Timeline



Dec 3, 2020:

4:09 PM Ticket #4013 (macOS daily build, "developer can't be verified", even though ...) created by goddard@…
[…] Screen Shot 2020-12-03 at 4.06.17 PM.png
2:24 PM Ticket #4012 (Error restoring session with embedded maps; text-color issue in bug ...) created by grahamj@…
[…] withMaps.cxs
2:23 PM 2020-12-3 edited by Tom Goddard
(diff)
2:22 PM 2020-12-3 edited by Tom Goddard
(diff)
1:50 PM Ticket #4011 (add ability to update bundle metadata of bundles in toolshed) created by Greg Couch
When a bundle on the toolshed has incorrect dependencies, eg., …
1:05 PM 2020-12-3 edited by Scooter Morris
(diff)
1:04 PM 2020-12-3 edited by Scooter Morris
(diff)
1:01 PM 2020-12-3 edited by Scooter Morris
(diff)
12:55 PM 2020-12-3 edited by Scooter Morris
(diff)
12:54 PM 2020-12-3 edited by Scooter Morris
(diff)
11:02 AM Ticket #3984 (ViewDockX: Uncaught TypeError) closed by pett
fixed: Was trying to scroll to show the top active row, and in this case …
10:58 AM NeteSOW edited by Tom Goddard
(diff)
9:36 AM 2020-12-3 edited by Tom Goddard
(diff)
9:36 AM 2020-12-3 edited by Tom Goddard
(diff)
9:03 AM Ticket #4009 (Double click open of mmCIF fails on Linux) closed by pett
fixed: Good ol' Linux. I have committed a fix/workaround -- which I can't …
7:13 AM Ticket #4010 (Adding second residue to Chain makes new Chain) created by daniel.palma.i@…
[…] pseudobond_test.py

Dec 2, 2020:

9:46 PM 2020-12-3 edited by Tom Goddard
(diff)
9:27 PM Ticket #4009 (Double click open of mmCIF fails on Linux) created by goddard@…
[…]
8:53 PM 2020-12-3 created by Tom Goddard
8:48 PM DeveloperMeetings edited by Tom Goddard
(diff)
6:25 PM Ticket #4008 (Unable to install bundle with mdtraj (source code package) dependency) created by jacknicoludis@…
[…]
9:20 AM Ticket #4006 (AddH: can't form new hydrogen name) closed by pett
duplicate: Duplicate of #2717
7:56 AM Ticket #4007 (RFE: sym command "replace true" or "keepOriginal false" option) created by Elaine Meng
Would like option that modifies "copies true" to also close the …
7:32 AM Ticket #4006 (AddH: can't form new hydrogen name) created by chimerax-bug-report@…
[…]
2:48 AM Ticket #4005 ('Alignment' object has no attribute '_headers') created by zhaozhennan15@…
[…]

Dec 1, 2020:

7:20 PM Ticket #3997 (Change sym command default to avoid confusing graphical clones) closed by Tom Goddard
fixed: Fixed. Default for copies option is now true for 12 or fewer copies …
6:55 PM Ticket #4004 (sym command copies true option ignored if newModel true option used) closed by Tom Goddard
fixed: Fixed. Not sure why the code mishandled this case. Must have been …
6:51 PM Ticket #4004 (sym command copies true option ignored if newModel true option used) created by goddard@…
[…]
5:30 PM Ticket #3990 (EnumOf using values instead of labels in error message) closed by Greg Couch
fixed: Fixed the error message to use the ids.
5:03 PM Ticket #3993 (issue with AtomicShapeDrawing.add_shape) closed by Greg Couch
fixed: FYI, if you are adding lots of shapes, it is much more efficient to …
4:39 PM Ticket #3996 (PyPi dependencies not installed by "devel install".) closed by Greg Couch
fixed: Make it so both the bundle's name *and* its version have to be the …
4:06 PM ChangeLog edited by Tom Goddard
(diff)
4:01 PM ChangeLog edited by Tom Goddard
(diff)
3:58 PM ChangeLog edited by Tom Goddard
(diff)
3:55 PM ChangeLog edited by Tom Goddard
(diff)
3:52 PM ChangeLog edited by Tom Goddard
(diff)
3:44 PM ChangeLog edited by Tom Goddard
(diff)
3:44 PM ChangeLog edited by Tom Goddard
(diff)
3:42 PM ChangeLog edited by Tom Goddard
(diff)
3:39 PM ChangeLog edited by Tom Goddard
(diff)
3:36 PM ChangeLog edited by Tom Goddard
(diff)
3:35 PM ChangeLog edited by Tom Goddard
(diff)
3:31 PM ChangeLog edited by Tom Goddard
(diff)
3:28 PM ChangeLog edited by Tom Goddard
(diff)
3:25 PM ChangeLog edited by Tom Goddard
(diff)
3:24 PM ChangeLog edited by Tom Goddard
(diff)
3:20 PM ChangeLog edited by Tom Goddard
(diff)
1:28 PM Ticket #4003 (OpenMM OpenCL crash on Mac in Intel graphics driver) created by chimerax-bug-report@…
[…]
11:32 AM ChangeLog edited by Tom Goddard
(diff)
11:19 AM Ticket #4002 (LZ4 compression instead of gzip for maps in session files) closed by Tom Goddard
fixed: Fixed. Made maps included in sessions not compressed. Overall …
10:37 AM Ticket #4001 (Don't base64 encode maps in session files) closed by Tom Goddard
fixed: Fixed. Session reading handles both base64 encoded older sessions and …
10:34 AM Ticket #4002 (LZ4 compression instead of gzip for maps in session files) created by goddard@…
[…]
10:30 AM Ticket #4001 (Don't base64 encode maps in session files) created by goddard@…
[…]

Nov 30, 2020:

9:47 PM Ticket #4000 (SEQCROW uses deprecated PyQt5 imports) created by goddard@…
[…]
6:40 PM Ticket #3999 (Toolshed offers to install ISOLDE for wrong Python version then fails) created by goddard@…
[…]
6:37 PM Ticket #3998 (TEMPy does not start with ChimeraX 1.1) reopened by Tom Goddard
Accidentally set this to fixed. It is not fixed until a new version …
6:34 PM Ticket #3998 (TEMPy does not start with ChimeraX 1.1) closed by Tom Goddard
fixed: Thomas Mulvaney says TEMPy does not work in anything newer than …
6:25 PM Ticket #3998 (TEMPy does not start with ChimeraX 1.1) created by goddard@…
[…]
5:22 PM Ticket #3383 (Redirect Python logging to the ChimeraX log) closed by pett
fixed: Okay, standard Python logging now redirected. Mostly used the …
3:44 PM Ticket #3992 (vr roomCamera: CompositorError_TextureUsesUnsupportedFormat) closed by Tom Goddard
can't reproduce: Cool to see someone is trying VR with a RealSense camera I guess to …
3:25 PM Ticket #3936 (Hybrid36 issues) closed by pett
fixed: Hi Chris, Thanks for reporting this problem. Before Hybrid-36 was …
2:54 PM Ticket #3997 (Change sym command default to avoid confusing graphical clones) created by Tom Goddard
As Elaine points out and user Yakhomba experienced the sym command …
2:36 PM Ticket #3996 (PyPi dependencies not installed by "devel install".) created by mulvaney@…
Command devel install of a bundle does not install PyPi dependencies …
11:36 AM Ticket #3995 (MemoryError writing compressed session) closed by Tom Goddard
nonchimerax: The ChimeraX error messages you ran out of memory saving a session. …
11:20 AM Ticket #3995 (MemoryError writing compressed session) created by anaschwarzer@…
[…]
9:44 AM Ticket #3991 (temp file collision) closed by pett
fixed: Hi Tristan, This has been fixed for about 2.5 months now, but it's …

Nov 29, 2020:

4:27 PM Ticket #3994 (Crash in timer callback) created by nzhang24@…
[…]

Nov 28, 2020:

12:01 AM Ticket #3993 (issue with AtomicShapeDrawing.add_shape) created by Tony Schaefer
[…]

Nov 27, 2020:

9:03 PM Ticket #3992 (vr roomCamera: CompositorError_TextureUsesUnsupportedFormat) created by chimerax-bug-report@…
[…]
1:36 PM Ticket #3991 (temp file collision) created by Tristan Croll
[…]
11:06 AM Ticket #3989 ("volume boxes" attempts to a model to scene twice) closed by Tom Goddard
fixed: Fixed in tonight's ChimeraX daily builds. Volume boxes command was …
10:51 AM Ticket #3972 (ChimeraX OpenGL startup issue after updating system to Ubuntu 20.04) closed by Tom Goddard
nonchimerax: Thanks for the info. Glad it is working now.
10:33 AM Ticket #3988 (Crash on Big Sur with unhelpful stack) closed by Tom Goddard
can't reproduce
9:28 AM Ticket #3987 (Crash in Apple graphics driver) closed by pett
can't reproduce
9:22 AM Ticket #3981 (coulombic missing) closed by pett
duplicate
9:20 AM Ticket #3980 (coulombic missing) closed by pett
not a bug: Hi, The "coulombic" command is only in 1.1 and newer. You will need …
9:08 AM ChangeLog edited by pett
(diff)
6:51 AM Ticket #3990 (EnumOf using values instead of labels in error message) created by daniel.palma.i@…
[…]
5:48 AM Ticket #3989 ("volume boxes" attempts to a model to scene twice) created by caillancm@…
[…]
4:46 AM Ticket #3988 (Crash on Big Sur with unhelpful stack) created by chimerax-bug-report@…
[…]

Nov 26, 2020:

9:58 AM Ticket #3987 (Crash in Apple graphics driver) created by chimerax-bug-report@…
[…]

Nov 25, 2020:

10:33 PM Ticket #3986 (Volume Viewer step/style menus only accept press in middle macOS, Qt 5.15) created by goddard@…
[…]
8:59 PM Ticket #3985 (Modeller: UnboundLocalError: local variable 'target_name') created by goddard@…
[…]
7:40 PM Ticket #3984 (ViewDockX: Uncaught TypeError) created by goddard@…
[…]
7:30 PM Ticket #3983 (Update Tool: No matching distribution found for ChimeraX-RMF==0.9) created by goddard@…
[…]
7:16 PM Ticket #3982 (Numpy VisibleDeprecationWarning in Toolbar settings) created by goddard@…
[…]
7:01 PM Ticket #3981 (coulombic missing) created by wuxiaoxian@…
[…] coulombic problems.jpeg
7:00 PM Ticket #3980 (coulombic missing) created by chimerax-bug-report@…
[…] coulombic problems.jpeg
5:48 PM Ticket #3979 (Testing bug reporting with pyside2) closed by Tom Goddard
not a bug: Works fine.
5:47 PM Ticket #3979 (Testing bug reporting with pyside2) created by goddard@…
[…] bundle_info.xml
4:02 PM Ticket #3976 (pixel format not supported by webcam command) closed by Tom Goddard
fixed: Fixed in tomorrow's ChimeraX daily builds. Thanks for reporting the …
2:09 PM Ticket #3978 (glGetFramebufferAttachmentParameteriv: invalid operation) closed by Tom Goddard
nonchimerax: The ChimeraX error is due to buggy graphics driver. Your graphics …
1:33 PM Ticket #3978 (glGetFramebufferAttachmentParameteriv: invalid operation) created by tahjib@…
[…]
11:18 AM Ticket #3977 (glDrawBuffer: invalid operation) closed by Tom Goddard
can't reproduce: The OpenGL man page for glDrawBuffer suggests …
7:29 AM Ticket #3977 (glDrawBuffer: invalid operation) created by chimerax-bug-report@…
[…]
1:56 AM Ticket #3976 (pixel format not supported by webcam command) created by cgalicia@…
[…]

Nov 24, 2020:

5:54 PM Ticket #3975 (Show sequence AttributeError: 'set' object has no attribute '_c_pointer') closed by Tom Goddard
fixed: Fixed on develop branch by Eric a week ago. I could merge it into the …
4:22 PM Ticket #3975 (Show sequence AttributeError: 'set' object has no attribute '_c_pointer') created by goddard@…
[…]

Nov 23, 2020:

10:46 AM Ticket #3973 (Map fitting: fmap is None) closed by Tom Goddard
duplicate: Duplicate of #3559. Fixed 4 months ago, fixed in ChimeraX 1.1.
7:58 AM Ticket #3974 (Something broke in the PBD look up) created by Hans-Christian.Reinecker@…
[…] [attachment:"SLFN5 …
6:26 AM Ticket #3973 (Map fitting: fmap is None) created by chimerax-bug-report@…
[…]
4:41 AM Ticket #3972 (ChimeraX OpenGL startup issue after updating system to Ubuntu 20.04) created by luca.jovine@…
[…]

Nov 21, 2020:

10:57 AM Ticket #3971 ('OpenMM_Thread_Handler' object has no attribute '_c_pointer') created by kartik.manne@…
[…]

Nov 20, 2020:

7:03 PM Ticket #3970 (Can ChimeraX use GPL licensed QtCharts) created by tony.schaefer@…
QtCharts is a module for making plots that is an alternative to …
3:13 PM Ticket #3687 (Find a way for VR meeting to handle firewalls) closed by Tom Goddard
fixed: Added GUI panel. Allows choosing different proxy servers. Tested …
10:58 AM Ticket #3969 ("toolshed install" doesn't work with custom bundle) created by daniel.palma.i@…
[…]
10:42 AM Ticket #3968 (map save error) closed by pett
fixed: Hi Rene, This will work in tomorrow's daily build. Until then, you …
9:31 AM Ticket #3968 (map save error) reopened by pett
Tom, All save keywords except for "models" are currently being …
9:15 AM Ticket #3968 (map save error) closed by pett
not a bug: Hi Rene, The keyword is 'maskZone', not 'zoneMask'. --Eric Eric …
9:07 AM Ticket #3968 (map save error) created by r.frank@…
[…]
8:16 AM Ticket #3967 (Toolshed json parsing error and volume session-restore error) created by chimerax-bug-report@…
[…]
5:25 AM Ticket #3966 (Clipper: Failure to read BUSTER MTZ file) created by erwin.pannecoucke@…
[…]
12:33 AM Ticket #3961 (Splash screen font size off for "restart action") closed by Greg Couch
fixed: It's currently sess.ui.splash_info("Restart action:\n%s" % line)

Nov 19, 2020:

6:46 PM Ticket #3965 (Dual display mac crash clicking menus) closed by Tom Goddard
duplicate: Similar to #3962
6:45 PM Ticket #3964 (Dual display mac crash clicking menus) closed by Tom Goddard
duplicate: Similar to #3962
6:43 PM Ticket #3963 (mac dual display crash clicking menus) closed by Tom Goddard
duplicate
6:41 PM Ticket #3965 (Dual display mac crash clicking menus) created by goddard@…
[…]
6:31 PM Ticket #3964 (Dual display mac crash clicking menus) created by goddard@…
[…]
6:21 PM Ticket #3963 (mac dual display crash clicking menus) created by goddard@…
[…]
5:57 PM Ticket #3959 (splash_info() called with incorrect args in nogui mode) closed by Greg Couch
fixed: The bug is that the nogui splash_info not treating those arguments as …
4:37 PM Ticket #3483 (Crash in garbage collection during session restore) closed by Greg Couch
can't reproduce: Need more information.
4:26 PM NeteSOW edited by Tom Goddard
(diff)
4:23 PM Ticket #3962 (Dual display crash showing tool tip) closed by Tom Goddard
can't reproduce: Other similar QToolTip crashes don't have sub event loop processing …
4:08 PM NeteSOW edited by Tom Goddard
ui-1 contains 46 zero bytes. Usually this is a short text file of … (diff)
4:02 PM DeveloperMeetings edited by Tom Goddard
(diff)
4:01 PM DeveloperMeetings2019 created by Tom Goddard
4:01 PM DeveloperMeetings edited by Tom Goddard
(diff)
3:59 PM 2020-11-19 edited by Tom Goddard
(diff)
2:10 PM NeteSOW edited by Elaine Meng
(diff)
2:10 PM NeteSOW edited by Elaine Meng
(diff)
1:44 PM NeteSOW edited by Elaine Meng
(diff)
1:44 PM Ticket #3962 (Dual display crash showing tool tip) created by chimerax-bug-report@…
[…]
12:54 PM 2020-11-19 edited by Elaine Meng
(diff)
12:40 PM 2020-11-19 edited by Scooter Morris
(diff)
12:37 PM 2020-11-19 edited by Elaine Meng
(diff)
12:34 PM 2020-11-19 edited by Scooter Morris
(diff)
12:34 PM 2020-11-19 edited by Scooter Morris
(diff)
12:33 PM 2020-11-19 edited by Elaine Meng
(diff)
12:32 PM 2020-11-19 edited by Elaine Meng
(diff)
12:31 PM 2020-11-19 edited by Elaine Meng
(diff)
12:25 PM 2020-11-19 edited by Elaine Meng
(diff)
12:21 PM 2020-11-19 edited by Elaine Meng
(diff)
12:05 PM 2020-11-19 edited by Tom Goddard
(diff)
11:06 AM 2020-11-19 created by Tom Goddard
11:01 AM DeveloperMeetings edited by Tom Goddard
(diff)
10:06 AM Ticket #3961 (Splash screen font size off for "restart action") created by Tristan Croll
[…] splash_screen.png
10:06 AM Ticket #3957 (FloatOption: name 'singleStep' is not defined) closed by pett
fixed
9:12 AM Ticket #3960 (Crash in garbage collection during new-object allocation) created by cassiezhang9@…
[…]
4:20 AM Ticket #3959 (splash_info() called with incorrect args in nogui mode) created by Tristan Croll
[…]

Nov 18, 2020:

8:03 PM Ticket #3958 (Better meeting network performance, msgpack) created by Tom Goddard
Would be good to replace the current ChimeraX meeting command network …
8:03 PM Ticket #3957 (FloatOption: name 'singleStep' is not defined) created by daniel.palma.i@…
[…]
7:49 PM Ticket #3875 (Setup a meeting name server) closed by Tom Goddard
fixed: Done. Used a simple custom Python name server to have desired …
7:43 PM Ticket #3878 (Remember VR meeting proxy settings) closed by Tom Goddard
fixed: Done. The meeting access command and meeting settings command control …
7:41 PM Ticket #3879 (Add a meeting settings panel) closed by Tom Goddard
fixed: Done. Menu Tools / General / Meeting.
5:54 PM NeteSOW edited by Tom Goddard
(diff)
5:46 PM NeteSOW edited by Tom Goddard
(diff)
1:40 PM Ticket #3956 (Crash in garbage collection during new-object allocation) created by cassiezhang9@…
[…]
11:46 AM Ticket #3951 (Mistaken use of caret operator) closed by pett
fixed
11:37 AM Ticket #3950 (After closing some models from restored session, session save fails) closed by Tom Goddard
duplicate: I think I figured out the bug. The problem is that that the session …
10:59 AM Ticket #3953 (Crash in Apple graphics driver) closed by Tom Goddard
nonchimerax: Mac Intel graphics driver crash when drawing scene. Graphics hardware …
10:00 AM Ticket #3955 (Crash in set_sseq_chain_id) closed by pett
duplicate: Duplicate of #3954
9:58 AM Ticket #3954 (Crash in set_sseq_chain_id) closed by pett
can't reproduce: The stack above set_sseq_chain_id makes no sense.
9:53 AM Ticket #3952 (Error in error message reinstalling bundle) closed by pett
duplicate: Hi Andras, Thanks for reporting this problem. We have had one other …
9:44 AM Ticket #3955 (Crash in set_sseq_chain_id) created by chimerax-bug-report@…
[…]
9:36 AM Ticket #3954 (Crash in set_sseq_chain_id) created by chimerax-bug-report@…
[…]
9:33 AM Ticket #3953 (Crash in Apple graphics driver) created by chimerax-bug-report@…
[…]
6:23 AM Ticket #3952 (Error in error message reinstalling bundle) created by szilagyi.andras@…
[…]

Nov 17, 2020:

3:06 PM Ticket #3951 (Mistaken use of caret operator) created by daniel.palma.i@…
[…]
2:53 PM Ticket #3950 (After closing some models from restored session, session save fails) created by claudia.mueller@…
[…]
9:01 AM Ticket #3949 (Crash while garbage collecting during object allocation) closed by pett
can't reproduce
8:53 AM Ticket #3948 (Problems coloring by residue number) closed by pett
fixed: As per Elaine's mail on chimerax-users, this was fixed a few days ago.
8:52 AM Ticket #3947 ('Alignment' object has no attribute '_headers') closed by pett
duplicate: Hi, Thanks for reporting this problem. It was fixed a few days after …
4:01 AM Ticket #3949 (Crash while garbage collecting during object allocation) created by chimerax-bug-report@…
[…]
12:55 AM Ticket #3948 (Problems coloring by residue number) created by Tristan Croll
[…]

Nov 16, 2020:

11:17 PM Ticket #3947 ('Alignment' object has no attribute '_headers') created by zhaozhennan15@…
[…]
5:15 PM Ticket #3927 (Saving files not producing file-history entries) closed by pett
fixed: Changed the name of a method and missed one use of it.
2:59 PM Ticket #3946 (Make OpenFileNameArg check that file exists) created by Tom Goddard
Would be convenient if OpenFileNameArg checked that the file exists so …
2:49 PM Ticket #1560 (Need command style guide) closed by pett
fixed: Placed the style guide into the docs and linked to it in various …
10:16 AM Ticket #3943 (Loading scipy: Cannot find the specified module) closed by Tom Goddard
duplicate: Duplicate of #3227 which was fixed in ChimeraX 1.1 by Greg Couch.
10:08 AM Ticket #3942 (Crash showing context menu on Mac, dual display) closed by Tom Goddard
can't reproduce: Appears to be Qt bug, possibly related to using 2 displays. Crash …
9:48 AM Ticket #3945 (Error saving settings) closed by pett
duplicate: Hi Mika, Thanks for reporting this problem. The code generating the …
9:39 AM Ticket #3944 (add_modified() not handling sets) closed by pett
duplicate: Hi Valentyn, Thanks for reporting this problem. Due to an oversight, …
9:31 AM Ticket #3941 (add_modified() not handling sets) closed by pett
fixed
3:38 AM Ticket #3945 (Error saving settings) created by s1960571@…
[…]

Nov 15, 2020:

6:59 PM Ticket #3944 (add_modified() not handling sets) created by sitins07@…
[…]

Nov 14, 2020:

1:05 AM Ticket #3943 (Loading scipy: Cannot find the specified module) created by chimerax-bug-report@…
[…]

Nov 13, 2020:

10:18 PM Ticket #3942 (Crash showing context menu on Mac, dual display) created by chimerax-bug-report@…
[…]
5:21 PM Ticket #3938 (command "color zone" with "sharpEdges true" makes surface cap on map ...) closed by Tom Goddard
fixed: Fixed. Color zone with sharp edges retriangulates the surface and …
4:33 PM Ticket #3939 (Volume bounds problem, ValueError: could not broadcast input array) closed by Tom Goddard
fixed: Fixed. Remarkably Volume.writable_copy(subregion=...) was not …
4:32 PM Ticket #3905 (Traceback when Update Bundles cancelled) closed by Greg Couch
fixed: Unable to reproduce this. Switched to suggested fix.
3:59 PM Ticket #3940 (VR meeting error, Oculus runtime crashed) closed by Tom Goddard
can't reproduce: I am going to chalk this up to unstable Oculus runtime. If I see it …
3:09 PM Ticket #3941 (add_modified() not handling sets) created by chimerax-bug-report@…
[…]
3:02 PM Ticket #3940 (VR meeting error, Oculus runtime crashed) created by goddard@…
[…]
11:24 AM Ticket #3939 (Volume bounds problem, ValueError: could not broadcast input array) created by goddard@…
[…]
11:04 AM Ticket #3934 (SS info not saved by mmCIF) closed by Greg Couch
not a bug: The mmCIF writer generates it output based on ChimeraX internal data …
9:48 AM Ticket #3937 (Error in save error message) closed by pett
duplicate: Fixed on 10/5/2020
9:44 AM Ticket #3935 (Traceback when Update Bundles cancelled) closed by pett
duplicate: Duplicate of #3905
9:35 AM Ticket #3938 (command "color zone" with "sharpEdges true" makes surface cap on map ...) created by Elaine Meng
[…]
8:21 AM Ticket #3937 (Error in save error message) created by chimerax-bug-report@…
[…]
6:41 AM Ticket #3936 (Hybrid36 issues) created by chris.moth@…
[…] ENSP00000343764.6_133_chimeraX.pdb
5:27 AM Ticket #3935 (Traceback when Update Bundles cancelled) created by chimerax-bug-report@…
[…]
5:25 AM Ticket #3934 (SS info not saved by mmCIF) created by chris.moth@…
[…] 4cox_chimeraX.cif

Nov 12, 2020:

12:55 PM NeteSOW edited by pett
(diff)
12:44 PM NeteSOW edited by Elaine Meng
(diff)
11:34 AM Ticket #3896 (Bundle install fails with new version: "already installed") closed by Greg Couch
duplicate: Fixed. Duplicate of #3795.
11:33 AM Ticket #3795 (Multiple errors related to bundle installation) closed by Greg Couch
fixed: Fixed. Bug was due to polymorphic argument to function.
10:43 AM Ticket #3861 (Contacting Toolshed blocks startup) closed by Greg Couch
fixed
9:31 AM Ticket #3933 (Cannot save command history) closed by pett
can't reproduce: *Might* have been fixed by embedding PID into temp file name.
9:14 AM Ticket #3933 (Cannot save command history) created by chimerax-bug-report@…
[…]

Nov 11, 2020:

9:40 AM Ticket #3932 (Permission denied saving image) closed by pett
not a bug: Hi, You are getting "Permission denied" because you are trying to …
9:26 AM Ticket #3931 (Permission denied saving image) closed by pett
duplicate

Nov 10, 2020:

8:05 PM Ticket #3932 (Permission denied saving image) created by 352884536@…
[…]
7:03 PM Ticket #3931 (Permission denied saving image) created by chimerax-bug-report@…
[…]
6:54 PM Ticket #3930 (Toolshed install hkcage does not use new command without restart) created by goddard@…
[…]
2:46 PM Ticket #3385 (Don't spam log with volume color change commands) closed by Tom Goddard
fixed: Fixed. I added a "color_pause" signal to ColorButton that fires after …
9:45 AM Ticket #3929 (Added NH2 saved after TER) created by Tristan Croll
[…]

Nov 9, 2020:

10:46 PM Ticket #3928 (add mouse modes and pull down menus to toolbar customization) created by Greg Couch
Currently the toolbar Home tab customization does not support mouse …
10:12 PM Ticket #2042 (Old large icons / color-selection dialog) closed by Greg Couch
can't reproduce: Sorry to take so long. I've been unable to reproduce this. And …
7:17 PM Ticket #3921 (Allow rainbow coloring on subsequences of a chain) closed by Greg Couch
duplicate: Can you tell us more about your ChimeraX installation? The version …
7:10 PM Ticket #3719 (Nucleotides: asking for distance from None) closed by Greg Couch
duplicate: This was fixed shortly have 0.93 was released. The bug is part of …
6:08 PM Ticket #3923 (Tether not shown to N-terminal OXT atom, pdb 3rum) closed by Tom Goddard
fixed: Fixed. In the normal situation where the C-terminus has an OXT, the …
5:43 PM Ticket #3927 (Saving files not producing file-history entries) created by goddard@…
[…]
5:37 PM Ticket #3920 (Drawing (map) _colors is None) closed by Tom Goddard
fixed: Fixed in tonight's daily build. Thanks for reporting the error. It …
3:10 PM Ticket #3924 (Graphics "glitchy") closed by Greg Couch
worksforme: Following Tom's recommendation.
3:06 PM Ticket #3904 (Input/output error reading session) closed by Greg Couch
can't reproduce: Unfortunately, I need the session file to reproduce this. And there …
10:25 AM Ticket #3926 (subprocess.run being called with a BundleInfo instance argument) closed by pett
duplicate: Duplicate of #3897
10:23 AM Ticket #3925 (defattr: name 'session' is not defined) closed by pett
fixed: Hi Gabor, Thanks for reporting this problem. It was fixed about 3 …
10:12 AM Ticket #3919 (KeyError deleting models during 'close session') closed by Tom Goddard
can't reproduce: You are using a very old version of ChimeraX 0.93. Current version is …
10:03 AM Ticket #3922 (subprocess.run being called with a BundleInfo instance argument) closed by pett
duplicate: Duplicate of #3897
9:48 AM Ticket #3926 (subprocess.run being called with a BundleInfo instance argument) created by chimerax-bug-report@…
[…]
9:18 AM Ticket #3918 (Qt crash (main window resize?)) closed by pett
can't reproduce
7:38 AM Ticket #3925 (defattr: name 'session' is not defined) created by papai@…
[…]
3:51 AM Ticket #3924 (Graphics "glitchy") created by chimerax-bug-report@…
[…]
1:40 AM Ticket #3923 (Tether not shown to N-terminal OXT atom, pdb 3rum) created by Tristan Croll
[…]

Nov 8, 2020:

8:57 AM Ticket #3922 (subprocess.run being called with a BundleInfo instance argument) created by chimerax-bug-report@…
[…]
6:16 AM Ticket #3921 (Allow rainbow coloring on subsequences of a chain) created by gghanim@…
[…]

Nov 7, 2020:

10:27 AM Ticket #3920 (Drawing (map) _colors is None) created by caillancm@…
[…]

Nov 6, 2020:

9:45 PM Ticket #3919 (KeyError deleting models during 'close session') created by pett
[…]
9:21 AM Ticket #3676 (Out-of-date mmCIF templates) closed by Greg Couch
fixed: Changed the bundled templates to use the version from components.cif …
7:41 AM Ticket #3918 (Qt crash (main window resize?)) created by chimerax-bug-report@…
[…]
12:11 AM Ticket #3897 (subprocess.run being called with a BundleInfo instance argument) closed by Greg Couch
fixed: Fixed installing particular versions of bundles.

Nov 5, 2020:

4:32 PM Ticket #2016 (session window size not restored even though preference is on) closed by pett
fixed: The sequence initially draws itself by laying out 50 characters per …
4:17 PM NeteSOW edited by Elaine Meng
(diff)
2:57 PM NeteSOW edited by Elaine Meng
(diff)
2:55 PM NeteSOW edited by Elaine Meng
(diff)
2:49 PM NeteSOW edited by Elaine Meng
(diff)
2:45 PM Ticket #3917 (ISOLDE: get_symmetry_handler: structure is None) created by s1960571@…
[…]
1:05 PM NeteSOW edited by Tom Goddard
(diff)
1:01 PM NeteSOW edited by Tom Goddard
(diff)

Nov 4, 2020:

9:13 PM Ticket #3800 (Add bundle builder support for Python 3 Stable ABI) closed by Greg Couch
fixed
9:13 PM Ticket #3799 (Toolshed search is not finding bundles) closed by Greg Couch
fixed
9:12 PM Ticket #3901 (Update Bundles dialog too persistent) closed by Greg Couch
fixed: Fixed. The code for detecting if the chosen toolshed had changed, …
8:19 PM NeteSOW edited by Tom Goddard
(diff)
8:17 PM NeteSOW edited by Tom Goddard
(diff)
8:12 PM NeteSOW edited by Tom Goddard
(diff)
7:26 PM Ticket #3891 (Session size 8x larger ChimeraX 1.0 vs 0.92) closed by Tom Goddard
fixed: Fixed. Made lz4 the default compression when saving a session. …
3:39 PM Ticket #3916 (Saving mmCIF files too slow to work with large structures) created by goddard@…
[…]
2:21 PM Ticket #3907 (Crash in graphics driver) closed by Tom Goddard
nonchimerax: Says ChimeraX was using 14.2 Gbytes, a hefty amount. * CFRetain() …
1:30 PM Ticket #3915 (subprocess.run being called with a BundleInfo instance argument) closed by pett
duplicate: Duplicate of #3897
1:27 PM Ticket #3914 (Traceback when Update Bundles cancelled) closed by pett
duplicate: Duplicate of #3905; adding reporter to cc list for that ticket.
1:26 PM Ticket #3913 (Traceback when Update Bundles cancelled) closed by pett
duplicate: Duplicate of #3905
1:23 PM Ticket #3912 (Traceback when Update Bundles cancelled) closed by pett
duplicate: Duplicate of #3905
1:22 PM Ticket #3911 (Traceback when Update Bundles cancelled) closed by pett
duplicate: Duplicate of #3905
12:01 PM Ticket #3906 (Crash during garbage collection) closed by pett
can't reproduce: I've seen this happen more than once, e.g. #3854; #3804; #3762; #3483
7:10 AM Ticket #3915 (subprocess.run being called with a BundleInfo instance argument) created by chimerax-bug-report@…
[…]
2:41 AM Ticket #3914 (Traceback when Update Bundles cancelled) created by david.abbasi_perez@…
[…]
2:39 AM Ticket #3913 (Traceback when Update Bundles cancelled) created by chimerax-bug-report@…
[…]
1:30 AM Ticket #3912 (Traceback when Update Bundles cancelled) created by chimerax-bug-report@…
[…]
1:30 AM Ticket #3911 (Traceback when Update Bundles cancelled) created by chimerax-bug-report@…
[…]

Nov 3, 2020:

10:11 PM Ticket #3910 (Gaussian surfaces for chains not parallelizing well) closed by Tom Goddard
fixed: Fixed. Sum of gaussians C++ code was not releasing the GIL. Added …
7:50 PM Ticket #3910 (Gaussian surfaces for chains not parallelizing well) created by goddard@…
[…]
7:40 PM Ticket #3909 (Large structure 5y6p opens unexpectedly slowly, 27 seconds) created by goddard@…
[…]
7:33 PM Ticket #3908 (Slow surface calculation, 862 chains, 5y6p) closed by Tom Goddard
fixed: Fixed. Now "surf #1 res 20 grid 7" takes 7.5 seconds instead of 153. …
5:32 PM Ticket #3908 (Slow surface calculation, 862 chains, 5y6p) created by goddard@…
[…]
1:59 PM Ticket #3907 (Crash in graphics driver) created by pett
[…]
10:46 AM Ticket #3902 (struts command needs up-to-date graphics) closed by Tom Goddard
fixed: Fixed. Made struts update structure graphics before computing …
10:44 AM Ticket #3906 (Crash during garbage collection) created by chimerax-bug-report@…
[…]
10:21 AM Ticket #3905 (Traceback when Update Bundles cancelled) created by daniel.palma.i@…
[…]
9:16 AM Ticket #3903 (preset command including trailing space in preset name) closed by pett
fixed: Rest-of-line arg needed to be .strip()ed
6:52 AM Ticket #3904 (Input/output error reading session) created by chimerax-bug-report@…
[…]
Note: See TracTimeline for information about the timeline view.