![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Timeline
Dec 3, 2018:
- 4:45 PM Ticket #1497 (OpenGL graphics error while starting up + glGenVertexArrays error) closed by
- nonchimerax: As the ChimeraX error said, update your graphics driver if possible: …
- 3:40 PM Ticket #1499 (Model splitting: KeyError: (15, 1)) created by
- […]
- 2:57 PM Ticket #1467 (Cache should distinguish between database sources) closed by
- 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
- fixed: Fixed in 6c1f064fc.
- 2:00 PM Ticket #1486 (Ribbon slowing graphics enormously for large models) closed by
- fixed: Added change in 028ed3a4e.
- 11:44 AM Ticket #1498 (Atom spec parsing: '<' not supported between instances of 'int' and ...) closed by
- fixed: Probably fixed by 256c79188. Atomspecs like #0-1 will …
- 11:04 AM Ticket #456 (Update surface zone when surface changes) closed by
- 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
- […]
Dec 2, 2018:
- 7:54 AM Ticket #1497 (OpenGL graphics error while starting up + glGenVertexArrays error) created by
- […]
Dec 1, 2018:
- 9:39 PM Ticket #1493 (Help Viewer: "help help:user": KeyError: 'href') closed by
- 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
- 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
- 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
- […]
- 11:45 AM Ticket #1493 (Help Viewer: "help help:user": KeyError: 'href') created by
- […]
- 10:44 AM Ticket #1492 (Crash doing *something* with a DockWidget) closed by
- can't reproduce
- 10:29 AM Ticket #1492 (Crash doing *something* with a DockWidget) created by
- […]
Nov 29, 2018:
- 7:06 PM 2018-11-29 edited by
- (diff)
- 6:41 PM ChangeLog edited by
- (diff)
- 6:39 PM Ticket #1475 (Make right mouse do translation) closed by
- 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
- fixed: Fixed. Linked _graphics.so against libGLX.so on Linux. The vsync …
- 6:31 PM Ticket #1466 (Can't save offscreen image) closed by
- fixed: Fixed. The draw target for OSMesa needed to be GL_FRONT instead of …
- 5:58 PM 2018-11-29 edited by
- (diff)
- 5:46 PM 2018-11-29 edited by
- (diff)
- 5:00 PM Ticket #1488 (Old import of 'map') closed by
- fixed: Fixed. Bug in "color sample" command importing map module from …
- 4:28 PM Ticket #1164 (port filled rings from Chimera) closed by
- fixed: Ported. For now commands are: […]
- 4:17 PM 2018-11-29 edited by
- (diff)
- 4:15 PM 2018-11-29 edited by
- (diff)
- 4:14 PM 2018-11-29 edited by
- (diff)
- 3:08 PM 2018-11-29 created by
- 2:04 PM DeveloperMeetings edited by
- (diff)
- 1:52 PM 2018-11-15 edited by
- (diff)
- 1:51 PM 2018-11-15 edited by
- (diff)
- 1:49 PM 2018-11-15 edited by
- (diff)
- 1:10 PM Ticket #1491 (bundleinfo.xml tag for compiling executables) created by
- 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
- 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
- And example of when there should be no HELIX nor SHEET records: […] …
- 1:30 AM Ticket #1488 (Old import of 'map') created by
- […]
Nov 28, 2018:
- 5:08 PM Ticket #1485 (Inadequate OpenGL) closed by
- 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
- fixed: Fixed. Problem is that Place instances are reused. So holding a …
- 1:58 PM Ticket #1487 (Matrix reuse (optimization) problem) created by
- 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
-
There is a bug in the ribbon code of
structure.pycausing the number …
Nov 27, 2018:
- 5:16 PM 2018-11-15 edited by
- (diff)
- 5:05 PM Ticket #1372 (Crash during QTimer (status line?)) closed by
- can't reproduce: No response.
- 4:17 PM Ticket #1485 (Inadequate OpenGL) created by
- […]
- 2:50 PM Ticket #851 (List ligands in log when opening structure) closed by
- fixed: Now listed directly in log, though as a separate table.
- 11:19 AM 2018-11-15 edited by
- (diff)
- 11:05 AM Ticket #1484 (Hiding labels: KeyError: 'setting changed') closed by
- fixed
- 10:40 AM Ticket #1484 (Hiding labels: KeyError: 'setting changed') created by
- […]
- 9:51 AM Ticket #1478 (OpenGL windows become unresponsive without error measasge) closed by
- can't reproduce: All indications were that ChimeraX was rendering graphics, but it did …
Nov 26, 2018:
- 4:25 PM Ticket #1483 (Allow web service request to be blocking) created by
- Commands that invoke web services may well not want to return until …
- 3:17 PM Ticket #1477 (Volume Viewer: wrapped C/C++ object of type QFrame has been deleted) closed by
- can't reproduce: Appears to be a Toolshed bug in ChimeraX 0.7. User clicked close …
- 1:55 PM Ticket #1479 (Drawing not working) closed by
- duplicate: Log output for bug reported in #1478.
- 1:46 PM Ticket #1375 (implement wildcarding for atom specs) closed by
- fixed: Wildcard issues have been resolved here and in #1388
- 1:46 PM Ticket #1482 (bundle-ize WebServices + improve docs) created by
- For better updatability and dependency declaration, core.WebServices …
- 11:39 AM Ticket #1481 (alt_loc crashes) created by
- […]
- 9:54 AM Ticket #1480 (Crash in isolde::MDFF_Mgr::destructors_done) closed by
- fixed: Never mind - I see my mistake. Now I'm wondering why it *doesn't* …
- 9:33 AM Ticket #1480 (Crash in isolde::MDFF_Mgr::destructors_done) created by
- […] mdff.cpp
- 8:48 AM Ticket #1479 (Drawing not working) created by
- […]
- 8:24 AM Ticket #1478 (OpenGL windows become unresponsive without error measasge) created by
- Not sure what's happened here - Just messing about with visualisations …
Nov 23, 2018:
- 5:37 PM Ticket #1477 (Volume Viewer: wrapped C/C++ object of type QFrame has been deleted) created by
- […]
- 11:08 AM ChangeLog edited by
- (diff)
Nov 22, 2018:
- 1:38 PM Ticket #1472 (Spurious bond across chain break when one or both residues is UNK) closed by
- nonchimerax: According to the mmCIF file, those residues are directly connected. …
Nov 21, 2018:
- 5:31 PM Ticket #1474 (Magic Mouse zoom broken) closed by
- fixed: Fixed, sort of. I made magic mouse scroll cause zooming provided a …
- 3:32 PM Ticket #1471 (AtomicStructure not fully cleaning up memory on close) closed by
- fixed: The code added by the mmCIF and PDB readers to annotate their models …
- 1:53 PM Ticket #1475 (Make right mouse do translation) created by
- I think we should change ChimeraX so that right-mouse does …
- 11:08 AM Ticket #1474 (Magic Mouse zoom broken) created by
- The scroll-wheel emulation of swiping on the middle of an Apple Magic …
- 8:37 AM Ticket #1473 ('cartoon style' doesn't update arrows unless arrowScale is explicitly ...) created by
-
E.g.:
cartoon style width 0.3... leaves the arrows at their … - 6:46 AM Ticket #1472 (Spurious bond across chain break when one or both residues is UNK) created by
- For example, 5uvn chain A (fetching direct from the PDB, so mmCIF. …
- 2:24 AM Ticket #1471 (AtomicStructure not fully cleaning up memory on close) created by
- The real-world scenario here is that I'm running analysis scripts over …
Nov 20, 2018:
- 5:24 PM Ticket #1470 (ChimeraX in PyPi) created by
- Why don't we put amenable ChimeraX Python modules into PyPi so other …
- 3:49 PM Ticket #1464 (Addh on 1jj2: list index out of range) closed by
- fixed: Okay, being able to reproduce the problem really helped. It's fixed …
- 11:39 AM Ticket #1469 (Crash in Apple graphics driver (glDrawElementsInstanced)) closed by
- nonchimerax: ChimeraX crashed in the Mac graphics driver. ChimeraX was using a …
- 12:58 AM Ticket #1469 (Crash in Apple graphics driver (glDrawElementsInstanced)) created by
- […]
Nov 19, 2018:
- 7:50 PM Ticket #1457 (Volume Viewer histogram/scrollbar problem) closed by
- fixed: Fixed hopefully. I found a Qt trick to always show the scrollbar on …
- 4:42 PM Ticket #1468 (Pressing Enter key in Volume Viewer entry field runs the last command) closed by
- fixed: Fixed by not forwarding keystrokes if the focus widget is a QLineEdit …
- 3:59 PM Ticket #1456 (Ongoing/duplicate movie recording) closed by
- fixed: Fixed.
- 3:23 PM Ticket #1462 (Crash executing Python) closed by
- can't reproduce
- 3:08 PM Ticket #1468 (Pressing Enter key in Volume Viewer entry field runs the last command) created by
- Pressing the Enter key in the Volume Viewer contour level entry field …
- 2:50 PM Ticket #1454 (showPivot performance problems) closed by
- fixed: Fixed. Pivot indicator was casting shadows. Now it does not, so …
- 2:43 PM Ticket #1467 (Cache should distinguish between database sources) created by
- For example, fetching from pdbe_updated shouldn't present the file hat …
- 1:25 PM Ticket #1463 (AddH on 1trz: Singular matrix) closed by
- not a bug: Yes, as Tristan pointed out, it seems like an error in the model. …
- 1:22 PM ChangeLog edited by
- (diff)
- 12:19 PM Ticket #1466 (Can't save offscreen image) created by
- After fixing many offscreen bugs, saving an image now fails with: …
- 11:47 AM Ticket #1465 (KeyError saving mmCIF) created by
- […] full.cif
- 8:53 AM Ticket #1464 (Addh on 1jj2: list index out of range) created by
- […]
- 8:42 AM Ticket #1463 (AddH on 1trz: Singular matrix) created by
- […]
Nov 18, 2018:
Nov 17, 2018:
- 1:48 PM Ticket #1460 (linux swap interval code breaks offscreen rendering) created by
- src/core/graphics/_graphics/linux_swap_interval.cpp links against …
Nov 16, 2018:
- 7:22 PM Ticket #1458 (Problem reading TIFF image stack) created by
- […]
- 7:07 PM Ticket #1457 (Volume Viewer histogram/scrollbar problem) created by
- […]
- 7:03 PM Ticket #1456 (Ongoing/duplicate movie recording) created by
- […]
- 6:54 PM Ticket #1455 (Something wrong with clipping for large models) closed by
- fixed: Fixed. Clipping was broken depending on the display style and …
- 5:11 PM Ticket #1433 (Allow for direct monitoring of setting changes) closed by
- fixed: Settings instances fire a 'setting changed' trigger when changed, with …
- 2:13 PM Ticket #1455 (Something wrong with clipping for large models) created by
- […] chimerax_clipping_bug.mov
- 9:52 AM Ticket #1453 (Crash deleting bonds) closed by
- fixed: Hi Lukas, It looks like this crash occurred while you were issuing a …
- 6:37 AM Ticket #1454 (showPivot performance problems) created by
- […]
Nov 15, 2018:
- 4:09 PM Ticket #1453 (Crash deleting bonds) created by
- […]
- 3:13 PM 2018-11-15 created by
- 3:01 PM Ticket #1429 (Atom specifiers not handling chain case correctly) closed by
- fixed
- 2:10 PM DeveloperMeetings edited by
- (diff)
- 1:54 PM Ticket #1452 (crosslinks network "select pseudobonds" only selects end atoms) created by
- crosslinks diagram edge context menu “Select N Pseudobonds” (same …
- 1:26 PM 2018-11-01 edited by
- (diff)
- 12:23 PM Ticket #1172 (Problems encountered building bundle for Windows) closed by
- fixed: That's great! I can finally close this ticket.
Nov 14, 2018:
- 2:22 PM Ticket #1212 (opening 4b3o can produce KeyError generating chain descriptions) closed by
- fixed: Seems to have "fixed itself" (reverse bitrot)
- 1:59 PM 2018-11-01 edited by
- (diff)
- 12:58 PM Ticket #1440 (glBlitFramebuffer out of memory with large volume model) closed by
- not a bug: ChimeraX opened large volume data 5003, float32 values, at step 1 …
- 12:11 PM Ticket #1438 (Interfaces plugin should close when associated model closes) closed by
- fixed: I don't get a traceback clicking on the interfaces contact plot after …
- 11:25 AM Ticket #1451 (draw() takes 3 positional arguments but 4 were given) closed by
- fixed: Fixed more than a month ago.
- 11:18 AM Ticket #1450 (Crash with some event on a QDockWidget) closed by
- can't reproduce
- 11:15 AM Ticket #1448 (Crash with some event on a QDockWidget) closed by
- can't reproduce
- 9:06 AM Ticket #1451 (draw() takes 3 positional arguments but 4 were given) created by
- […]
- 4:44 AM Ticket #1444 (Crash running OpenMM simulation) closed by
- can't reproduce: Hard to say what's going on here. I've tried out a few likely …
- 4:32 AM Ticket #1450 (Crash with some event on a QDockWidget) created by
- […]
- 1:10 AM Ticket #1449 (Crash with some event on a QDockWidget) created by
- […]
Nov 13, 2018:
- 11:36 PM Ticket #1448 (Crash with some event on a QDockWidget) created by
- […]
- 7:15 PM Ticket #1447 (Multitouch trackpad does not work on Windows 10) created by
- Multitouch 2-finger rotation and 3-finger translation does not work on …
- 6:58 PM Ticket #1442 (Request to add Chimera1-like model "activity") closed by
- wontfix: ChimeraX moves individual models in a different way from Chimera. You …
- 5:24 PM 2018-11-01 edited by
- (diff)
- 5:24 PM 2018-11-01 edited by
- (diff)
- 5:20 PM 2018-11-01 edited by
- (diff)
- 5:01 PM 2018-11-01 edited by
- (diff)
- 4:54 PM 2018-11-01 edited by
- (diff)
- 4:46 PM 2018-11-01 edited by
- (diff)
- 4:43 PM 2018-11-01 edited by
- (diff)
- 4:42 PM 2018-11-01 edited by
- (diff)
- 4:34 PM 2018-11-01 edited by
- (diff)
- 4:32 PM ChangeLog edited by
- (diff)
- 4:31 PM 2018-11-01 edited by
- (diff)
- 3:39 PM Ticket #1446 (Crash exiting ChimeraX when VR running) created by
- […]
- 1:41 PM Ticket #1445 ("Usage" needs to be more bulletproof) created by
- […]
- 11:50 AM Ticket #1443 (Clipper: cannot import name 'ArrayGridData') closed by
- fixed
- 10:55 AM Ticket #1435 (Molecular surface session restore: can't set attribute) closed by
- duplicate: Hi Vikram. This was fixed about 6 days ago, so if you get the latest …
- 5:52 AM Ticket #1444 (Crash running OpenMM simulation) created by
- […]
- 5:45 AM Ticket #1443 (Clipper: cannot import name 'ArrayGridData') created by
- […]
- 4:36 AM Ticket #1442 (Request to add Chimera1-like model "activity") created by
- […]
- 4:17 AM Ticket #1441 (Crash using menu) created by
- […]
- 3:46 AM Ticket #1440 (glBlitFramebuffer out of memory with large volume model) created by
- […]
- 3:08 AM Ticket #1439 (Ability to spawn secondary View instance(s)) created by
- I can think of a number of situations where it would be really good to …
- 2:57 AM Ticket #1438 (Interfaces plugin should close when associated model closes) created by
- One arising from the Copenhagen workshop: if the model used to spawn …
- 1:48 AM Ticket #1437 (Crash docking/undocking window(?)) created by
- […]
- 1:14 AM Ticket #1436 (Crash in Qt event handling) created by
- […]
- 12:24 AM Ticket #1435 (Molecular surface session restore: can't set attribute) created by
- […]
Nov 11, 2018:
- 1:22 PM Ticket #1410 (bundleinfo.xml DataFile not installed/found) closed by
- fixed: Fixed in b0a9858c3. about.html was neither created nor …
Nov 9, 2018:
- 3:33 PM Ticket #427 (Add multitouch trackpad rotation and translation) closed by
- fixed: Added 2-finger and 3-finger Mac trackpad drags to rotate, zoom and …
- 3:31 PM Ticket #1433 (Allow for direct monitoring of setting changes) created by
- ... so that the settings GUI doesn't have to be notified by every Tom, …
- 11:14 AM Ticket #1432 (Focus out from command line: QLineEdit::setSelection: Invalid start ...) closed by
- fixed: Hi Brandon, Thanks for reporting this problem. It's harmless but …
- 8:48 AM Ticket #1432 (Focus out from command line: QLineEdit::setSelection: Invalid start ...) created by
- […]
Nov 8, 2018:
- 1:09 PM Ticket #1388 (RFE: start/end for atomspec numerical ranges (or asterisk to mean them)) closed by
- fixed: Fixed in 987564593. Looks like "*" used to work. Fixed …
- 12:59 PM Ticket #1388 (RFE: start/end for atomspec numerical ranges (or asterisk to mean them)) reopened by
- 12:15 PM Ticket #1428 (ISOLDE: crash in Distance_Restraint_Mgr destructor) closed by
- fixed: Oops. A silly oversight on my part: destructor was calling the class's …
- 10:57 AM Ticket #1431 (Atom specifiers not handling chain case correctly) closed by
- duplicate: This undoubtedly the same root problem as for your earlier report. …
- 10:39 AM Ticket #1430 (Atom specifiers not selecting upper case chain IDs) closed by
- duplicate: Duplicate of #1429
- 10:09 AM Ticket #1431 (Atom specifiers not handling chain case correctly) created by
- […]
- 9:25 AM Ticket #1430 (Atom specifiers not selecting upper case chain IDs) created by
- […]
- 8:46 AM Ticket #1429 (Atom specifiers not handling chain case correctly) created by
- […]
- 3:26 AM Ticket #1428 (ISOLDE: crash in Distance_Restraint_Mgr destructor) created by
- […]
Nov 7, 2018:
- 10:30 AM Ticket #1425 (Molecular surface session restore: can't set attribute) closed by
- fixed: Fixed. Change made a week ago to allow measuring enclosed volume of …
- 9:57 AM Ticket #1427 (offscreen rendering fails) created by
- Running 'chimerax-daily --nogui --offscreen' fails to get an offscreen …
Nov 6, 2018:
- 11:23 AM Ticket #1426 (mlp: No module named 'chimerax.core.commands.surface') created by
- […]
- 6:26 AM Ticket #1425 (Molecular surface session restore: can't set attribute) created by
- […] nucleosome.cxs
Nov 5, 2018:
- 7:03 PM Ticket #1419 (Crash in chem_group::find_5ring_OR2) closed by
- fixed: Your feedback was very helpful in allowing me to track down this …
- 5:49 PM Ticket #1424 (Boolean attribute tests now failing) closed by
- fixed: Fixed in 8eaeff88d. A whole section code of dealing with …
- 3:58 PM Ticket #1424 (Boolean attribute tests now failing) created by
- […]
- 3:27 PM Ticket #1412 (bug reporting doubles log commands) closed by
- fixed: Fixed. Removed duplicate by scanning the log's HTML source and put a …
- 3:22 PM Ticket #1423 (ChimeraX bug report submission) closed by
- fixed: Test of fix for #1412 showing that it is fixed!
- 3:18 PM Ticket #1423 (ChimeraX bug report submission) created by
- […]
- 3:17 PM Ticket #1388 (RFE: start/end for atomspec numerical ranges (or asterisk to mean them)) closed by
- fixed: Fixed in 8d2acd142. Code was using residue atomspec as …
- 1:49 PM Ticket #1422 (ChimeraX bug report submission) closed by
- duplicate: Duplicate of #1412. Actually test of a bug fix that didn't work.
- 1:23 PM Ticket #1422 (ChimeraX bug report submission) created by
- […]
- 11:14 AM Ticket #1420 (Crash on OS X Mojave) closed by
- can't reproduce
- 10:29 AM Ticket #1421 (Earlier detection of core incompatibilities) created by
- It would be a significant enhancement if the Tool Shed could detect …
- 10:24 AM Ticket #1418 (Clipper incompatible with ChimeraX >= 0.7) closed by
- not a bug: Hi Ricardo, As of right now, Clipper only works with ChimeraX version …
Nov 4, 2018:
- 11:49 PM Ticket #1420 (Crash on OS X Mojave) created by
- […]
- 5:33 PM Ticket #1419 (Crash in chem_group::find_5ring_OR2) created by
- […]
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