![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Timeline
Mar 14, 2019:
- 5:45 PM benchmarking edited by
- (diff)
- 5:37 PM Ticket #1780 (Include .pyx file in distribution for reference purposes) created by
- […]
- 5:34 PM benchmarking edited by
- (diff)
- 5:32 PM benchmarking edited by
- (diff)
- 5:07 PM benchmarking edited by
- (diff)
- 4:47 PM Ticket #1779 (ISOLDE picking: unsupported operand type(s) for -: 'NoneType' and ...) created by
- […]
- 3:42 PM Ticket #1778 (ISOLDE installation: UnicodeDecodeError) created by
- […]
- 3:13 PM benchmarking edited by
- (diff)
- 2:54 PM benchmarking edited by
- (diff)
- 2:07 PM benchmarking edited by
- (diff)
- 2:06 PM benchmarking created by
- 12:52 PM DeveloperMeetings edited by
- (diff)
- 12:18 PM Ticket #1777 (Model-specific lighting/materials) created by
- […]
- 12:00 PM Ticket #1776 (Mottled ribbons) closed by
- not a bug: ChimeraX ambient occlusion is an approximation. To compute ambient …
- 10:46 AM Ticket #1772 (REST broken: KeyError: 'CONTENT-LENGTH') closed by
- fixed: The (next successful, probably dated March 14, 2019) daily build …
- 8:36 AM Ticket #1776 (Mottled ribbons) created by
- […] Screen Shot 2019-03-14 at 11.33.49 AM.png
- 8:33 AM Ticket #1775 (RFE: custom palettes) created by
- […]
Mar 13, 2019:
- 9:37 PM Ticket #1774 (Various errors) created by
- […]
- 7:07 PM Ticket #1598 (RFE: command to report current volume-rendering settings) closed by
- fixed: "volume settings" command has been added
- 5:31 PM ChangeLog edited by
- (diff)
- 5:27 PM Ticket #1773 (Optimize speed reading TIFF volume data) closed by
- fixed: Switched to reading TIFF volume with tifffile.py (version 2019.3.18) …
- 2:56 PM ChangeLog edited by
- (diff)
- 2:46 PM Ticket #1773 (Optimize speed reading TIFF volume data) created by
- Reading 3d images in TIFF format with Pillow is much slower than one …
- 1:06 PM Ticket #1772 (REST broken: KeyError: 'CONTENT-LENGTH') created by
- […]
- 11:30 AM Ticket #1759 (Bond rotation slow when ribbon shown) closed by
- fixed: Verified to work in VR
- 10:08 AM Ticket #1771 ("devel install" cannot link OpenMM.lib) created by
- In Windows, the OpenMM .lib files are currently placed in …
Mar 12, 2019:
- 2:05 PM ChangeLog edited by
- (diff)
- 11:18 AM Ticket #1769 (IHM NameError: name 'mname' is not defined) closed by
- fixed: Fixed. Typo in recent code change involving opening map file.
- 11:01 AM Ticket #1770 (Add command to create pseudobonds.) created by
- Should have a command for creating pseudobonds, setting their color …
- 10:53 AM Ticket #1769 (IHM NameError: name 'mname' is not defined) created by
- […]
- 9:53 AM Ticket #1768 (mmCIF export: chain ID KeyError) created by
- […] assembly.cif.gz
- 9:46 AM Ticket #1767 (AddH: trying to bind bonded geometry of atom with no bonds) created by
- […] assembly.cif.gz
Mar 11, 2019:
- 4:46 PM Ticket #1736 (Morph: No coordset id 1) closed by
- fixed: Fixed. Morph was making a copy of the first model and then adding …
- 11:18 AM Ticket #1765 ('Session' object has no attribute 'preset_mgr') closed by
- duplicate: Hi Haoming, Sorry for the problem with the session restore. It was …
- 11:14 AM Ticket #1764 (UnicodeDecodeError installing ISOLDE) closed by
- duplicate: This is a known bug affecting ChimeraX 0.8 in Windows. Please see …
Mar 9, 2019:
- 5:47 PM Ticket #1766 (Permission denied installing Clipper) created by
- […]
- 10:05 AM Ticket #1765 ('Session' object has no attribute 'preset_mgr') created by
- […] error.txt
Mar 9, 2019:
Mar 8, 2019:
- 9:55 PM Ticket #1762 (Blend multichannel volume data on GPU) created by
- Would like to be able to blend multichannel volume data by keeping …
- 7:38 PM Ticket #1761 (Volume rendering artifacts from 8-bit colors) created by
- Volume rendering as a 3d image sometimes appears darker at step 1 …
- 4:16 PM Ticket #1760 (UnicodeDecodeError installing ISOLDE) closed by
- duplicate
- 3:17 PM Ticket #1760 (UnicodeDecodeError installing ISOLDE) created by
- […]
Mar 7, 2019:
- 3:02 PM 2019-03-07 created by
- 2:06 PM DeveloperMeetings edited by
- (diff)
- 1:45 PM Ticket #1759 (Bond rotation slow when ribbon shown) created by
- When rotating a sidechain bond with the mouse with ribbon display, the …
- 1:40 PM Ticket #1758 (Ribbon color change slow because it recomputes ribbon) created by
- Changing any ribbon residue color causes the shape of the entire …
- 1:07 PM Ticket #1757 (Need access to password protected web sites) created by
- Currently, when one requests a password protected web site, e.g., …
- 11:58 AM Ticket #1669 (Toolshed updating list of tools: 'list' object has no attribute 'split') closed by
- fixed: Fixed by 9c80cac968. Daily builds after January 24, 2019 …
- 11:57 AM Ticket #1727 (Startup: AttributeError: 'list' object has no attribute 'split') closed by
- fixed: Fixed by 9c80cac968. Daily builds after January 24, 2019 …
- 11:04 AM Ticket #1756 (hide/show DICOM SEG gives AttributeError: 'NoneType' object has no ...) closed by
- fixed: Fixed. Error happened when number of blended dicom images changed.
- 10:55 AM Ticket #1755 (No cPickle in Python 3) closed by
- not a bug: In Python 3, just use "pickle"
- 9:43 AM Ticket #1756 (hide/show DICOM SEG gives AttributeError: 'NoneType' object has no ...) created by
- Platform: Darwin-17.7.0-x86_64-i386-64bit ChimeraX Version: 0.9 …
- 6:52 AM Ticket #1755 (No cPickle in Python 3) created by
- […]
- 5:31 AM Ticket #1754 (ChromaDepth) created by
- I'm in bed with a cold and a little bored, and someone on the CCP4 …
Mar 6, 2019:
- 12:48 PM Ticket #1753 (cartoon style command interprets spec with atoms but without ...) created by
- I am prototyping possible presets and noticed that in certain cases …
- 7:23 AM Ticket #1752 (Focal blur) created by
- […]
Mar 5, 2019:
- 2:33 PM Ticket #1729 (OpenGL buffer was not deleted before core.graphics.Buffer) closed by
- can't reproduce: Could not find any way for this to happen. Improved error message to …
- 2:32 PM toolbar-unification edited by
- (diff)
- 1:49 PM Ticket #1751 ('Alignment' object has no attribute 'suspend_notify_viewers') closed by
- fixed: Hi Cody, Thanks for reporting this -- it hadn't been reported before. …
- 1:36 PM Ticket #1751 ('Alignment' object has no attribute 'suspend_notify_viewers') created by
- […] 6atk.pdb
- 1:31 PM Ticket #1750 ('Session' object has no attribute 'preset_mgr') closed by
- duplicate: Hi Cody, Sorry for the problem with the session restore. It is fixed …
- 1:25 PM Ticket #1750 ('Session' object has no attribute 'preset_mgr') created by
- […] MERS_DPP4_PDB4l72_PosSelection.cxs
- 10:32 AM Ticket #1749 ('Session' object has no attribute 'preset_mgr') closed by
- duplicate: Fixed/pushed.
- 10:30 AM Ticket #1747 ('Session' object has no attribute 'preset_mgr') closed by
- duplicate: Hi Rohit, Sorry about this error. I have fixed it now and the fix …
- 10:28 AM Ticket #1746 ('Session' object has no attribute 'preset_mgr') closed by
- fixed
- 9:19 AM Ticket #1749 ('Session' object has no attribute 'preset_mgr') created by
- […]
- 8:45 AM Ticket #1748 (Extend solid rendering brightness curve) created by
- […] Screen Shot 2019-03-05 at 11.36.49 AM.png
- 8:06 AM Ticket #1747 ('Session' object has no attribute 'preset_mgr') created by
- […]
- 4:33 AM Ticket #1746 ('Session' object has no attribute 'preset_mgr') created by
- […]
Mar 4, 2019:
- 6:47 PM Ticket #1745 (Error opening DICOM with lossless JPEG image encoding) created by
- […] image-000001.dcm
- 4:00 PM Ticket #1742 (volume onesmask: local variable 'varray' referenced before assignment) closed by
- fixed: Fixed. Appears that the "volume onesmask" command was never tested, …
- 3:47 PM Ticket #1744 (undo does not undo cartoon xsection change of some residues) created by
- When a protein is first shown as ribbon, the strands have rectangular …
Mar 1, 2019:
Feb 28, 2019:
- 8:55 PM Ticket #1742 (volume onesmask: local variable 'varray' referenced before assignment) created by
- […]
- 4:34 PM Ticket #1739 (Make pseudobonds end on cartoons) closed by
- duplicate: Duplicate of #183; adding reporter and attachment to that ticket.
- 4:24 PM Ticket #1741 (Qt crash) created by
- […]
- 4:20 PM ChangeLog edited by
- (diff)
- 2:39 PM Ticket #1740 (need bundle argument to help) created by
- The help from a tool's context menu needs to start looking for the …
- 2:00 PM Ticket #1739 (Make pseudobonds end on cartoons) created by
- […] Screen Shot 2019-02-28 at 4.56.53 PM.png
- 1:12 PM Ticket #1738 (Increase surface-cap subdivision) created by
- […] Screen Shot 2019-02-28 at 4.11.12 PM.png
- 12:59 PM Ticket #1737 (Palette support in volumes and scale bars) created by
- […]
- 12:14 PM toolbar-unification edited by
- (diff)
- 11:43 AM toolbar-unification created by
- 11:22 AM DeveloperMeetings edited by
- (diff)
- 10:09 AM Ticket #1736 (Morph: No coordset id 1) created by
- […]
- 4:29 AM Ticket #1735 (AddH fails after residue deletion) created by
- […]
Feb 27, 2019:
- 6:09 PM Ticket #1734 (Volume compressed to single plane) closed by
- not a bug: The data looks relatively smooth and I think it would look much better …
- 5:31 PM Ticket #1733 (Sequence headers session-restore problem) closed by
- fixed: Hi Dustin, Thanks for reporting this problem. It is fixed now and …
- 3:53 PM Ticket #1734 (Volume compressed to single plane) created by
- […] movie.mp4
- 3:38 PM Ticket #1732 (Unexpected None data given to AtomicStructure.restore_snapshot()) closed by
- duplicate: Duplicate of #1660; adding reporter to that ticket
- 3:21 PM Ticket #1733 (Sequence headers session-restore problem) created by
- […]
- 2:08 PM Ticket #1720 (Preset manager) closed by
- fixed
- 1:37 PM Ticket #1732 (Unexpected None data given to AtomicStructure.restore_snapshot()) created by
- […] SecY.cxs
Feb 26, 2019:
Feb 25, 2019:
- 3:07 PM ChangeLog edited by
- (diff)
- 2:59 PM Ticket #1491 (bundleinfo.xml tag for compiling executables) closed by
- fixed
- 12:27 PM Ticket #1730 (self._positions is None) closed by
- duplicate: Fixed last week.
- 11:17 AM Ticket #1726 (Unexpected None data given to AtomicStructure.restore_snapshot()) closed by
- duplicate: Basically a duplicate of #1660
- 6:58 AM Ticket #1730 (self._positions is None) created by
- […]
- 3:00 AM Ticket #1729 (OpenGL buffer was not deleted before core.graphics.Buffer) created by
- […]
- 2:38 AM Ticket #1728 (AddH adds spurious hydrogens when called twice) created by
- Attached PDB of the residue (symmetric dimethylarginine, 2MR) for …
- 2:10 AM Ticket #1725 (UnicodeDecodeError installing ISOLDE) closed by
- duplicate: This is a known bug affecting ChimeraX 0.8 in Windows. Please see …
Feb 24, 2019:
- 9:02 AM Ticket #1727 (Startup: AttributeError: 'list' object has no attribute 'split') created by
- […]
Feb 23, 2019:
- 8:38 AM Ticket #1726 (Unexpected None data given to AtomicStructure.restore_snapshot()) created by
- […]
Feb 22, 2019:
- 10:24 AM Ticket #1724 (camera stereo: access violation in draw_elements) closed by
- duplicate: The stereo camera mode was not working about a month ago and I put in …
- 2:53 AM Ticket #1725 (UnicodeDecodeError installing ISOLDE) created by
- […]
- 1:25 AM Ticket #1724 (camera stereo: access violation in draw_elements) created by
- […]
Feb 21, 2019:
- 2:50 PM 2019-02-21 created by
- 2:14 PM DeveloperMeetings edited by
- (diff)
- 12:02 PM Ticket #1723 (Drop of .pyc file → source code string cannot contain null bytes) created by
- […]
- 11:03 AM Ticket #1722 (toolshed uninstall Toolbar → JSONDecodeError) created by
- […]
- 10:55 AM Ticket #1721 (Qt crash) closed by
- can't reproduce: Hi Aji, Unfortunately, the information from the traceback in the bug …
- 1:25 AM Ticket #1721 (Qt crash) created by
- […]
Feb 20, 2019:
- 4:41 PM Ticket #1717 (QResizeEvent can break graphics under some circumstances) closed by
- fixed: Fixed. Window resize causes error when ribbon changed since last …
- 4:39 PM Ticket #1718 (self._positions is None) closed by
- duplicate: Duplicate of #1717. Window resize causes error when ribbon changed …
- 3:34 PM Ticket #1720 (Preset manager) created by
- Preset manager that collates presets provided by bundles and can be …
- 3:28 PM Ticket #1685 (Core requirement mismatch) closed by
- not a bug
- 3:14 PM Ticket #1655 (Command history problems) closed by
- fixed: Well, mostly fixed. The ChimeraX command-search code had suffered …
- 2:13 PM Ticket #1719 ("inside" color for ribbons) created by
- Allow a different color for ribbon "inside"
- 7:40 AM Ticket #1718 (self._positions is None) created by
- […]
- 3:08 AM Ticket #1717 (QResizeEvent can break graphics under some circumstances) created by
- I've stumbled on a (very specific) combination of circumstances where …
Feb 19, 2019:
- 11:53 AM Ticket #1712 (Image save: Require contiguous 3x4 array) closed by
- can't reproduce: Bug in 0.8. Does not appear possible to have non-contiguous matrix in …
- 11:39 AM Ticket #1710 (Collada limitations and UnboundLocalError: local variable 's' ...) closed by
- fixed: Yes, your files are using features of OBJ and Collada that ChimeraX …
- 11:23 AM Ticket #1713 (getcrd: atom-string style not in option's list of values) closed by
- fixed: Updated to current value for that setting
- 10:51 AM Ticket #1709 (Qt crash) closed by
- can't reproduce: Hi Vikram, Thanks for reporting this problem. Unfortunately, the …
- 5:16 AM Ticket #1716 (Missing bond) created by
- […] link.png
- 4:04 AM Ticket #1715 (distutils finding wrong libpython) created by
- Ever since I installed a system-wide Python 3.7 on my workstation, …
- 3:16 AM Ticket #1714 (ChimeraX bug report submission) closed by
- duplicate: This is a known bug affecting ChimeraX 0.8 in Windows. You can find a …
Feb 18, 2019:
- 4:08 PM Ticket #1714 (ChimeraX bug report submission) created by
- […]
- 2:55 PM Ticket #1713 (getcrd: atom-string style not in option's list of values) created by
- […]
- 9:35 AM Ticket #1712 (Image save: Require contiguous 3x4 array) created by
- […]
Feb 15, 2019:
- 3:04 AM Ticket #1710 (Collada limitations and UnboundLocalError: local variable 's' ...) created by
- […]
- 1:13 AM Ticket #1709 (Qt crash) created by
- […]
Feb 14, 2019:
- 3:08 PM MSCContract edited by
- (diff)
- 3:01 PM WikiStart edited by
- (diff)
- 2:43 PM MSCContract edited by
- (diff)
- 2:32 PM MSCContract edited by
- (diff)
- 1:11 PM DeveloperMeetings edited by
- (diff)
- 12:18 PM MSCContract created by
- 12:08 PM HurtITK created by
- 11:37 AM Ticket #1708 (Qt crash) closed by
- can't reproduce
- 5:37 AM Ticket #1708 (Qt crash) created by
- […]
- 2:27 AM Ticket #1707 (Set atom types for residue based on dictionary) created by
- AddH is getting things wrong for the modified nucleobase 1MG in 6hrm …
Feb 13, 2019:
- 4:25 PM EricsSOW edited by
- (diff)
- 3:54 PM Ticket #1701 (Soft lighting bug after undisplayed opacity change) closed by
- fixed: Fixed. Add transparency tracking code to catch volume surface …
- 2:45 PM Ticket #1702 (Depth cue color sometimes mismatches background color) closed by
- fixed: Fixed. Depth cue color was not matching preference setting background.
- 2:35 PM EricsSOW edited by
- (diff)
- 2:34 PM EricsSOW edited by
- (diff)
- 2:31 PM EricsSOW edited by
- (diff)
- 2:29 PM EricsSOW created by
- 2:03 PM Ticket #1705 ("make build-from-scratch" fails) closed by
- fixed: Fixed by not guessing where ChimeraX.app is.
- 1:54 PM 2019-02-07 edited by
- (diff)
- 1:41 PM Ticket #1706 (make clean fails: missing subdirectory tut_gui) closed by
- fixed: tut_gui became tut_tool_html and tut_tool_qt
- 1:12 PM Ticket #1706 (make clean fails: missing subdirectory tut_gui) created by
- […]
- 1:01 PM Ticket #1705 ("make build-from-scratch" fails) created by
- […] build1.out
- 11:44 AM Ticket #1703 (Session save: No bundle information for ...) closed by
- duplicate: Duplicate of #1698
- 11:31 AM Ticket #1704 (Implement full selection cascade) created by
- Possibly including Tristan's suggestion of a glycosylation level (#1700)
- 11:15 AM Ticket #1699 (ISOLDE installation: UnicodeDecodeError) closed by
- duplicate: This is a known bug affecting ChimeraX 0.8. You can find instructions …
- 10:40 AM Ticket #1703 (Session save: No bundle information for ...) created by
- […]
- 8:45 AM Ticket #1702 (Depth cue color sometimes mismatches background color) created by
- […]
- 7:45 AM Ticket #1701 (Soft lighting bug after undisplayed opacity change) created by
- […] chimerax_lighting_bug.mov
- 6:04 AM Ticket #1700 (Selection "promotion" in glycans etc.) created by
- Referring to the selection manipulation behaviour using the keyboard …
Feb 12, 2019:
- 4:36 PM Ticket #1622 (Need a method to clear atom's anisotropic B-factors) closed by
- fixed: Okay, this works now for collections too. --Eric
- 4:17 PM Ticket #1699 (ISOLDE installation: UnicodeDecodeError) created by
- […]
- 3:46 PM Ticket #1687 (Bogus "incompatible matrix" error) closed by
- fixed: The temporary "domain sequences" that matchmaker was creating to do …
- 12:36 PM Ticket #1697 (Crash while copying text) closed by
- can't reproduce: HI Jozef, Thanks for getting back to me so quickly. This seems like …
- 11:11 AM Ticket #1693 (Session save: No bundle information for ...) closed by
- duplicate: duplicate of #1698
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