![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Timeline
May 20, 2021:
- 11:55 PM Ticket #4664 (Please change the CentOS rpm so that it installs in other locations easily) reopened by
- ISOLDE needs a production release, not a daily release. I will …
- 8:31 PM Ticket #4679 (Crash initially showing Rapid Access) created by
- […]
- 7:54 PM Ticket #4678 (Large alignment performance) created by
- […]
- 7:38 PM Ticket #4677 (Unknown crash) created by
- […]
- 7:13 PM ChangeLog edited by
- (diff)
- 7:08 PM Ticket #4505 (Read PSF+DCD combo directly) closed by
- fixed: Tomorrow's daily build will support the command "open <PSF file> …
- 5:22 PM Ticket #4671 (Black screen) closed by
- can't reproduce: I tested on an iMac18.3 removing ~/Library/Application …
- 4:54 PM NTTData edited by
- (diff)
- 4:52 PM NTTData edited by
- (diff)
- 4:35 PM Ticket #4676 (color byattribute colors residues even if no residue atom has an ...) created by
- […]
- 4:24 PM 2021-5-20 edited by
- (diff)
- 4:05 PM Ticket #4675 (tape measure using closed model) closed by
- duplicate: Duplicate of #3457
- 2:39 PM ChangeLog edited by
- (diff)
- 2:00 PM NTTData edited by
- (diff)
- 1:48 PM NTTData edited by
- (diff)
- 1:36 PM NTTData edited by
- (diff)
- 1:21 PM NTTData edited by
- (diff)
- 1:12 PM NTTData edited by
- (diff)
- 12:04 PM 2021-5-20 edited by
- (diff)
- 11:42 AM Ticket #4675 (tape measure using closed model) created by
- […]
- 11:39 AM 2021-5-20 edited by
- (diff)
- 11:06 AM 2021-5-20 edited by
- (diff)
- 11:02 AM 2021-5-20 edited by
- (diff)
- 10:57 AM Ticket #4667 (Crash during garbage collection) closed by
- can't reproduce: Yep, tried various monkeyshines with iterators and bupkis.
- 10:44 AM Ticket #4668 (Color by attribute traceback for unknown attribute) closed by
- fixed: The Structure class wasn't registering its builtin attributes …
- 10:02 AM 2021-5-20 edited by
- (diff)
- 9:13 AM Ticket #4673 (Error in toolshed error message) closed by
- duplicate
- 9:11 AM Ticket #4672 (Reload files) closed by
- fixed: Good idea -- but we thought of it first! :-) --Eric
- 6:23 AM Ticket #4674 (Error in session restore: unhashable type: 'dict') created by
- […] masterfileChimeraX.cxs
- 6:04 AM Ticket #4673 (Error in toolshed error message) created by
- […]
- 2:03 AM Ticket #4672 (Reload files) created by
- […]
- 2:01 AM Ticket #4671 (Black screen) created by
- […]
May 19, 2021:
- 8:44 PM Ticket #4670 (Replace OpenGL rendering with Vulkan or other modern 3D graphics library) created by
- Might consider switching from OpenGL to Vulkan graphics. On macOS we …
- 8:26 PM Ticket #4669 (Graphics crash, macOS 10.15.7, Radeon Pro Vega 20, small map) closed by
- can't reproduce: It looks like the only new observation I get from this crash is that …
- 6:48 PM Ticket #4669 (Graphics crash, macOS 10.15.7, Radeon Pro Vega 20, small map) created by
- […] Screen Shot 2021-05-19 at 6.44.23 PM.png
- 6:16 PM Ticket #4668 (Color by attribute traceback for unknown attribute) created by
- […]
- 12:28 PM Ticket #4667 (Crash during garbage collection) created by
- […]
- 10:30 AM Ticket #4666 (Graphics crash, macOS 10.15.7, Radeon Pro 580X, report 2) closed by
- can't reproduce: Apple graphics driver crash. I suspect volume contour level was being …
- 9:11 AM Ticket #4666 (Graphics crash, macOS 10.15.7, Radeon Pro 580X, report 2) created by
- […]
May 18, 2021:
- 11:15 PM ChangeLog edited by
- (diff)
- 11:08 PM Ticket #3237 (nucleotides disconnected) closed by
- fixed: This is finally fixed in the daily build. And will be in the next 1.2 …
- 11:05 PM Ticket #4664 (Please change the CentOS rpm so that it installs in other locations easily) closed by
- fixed: Okay, the next ChimeraX daily build's rpm will be relocatable. You …
- 6:11 PM Ticket #4665 (RFE: matchmaker "reportMatrix" option) created by
- It would be very useful for people comparing domain rotations and such …
- 5:30 PM Ticket #4664 (Please change the CentOS rpm so that it installs in other locations easily) created by
- By the way, can you provide an install package for RH7/8 which can be …
- 10:10 AM Ticket #4663 (Make native Apple M1 CPU distribution) created by
- Apple is replacing Intel CPUs in all machines with ARM cpus. Already …
- 10:00 AM 2021-5-20 edited by
- (diff)
- 9:59 AM 2021-5-20 created by
- 9:57 AM DeveloperMeetings edited by
- (diff)
- 8:31 AM Ticket #4662 (Coulombic failure due to unexpected hydrogen name) closed by
- duplicate
- 3:01 AM Ticket #4662 (Coulombic failure due to unexpected hydrogen name) created by
- […]
May 17, 2021:
- 6:33 PM Ticket #4661 (Update to Python 3.9) created by
- For the ChimeraX 1.3 release we probably should update from Python 3.8 …
- 5:36 PM Ticket #4644 (AddCharge: Ng+ charges) closed by
- fixed: Changed and simplified the charge estimation code for guanidinium groups.
- 3:44 PM Ticket #4587 (Python shell: ERROR:tornado.general:Uncaught exception in zmqstream ...) closed by
- fixed: The updated versions seem functional under extremely limited testing. …
- 1:03 PM Ticket #4657 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 7, ...) closed by
- can't reproduce: Crash in opencl likely being used by openmm / isolde. Crash is in …
- 12:04 PM Ticket #4660 (Crash during dynamic linking under Rosetta emulation) closed by
- can't reproduce
- 12:02 PM Ticket #4659 (Setting file in use by another process) closed by
- duplicate: Hopefully fixed by embedding process IDs into the temp file names.
- 11:48 AM Ticket #4660 (Crash during dynamic linking under Rosetta emulation) created by
- […]
- 11:00 AM Ticket #4656 (Graphics crash, macOS 11.3.1, Radeon Pro 580X) closed by
- nonchimerax: ChimeraX crashed in the Mac graphics driver. Unfortunately Apple's …
- 10:58 AM Ticket #4659 (Setting file in use by another process) created by
- […]
- 10:54 AM Ticket #4655 (Graphics crash, macOS 11.3.1, Radeon Pro 580) closed by
- can't reproduce: Mac graphics driver crash when repainting a Qt widget 18 QtWidgets …
- 10:46 AM Ticket #4651 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 6) closed by
- can't reproduce: Crash in Mac graphics driver in QWidgetRepaintManager::flush(QWidget*, …
- 10:41 AM Ticket #4647 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 5, ...) closed by
- can't reproduce: Mac graphics driver crash in OpenMM, in thread 35. 27 …
- 10:38 AM Ticket #4646 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 4) closed by
- nonchimerax: Crashed in Mac graphics driver, repainting Qt widget, ~1 Gbyte of data …
- 10:25 AM Ticket #1938 (nucleotides tube selection not usable by commands) closed by
- fixed: Went with the whole ribose. The difference is that with the whole …
- 10:24 AM Ticket #4649 (ISOLDE: 'PositionRestraintMgr' object has no attribute '_c_pointer') closed by
- duplicate: User closed the model with a simulation running. I *will* eventually …
- 9:42 AM Ticket #4658 (OpenMMException: Error compiling kernel: Compile Server Error) created by
- […]
- 9:33 AM Ticket #4653 (Toolshed error in "already installed" error message) closed by
- duplicate
- 9:31 AM Ticket #4652 (KeyError in map menu) closed by
- duplicate: Hi Zoe, I'm fairly certain that this is fixed in the latest release …
- 9:26 AM Ticket #4650 (Toolshed error in "already installed" error message) closed by
- duplicate: Hi Jason, First off: what Tristan said. This error was trying to …
- 9:21 AM Ticket #4648 (Error in toolshed error message) closed by
- duplicate
- 9:16 AM Ticket #4645 (MD Viewer: could not broadcast input array from shape) closed by
- can't reproduce: Don't know what input file the user was using.
- 9:06 AM Ticket #4657 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 7, ...) created by
- […]
- 8:27 AM Ticket #4656 (Graphics crash, macOS 11.3.1, Radeon Pro 580X) created by
- […]
- 7:16 AM Ticket #4655 (Graphics crash, macOS 11.3.1, Radeon Pro 580) created by
- […]
May 16, 2021:
- 5:43 AM Ticket #4654 (ISOLDE: volumecommand.volume being passed session of None) created by
- […]
- 5:43 AM Ticket #4653 (Toolshed error in "already installed" error message) created by
- […]
May 15, 2021:
- 11:42 PM Ticket #3373 (Opening large RNA takes 90 seconds instead of 2 seconds due to ...) closed by
- fixed: Added a bunch of "tunable" thresholds to auto-styling to prevent …
- 9:31 PM Ticket #4652 (KeyError in map menu) created by
- […]
- 5:54 PM Ticket #4651 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 6) created by
- […]
- 4:31 PM Ticket #4650 (Toolshed error in "already installed" error message) created by
- […]
- 1:39 PM Ticket #4649 (ISOLDE: 'PositionRestraintMgr' object has no attribute '_c_pointer') created by
- […]
- 12:47 PM Ticket #4648 (Error in toolshed error message) created by
- […]
- 10:23 AM Ticket #4647 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 5, ...) created by
- […]
- 8:45 AM Ticket #4646 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 4) created by
- […]
- 6:39 AM Ticket #4645 (MD Viewer: could not broadcast input array from shape) created by
- […]
May 14, 2021:
- 11:55 PM Ticket #4552 (Help viewer: self.tabs.currentWidget() is None) closed by
- fixed
- 6:47 PM Ticket #2540 (chimerax don't start on windows 10) closed by
- worksforme
- 5:04 PM Ticket #4644 (AddCharge: Ng+ charges) created by
- […]
- 4:32 PM Ticket #4643 (Mayhem after screen removed?) closed by
- fixed: Fixed the first error (dividing by a screen width/height of zero) and …
- 4:03 PM Ticket #2547 (Have toolshed say "reinstall" for already installed bundles) closed by
- fixed: It will now say Install, Reinstall, Downgrade, or Upgrade, as appropriate.
- 3:59 PM Ticket #4011 (add ability to update bundle metadata of bundles in toolshed) closed by
- fixed: Added "manage.py update_works_with" management command.
- 3:54 PM Ticket #4261 (need to update search index after bundle is submitted) closed by
- fixed: Fixed with periodic script to update the index daily.
- 3:52 PM Ticket #4116 (prevent duplicate pending bundle submissions) closed by
- fixed: Done.
- 3:47 PM Ticket #3670 (chimerax 1.0 installation) closed by
- fixed: Fixed in ChimeraX 1.1.
- 1:55 PM Ticket #4638 (Crash stack overflow in grako) closed by
- can't reproduce: User used menu File / Open... and later Open toolbar button and both …
- 1:45 PM Ticket #4643 (Mayhem after screen removed?) created by
- […]
- 1:35 PM Ticket #4640 (socket.timeout reporting fetch progress) closed by
- fixed: Fixed. Made the code give a clear error message and no traceback on …
- 1:16 PM Ticket #4642 (consecutive atom specs) closed by
- limitation
- 1:16 PM Ticket #4642 (consecutive atom specs) reopened by
- 1:14 PM Ticket #4642 (consecutive atom specs) closed by
- fixed: Hi Tristan, Commands cannot have consecutive arguments that are atom …
- 12:27 PM Ticket #4642 (consecutive atom specs) created by
- […]
- 11:17 AM Ticket #4641 (Make command to replay volume morph simpler) created by
- […]
- 11:06 AM Ticket #4640 (socket.timeout reporting fetch progress) created by
- […]
- 10:25 AM Ticket #4637 (Crash showing rapid access) closed by
- can't reproduce
- 10:21 AM Ticket #4636 (HBonds tool not in tool-window list) closed by
- can't reproduce: May have been exacerbated by a bug that made showing the pseudobonds …
- 12:59 AM Ticket #4639 (bundle_builder ignoring MACOSX_DEPLOYMENT_TARGET) created by
- […]
- 12:19 AM Ticket #4631 ("bundle already installed" raising actual error) closed by
- fixed: Fixed.
May 13, 2021:
- 8:20 PM Ticket #4630 (Crash computing surface cap) closed by
- fixed: Maybe fixed. I changed border calculation code to handle triangle …
- 8:02 PM Ticket #4635 (volume series slider: list index out of range) closed by
- fixed: Fixed. The vseries slider command showed a slider even when no series …
- 6:46 PM Ticket #4638 (Crash stack overflow in grako) created by
- […]
- 5:34 PM Dev2021-5-13 edited by
- (diff)
- 5:32 PM 2021-5-13 edited by
- (diff)
- 5:32 PM 2021-5-13 edited by
- (diff)
- 5:32 PM Ticket #3885 (~sel wrong/unintuitive in some situations) closed by
- fixed: Monkeyed around with the highest layers of the parser so that …
- 5:20 PM Ticket #4637 (Crash showing rapid access) created by
- […]
- 2:41 PM Ticket #4636 (HBonds tool not in tool-window list) created by
- […]
- 12:53 PM Ticket #4617 (Specifier for picked atom may need to use serial number in some situations) closed by
- fixed: I'm going to close this on the presumption that once serial numbers …
- 11:11 AM Ticket #4635 (volume series slider: list index out of range) created by
- […]
- 9:25 AM Ticket #4634 (Toolshed dependencies listed incorrectly) created by
- […]
- 9:08 AM Ticket #4629 (Crash composing/flushing backing store) closed by
- can't reproduce
- 8:40 AM Ticket #4633 (RFE: side view zoom) created by
- […]
- 6:12 AM Ticket #4632 (Crash setting HtmlView contents) created by
- […]
May 12, 2021:
- 11:14 PM Ticket #4631 ("bundle already installed" raising actual error) created by
- […]
- 7:01 PM Ticket #4630 (Crash computing surface cap) created by
- […]
- 6:33 PM Ticket #4629 (Crash composing/flushing backing store) created by
- […]
- 1:58 PM Ticket #4628 (Boxy silhouettes in saved images) created by
- […]
- 1:26 PM Ticket #480 (maybe add "entity" (same molecular entity) operator to atomspecs) closed by
- fixed: After some mulling things over and discussion with Elaine, we elected …
- 10:15 AM Ticket #4627 (Surface Color tool: map is None) closed by
- fixed: Fixed. Surface Color tool gave a traceback when coloring by volume …
- 6:13 AM Ticket #4627 (Surface Color tool: map is None) created by
- […]
May 11, 2021:
- 5:36 PM 2021-4-29 edited by
- (diff)
- 5:33 PM Dev2021-5-13 created by
- 5:29 PM Dev2021-4-29 edited by
- (diff)
- 5:28 PM 2021-5-13 edited by
- (diff)
- 5:27 PM 2021-5-13 created by
- 5:25 PM DeveloperMeetings edited by
- (diff)
- 3:48 PM Ticket #4626 (Already-installed bundle raising error) created by
- […]
- 10:25 AM Ticket #4625 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by
- duplicate
- 10:18 AM Ticket #4624 (Graphics crash, macOS 10.14.6, Intel Iris Pro 6200) closed by
- nonchimerax: ChimeraX crashed in Apple's Intel graphics driver. Unfortunately …
- 10:10 AM Ticket #4621 (Graphics crash, macOS 10.15.7, Intel Iris Plus 645) closed by
- nonchimerax: Crash in Apple Intel graphics driver. ChimeraX 1.2 using lots of …
- 10:07 AM Ticket #4620 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 3) closed by
- duplicate: Duplicate of #4619. Same user. Previous report with ChimeraX 1.3, …
- 10:00 AM Ticket #4619 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 2) closed by
- nonchimerax: Typical Apple graphics driver crash. Volume threshold was just …
- 9:52 AM Ticket #4625 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by
- […]
- 8:50 AM Ticket #4622 (save dialog: 'SaveModelOptionWidget' object has no attribute '_name') closed by
- duplicate: Hi Roksana, Thanks for reporting this problem. ChimeraX was trying …
- 6:22 AM Ticket #4624 (Graphics crash, macOS 10.14.6, Intel Iris Pro 6200) created by
- […]
- 2:57 AM Ticket #4623 (ISOLDE: wrapped C/C++ object of type QLabel has been deleted) created by
- […]
May 10, 2021:
- 11:25 PM Ticket #4622 (save dialog: 'SaveModelOptionWidget' object has no attribute '_name') created by
- […]
- 10:33 PM Ticket #4621 (Graphics crash, macOS 10.15.7, Intel Iris Plus 645) created by
- […]
- 7:29 PM Ticket #4583 (wrapped C/C++ object of type QScreen has been deleted) closed by
- fixed: Fixed. Creating context now uses the screen the window is on if the …
- 6:12 PM Ticket #4620 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 3) created by
- […]
- 5:53 PM Ticket #4619 (Graphics crash, macOS 11.3, Radeon Pro 580 external gpu, report 2) created by
- […]
- 5:46 PM Ticket #4616 (Crash creating context for status bar) closed by
- can't reproduce: Looks like the same reporter, same machine and same crash as #4136, …
- 3:26 PM Ticket #4590 (AttributeError: '_Term' object has no attribute '_add_implied_hack') closed by
- fixed
- 3:25 PM Ticket #4613 (splitbyzone) closed by
- fixed: Fixed. The split part of the map far from the atoms should not be …
- 3:01 PM Ticket #4618 (Graphics crash, macOS 11.2.3, Radeon Pro 580) closed by
- nonchimerax: This ChimeraX crash was in Apple's graphics driver. In fact it was …
- 1:52 PM Ticket #4591 (Selection Inspector cannot change ss_type) closed by
- fixed: The 'setattr' command needed to use integer values, not strings.
- 11:52 AM Ticket #4614 (Toolshed error in "already installed" error message) closed by
- duplicate
- 11:51 AM Ticket #4612 (splitbyzone) closed by
- duplicate: Essentially duplicate or predecessor of #4613
- 11:42 AM Ticket #4611 (Toolshed error in "already installed" error message) closed by
- duplicate: Hi Bharti, You were trying to install a bundle that was already …
- 11:19 AM Ticket #4599 (Graphics crash, macOS 11.2.3, Intel Iris Plus 645) closed by
- nonchimerax: Mac Intel graphics driver crash.
- 11:17 AM Ticket #4598 (Probable graphics crash) closed by
- can't reproduce: The ChimeraX crash you reported did not give us enough info to debug …
- 11:10 AM Ticket #4588 (balloon help/picking: numpy.linalg.LinAlgError: Singular matrix) closed by
- not a bug: They opened a 3 channel tif map then closed #1.3 leaving two channels. …
- 4:18 AM Ticket #4618 (Graphics crash, macOS 11.2.3, Radeon Pro 580) created by
- […]
- 3:57 AM Ticket #4617 (Specifier for picked atom may need to use serial number in some situations) created by
- […]
May 9, 2021:
- 10:22 PM Ticket #4616 (Crash creating context for status bar) created by
- […]
- 7:53 PM Ticket #4615 (Crash showing rapid access) created by
- […]
May 8, 2021:
- 5:37 PM Ticket #4614 (Toolshed error in "already installed" error message) created by
- […]
- 2:14 PM Ticket #4613 (splitbyzone) created by
- […]
- 1:50 PM Ticket #4612 (splitbyzone) created by
- […]
May 7, 2021:
- 10:25 PM Ticket #4607 (_name_completion() can return None) closed by
-
fixed: Reproducible with command
color ylb. Added test case. - 6:09 PM Ticket #4608 (No error for "ui tool show" of non-existent tool) closed by
- fixed: For some inexplicable reason, failing to find a tool to show was …
- 5:57 PM Ticket #4592 (Impossible to change residue angles with Selection Inspector) closed by
- fixed: Both problems (labeling and typing new values) fixed.
- 4:44 PM Ticket #4611 (Toolshed error in "already installed" error message) created by
- […]
- 4:28 PM Ticket #4609 (Problem fetching Modeller scores) closed by
- duplicate: Hi, Thanks for reporting this problem. It has been fixed and the fix …
- 4:13 PM Ticket #4595 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by
- fixed: Fix available in next daily build and 1.2.2 release candidate
- 4:13 PM Ticket #4594 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by
- fixed
- 4:12 PM Ticket #4584 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by
- fixed: Fix available in next daily build and 1.2.2 release candidate
- 4:03 PM Ticket #4610 ("Show in sequence viewer" error when no hits) created by
- […]
- 3:53 PM Ticket #4609 (Problem fetching Modeller scores) created by
- […]
- 3:16 PM Ticket #4608 (No error for "ui tool show" of non-existent tool) created by
- per summary, e.g. "Match Maker"
- 1:29 PM Ticket #4607 (_name_completion() can return None) created by
- […]
- 10:57 AM Ticket #4605 (Cannot restore session: _pickle.UnpicklingError: invalid load key) closed by
- fixed: You need to use a newer version of ChimeraX to restore that session. …
- 9:03 AM Ticket #4606 (Dual display crash showing tool tip popup) closed by
- duplicate
- 5:43 AM Ticket #4606 (Dual display crash showing tool tip popup) created by
- […]
May 6, 2021:
- 4:07 PM Ticket #4605 (Cannot restore session: _pickle.UnpicklingError: invalid load key) created by
- […]
- 3:58 PM Ticket #4604 (Save dialog: wrapped C/C++ object of type SaveOptionsWidget has been ...) closed by
- duplicate: Hi Uma, Thanks for reporting this problem. It has been fixed for …
- 2:09 PM NTTData edited by
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- 1:54 PM NTTData edited by
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- 1:48 PM NTTData edited by
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- 1:31 PM NTTData edited by
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- 1:18 PM NTTData edited by
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- 12:58 PM Ticket #4604 (Save dialog: wrapped C/C++ object of type SaveOptionsWidget has been ...) created by
- […]
- 11:24 AM Ticket #4603 (Using Chimera atom spec syntax) closed by
- not a bug
- 11:16 AM Ticket #4328 (ISOLDE: 'OpenMM_Thread_Handler' object has no attribute '_c_pointer') closed by
- fixed
- 11:16 AM Ticket #3971 ('OpenMM_Thread_Handler' object has no attribute '_c_pointer') closed by
- fixed: Finally tracked down and squished. Will be fixed in the next release.
- 11:16 AM Ticket #3717 (ISOLDE: 'OpenMM_Thread_Handler' object has no attribute '_c_pointer') closed by
- fixed: Finally tracked down and squished. Will be fixed in the next release.
- 11:15 AM Ticket #3562 ('OpenMM_Thread_Handler' object has no attribute '_c_pointer') closed by
- fixed: Finally tracked down and squished. Will be fixed in the next release.
- 11:15 AM Ticket #3520 (Some kind of graphics crash running ISOLDE) closed by
- fixed: Sorry for the necropost - just cleaning up some ancient history (this …
- 11:13 AM Ticket #3466 ('OpenMM_Thread_Handler' object has no attribute '_c_pointer') closed by
- fixed: Finally tracked down and squished. Will be fixed in the next release.
- 11:12 AM Ticket #3065 (ISOLDE simulation stopped: 'OpenMM_Thread_Handler' object has no ...) closed by
- fixed: Finally tracked down and squished. Will be fixed in the next release.
- 11:11 AM Ticket #4593 (ISOLDE: 'OpenMM_Thread_Handler' object has no attribute '_c_pointer') closed by
- fixed: I finally tracked down how this long-standing bug is triggered. It …
- 11:02 AM Ticket #4602 (Blast results problem) closed by
- duplicate: Hi Muniswamy, Thanks for reporting this problem. It is fixed in the …
- 10:48 AM Ticket #4601 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by
- duplicate
- 10:47 AM Ticket #4600 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by
- duplicate
- 10:33 AM Ticket #4596 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by
- duplicate: Duplicate of #4595
- 9:43 AM Ticket #4603 (Using Chimera atom spec syntax) created by
- […]
- 7:51 AM Ticket #4602 (Blast results problem) created by
- […]
- 4:12 AM Ticket #4601 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by
- […]
- 4:11 AM Ticket #4600 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by
- […]
- 1:48 AM Ticket #4599 (Graphics crash, macOS 11.2.3, Intel Iris Plus 645) created by
- […]
May 5, 2021:
- 6:08 PM Ticket #4598 (Probable graphics crash) created by
- […]
- 12:55 PM Ticket #4597 (Crash adding second residue inside a break) created by
- […]
- 7:58 AM Ticket #4596 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by
- […]
- 7:53 AM Ticket #4595 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by
- […]
- 5:51 AM Ticket #4594 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by
- […]
- 1:46 AM Ticket #4593 (ISOLDE: 'OpenMM_Thread_Handler' object has no attribute '_c_pointer') created by
- […]
May 4, 2021:
- 12:54 PM Ticket #4592 (Impossible to change residue angles with Selection Inspector) created by
- Besides all the chi angles being labeled chi1, it is impossible to …
- 12:49 PM Ticket #4591 (Selection Inspector cannot change ss_type) created by
- open 1zik select /A272 atoms, 257 bonds, 46 residues, 1 model selected …
- 12:44 PM Ticket #4590 (AttributeError: '_Term' object has no attribute '_add_implied_hack') created by
- […]
- 8:37 AM Ticket #4589 (PDB secondary structure info lost) created by
- Non-alpha helix types and strand ordering and sheet membership from …
- 6:57 AM Ticket #4588 (balloon help/picking: numpy.linalg.LinAlgError: Singular matrix) created by
- […]
- 4:06 AM Ticket #4587 (Python shell: ERROR:tornado.general:Uncaught exception in zmqstream ...) created by
- […]
May 3, 2021:
- 5:26 PM Ticket #4544 (Can't open PDB file with exotic characters for output on Windows) closed by
- fixed: Used various wchar_t routines on Windows.
- 10:53 AM Ticket #4585 (First distance not labeled) closed by
- fixed: Hi Tony, thanks for reporting this problem. I've fixed it in the …
May 2, 2021:
Apr 30, 2021:
- 2:03 PM Ticket #4585 (First distance not labeled) created by
- […]
- 1:39 PM Ticket #4584 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by
- […]
- 1:36 PM Ticket #4583 (wrapped C/C++ object of type QScreen has been deleted) created by
- […]
- 1:23 PM Ticket #4582 (Error in toolshed error message) closed by
- duplicate: Hi Greg, This is an error in code that was trying to tell you that a …
- 1:21 PM Ticket #4581 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) closed by
- duplicate: I believe this has already been fixed.
- 11:56 AM Ticket #4578 (second "vr true" failed: ...) closed by
- duplicate: This was fixed 5 weeks ago, so get the ChimeraX 1.2 release candidate …
- 11:31 AM Ticket #4573 (Main graphics restricted to smaller monitor size) closed by
- duplicate: Same bug was reported before #3675 and supposedly it is fixed in the …
- 8:39 AM Ticket #4582 (Error in toolshed error message) created by
- […]
- 6:46 AM Ticket #4581 (MatchMaker specific chain-chain pairing: wrapped C/C++ object of type ...) created by
- […]
- 3:41 AM Ticket #4580 (MatchMaker: radio button calls back to dead dialog) created by
- […]
Apr 29, 2021:
- 9:17 AM Ticket #4579 (Crash reading PDB file) closed by
- can't reproduce: Not nearly enough info to reproduce.
- 5:46 AM Ticket #4579 (Crash reading PDB file) created by
- […]
- 1:53 AM Ticket #4578 (second "vr true" failed: ...) created by
- […]
Apr 28, 2021:
- 8:02 PM ChangeLog edited by
- (diff)
- 4:10 PM Ticket #4577 ("color halfbond" doesn't respect target) created by
- color sel target p halfbond f affects both selected bonds and pseudobonds
- 10:53 AM Ticket #4576 (Trashed stack on Big Sur) closed by
- can't reproduce
- 10:51 AM Ticket #4576 (Trashed stack on Big Sur) created by
- […]
- 10:36 AM Ticket #4575 (Cannot save settings: No space left on device) closed by
- nonchimerax
- 9:50 AM Ticket #4572 (ChimeraX window all white) closed by
- nonchimerax: Hi Daniele, Our expert on this is on vacation for a week, but here is …
- 9:28 AM Ticket #4570 (Crash with trashed stack on Big Sur) closed by
- can't reproduce
- 6:25 AM Ticket #4575 (Cannot save settings: No space left on device) created by
- […]
- 5:05 AM Ticket #4574 (Crash on Big Sur due to invalid address) created by
- […]
Apr 27, 2021:
- 6:14 PM Ticket #4573 (Main graphics restricted to smaller monitor size) created by
- […] ChimeraX Screenshot.png
- 12:56 PM Ticket #4572 (ChimeraX window all white) created by
- […] Cattura.PNG
- 10:39 AM Ticket #4569 (RFE: better defaults for "color electrostatic" colormap) closed by
- fixed: Fixed. Made default range -10,10 for color electrostatic. Also made …
- 7:59 AM Ticket #4571 (GUI 'cd') created by
- […]
- 7:48 AM Ticket #4570 (Crash with trashed stack on Big Sur) created by
- […]
Apr 26, 2021:
- 5:00 PM Ticket #4569 (RFE: better defaults for "color electrostatic" colormap) created by
- Currently default is the same as "color sample", to map red-white-blue …
- 2:04 PM ChangeLog edited by
- (diff)
- 2:04 PM ChangeLog edited by
- (diff)
- 2:03 PM Dev2021-4-29 created by
- 2:00 PM 2021-4-29 created by
- 1:55 PM DeveloperMeetings edited by
- (diff)
- 1:29 PM Ticket #4556 (Open and save commands ignore log option: run("open 1a0m", log=False)) closed by
- fixed: Since open and save do parsing in two "passes", they are in charge of …
- 12:04 PM Ticket #4568 (data given to restore_snapshot is None) created by
- […]
- 11:55 AM Ticket #4561 (syntax error submitting Modeller scoring request) closed by
- fixed: Modeller scoring server moved to https
- 11:05 AM Ticket #4567 (Microsoft OneDrive changes Desktop location so ~/Desktop does not ...) created by
- […]
- 10:59 AM Ticket #4566 (Cap colors not matching) created by
- […] clip_cap_bug.jpg
- 9:43 AM Ticket #4565 (subprocess.run being called with a BundleInfo instance argumen) closed by
- duplicate: Hi Miles, Thanks for reporting this problem. It is fixed in the …
- 9:39 AM Ticket #4564 (RMSD command) closed by
- duplicate: Asked and answered on the chimera-users list
- 9:38 AM Ticket #4563 (Error in toolshed error message) closed by
- duplicate
- 9:32 AM Ticket #4565 (subprocess.run being called with a BundleInfo instance argumen) created by
- […]
- 9:27 AM Ticket #4559 (Toolshed using internal UI API) closed by
- duplicate: Hi Volodymyr, This problem occurred as the Updates tool was closing …
- 9:21 AM Ticket #4557 (Permission denied saving settings) closed by
- can't reproduce
- 8:22 AM Ticket #4564 (RMSD command) created by
- […]
- 6:01 AM Ticket #4563 (Error in toolshed error message) created by
- […]
- 2:33 AM Ticket #4562 (Clipper not found) created by
- […]
Apr 25, 2021:
- 10:50 PM Ticket #4561 (syntax error submitting Modeller scoring request) created by
- […]
- 6:28 AM Ticket #4560 (selected_atoms not current) created by
- […]
- 4:56 AM Ticket #4559 (Toolshed using internal UI API) created by
- […]
- 4:34 AM Ticket #4558 (Saved mmCIF files of edited structures sometime problematic) created by
- […] problem_session.cxs
Apr 24, 2021:
Apr 23, 2021:
- 7:01 PM Ticket #4556 (Open and save commands ignore log option: run("open 1a0m", log=False)) created by
- […]
- 4:13 PM Ticket #4554 (Error when no surfaces) closed by
- fixed: Fixed. Added error message when no surfaces specified when coloring …
- 12:55 PM Ticket #4555 (ISOLDE/Clipper: Spgr_descr: No such HM symbol) created by
- […]
- 6:50 AM Ticket #4553 (Windows fatal exception: access violation) closed by
- can't reproduce
- 5:55 AM Ticket #4554 (Error when no surfaces) created by
- […]
Apr 22, 2021:
- 7:21 PM Ticket #4553 (Windows fatal exception: access violation) created by
- […]
- 5:21 PM 2021-4-22 edited by
- (diff)
- 3:20 PM NTTData edited by
- (diff)
- 3:18 PM NeteSOW edited by
- (diff)
- 3:18 PM NeteSOW edited by
- (diff)
- 3:14 PM NTTData edited by
- (diff)
- 3:13 PM NTTData edited by
- (diff)
- 3:08 PM NTTData created by
- 3:04 PM Funding edited by
- (diff)
- 2:56 PM NeteSOW edited by
- (diff)
- 2:44 PM Funding edited by
- (diff)
- 10:40 AM Ticket #4550 (Crash showing rapid access) closed by
- can't reproduce: Well, "Windows fatal exception: access violation" could be almost …
- 10:19 AM Ticket #4546 (Coulombic keyword typo) closed by
- fixed: Changed declaration to dist_dep
- 10:13 AM Ticket #4545 (No addcharge command) closed by
- fixed: There is no addcharge command yet, so commented it out of bundle_info.xml
- 9:47 AM 2021-4-22 edited by
- (diff)
- 9:44 AM 2021-4-22 edited by
- (diff)
- 1:11 AM Ticket #4552 (Help viewer: self.tabs.currentWidget() is None) created by
- […]
- 12:06 AM Ticket #4551 (Weird shadows during 'fly') created by
- […] weird_lighting_during_fly.mp4
Apr 21, 2021:
- 10:13 PM Ticket #4550 (Crash showing rapid access) created by
- […]
- 10:56 AM Ticket #4549 (Updates tool launched before main window ready?) created by
- […]
- 8:02 AM Ticket #4548 (ISOLDE: Unparameterised residue detected) created by
- […]
- 12:36 AM Ticket #4509 (Toolshed reporting obsolete command) closed by
- fixed: Changed message to show which versions of a bundle to install, This …
Apr 20, 2021:
- 10:39 PM Ticket #4547 (Duplicate manager initialization) created by
- […]
- 8:29 PM Ticket #4546 (Coulombic keyword typo) created by
- […]
- 7:59 PM Ticket #4545 (No addcharge command) created by
- […]
- 7:03 PM 2021-4-22 edited by
- (diff)
- 7:02 PM 2021-4-22 edited by
- (diff)
- 7:01 PM 2021-4-22 edited by
- (diff)
- 6:54 PM 2021-4-22 edited by
- (diff)
- 4:44 PM Ticket #4544 (Can't open PDB file with exotic characters for output on Windows) created by
- […]
- 4:37 PM 2021-4-22 edited by
- (diff)
- 4:35 PM Ticket #4436 (VR: socket error: Unable to write) closed by
- fixed: I added the ssh option for joining to the Meeting panel under options …
- 12:18 PM Ticket #1927 (coil not same as protein nonhelix nonstrand?) closed by
- not a bug: the thin segments separate individual strands and helices; if the …
- 11:55 AM Ticket #2290 (Basic Actions: showing ribbons unintuitive) closed by
- not a bug
- 11:25 AM 2021-4-22 created by
- 11:22 AM DeveloperMeetings edited by
- (diff)
- 11:16 AM Ticket #3586 (Automatic log compacting) closed by
- fixed: Some simple-minded compaction will be in tomorrow's daily build (i.e. …
- 9:25 AM Ticket #2115 (Erratic shell tab completion) closed by
- fixed: Seemingly fixed in current daily build
- 9:01 AM Ticket #4543 (GaudiViewX not compatible with latest ChimeraX) closed by
- nonchimerax: Will try to notify GaudiViewX developers about how to update.
- 8:50 AM Ticket #4542 (Permission denied saving command history) closed by
- can't reproduce: Would want to see the error occur again with the post-1.0 changes made …
- 8:44 AM Ticket #4540 (Atom name > 4 characters) closed by
- fixed: This limitation has been lifted in 1.2 and the daily build, though …
- 6:00 AM Ticket #4543 (GaudiViewX not compatible with latest ChimeraX) created by
- […]
- 4:27 AM Ticket #4542 (Permission denied saving command history) created by
- […]
- 12:01 AM Ticket #4541 (Silhouettes look wrong) created by
- […] volumesilh.tif
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