Timeline



Feb 8, 2018:

2:58 PM 2018-02-08 edited by Conrad Huang
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1:58 PM 2018-02-08 edited by Conrad Huang
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1:56 PM Ticket #1026 (typeError trying to use "fitmap" global search) closed by Tom Goddard
fixed: Fixed.
1:24 PM 2018-02-08 created by Conrad Huang
1:21 PM Ticket #1027 ("like" operator in atomspec) created by Conrad Huang
In an assembly, it would be nice to be able to select chains based on …
1:14 PM DeveloperMeetings edited by Conrad Huang
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12:12 PM Ticket #1025 (opening non-mmCIF tries to find mmCIF metadata) closed by Greg Couch
fixed: Limit trying to show citation to structures. Only knows about mmCIF …
12:03 PM Ticket #1026 (typeError trying to use "fitmap" global search) created by Elaine Meng
Maybe I did something wrong? open emdb:4151 open 5m2n fitmap #2 in #1
10:57 AM Ticket #1025 (opening non-mmCIF tries to find mmCIF metadata) created by Elaine Meng
For example, open emdb:1024 Traceback (most recent call last): …
4:12 AM Ticket #1024 (Add infrastructure such as locks to support C++ thread use) created by Tristan Croll
At the moment this is mostly for the purpose of planning ahead rather …

Feb 7, 2018:

11:45 PM Ticket #968 (nucleotides not saved in sessions) closed by Greg Couch
fixed
10:41 PM mmCIFWriting edited by Greg Couch
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2:04 PM 2018-01-25 edited by pett
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2:01 PM 2018-01-25 edited by pett
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1:42 PM 2018-01-25 edited by pett
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11:22 AM 2018-01-25 edited by pett
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11:21 AM 2018-01-25 edited by pett
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11:20 AM 2018-01-25 edited by pett
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10:15 AM Ticket #1023 (Faster change tracking) created by Tristan Croll
I've been playing around to see how coordinates in particular, and …
1:22 AM Ticket #1022 (Allow Toolshed bundles to provide access to their C++ API) created by Tristan Croll
As part of my push to optimise ISOLDE's inner workings I've created a …

Feb 6, 2018:

5:10 PM 2018-01-25 edited by pett
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5:09 PM 2018-01-25 edited by pett
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4:54 PM 2018-01-25 edited by pett
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1:07 PM Ticket #1021 (Compute auxiliary secondary structure info) created by pett
on demand
1:06 PM 2018-01-25 edited by pett
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Feb 5, 2018:

5:17 PM 2018-02-05 created by Tom Ferrin
5:10 PM DeveloperMeetings edited by Tom Ferrin
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4:20 PM mmCIFWriting edited by Greg Couch
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4:19 PM Ticket #1013 ("info models" gives traceback if attr name incorrect) closed by Conrad Huang
fixed: Fixed in dbc542fc9. Undefined attribute values are now …
2:30 PM 2018-01-25 edited by pett
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2:27 PM 2018-01-25 edited by pett
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2:26 PM 2018-01-25 edited by pett
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1:05 PM Ticket #923 (ViewDockX bundle) closed by Conrad Huang
fixed: Done
11:43 AM mmCIFWriting edited by Greg Couch
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11:12 AM mmCIFWriting created by Greg Couch
10:35 AM WikiStart edited by Greg Couch
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Feb 2, 2018:

4:47 PM ChangeLog edited by Elaine Meng
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4:19 PM 2018-01-25 edited by pett
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4:05 PM 2018-01-25 edited by pett
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4:05 PM 2018-01-25 edited by pett
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10:13 AM 2018-01-25 edited by pett
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10:10 AM 2018-01-25 edited by pett
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Feb 1, 2018:

4:14 PM Ticket #1020 (OpenGL 3.3 not available) reopened by Greg Couch
The bug is that there was a traceback.
4:10 PM Ticket #1020 (OpenGL 3.3 not available) closed by Tom Goddard
nonchimerax: Your graphics driver only supports OpenGL version 3.0, which is a 10 …
10:33 AM Ticket #1019 ("solvent" not recognized after opening IHM) closed by pett
fixed: Fixed. Ignore Structures when finding atoms based on surface …
1:19 AM Ticket #1020 (OpenGL 3.3 not available) created by sandrine.legoff@…
[…]

Jan 31, 2018:

4:16 PM Ticket #1019 ("solvent" not recognized after opening IHM) created by Elaine Meng
If I open the nup IHM model (downloaded from …
4:11 PM 2018-01-25 edited by Tom Ferrin
(diff)
3:45 PM Ticket #799 (Core preferences GUI) closed by pett
fixed
12:51 PM Ticket #1018 (Allow 2dlabel to place images in scene) created by e.emmott@…
Begin forwarded message: From: "Emmott, Ed" Subject: …

Jan 30, 2018:

5:35 PM Ticket #1017 (OpenGL error restoring session) closed by Tom Goddard
fixed: Fixed. OpenGL error was caused by status line messages. When first …
1:04 PM Ticket #1017 (OpenGL error restoring session) created by donghyun.park@…
ChimeraX is opening a session, the session restore resizes the main …

Jan 26, 2018:

7:14 AM Ticket #1016 (NameError: name '_residue_ptr_to_inst' is not defined) closed by pett
fixed: I believe it's fixed now, though it's difficult for me to test from …

Jan 25, 2018:

6:18 PM Ticket #1016 (NameError: name '_residue_ptr_to_inst' is not defined) created by Greg Couch
When working on nucleotide sessions, I get the following backtrace …
2:57 PM FAI edited by Greg Couch
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2:31 PM 2018-01-25 edited by Scooter Morris
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2:11 PM 2018-01-25 edited by pett
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2:07 PM 2018-01-25 created by pett
2:06 PM DeveloperMeetings edited by pett
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1:19 PM Ticket #1015 (help/cxcmd support in Sphinx docs) created by pett
Similar to #342, Sphinx-generated docs will also need a Javascript …
11:16 AM ChangeLog edited by Elaine Meng
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Jan 24, 2018:

2:18 PM ChangeLog edited by Tom Goddard
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2:17 PM ChangeLog edited by Tom Goddard
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10:55 AM 2018-01-18 edited by pett
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Jan 23, 2018:

5:32 PM 2018-01-18 edited by pett
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5:29 PM 2018-01-18 edited by pett
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5:05 PM 2018-01-18 edited by pett
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5:03 PM 2018-01-18 edited by pett
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3:47 PM 2018-01-18 edited by pett
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3:47 PM 2018-01-18 edited by pett
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2:02 PM Ticket #1014 (mmCIF not assigning ss_id correctly) created by Elaine Meng
If 2gbp is read from mmCIF (but not PDB), ss_id = 1 refers to the …
12:01 PM 2018-01-18 edited by pett
(diff)
11:38 AM Ticket #1013 ("info models" gives traceback if attr name incorrect) created by Elaine Meng
I'm guessing this is because the attribute name I tried doesn't exist. …
11:15 AM Ticket #1012 (Methods for fast automatic object deletion) closed by pett
not a bug: Yes, as you discovered, DestructionBatcher prevents individual …
1:52 AM Ticket #1012 (Methods for fast automatic object deletion) created by Tristan Croll
I have a working C++ dihedral implementation along with a manager that …

Jan 22, 2018:

6:07 PM Ticket #1010 (weird interaction between cartoon, transparent surface, and lighting) closed by Tom Goddard
fixed: Fixed. Transparency changes now cause shadow update.
3:00 PM Ticket #1011 (atomspec should not include bonds with only one end specified) created by Elaine Meng
It may be because my specification has a negation (~): sel C & ~ …

Jan 18, 2018:

3:39 PM Ticket #1008 (Reversing a Collection via slicing causes a segfault) closed by Tom Goddard
fixed: Fixed. The C++ code that gets attributes from arrays of pointers …
2:53 PM 2018-01-18 created by Conrad Huang
2:06 PM DeveloperMeetings edited by Conrad Huang
(diff)
12:22 PM Ticket #1010 (weird interaction between cartoon, transparent surface, and lighting) created by Elaine Meng
Turning off cartoon inside a transparent surface causes some kind of …
12:12 PM Ticket #1009 (molecular surface not included in command-line specifiers of ...) created by Elaine Meng
For example, structure 1ncc is antibody H and L chains, and N chain …
11:26 AM 2018-01-11 edited by pett
(diff)
10:05 AM Ticket #967 (RFE: ViewdockX select multiple compounds and change status en masse) closed by Elaine Meng
fixed: We discussed possibly adding Shift-click to more easily select a long …
4:41 AM Ticket #1008 (Reversing a Collection via slicing causes a segfault) created by Tristan Croll
With a single atomic model loaded: […] The below fixes it: […]

Jan 17, 2018:

6:12 PM Ticket #1007 (AtomicStructures not freed when closed) created by Greg Couch
The attached program, slowleak.py, shows what objects stick around …
1:02 PM Ticket #1006 (messed-up selection of residues with helix tubes) closed by Greg Couch
fixed: Fixed.

Jan 16, 2018:

5:17 PM 2018-01-11 edited by pett
(diff)
4:44 PM Ticket #1006 (messed-up selection of residues with helix tubes) created by Elaine Meng
I could have sworn I used to be able to select individual residues in …
12:04 PM Ticket #1005 (Open File dialog gives lots of Debug output on Windows) created by Tom Goddard
Using Open / File... on Windows spews lots of debug output to the …
11:12 AM Ticket #1004 (VIewDockX Plot sometimes gives Uncaught Error) closed by Conrad Huang
fixed: I think this is fixed by [changeset 5de467abd]. When the window gets …
9:26 AM Ticket #1004 (VIewDockX Plot sometimes gives Uncaught Error) created by Elaine Meng
Probably when my overall window is rather small to start with, …
8:03 AM Ticket #803 (Multiprocessing "spawn" method does not work) closed by Tristan Croll
fixed

Jan 12, 2018:

1:05 PM Ticket #1003 (IHM "Invalid cross-device link") created by ben@…
Opening nup84 IHM example on Linux with /tmp and ~/Downloads on …

Jan 11, 2018:

11:32 PM Ticket #1002 (color modify error on pseudobonds) closed by Greg Couch
fixed: typo
4:14 PM ChangeLog edited by Elaine Meng
(diff)
4:12 PM ChangeLog edited by Elaine Meng
(diff)
3:48 PM Ticket #1001 (model_panel.tool._fill_tree() fails for complex model trees) closed by pett
fixed: Thanks for the patch. I tested and it looks good. It's committed to …
3:02 PM 2018-01-11 edited by Conrad Huang
(diff)
1:34 PM Ticket #1002 (color modify error on pseudobonds) created by Elaine Meng
open 2mnr color mod hue 10 targ p Traceback (most recent call last): …
1:21 PM Ticket #1000 (Could not parse stylesheet of object 0x291a87f5ce0) closed by pett
fixed: Fixed by using pathname2url around the file name. Doesn't actually …
12:15 PM 2018-01-11 edited by Conrad Huang
(diff)
10:17 AM 2018-01-11 created by Conrad Huang
10:06 AM DeveloperMeetings edited by Conrad Huang
(diff)
10:04 AM DeveloperMeetings2017 created by Conrad Huang
6:28 AM Ticket #1001 (model_panel.tool._fill_tree() fails for complex model trees) created by Tristan Croll
To replicate: […] This will fire a long string of tracebacks like …

Jan 10, 2018:

6:08 PM Ticket #1000 (Could not parse stylesheet of object 0x291a87f5ce0) created by Tom Goddard
I believe model panel changing the color in its color buttons is …
5:57 PM Ticket #999 (SignalViewer playback error) closed by Tom Goddard
fixed: Fixed. Was trying to use last slider value that started off as None.
4:05 PM Ticket #789 (Optimize atom radius lookup) closed by pett
fixed: Atomic radii caching implemented. The ability to revert to default …
4:05 PM Ticket #999 (SignalViewer playback error) created by Tom Goddard
Pressing Play button next to signal viewer slider after loading .npz …
4:00 PM Ticket #998 (Toolshed tool install gives long traceback when no permission to ...) created by Tom Goddard
Tried installing SignalViewer from Toolshed for All Users and it gives …
2:29 PM Ticket #997 (color modify blackness/whiteness 100 doesn't give black/white) closed by Elaine Meng
not a bug: just a misunderstanding of the HWB colorspace, of which these are the …
2:15 PM Ticket #997 (color modify blackness/whiteness 100 doesn't give black/white) created by Elaine Meng
would expect "color mod black 100" to give black and "color mod white …

Jan 9, 2018:

4:10 PM Ticket #980 (cannot change surface color/transparency after color zone) closed by Tom Goddard
fixed: Partly fixed. The transparency command can now change the per-vertex …
1:03 AM Ticket #996 (Issue reading PDB files) created by carlo.camilloni@…
[…]
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