Timeline



Oct 23, 2024:

9:31 PM Ticket #16177 (Crash in garbage collection) created by chimerax-bug-report@…
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9:18 PM Ticket #16176 (Error in glBufferData) created by chimerax-bug-report@…
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6:06 PM Ticket #16175 (Cannot create profile) created by yuanqingning@…
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3:41 PM Training edited by Tom Goddard
(diff)
2:37 PM phenix-10-24-24 edited by Eric Pettersen
(diff)
2:36 PM phenix-10-24-24 edited by Eric Pettersen
(diff)
2:34 PM phenix-10-24-24 edited by Eric Pettersen
(diff)
2:33 PM phenix-10-24-24 edited by Eric Pettersen
(diff)
2:16 PM phenix-10-24-24 edited by Eric Pettersen
(diff)
2:11 PM phenix-10-24-24 edited by Eric Pettersen
(diff)
1:59 PM Ticket #16174 (ISOLDE: sim start: Error compiling kernel) created by shfan@…
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1:57 PM phenix-10-24-24 edited by Eric Pettersen
(diff)
1:50 PM phenix-10-24-24 edited by Eric Pettersen
(diff)
1:45 PM phenix-10-24-24 edited by Eric Pettersen
(diff)
1:33 PM phenix-10-24-24 edited by Eric Pettersen
(diff)
1:23 PM phenix-10-24-24 created by Eric Pettersen
1:22 PM Features edited by Eric Pettersen
(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@…
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12:25 PM Ticket #16172 (ISOLDE: structure contains 'LP' (lone pair) element) created by chimerax-bug-report@…
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11:58 AM Ticket #16171 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics 645) created by chimerax-bug-report@…
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11:11 AM Ticket #16170 (Crash in Modeller tool _update_sequence_menus in Qt call ...) closed by Eric Pettersen
duplicate: Duplicate of #15753
11:09 AM Ticket #16169 (Crash in Modeller tool _update_sequence_menus in Qt call ...) closed by Eric Pettersen
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@…
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9:37 AM Ticket #16169 (Crash in Modeller tool _update_sequence_menus in Qt call ...) created by chimerax-bug-report@…
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8:59 AM Ticket #16168 (Crash in event loop) closed by Eric Pettersen
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 Eric Pettersen
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@…
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4:39 AM Ticket #16167 (Map settings: numpy array comparison) created by pavol.harar@…
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2:43 AM Ticket #16166 (Crash on Mac waking from sleep) created by laura.lp.iq@…
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2:02 AM Ticket #16165 (swapaa: DunbrackRotamerLibrary' object has no attribute 'display_name') created by samira.alsadi@…
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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@…
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1:34 PM Ticket #16163 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics) created by chimerax-bug-report@…
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1:26 PM Ticket #16162 ('XR' object has no attribute '_eye_view_states') created by rkrishnan@…
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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 Eric Pettersen
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@…
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10:45 AM Ticket #16159 (Graphics crash, macOS 14.6.1, Intel Iris Plus Graphics) created by chimerax-bug-report@…
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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@…
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10:01 AM Ticket #16156 (ui view fourup: ZeroDivisionError) closed by Eric Pettersen
duplicate
9:49 AM Ticket #16155 (Crash on Mac waking from sleep) closed by Eric Pettersen
duplicate
9:27 AM Ticket #16096 (Convenient conservation selection) closed by Eric Pettersen
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@…
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4:51 AM Ticket #16156 (ui view fourup: ZeroDivisionError) created by chimerax-bug-report@…
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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@…
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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 Eric Pettersen
(diff)
1:29 PM Dev2024-10-14 edited by Eric Pettersen
(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
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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 Eric Pettersen
not a bug: Bad CONECT records
10:24 AM Ticket #16148 ('MarkedHistogram' object has no attribute '_min_val') closed by Eric Pettersen
duplicate: Duplicate of #15759
10:08 AM Ticket #16147 (AddCharge: Hydrogen not bonded to exactly one other atom) closed by Eric Pettersen
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 Eric Pettersen
not a bug
9:10 AM Ticket #16151 (Acer 27" SpatialLabs View Pro Stereoscopic 3D Monitor openxr error) created by RKrishnan@…
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6:37 AM Ticket #16150 (AddCharge: Hydrogen bonded to non-heavy atom) created by chimerax-bug-report@…
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6:14 AM Ticket #16149 (ISOLDE: 5-bond carbon) created by guillaume.gaullier@…
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2:59 AM Ticket #16148 ('MarkedHistogram' object has no attribute '_min_val') created by chimerax-bug-report@…
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12:31 AM Ticket #16147 (AddCharge: Hydrogen not bonded to exactly one other atom) created by chimerax-bug-report@…
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Oct 20, 2024:

6:21 AM Ticket #16146 (Crash on Mac waking from sleep) created by jk658@…
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4:21 AM Ticket #16145 (Session restore: index out of range evaluating header) created by drorn@…
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1:46 AM Ticket #16144 (Graphics crash, macOS 14.5, Intel Iris Plus Graphics 645) created by chimerax-bug-report@…
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Oct 19, 2024:

1:49 AM Ticket #16143 (Follow up to: SEQCROW: trouble reading .out files) created by 2529108683@…
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Oct 18, 2024:

10:27 PM Ticket #16142 (Foldseek: permission error writing temp file) created by chimerax-bug-report@…
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9:36 PM Ticket #16141 (Crash in QWebEngine after alphafold predict) created by chimerax-bug-report@…
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5:08 PM Ticket #16140 (Crash in event loop) closed by Eric Pettersen
can't reproduce: Possibly remote display
5:06 PM Ticket #16139 (RE: Server down) closed by Eric Pettersen
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 Eric Pettersen
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 Eric Pettersen
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 Eric Pettersen
duplicate
4:46 PM Ticket #16133 (Crash in garbage collection) closed by Eric Pettersen
duplicate: Hi Siqiong, Thanks for reporting this problem. These garbage …
4:41 PM Ticket #16132 (SEQCROW: trouble reading .out files) closed by Eric Pettersen
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@…
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12:05 PM Ticket #16139 (RE: Server down) created by Kimberly.Cantero@…
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12:05 PM Ticket #16138 (Server down) created by marcel.drabbels@…
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12:05 PM Ticket #16137 (Issue with download page) created by sabrinamoffit@…
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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@…
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10:49 AM Ticket #16134 (Crash on Mac waking from sleep) created by chimerax-bug-report@…
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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 Eric Pettersen
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 Eric Pettersen
can't reproduce
3:47 PM Ticket #16121 (Crash in garbage collection) closed by Eric Pettersen
duplicate
3:32 PM Ticket #16118 (Permission denied replacing commands file) closed by Eric Pettersen
can't reproduce
2:49 PM Ticket #16116 (Crash on Mac waking from sleep) closed by Eric Pettersen
duplicate
2:21 PM Ticket #16115 (Permission denied replacing commands file) closed by Eric Pettersen
can't reproduce
2:11 PM Ticket #16114 (Permission denied replacing commands file) closed by Eric Pettersen
can't reproduce
1:38 PM Ticket #16113 (Select..Contacts not completely working) closed by Eric Pettersen
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@…
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2:20 AM Ticket #16128 (MolecularDynamicsViewer: list index out of range) created by sebastien.gounel@…
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1:41 AM Ticket #16127 (QSpiApplication::keyEventError and various other errors) created by saverio.lemme@…
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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@…
[…]