Timeline



Oct 31, 2024:

6:51 PM Ticket #16230 (Crash showing cartoons) created by 745324914@…
[…]
6:42 PM Ticket #16229 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
6:15 PM Ticket #16219 (view sel: 'NoneType' object has no attribute 'get_scene_positions') closed by Tom Goddard
fixed: Fixed in daily build, not in 1.9. I decided to go for a narrow fix …
5:59 PM 2024-10-31 edited by Tom Goddard
(diff)
5:59 PM 2024-10-31 edited by Tom Goddard
(diff)
3:16 PM Ticket #16225 (Crash in QWebEnginePage::triggerAction while running AlphaFold prediction) closed by Tom Goddard
can't reproduce: Probable QWebEngine bug, Qt 6.7. Looks like user did a mouse click …
3:13 PM Ticket #16224 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics 645) closed by Tom Goddard
nonchimerax: Apple Intel graphics driver crash.
2:28 PM Ticket #16228 (Crash in event handling during AlphaFold prediction) created by chimerax-bug-report@…
[…]
2:21 PM Ticket #16227 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
1:55 PM Ticket #16226 (Segger: gaussian_surface: bounding_grid() missing 1 required ...) created by chimerax-bug-report@…
[…]
1:36 PM ChangeLog edited by pett
(diff)
1:30 PM ChangeLog edited by pett
(diff)
12:07 PM 2024-10-31 edited by Tom Goddard
(diff)
10:06 AM Ticket #16225 (Crash in QWebEnginePage::triggerAction while running AlphaFold prediction) created by chimerax-bug-report@…
[…]
9:52 AM Ticket #16224 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics 645) created by chimerax-bug-report@…
[…]

Oct 30, 2024:

4:00 PM Ticket #16223 (Similar Structures GUI search tries to use "sequence blast") closed by Tom Goddard
fixed: Fixed. Oops. The Search button on the Similar Structures gui using …
3:56 PM Ticket #16222 (Similar Structures: key error from clicking Traces) closed by Tom Goddard
fixed: Fixed. The C-alpha traces code I added yesterday was not properly …
3:11 PM Ticket #16223 (Similar Structures GUI search tries to use "sequence blast") created by Elaine Meng
oops need to change it to "similarstructures blast" tested in UCSF …
2:39 PM Ticket #3843 (transparency command does not work on nucleotides (target f)) closed by Elaine Meng
duplicate: duplicate of #14769
1:57 PM Ticket #16222 (Similar Structures: key error from clicking Traces) created by Elaine Meng
[…] 2gbp_mmseqs2_pdb.sms
12:43 PM Ticket #16221 (Read CHAI-1 PAE .npy files) created by Tristan Croll
[…] Wnt3a-wntless_with_ptm_as_ligand.zip
12:41 PM Ticket #16220 (Pip install dependency from a specified repository) created by deng.luo@…
Can ChimeraX pyproject.toml or bundle_info.xml install a dependency …
12:28 PM Ticket #16219 (view sel: 'NoneType' object has no attribute 'get_scene_positions') created by chimerax-bug-report@…
[…]
11:16 AM Ticket #16218 (ERROR IN PROTEIN-PROTEIN STRUCTURE PREDICTION USING ALPHA-FOLD) closed by Tom Goddard
worksforme: The error was probably a temporary problem with connecting to the …
10:56 AM Ticket #16218 (ERROR IN PROTEIN-PROTEIN STRUCTURE PREDICTION USING ALPHA-FOLD) created by daniel.sussman@…
Dear Sirs, When running ALPHA-FOLD for a protein-protein structure …
10:56 AM Ticket #16217 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: Yeah, don't like to see this crash again with Qt 6.7. But I think …
10:51 AM Ticket #16215 (Various graphics/GPU errors) closed by Tom Goddard
nonchimerax: Appears Qt html widget used by alphafold prediction had trouble with …
10:48 AM Ticket #16213 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: We believe this crash is fixed in the ChimeraX daily build and 1.9 …
10:44 AM Ticket #16214 (ui view fourup: ZeroDivisionError) closed by Zach Pearson
fixed: This bug comes from the 1.8 release candidate, but it shouldn't affect …
10:38 AM Ticket #16216 (Crash moving window between screens) closed by pett
duplicate
4:07 AM Ticket #16217 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
2:01 AM Ticket #16216 (Crash moving window between screens) created by chimerax-bug-report@…
[…]
1:46 AM Ticket #16041 ("close #": v.session is None) closed by Zach Pearson
fixed: This should no longer affect any recent daily build.
12:36 AM Ticket #16215 (Various graphics/GPU errors) created by chimerax-bug-report@…
[…]

Oct 29, 2024:

10:26 PM Ticket #16214 (ui view fourup: ZeroDivisionError) created by chimerax-bug-report@…
[…]
11:44 AM Ticket #16213 (Crash on Mac waking from sleep) created by lyuf2@…
[…]
11:24 AM Ticket #16206 (Crash when window moved to new screen) closed by Tom Goddard
duplicate: Crash in Qt 6.6 in _NSViewHierarchyDidChangeBackingProperties.
11:22 AM 2024-10-31 created by Tom Goddard
11:21 AM 2024-10-24 edited by Tom Goddard
(diff)
11:21 AM DeveloperMeetings edited by Tom Goddard
(diff)
9:59 AM Ticket #16212 (build replace: command not found) closed by pett
not a bug: Hi Jianghai, The "build replace" command was added after the 1.8 …
9:53 AM Ticket #16211 (UnicodeDecodeError opening PDB file) closed by pett
can't reproduce: Would need the PDB file
9:51 AM Ticket #16210 (Crash changing QDockWidget geometry) closed by pett
can't reproduce
9:24 AM Ticket #16212 (build replace: command not found) created by jianghai.zhu@…
[…]
6:27 AM Ticket #16211 (UnicodeDecodeError opening PDB file) created by chimerax-bug-report@…
[…]
5:19 AM Ticket #16210 (Crash changing QDockWidget geometry) created by chimerax-bug-report@…
[…]
3:14 AM Ticket #16209 (ui view fourup: ZeroDivisionError) created by kareya@…
[…]

Oct 28, 2024:

9:23 PM Ticket #16208 (similarstructures fromblast cmd claims there are no Blast Protein ...) closed by Tom Goddard
fixed: Fixed. I added an optional first argument to the "similarstructures …
5:26 PM Ticket #16152 ('sym' problems) closed by pett
fixed: mmcif_chain_id is a C++ attribute, so I know of no way to "eliminate" …
4:53 PM Ticket #16208 (similarstructures fromblast cmd claims there are no Blast Protein ...) created by Elaine Meng
[…]
3:47 PM Ticket #16207 (redundant foldseek results?) created by Elaine Meng
I don't know if this is a bug or some issue with the pdb100 database, …
3:40 PM Ticket #16205 (cartoon style nucleic: glDrawBuffer: invalid operation) closed by Tom Goddard
can't reproduce: We've seen this OpenGL error before, only on Linux. It seems to …
3:35 PM Ticket #16203 (Graphics crash, macOS 13.2.1, Intel Iris Plus Graphics) closed by Tom Goddard
nonchimerax: Apple Intel graphics driver crash.
3:32 PM Dev2024-10-28 edited by Tom Goddard
(diff)
3:21 PM Ticket #16206 (Crash when window moved to new screen) created by chimerax-bug-report@…
[…]
2:50 PM Ticket #16195 (Cannot save image to public desktop) closed by Tom Goddard
limitation: Microsoft OneDrive replaces your normal Desktop folder causing …
2:43 PM Ticket #16194 (Crash rendering QToolButton icon: QPainter::begin: Paint device ...) closed by Tom Goddard
can't reproduce: I suspect this is related to the Mac external display issues as high …
2:37 PM Ticket #16204 (AlphaFold PAE: list index out of range) closed by Tom Goddard
duplicate: Was fixed in ChimeraX 1.8.
1:53 PM Ticket #16205 (cartoon style nucleic: glDrawBuffer: invalid operation) created by disha-gajanan.hiregange@…
[…]
1:24 PM Ticket #16204 (AlphaFold PAE: list index out of range) created by chimera-bug-report@…
The following bug report has been submitted: Platform: …
1:05 PM Ticket #16185 (Render by Attribute: attribute monitoring still on in dead tool) closed by pett
fixed: Fixed. Fix available in next daily build. (Fix: …
11:41 AM Ticket #16203 (Graphics crash, macOS 13.2.1, Intel Iris Plus Graphics) created by chimerax-bug-report@…
[…]
11:41 AM Ticket #16202 (ArtiaX: "artiax tomo": slider: float division by zero) created by chimerax-bug-report@…
[…]
10:52 AM Ticket #16200 (MatchMaker: 'NoneType' object has no attribute 'setChecked') closed by pett
duplicate: Long ago fixed
10:47 AM Ticket #16198 (Render by Attribute: attribute monitoring still on in dead tool) closed by pett
duplicate: Duplicate of #16185
10:46 AM Ticket #16197 (Render by Attribute: attribute monitoring still on in dead tool) closed by pett
duplicate: Duplicate of #16185
10:44 AM Ticket #16196 (Render by Attribute: attribute monitoring still on in dead tool) closed by pett
duplicate: Duplicate of #16185

Oct 27, 2024:

7:57 AM Ticket #16201 (Crash opening .cif file) created by disha-gajanan.hiregange@…
[…]

Oct 25, 2024:

6:18 PM Ticket #16199 (Foldseek: reopening previous AFDB search results, choosing row, ...) closed by Tom Goddard
fixed: Fixed. The Open button was issuing the command "open <uniprot-id>" …
5:32 PM Ticket #16200 (MatchMaker: 'NoneType' object has no attribute 'setChecked') created by chimerax-bug-report@…
[…]
4:48 PM Ticket #15795 (Sequence characters not updated appropriately) closed by pett
fixed: Fix: …
4:34 PM Ticket #16199 (Foldseek: reopening previous AFDB search results, choosing row, ...) created by Elaine Meng
[…]
4:30 PM Ticket #16198 (Render by Attribute: attribute monitoring still on in dead tool) created by chimerax-bug-report@…
[…]
4:30 PM Ticket #16197 (Render by Attribute: attribute monitoring still on in dead tool) created by chimerax-bug-report@…
[…]
4:27 PM Ticket #16196 (Render by Attribute: attribute monitoring still on in dead tool) created by chimerax-bug-report@…
[…]
2:47 PM Ticket #15226 (binary wheels generated via pyproject.toml have wrong name on linux) closed by Zach Pearson
fixed: [https://github.com/RBVI/ChimeraX/commit/a88c567d3fc4bca52753c35aca9336
2:22 PM Ticket #14769 (transparency command doesn't work on nucleotide representations) closed by Greg Couch
fixed: Fixed. Noticed that there is no support for 2d labels, nor undo support.
1:04 PM Ticket #16195 (Cannot save image to public desktop) created by joelcrane@…
[…]
12:13 PM Ticket #16192 (Ca RMSD header wrong) closed by pett
fixed: The actual problem was that there was a typo in the attribute name of …
11:03 AM Ticket #16194 (Crash rendering QToolButton icon: QPainter::begin: Paint device ...) created by chimerax-bug-report@…
[…]
10:40 AM Ticket #16191 (Segger: gaussian_surface: bounding_grid() missing 1 required ...) closed by Tom Goddard
duplicate: Fixed some weeks ago. Daily builds for about a week had some code …
10:30 AM Ticket #16189 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics 645) closed by Tom Goddard
nonchimerax: Probable Apple Intel graphics driver crash. Stack trace is missing …
10:29 AM Ticket #16193 (Ca RMSD header wrong) closed by pett
duplicate: Inadvertent duplicate
9:14 AM Ticket #16193 (Ca RMSD header wrong) created by vdalves@…
[…] [[Image(...)]]
9:06 AM Ticket #16190 (Mercury radius) closed by pett
not a bug: Hi Matthew, For metal cations, ChimeraX uses ionic radii values from …
9:02 AM Ticket #16192 (Ca RMSD header wrong) created by vdalves@…
[…] Screenshot from 2024-10-25 16-54-12.png
8:23 AM Ticket #16191 (Segger: gaussian_surface: bounding_grid() missing 1 required ...) created by chimerax-bug-report@…
[…]
5:51 AM Ticket #16190 (Mercury radius) created by mhvg1994@…
[…] Screenshot 2024-10-25 at 2.49.39 pm.png

Oct 24, 2024:

6:17 PM Ticket #1211 (show nucleotide representations for modified nucleic acids) reopened by Greg Couch
In those two examples, the nucleotides that are not slabbed, are not …
6:17 PM Ticket #3843 (transparency command does not work on nucleotides (target f)) reopened by pett
Yes, as per the description in the ticket, this is about the …
6:06 PM Ticket #16112 ("seq align" sequence names may need to be more specific in some ...) closed by pett
fixed: "seq align" now makes its best effort to ensure unique sequence names. …
5:45 PM Ticket #16189 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics 645) created by chimerax-bug-report@…
[…]
5:39 PM Ticket #3843 (transparency command does not work on nucleotides (target f)) closed by Greg Couch
limitation: I think it that it only looks like it doesn't work due to the single …
5:35 PM Ticket #1211 (show nucleotide representations for modified nucleic acids) closed by Greg Couch
fixed: In 1h0q, LKC and LCC are not show as slabs, but TLN, LCG, and LCA are. …
4:52 PM Ticket #15258 (Show missing-structure labels: 'NoneType' object has no attribute ...) closed by Greg Couch
fixed: Fixed by Eric's changes.
4:41 PM Ticket #5493 (H-bonds nowhere near nucleic acid depictions) closed by Greg Couch
limitation: Getting the hydrogen bonds to move to positions on the abstract …
4:29 PM Ticket #5101 (Crash in Nucletides using weakref set) closed by Greg Couch
can't reproduce
4:24 PM Ticket #16176 (Error in glBufferData) closed by Tom Goddard
can't reproduce: OpenGL errors in glBufferData() rendering status line messages at startup.
4:23 PM Ticket #4199 (Modified nucleotides not depicted as ladder) closed by Greg Couch
not a bug: As documented, the ladder code depends on the hbond information. An …
4:18 PM Ticket #16187 (Crash in garbage collection) closed by pett
duplicate
4:17 PM Ticket #16188 (Crash in garbage collection) closed by pett
duplicate: Hi Elizabeth, Thanks for reporting this problem. It has been fixed …
4:02 PM Ticket #9513 (Nucleotide restore state is None) closed by Greg Couch
fixed: This was fixed on 26 October 2023 in the daily build. So it is in the …
2:57 PM Ticket #16188 (Crash in garbage collection) created by elizabeth.bond@…
[…]
2:57 PM Ticket #16187 (Crash in garbage collection) created by elizabeth.bond@…
[…]
2:03 PM Ticket #16179 (Crash in registration dialog) closed by Greg Couch
can't reproduce: wow
2:03 PM Ticket #16183 (Crash showing save dialog) closed by pett
duplicate
1:54 PM Ticket #16181 (Crash in event loop) closed by pett
can't reproduce
1:52 PM Ticket #16180 (Crash in Residue::connects_to() in alignment association) closed by pett
can't reproduce
1:50 PM Ticket #16186 ("xr true": xr.exception.HandleInvalidError: A supplied object handle ...) created by rkrishnan@…
[…]
1:39 PM Ticket #16178 (Crash in "build join peptide" (Residue::connects_to())) closed by pett
can't reproduce
1:36 PM Ticket #16177 (Crash in garbage collection) closed by pett
duplicate
1:33 PM Ticket #16175 (Cannot create profile) closed by pett
wontfix: Hi Qingning, ChimeraX is only supported on Windows 10 and 11. If it …
1:33 PM Ticket #16185 (Render by Attribute: attribute monitoring still on in dead tool) created by riyazbhat@…
[…]
1:08 PM NIAID2024 edited by Elaine Meng
(diff)
1:05 PM NIAID2024 edited by Elaine Meng
(diff)
12:03 PM 2024-10-24 edited by Tom Goddard
(diff)
10:55 AM Ticket #16173 (Crash in Modeller tool _update_sequence_menus in Qt call ...) closed by pett
duplicate: Duplicate of #15753
9:26 AM Ticket #16184 (Volume not appearing) created by ilina.ivanova@…
[…]
8:40 AM Ticket #16183 (Crash showing save dialog) created by chimerax-bug-report@…
[…]
8:33 AM Ticket #16182 (Crash showing save dialog) created by chimerax-bug-report@…
[…]
6:52 AM Ticket #16181 (Crash in event loop) created by chimerax-bug-report@…
[…]
5:57 AM Ticket #16180 (Crash in Residue::connects_to() in alignment association) created by chimerax-bug-report@…
[…]
5:50 AM Ticket #16179 (Crash in registration dialog) created by chimerax-bug-report@…
[…]
4:59 AM Ticket #16178 (Crash in "build join peptide" (Residue::connects_to())) created by chimerax-bug-report@…
[…]

Oct 23, 2024:

9:31 PM Ticket #16177 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
9:18 PM Ticket #16176 (Error in glBufferData) created by chimerax-bug-report@…
[…]
6:06 PM Ticket #16175 (Cannot create profile) created by yuanqingning@…
[…]
3:41 PM Training edited by Tom Goddard
(diff)
2:37 PM phenix-10-24-24 edited by pett
(diff)
2:36 PM phenix-10-24-24 edited by pett
(diff)
2:34 PM phenix-10-24-24 edited by pett
(diff)
2:33 PM phenix-10-24-24 edited by pett
(diff)
2:16 PM phenix-10-24-24 edited by pett
(diff)
2:11 PM phenix-10-24-24 edited by pett
(diff)
1:59 PM Ticket #16174 (ISOLDE: sim start: Error compiling kernel) created by shfan@…
[…]
1:57 PM phenix-10-24-24 edited by pett
(diff)
1:50 PM phenix-10-24-24 edited by pett
(diff)
1:45 PM phenix-10-24-24 edited by pett
(diff)
1:33 PM phenix-10-24-24 edited by pett
(diff)
1:23 PM phenix-10-24-24 created by pett
1:22 PM Features edited by pett
(diff)
12:56 PM Ticket #16171 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics 645) closed by Tom Goddard
nonchimerax: Apple Intel graphics driver crash.
12:36 PM Ticket #16173 (Crash in Modeller tool _update_sequence_menus in Qt call ...) created by chimerax-bug-report@…
[…]
12:25 PM Ticket #16172 (ISOLDE: structure contains 'LP' (lone pair) element) created by chimerax-bug-report@…
[…]
11:58 AM Ticket #16171 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics 645) created by chimerax-bug-report@…
[…]
11:11 AM Ticket #16170 (Crash in Modeller tool _update_sequence_menus in Qt call ...) closed by pett
duplicate: Duplicate of #15753
11:09 AM Ticket #16169 (Crash in Modeller tool _update_sequence_menus in Qt call ...) closed by pett
duplicate: Duplicate of #15753
10:33 AM Ticket #16167 (Map settings: numpy array comparison) closed by Tom Goddard
fixed: Fixed. Very obscure error caused by using volume tilted slab mouse …
9:56 AM Ticket #16166 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: This crash in the Qt 6.6 window toolkit happens when unplugging or …
9:40 AM Ticket #16170 (Crash in Modeller tool _update_sequence_menus in Qt call ...) created by chimerax-bug-report@…
[…]
9:37 AM Ticket #16169 (Crash in Modeller tool _update_sequence_menus in Qt call ...) created by chimerax-bug-report@…
[…]
8:59 AM Ticket #16168 (Crash in event loop) closed by pett
can't reproduce
8:59 AM ChangeLog edited by Elaine Meng
(diff)
8:51 AM ChangeLog edited by Elaine Meng
(diff)
8:51 AM Ticket #16165 (swapaa: DunbrackRotamerLibrary' object has no attribute 'display_name') closed by pett
duplicate: Hi Samira, Thanks for reporting this problem. It has been fixed in …
7:58 AM Ticket #16168 (Crash in event loop) created by chimerax-bug-report@…
[…]
4:39 AM Ticket #16167 (Map settings: numpy array comparison) created by pavol.harar@…
[…]
2:43 AM Ticket #16166 (Crash on Mac waking from sleep) created by laura.lp.iq@…
[…]
2:02 AM Ticket #16165 (swapaa: DunbrackRotamerLibrary' object has no attribute 'display_name') created by samira.alsadi@…
[…]

Oct 22, 2024:

5:54 PM Ticket #9825 (Quest VR is not smooth) closed by Tom Goddard
nonchimerax: This appeared to be a problem with Meta Quest AirLink.
5:48 PM Ticket #14820 (glBindBuffer: invalid operation) closed by Tom Goddard
can't reproduce: No response from reporter.
5:45 PM Ticket #15103 (map.volume._update_drawings: KeyError) closed by Tom Goddard
can't reproduce: This is the only report of this error in many years using …
5:42 PM Ticket #15186 (Crash changing Mac display configuration) closed by Tom Goddard
fixed: This crash appears to be fixed by Qt 6.7 which has been in the …
5:40 PM Ticket #15229 (Crash attaching file for bug report) closed by Tom Goddard
can't reproduce: Probable Qt bug.
5:38 PM Ticket #15358 (Too easy to delete labels with mouse mode; also no undo) closed by Tom Goddard
not a bug
5:37 PM Ticket #15413 (Crash when waking from sleep, Mac M2, ...) closed by Tom Goddard
fixed: This crash appears to be fixed by Qt 6.7 which has been used by the …
5:36 PM Ticket #15591 (Add Foldseek structure similarity search) closed by Tom Goddard
fixed: This has been added as the Similar Structures tools.
5:34 PM Ticket #15734 (Blast of esmfold database fails, database deleted on server) closed by Tom Goddard
fixed
5:28 PM Ticket #15869 (Alphafold interfaces: PAE not opened) closed by Tom Goddard
fixed
5:27 PM Ticket #16056 (Crash moving window between screens) closed by Tom Goddard
fixed: Qt version 6.7 used in the ChimeraX daily builds appears to have fixed …
5:26 PM Ticket #15877 (Graphics crash, macOS 14.5, Mac M1 Max) closed by Tom Goddard
nonchimerax: Apple M1 graphics driver crash.
5:25 PM Ticket #16069 (Crash moving window between screens) closed by Tom Goddard
fixed: It appears Qt 6.7 in the ChimeraX daily build has fixed most instances …
5:23 PM Ticket #16161 (Re: [chimerax-users] Mercator projection of MRC voluem coloured by ...) closed by Tom Goddard
not a bug: Handled on ChimeraX mailing list.
5:20 PM Ticket #16163 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics) closed by Tom Goddard
nonchimerax: Apple Intel graphics driver crash.
5:18 PM Ticket #16162 ('XR' object has no attribute '_eye_view_states') closed by Tom Goddard
duplicate: This error was with a June 2024 version of ChimeraX ChimeraX …
4:56 PM Ticket #16164 (ui view fourup: volume_viewer is None) created by chimerax-bug-report@…
[…]
1:34 PM Ticket #16163 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics) created by chimerax-bug-report@…
[…]
1:26 PM Ticket #16162 ('XR' object has no attribute '_eye_view_states') created by rkrishnan@…
[…]
12:24 PM Ticket #16159 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics) closed by Tom Goddard
nonchimerax: Apple Intel graphics driver crash.
12:19 PM Ticket #16161 (Re: [chimerax-users] Mercator projection of MRC voluem coloured by ...) created by goddard@…
[…] [[Image(...)]] [[Image(...)]]
11:43 AM Ticket #16160 (Mercator projection of MRC voluem coloured by attribute) closed by pett
not a bug: Seems like a chimerax-users question, so redirected it there.
11:00 AM Ticket #16157 (ModelArchive PAE temp files: Permission denied) closed by Tom Goddard
nonchimerax: ChimeraX creates a temporary file when it downloads the Model Archive …
10:51 AM Ticket #16160 (Mercator projection of MRC voluem coloured by attribute) created by Pranav.shah@…
[…]
10:45 AM Ticket #16159 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics) created by chimerax-bug-report@…
[…]
10:31 AM Dev2024-10-28 created by Tom Goddard
10:30 AM Dev2024-10-21 edited by Tom Goddard
(diff)
10:29 AM 2024-10-24 created by Tom Goddard
10:27 AM DeveloperMeetings edited by Tom Goddard
(diff)
10:23 AM Ticket #16158 (ISOLDE: Clipper distribution was not found) created by chimerax-bug-report@…
[…]
10:01 AM Ticket #16156 (ui view fourup: ZeroDivisionError) closed by pett
duplicate
9:49 AM Ticket #16155 (Crash on Mac waking from sleep) closed by pett
duplicate
9:27 AM Ticket #16096 (Convenient conservation selection) closed by pett
fixed: Now implemented in the sequence viewer's context menu under …
5:51 AM Ticket #16157 (ModelArchive PAE temp files: Permission denied) created by andrew.waterhouse@…
[…]
4:51 AM Ticket #16156 (ui view fourup: ZeroDivisionError) created by chimerax-bug-report@…
[…]
12:47 AM Ticket #16154 (GitHub Actions mac universal2 build missing arm64 numpy) closed by Zach Pearson
fixed: Fixed. Added the complaining items, which had no arm64 equivalents …
12:43 AM Ticket #16155 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]

Oct 21, 2024:

5:05 PM Ticket #16154 (GitHub Actions mac universal2 build missing arm64 numpy) created by Zach Pearson
3:42 PM Dev2024-10-21 edited by Tom Goddard
(diff)
3:31 PM Dev2024-10-21 edited by Tom Goddard
(diff)
3:02 PM Dev2024-10-21 edited by Tom Goddard
(diff)
2:20 PM Dev2024-10-21 created by Zach Pearson
2:20 PM DeveloperMeetings edited by Zach Pearson
(diff)
1:57 PM Dev2024-10-14 edited by pett
(diff)
1:29 PM Dev2024-10-14 edited by pett
(diff)
1:20 PM Ticket #16153 (Similar Structures tool: tried to search Alphafold DB using BLAST) closed by Tom Goddard
fixed: Fixed. Oops. Apparently I never retested similar structures blast …
1:05 PM Ticket #16151 (Acer 27" SpatialLabs View Pro Stereoscopic 3D Monitor openxr error) closed by Tom Goddard
fixed: I put in a fix for this error. Give the ChimeraX daily build dated …
12:50 PM Ticket #16153 (Similar Structures tool: tried to search Alphafold DB using BLAST) created by Elaine Meng
[…]
12:13 PM Ticket #16152 ('sym' problems) created by guillaume.gaullier@…
[…] sym-bug.cxc
11:44 AM Ticket #16146 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: This ChimeraX crash is caused by a bug in the Qt 6.6 window toolkit …
11:37 AM Ticket #16144 (Graphics crash, macOS 14.5, Intel Iris Plus Graphics 645) closed by Tom Goddard
nonchimerax: Apple Intel graphics driver crash.
11:35 AM Ticket #16142 (Foldseek: permission error writing temp file) closed by Tom Goddard
nonchimerax: I guess some defective virus scan software has locked the temporary …
11:25 AM Ticket #16141 (Crash in QWebEngine after alphafold predict) closed by Tom Goddard
duplicate: Yep, 4th report of same crash by same user (same uuid, same machine, …
10:29 AM Ticket #16150 (AddCharge: Hydrogen bonded to non-heavy atom) closed by pett
not a bug: Bad CONECT records
10:24 AM Ticket #16148 ('MarkedHistogram' object has no attribute '_min_val') closed by pett
duplicate: Duplicate of #15759
10:08 AM Ticket #16147 (AddCharge: Hydrogen not bonded to exactly one other atom) closed by pett
not a bug: Either mangled CONECT records or badly incomplete structure
9:54 AM Ticket #16143 (Follow up to: SEQCROW: trouble reading .out files) closed by pett
not a bug
9:10 AM Ticket #16151 (Acer 27" SpatialLabs View Pro Stereoscopic 3D Monitor openxr error) created by RKrishnan@…
[…]
6:37 AM Ticket #16150 (AddCharge: Hydrogen bonded to non-heavy atom) created by chimerax-bug-report@…
[…]
6:14 AM Ticket #16149 (ISOLDE: 5-bond carbon) created by guillaume.gaullier@…
[…]
2:59 AM Ticket #16148 ('MarkedHistogram' object has no attribute '_min_val') created by chimerax-bug-report@…
[…]
12:31 AM Ticket #16147 (AddCharge: Hydrogen not bonded to exactly one other atom) created by chimerax-bug-report@…
[…]

Oct 20, 2024:

6:21 AM Ticket #16146 (Crash on Mac waking from sleep) created by jk658@…
[…]
4:21 AM Ticket #16145 (Session restore: index out of range evaluating header) created by drorn@…
[…]
1:46 AM Ticket #16144 (Graphics crash, macOS 14.5, Intel Iris Plus Graphics 645) created by chimerax-bug-report@…
[…]

Oct 19, 2024:

1:49 AM Ticket #16143 (Follow up to: SEQCROW: trouble reading .out files) created by 2529108683@…
[…]

Oct 18, 2024:

10:27 PM Ticket #16142 (Foldseek: permission error writing temp file) created by chimerax-bug-report@…
[…]
9:36 PM Ticket #16141 (Crash in QWebEngine after alphafold predict) created by chimerax-bug-report@…
[…]
5:08 PM Ticket #16140 (Crash in event loop) closed by pett
can't reproduce: Possibly remote display
5:06 PM Ticket #16139 (RE: Server down) closed by pett
not a bug: This was Kimberly's followup to #16138, not a true bug report.
5:06 PM Ticket #16136 (Tethers invisible behind transparent surface) closed by Elaine Meng
not a bug
5:04 PM Ticket #16138 (Server down) closed by pett
not a bug: Hi Marcel, As Kimberly noted, our servers have been down for …
5:01 PM Ticket #16137 (Issue with download page) closed by pett
not a bug: Hi Sabrina, Our servers have been down this week for maintenance. …
4:51 PM Ticket #16134 (Crash on Mac waking from sleep) closed by pett
duplicate
4:46 PM Ticket #16133 (Crash in garbage collection) closed by pett
duplicate: Hi Siqiong, Thanks for reporting this problem. These garbage …
4:41 PM Ticket #16132 (SEQCROW: trouble reading .out files) closed by pett
duplicate: The Chinese characters in the Subject line are causing new tickets to …
12:38 PM Ticket #16140 (Crash in event loop) created by chimerax-bug-report@…
[…]
12:05 PM Ticket #16139 (RE: Server down) created by Kimberly.Cantero@…
[…]
12:05 PM Ticket #16138 (Server down) created by marcel.drabbels@…
[…]
12:05 PM Ticket #16137 (Issue with download page) created by sabrinamoffit@…
[…]
12:05 PM Ticket #16136 (Tethers invisible behind transparent surface) created by deirdre.mack@…
[…] …

Oct 14, 2024:

1:27 PM Ticket #16130 (glBufferData: out of memory) closed by Tom Goddard
limitation: Graphics ran out of memory. Your 16 Gbyte mask is too large to render …
11:56 AM Ticket #16122 (Crash in QWebEngine after alphafold predict) closed by Tom Goddard
duplicate: Yes, same user reporting same problem for 3rd time.
11:45 AM Ticket #16135 (Trouble installing on Ubuntu 24.04) created by Jillian.Baker@…
[…]
10:49 AM Ticket #16134 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
10:25 AM Ticket #15536 (ui view fourup: division by zero) closed by Zach Pearson
fixed: This should be fixed in any recent daily build.
10:00 AM Ticket #16052 (Weird graphics) closed by Greg Couch
fixed: Glad to hear it is fixed. Thank you for letting us know.
1:16 AM Ticket #16133 (Crash in garbage collection) created by 21122748r@…
[…]

Oct 13, 2024:

10:33 PM Ticket #16128 (MolecularDynamicsViewer: list index out of range) closed by pett
limitation: Hi Sebastien, This error indicated that your PDB isn't a correct …
7:03 PM Ticket #16132 (SEQCROW: trouble reading .out files) created by 2529108683@…
[…] C3H6O-right.out diclofenac.out
6:48 PM Ticket #16131 (SEQCROW: trouble reading .out files) created by 2529108683@…
[…]
4:19 PM Ticket #16123 (Crash in Qt redraw after screen disconnect) closed by pett
can't reproduce
3:47 PM Ticket #16121 (Crash in garbage collection) closed by pett
duplicate
3:32 PM Ticket #16118 (Permission denied replacing commands file) closed by pett
can't reproduce
2:49 PM Ticket #16116 (Crash on Mac waking from sleep) closed by pett
duplicate
2:21 PM Ticket #16115 (Permission denied replacing commands file) closed by pett
can't reproduce
2:11 PM Ticket #16114 (Permission denied replacing commands file) closed by pett
can't reproduce
1:38 PM Ticket #16113 (Select..Contacts not completely working) closed by pett
duplicate: Hi Anthony, Thanks for reporting this problem. It was fixed about …
10:55 AM Ticket #16130 (glBufferData: out of memory) created by manjunath.javoor@…
[…]

Oct 12, 2024:

7:43 PM Ticket #16129 (Session restore: LZ4F_decompress failed) created by chimerax-bug-report@…
[…]
2:20 AM Ticket #16128 (MolecularDynamicsViewer: list index out of range) created by sebastien.gounel@…
[…]
1:41 AM Ticket #16127 (QSpiApplication::keyEventError and various other errors) created by saverio.lemme@…
[…]
1:38 AM Ticket #16126 (Unknown problem) created by 2529108683@…
[…] 28C02F33@00B3C12F.81350A67.png
1:12 AM Ticket #16125 (SEQCROW: ORCA .out: not enough values to unpack) created by zhaochen@…
[…] diclofenac.out

Oct 11, 2024:

9:51 PM Ticket #16124 (SEQCROW: AaronTools: boron not in radii_dict) created by chimerax-bug-report@…
[…]
9:21 PM Ticket #16123 (Crash in Qt redraw after screen disconnect) created by chimerax-bug-report@…
[…]
4:39 PM Ticket #16122 (Crash in QWebEngine after alphafold predict) created by chimerax-bug-report@…
[…]
12:39 PM Ticket #15709 (BLAST Protein failing: 'NoneType' object has no attribute 'keys') closed by Zach Pearson
fixed: This has been fixed for a while.
12:39 PM Ticket #15704 (BLAST databases missing) closed by Zach Pearson
fixed: This has been fixed for a while.
11:37 AM Ticket #16121 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
11:08 AM Ticket #16120 (Can't plot Model Archive pairwise scores if structure has non-polymer ...) created by gerardo.tauriello@…
From: Gerardo Tauriello Subject: Re: [chimerax-users] [EXTERN] Re: …
10:52 AM Ticket #16119 (Opening modelcif pae gives "IndexError: list index out of range") closed by Tom Goddard
fixed: Fixed. The mmcif table reader returns an empty list when no pairwise …
10:49 AM Ticket #16119 (Opening modelcif pae gives "IndexError: list index out of range") created by gerardo.tauriello@…
[…]
10:49 AM Ticket #7250 (Cloud builds) closed by Zach Pearson
fixed: We now produce nightly builds of all platforms. Further bugs should be …
10:16 AM StartDaily edited by Zach Pearson
(diff)
10:15 AM restart_daily_github_builds.png attached to StartDaily by Zach Pearson
10:14 AM StartDaily edited by Zach Pearson
(diff)
7:45 AM Ticket #16118 (Permission denied replacing commands file) created by chimerax-bug-report@…
[…]
6:26 AM Ticket #16116 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
5:42 AM Ticket #16115 (Permission denied replacing commands file) created by chimerax-bug-report@…
[…]
5:31 AM Ticket #16114 (Permission denied replacing commands file) created by chimerax-bug-report@…
[…]
3:32 AM Ticket #16113 (Select..Contacts not completely working) created by anthony.morgan@…
[…]
2:24 AM Ticket #16112 ("seq align" sequence names may need to be more specific in some ...) created by Tristan Croll
[…]

Oct 10, 2024:

10:57 PM Ticket #16111 (Bug report submission says it failed but actually succeeds) created by Tom Goddard
I tried to report the same bug 3 times about 3 minutes apart using …
10:50 PM Ticket #16110 (AlphaFold PAE plot not updating to reflect new PAE values) closed by Tom Goddard
duplicate
10:49 PM Ticket #16109 (AlphaFold PAE plot not updating to reflect new PAE values) closed by Tom Goddard
duplicate: Duplicate of #16108
10:46 PM Ticket #16108 (AlphaFold PAE plot not updating to reflect new PAE values) closed by Tom Goddard
fixed: Fixed. Made alphafold pae command properly update the matrix values …
10:43 PM Ticket #16110 (AlphaFold PAE plot not updating to reflect new PAE values) created by goddard@…
[…]
10:42 PM Ticket #16109 (AlphaFold PAE plot not updating to reflect new PAE values) created by goddard@…
[…]
10:41 PM Ticket #16108 (AlphaFold PAE plot not updating to reflect new PAE values) created by goddard@…
[…]
6:19 PM Ticket #16107 (Unknown problem) created by 2529108683@…
[…] 3B86D635@F87BFD7D.157D0867.png
3:30 PM Ticket #16097 (Problem restoring sequence regions) closed by pett
can't reproduce
2:38 PM Ticket #16106 (measure symmetry helix placements wrong) closed by Tom Goddard
fixed
2:32 PM Ticket #16106 (measure symmetry helix placements wrong) created by hernando.sosa@…
[…]
1:58 PM NIAID2024 edited by Tom Goddard
(diff)
1:54 PM Ticket #16104 (AlphaFold Error Plot: IndexError: list index out of range) closed by Tom Goddard
duplicate: This was fixed 5 months ago (bug #15143). Get ChimeraX 1.8 to avoid …
1:50 PM NIAID2024 edited by Elaine Meng
(diff)
1:47 PM NIAID2024 edited by Elaine Meng
(diff)
12:59 PM Ticket #16105 (Crash in event loop) closed by pett
can't reproduce
12:50 PM Ticket #16102 (Crash in garbage collection) closed by pett
duplicate: Hi Anthony, Thanks for reporting this problem. It is fixed in the …
12:44 PM Ticket #996 (Issue reading PDB files) closed by pett
fixed
12:07 PM Ticket #16101 (Segger: bounding_grid() missing 1 required positional argument: 'cube') closed by Tom Goddard
fixed: Fixed. My addition of the cube option to the molmap command changed …
11:52 AM Ticket #16100 (Blast Protein failure) closed by pett
limitation: Opal web services discontinued
11:47 AM 2024-10-10 edited by Tom Goddard
(diff)
11:47 AM 2024-10-10 edited by Tom Goddard
(diff)
11:22 AM Ticket #16105 (Crash in event loop) created by chimerax-bug-report@…
[…]
10:51 AM Ticket #16098 (Crash in garbage collection) closed by pett
duplicate
10:24 AM Ticket #10397 (traceback opening Segmentations tool after opening SEG-only DICOM) closed by Zach Pearson
fixed: This should be …
9:35 AM Ticket #16104 (AlphaFold Error Plot: IndexError: list index out of range) created by vincent.yao.1@…
[…]
9:35 AM Ticket #16103 (Crash during/after "clipper associate") created by pk8@…
[…]
7:33 AM Ticket #16102 (Crash in garbage collection) created by anthony.morgan@…
[…]
6:52 AM Ticket #16101 (Segger: bounding_grid() missing 1 required positional argument: 'cube') created by chimerax-bug-report@…
[…]

Oct 9, 2024:

8:39 PM Ticket #16100 (Blast Protein failure) created by chimerax-bug-report@…
[…]
6:08 PM Ticket #16068 (Crash involving morph) closed by pett
fixed: The code that composes chains from polymeric segments joined by …
5:10 PM Ticket #15772 (Missing the required parameter `arch` when calling `check_for_updates`) closed by Zach Pearson
fixed: Since this ticket hasn't received any updates and I haven't been …
5:09 PM Ticket #15650 (ChimeraX 1.7 PyPy package import error: ModuleNotFoundError: No module ...) closed by Zach Pearson
fixed: A new PyPi package went up some time ago.
5:09 PM Ticket #15649 (ChimeraX 1.7 PyPi package import error: ModuleNotFoundError: No module ...) closed by Zach Pearson
fixed: A new PyPi package went up some time ago.
3:52 PM Ticket #16098 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
1:47 PM Ticket #16097 (Problem restoring sequence regions) created by chimerax-bug-report@…
[…]
10:03 AM Ticket #16094 (volume level: OSError: [Errno 89] Operation canceled) closed by Tom Goddard
nonchimerax: ChimeraX is trying to read an MRC map the user opened from an …
9:52 AM Ticket #16091 (Crash in QWebEngine after alphafold predict) closed by Tom Goddard
can't reproduce: Seems to be a QWebEngine problem. Crash was in thread 26 where it …
9:40 AM Ticket #16089 (Movie recording: No space left on device) closed by Tom Goddard
limitation: User ran out of disk space recording a movie.
9:38 AM Ticket #16086 (glBufferData: out of memory) closed by Tom Goddard
can't reproduce: OpenGL out of memory error allocating a 40 Mbyte buffer to show …
9:25 AM Ticket #16093 (AddCharge: Hydrogen bonded to atom that should not have hydrogens) closed by pett
can't reproduce: Would need the structure to see how this happened.
9:11 AM Ticket #16090 (Crash on Mac waking from sleep) closed by pett
duplicate
9:05 AM Ticket #16085 (Crash in garbage collection) closed by pett
duplicate
5:59 AM Ticket #16096 (Convenient conservation selection) created by Tristan Croll
[…]
5:08 AM Ticket #16095 (SEQCROW: trouble reading .out files) created by 2529108683@…
[…] VCD.out
3:17 AM Ticket #16094 (volume level: OSError: [Errno 89] Operation canceled) created by chimerax-bug-report@…
[…]

Oct 8, 2024:

11:20 PM Ticket #16093 (AddCharge: Hydrogen bonded to atom that should not have hydrogens) created by chimerax-bug-report@…
[…]
9:19 PM Ticket #16092 (SEQCROW: self.start_time is None) created by chimerax-bug-report@…
[…]
7:29 PM Ticket #15825 (Add a PDB and AlphaFold database sequence search using RCSB mmseqs2) closed by Tom Goddard
fixed: Done. Added as part of the new Similar Structures tool, and the new …
7:11 PM Ticket #16091 (Crash in QWebEngine after alphafold predict) created by chimerax-bug-report@…
[…]
6:37 PM Ticket #16090 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
6:34 PM Ticket #16089 (Movie recording: No space left on device) created by chimerax-bug-report@…
[…]
6:02 PM Ticket #16088 (Fetch model archive structures and plot PAE values) closed by Tom Goddard
fixed: Done. I added the code to ChimeraX changing it in a few small ways. …
5:51 PM Ticket #16088 (Fetch model archive structures and plot PAE values) created by gerardo.tauriello@…
Gerardo contributed code to fetch Model Archive structures and plot …
12:37 PM Ticket #16087 (PAE value reported by mouse hover is wrong) closed by Tom Goddard
fixed: Fixed. Swapped row and column in reporting PAE value on mouse hover.
12:32 PM Ticket #16087 (PAE value reported by mouse hover is wrong) created by goddard@…
[…]
11:46 AM Dev2024-10-14 created by Tom Goddard
11:45 AM 2024-10-10 created by Tom Goddard
11:44 AM 2024-10-3 edited by Tom Goddard
(diff)
11:43 AM DeveloperMeetings edited by Tom Goddard
(diff)
11:09 AM Ticket #16086 (glBufferData: out of memory) created by chimerax-bug-report@…
[…]
11:06 AM Ticket #16085 (Crash in garbage collection) created by chimerax-bug-report@…
[…]
9:35 AM Ticket #16084 (Crash in event loop) closed by pett
can't reproduce
2:36 AM Ticket #16084 (Crash in event loop) created by chimerax-bug-report@…
[…]

Oct 7, 2024:

8:55 PM Ticket #16083 (Crash on Mac unplugging external display) closed by Tom Goddard
fixed: As described in the previous 2 comments it appears this crash has been …
8:54 PM Ticket #15982 (Crash disconnecting hdmi projector, Mac, Qt 6.7.2) closed by Tom Goddard
can't reproduce: Further attempts to reproduce this crash in ticket #16083 failed. The …
5:51 PM Ticket #16083 (Crash on Mac unplugging external display) created by goddard@…
[…]
5:49 PM Ticket #16081 (kvfinder error with multiple structures) closed by pett
fixed
4:12 PM Dev2024-10-7 edited by Tom Goddard
(diff)
4:11 PM Dev2024-10-7 edited by Tom Goddard
(diff)
3:56 PM Dev2024-10-7 edited by Tom Goddard
(diff)
3:09 PM Dev2024-10-7 edited by Tom Goddard
(diff)
2:46 PM Ticket #16082 (Driver crash creating dozen of alignments) closed by pett
can't reproduce: It's not that easy to accidentally open dozens of alignments anymore.
2:44 PM Ticket #16082 (Driver crash creating dozen of alignments) created by chimerax-bug-report@…
[…]
2:41 PM Ticket #16079 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: This crash is caused by a bug in the Mac Qt window toolkit used by …
2:41 PM Ticket #16081 (kvfinder error with multiple structures) created by Elaine Meng
[…]
2:30 PM Ticket #16074 (Add command to measure molecular weight of specified molecules) closed by Tom Goddard
fixed: Added "measure weight" command, takes atom specifier and reports the …
2:27 PM Ticket #16051 (MolecularDynamicsViewer) closed by pett
fixed
2:19 PM Ticket #16080 (SEQCROW: substitute: residue names must be 4 characters or less) created by chimerax-bug-report@…
[…]
2:15 PM Ticket #16077 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: Mac Qt 6.6 crash in _NSViewHierarchyDidChangeBackingProperties.
2:11 PM Ticket #16079 (Crash on Mac waking from sleep) created by milos.cvetkovic@…
[…]
2:10 PM Ticket #16078 (toolshed install: Non-existent wheel file) created by chimerax-bug-report@…
[…]
2:02 PM Ticket #16077 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]
2:01 PM Ticket #16023 (ChimeraX download problem) closed by pett
nonchimerax: Due to database problems, this comment from Sophie did not make it …
1:59 PM Ticket #16076 (ArtiaX: arrays used as indices must be of integer (or boolean) type) closed by pett
duplicate
1:55 PM Ticket #16076 (ArtiaX: arrays used as indices must be of integer (or boolean) type) created by chimerax-bug-report@…
[…]
1:55 PM Ticket #16075 (QWebEngine crash) closed by pett
can't reproduce: Due to database problems, the previous comments showing up on this …
1:49 PM Ticket #16075 (QWebEngine crash) created by chimerax-bug-report@…
[…]
12:07 PM Ticket #16074 (Add command to measure molecular weight of specified molecules) created by jschaefer@…
Jan asked for a command to measure the molecular weight of a specified …
12:05 PM Ticket #16071 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: Mac Qt 6.6 crash in _NSViewHierarchyDidChangeBackingProperties adding …
11:58 AM Ticket #16073 (Qt fatal error: Failed to initialize graphics backend for OpenGL) created by chimerax-bug-report@…
[…]

Oct 5, 2024:

8:25 AM Ticket #16072 (SEQCROW: np is None) created by rshaibu@…
[…] L6a_sob.log

Oct 4, 2024:

4:15 PM ChangeLog edited by Tom Goddard
(diff)
10:48 AM Ticket #16071 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]

Oct 3, 2024:

6:08 PM Ticket #16070 (SEQCROW: read Gaussian: 'NoneType' object has no attribute 'group') created by chimerax-bug-report@…
[…]
4:58 PM Ticket #15804 (Log cannot restore session state) closed by Greg Couch
fixed: Added code to protect against empty log file contents.
4:25 PM Ticket #2689 (Add bundle_info.xml tag for documentation file locations) closed by Greg Couch
fixed: The documentation update is the fix. The files need to be installed …
4:19 PM Ticket #15971 (nuc slab positions miscalculated?) closed by Greg Couch
fixed: Fixed. Use alternate implementation of Plane class.
3:20 PM Ticket #16069 (Crash moving window between screens) created by etully@…
[…]
2:15 PM 2024-10-3 edited by Tom Goddard
(diff)
1:22 PM Ticket #16065 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: Mac Qt crash in displayConfigFinalizedProc.
1:21 PM Ticket #16057 (Crash on Mac waking from sleep after screen disconnected) closed by Tom Goddard
duplicate: Mac Qt crash in _NSViewHierarchyDidChangeBackingProperties.
1:15 PM Ticket #16068 (Crash involving morph) reopened by pett
Conferring with Tom Goddard, we can produce a crash -- so re-opening.
1:08 PM Ticket #16068 (Crash involving morph) closed by Tom Goddard
duplicate: Works in ChimeraX daily build. I think the crash is because of the …
10:31 AM Ticket #16067 (Crash involving morph) closed by pett
duplicate: More info provided by #16068
9:00 AM Ticket #16066 (reading AlphaFold JSON as MOLE: KeyError: 'Channels') closed by pett
duplicate
8:56 AM Ticket #16064 (ViewDockX: JavaScriptConsoleMessageLevel.WarningMessageLevel) closed by pett
can't reproduce: Want to rewrite entirely anyway.
8:54 AM Ticket #16063 (Test) closed by pett
not a bug
8:52 AM Ticket #16060 (Histogram widget: operands could not be broadcast together with shapes) closed by pett
duplicate
8:51 AM Ticket #16059 (Histogram widget: operands could not be broadcast together with shapes) closed by pett
duplicate
8:50 AM Ticket #16058 (Histogram widget: operands could not be broadcast together with shapes) closed by pett
duplicate: Hi Elena, Thanks for reporting this problem. It has been fixed, and …
8:47 AM Ticket #15980 (Render by Attribute: 'MarkedHistogram' object has no attribute '_min_val') closed by pett
fixed
5:46 AM Ticket #16068 (Crash involving morph) created by gary_yellen@…
[…] F roTq both delB hideHOH selRes.cxs
5:29 AM Ticket #16067 (Crash involving morph) created by gary_yellen@…
[…]
4:47 AM Ticket #16066 (reading AlphaFold JSON as MOLE: KeyError: 'Channels') created by chimerax-bug-report@…
[…]
3:34 AM Ticket #16065 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
[…]

Oct 2, 2024:

6:23 PM Ticket #16064 (ViewDockX: JavaScriptConsoleMessageLevel.WarningMessageLevel) created by chimerax-bug-report@…
[…]
5:37 PM Ticket #16063 (Test) created by pett
[…]
2:23 PM Ticket #15811 (Session save: No bundle information for chimerax.core.tasks.Tasks) closed by Zach Pearson
fixed: I just tried saving a session in my developer build and it worked …
2:21 PM Ticket #16062 (ChimeraX bug report submission) created by Zach Pearson
[…]
11:18 AM Ticket #16061 (Support chains in "color byattribute") created by juan.ortiz-mateu@…
Per summary. Still seems iffy adding chains to the tool interface, …
11:09 AM Ticket #16060 (Histogram widget: operands could not be broadcast together with shapes) created by zehr.elena@…
[…]
11:09 AM Ticket #16059 (Histogram widget: operands could not be broadcast together with shapes) created by zehr.elena@…
[…]
11:09 AM Ticket #16058 (Histogram widget: operands could not be broadcast together with shapes) created by zehr.elena@…
[…]
10:42 AM Ticket #16055 (Crash moving window between screens) closed by Tom Goddard
duplicate: Qt crash in _NSViewHierarchyDidChangeBackingProperties.
10:08 AM Ticket #16057 (Crash on Mac waking from sleep after screen disconnected) created by chimerax-bug-report@…
[…]
10:01 AM Ticket #16056 (Crash moving window between screens) created by jing.16.liu@…
[…]
9:42 AM Ticket #16055 (Crash moving window between screens) created by chimerax-bug-report@…
[…]
12:33 AM Ticket #16054 (mmcif.get_cif_tables() raises TypeError if table does not exist) closed by Greg Couch
fixed: Fixed code and function documentation.
12:06 AM Ticket #16053 (Opening mmCIF file spams log with URLS to each non-standard chemical ...) closed by Greg Couch
fixed: Removed debugging print.

Oct 1, 2024:

7:24 PM Ticket #16054 (mmcif.get_cif_tables() raises TypeError if table does not exist) created by goddard@…
[…]
7:20 PM Ticket #16053 (Opening mmCIF file spams log with URLS to each non-standard chemical ...) created by goddard@…
[…]
11:21 AM Ticket #16048 (Crash on Mac waking from sleep) closed by Tom Goddard
duplicate: Mac Qt crash in displayConfigFinalizedProc probably connecting or …
11:12 AM Dev2024-10-7 created by Tom Goddard
11:11 AM DeveloperMeetings edited by Tom Goddard
(diff)
9:38 AM Ticket #16052 (Weird graphics) created by crchrhpl@…
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9:15 AM Ticket #16051 (MolecularDynamicsViewer) created by waleed.sabir@…
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8:38 AM Ticket #16050 (no OpenCL or compatible CUDA drivers) created by jianghai.zhu@…
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8:33 AM Ticket #16049 (Could not make graphics context current) created by percyj@…
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1:13 AM Ticket #16048 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
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