Timeline



Dec 27, 2018:

12:23 PM Ticket #1584 (multi-file open incorrectly logged) created by Elaine Meng
If I use menu: File... Open and use click + Shift-click to choose …

Dec 26, 2018:

9:16 AM Ticket #1583 (Updating 3D label triggers: KeyError: 'setting changed') created by chimerax-bug-report@…
[…]

Dec 23, 2018:

11:15 PM Ticket #1582 (Volume Viewer deleted twice(?)) created by chimerax-bug-report@…
[…]
5:15 AM Ticket #1581 (NameError when deleting from command history) created by chimerax-bug-report@…
[…]

Dec 22, 2018:

9:43 AM Ticket #1580 (Make VR grip button move models) created by Tom Goddard
With oculus touch controllers users often press the grip button …
9:41 AM Ticket #1579 (Make selection mouse mode issue command) created by Tom Goddard
Make selection mouse mode issue an equivalent command when mouse …
9:39 AM Ticket #1578 (Make bond rotation mouse mode issue command) created by Tom Goddard
Want bond rotation mouse mode to issue equivalent command when mouse …
9:37 AM Ticket #1577 (Make volume crop mouse mode issue a command) created by Tom Goddard
Want volume bounds mouse mode to issue an equivalent command when …
9:36 AM Ticket #1576 (Make clip mouse mode issue command) created by Tom Goddard
Make translate and rotate clip planes mouse modes issue a command …
9:35 AM Ticket #1575 (Make volume threshold change on histogram issue command) created by Tom Goddard
When user changes volume contour level or solid rendering transfer …
9:33 AM Ticket #1574 (Make swapaa mouse mode issue command) created by Tom Goddard
When mouse button released after using swapaa mouse mode issue an …
9:30 AM Ticket #1573 (Turn off depth cueing for VR meeting head and hands) created by Tom Goddard
In a VR meeting other people's head and hands vanish due to depth …
8:53 AM Ticket #1572 (Some kind of resizing crash) created by chimerax-bug-report@…
[…]

Dec 21, 2018:

5:58 PM Ticket #1570 (Chain info incorrect when microheterogenicity) closed by Greg Couch
fixed: Found it. In Structure::_delete_atoms it asks for the residue's chain …
4:19 PM Ticket #1571 (Undo selection buggy) created by pett
[…]
1:28 PM Ticket #1544 (AddH: z_align endpoints must be distinct) closed by pett
nonchimerax: The seems to be an error in the 1ggr entry. The coordinates of all …
1:06 PM Ticket #1570 (Chain info incorrect when microheterogenicity) created by pett
For structures with microheterogenicity, the mmCIF reader produces two …
11:07 AM Ticket #1568 (unknown command coordset) closed by pett
fixed
10:56 AM Ticket #1569 (OpenGL startup error: invalid enumerant) created by chimerax-bug-report@…
[…]
8:14 AM Ticket #1568 (unknown command coordset) created by carlos.escalante@…
[…]

Dec 20, 2018:

5:19 PM Ticket #1030 (make "info" report metadata; upon opening file, provide "info" ...) closed by pett
fixed: Okay, #2 implemented, though it only shows the principal citation.
4:36 PM ChangeLog edited by Greg Couch
(diff)
2:27 PM ChangeLog edited by pett
(diff)
1:15 PM Ticket #1566 (Return pressed in help browser is also captured by command line) closed by pett
fixed: Well, "fixed" by having floating windows not forward keystrokes to the …
11:39 AM Ticket #1567 (glDrawBuffer: invalid enumerant) closed by Tom Goddard
can't reproduce: OpenGL error in drag select setting draw buffer to GL_FRONT on Windows …
11:21 AM Ticket #1567 (glDrawBuffer: invalid enumerant) created by chimerax-bug-report@…
[…]
10:54 AM Ticket #1562 (Contradiction in Collection documentation) closed by Tom Goddard
fixed: The current documentation in molarray.py already says: "Collections …
10:11 AM Ticket #1564 (Crash involving QDockWidget) closed by pett
can't reproduce
8:39 AM Ticket #1566 (Return pressed in help browser is also captured by command line) created by Tristan Croll
When logging into the ToolShed, pressing <Enter> after entering my …
7:54 AM Ticket #1565 (Can't upload bundle to ToolShed) created by Tristan Croll
I get the following error: […] If, in my bundle_info.xml I change …
7:20 AM Ticket #1564 (Crash involving QDockWidget) created by chimerax-bug-report@…
[…]
6:40 AM Ticket #1563 (Various ChimeraX startup switches ineffective in Windows) created by Tristan Croll
The following commands just drop back to the shell with no apparent …
2:47 AM Ticket #1562 (Contradiction in Collection documentation) created by Tristan Croll
Minor thing, but... In docstring for atomic.Collection (and similar …

Dec 19, 2018:

9:08 PM Ticket #1561 (Bundle build system does not recompile changed C++ files) created by Tom Goddard
Changing a C++ file in a bundle (such as histogram.cpp in …
6:10 PM Ticket #1559 (vr update trigger: missing head image) closed by Tom Goddard
duplicate: VR head image file path is wrong -- I guess with the escaped spaces. …
4:57 PM Ticket #1560 (Need command style guide) created by Greg Couch
Would like to have guidance for outside developers on how to construct …
2:32 PM Ticket #1559 (vr update trigger: missing head image) created by wilian.cortopassi@…
[…]
1:55 PM Ticket #1558 (Apparent infinite recursion of find_close_points_boxes) closed by Tom Goddard
duplicate: Fixed a few days ago. Get the ChimeraX daily build or 0.8 release. …
1:37 PM Ticket #1558 (Apparent infinite recursion of find_close_points_boxes) created by cody@…
[…]
11:57 AM ChangeLog edited by Elaine Meng
(diff)
11:32 AM Ticket #1555 (Error trying to delete from command history) closed by pett
fixed: Hi Katherine, Thanks for reporting this error. I have committed a …
11:28 AM Ticket #1554 (glClear: invalid enumerant) closed by Tom Goddard
duplicate: Duplicate. Probably bad graphics driver. Intel graphics, Windows 7, …
10:51 AM Ticket #1557 (Bad bond selection) created by pett
When using the tilde operator, bonds remain selected when they …
10:30 AM Ticket #1556 (save command option to exclude hydrogens) closed by pett
wontfix: I'm not going to implement this for two reasons: 1) As of yesterday, …
8:22 AM Ticket #1556 (save command option to exclude hydrogens) created by Tristan Croll
Wanting to save only heavy atoms from a model with hydrogens is a very …
5:34 AM Ticket #1555 (Error trying to delete from command history) created by xmq234@…
[…]
2:52 AM Ticket #1554 (glClear: invalid enumerant) created by chimerax-bug-report@…
[…]

Dec 18, 2018:

5:45 PM Ticket #1547 (Symmetry position atom: LinAlgError("Singular matrix")) closed by pett
fixed
2:53 PM Ticket #1552 (glClear: invalid enumerant) closed by Tom Goddard
can't reproduce: Graphics driver or WIndows 7 problem. Looks like same reporter as …
2:30 PM Ticket #1403 (AddH: skip falsely terminal heavy atoms of standard residues) closed by pett
fixed: Fix available in next daily build
2:23 PM Ticket #1553 (MeetingServer: Must call either listen, or connect, not both) created by chimerax-bug-report@…
[…]
1:01 PM Ticket #1552 (glClear: invalid enumerant) created by chimerax-bug-report@…
[…]
11:16 AM Ticket #1551 (Model.get_selected() doesn't consider child Drawings) closed by Tom Goddard
fixed: Ok. This behavior was intentional. If a Model has Drawing children it …
11:02 AM Ticket #1550 (glClear: invalid enumerant) closed by Tom Goddard
can't reproduce: Appears to be inadequate OpenGL 3.3 producing an error on …
8:24 AM Ticket #1551 (Model.get_selected() doesn't consider child Drawings) created by Tristan Croll
The symptoms mainly show up in the Model Panel "Selected" column. If a …
5:16 AM Ticket #1550 (glClear: invalid enumerant) created by chimerax-bug-report@…
[…]

Dec 17, 2018:

5:53 PM Milestone 0.8 completed
== Chimera Features * mask map with surface #1337 * map statistics …
5:18 PM ChangeLog edited by Greg Couch
(diff)
4:44 PM Ticket #1549 (AddH: More than 2 coplanar positions specified!) created by lpravda@…
[…]
3:48 PM Ticket #1548 (KeyError while writing mmCIF) created by lpravda@…
[…] 1f8p_assembly.cif
2:37 PM Ticket #1547 (Symmetry position atom: LinAlgError("Singular matrix")) created by lpravda@…
[…] 1dwx_assembly.cif
1:42 PM Ticket #1545 (AddH: 'Atom' object has no attribute 'oslIdent') closed by pett
fixed: Hydrogen-addition has its own internal bug reporting when "cannot …
1:39 PM Ticket #1543 (Help Viewer: "help help:user": KeyError: 'href') closed by Greg Couch
fixed: Fixed on Oct 25th.
1:07 PM Ticket #1541 (AddH: skip falsely terminal heavy atoms of standard residues) closed by pett
duplicate: Truncated arginine; duplicate of #1403
11:37 AM Ticket #1538 (NameError: name 'p' is not defined) closed by pett
fixed: Hi Sarah, Also. this problem was fixed in April, but only affects …
9:50 AM Ticket #1546 ("Nightly build" system for Tool Shed) created by Tristan Croll
It would be great if the Tool Shed had a facility to upload regular …
7:03 AM Ticket #1545 (AddH: 'Atom' object has no attribute 'oslIdent') created by lpravda@…
[…]
6:58 AM Ticket #1544 (AddH: z_align endpoints must be distinct) created by lpravda@…
[…]
6:52 AM Ticket #1543 (Help Viewer: "help help:user": KeyError: 'href') created by chimerax-bug-report@…
[…]
6:52 AM Ticket #1542 (Handle microheterogenicity in PDB files) created by lpravda@…
[…]
6:50 AM Ticket #1541 (AddH: skip falsely terminal heavy atoms of standard residues) created by lpravda@…
[…]
5:47 AM Ticket #1540 (AddH: no lone pairs on acceptor) created by lpravda@…
[…]
5:39 AM Ticket #1539 (AddH: incorrect removal from hbond_info) created by lpravda@…
[…]

Dec 16, 2018:

7:05 PM Ticket #1538 (NameError: name 'p' is not defined) created by s.piper@…
[…]

Dec 14, 2018:

4:06 PM Ticket #1536 (Saving prefs: unhashable type: 'weakproxy') closed by pett
fixed: Using a proxy for settings object is problematic because it is …
1:52 PM Ticket #1536 (Saving prefs: unhashable type: 'weakproxy') created by Greg Couch
[…]
1:24 PM Ticket #1535 (Bild: 'Place' object has no attribute 'tranform_normals') closed by Greg Couch
duplicate: Duplicate of #1533.
9:59 AM ChangeLog edited by Elaine Meng
(diff)
12:55 AM Ticket #1535 (Bild: 'Place' object has no attribute 'tranform_normals') created by chimerax-bug-report@…
[…]

Dec 13, 2018:

11:53 PM Ticket #1534 (Machine-friendly REST interface) created by Tristan Croll
I've been learning how to use the existing REST ChimeraX interface, …
6:10 PM Ticket #1530 (volume surfaceSmoothing command: cannot import name ...) closed by Tom Goddard
fixed: Fixed. Surface smoothing C++ code had not been ported from Chimera to …
5:28 PM Ticket #1529 (Interrupt of (slow?) drawing) closed by Tom Goddard
can't reproduce: No idea what the problem was -- they hit ctrl-C probably in the shell …
4:15 PM Ticket #1533 (ChimeraX bug report submission) closed by Tom Goddard
fixed: Fixed. Typo when converting geometry transform function call.
2:57 PM Ticket #1516 (command-line breaks when a command is a prefix of another command ...) closed by Greg Couch
fixed: clip vs clipper will be handled by having the standard commands bundle …
2:50 PM Ticket #1533 (ChimeraX bug report submission) created by Elaine Meng
[…] simple.bild
2:47 PM 2018-12-13 created by Tom Ferrin
2:11 PM DeveloperMeetings edited by Tom Ferrin
(diff)
12:13 PM Ticket #1532 (Improve deferring of subcommand registration) created by Greg Couch
When a subcommand of a deferred command is registered, the parent …
11:49 AM Ticket #1325 (RFE: include named targets in sessions) closed by Conrad Huang
fixed: Should be fixed by deddf4186.
7:09 AM Ticket #1531 (session.models.assign_id() failure) created by Tristan Croll
Clipper's Symmetry_Manager class is designed to take over control of …
4:48 AM Ticket #1530 (volume surfaceSmoothing command: cannot import name ...) created by chimerax-bug-report@…
[…]
4:42 AM Ticket #1529 (Interrupt of (slow?) drawing) created by chimerax-bug-report@…
[…]

Dec 12, 2018:

4:20 PM Ticket #1528 (Better chain tracing for prolines with side chain shown) created by olibclarke@…
Oliver requested in ticket #694 that chain traces that include …
3:35 PM Ticket #1526 (mmCIF _entity category not properly formatted) closed by Greg Couch
fixed: Now quote a string if a quote is anywhere in it.
2:32 PM Ticket #1512 (No suitable models found for ViewDockX) closed by Conrad Huang
fixed: Fixed in ea93d0e6d and 38ed87e9c. Instead of …
12:48 PM Ticket #1527 (RFE: include named targets in sessions) closed by pett
duplicate: Hi George, This is a known issue that we hope to fix sooner rather …
12:43 PM Ticket #1525 (Help Viewer: _generate_index() missing 1 required positional ...) closed by Greg Couch
fixed: Reproduced by clicking on documentation link for a command and then …
11:52 AM Ticket #1527 (RFE: include named targets in sessions) created by gghanim@…
[…]
8:41 AM Ticket #1526 (mmCIF _entity category not properly formatted) created by lpravda@…
[…] 2qaf_h.cif
7:17 AM Ticket #1516 (command-line breaks when a command is a prefix of another command ...) reopened by Tristan Croll
... or not. Not sure why it stopped happening for a while, but it …
5:46 AM Ticket #1525 (Help Viewer: _generate_index() missing 1 required positional ...) created by chimerax-bug-report@…
[…]

Dec 11, 2018:

7:19 PM Ticket #225 (Command to modulate colors) closed by Tom Goddard
fixed
7:17 PM Ticket #259 (Tools should not save in sessions by default) closed by Tom Goddard
fixed: By default tools do not save in sessions -- has been that way for …
7:11 PM Ticket #465 (atomic Collection.subtract() does not preserve element order) closed by Tom Goddard
fixed
7:09 PM Ticket #503 (Allow selection atoms through holes in mesh surface) closed by Tom Goddard
fixed: Selecting atoms through meshes was added a couple years ago.
7:02 PM Ticket #709 (Better sequential stereo rendering parameters) closed by Tom Goddard
fixed: Changed zooming in sequential stereo about a year ago to follow the …
6:59 PM Ticket #710 (Allow switching into sequential stereo after startup) closed by Tom Goddard
fixed: Added about a year ago. Just use "camera stereo" command. It creates …
6:57 PM Ticket #727 (Recently used colors?) closed by Tom Goddard
invalid: I don't see any specific enough suggestion in this request to …
6:48 PM Ticket #775 (add matrix/place attr to C++ Structure) closed by Tom Goddard
fixed
6:44 PM Ticket #786 (need method to reset view to default state) closed by Tom Goddard
not a bug: No specific use case for resetting viewing parameters on close has …
6:28 PM Ticket #990 (Preference setting for orthographic camera mode) closed by Tom Goddard
fixed: This can be done using Preferences / Startup command list adding the …
6:26 PM Ticket #991 (Command to set exact zoom factor for image data) closed by Tom Goddard
fixed: This is done by the zoom pixelSize option, added long ago.
6:25 PM Ticket #1020 (OpenGL 3.3 not available) closed by Tom Goddard
nonchimerax: Inadequate OpenGL.
6:24 PM Ticket #1024 (Add infrastructure such as locks to support C++ thread use) closed by Tom Goddard
not a bug: I think it is impractical to have ChimeraX atomic data changes require …
6:17 PM Ticket #1042 (Open file dialog spews debugging info on Windows) closed by Tom Goddard
fixed: No longer observe this in ChimeraX from Dec 11, 2018.
6:14 PM Ticket #1078 (better mouse mode icon location specification) closed by Tom Goddard
fixed: Made each bundle that defines a mouse mode keep the icon in its own …
6:12 PM Ticket #1087 (Add mouse mode to position 2d labels) closed by Tom Goddard
fixed: Done a few months ago.
6:11 PM Ticket #1111 (VR meeting moving molecule moves other person's user interface pane) closed by Tom Goddard
fixed: Fixed motion of user interface panel.
6:09 PM Ticket #1136 (Allow drag on VR gui panel to adjust volume thresholds) closed by Tom Goddard
fixed: Drags were added a few months ago. It is not so nice to use because …
6:04 PM Ticket #1283 (Use alt key to emulate middle mouse with trackpad on Windows laptops) closed by Tom Goddard
fixed: Made Alt left click emulate right mouse, and Alt Ctrl left click …
5:43 PM Ticket #1523 (Infinite recursion opening mol2 file) closed by Tom Goddard
fixed: Fixed. This structure has 20 atoms exactly on top of each other …
3:59 PM Ticket #1524 (Retain PQR charge information) created by Elaine Meng
The atomic code currently discards the charge information that the …
3:54 PM Ticket #1310 (Help link in Log wrong URL for "bumps" command) closed by Tom Goddard
fixed
3:44 PM Ticket #1523 (Infinite recursion opening mol2 file) created by pett
[…] parm_fb15.mol2
2:39 PM Ticket #1426 (mlp: No module named 'chimerax.core.commands.surface') closed by Tom Goddard
fixed
2:37 PM Ticket #1446 (Crash exiting ChimeraX when VR running) closed by Tom Goddard
can't reproduce: Tried 3 times on the same macOS system and it did not crash. But I …
2:12 PM Ticket #1452 (crosslinks network "select pseudobonds" only selects end atoms) closed by Tom Goddard
fixed: Fixed. Made it select pseudobonds and atoms at end of pseudobonds.
2:01 PM Ticket #1458 (Problem reading TIFF image stack) closed by Tom Goddard
can't reproduce
2:00 PM Ticket #1504 ('close' with VR on: object of type 'NoneType' has no len()) closed by Tom Goddard
fixed: Fixed. Code was not checking for new VR grouping model being deleted.
1:47 PM Ticket #1481 (alt_loc crashes) closed by pett
fixed: Cython methods that call C++ methods than can throw exceptions need to …
12:52 PM Ticket #1508 (device vr true: openvr.OpenVRError: b'VRInitError_Init_HmdNotFound') closed by Tom Goddard
worksforme: Hi Wilian, I see you were using ChimeraX 0.7 from August for this …
12:49 PM Ticket #1520 (AddH: 'Structure' object has no attribute 'delete_residue') closed by pett
fixed: Hi Lukas, Thanks for reporting this. Fixed now! --Eric
11:43 AM Ticket #1510 (Crash as DockWidet changes size) closed by pett
can't reproduce: Hi Jozef, Thanks for the info. It _could_ have been gesture-event …
8:07 AM Ticket #1522 (ViewDockX: No suitable models found for ViewDockX) created by chimerax-bug-report@…
[…]
7:27 AM Ticket #1516 (command-line breaks when a command is a prefix of another command ...) closed by Tristan Croll
fixed: Whatever you did, the problem appears to be gone in today's build. …
4:01 AM Ticket #1521 ('devel install' failing for RedHat rpm builds) created by Tristan Croll
Trying to get closer to the bottom of #1516 by building Clipper using …
3:07 AM Ticket #1520 (AddH: 'Structure' object has no attribute 'delete_residue') created by lpravda@…
[…]

Dec 10, 2018:

7:14 PM Ticket #1517 (Crash while reading in a volume) closed by Tom Goddard
can't reproduce: Although the user says they were opening a volume the crash happened …
6:30 PM Ticket #1509 ('vr update' produces a lot of errors if the 'head' file isn't found) closed by Tom Goddard
fixed: Fixed. Specifying a non-existent face image in the meeting command …
3:26 PM Ticket #1515 (Make StructureArg more flexible) closed by Tom Goddard
fixed: Done.
1:53 PM Ticket #1519 (Restrict open/save keyword handling to those relevant for that format) created by pett
Currently all keywords registered for open (or save) apply regardless …
1:36 PM 2018-12-10 edited by Elaine Meng
(diff)
1:25 PM 2018-12-10 created by Conrad Huang
12:16 PM DeveloperMeetings edited by Conrad Huang
(diff)
12:03 PM Ticket #1518 (Clipper: No matching distribution found) created by Greg Couch
[…]
11:46 AM Ticket #1514 (StructureArg parsing: name 'AnnotationError' is not defined) closed by pett
fixed: Tristan, Thanks for the heads up. When atomic argument parsing moved …
11:24 AM Ticket #1517 (Crash while reading in a volume) created by chimerax-bug-report@…
[…]
6:36 AM Ticket #1516 (command-line breaks when a command is a prefix of another command ...) created by Tristan Croll
I *think* this has been triggered because I defined a set of commands …
5:33 AM Ticket #1515 (Make StructureArg more flexible) created by Tristan Croll
A minor thing, but I'd like to propose the below modification to …
5:25 AM Ticket #1513 (Add crystallographic reflection files to command-line open) closed by Tristan Croll
fixed: Never mind. All sorted out.
4:43 AM Ticket #1511 (Crash in ISOLDE MDFF_Mgr destructor) closed by Tristan Croll
duplicate: This is a known bug, fixed in my development builds. I'll be releasing …
4:19 AM Ticket #1514 (StructureArg parsing: name 'AnnotationError' is not defined) created by tic20@…
[…]

Dec 9, 2018:

2:06 PM Ticket #1513 (Add crystallographic reflection files to command-line open) created by Tristan Croll
I'm currently working on integrating ISOLDE and Clipper into the …
11:36 AM Ticket #1512 (No suitable models found for ViewDockX) created by chimerax-bug-report@…
[…]
10:11 AM Ticket #1511 (Crash in ISOLDE MDFF_Mgr destructor) created by guillermo.montoya@…
[…]
7:12 AM Ticket #1510 (Crash as DockWidet changes size) created by j.r.lewandowski@…
[…]

Dec 7, 2018:

2:48 PM Ticket #1509 ('vr update' produces a lot of errors if the 'head' file isn't found) created by chimerax-bug-report@…
[…]
2:38 PM Ticket #1508 (device vr true: openvr.OpenVRError: b'VRInitError_Init_HmdNotFound') created by wilian.cortopassi@…
[…]

Dec 6, 2018:

6:12 PM Ticket #1507 (Advise user of fixed bugs when error occurs) created by Tom Goddard
Would be nice if our error dialog could check if the traceback …
5:32 PM Ticket #1505 (Surface capping and Side View both wrong) closed by Tom Goddard
not a bug: This is a bit weird but I don't think there is any bug here and the …
5:28 PM 2018-11-29 edited by pett
(diff)
4:15 PM Ticket #1188 (ChimeraX should ask before registering itself as default application ...) closed by Greg Couch
nonchimerax: ChimeraX never installs itself as the default viewer -- it uses …
2:19 PM Ticket #1506 (Non-existent attribute tests wong) created by pett
open 1gcn sel @@serial_num=255 The above selects everything, despite …
2:09 PM Ticket #1505 (Surface capping and Side View both wrong) created by olibclarke@…
[…] Screen Shot 2018-12-06 at 5.07.44 PM.png
1:11 PM Ticket #1165 (Ramachandran plot in ISOLDE (libbz2.so.1.0 not found)) closed by Greg Couch
fixed: matplotlib doesn't refer to libbz anymore.
10:16 AM Ticket #1427 (offscreen rendering fails) closed by Greg Couch
fixed: (libGLX, mentioned below was incorrect. Library should have been …

Dec 5, 2018:

5:05 PM Ticket #1504 ('close' with VR on: object of type 'NoneType' has no len()) created by chimerax-bug-report@…
[…]
3:49 PM Ticket #1503 (Side View wrong) closed by Tom Goddard
fixed: Fixed. Side view code was modifying camera position in an incorrect …
3:10 PM Ticket #1503 (Side View wrong) created by olibclarke@…
[…] Screen Shot 2018-12-05 at 6.09.00 PM.png
12:40 PM Ticket #1502 (menu undo/redo not logged) closed by Conrad Huang
fixed: Fixed in d25c8fac1. Menu items for undo/redo were …
11:28 AM ChangeLog edited by Elaine Meng
(diff)
11:24 AM Ticket #1502 (menu undo/redo not logged) created by Elaine Meng
when I use the menu to undo, nothing is added to the Log. Shouldn’t …

Dec 4, 2018:

6:09 PM Ticket #1501 (VR drag: Cannot multiply Place times "None") closed by Tom Goddard
fixed: Fixed. Error happened when one hand controller is turned on when the …
5:43 PM Ticket #1500 (Errorpalooza) closed by Tom Goddard
fixed: 4) Fourth traceback was from click on gui panel in VR and then hiding …
4:23 PM Ticket #1501 (VR drag: Cannot multiply Place times "None") created by chimerax-bug-report@…
[…]
2:17 PM Ticket #1500 (Errorpalooza) created by chimerax-bug-report@…
[…]
2:08 PM Ticket #1499 (Model splitting: KeyError: (15, 1)) closed by Tom Goddard
fixed: Fixed. Splitting an atomic model that was not at the top level of the …

Dec 3, 2018:

4:45 PM Ticket #1497 (OpenGL graphics error while starting up + glGenVertexArrays error) closed by Tom Goddard
nonchimerax: As the ChimeraX error said, update your graphics driver if possible: …
3:40 PM Ticket #1499 (Model splitting: KeyError: (15, 1)) created by chimerax-bug-report@…
[…]
2:57 PM Ticket #1467 (Cache should distinguish between database sources) closed by Conrad Huang
fixed: Fixed in 6e0a23e47. The "mmcif" bundle always used "PDB" …
2:23 PM Ticket #1473 ('cartoon style' doesn't update arrows unless arrowScale is explicitly ...) closed by Conrad Huang
fixed: Fixed in 6c1f064fc.
2:00 PM Ticket #1486 (Ribbon slowing graphics enormously for large models) closed by Conrad Huang
fixed: Added change in 028ed3a4e.
11:44 AM Ticket #1498 (Atom spec parsing: '<' not supported between instances of 'int' and ...) closed by Conrad Huang
fixed: Probably fixed by 256c79188. Atomspecs like #0-1 will …
11:04 AM Ticket #456 (Update surface zone when surface changes) closed by Tom Goddard
fixed: Surface zone update was added more than 6 months ago.
8:48 AM Ticket #1498 (Atom spec parsing: '<' not supported between instances of 'int' and ...) created by chimerax-bug-report@…
[…]

Dec 2, 2018:

7:54 AM Ticket #1497 (OpenGL graphics error while starting up + glGenVertexArrays error) created by elvis.marti@…
[…]

Dec 1, 2018:

9:39 PM Ticket #1493 (Help Viewer: "help help:user": KeyError: 'href') closed by Greg Couch
duplicate: Can't reproduce. Probably duplicate of #1381 which has been fixed in …

Nov 30, 2018:

3:34 PM Ticket #1494 (Cage Builder: name 'place_model' is not defined) closed by Tom Goddard
duplicate: Fixed a couple weeks ago. Your ChimeraX is from Nov 11 before the fix.
2:29 PM Ticket #493 (measure phi/psi/chi/omega angles) closed by pett
fixed: Residue phi/phi/omega/chi1-4 angles can be get/set via corresponding …
12:55 PM Ticket #1494 (Cage Builder: name 'place_model' is not defined) created by Scooter Morris
[…]
11:45 AM Ticket #1493 (Help Viewer: "help help:user": KeyError: 'href') created by chimerax-bug-report@…
[…]
10:44 AM Ticket #1492 (Crash doing *something* with a DockWidget) closed by pett
can't reproduce
10:29 AM Ticket #1492 (Crash doing *something* with a DockWidget) created by chimerax-bug-report@…
[…]

Nov 29, 2018:

7:06 PM 2018-11-29 edited by Conrad Huang
(diff)
6:41 PM ChangeLog edited by Tom Goddard
(diff)
6:39 PM Ticket #1475 (Make right mouse do translation) closed by Tom Goddard
fixed: Fixed. Made right mouse button do translation by default. Middle …
6:33 PM Ticket #1460 (linux swap interval code breaks offscreen rendering) closed by Tom Goddard
fixed: Fixed. Linked _graphics.so against libGLX.so on Linux. The vsync …
6:31 PM Ticket #1466 (Can't save offscreen image) closed by Tom Goddard
fixed: Fixed. The draw target for OSMesa needed to be GL_FRONT instead of …
5:58 PM 2018-11-29 edited by Conrad Huang
(diff)
5:46 PM 2018-11-29 edited by Conrad Huang
(diff)
5:00 PM Ticket #1488 (Old import of 'map') closed by Tom Goddard
fixed: Fixed. Bug in "color sample" command importing map module from …
4:28 PM Ticket #1164 (port filled rings from Chimera) closed by Greg Couch
fixed: Ported. For now commands are: […]
4:17 PM 2018-11-29 edited by Elaine Meng
(diff)
4:15 PM 2018-11-29 edited by Elaine Meng
(diff)
4:14 PM 2018-11-29 edited by Elaine Meng
(diff)
3:08 PM 2018-11-29 created by Conrad Huang
2:04 PM DeveloperMeetings edited by Conrad Huang
(diff)
1:52 PM 2018-11-15 edited by pett
(diff)
1:51 PM 2018-11-15 edited by pett
(diff)
1:49 PM 2018-11-15 edited by pett
(diff)
1:10 PM Ticket #1491 (bundleinfo.xml tag for compiling executables) created by pett
Analogous to the CModule tag, I would like a CExecutable flag (or some …
11:49 AM Ticket #1490 (add support for displayedOnly to mmCIF writer) created by Greg Couch
It would be nice if the mmCIF writer, like the PDB writer, could limit …
11:40 AM Ticket #1489 (limit PDB output to only include HELIX and SHEET records for included atoms) created by Greg Couch
And example of when there should be no HELIX nor SHEET records: […] …
1:30 AM Ticket #1488 (Old import of 'map') created by chimerax-bug-report@…
[…]

Nov 28, 2018:

5:08 PM Ticket #1485 (Inadequate OpenGL) closed by Tom Goddard
can't reproduce: Strangely it seemed to get an OpenGL 3.3 context butt …
5:05 PM Ticket #1487 (Matrix reuse (optimization) problem) closed by Tom Goddard
fixed: Fixed. Problem is that Place instances are reused. So holding a …
1:58 PM Ticket #1487 (Matrix reuse (optimization) problem) created by Elaine Meng
This problem screws up saving moved structures to PDB files, and …
4:59 AM Ticket #1486 (Ribbon slowing graphics enormously for large models) created by Tristan Croll
There is a bug in the ribbon code of structure.py causing the number …

Nov 27, 2018:

5:16 PM 2018-11-15 edited by pett
(diff)
5:05 PM Ticket #1372 (Crash during QTimer (status line?)) closed by pett
can't reproduce: No response.
4:17 PM Ticket #1485 (Inadequate OpenGL) created by chimerax-bug-report@…
[…]
2:50 PM Ticket #851 (List ligands in log when opening structure) closed by pett
fixed: Now listed directly in log, though as a separate table.
11:19 AM 2018-11-15 edited by pett
(diff)
11:05 AM Ticket #1484 (Hiding labels: KeyError: 'setting changed') closed by pett
fixed
10:40 AM Ticket #1484 (Hiding labels: KeyError: 'setting changed') created by goddard@…
[…]
9:51 AM Ticket #1478 (OpenGL windows become unresponsive without error measasge) closed by Tom Goddard
can't reproduce: All indications were that ChimeraX was rendering graphics, but it did …
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