconnecting an external display -- is in …
11:28 PM Ticket #5613 (Crash in PyOpenGL numpy allocation for setting shader matrix) closed by Tom Goddard
can't reproduce: Same crash as #5152 on Mac. Maybe a PyOpenGL bug. Maybe garbage …
11:23 PM Ticket #5612 (glClear: invalid framebuffer operation) closed by Tom Goddard
can't reproduce: Drawing a status line message fails. The OpenGL make_current() does …
5:02 PM Ticket #5617 (Morph segmentSieve: empty rList) created by chimerax-bug-report@…
[…]
5:00 PM Ticket #5616 (Crash in numpy saving session after alphafold prediction returned structure) created by chimerax-bug-report@…
[…]
4:36 PM Ticket #5615 (Crash creating QWebEngineProfile) created by chimerax-bug-report@…
[…]
1:29 PM ChangeLog edited by pett
(diff)
1:29 PM ChangeLog edited by pett
(diff)
8:50 AM Ticket #5614 (Crash initialing OpenGL, probably while removing external display) created by chimerax-bug-report@…
[…]
6:57 AM Ticket #5613 (Crash in PyOpenGL numpy allocation for setting shader matrix) created by chimerax-bug-report@…
[…]

Nov 15, 2021:

9:29 PM Ticket #5612 (glClear: invalid framebuffer operation) created by chimerax-bug-report@…
[…]
5:25 PM ChangeLog edited by pett
(diff)
5:23 PM Ticket #5424 (Direct model panel editing) closed by pett
fixed: Implemented (double click on ID/name to initiate editing). Available …
2:38 PM Ticket #5611 (Segger model added to scene twice) created by mpm896@…
[…] RSA_seg.cxs
11:48 AM Ticket #5587 (Cannot reshow Distances tool) closed by pett
fixed: Hi Kate, Thanks for reporting this problem. I have fixed it now and …
11:25 AM Ticket #5593 (Cannot "color byattr" booleans) closed by pett
fixed: I have revised the error message to clarify that it needs a numeric …
11:15 AM Ticket #5607 (volume step 2: out of graphics memory) closed by Tom Goddard
limitation: Tried to show a size 2800,3750,288 map at step 2 (3 Gvoxels, float32, …
10:57 AM Ticket #5579 (Alphafold search blast results: 'NoneType' object has no attribute 'split') closed by Zach Pearson
fixed: Should be fixed in …
10:56 AM Ticket #5597 (Alphafold search blast results: 'NoneType' object has no attribute 'split') closed by Zach Pearson
duplicate: Duplicate of #5579
10:45 AM Ticket #5605 (Graphics driver crash, macOS 11.6, Intel Iris Plus Graphics 640) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
10:42 AM Ticket #5604 (Graphics driver crash, macos 10.15.7, GeForce GT 650M) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
10:27 AM Ticket #5610 (RFE: add Z-translate mouse mode) created by Elaine Meng
On Nov 15, 2021, at 8:20 AM, Pranav Shah <p.shah.lab@…> wrote: …
10:24 AM Ticket #5609 (RFE Side View top-viewing option) created by Elaine Meng
From: Oliver Clarke <olibclarke@…> Subject: Re: …
10:17 AM Ticket #5608 (RFE improve clipping plane visibility in Side View) created by Elaine Meng
From: Pranav Shah via ChimeraX-users <chimerax-users@…> …
9:02 AM Ticket #5606 (Destroying status bar: wrapped C/C++ object of type QScreen has been ...) closed by pett
duplicate
8:44 AM Ticket #5599 (Crash setting StructureSeq chain_id) closed by pett
duplicate
8:42 AM Ticket #5598 (Alphafold search blast results: 'NoneType' object has no attribute 'split') closed by pett
duplicate
6:34 AM Ticket #5607 (volume step 2: out of graphics memory) created by chimerax-bug-report@…
[…]

Nov 14, 2021:

10:51 PM Ticket #5606 (Destroying status bar: wrapped C/C++ object of type QScreen has been ...) created by chimerax-bug-report@…
[…]
8:52 AM Ticket #5605 (Graphics driver crash, macOS 11.6, Intel Iris Plus Graphics 640) created by chimerax-bug-report@…
[…]

Nov 13, 2021:

11:38 AM Ticket #5604 (Graphics driver crash, macos 10.15.7, GeForce GT 650M) created by chimerax-bug-report@…
[…]
11:22 AM Ticket #5603 (Log a link to fetch EMDB map when opening a PDB model from cryoEM) created by Tom Goddard
PDB models that have an associated EMDB map list that map in the mmCIF …
8:08 AM Ticket #5602 (Cannot save model panel settings) created by yubing.li@…
[…]

Nov 12, 2021:

5:00 PM 2021-11-18 created by Tom Goddard
4:56 PM DeveloperMeetings edited by Tom Goddard
(diff)
2:56 PM Ticket #5601 (Log templates from mmCIF files for theoretical models) created by ben@…
Ben is interested in being able to show template sequence alignments, …
1:30 PM Ticket #5600 (Allow global fitting avoid clashes with some already fit molecules) created by olibclarke@…
Begin forwarded message: From: Oliver Clarke via ChimeraX-users …
12:28 PM Ticket #5595 (cartoon undo: 'list' object has no attribute 'ribbon_tether_opacities') closed by Tom Goddard
fixed: This bug in the cartoon tether command was fixed more than a year ago. …
12:21 PM Ticket #5591 (Crash creating morph interpolation) closed by Tom Goddard
can't reproduce: User was running morph command in ChimeraX 1.2.5. Python stack trace …
12:03 PM Ticket #5586 (Crash in Qt on exit) closed by Tom Goddard
duplicate: Not sure why the Mac crash reports are sometimes in JSON format, but …
11:42 AM Ticket #5596 (Modeller comparative: HTTP Error 403: Forbidden) closed by pett
can't reproduce
11:34 AM Ticket #5594 (Fatal error during app initialization) closed by pett
can't reproduce
11:31 AM Ticket #5584 (wrapped C/C++ object of type QScreen has been deleted) closed by Tom Goddard
duplicate: Fixed several months ago, soon after 1.2.5 release.
11:17 AM Ticket #5592 (Crash showing rapid access at startup) closed by pett
duplicate
11:14 AM Ticket #5590 (Color editor calling into dead color button) closed by pett
duplicate
11:13 AM Ticket #5589 (Color editor calling into dead color button) closed by pett
duplicate: Hi Dmitry, Thanks for reporting this problem. We believe we fixed it …
10:49 AM Ticket #5583 (Crash firing selection-changed trigger after opening Alphafold model) closed by pett
can't reproduce
10:49 AM Ticket #5583 (Crash firing selection-changed trigger after opening Alphafold model) reopened by pett
10:48 AM Ticket #5583 (Crash firing selection-changed trigger after opening Alphafold model) closed by pett
can't reproduce: Well, a tantalizing amount of information, but without the structure …
10:45 AM Ticket #5599 (Crash setting StructureSeq chain_id) created by chimerax-bug-report@…
[…]
10:24 AM Ticket #5598 (Alphafold search blast results: 'NoneType' object has no attribute 'split') created by shabir.najmudin@…
[…]
10:14 AM Ticket #5597 (Alphafold search blast results: 'NoneType' object has no attribute 'split') created by shabir.najmudin@…
[…]
9:23 AM Ticket #5582 (Startup error on Windows 7) closed by pett
limitation
9:22 AM Ticket #5581 (Modeller: not enough args for format string) closed by pett
duplicate: Hi Yen-Li, Thanks for reporting this problem. It was corrected near …
9:18 AM Ticket #5580 (Alphafold search blast results: 'NoneType' object has no attribute 'split') closed by pett
duplicate
8:51 AM Ticket #5596 (Modeller comparative: HTTP Error 403: Forbidden) created by chimerax-bug-report@…
[…]
8:33 AM Ticket #5595 (cartoon undo: 'list' object has no attribute 'ribbon_tether_opacities') created by ed.luk@…
[…]
8:17 AM Ticket #5594 (Fatal error during app initialization) created by chimerax-bug-report@…
[…]
7:43 AM Ticket #5593 (Cannot "color byattr" booleans) created by mjc265@…
[…] working session Cas Epitope.cxs
4:06 AM Ticket #5592 (Crash showing rapid access at startup) created by chimerax-bug-report@…
[…]
1:48 AM Ticket #5591 (Crash creating morph interpolation) created by chimerax-bug-report@…
[…]
1:31 AM Ticket #5590 (Color editor calling into dead color button) created by semchonok@…
[…]
1:30 AM Ticket #5589 (Color editor calling into dead color button) created by semchonok@…
[…]

Nov 11, 2021:

5:33 PM Ticket #5588 (Log blank) created by nimendozam@…
[…] Bug in resent view and no log shown with pwd.png
3:52 PM Ticket #5587 (Cannot reshow Distances tool) created by kimsk@…
[…]
3:15 PM Ticket #5586 (Crash in Qt on exit) created by chimerax-bug-report@…
[…]
9:51 AM Ticket #5585 (Problem opening file hyperlinked in Excel in ChimeraX) created by jribeiro@…
[…]
5:41 AM Ticket #5584 (wrapped C/C++ object of type QScreen has been deleted) created by chimerax-bug-report@…
[…]

Nov 10, 2021:

9:58 PM Ticket #5583 (Crash firing selection-changed trigger after opening Alphafold model) created by chimerax-bug-report@…
[…]
9:57 PM Ticket #5582 (Startup error on Windows 7) created by chimerax-bug-report@…
[…]
9:53 PM Ticket #5581 (Modeller: not enough args for format string) created by yen-li.li@…
[…]
8:20 PM Ticket #5580 (Alphafold search blast results: 'NoneType' object has no attribute 'split') created by chimerax-bug-report@…
[…]
3:06 PM Ticket #5579 (Alphafold search blast results: 'NoneType' object has no attribute 'split') created by chung-han.tsai@…
[…]
11:58 AM Ticket #5578 (Run AlphaFold on UCSF Wynton cluster) created by Tom Goddard
Would like to allow ChimeraX to submit AlphaFold jobs to the UCSF …
11:48 AM Ticket #5427 (Read EMAN format: cannot load .dylibs/libhdf5.200.dylib) closed by Tom Goddard
fixed: Presumed fixed. Tested on macOS Big Sur but not tested on macOS Catalina.
11:46 AM Ticket #5450 (crash taking sqrt()?!?) closed by Tom Goddard
can't reproduce
10:16 AM Ticket #5575 (Crash in Qt event loop after changing transparency, access violation) closed by Tom Goddard
can't reproduce: Crashed in the Qt event loop. Probably not related to the last …
9:50 AM Ticket #5577 (Crash in set_sseq_chain_id) closed by pett
can't reproduce
9:00 AM Ticket #5577 (Crash in set_sseq_chain_id) created by chimerax-bug-report@…
[…]
1:19 AM Ticket #5576 (Update coordinates: OpenMM: RuntimeError: Release Object) created by chimerax-bug-report@…
[…]

Nov 9, 2021:

5:35 PM Training edited by Tom Goddard
(diff)
12:30 PM Ticket #5575 (Crash in Qt event loop after changing transparency, access violation) created by chimerax-bug-report@…
[…]
12:15 PM Ticket #5572 (Blast results: invalid literal for int() with base 10) closed by Zach Pearson
fixed
11:19 AM Ticket #5564 (Build Structure: cannot change rotamer library) closed by pett
fixed: Hi Charisma, Thanks for reporting this problem. I have fixed it now …
11:18 AM DeveloperMeetings edited by Tom Goddard
(diff)
11:16 AM Ticket #5574 (devel install does not replace previous bundle) created by jingrou.zeng18@…
The devel install command should replace the existing installed bundle …
11:12 AM Ticket #5568 (glGetFramebufferAttachmentParameteriv: invalid enumerant) closed by Tom Goddard
nonchimerax: Graphics driver bug, fails to start, ATI FirePro 2260 gpu (circa 2008).
11:10 AM Ticket #5567 (Disconnected screen crash) closed by Tom Goddard
duplicate: This ChimeraX crash is caused by removing an external screen on macOS …
11:04 AM Ticket #5566 (Crash in alphafold predict) closed by Tom Goddard
can't reproduce: I see ChimeraX crash sometime after you started an AlphaFold
11:01 AM Ticket #5563 (vseries slider: list index out of range) closed by Tom Goddard
duplicate: Fixed several months ago after 1.2.5 release. User created vseries …
10:53 AM Ticket #5562 (Status bar destruction: wrapped C/C++ object of type QScreen has been ...) closed by Tom Goddard
duplicate: Fixed several months ago.
10:34 AM Ticket #5573 (Crash showing rapid access at startup) closed by pett
can't reproduce
10:33 AM Ticket #5573 (Crash showing rapid access at startup) created by chimerax-bug-report@…
[…]
9:35 AM Ticket #5572 (Blast results: invalid literal for int() with base 10) created by Elaine Meng
[…]
8:59 AM Ticket #5571 (Blast: not enough values to unpack) closed by pett
duplicate
8:55 AM Ticket #5571 (Blast: not enough values to unpack) created by chimerax-bug-report@…
[…]
8:47 AM Ticket #5570 (Crash submitting Blast job) closed by pett
can't reproduce
8:46 AM Ticket #5569 (glGetFramebufferAttachmentParameteriv: invalid enumerant) closed by pett
duplicate
7:49 AM Ticket #5570 (Crash submitting Blast job) created by chimerax-bug-report@…
[…]
7:18 AM Ticket #5569 (glGetFramebufferAttachmentParameteriv: invalid enumerant) created by chimerax-bug-report@…
[…]
7:11 AM Ticket #5568 (glGetFramebufferAttachmentParameteriv: invalid enumerant) created by chimerax-bug-report@…
[…]
7:04 AM Ticket #5567 (Disconnected screen crash) created by jflecken@…
[…]
4:58 AM Ticket #5566 (Crash in alphafold predict) created by hamine.oliveira@…
[…]
3:54 AM Ticket #5565 (Lone '~' expands to ~ribbon) created by Tristan Croll
[…]

Nov 8, 2021:

11:59 PM Ticket #5561 (include query model name in Blast results window) closed by Zach Pearson
fixed: Should be fixed in …
11:11 PM Ticket #5564 (Build Structure: cannot change rotamer library) created by ichcharisma@…
[…] Screen Shot 2021-11-09 at 16.11.12.png
9:14 PM Ticket #5563 (vseries slider: list index out of range) created by chimerax-bug-report@…
[…]
4:55 PM Ticket #5562 (Status bar destruction: wrapped C/C++ object of type QScreen has been ...) created by chimerax-bug-report@…
[…]
4:53 PM Ticket #5519 (Out of memory fetching/opening mmCIFs) closed by Greg Couch
can't reproduce: The exact same set of commands works for me and the Windows Task …
4:28 PM Ticket #5540 (Question marks used for gaps instead of dashes) closed by pett
fixed: Matchmaker is supposed to rectify those sequences to their normal …
10:42 AM Ticket #5558 (Graphics driver crash, macOS 11.6, Intel Iris Plus Graphics 645, ...) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
10:34 AM Ticket #5557 (Crash opening session) closed by pett
can't reproduce
10:11 AM Ticket #5555 (failed starting of .exe file) closed by Greg Couch
nonchimerax: Nothing is blocking the download on our end. If you can view the …
10:08 AM Ticket #5556 (Crash showing selection on alphafold model (swap buffers?)) closed by Tom Goddard
nonchimerax: It looks like the crash (access violation) was in OpenGL …
7:46 AM Ticket #5561 (include query model name in Blast results window) created by Elaine Meng
From: Elaine Meng <meng@…> Date: November 3, 2021 at …
7:00 AM Ticket #5560 (Alignment headers somehow being directly saved in sessions) created by devonjboland@…
[…]

Nov 7, 2021:

8:50 PM Ticket #5559 (Blast Protein: wrapped C/C++ object of type QProgressBar has been deleted) created by chimerax-bug-report@…
[…]
11:34 AM Ticket #5558 (Graphics driver crash, macOS 11.6, Intel Iris Plus Graphics 645, ...) created by chimerax-bug-report@…
[…]
9:42 AM Ticket #5557 (Crash opening session) created by chimerax-bug-report@…
[…]
7:44 AM Ticket #5556 (Crash showing selection on alphafold model (swap buffers?)) created by chimerax-bug-report@…
[…]

Nov 6, 2021:

7:18 PM Ticket #5555 (failed starting of .exe file) created by ronald.clarke@…
[…] failed.docx
1:57 AM Ticket #5554 (Crash drawing side view) created by chimerax-bug-report@…
[…]
1:33 AM Ticket #5553 (Version check bug) closed by Greg Couch
fixed: Remove debug code that got checked in.

Nov 5, 2021:

5:14 PM Ticket #5552 (morph same true: Execution of 'Structure' object's 'coordset_size' ...) closed by Tom Goddard
duplicate: This error saving a session is fixed in the current ChimeraX 1.3 …
2:42 PM Ticket #5553 (Version check bug) created by chimerax-bug-report@…
[…]
10:09 AM Ticket #5550 (Alphafold match: 'Structure' object has no attribute ...) closed by Tom Goddard
fixed: Fixed in 1.3 and 1.4. When alignment of alphafold model to an …
9:45 AM Ticket #5548 (Windows 7 graphics error) closed by Tom Goddard
nonchimerax: ChimeraX does not support Windows 7, only Windows 10 as shown on the …
9:43 AM Ticket #5547 (Crash disconnecting screen) closed by Tom Goddard
duplicate: Qt bug fixed in Qt 5.15 used in current ChimeraX. This crash has been …
9:37 AM Ticket #5546 (Crash saving session including maps) closed by Tom Goddard
can't reproduce: Looks like it crashed getting the attribute of an atomic structure, …
9:13 AM Ticket #5552 (morph same true: Execution of 'Structure' object's 'coordset_size' ...) created by am2837@…
[…]
8:53 AM Ticket #5551 (unhashable type: 'Color') closed by pett
duplicate: Hi Juliana, Thanks for reporting this problem. It was fixed in the …
8:48 AM Ticket #5549 (Access violation on Windows in Qt event loop) closed by pett
can't reproduce
8:14 AM Ticket #5545 (Error in toolshed error message) closed by pett
duplicate: Hi Matthew, The toolshed is trying to tell you that the Clipper …
7:42 AM Ticket #5551 (unhashable type: 'Color') created by jglavina@…
[…]
4:07 AM Ticket #5550 (Alphafold match: 'Structure' object has no attribute ...) created by Tristan Croll
[…]
1:35 AM Ticket #5549 (Access violation on Windows in Qt event loop) created by chimerax-bug-report@…
[…]
1:34 AM Ticket #5548 (Windows 7 graphics error) created by urban@…
[…]
12:30 AM Ticket #5547 (Crash disconnecting screen) created by chimerax-bug-report@…
[…]

Nov 4, 2021:

10:20 PM Ticket #5546 (Crash saving session including maps) created by joewang@…
[…]
8:27 PM Ticket #5545 (Error in toolshed error message) created by mjw100@…
[…]
8:22 PM Ticket #5544 (Allow EMDB fetch command to choose europe/japan/china/us and ftp/https) closed by Tom Goddard
fixed: Added the extra EMDB fetch options in ChimeraX 1.3 and 1.4.
8:18 PM Ticket #5544 (Allow EMDB fetch command to choose europe/japan/china/us and ftp/https) created by philip.macmenamin@…
The NIH 3D pipeline would like to fetch EMDB maps from the US mirror …
4:38 PM NTTData edited by Elaine Meng
(diff)
2:22 PM NTTData edited by Elaine Meng
(diff)
2:09 PM NTTData edited by Elaine Meng
(diff)
2:07 PM NTTData edited by Elaine Meng
(diff)
1:35 PM NTTData edited by Elaine Meng
(diff)
12:49 PM 2021-11-4 edited by Tom Goddard
(diff)
12:22 PM Ticket #5542 (VR crash in openvr waitGetPoses()) closed by Tom Goddard
can't reproduce: Crash in OpenVR waitGetPoses(). Interesting to see VR use on Linux. …
12:09 PM 2021-11-4 edited by Tom Goddard
(diff)
12:07 PM 2021-11-4 edited by Tom Goddard
(diff)
12:04 PM 2021-11-4 edited by Tom Goddard
(diff)
11:48 AM 2021-11-4 edited by Tom Goddard
(diff)
11:22 AM 2021-11-4 edited by Tom Goddard
(diff)
11:18 AM 2021-11-4 edited by Tom Goddard
(diff)
11:17 AM 2021-11-4 edited by Tom Goddard
(diff)
11:03 AM Ticket #5543 (VR crash in drawing) closed by pett
duplicate
11:01 AM Ticket #5541 (Crash showing rapid access at startup, Linux ChimeraX 1.2.5) closed by pett
can't reproduce
10:50 AM Ticket #5543 (VR crash in drawing) created by chimerax-bug-report@…
[…]
10:49 AM Ticket #5542 (VR crash in openvr waitGetPoses()) created by chimerax-bug-report@…
[…]
10:45 AM Ticket #5541 (Crash showing rapid access at startup, Linux ChimeraX 1.2.5) created by chimerax-bug-report@…
[…]
10:12 AM Ticket #5539 (Crash showing rapid access at startup, Linux ChimeraX 1.2.5) closed by pett
can't reproduce
10:10 AM Ticket #5538 (Region bound checking using None) closed by pett
duplicate
9:16 AM Ticket #5540 (Question marks used for gaps instead of dashes) created by Elaine Meng
[…] questionmarks.cxs
6:31 AM Ticket #5539 (Crash showing rapid access at startup, Linux ChimeraX 1.2.5) created by chimerax-bug-report@…
[…]

Nov 3, 2021:

9:55 PM Ticket #5538 (Region bound checking using None) created by ichcharisma@…
[…] Screen Shot 2021-11-04 at 13.54.19.png
5:50 PM Ticket #5537 (Add tool to measure pocket volumes) created by meng@…
Begin forwarded message: From: Elaine Meng Subject: Re: …
1:50 PM Ticket #5536 (Duplicate pseudobond depiction) created by slange001@…
[…] ChimeraX_pbond_bug_report.png
1:27 PM Dev2021-11-11 edited by Tom Goddard
(diff)
1:27 PM ChangeLog edited by Elaine Meng
(diff)
1:25 PM Ticket #5530 (Write GLTF: index 1 is out of bounds for axis 0 with size 1) closed by Tom Goddard
duplicate: Fixed 5 months ago. Ticket #4788
1:23 PM Dev2021-11-11 created by Tom Goddard
1:21 PM DeveloperMeetings edited by Tom Goddard
(diff)
1:15 PM Ticket #5534 (Unknown crash) closed by Tom Goddard
can't reproduce: It is puzzling that none of the commands in the log enable clipping. …
12:02 PM Ticket #5527 (Atomic structures with all atoms deleted are not closed in Python) closed by pett
fixed: I tested out having the structure live on with zero atoms and …
10:52 AM Ticket #5532 (Region bound checking using None) closed by pett
fixed
10:12 AM Ticket #5535 (Matchmaker: 'NoneType' object has no attribute 'setChecked') closed by pett
duplicate: Duplicate of #5207
9:58 AM Ticket #5533 (Unknown crash) closed by pett
can't reproduce: Hundreds of open-dialog "fatal" errors. The Python log ended open …
8:43 AM Ticket #5535 (Matchmaker: 'NoneType' object has no attribute 'setChecked') created by chimerax-bug-report@…
[…]
8:22 AM Ticket #5534 (Unknown crash) created by chimerax-bug-report@…
[…]
7:11 AM Ticket #5533 (Unknown crash) created by chimerax-bug-report@…
[…]
3:31 AM Ticket #5532 (Region bound checking using None) created by chimerax-bug-report@…
[…]
2:18 AM Ticket #5531 (Problems connecting with Visual Studio Code) created by Tristan Croll
[…] pyvsc-run-isolated.py

Nov 2, 2021:

11:43 PM Ticket #5529 (Remove lineprofiler from prereqs) closed by Tom Goddard
fixed: Removed prereqs/lineprofiler.
11:30 PM Ticket #5530 (Write GLTF: index 1 is out of bounds for axis 0 with size 1) created by chimerax-bug-report@…
[…]
8:08 PM Ticket #5529 (Remove lineprofiler from prereqs) created by Tom Goddard
I think we can git remove the prereqs/lineprofiler directory. It is …
7:22 PM Ticket #5528 (Remove pywin32 and wmi dependencies used by bug reporter on Windows) created by Tom Goddard
We've been getting github security warnings about pywin32 in ChimeraX. …
3:21 PM Ticket #5527 (Atomic structures with all atoms deleted are not closed in Python) created by Tom Goddard
The atomic structure C++ code deletes the C++ structure automatically …
2:59 PM Ticket #5525 (Morph problem) closed by Tom Goddard
fixed: Fixed in ChimeraX 1.3 and 1.4 daily build. Morph code was checking …
2:20 PM Training edited by Tom Goddard
(diff)
11:46 AM Ticket #5526 (Probably garbage collection crash) closed by pett
duplicate
11:09 AM Ticket #5524 (Modeller failure) closed by pett
fixed: Hi Deepesh, Thanks for reporting this problem. It turns out that our …
10:45 AM Ticket #5526 (Probably garbage collection crash) created by chimerax-bug-report@…
[…]
10:20 AM Ticket #5525 (Morph problem) created by am2837@…
[…]
10:08 AM Ticket #5523 (Unknown crash) closed by pett
can't reproduce
9:42 AM 2021-11-4 created by Tom Goddard
9:41 AM DeveloperMeetings edited by Tom Goddard
(diff)
9:35 AM Ticket #5524 (Modeller failure) created by dstnt@…
[…]
2:39 AM Ticket #5523 (Unknown crash) created by chimerax-bug-report@…
[…]

Nov 1, 2021:

10:26 PM Ticket #5522 (Clashes syntax error) created by ichcharisma@…
[…]
4:59 PM Ticket #5520 (Unknown crash with unformatted stack trace) closed by Tom Goddard
can't reproduce: Thanks for the report. The crash stack trace gives no indication of …
11:57 AM Ticket #5518 (Graphics crash, macOS 10.15, Intel Iris Graphics 6100) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
11:43 AM Ticket #5514 (volume erase: out of memory) closed by Tom Goddard
duplicate: OpenGL out of memory, duplicate of #5384, error message has been …
10:54 AM Ticket #5521 (Add Charge: bad hydrogen name) closed by pett
duplicate
10:38 AM Ticket #5516 (Unknown crash) closed by pett
can't reproduce
10:18 AM Ticket #5515 (Qt crash during exit) closed by pett
can't reproduce
10:15 AM Ticket #5513 (Crash clicking close button of dock widget) closed by pett
can't reproduce
10:12 AM Ticket #5512 (Download page incorrect in Chrome) closed by pett
fixed
10:09 AM Ticket #5511 (Assertion failed: (backingScaleFactor > 0.f), function ...) closed by pett
can't reproduce: Seems to be a problem with dragging/dropping a color from/to the color …
9:52 AM Ticket #5521 (Add Charge: bad hydrogen name) created by chimerax-bug-report@…
[…]
8:02 AM Ticket #5520 (Unknown crash with unformatted stack trace) created by semchonok@…
[…]

Oct 31, 2021:

12:42 PM Ticket #5519 (Out of memory fetching/opening mmCIFs) created by chimerax-bug-report@…
[…]
12:33 AM Ticket #5518 (Graphics crash, macOS 10.15, Intel Iris Graphics 6100) created by chimerax-bug-report@…
[…]
12:30 AM Ticket #5517 (Unknown crash) created by luyuchao_2006@…
[…]
12:18 AM Ticket #5516 (Unknown crash) created by chimerax-bug-report@…
[…]

Oct 30, 2021:

9:31 AM Ticket #5515 (Qt crash during exit) created by chimerax-bug-report@…
[…]
9:22 AM Ticket #5514 (volume erase: out of memory) created by chimerax-bug-report@…
[…]
3:37 AM Ticket #5499 (MD template error) closed by Tristan Croll
fixed: Updated template in ISOLDE's DB, and sent a copy to the user.
2:10 AM Ticket #5513 (Crash clicking close button of dock widget) created by chimerax-bug-report@…
[…]

Oct 29, 2021:

9:28 PM Ticket #5314 (Movie encode on Redhat Enterprise Linux 8 fails to find libbz2.so) closed by Greg Couch
fixed: Fixed by compiling ffmpeg separately for CentOS. Ubuntu has ffmpeg in …
9:24 PM Ticket #5247 (Make download and older releases pages easier to maintain) closed by Greg Couch
fixed: Added script to generate JSON files for current candidate, daily, and …
9:08 PM ChangeLog edited by Greg Couch
(diff)
6:21 PM Ticket #5512 (Download page incorrect in Chrome) created by agarrubio@…
[…]
3:02 PM Ticket #5511 (Assertion failed: (backingScaleFactor > 0.f), function ...) created by chimerax-bug-report@…
[…]
12:22 PM Ticket #5501 (Cannot save session: bytes object is too large) closed by Tom Goddard
fixed: Added error message that explain 4Gb limit and suggests saving map in …
11:35 AM Ticket #5509 (glGetFramebufferAttachmentParameteriv: invalid enumerant) closed by Tom Goddard
nonchimerax: Windows 7 is not supported. Error appears to be a graphics driver problem.
11:34 AM Ticket #5508 (Graphics driver crash, macOS 11.6, Intel UHD Graphics 617, report 2) closed by Tom Goddard
duplicate: Same user as #5496 reported yesterday. Using 9 Gbytes of memory on a …
11:30 AM Ticket #5510 (add charge failure) closed by pett
fixed
11:29 AM Ticket #5507 (Crash updating file history) closed by Tom Goddard
nonchimerax: Setting html for the file history Qt html widget crashed. It was …
11:14 AM Ticket #5510 (add charge failure) created by chimerax-bug-report@…
[…]
11:00 AM Ticket #5509 (glGetFramebufferAttachmentParameteriv: invalid enumerant) created by chimerax-bug-report@…
[…]
10:59 AM Ticket #5508 (Graphics driver crash, macOS 11.6, Intel UHD Graphics 617, report 2) created by chimerax-bug-report@…
[…]
10:57 AM Ticket #5507 (Crash updating file history) created by chimerax-bug-report@…
[…]
10:35 AM Ticket #5505 (Read PDB as .gro) closed by pett
not a bug: Cannot read a PDB file as a .gro
10:30 AM Ticket #5503 (Cannot save session: bytes object is too large) closed by pett
duplicate
10:29 AM Ticket #5502 (Cannot save session: bytes object is too large) closed by pett
duplicate
9:58 AM Ticket #5506 (ChimeraX - Color by seq_conservation fails in tutorial) created by Sean.Moore@…
[…]

Oct 28, 2021:

8:23 PM Ticket #5505 (Read PDB as .gro) created by chimerax-bug-report@…
[…]
6:28 PM Ticket #5504 (Python shell broken with PyQt 6.2) created by goddard@…
[…]
6:22 PM Ticket #5503 (Cannot save session: bytes object is too large) created by chimerax-bug-report@…
[…]
6:04 PM Ticket #5502 (Cannot save session: bytes object is too large) created by chimerax-bug-report@…
[…]
4:15 PM Ticket #5501 (Cannot save session: bytes object is too large) created by chimerax-bug-report@…
[…]
4:04 PM Ticket #5497 (Graphics presets don't reset depthJump) closed by Tom Goddard
fixed: Thanks for catching that. I made the lighting presets simple, …
3:49 PM Ticket #5495 (Model tiling: 'NoneType' object is not iterable) closed by Tom Goddard
fixed: Fixed tile command when no model specifier given. Actual bug reported …
2:26 PM Dev2021-10-28 edited by Tom Goddard
(diff)
2:05 PM Ticket #5500 (stop bothering me) created by Greg Couch
Add way to turn off being reminded that there is a ChimeraX update
12:22 PM 2021-10-28 edited by Tom Goddard
(diff)
12:14 PM Ticket #5499 (MD template error) created by jopark@…
[…]
10:49 AM Ticket #5498 (Discontinuous secondary structure) closed by pett
not a bug: Hi Andrea, In order to handle the case where a structure has adjacent …
10:38 AM Ticket #5498 (Discontinuous secondary structure) created by andrea.foote@…
[…] Screen Shot 2021-10-28 at 1.36.09 PM.png
10:32 AM Ticket #5490 (Conflicting attr registration) closed by pett
fixed
10:05 AM Ticket #5496 (Graphics driver crash, macOS 11.6, Intel UHD Graphics 617) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
9:51 AM Ticket #5488 (wrapped C/C++ object of type QScreen has been deleted) closed by Tom Goddard
duplicate: Fixed 6 months ago, not in 1.2.5, #4538.
9:41 AM Ticket #5494 (Modeller: not enough args for format string) closed by pett
fixed
8:58 AM Ticket #5497 (Graphics presets don't reset depthJump) created by jrf296@…
[…]
8:51 AM Ticket #5492 (Unknown crash) closed by pett
can't reproduce: The "stack overflow" is different though.
8:48 AM Ticket #5491 (Crash in garbage collection during new-object allocation) closed by pett
duplicate
8:44 AM Ticket #5489 (Unknown crash) closed by pett
can't reproduce
5:07 AM Ticket #5496 (Graphics driver crash, macOS 11.6, Intel UHD Graphics 617) created by chimerax-bug-report@…
[…]
4:24 AM Ticket #5495 (Model tiling: 'NoneType' object is not iterable) created by chimerax-bug-report@…
[…]
3:30 AM Ticket #5494 (Modeller: not enough args for format string) created by chimerax-bug-report@…
[…]
2:48 AM Ticket #5493 (H-bonds nowhere near nucleic acid depictions) created by vishal.sahu@…
[…] double-helix-interaction-issue.png
2:24 AM Ticket #5492 (Unknown crash) created by chimerax-bug-report@…
[…]

Oct 27, 2021:

9:18 PM Ticket #5491 (Crash in garbage collection during new-object allocation) created by chimerax-bug-report@…
[…]
5:47 PM Ticket #5490 (Conflicting attr registration) created by Elaine Meng
[…]
2:24 PM Ticket #5489 (Unknown crash) created by chimerax-bug-report@…
[…]
2:10 PM Ticket #5484 (Chain IDs not written consistently) closed by pett
fixed: The code to put spaces around short residue names was wrong. Not …
1:38 PM Ticket #5488 (wrapped C/C++ object of type QScreen has been deleted) created by chimerax-bug-report@…
[…]
1:16 PM Ticket #5485 (Color button accessed after C++ deleted) closed by pett
fixed: Instead of relying on __del__ (which doesn't get called for the …
11:03 AM Ticket #5487 (Graphics driver crash, macOS 10.5.7, Intel Iris Plus Graphics) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
11:01 AM Ticket #5481 (Graphics driver crash, macOS 11.6, Intel Iris Plus Graphics) closed by Tom Goddard
nonchimerax: Apple graphics driver crash.
10:59 AM Ticket #5479 (Crash changing silhouettes) closed by Tom Goddard
can't reproduce: We've seen this crash Windows fatal exception: access violation …
10:24 AM Ticket #5486 (Crash in garbage collection) closed by pett
duplicate: Hi, Thanks for reporting this problem. We believe it is fixed in the …
10:07 AM Ticket #5483 (Show CAs only) closed by pett
not a bug: As this is a usage question, forwarded it to chimerax-users mailing list
10:01 AM Ticket #5482 (Cannot save PDB) closed by pett
duplicate
9:35 AM Ticket #5480 (Can't bond an atom to itself) closed by pett
duplicate: Hi Allen, Could you upgrade your ChimeraX to the latest version and …
9:18 AM Ticket #5478 (All atoms for zone mask must be from a single model) closed by Tristan Croll
fixed: I've already reworked this to throw a UserError here (and also to …
9:01 AM Ticket #5477 (Cannot restore session: _pickle.UnpicklingError: invalid load key) closed by pett
duplicate: Hi Kate, You need a newer version of ChimeraX in order to restore …
8:20 AM Ticket #5487 (Graphics driver crash, macOS 10.5.7, Intel Iris Plus Graphics) created by chimerax-bug-report@…
[…]
7:57 AM Ticket #5486 (Crash in garbage collection) created by jso1@…
[…]
6:34 AM Ticket #5485 (Color button accessed after C++ deleted) created by chimerax-bug-report@…
[…]
4:35 AM Ticket #5484 (Chain IDs not written consistently) created by Tristan Croll
[…] chains_renamed.pdb
4:25 AM Ticket #5483 (Show CAs only) created by bssfh@…
[…]
3:11 AM Ticket #5482 (Cannot save PDB) created by chimerax-bug-report@…
[…]
2:53 AM Ticket #5481 (Graphics driver crash, macOS 11.6, Intel Iris Plus Graphics) created by chimerax-bug-report@…
[…]
12:48 AM Ticket #5480 (Can't bond an atom to itself) created by allenwu1991@…
[…]

Oct 26, 2021:

11:16 PM Ticket #5479 (Crash changing silhouettes) created by chimerax-bug-report@…
[…]
5:57 PM Ticket #5478 (All atoms for zone mask must be from a single model) created by chimerax-bug-report@…
[…]
5:10 PM Ticket #5477 (Cannot restore session: _pickle.UnpicklingError: invalid load key) created by kimsk@…
[…]
11:52 AM Ticket #5474 (Hangs reading PDB) closed by pett
can't reproduce: Disturbing, but okay -- will close for now.
11:49 AM Ticket #5476 (1.3 release candidate cannot read 1.4 sessions) closed by pett
fixed: Added code to release candidate to read 1.4 custom-attribute session info.
11:27 AM Ticket #5475 (Out of memory saving large image) closed by Tom Goddard
limitation: ChimeraX is not able to render an image as large as you requested with …
11:21 AM Ticket #5473 (toolshed python package parsing cannot handle quotes) closed by Greg Couch
fixed: This will be fixed in the next daily build and the 1.3 release …
11:14 AM Ticket #5476 (1.3 release candidate cannot read 1.4 sessions) created by Elaine Meng
[…] modelloops.cxs
10:49 AM Ticket #5475 (Out of memory saving large image) created by elzbieta.wator@…
[…]
10:37 AM Dev2021-10-28 created by Tom Goddard
10:32 AM 2021-10-28 edited by Tom Goddard
(diff)
10:31 AM 2021-10-28 created by Tom Goddard
10:30 AM DeveloperMeetings edited by Tom Goddard
(diff)
10:27 AM Ticket #5471 (Crash after hiding atomic model, Windows) closed by Tom Goddard
can't reproduce: Not enough information in the crash report to debug this. The Python …
9:39 AM Ticket #5472 (Crash in atomstruct::Atom::default_radius()) closed by pett
duplicate: Duplicate of
8:19 AM Ticket #5474 (Hangs reading PDB) created by phil.cruz@…
[…]
8:09 AM Ticket #5473 (toolshed python package parsing cannot handle quotes) created by wolfgang.lugmayr@…
[…]
4:51 AM Ticket #5469 (Request for help in debugging) closed by Tristan Croll
fixed: Looks like the problem is in passing the std::vector by const …
12:54 AM Ticket #5472 (Crash in atomstruct::Atom::default_radius()) created by muhammad.obk@…
[…]

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
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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@…
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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@…
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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@…
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7:27 AM Ticket #5464 (better template residue support) created by Tristan Croll
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5:45 AM Ticket #5463 (Structure.delete_alt_locs() failing) created by Tristan Croll
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Oct 24, 2021:

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