Timeline



Jul 27, 2018:

9:25 AM Ticket #1207 (CentOS/RedHat 7 specific distribution) closed by Greg Couch
duplicate: Will keep track of progress in #473.
9:23 AM Ticket #1174 (Bogus missing-structure pseudobonds in 2duf) closed by Greg Couch
fixed: The code was figured out the connecting atoms, but a …
12:06 AM Ticket #1212 (opening 4b3o can produce KeyError generating chain descriptions) created by Greg Couch
[…]

Jul 26, 2018:

7:30 PM Ticket #1210 (ChimeraX bug report submission) closed by Greg Couch
fixed: Changed logic for detecting missing entity_poly_seq table. Structure …
4:02 PM Ticket #1211 (show nucleotide representations for modified nucleic acids) created by Elaine Meng
Doesn’t the mmCIF file or some lookup table available from wwPDB say …
2:10 PM Ticket #1210 (ChimeraX bug report submission) created by Greg Couch
[…]
1:03 PM Ticket #1209 (cartoon preset undisplays too much) created by Greg Couch
For 2adw, selecting the cartoon preset appears to hide NCY and N2C …
10:35 AM Ticket #1208 (Error closing Active Tools tool) created by Eric Pettersen
[…]
2:51 AM Ticket #1207 (CentOS/RedHat 7 specific distribution) created by Tristan Croll
Would it be possible to provide a CentOS-friendly tarball on the …

Jul 24, 2018:

12:20 PM Ticket #1206 (error trying to show Side View) closed by Tom Goddard
fixed: Fixed.
10:35 AM Ticket #1206 (error trying to show Side View) created by Elaine Meng
UCSF ChimeraX version: 0.7 (2018-07-23) OpenGL version: 4.1 …

Jul 23, 2018:

9:36 PM Ticket #978 (Use mmCIF res->seq correspondence info) closed by Greg Couch
fixed: Done.
6:50 PM ChangeLog edited by Tom Goddard
(diff)
6:36 PM Ticket #1205 (ChimeraX bug report submission) closed by Tom Goddard
not a bug: Testing crash reporter.
6:34 PM Ticket #1205 (ChimeraX bug report submission) created by goddard@…
[…]
6:24 PM Ticket #1204 (ChimeraX bug report submission) closed by Tom Goddard
not a bug
6:23 PM Ticket #1204 (ChimeraX bug report submission) created by goddard@…
[…]
5:10 PM Ticket #1203 (ChimeraX bug report submission) closed by Tom Goddard
not a bug
5:10 PM Ticket #1203 (ChimeraX bug report submission) created by goddard@…
[…] setup.py​
5:08 PM Ticket #1202 (ChimeraX bug report submission) closed by Tom Goddard
not a bug
5:04 PM Ticket #1202 (ChimeraX bug report submission) created by goddard@…
[…]

Jul 20, 2018:

7:11 PM Ticket #1201 (Improve bug reporter tool) created by Tom Goddard
Port the Chimera bug reporting tool to ChimeraX.
7:05 PM Ticket #1200 (ChimeraX bug report submission) closed by Tom Goddard
not a bug
7:04 PM Ticket #1200 (ChimeraX bug report submission) created by goddard@…
[…]
7:02 PM Ticket #1199 (ChimeraX bug report submission) closed by Tom Goddard
not a bug
6:57 PM Ticket #1199 (ChimeraX bug report submission) created by goddard@…
[…]
3:21 PM Ticket #1182 (Error in addh at coordination sites) closed by Eric Pettersen
fixed: I have committed a different fix for this. It works as far as I know, …
2:54 PM Ticket #1198 (ChimeraX bug report submission) closed by Tom Goddard
not a bug
2:54 PM Ticket #1198 (ChimeraX bug report submission) created by goddard@…
[…]
2:17 PM Ticket #1197 (ChimeraX bug report submission) closed by Tom Goddard
not a bug
2:16 PM Ticket #1197 (ChimeraX bug report submission) created by goddard@…
[…] bundle_info.xml​
2:15 PM Ticket #1196 (ChimeraX bug report submission) closed by Tom Goddard
not a bug
2:15 PM Ticket #1196 (ChimeraX bug report submission) created by goddard@…
[…]
2:05 PM Ticket #1195 (NMR ensemble connectivity terrible) created by Eric Pettersen
Summary says it all. Example entries: 2hem, 1k5k PDB version looks fine.
1:11 PM Ticket #1194 (ChimeraX bug report submission) closed by Tom Goddard
not a bug
1:06 PM Ticket #1194 (ChimeraX bug report submission) created by goddard@…
[…]
1:05 PM Ticket #1193 (ChimeraX bug report submission) closed by Tom Goddard
not a bug
12:57 PM Ticket #1193 (ChimeraX bug report submission) created by Tom Goddard
[…]
12:56 PM Ticket #1192 (ChimeraX bug report submission) closed by Tom Goddard
not a bug
11:45 AM Ticket #1192 (ChimeraX bug report submission) created by goddard@…
[…]

Jul 18, 2018:

6:04 PM Ticket #1169 ('new frame' trigger should still fire when no models open) closed by Tom Goddard
fixed: Fixed. "new frame" trigger now called as soon as ChimeraX starts even …
2:41 PM Ticket #1091 ("View all" doesn't play well with "cofr center showpivot true") closed by Tom Goddard
fixed: I made the view all and standard orientation toolbar buttons not …
2:19 PM Ticket #1191 (sym biomt: typos in import statement) closed by Eric Pettersen
fixed: Hi David, I'm glad you're enjoying ChimeraX, mostly. :-) Yeah, 'sym …
2:03 PM 2018-06-28 edited by Eric Pettersen
(diff)
2:03 PM 2018-06-28 edited by Eric Pettersen
(diff)
10:41 AM Ticket #1108 (error on save image when object clipped near and far) closed by Tom Goddard
nonchimerax
10:09 AM Ticket #1003 (IHM "Invalid cross-device link") closed by Tom Goddard
fixed: Fixed. Made URL fetch put file directly in destination directory …
10:06 AM Ticket #1140 (problem with v0.6 and v0.7) closed by Tom Goddard
can't reproduce: No response from reporter.
10:04 AM Ticket #1143 (Toolbar clipped on high DPI display, Windows 10) closed by Tom Goddard
can't reproduce: We tested ChimeraX with a Windows 10 desktop machine connected to a 4K …
1:14 AM Ticket #1191 (sym biomt: typos in import statement) created by David.Bhella@…
[…]

Jul 17, 2018:

2:44 PM 2018-06-28 edited by Eric Pettersen
(diff)
11:16 AM Ticket #1190 (Mac bundle builds fail when compiling C code) created by Tristan Croll
Clang complains and crashes if you ask it to compile a C file with …

Jul 16, 2018:

4:52 PM 2018-06-28 edited by Eric Pettersen
(diff)
4:20 PM Ticket #1189 (Shader problem) closed by Tom Goddard
fixed: Fixed in tonight's build. Selection when ambient shadow lighting is …
3:37 PM Ticket #1189 (Shader problem) created by jyelland@…
[…]
1:35 PM Ticket #1176 (ChimeraX not opening) closed by Greg Couch
fixed: Works for the user. Not sure what went wrong.
2:46 AM Ticket #1188 (ChimeraX should ask before registering itself as default application ...) created by Tristan Croll
It's something of an annoyance that ChimeraX automatically registers …

Jul 15, 2018:

4:26 PM Ticket #1186 (ChimeraX startup crash on Ubuntu 16.04) closed by Greg Couch
nonchimerax: A similar fix should work for the Mac. Assuming the remote host is a …

Jul 13, 2018:

5:18 PM Ticket #1181 (ChimeraX on CentOS 7) closed by Greg Couch
fixed: This bug has been fixed in the current daily build.

Jul 12, 2018:

5:20 PM Ticket #626 (If a volume is selected in the Models panel, Density Map Toolbar ...) closed by Eric Pettersen
fixed: Okay, this is implemented (thanks for the code Tristan!), along with …
4:09 PM 2018-06-28 edited by Eric Pettersen
(diff)
12:27 PM Ticket #1187 (AtomCenterOfRotationMode import error) closed by Tom Goddard
fixed: Fixed. Atomic module was moved and apparently those imports were not …
11:42 AM Ticket #1185 (ChimeraX startup crash on Ubuntu 16.04 (II)) closed by Eric Pettersen
duplicate: follow up to #1186(!); added info to that ticket
4:31 AM Ticket #1187 (AtomCenterOfRotationMode import error) created by Tristan Croll
Should be importing cofr from chimerax.std_commands rather than …
2:37 AM Ticket #1186 (ChimeraX startup crash on Ubuntu 16.04) created by Luca.Jovine@…
[…]
2:35 AM Ticket #1185 (ChimeraX startup crash on Ubuntu 16.04 (II)) created by Luca.Jovine@…
[…]

Jul 11, 2018:

5:47 PM Ticket #1183 (Swapaa adds deprotonated Cys) closed by Tom Goddard
fixed: Fixed. I've switched the swapaa mouse mode to use ideal coordinates …
1:49 PM Ticket #1184 (Implement "hbond true" flag for addh) created by Eric Pettersen
As per Summary. PDBe interested in adding protons that maintain water …

Jul 10, 2018:

7:48 AM Ticket #1183 (Swapaa adds deprotonated Cys) created by Tristan Croll
At the moment the cysteine provided by swapaa lacks the HG atom. Valid …
6:10 AM Ticket #1182 (Error in addh at coordination sites) created by Tristan Croll
Traceback: […] Amending the offending lines (94-102) of …

Jul 9, 2018:

1:23 PM Ticket #1050 (Move core packages into bundles) closed by Eric Pettersen
fixed: All modules moved.
1:12 PM Ticket #1178 (Handling of poor geometry in AddH) closed by Eric Pettersen
fixed: Fixed. The atom-type-template dir wasn't getting installed.
11:04 AM Ticket #1181 (ChimeraX on CentOS 7) created by jameskizziah@…
[…]
10:35 AM Ticket #1180 (mmCIF reader forms no chains) created by lpravda@…
At PDBe (EMBL-EBI) we are working on improving presentation of small …

Jul 5, 2018:

1:50 PM Ticket #1179 (Nucleotides slows other rendering) created by Eric Pettersen
If I open 5cd4 and use preset "Cartoon", responsiveness is fine, but …
3:39 AM Ticket #1178 (Handling of poor geometry in AddH) created by Tristan Croll
Background: ISOLDE's chirality restraints aren't yet perfect - they …

Jul 4, 2018:

2:40 AM Ticket #1177 (Can't click buttons on license page in Windows 10 Edge browser) closed by Tristan Croll
not a bug: ... and indeed, after updating the problem is gone.

Jul 3, 2018:

5:06 PM ChangeLog edited by Elaine Meng
(diff)
5:06 PM ChangeLog edited by Elaine Meng
(diff)
5:05 PM ChangeLog edited by Elaine Meng
(diff)

Jul 2, 2018:

2:34 AM Ticket #1177 (Can't click buttons on license page in Windows 10 Edge browser) created by Tristan Croll
(Not sure who's best to report this to, so sending to Tom) …

Jun 28, 2018:

2:43 PM 2018-06-28 created by Conrad Huang
2:06 PM DeveloperMeetings edited by Conrad Huang
(diff)
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