Timeline



Jan 28, 2021:

5:43 PM Ticket #4135 (Modeller job fault / server error) closed by pett
fixed: After a lot of detective work it turns out that Opal web services …
4:59 PM Ticket #4182 (Model panel View button does not work on volumes) closed by pett
fixed: "View" now uses just '#' instead of '#!'.
4:27 PM Ticket #4186 (Error in error message reinstalling bundle) closed by pett
duplicate: Hi Jose, Thanks for reporting this problem. You can safely ignore it …
3:37 PM NeteSOW edited by Tom Goddard
(diff)
2:22 PM NeteSOW edited by pett
(diff)
1:50 PM NeteSOW edited by Elaine Meng
(diff)
1:48 PM NeteSOW edited by Elaine Meng
(diff)
1:46 PM NeteSOW edited by Elaine Meng
(diff)
1:41 PM NeteSOW edited by Elaine Meng
(diff)
1:39 PM NeteSOW edited by Elaine Meng
(diff)
1:18 PM NeteSOW edited by Elaine Meng
(diff)
1:16 PM NeteSOW edited by Elaine Meng
(diff)
1:05 PM NeteSOW edited by Elaine Meng
(diff)
11:36 AM Ticket #4186 (Error in error message reinstalling bundle) created by gorbea@…
[…]
9:44 AM 2021-1-28 edited by Tom Goddard
(diff)
9:09 AM Ticket #4185 (Problem with multiprocessing scripts) created by Andrei Istrate
[…]

Jan 27, 2021:

6:47 PM Ticket #4184 (Make builds by outside developers use PyPi PyQt5 or PySide2) created by Tom Goddard
The ChimeraX builds are back to using commercial PyQt5 wheels on plato …
5:06 PM Ticket #4183 (Long 30 second startup time) created by goddard@…
[…]
4:20 PM Ticket #4182 (Model panel View button does not work on volumes) created by goddard@…
[…]
2:09 PM Ticket #4181 (better initial display when build start nucleic makes new model) closed by pett
fixed: Wasn't as hard as anticipated
2:08 PM Ticket #4180 (better initial display when build start adds to existing model) closed by pett
fixed
1:33 PM Ticket #4179 (Dual display crash) closed by pett
duplicate
1:28 PM ChangeLog edited by pett
(diff)
12:45 PM Ticket #4181 (better initial display when build start nucleic makes new model) created by Elaine Meng
If possible, I'd prefer it show sticks with heteroatom or element …
12:41 PM Ticket #4180 (better initial display when build start adds to existing model) created by Elaine Meng
Currently you get all white spheres. Would be better as sticks …
12:32 PM Ticket #4179 (Dual display crash) created by chimerax-bug-report@…
[…]
11:21 AM Ticket #4178 (OpenMM: Error launching CUDA compiler: Value 'sm_75' is not defined ...) closed by Tristan Croll
can't reproduce: Not much idea what's going on here. A quick Google of the error …
10:35 AM Ticket #4178 (OpenMM: Error launching CUDA compiler: Value 'sm_75' is not defined ...) created by chimerax-bug-report@…
[…]
10:21 AM Ticket #4177 (Script for setting ligand chain IDs) created by Tristan Croll
[…] ligand_utils.py
7:24 AM Ticket #4176 (mmCIF save/restore produces duplicate residues) created by Tristan Croll
[…] duplicated_sugars.jpg
1:13 AM Ticket #4175 (H-bonds not recreated) created by sitins07@…
[…]

Jan 26, 2021:

11:28 PM Ticket #4174 (make install in bundles should reinstall even if version did not change) closed by Greg Couch
fixed: The bug due to code in toolshed.find_bundle that changes …
9:26 PM Ticket #4174 (make install in bundles should reinstall even if version did not change) created by goddard@…
[…]
6:09 PM Ticket #4173 (Interrupt in _redraw_timer_callback) closed by pett
can't reproduce: Presumably something hung or seemed to hang.
5:54 PM ChangeLog edited by pett
(diff)
4:16 PM Ticket #4173 (Interrupt in _redraw_timer_callback) created by chimerax-bug-report@…
[…]
1:50 PM Ticket #4172 (Crash activating timers) closed by pett
can't reproduce: Hi James, This is likely a problem with the Qt windowing toolkit that …
11:54 AM Ticket #3084 (Inserted fragments should update missing-structure pseudobonds) closed by pett
can't reproduce: The example I used was inserting residues 61-66 of chain A of 2gbp …
11:03 AM Ticket #4172 (Crash activating timers) created by jjung@…
[…]
10:23 AM Ticket #4171 (delete alt locs) created by Tristan Croll
Need C++/Python support for deleting alt locs
10:03 AM 2021-1-28 created by Tom Goddard
10:00 AM DeveloperMeetings edited by Tom Goddard
(diff)

Jan 25, 2021:

5:00 PM ChangeLog edited by pett
(diff)
3:46 PM Ticket #4170 (Remove unnecessary PyPi packages during build) created by Tom Goddard
The prereqs/pips make install target installs about 40 packages …
10:48 AM Ticket #4169 (toolshed install command does not handle "*" globbing in file name.) created by goddard@…
[…]
10:42 AM Ticket #4167 (Drawing selection outline: glBlitFramebuffer: invalid operation) closed by Tom Goddard
nonchimerax: The error is very likely a graphics driver bug. It appears it cannot …
10:23 AM Ticket #4165 (Dual display crash) closed by pett
can't reproduce
10:21 AM Ticket #4164 (SHEET information is keep nor maintained) closed by pett
duplicate: Duplicate of #1021
6:49 AM Ticket #4168 (Show alternate locations simultaneously) created by udakshi@…
[…]

Jan 24, 2021:

1:14 AM Ticket #4167 (Drawing selection outline: glBlitFramebuffer: invalid operation) created by Saeed.ataei1993@…
[…]

Jan 23, 2021:

5:41 PM Ticket #4166 (ISOLDE/ParmEd: UnboundLocalError: local variable 'compiler_package' ...) created by chimerax-bug-report@…
[…]
12:33 PM Ticket #4165 (Dual display crash) created by chimerax-bug-report@…
[…]

Jan 22, 2021:

11:59 PM Ticket #4125 (Command argument quoting not working for single quotes) closed by Greg Couch
not a bug: The quoting behavior is by design. You are being bitten by the fact …
3:56 PM Ticket #4152 (alt loc starting values) closed by pett
fixed: I assigned the bfactor, coordinate, and serial_number to their …
3:23 PM Ticket #4164 (SHEET information is keep nor maintained) created by Greg Couch
When outputting mmCIF files, the sheet information is not given …
2:55 PM Ticket #4161 (CIF vs. PDB deposition) closed by Greg Couch
nonchimerax: tl;dr -- mostly a PDB validator bug. There are lots of issues here. …
2:30 PM Ticket #4154 (Attempt to show dead dialog) closed by pett
fixed: Make the close button just hide the dialog, not destroy it.
2:18 PM Ticket #4163 (Map coordinates rotation axis has wrong sign) closed by Tom Goddard
fixed: Fixed. Was using rotation axis and angle from the transposed (hence …
2:16 PM Ticket #4163 (Map coordinates rotation axis has wrong sign) created by goddard@…
[…]
2:12 PM Ticket #4160 (Occasional slow startup) closed by Tom Goddard
can't reproduce: I will report again with splash screen info when it happens next.
2:11 PM Ticket #4156 (Deleting atom twice) closed by pett
fixed: Coulombic needed to account for the fact that add_charge can delete 5' …
1:40 PM Ticket #4162 (Excessive mmCIF warning output) created by pett
If you take the PDB from #4161 and save it as an mmCIF and then open …
11:45 AM Ticket #4161 (CIF vs. PDB deposition) created by coutandin@…
[…] 2-C_LOBE-1_fixed2.pdb
11:43 AM Ticket #4158 (Scipion: write MRC: only size-1 arrays can be converted to Python scalars) closed by Tom Goddard
fixed: Fixed. Writing an MRC file where the coordinates were rotated with …
11:43 AM Ticket #4157 (Bad electron count) closed by pett
fixed: Some of the atoms added in from adjacent residues weren't being tracked.
11:31 AM Ticket #4160 (Occasional slow startup) created by goddard@…
[…]
11:23 AM Ticket #3152 (Toolbar icon rollover → crash) closed by Tom Goddard
fixed: I worked around this Qt bug about a year ago. The Toolbar icon …
11:21 AM Ticket #3023 (Crash showing menu) closed by Tom Goddard
duplicate: This is probably fixed in Qt 5.15.2 which the ChimeraX daily builds …
11:20 AM Ticket #3395 (Crash showing tooltip text) closed by Tom Goddard
duplicate: This is probably fixed in Qt 5.15.2 which the ChimeraX daily builds …
11:17 AM Ticket #4153 (Crash with dual displays) closed by Tom Goddard
duplicate: The crash traceback looks like it was displaying a menu. There is a …
9:26 AM Ticket #4155 (Crash setting up menubar when going full screen) closed by pett
can't reproduce
8:04 AM Ticket #4159 (Crash in garbage collection during new-object allocation) created by elisa.azuara@…
[…]
2:44 AM Ticket #4158 (Scipion: write MRC: only size-1 arrays can be converted to Python scalars) created by chimerax-bug-report@…
[…]

Jan 21, 2021:

2:03 PM 2021-1-21 edited by Tom Goddard
(diff)
2:02 PM 2021-1-21 edited by Tom Goddard
(diff)
2:00 PM 2021-1-21 edited by Tom Goddard
(diff)
1:57 PM 2021-1-21 edited by Tom Goddard
(diff)
1:56 PM Ticket #4157 (Bad electron count) created by pett
[…]
1:36 PM Ticket #4156 (Deleting atom twice) created by pett
[…]
1:23 PM Ticket #4155 (Crash setting up menubar when going full screen) created by chimerax-bug-report@…
[…]
1:22 PM Ticket #4154 (Attempt to show dead dialog) created by Elaine Meng
[…]
1:08 PM Ticket #4150 (Coulombic failure) closed by pett
fixed: Coulombic knew that Amber calls NH2 NHE. AddCharge didn't. Now it does.
12:44 PM Ticket #4153 (Crash with dual displays) created by matthew.kraushar@…
[…]
11:27 AM 2021-1-21 edited by Scooter Morris
(diff)
11:19 AM 2021-1-21 edited by Scooter Morris
(diff)
11:14 AM 2021-1-21 edited by Tom Goddard
(diff)
11:13 AM 2021-1-21 edited by Tom Goddard
(diff)
11:11 AM 2021-1-21 edited by Tom Goddard
(diff)
10:50 AM 2021-1-21 edited by pett
(diff)
10:38 AM 2021-1-21 created by Tom Goddard
10:36 AM DeveloperMeetings edited by Tom Goddard
(diff)
10:27 AM Ticket #4152 (alt loc starting values) created by Tristan Croll
[…]
9:57 AM Ticket #4151 (struct_edit.add_bond trying to '+' Residues collections) closed by pett
fixed: You are right that it is fixed in the daily build, but I don't …
8:42 AM Ticket #4151 (struct_edit.add_bond trying to '+' Residues collections) created by Tristan Croll
[…]

Jan 20, 2021:

10:26 PM Ticket #2853 (Windows build should not require pre-installed Python) closed by Greg Couch
fixed: Switched to Python 3.8.7. Used the "make_win_distribution" target in …
5:45 PM ChangeLog edited by Elaine Meng
(diff)
5:45 PM ChangeLog edited by Elaine Meng
(diff)
2:48 PM Ticket #4150 (Coulombic failure) created by goddard@…
[…]
2:37 PM Ticket #4149 (Binary installation of AmberTools) created by Tom Goddard
Since installing AmberTools20 requires not only the installation of …
11:55 AM Ticket #4146 (DataDir not included in bundle) closed by pett
fixed: Ignore the top-level DataDir thing, I was confused. That tag is only …
9:07 AM Ticket #4148 (Toolshed using internal UI API) closed by pett
duplicate: Hi Yashar, Thanks for reporting this problem. It is harmless, so you …
9:03 AM Ticket #4147 (Toolshed using internal UI API) closed by pett
duplicate
8:18 AM Ticket #4148 (Toolshed using internal UI API) created by yashar.sadian@…
[…]

Jan 19, 2021:

6:12 PM Ticket #4144 (Bad info from RCSB when querying blast results) closed by pett
fixed: An infrequently used part of the blast-results parsing code was …
4:37 PM Ticket #4139 (Crash calculating H-bonds) closed by pett
fixed: Recent changes to change notifications were buggy for pseudobonds and …
2:24 PM Ticket #4147 (Toolshed using internal UI API) created by chimerax-bug-report@…
[…]
1:55 PM Ticket #3216 (open/save need to be aware of uninstalled formats) closed by pett
fixed
1:22 PM Ticket #4146 (DataDir not included in bundle) created by Tony Schaefer
[…] themes_DataDir.zip
11:12 AM Ticket #4142 (Crash in QtWebEngineCore in updateDirtyNodes()) closed by Tom Goddard
can't reproduce: There have been 15 ChimeraX bug reports of this crash in the Qt …
10:40 AM Ticket #4145 (Floating point 'increment' not allowed in "volume planes" command ...) closed by Tom Goddard
fixed: Fixed in tonight's ChimeraX daily build. Thanks for the detailed bug …
10:25 AM Ticket #4143 (Windows crash at startup showing rapid access) closed by Tom Goddard
can't reproduce: This Windows crash is during ChimeraX startup. The splash screen has …
9:59 AM Ticket #4141 (Crash in QtWebEngineCore) closed by pett
can't reproduce
9:54 AM Ticket #4140 (wrapped C/C++ object of type ChainMenuButton has been deleted) closed by pett
duplicate: Hi Ziyi, Thanks for reporting this problem. It has been fixed in the …
8:46 AM Ticket #4145 (Floating point 'increment' not allowed in "volume planes" command ...) created by ermel@…
[…] planes_bug.cxc
6:40 AM Ticket #4144 (Bad info from RCSB when querying blast results) created by lp212@…
[…]

Jan 18, 2021:

4:13 PM Ticket #4143 (Windows crash at startup showing rapid access) created by chimerax-bug-report@…
[…]

Jan 17, 2021:

10:28 PM Ticket #4142 (Crash in QtWebEngineCore in updateDirtyNodes()) created by rsarsam@…
[…]
12:27 PM Ticket #4141 (Crash in QtWebEngineCore) created by chimerax-bug-report@…
[…]
10:15 AM Ticket #4140 (wrapped C/C++ object of type ChainMenuButton has been deleted) created by fzyzz180409@…
[…] ATR-Mec1 Alignment.cxs

Jan 15, 2021:

3:24 PM Ticket #4139 (Crash calculating H-bonds) created by Elaine Meng
[…]
11:01 AM Ticket #4138 (Crash while removing screen) closed by Tom Goddard
duplicate: Duplicate of #3682, supposedly fixed in ChimeraX daily build by Qt …
10:58 AM Ticket #4137 (Graphics hardware encountered an error and was reset) closed by Tom Goddard
nonchimerax: The usual Apple Intel graphics driver crash, this one while resizing a …
7:26 AM Ticket #4138 (Crash while removing screen) created by chimerax-bug-report@…
[…]
1:30 AM Ticket #4137 (Graphics hardware encountered an error and was reset) created by chimerax-bug-report@…
[…]

Jan 14, 2021:

3:39 PM NeteSOW edited by Tom Goddard
(diff)
3:22 PM 2021-1-14 edited by Tom Goddard
(diff)
3:21 PM 2021-1-14 edited by Tom Goddard
(diff)
3:21 PM 2021-1-14 edited by Tom Goddard
(diff)
2:10 PM NeteSOW edited by Elaine Meng
(diff)
2:09 PM NeteSOW edited by Elaine Meng
(diff)
1:46 PM NeteSOW edited by Elaine Meng
(diff)
1:25 PM NeteSOW edited by Elaine Meng
(diff)
1:18 PM NeteSOW edited by Elaine Meng
(diff)
1:14 PM NeteSOW edited by Elaine Meng
(diff)
9:49 AM Ticket #4136 (Crash in QOpenGLContext.create() on Windows) closed by Tom Goddard
can't reproduce: Very nice! The Python traceback shows Windows ChimeraX can crash in …

Jan 13, 2021:

7:09 PM 2021-1-14 edited by Tom Goddard
(diff)
7:02 PM Ticket #4136 (Crash in QOpenGLContext.create() on Windows) created by chimerax-bug-report@…
[…]
6:00 PM Ticket #4134 (Modeller job fault / server error) closed by pett
duplicate: Duplicate of #4135
5:32 PM Ticket #3596 (Implement Coulombic surface coloring) closed by pett
fixed: Coulombic now also handles non-standard residues (only on Mac right …
3:33 PM Ticket #4135 (Modeller job fault / server error) created by Nick.Hoppe@…
[…]
3:25 PM Ticket #4134 (Modeller job fault / server error) created by chimerax-bug-report@…
[…]
2:23 PM 2021-1-14 edited by pett
(diff)
1:37 PM 2021-1-14 edited by pett
(diff)
10:37 AM Ticket #4133 (Graphics is white) closed by Tom Goddard
nonchimerax: Probably your graphics driver is not adequate. The Qt window toolkit …
10:34 AM Ticket #4131 (Graphics hardware encountered an error and was reset) closed by Tom Goddard
nonchimerax: Usual Apple Intel graphics driver crash.
7:51 AM Ticket #4133 (Graphics is white) created by ines.martinez@…
[…]
1:54 AM Ticket #4132 (Build fails "no such option: --extra-index-url") closed by Greg Couch
fixed

Jan 12, 2021:

9:18 PM Ticket #4132 (Build fails "no such option: --extra-index-url") created by Tom Goddard
Looks like your change to handling of ChimeraX.exe options broke the …
9:05 PM Ticket #4130 (Enable offscreen rendering on macOS) closed by Tom Goddard
fixed: Made new prereqs/osmesa that can install libOSmesa for Mac or Linux. …
7:42 PM Ticket #4131 (Graphics hardware encountered an error and was reset) created by chimerax-bug-report@…
[…]
4:20 PM Ticket #4130 (Enable offscreen rendering on macOS) created by Tom Goddard
Provide OSMesa in macOS ChimeraX builds for offscreen rendering with …
1:48 PM Ticket #4127 (atomic_lib compilation warning "ChimeraX_main.py: option -I not recognized") closed by Greg Couch
fixed: Changed ChimeraX's sys.argv parsing to recognize all Python options. …
11:07 AM Ticket #4129 (macOS notarization fails, lxml wheel uses pre-macOS 10.9) closed by Tom Goddard
fixed: Reverted to pip installing lxml from source code on macOS.
11:03 AM Ticket #4129 (macOS notarization fails, lxml wheel uses pre-macOS 10.9) created by Tom Goddard
Job: cac3f9f4-947d-4e93-8b04-bff3827e316f Status: Invalid Summary: …
10:47 AM 2021-1-14 created by Tom Goddard
10:43 AM DeveloperMeetings edited by Tom Goddard
(diff)
9:42 AM Ticket #4128 (save JPEG with transparent background: cannot write mode RGBA as JPEG) closed by pett
duplicate: Fixed (only) in the daily build.

Jan 11, 2021:

5:16 PM Ticket #4128 (save JPEG with transparent background: cannot write mode RGBA as JPEG) created by chimerax-bug-report@…
[…]
3:42 PM Ticket #4127 (atomic_lib compilation warning "ChimeraX_main.py: option -I not recognized") created by Tom Goddard
make install on atomic_lib on macOS 10.15 gives strange warnings about …
9:26 AM Ticket #4126 (Execution of 'Structure' object's 'atoms' property raised AttributeError) closed by pett
can't reproduce

Jan 9, 2021:

9:16 PM Ticket #4126 (Execution of 'Structure' object's 'atoms' property raised AttributeError) created by chimerax-bug-report@…
[…]

Jan 8, 2021:

5:56 PM Ticket #4124 (sequences from structure chains not closed when structure closed) closed by pett
fixed: With delattr moved from Cython to Python, needed to also make …
5:08 PM Ticket #4123 (sequence selection region stays when structure is closed) closed by pett
fixed: Deleting structures with selections in them wasn't firing 'selection …
4:34 PM Ticket #4121 (Surface cap not transparent) closed by Tom Goddard
fixed: Fixed. I made coloring the a volume surface or changing its …
4:30 PM Ticket #4125 (Command argument quoting not working for single quotes) created by Daniel Esteban Palma Igor
[…]
1:26 PM Ticket #4124 (sequences from structure chains not closed when structure closed) created by Elaine Meng
e.g. open 1www seq chain /Y close Also same problem for …
1:25 PM Ticket #4123 (sequence selection region stays when structure is closed) created by Elaine Meng
open uniprot:cah1_human open 1bzm .... select with mouse on structure, …
8:51 AM Ticket #4122 (End of simulation: 'PositionRestraintMgr' object has no attribute ...) created by rmccool@…
[…]
5:03 AM Ticket #4121 (Surface cap not transparent) created by sitins07@…
[…] Screenshot_1.png

Jan 7, 2021:

8:49 PM WikiStart edited by Tom Goddard
(diff)
8:48 PM WikiStart edited by Tom Goddard
(diff)
8:46 PM WikiStart edited by Tom Goddard
(diff)
8:43 PM WikiStart edited by Tom Goddard
(diff)
8:42 PM WikiStart edited by Tom Goddard
(diff)
8:41 PM WikiStart edited by Tom Goddard
(diff)
8:39 PM WikiStart edited by Tom Goddard
(diff)
8:38 PM WikiStart edited by Tom Goddard
(diff)
8:37 PM WikiStart edited by Tom Goddard
(diff)
8:35 PM WikiStart edited by Tom Goddard
(diff)
8:26 PM WikiStart edited by Tom Goddard
(diff)
8:23 PM WikiStart edited by Tom Goddard
(diff)
8:21 PM WikiStart edited by Tom Goddard
(diff)
8:11 PM WikiStart edited by Tom Goddard
(diff)
8:05 PM Ticket #4120 (Support PySide2 and PyQt5 with a shim qt module) created by Tom Goddard
At Jan 7, 2021 group meeting we decided to look into using the …
7:51 PM Ticket #4119 (Migrate from Qt 5 to Qt 6) created by Tom Goddard
Qt 6.0 was released in December of 2020 although some modules were not …
5:27 PM WikiStart edited by Tom Goddard
(diff)
5:12 PM Ticket #4095 (VR initialization failure) closed by Tom Goddard
nonchimerax: Gabriel was able to get Oculus Rift working with ChimeraX.
5:10 PM Ticket #4118 (Add offscreen rendering support for macOS using XQuartz libOSMesa.dylib) closed by Tom Goddard
wontfix: Unfortunately XQuartz was last updated in 2016 and the …
5:07 PM Ticket #4118 (Add offscreen rendering support for macOS using XQuartz libOSMesa.dylib) created by Tom Goddard
Would be nice to have offscreen rendering when using ChimeraX as a …
5:01 PM Ticket #4117 (Chimera documentation mistakenly used with ChimeraX) closed by Tom Goddard
not a bug
4:53 PM 2021-1-7 edited by Tom Goddard
(diff)
2:21 PM 2021-1-7 edited by Tom Goddard
(diff)
2:19 PM 2021-1-7 edited by Tom Goddard
(diff)
2:16 PM 2021-1-7 edited by Tom Goddard
(diff)
1:43 PM Ticket #4117 (Chimera documentation mistakenly used with ChimeraX) created by aalikhanip@…
[…] Untitled.png
10:59 AM Ticket #4116 (prevent duplicate pending bundle submissions) created by Greg Couch
When a pending bundle submission is made with the same name and …
10:59 AM Ticket #4114 (Crash in garbage collection during new-object allocation) closed by pett
can't reproduce
10:55 AM Ticket #4113 (Toolshed using internal UI API) closed by pett
duplicate
10:28 AM Ticket #4115 (Crash in garbage collection during new-object allocation) created by tampe@…
[…]
2:03 AM Ticket #4114 (Crash in garbage collection during new-object allocation) created by chimerax-bug-report@…
[…]

Jan 6, 2021:

10:43 PM Ticket #4113 (Toolshed using internal UI API) created by chimerax-bug-report@…
[…]
6:45 PM 2021-1-7 edited by Tom Goddard
(diff)
6:43 PM 2021-1-7 edited by Tom Goddard
(diff)
5:41 PM 2021-1-7 edited by pett
(diff)
3:16 PM Ticket #4112 (swapaa may be using probability as dominant criterion) closed by pett
not a bug: You have to supply "ignoreOtherModels true" to the swapaa command. …
12:59 PM Ticket #4112 (swapaa may be using probability as dominant criterion) created by Elaine Meng
unless I am confused. Here is the example: open 6pt2 del /B,D hide …
10:59 AM 2021-1-7 edited by pett
(diff)
10:56 AM 2021-1-7 created by Tom Goddard
10:53 AM WikiStart edited by Tom Goddard
(diff)
10:52 AM DeveloperMeetings edited by Tom Goddard
(diff)
10:51 AM DeveloperMeetings edited by Tom Goddard
(diff)

Jan 5, 2021:

9:35 PM Ticket #4111 (Cannot install Maestro file reader from Toolshed on macOS Big Sur) closed by Greg Couch
fixed: Version 1.8.1 of the maestro bundle, with the fixed dependency, is on …
4:54 PM Ticket #4111 (Cannot install Maestro file reader from Toolshed on macOS Big Sur) created by goddard@…
[…]
11:38 AM Ticket #4105 (Amber Solvate not responding) closed by pett
nonchimerax: Hi Sam, Since the solvation tool in Amber is designed to be used in …
11:25 AM Ticket #4110 (Crash performing @selector(onOkClicked)) created by apadavannil@…
[…]
11:06 AM Ticket #4108 (Log chain table selection selects nothing) closed by pett
fixed: Chain-selection table entry now handles circular permutations.
9:13 AM Ticket #4109 (Save dialog: 'SaveModelOptionWidget' object has no attribute '_name') closed by pett
duplicate: Hi Ryan, Thanks for reporting this problem. It has been fixed in the …
4:30 AM Ticket #4109 (Save dialog: 'SaveModelOptionWidget' object has no attribute '_name') created by rmccool@…
[…]

Jan 4, 2021:

6:56 PM Ticket #4108 (Log chain table selection selects nothing) created by goddard@…
[…]
5:12 PM Ticket #4103 ('Ribbon' object has no attribute '_flip_mode') closed by Tom Goddard
fixed: You are using old ChimeraX version 0.93. The current version is …
4:48 PM Ticket #4099 (No matching residues in matchmaker sequence alignment) closed by pett
fixed: When adding the code to show the RMSD header in the alignment, managed …
3:20 PM Ticket #4107 (Toolshed offers to install bundle that requires core<=1.1 in ChimeraX ...) created by goddard@…
[…]
3:11 PM Ticket #4106 (Toolshed install of StrudelScore fails, apparently wheel file has ...) created by goddard@…
[…]
3:07 PM Ticket #4100 (glUniformMatrix4fv: invalid operation) closed by Tom Goddard
can't reproduce: This was an OpenGL graphics error in glUniformMatrix4fv (Invalid …
2:20 PM Ticket #4104 (Toolshed error in "already installed" message) closed by Tom Goddard
duplicate: Duplicate of #3795
1:37 PM Ticket #4105 (Amber Solvate not responding) created by samglaser1997@…
[…]
1:32 PM Ticket #4104 (Toolshed error in "already installed" message) created by goddard@…
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1:31 PM Ticket #4103 ('Ribbon' object has no attribute '_flip_mode') created by zxz964@…
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10:08 AM Ticket #4102 (Excessive logging of already satisfied dependencies) created by goddard@…
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9:31 AM Ticket #3929 (Added NH2 saved after TER) closed by pett
not a bug: Presumably the same as #3892; fixed by using struct_edit.add_bond() in …
9:30 AM Ticket #3892 (chain merge not reordering residues) closed by pett
not a bug: Ah. I have now added text to various doc strings to mention using …

Dec 31, 2020:

4:23 PM ChangeLog edited by Elaine Meng
(diff)
2:17 PM Ticket #4101 (Problem downloading ChimeraX: "The URL you used has expired") created by bperezzamorano@…
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1:25 PM Ticket #4100 (glUniformMatrix4fv: invalid operation) created by unidadbiomodelos3d@…
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11:57 AM Ticket #4098 (Session file not recognized) closed by pett
not a bug: Turns out the extension should have been .cxc
4:20 AM Ticket #4099 (No matching residues in matchmaker sequence alignment) created by yoavnavott@…
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Dec 30, 2020:

5:08 PM Ticket #3055 (Add ParmEd to ChimeraX's standard bundles) closed by pett
fixed: Installed ParmEd as a prereq. It adds 4.6M to the distribution (on Mac).
4:25 PM Ticket #4084 (Wrong numpy parsing in Coulombic C++ module) closed by pett
fixed: Thanks, have fixed that up. I found the documentation in the various …
9:58 AM Ticket #4098 (Session file not recognized) created by arecco.niccolo@…
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9:44 AM Ticket #4097 (Error in error message reinstalling bundle) closed by pett
duplicate
8:22 AM Ticket #4097 (Error in error message reinstalling bundle) created by chimerax-bug-report@…
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Dec 29, 2020:

10:52 AM Ticket #4096 (ISOLDE: setting text of deleted QLabel) created by cxiao@…
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