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Timeline
Jul 22, 2026: Yesterday
- 6:28 PM ChangeLog edited by
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- 6:23 PM ChangeLog edited by
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- 6:21 PM ChangeLog edited by
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- 6:18 PM Ticket #20787 (Add alphafold fetch for mutation scores sequences) closed by
- fixed: Done. If the mutation set is fetched from MaveDB it usually has a …
- 5:48 PM Ticket #20787 (Add alphafold fetch for mutation scores sequences) created by
- Add a button to the Mutation Scores panel to fetch an AlphaFold …
- 5:05 PM Ticket #20786 (Added fetching of MaveDB mutation data) closed by
- fixed: Done. MaveDB entry identifiers are 00000001, 00000002, .... I allow …
- 4:48 PM Ticket #20786 (Added fetching of MaveDB mutation data) created by
- Allow fetching mutation score data from the Multiplexed Assays of …
- 4:43 PM Ticket #20785 (Allow coloring structure at residues with uniprot variant mutations ...) closed by
- fixed: Done. I added a mutationscores merge command and also added an …
- 4:02 PM Ticket #20785 (Allow coloring structure at residues with uniprot variant mutations ...) created by
- I'd like to be able to look at deep mutational scan scores for just …
- 3:51 PM Ticket #20142 (Make a mutation score heatmap GUI) closed by
- fixed: Done. The heatmaps are reasonably usable now. If more improvements …
- 3:49 PM Ticket #19403 (Add structure coloring controls to mutation scores scatter plot) closed by
- fixed: Done. The mutation score ranges option was documented by Elaine. All …
- 3:43 PM Ticket #20597 (Opening mutation score .csv file does not show the scores in the order ...) closed by
- fixed: Fixed. I made the scores appear in alphabetical order.
- 3:40 PM Ticket #20784 (OpenFold prediction fails if model parameters did not download during ...) created by
- In ticket #20783 the anonymous user tries to run several OpenFold …
- 1:58 PM ChangeLog edited by
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- 1:58 PM ChangeLog edited by
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- 1:58 PM ChangeLog edited by
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- 1:57 PM ChangeLog edited by
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- 12:22 PM Ticket #20783 (ViewDock opening a swissdock file: not enough values to unpack ...) created by
- […]
- 11:10 AM Ticket #20782 (Python shell debugger warning) closed by
- not a bug
- 11:03 AM Ticket #20780 (Dock Prep: acc_phi_psi() takes 8 positional arguments but 9 were given) closed by
- duplicate: Same as #20781
- 11:01 AM Ticket #20777 (pyKVFinder install failed on Mac: '/usr/bin/clang' failed with exit code 1) closed by
- duplicate: Same as #20779
- 8:18 AM Ticket #20782 (Python shell debugger warning) created by
- […]
- 3:14 AM Ticket #20781 (Dock Prep: acc_phi_psi() takes 8 positional arguments but 9 were given) created by
- […]
- 3:13 AM Ticket #20780 (Dock Prep: acc_phi_psi() takes 8 positional arguments but 9 were given) created by
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Jul 21, 2026:
- 7:47 AM Ticket #20779 (pyKVFinder on Mac: '/usr/bin/clang' failed with exit code 1) created by
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- 12:47 AM Ticket #20778 (pyKVFinder: KeyError: 'KAA') created by
- […]
Jul 20, 2026:
- 6:16 PM Ticket #20768 (Session save failure) closed by
- can't reproduce: Hi Lydia, Thanks for reporting this problem and providing the session …
- 4:12 PM DeveloperMeetings edited by
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- 4:10 PM DeveloperMeetings edited by
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- 4:10 PM Dev2026-07-20 edited by
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- 3:59 PM Ticket #20335 (Python 3.14 changes refcount semantics) closed by
- fixed: Fixed. Only the geometry place.py use of getrefcount() needed fixing. …
- 3:02 PM Dev2026-07-20 created by
- 3:01 PM DeveloperMeetings edited by
- (diff)
- 12:10 PM Ticket #20773 (Crash in NSAccessibility routines in Qt 6.10.2 and ChimeraX 1.12) closed by
- can't reproduce: I think this the first crash report in Mac accessibility routines in …
- 11:58 AM Ticket #20777 (pyKVFinder install failed on Mac: '/usr/bin/clang' failed with exit code 1) created by
- […]
- 10:36 AM Ticket #20776 (Fetch identifier) closed by
- not a bug: Hi Thu, P0CE95 is not a PDB identifier. As the error message says, …
- 10:28 AM Ticket #20775 (KVFinder on old MacOS) closed by
- duplicate
- 10:20 AM Ticket #20772 (H-Bonds: More than 2 coplanar positions specified) closed by
- can't reproduce
- 10:19 AM Ticket #20771 (Minimize: KeyError: 'OP3') closed by
- can't reproduce
- 9:08 AM Ticket #20776 (Fetch identifier) created by
- […]
- 8:59 AM Ticket #20775 (KVFinder on old MacOS) created by
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Jul 19, 2026:
- 6:25 PM Ticket #20774 (ISOLDLE: validation tab refers to deleted residue) created by
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- 8:27 AM Ticket #20773 (Crash in NSAccessibility routines in Qt 6.10.2 and ChimeraX 1.12) created by
- […]
Jul 17, 2026:
- 11:14 PM Ticket #20772 (H-Bonds: More than 2 coplanar positions specified) created by
- […]
- 8:05 PM Ticket #20771 (Minimize: KeyError: 'OP3') created by
- […]
- 12:06 PM Ticket #20770 (Crash on Mac waking from sleep) closed by
- duplicate: This ChimeraX crash is due to a bug in the Qt window toolkit and …
- 11:41 AM Ticket #20769 (ArtiaX: read RELION STAR file: Cannot interpret as a data type) closed by
- duplicate: User was using old version of ArtiaX (0.1).
- 6:40 AM Ticket #20770 (Crash on Mac waking from sleep) created by
- […]
- 5:07 AM Ticket #20769 (ArtiaX: read RELION STAR file: Cannot interpret as a data type) created by
- […]
- 3:46 AM Ticket #20768 (Session save failure) created by
- […] KIF1C mutations chimera.cxs
Jul 16, 2026:
- 3:00 PM Ticket #20765 ('measure mapvalues' should disallow illegal/problematic attribute names) closed by
- fixed: Fixed. An error is issued explaining the allowed attribute name …
- 11:26 AM Ticket #20766 (blast protein: 'return' in a 'finally' block) closed by
- fixed: It may be easy to just patch grako (some more). I moved the return in …
- 10:05 AM Ticket #20767 (sel <named selection> selects all atoms in chain B) created by
- […] log.txt wFAP0.pdb
- 9:36 AM Ticket #20764 (Multiple consecutive identical commands) closed by
- can't reproduce: Is this AI driven?
- 9:35 AM Ticket #20766 (blast protein: 'return' in a 'finally' block) created by
- […]
- 8:59 AM Ticket #20765 ('measure mapvalues' should disallow illegal/problematic attribute names) created by
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- 7:53 AM Ticket #20764 (Multiple consecutive identical commands) created by
- […]
Jul 15, 2026:
- 6:06 PM Ticket #20763 (Invalid escape sequence \* warning at startup in volume code) closed by
- fixed
- 6:05 PM Ticket #20763 (Invalid escape sequence \* warning at startup in volume code) reopened by
- Fixed. Volume save_map() function doc string had \*.cmap and \*.mrc …
- 5:48 PM Ticket #20763 (Invalid escape sequence \* warning at startup in volume code) closed by
- fixed: I didn't get this warning the second time I started this daily build, …
- 5:46 PM Ticket #20763 (Invalid escape sequence \* warning at startup in volume code) created by
- […]
- 3:01 PM Ticket #20758 ('zone' command uses dead residue) closed by
- fixed: Fixed. The zone mouse mode gave an error when dragging to increase …
- 4:29 AM Ticket #20762 (Minimization failure: KeyError: 'N') created by
- […]
Jul 14, 2026:
- 3:44 PM Ticket #20761 (Color blobs mouse mode is choosing transparent colors) closed by
- fixed: Fixed. There was an overflow in the computation of the clicked …
- 3:15 PM ChangeLog edited by
- (diff)
- 3:06 PM Ticket #20761 (Color blobs mouse mode is choosing transparent colors) created by
- […]
- 2:57 PM Ticket #20760 (TypeError: setChecked(self, a0: bool): argument 1 has unexpected type ...) closed by
- fixed: Fixed. Cast from numpy.bool to Python bool in volume viewer gui code.
- 2:50 PM Ticket #20760 (TypeError: setChecked(self, a0: bool): argument 1 has unexpected type ...) created by
- […]
- 2:18 PM Ticket #20759 (OpenGL "invalid framebuffer operation" in glclear after display reconnected) created by
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- 2:02 PM Ticket #20600 (Minimization of RNA fails) closed by
- fixed: Fixed in tomorrow's daily build. Fix: …
- 12:21 PM Ticket #20758 ('zone' command uses dead residue) created by
- […]
- 10:56 AM Ticket #20750 (numpy bool no longer accepted by QCheckBox.setChecked()) closed by
- fixed: Fix: …
- 6:59 AM Ticket #20757 (DLL load failed while importing: An Application Control policy has ...) created by
- […]
Jul 13, 2026:
- 7:07 PM Ticket #20756 (DLL load failed while importing: An Application Control policy has ...) created by
- […]
- 5:49 PM Ticket #20751 (Failed to create D3D11 swapchain) closed by
- nonchimerax: Nvidia graphics driver problem, Windows. I'd try rebooting the …
- 5:42 PM Ticket #20749 (Save image/movie, no opengl context) closed by
- nonchimerax: There are several problems here. First the user tries "movie encode …
- 5:27 PM Ticket #20748 (COD bond-perception bug) closed by
- duplicate: Duplicate of #20746. Likely fixed by recent change.
- 5:22 PM Ticket #20605 (glClear: invalid framebuffer operation drawing scene) closed by
- duplicate: This ChimeraX error is caused by a bug in the Mac Qt window toolkit …
- 5:18 PM Ticket #20755 (The GPU device instance has been suspended) closed by
- duplicate
- 5:15 PM Ticket #20754 (The GPU device instance has been suspended) closed by
- duplicate
- 4:54 PM Dev2026-07-13 edited by
- (diff)
- 3:00 PM Ticket #20753 (The GPU device instance has been suspended) closed by
- duplicate
- 2:57 PM Ticket #20752 (The GPU device instance has been suspended) closed by
- duplicate
- 2:03 PM Ticket #20745 (Trac database down (was: Re: COD bond-perception bug)) closed by
- fixed
- 1:05 PM Ticket #20755 (The GPU device instance has been suspended) created by
- […]
- 1:05 PM Ticket #20754 (The GPU device instance has been suspended) created by
- […]
- 1:05 PM Ticket #20753 (The GPU device instance has been suspended) created by
- […]
- 1:05 PM Ticket #20752 (The GPU device instance has been suspended) created by
- […]
- 1:05 PM Ticket #20751 (Failed to create D3D11 swapchain) created by
- […]
- 1:05 PM Ticket #20750 (numpy bool no longer accepted by QCheckBox.setChecked()) created by
- […]
- 1:05 PM Ticket #20749 (Save image/movie, no opengl context) created by
- […]
- 1:05 PM Ticket #20748 (COD bond-perception bug) created by
- […] [[Image(...)]]
- 1:05 PM Ticket #20747 (Movie: save duplicate images: No such file or directory) created by
- […]
- 1:05 PM Ticket #20746 (Corecif has metal coordination bonds only) created by
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[…]
Description
Picked up a new pathological case for
corecif: … - 12:09 PM Ticket #20745 (Trac database down (was: Re: COD bond-perception bug)) created by
- […]
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