![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Timeline
Nov 14, 2023:
- 10:10 PM Ticket #10154 (Crash using color chooser) created by
- […]
- 5:29 PM Ticket #10076 (VRML output for 3D color printers) closed by
- fixed: If it is still desired to allow gltf output to use all vertex colors, …
- 2:08 PM ChangeLog edited by
- (diff)
- 2:02 PM Ticket #10153 (Segger: library not loaded: libsz.2.dylib) created by
- […]
- 11:33 AM Dev2023-11-20 created by
- 11:31 AM 2023-11-16 created by
- 11:29 AM DeveloperMeetings edited by
- (diff)
- 9:00 AM Ticket #10151 (MemoryError opening mmCIF files) closed by
- duplicate
- 8:59 AM Ticket #10150 (Crash in garbage collection while rebuilding nucleotides data) closed by
- can't reproduce
- 8:51 AM Ticket #10148 (Crash in event loop) closed by
- can't reproduce
- 8:42 AM Ticket #10146 (Crash in event loop) closed by
- can't reproduce
- 7:54 AM Ticket #10152 (Sesson restore: wrapped C/C++ object of type DICOMTable has been deleted) created by
- […]
- 6:40 AM Ticket #10151 (MemoryError opening mmCIF files) created by
- […]
- 4:29 AM Ticket #10150 (Crash in garbage collection while rebuilding nucleotides data) created by
- […]
- 4:14 AM Ticket #10149 (ArtiaX: float division by zero) created by
- […]
- 1:03 AM Ticket #10148 (Crash in event loop) created by
- […]
Nov 13, 2023:
- 11:50 PM Ticket #10147 (Initial window placement offscreen) created by
- […]
- 9:57 PM Ticket #10146 (Crash in event loop) created by
- […]
- 6:26 PM Ticket #10126 (Phenix location) closed by
- fixed: Some code to better handle Windows installations didn't make it into …
- 5:28 PM Ticket #8096 (Antechamber on M2: Bad CPU type in executable) closed by
- duplicate: Duplicate of #8893. Eric added a warning advising to install Rosetta …
- 5:26 PM Ticket #10132 (ffmpeg: "Bad CPU type in executable" recording spin movie) closed by
- fixed: Fixed. I added Mac ARM ffmpeg version 6.0 to the daily build and 1.7 …
- 4:23 PM Dev2023-11-13 edited by
- (diff)
- 4:17 PM Dev2023-11-13 edited by
- (diff)
- 3:40 PM Dev2023-11-13 edited by
- (diff)
- 3:12 PM Dev2023-11-13 edited by
- (diff)
- 2:39 PM Ticket #10145 (Crash showing Rapid Access at startup) created by
- […]
- 12:58 PM WikiStart edited by
- (diff)
- 12:55 PM Dev2023-11-13 edited by
- (diff)
- 12:53 PM Ticket #10131 (Ribbon going through RNA adduct instead of base) closed by
- fixed: Fixed in daily build and 1.7 release candidate. The ribbon code just …
- 11:29 AM Ticket #10143 (Crash in chain_trace_atoms after a 'combine') closed by
- can't reproduce
- 11:24 AM Ticket #10142 (No known/registered numeric attribute seq_conservation) closed by
- not a bug: Hi Rocislaw, Looking at the log output you provided, it looks like …
- 11:09 AM Ticket #10141 (Restore new session in old ChimeraX) closed by
- limitation: Hi Zibo, Although you can restore old sessions in newer versions of …
- 10:42 AM Ticket #10140 (Crash showing Rapid Access at startup) closed by
- can't reproduce
- 10:27 AM Ticket #10139 (number of electrons + formal charge is odd) closed by
- limitation: Hi Buse, Thanks for reporting this problem. This error message …
- 10:14 AM Ticket #10144 (Crash in event loop) created by
- […]
- 9:53 AM Ticket #10137 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by
- duplicate: Hi Esther, Thanks for reporting this problem. This is a bug …
- 9:47 AM Ticket #10136 (MemoryError opening mmCIF) closed by
- duplicate
- 9:37 AM Ticket #10143 (Crash in chain_trace_atoms after a 'combine') created by
- […]
- 9:36 AM Ticket #10134 (MemoryError opening mmCIF) closed by
- duplicate
- 9:35 AM Ticket #10133 (Act on open model from command line) closed by
- not a bug: Hi Matt, For most commands, simply omitting the atom/model specifier …
- 5:08 AM Ticket #10142 (No known/registered numeric attribute seq_conservation) created by
- […]
- 2:15 AM Ticket #10141 (Restore new session in old ChimeraX) created by
- […] 7li MHOR5 13 11 2023.cxs
- 1:52 AM Ticket #10140 (Crash showing Rapid Access at startup) created by
- […]
Nov 12, 2023:
- 7:45 AM Ticket #10139 (number of electrons + formal charge is odd) created by
- […]
- 6:24 AM Ticket #10138 (Crash showing Rapid Access at startup) created by
- […]
Nov 11, 2023:
- 11:01 AM Ticket #10137 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by
- […]
- 3:27 AM Ticket #10136 (MemoryError opening mmCIF) created by
- […]
Nov 10, 2023:
- 11:02 PM Ticket #10135 (Crash saving mmCIF) created by
- […]
- 9:13 PM Ticket #10134 (MemoryError opening mmCIF) created by
- […]
- 11:20 AM Ticket #10133 (Act on open model from command line) created by
- […]
- 9:57 AM Ticket #10132 (ffmpeg: "Bad CPU type in executable" recording spin movie) created by
- […]
- 8:58 AM Ticket #10126 (Phenix location) reopened by
- I think this is a real bug. I was trying to help someone run this on …
- 2:24 AM Ticket #10131 (Ribbon going through RNA adduct instead of base) created by
- […]
- 1:58 AM Ticket #10130 ('AdaptiveDistanceRestraintMgr' object has no attribute '_c_pointer') created by
- […]
Nov 9, 2023:
- 6:35 PM Ticket #10129 (Make windowing mouse mode update histogram brightness curve in realtime) closed by
- fixed: Done. ChimeraX daily build or release candidate dated Nov 10, 2023 …
- 6:26 PM Ticket #10129 (Make windowing mouse mode update histogram brightness curve in realtime) created by
- When using the windowing hand controller mode in VR it would be useful …
- 5:45 PM Ticket #9608 (Registration mailing-list subscription: HTTP 404 failure) reopened by
- Just tried this again in the daily build and got: Failed to …
- 5:00 PM Ticket #10128 (Blocky artifacts in images) closed by
- nonchimerax: That looks like a graphics driver problem. It would be useful if you …
- 4:53 PM Ticket #10125 (volume initialColors/saveSettings don't mix) closed by
- fixed: Fixed in Nov 10, 2023 daily build and release candidate. Thanks for …
- 4:48 PM Ticket #10122 (CheckWaterViewer holding reference to dead Residue) closed by
- fixed: Fixed in develop and release candidate
- 4:46 PM Ticket #10128 (Blocky artifacts in images) created by
- […] [[Image(...)]]
- 3:34 PM Ticket #9626 (Crash opening mmCIF file) closed by
- can't reproduce: Need input file to reproduce
- 3:30 PM Ticket #10126 (Phenix location) closed by
- not a bug: Hi Scott, Thanks for reporting this problem. I will try to improve …
- 3:17 PM Ticket #10127 (DICOM session does not restore thresholds or colors) created by
- […]
- 3:08 PM Dev2023-11-13 created by
- 3:07 PM DeveloperMeetings edited by
- (diff)
- 3:07 PM 2023-11-9 edited by
- (diff)
- 2:57 PM Ticket #10126 (Phenix location) created by
- […]
- 2:08 PM NIAID2023 edited by
- (diff)
- 2:01 PM NIAID2023 edited by
- (diff)
- 1:52 PM NIAID2023 edited by
- (diff)
- 1:48 PM NIAID2023 edited by
- (diff)
- 1:34 PM NIAID2023 edited by
- (diff)
- 11:02 AM Ticket #10125 (volume initialColors/saveSettings don't mix) created by
- […]
- 10:33 AM Ticket #10120 (Crash setting volume level) closed by
- can't reproduce: Probable graphics driver crash.
- 10:31 AM Ticket #10124 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by
- duplicate
- 10:09 AM Ticket #10121 (Crash in event loop) closed by
- can't reproduce
- 9:05 AM Ticket #10124 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by
- […]
- 8:19 AM Ticket #10123 (Problem reading XYZ file: invalid literal for int() with base 10) created by
- […]
- 5:41 AM Ticket #10122 (CheckWaterViewer holding reference to dead Residue) created by
- […]
- 5:10 AM Ticket #10121 (Crash in event loop) created by
- […]
- 1:57 AM Ticket #10120 (Crash setting volume level) created by
- […]
- 12:40 AM Ticket #9544 (Phenix mmCIF secondary structure problems) closed by
- not a bug: ChimeraX is showing the structure as described in the file. The file …
- 12:18 AM Ticket #9608 (Registration mailing-list subscription: HTTP 404 failure) closed by
- fixed: Instead of updating for mailman3, added redirects to the web server …
Nov 8, 2023:
- 11:56 PM Ticket #9410 (mmCIF writing vs. blank chain IDs) closed by
- fixed: The label_asym value in a mmCIF file is an ASCII-ish identifier. In …
- 6:25 PM Ticket #9910 (Missing chain objects) closed by
- fixed: The mmCIF writer uses the chain's description field to fill in …
- 5:06 PM Ticket #1770 (Add command to create pseudobonds.) closed by
- fixed: Added a pseudobond/pbond command. Now in the Elaine …
- 1:55 PM NIAID2023 edited by
- (diff)
- 1:53 PM NIAID2023 edited by
- (diff)
- 12:49 PM Ticket #10119 (atom_site.label_asym_id not allowing '.') created by
- […]
- 12:38 PM Ticket #10118 (Add user agent to ColabFold run sequence search) closed by
- fixed: Done. Added user agent "ChimeraX chimerax-programmers@…".
- 12:38 PM Ticket #10118 (Add user agent to ColabFold run sequence search) created by
- ColabFold is complaining that it wants a user agent set in the request …
- 11:46 AM Ticket #10117 (Hello ChimeraX) closed by
- fixed: Hi Lijun, We have been having problems with our server. The download …
- 11:45 AM Ticket #10116 (Cannot Download) closed by
- fixed
- 11:21 AM Ticket #10117 (Hello ChimeraX) created by
- […]
- 11:16 AM Ticket #10116 (Cannot Download) created by
- […] [[Image(...)]] [[Image(...)]] …
- 11:04 AM Ticket #10115 (Update AlphaFold prediction to fix error "SVD did not converge") closed by
- fixed: Fixed. I updated ColabFold to the November 1, 2023 github source …
- 10:57 AM Ticket #10115 (Update AlphaFold prediction to fix error "SVD did not converge") created by
- Begin forwarded message: From: "Margulies, David (NIH/NIAID) Subject: …
- 10:55 AM Ticket #10114 (Unknown task state) created by
- When our server is partially hosed and jobs queue up, the handling of …
- 9:18 AM Ticket #10113 (ISOLDE holding ref to deleted structure) closed by
- duplicate
- 12:18 AM Ticket #10113 (ISOLDE holding ref to deleted structure) created by
- […]
Nov 7, 2023:
- 4:29 PM Ticket #4536 (consistent model color scheme) closed by
- fixed: Basically just changed uses of Model.model_color to …
- 3:33 PM Ticket #10112 (Crash in background load of OpenMM forcefields) created by
- […]
- 1:06 PM Ticket #10110 (Crash showing Rapid Access at startup) closed by
- can't reproduce
- 1:03 PM Ticket #10111 (ArtiaX session save: Unknown class name 'MarkerSetPlus') created by
- […] [[Image(...)]] …
- 11:57 AM Ticket #10110 (Crash showing Rapid Access at startup) created by
- […]
- 10:41 AM Ticket #10106 (MemoryError saving session) closed by
- can't reproduce: If I see this reported a few more times I will investigate whether it …
- 10:23 AM Ticket #10109 (Crash in pdb_connect::find_missing_structure_bonds) closed by
- can't reproduce: 1.5, so may already be fixed. Doesn't reproduce with the standard …
- 10:18 AM Ticket #10103 (Crash setting clip parameters) closed by
- duplicate: Duplicate of #10102. Mesa graphics crash.
- 10:17 AM Ticket #10102 (Crash showing scale bar) closed by
- can't reproduce: Crashed in swap_buffers(). Probable Mesa graphics driver crash.
- 10:16 AM Ticket #10107 (Restore new session in old ChimeraX) closed by
- limitation: Hi Mark, Though session files written by older versions of ChimeraX …
- 9:42 AM Ticket #10105 (Color key: cannot restore numeric locale) closed by
- fixed
- 9:10 AM Ticket #10104 (Crash using File→Open on Windows and/or in return statement) closed by
- can't reproduce: 1.2.5
- 9:06 AM Ticket #10101 (Crash using File→Open on Windows and/or in return statement) closed by
- can't reproduce: 1.2.5
- 8:35 AM ChangeLog edited by
- (diff)
- 6:56 AM Ticket #10109 (Crash in pdb_connect::find_missing_structure_bonds) created by
- […]
- 6:17 AM Ticket #10108 (Make GLTF output so that importing into Blender sets the center of ...) created by
- […]
- 4:11 AM Ticket #10107 (Restore new session in old ChimeraX) created by
- […]
- 2:14 AM Ticket #10106 (MemoryError saving session) created by
- […]
- 2:02 AM Ticket #10105 (Color key: cannot restore numeric locale) created by
- […]
Nov 6, 2023:
- 10:15 PM Ticket #10104 (Crash using File→Open on Windows and/or in return statement) created by
- […]
- 9:09 PM Ticket #10103 (Crash setting clip parameters) created by
- […]
- 9:03 PM Ticket #10102 (Crash showing scale bar) created by
- […]
- 6:53 PM Ticket #10101 (Crash using File→Open on Windows and/or in return statement) created by
- […]
- 5:17 PM Ticket #10087 (Crash closing volume viewer window) closed by
- can't reproduce: Hi Gillian, If it happens again, try the ChimeraX daily build (or the …
- 5:08 PM ChangeLog edited by
- (diff)
- 4:57 PM Ticket #10100 (Open forEachFile fails if file names contain spaces) closed by
- fixed: Fixed. The option opened the file by running the user command open …
- 4:54 PM Ticket #10100 (Open forEachFile fails if file names contain spaces) created by
- […]
- 4:40 PM Ticket #10099 (Unable to restore objects of NewerVersionQuery class) closed by
- duplicate: Duplicate of #9924
- 4:34 PM Ticket #10098 (DockPrep not catching ChargeError) closed by
- duplicate: Duplicate of #9960
- 4:04 PM Ticket #10097 (Crash loading toolshed) closed by
- can't reproduce
- 3:44 PM Ticket #10099 (Unable to restore objects of NewerVersionQuery class) created by
- […]
- 3:33 PM Dev2023-11-6 edited by
- (diff)
- 3:11 PM Dev2023-11-6 edited by
- (diff)
- 3:01 PM Ticket #8798 (ChimeraX hangs at startup checking for updates) closed by
- fixed: Fixed. ChimeraX was hanging checking for newer versions. Which it …
- 2:46 PM Ticket #10090 (QKeyEvent in drag/drop code) closed by
- duplicate: This appears to be a Qt bug. It has been reported twice before #9712 …
- 2:41 PM Ticket #10091 (Crash swapping buffers after 'clip' command) closed by
- can't reproduce: Probably Mesa graphics crash.
- 2:36 PM Ticket #10094 (Cannot download AlphaFold model) closed by
- fixed: Fixed. Since jaxlib depends on CUDA and the CUDA version gets updated …
- 1:13 PM Ticket #10095 (Restore new session in old ChimeraX) closed by
- limitation
- 1:11 PM Ticket #10093 (Crash in event loop) closed by
- can't reproduce
- 1:10 PM Ticket #10092 (Crash showing Rapid Access at startup) closed by
- can't reproduce
- 1:07 PM Ticket #10098 (DockPrep not catching ChargeError) created by
- […]
- 1:07 PM 2023-11-9 created by
- 1:06 PM 2023-11-2 created by
- 1:02 PM DeveloperMeetings edited by
- (diff)
- 1:01 PM Dev2023-11-6 created by
- 1:00 PM Dev2023-10-30 edited by
- (diff)
- 12:58 PM DeveloperMeetings edited by
- (diff)
- 12:57 PM Ticket #10089 (Crash using File→Open dialog on Windows and/or returning from function) closed by
- can't reproduce: 1.3
- 12:43 PM Ticket #10096 (Allow setting initial volume colors) closed by
- fixed: Done. I added the initialColors option to the volume command and the …
- 12:40 PM Ticket #10097 (Crash loading toolshed) created by
- […]
- 12:39 PM Ticket #10096 (Allow setting initial volume colors) created by
- From: James Hooker via ChimeraX-users <chimerax-users@…> …
- 11:49 AM Ticket #10088 (color by conservation problem) closed by
- duplicate: Asked and answered on the chimerax-users list.
- 8:27 AM Ticket #10095 (Restore new session in old ChimeraX) created by
- […]
- 8:03 AM Ticket #10094 (Cannot download AlphaFold model) created by
- […]
- 4:19 AM Ticket #10093 (Crash in event loop) created by
- […]
- 2:51 AM Ticket #10092 (Crash showing Rapid Access at startup) created by
- […]
- 2:15 AM Ticket #10091 (Crash swapping buffers after 'clip' command) created by
- […]
- 1:30 AM Ticket #10090 (QKeyEvent in drag/drop code) created by
- […]
Nov 5, 2023:
- 2:58 PM Ticket #10089 (Crash using File→Open dialog on Windows and/or returning from function) created by
- […]
- 8:12 AM Ticket #10088 (color by conservation problem) created by
- […] [[Image(...)]]
Nov 3, 2023:
- 8:36 PM Ticket #10087 (Crash closing volume viewer window) created by
- […]
- 7:34 PM Ticket #10086 (fly command does not interpolate clip planes) created by
- On Nov 3, 2023, at 7:43 AM, Sean Connell via ChimeraX-users …
- 7:33 PM Ticket #4551 (Weird shadows during 'fly') closed by
- fixed
- 7:29 PM Ticket #10085 (mseries with negative step: NameError: name 'models' is not defined) closed by
- fixed: Fixed. The mseries code was clearly intended to work with negative …
- 7:17 PM Ticket #10085 (mseries with negative step: NameError: name 'models' is not defined) created by
- […]
- 6:55 PM Ticket #10084 (Allow surface zone command to hide surface near atoms) created by
- From: Rayees Mattoo via ChimeraX-users <chimerax-users@…> …
- 6:29 PM Ticket #10081 (Qt panels not displaying) closed by
- nonchimerax: None of the Qt window toolkit buttons or menus are showing. That is a …
- 5:16 PM Ticket #10082 (About ChimeraX-Toolshed) closed by
- fixed: Hi, Until a couple of hours ago, our compute cluster was down and …
- 5:01 PM Ticket #10083 (Crash at startup) created by
- […]
- 4:17 PM Ticket #10082 (About ChimeraX-Toolshed) created by
- […]
- 4:17 PM Ticket #10081 (Qt panels not displaying) created by
- […] ChimeraX Error.png
- 4:17 PM Ticket #10080 (ChimeraX ToolShed doesn't open) created by
- […]
Oct 27, 2023:
- 1:05 PM Ticket #10078 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by
- duplicate: Hi David, Thanks for reporting this problem. This is a bug in the Qt …
- 1:01 PM Ticket #10077 (Crash after rmf readtraj) closed by
- duplicate: Probable duplicate of #8614
- 12:40 PM Ticket #10079 (Colors of exported GLTF models don't match ChimeraX colors) created by
- […]
- 12:17 PM Ticket #10078 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by
- […]
- 12:14 PM Ticket #10077 (Crash after rmf readtraj) created by
- […]
- 12:05 PM Ticket #10076 (VRML output for 3D color printers) created by
- […] [[Image(...)]]
- 11:59 AM Ticket #10075 (Add center or translate mouse mode) closed by
- fixed
- 11:56 AM Ticket #10075 (Add center or translate mouse mode) created by
- From: Daniel Larsson via ChimeraX-users <chimerax-users@…> …
- 11:31 AM Ticket #10072 ('StrandPlank' object has no attribute '_straight_tilt') closed by
- not a bug: Not sure how you found this modeStrand option of the cartoon style …
- 11:23 AM Ticket #10070 (ESMFold: SSL: CERTIFICATE_VERIFY_FAILED unable to get local issuer ...) closed by
- duplicate: ESMFold server problem is already reported and we will remove ESMFold …
- 11:22 AM Ticket #10074 (Updating list of available bundles failed: [SSL: ...) created by
- Copied from ticket #10070: The following bug report has been …
- 11:11 AM Ticket #10073 (Graphics crash, macOS 12.5.1, Intel Iris Plus Graphics 645) closed by
- nonchimerax: Apple Intel graphics driver crash. Unfortunately Apple Intel graphics …
- 11:03 AM Ticket #10071 (Graphics crash, macOS 11.7.6, Intel UHD Graphics 617) closed by
- nonchimerax: Apple Intel graphics driver crash.
- 5:45 AM Ticket #10073 (Graphics crash, macOS 12.5.1, Intel Iris Plus Graphics 645) created by
- […]
- 3:57 AM Ticket #10072 ('StrandPlank' object has no attribute '_straight_tilt') created by
- […]
Oct 26, 2023:
- 4:14 PM Ticket #9861 (Clipper installation) closed by
- duplicate: I believe this is essentially a duplicate of #9877. And is resolved …
- 4:10 PM 2023-10-26 edited by
- (diff)
- 3:59 PM Ticket #10052 (Plugin install / uninstall problems) closed by
- fixed: This should be fixed in the next daily build (Oct 27 or later).
- 3:58 PM Ticket #9877 (Cannot uninstall bundle) closed by
- fixed: Stopped using "python -I" and instead fix up environment so …
- 3:54 PM NIAID2023 edited by
- (diff)
- 3:48 PM Ticket #9255 (Installing bundle nukes Tools menu) closed by
- fixed: Used to update the Tools menu by creating a new menu and replacing the …
- 3:48 PM Ticket #9873 (Installed version number not updated) closed by
- duplicate: I think this is a duplicate of #9877. Since uninstalls were not …
- 3:07 PM Ticket #9255 (Installing bundle nukes Tools menu) reopened by
- I can still reproduce this behavior. The Tools menu is entirely …
- 3:00 PM Ticket #9985 (Computing sequence conservation: OSError: [Errno 12] Cannot allocate memory) closed by
- can't reproduce: I can't reproduce this on an Ubuntu 22.04 system. I guess I suggest …
- 2:24 PM Ticket #10067 (AlphaFold: Downloaded prediction file not found) closed by
- fixed: Fixed. It appears Google Colab updated CUDA from version 11.x to …
- 2:09 PM NIAID2023 edited by
- (diff)
- 1:55 PM NIAID2023 edited by
- (diff)
- 1:26 PM Ticket #10071 (Graphics crash, macOS 11.7.6, Intel UHD Graphics 617) created by
- […]
- 11:08 AM Ticket #10070 (ESMFold: SSL: CERTIFICATE_VERIFY_FAILED unable to get local issuer ...) created by
- […]
- 10:30 AM Ticket #10069 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by
- duplicate
- 10:28 AM Ticket #10068 (Qt fatal error) closed by
- can't reproduce: Hi Deepak, Thanks for reporting this problem. Try upgrading to the …
- 3:28 AM Ticket #10069 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by
- […]
- 3:07 AM Ticket #10068 (Qt fatal error) created by
- […]
- 2:07 AM Ticket #10067 (AlphaFold: Downloaded prediction file not found) created by
- […]
Oct 25, 2023:
- 11:06 PM Ticket #9876 (Installing a bundle reports "No bundles were installed") closed by
- fixed: Removing the warning, that pip was out of date, also removed the …
- 6:46 PM Ticket #9255 (Installing bundle nukes Tools menu) closed by
- can't reproduce: Can't reproduce on Windows with daily build. Please confirm on macOS.
- 2:16 PM Ticket #10063 (Unknown crash) closed by
- can't reproduce: Thanks for letting us know. --Eric
- 11:43 AM Ticket #10066 (ISOLDE: stop sim: 'AdaptiveDistanceRestraintMgr' object has no ...) created by
- […]
- 11:40 AM Ticket #10065 (Dependencies wrong to bundles with multiple architectures) created by
- […] Just noticed what looks like a bug in the Tool Shed while …
- 11:39 AM Ticket #10064 (Toolshed cannot delete distribution if another toolshed tool depends on it) created by
- Tristan noted that he cannot delete the Clipper 0.15 linux …
- 11:32 AM Ticket #10055 (Graphics crash, macOS 12.6.2, Intel Iris Graphics 550) closed by
- nonchimerax: Apple Intel graphics driver crash.
- 10:51 AM Ticket #10062 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by
- duplicate: Hi Esther, Thanks for reporting this problem. This is a bug in the Qt …
- 10:44 AM Ticket #10060 (save_pdb() call fails) closed by
- nonchimerax: Hi Dominik, The error you are getting implies that the second …
- 10:34 AM Ticket #10059 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by
- duplicate
- 10:33 AM Ticket #10058 (Crash in atom-spec parsing) closed by
- can't reproduce: Probable duplicate of #4842
- 10:31 AM Ticket #10057 (Crash in atom-spec parsing) closed by
- can't reproduce: Probable duplicate of #4842
- 10:16 AM Ticket #10063 (Unknown crash) created by
- […]
- 7:32 AM Ticket #10062 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by
- […]
- 7:31 AM Ticket #10061 (XMAS: could not convert string to float) created by
- […]
- 6:15 AM Ticket #10060 (save_pdb() call fails) created by
- […]
- 2:10 AM Ticket #10059 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by
- […]
Oct 24, 2023:
- 8:30 PM Ticket #10058 (Crash in atom-spec parsing) created by
- […]
- 7:45 PM Ticket #10057 (Crash in atom-spec parsing) created by
- […]
- 3:06 PM Dev2023-10-24 created by
- 3:03 PM DeveloperMeetings edited by
- (diff)
- 1:50 PM Ticket #9993 (Crash in coulombic in assign_charges()) closed by
- can't reproduce: Crash is in "for o_a, c_a in zip(struct.atoms, charged_struct.atoms):" …
- 1:26 PM Ticket #10056 (ESMFold: unable to get local issuer certificate) created by
- […]
- 12:53 PM Ticket #10055 (Graphics crash, macOS 12.6.2, Intel Iris Graphics 550) created by
- […]
- 11:31 AM Dev2023-10-30 created by
- 11:31 AM Ticket #10004 (Reading SDF file: atoms[index].charge = charge IndexError: list ...) closed by
- fixed: Yes, the charge section of the file has indices for atoms that don't …
- 11:30 AM 2023-10-26 created by
- 11:29 AM 2023-10-19 edited by
- (diff)
- 11:20 AM DeveloperMeetings edited by
- (diff)
- 9:59 AM Ticket #10054 ("turn" arguments) closed by
- not a bug: Hi Kirill, "turn x 1 45" means turn around the X axis by 1 degree for …
- 9:54 AM Ticket #10053 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by
- duplicate
- 7:39 AM Ticket #10054 ("turn" arguments) created by
- […]
- 1:22 AM Ticket #10053 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by
- […]
Oct 23, 2023:
- 5:50 PM Ticket #10007 (Session files get larger on each save) closed by
- fixed: Hi Dror, Though that second session doesn't get anywhere near 400 MB …
- 4:16 PM Dev2023-10-23 edited by
- (diff)
- 2:58 PM Ticket #10052 (Plugin install / uninstall problems) created by
- […]
- 1:47 PM Ticket #9332 (Support multimask segmentations) closed by
- fixed: Added some code to the SeriesFile class to try and detect multimask …
- 12:00 PM ChangeLog edited by
- (diff)
- 11:53 AM Ticket #10047 (Dead volume model (self.session is None) in session.selection) closed by
- fixed: Fixed. Made the code that remembers selection promotions and …
- 11:53 AM ChangeLog edited by
- (diff)
- 11:39 AM Ticket #10046 (glDrawBuffer(GL_BACK): invalid operation, Linux) closed by
- can't reproduce: Have seen this many times, only on Linux. Maybe it invalidates the …
- 11:30 AM Ticket #10051 (Add PDB-REDO to fetch by id to get x-ray maps) created by
- From: Oliver Clarke via ChimeraX-users <chimerax-users@…> …
- 11:27 AM Ticket #10050 (Allow specifying that a map is a difference map when opening) closed by
- fixed: Done. Added the "difference" option when opening map files to the …
- 11:26 AM Ticket #10050 (Allow specifying that a map is a difference map when opening) created by
- From: Francisco Murphy Pérez via ChimeraX-users …
- 11:22 AM Ticket #10049 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by
- duplicate
- 11:06 AM Ticket #10044 (No space left on device) closed by
- duplicate
- 11:06 AM Ticket #10043 (No space left on device) closed by
- duplicate
- 11:05 AM Ticket #10042 (No space left on device) closed by
- nonchimerax: Hi Ruchi, All these problems you've reported saving sessions and …
- 10:40 AM Ticket #10041 ('PickedPseudobond' object has no attribute 'group') closed by
- duplicate
- 10:37 AM Ticket #10040 (Basic Actions: 'QEventLoop' object has no attribute 'exec_') closed by
- duplicate
- 10:33 AM Ticket #10039 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by
- duplicate
- 10:30 AM Ticket #10037 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by
- duplicate
- 10:10 AM Ticket #10049 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by
- […]
- 6:58 AM Ticket #10048 (ArtiaX: session save: Unknown class name 'Tomogram') created by
- […]
- 5:50 AM Ticket #10047 (Dead volume model (self.session is None) in session.selection) created by
- […]
- 4:26 AM Ticket #10046 (glDrawBuffer(GL_BACK): invalid operation, Linux) created by
- […]
- 3:06 AM Ticket #10045 (MemoryError opening mmCIF) created by
- […]
Oct 22, 2023:
- 11:02 PM Ticket #10044 (No space left on device) created by
- […]
- 10:54 PM Ticket #10043 (No space left on device) created by
- […]
- 10:51 PM Ticket #10042 (No space left on device) created by
- […]
- 2:09 PM Ticket #10041 ('PickedPseudobond' object has no attribute 'group') created by
- […]
- 8:05 AM Ticket #10040 (Basic Actions: 'QEventLoop' object has no attribute 'exec_') created by
- […]
- 1:17 AM Ticket #10039 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by
- […]
Oct 21, 2023:
- 2:33 PM Ticket #10038 (MemoryError opening mmCIF) created by
- […]
- 2:21 AM Ticket #10037 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by
- […]
Oct 20, 2023:
- 4:36 PM Ticket #10036 (Add programming documentation on how to include PyPi dependencies in a ...) created by
- On Oct 20, 2023, at 4:58 AM, Vincent Mallet via ChimeraX-users …
- 4:12 PM Ticket #10034 (Graphics crash, macOS 13.3.1, Intel Iris Plus Graphics) closed by
- nonchimerax: Apple Intel graphics driver crash.
- 2:28 PM Ticket #10008 (Reading PDB file: UnicodeDecodeError: 'utf-8' codec can't decode byte ...) closed by
- can't reproduce: Yeah, ChimeraX already tries UTF-8, -16, and -32 automatically, so …
- 12:37 PM Ticket #10035 (Add tests to DICOM) created by
- I had to revert two commits recently that fixed some TCIA datasets so …
- 12:25 PM Ticket #10034 (Graphics crash, macOS 13.3.1, Intel Iris Plus Graphics) created by
- […]
- 11:44 AM Ticket #10030 (Graphics crash, macOS 13.0.1, Intel Iris Plus Graphics 655) closed by
- nonchimerax: Apple Intel graphics driver crash.
- 11:40 AM Ticket #10029 (Map filter: Cannot cast ufunc 'clip' output) closed by
- fixed: Fixed. The volume scale command produces a float32 array and then …
- 11:16 AM Dev2023-10-23 edited by
- (diff)
- 11:14 AM Ticket #10033 (Sequence feature browser: invalid result from ...) closed by
- duplicate
- 10:11 AM Ticket #10032 (MatchMaker: 'NoneType' object has no attribute 'setChecked') closed by
- duplicate
- 10:07 AM Ticket #10033 (Sequence feature browser: invalid result from ...) created by
- […]
- 10:00 AM Ticket #10028 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) closed by
- duplicate
- 7:44 AM Ticket #10032 (MatchMaker: 'NoneType' object has no attribute 'setChecked') created by
- […]
- 4:35 AM Ticket #10031 (XMAS 1.1.2: this version of pandas is incompatible with numpy < 1.22.4) created by
- […]
- 1:28 AM Ticket #10030 (Graphics crash, macOS 13.0.1, Intel Iris Plus Graphics 655) created by
- […]
- 12:54 AM Ticket #10029 (Map filter: Cannot cast ufunc 'clip' output) created by
- […]
Oct 19, 2023:
- 5:16 PM Ticket #10028 (Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device ...) created by
- […]
- 5:15 PM Ticket #8522 (Crash opening mmCIF on Linux) closed by
- duplicate: I believe this is the memory bug in the mmCIF reader that is fixed in …
- 4:37 PM Ticket #9897 (bundle_tutorial.zip broken) closed by
- fixed: Fixed. Need to update script to Python 3.
- 4:27 PM Ticket #3684 (mmCIF memory leak) closed by
- fixed: Duplicate of #8815.
- 4:26 PM Ticket #9034 (MemoryError open mmCIF) closed by
- duplicate: Duplicate of #8815.
- 4:12 PM Tickets #8847,8851,8897,8935,9014,9113,9132,9137,9150,9159,9163,9165,9181,9182,9201,9202,9203,9250,9251,9264,9285,9293,9335,9436,9444,9472,9476,9520,9531,9667,9670,9768,9777,9809,9888,9895,9899,10020 batch updated by
- duplicate: Duplicated of #8815.
- 3:59 PM Ticket #9924 (Unable to restore objects of NewerVersionQuery class) closed by
- fixed: Starting in daily builds from today and in the release, ChimeraX will …
- 3:23 PM Ticket #10023 (Crash calculating contour surface) closed by
- can't reproduce: This ChimeraX bug report says "Python aborted". That usually is …
- 3:07 PM Ticket #10027 (Installing a python module at plugin start/load) created by
- This might not be a bug but it is definitely an email for the …
- 10:08 AM Ticket #9995 (TOML documentation out of date) closed by
- fixed: Fixed the …
- 9:45 AM Ticket #10022 (RFE: coulombic option to force charge recalculation) reopened by
- Nonetheless, there probably should be an option for these rare use cases.
- 9:42 AM Ticket #10026 (Restore new session in old ChimeraX) closed by
- limitation: Hi Pradip, Although you can restore old sessions in newer versions of …
- 9:38 AM Ticket #10025 (Unknown problem) closed by
- can't reproduce
- 9:35 AM Ticket #10024 (Crash using File→Open on Windows and/or in return statement) closed by
- can't reproduce: 1.3
- 9:32 AM Ticket #10022 (RFE: coulombic option to force charge recalculation) closed by
- not a bug: Hi Tristan, If coulombic sees that all relevant atoms have a 'charge' …
- 9:18 AM Ticket #10021 (ISOLDE: swap_equivalent_atoms: different number of atoms being swapped) closed by
- duplicate: This should be fixed if you upgrade to ISOLDE 1.6 (by updating …
- 9:06 AM Ticket #10019 (MemoryError opening mmCIF files) closed by
- duplicate
- 9:04 AM Ticket #10016 (Restore new session in old ChimeraX) closed by
- limitation
- 8:22 AM Ticket #10026 (Restore new session in old ChimeraX) created by
- […]
- 7:54 AM Ticket #10025 (Unknown problem) created by
- […]
- 7:21 AM Ticket #10024 (Crash using File→Open on Windows and/or in return statement) created by
- […]
- 5:25 AM Ticket #10023 (Crash calculating contour surface) created by
- […]
- 4:52 AM Ticket #10022 (RFE: coulombic option to force charge recalculation) created by
- […]
- 2:09 AM Ticket #10021 (ISOLDE: swap_equivalent_atoms: different number of atoms being swapped) created by
- […]
- 12:49 AM Ticket #10020 (MemoryError opening mmCIF files) created by
- […]
- 12:42 AM Ticket #10019 (MemoryError opening mmCIF files) created by
- […]
Oct 18, 2023:
- 3:45 PM Ticket #10018 (Improve AlphaFold Error Plot guessing the PAE file to use) closed by
- fixed: Done. Allowed names shorter than 6 characters to match and names that …
- 3:42 PM Ticket #10018 (Improve AlphaFold Error Plot guessing the PAE file to use) created by
- […]
- 2:39 PM Ticket #10015 (Saving DICOM orthoplane display as GLTF fails) closed by
- fixed: Fixed. PIL.Image.fromarray() does not work with a numpy array of …
- 2:37 PM Ticket #10014 (Saving DICOM plane as GLTF produces black rectangle) closed by
- fixed: Fixed. The GLTF code was using the data value texture and ignoring …
- 1:48 PM Ticket #10017 (Better separation between BLAST jobs and the GUI) created by
- From Tom: I was trying to BLAST 31 protein sequences today using some …
- 1:38 PM Ticket #9720 (Segmentations: slice view drawings should be unrelated to 3D view drawings) closed by
- fixed: Made the slice viewers use different drawings than the main view that …
- 1:37 PM Ticket #10009 (ValueError: error processing: 'tasks' -> : Unable to restore objects ...) closed by
- duplicate: Duplicates #9924
- 1:08 PM Ticket #10016 (Restore new session in old ChimeraX) created by
- […]
- 12:25 PM Ticket #10015 (Saving DICOM orthoplane display as GLTF fails) created by
- […]
- 12:23 PM Ticket #10014 (Saving DICOM plane as GLTF produces black rectangle) created by
- […]
- 12:10 PM Ticket #10013 (Crash in Qt event loop: QPainter::begin: Paint device returned engine ...) closed by
- duplicate
- 12:03 PM Ticket #10010 (Failed opening session: H5F_open unable to read superblock) closed by
- can't reproduce: It's not clear why the HDF5 library failed reading an hdf5 file …
- 11:36 AM Ticket #10006 (Crash in Qt event loop after opening AlphaFold model, Linux possible ...) closed by
- can't reproduce: Not any info to diagnose problem. DISPLAY=:1 instead of :0 so maybe …
- 11:33 AM Ticket #10013 (Crash in Qt event loop: QPainter::begin: Paint device returned engine ...) created by
- […]
- 11:33 AM Ticket #9980 (ChimeraX will not start on Mac Studio 2022 in Sonoma) closed by
- fixed: Fixed. The problem was the ui-1 setting file which says the last …
- 11:32 AM Ticket #10012 (Startup crash on macOS Sonoma) closed by
- fixed: Fixed. I put in some safety code to limit the initial window width …
- 10:57 AM Ticket #10012 (Startup crash on macOS Sonoma) created by
- […]
- 9:39 AM Ticket #10011 (Crash opening MTZ file: clipper/maps/xmapset.py", line 450 in ...) created by
- […]
- 7:40 AM Ticket #10010 (Failed opening session: H5F_open unable to read superblock) created by
- […]
Oct 17, 2023:
- 2:01 PM Ticket #10009 (ValueError: error processing: 'tasks' -> : Unable to restore objects ...) created by
- […]
- 1:38 PM Ticket #10001 (Clip plane motion problem) closed by
- fixed
- 1:38 PM Ticket #10001 (Clip plane motion problem) reopened by
- Fixed. Thanks for the detailed steps. The rotation between the two …
- 1:27 PM Ticket #10008 (Reading PDB file: UnicodeDecodeError: 'utf-8' codec can't decode byte ...) created by
- […]
- 1:14 PM Ticket #10007 (Session files get larger on each save) created by
- […] LH2 5HB for design.cxs
- 12:57 PM Ticket #10006 (Crash in Qt event loop after opening AlphaFold model, Linux possible ...) created by
- […]
- 12:51 PM Dev2023-10-23 created by
- 12:50 PM 2023-10-19 created by
- 12:48 PM DeveloperMeetings edited by
- (diff)
- 12:24 PM Ticket #10003 (Give better error message when AlphaFold prediction download fails) closed by
- fixed: Done. Gave error message suggesting how to recover the results.zip file.
- 12:22 PM Ticket #10005 (Render by attribute: TypeError: object of type 'function' has no len()) closed by
- duplicate
- 12:20 PM Ticket #9984 (Render by attribute histogram error: TypeError: object of type ...) closed by
- duplicate: Fixed 3 months ago #9328
- 12:10 PM Ticket #10002 (Crash in QTabBar::paintEvent(QPaintEvent*)) closed by
- duplicate
- 12:09 PM Ticket #10001 (Clip plane motion problem) closed by
- worksforme: I set the near plane with the side view, then "view name p1", then …
- 12:02 PM Ticket #10005 (Render by attribute: TypeError: object of type 'function' has no len()) created by
- […]
- 12:02 PM Ticket #10000 (Clip planes don't move smoothly between named views) closed by
- worksforme: Elaine, maybe it is worth adding to the documentation that when …
- 11:42 AM Ticket #10004 (Reading SDF file: atoms[index].charge = charge IndexError: list ...) created by
- […] rank1_confidence-0.69.sdf
- 11:39 AM Ticket #10003 (Give better error message when AlphaFold prediction download fails) created by
- […]
- 12:48 AM Ticket #9557 (Registration server unavailable) closed by
- can't reproduce: My guess is that this is an issue with the NIH's firewall. Or maybe a …
- 12:22 AM Ticket #9178 (Accepting a new Toolshed bundle appears to hang with circling arrows icon) closed by
- fixed: Bug was due to incomplete switch to Django 4. Replaced …
- 12:19 AM Ticket #8815 (mmCIF reading causing "not enough memory" error) closed by
- fixed: There was a memory leak in the code that read CIF tables as text …
- 12:15 AM Ticket #8827 (Out of memory after opening small mmCIF 7phr on Mac. Also ssl ...) closed by
- duplicate: The out of memory bug is a duplicate of #8815 and is fixed in the …
Oct 16, 2023:
- 10:53 PM Ticket #10002 (Crash in QTabBar::paintEvent(QPaintEvent*)) created by
- […]
- 4:27 PM Dev2023-10-16 edited by
- (diff)
- 4:21 PM Ticket #8818 (Read mmCIF: not enough memory) closed by
- duplicate: We believe this bug the same as #8815 and is fixed in the daily build.
- 3:41 PM ChangeLog edited by
- (diff)
- 2:06 PM Ticket #10001 (Clip plane motion problem) created by
- […]
- 1:57 PM Ticket #10000 (Clip planes don't move smoothly between named views) created by
- […]
- 1:08 PM Ticket #9999 (BlastProtein returns more results than the 100 maximum requested) created by
- […]
- 11:54 AM Ticket #9991 (ChimeraX hangs saving file on macOS Sonoma) closed by
- duplicate: Reporter provided more details in #9994.
- 11:51 AM Ticket #9998 (AlphFold Error Plot: TypeError: expected str, bytes or os.PathLike ...) closed by
- fixed: Fixed. The AlphaFold Error Plot Browse button was trying to set the …
- 11:45 AM Ticket #9997 (Crashed in QTabBar::paintEvent()) closed by
- duplicate
- 11:40 AM Ticket #9996 (view command not doing smooth zoom) closed by
- not a bug
- 11:26 AM Ticket #9992 (ChimeraX bug report submission) closed by
- nonchimerax
- 11:15 AM Ticket #9989 (Movie recording failed: OSError: [Errno 28] No space left on device) closed by
- nonchimerax
- 11:12 AM Ticket #9988 (Graphics crash, macOS 13.4, Intel Iris Plus Graphics 655) closed by
- nonchimerax
- 11:11 AM Ticket #9987 (ChimeraX bug report submission) closed by
- not a bug
- 11:06 AM Ticket #9986 (Render by attribute: TypeError: object of type 'function' has no len()) closed by
- duplicate: Same report as #9984.
- 10:56 AM Ticket #9998 (AlphFold Error Plot: TypeError: expected str, bytes or os.PathLike ...) created by
- […]
- 9:16 AM Ticket #9997 (Crashed in QTabBar::paintEvent()) created by
- […]
- 8:26 AM Ticket #9996 (view command not doing smooth zoom) created by
- […]
- 7:23 AM Ticket #9995 (TOML documentation out of date) created by
- […]
- 6:50 AM Ticket #9994 (ChimeraX hangs saving a session, macOS Sonoma) created by
- […]
- 12:30 AM Ticket #9993 (Crash in coulombic in assign_charges()) created by
- […]
Oct 15, 2023:
- 8:30 PM Ticket #9992 (ChimeraX bug report submission) created by
- […]
- 12:43 PM Ticket #9991 (ChimeraX hangs saving file on macOS Sonoma) created by
- […]
- 12:41 PM Ticket #9990 (Error opening zero-length session file in DropBox) created by
- […]
- 5:23 AM Ticket #9989 (Movie recording failed: OSError: [Errno 28] No space left on device) created by
- […]
- 4:19 AM Ticket #9988 (Graphics crash, macOS 13.4, Intel Iris Plus Graphics 655) created by
- […]
Note:
See TracTimeline
for information about the timeline view.
