![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Timeline
Apr 4, 2019:
- 4:29 PM Ticket #1823 (saved image silhouette width too fat) created by
- If I save a smaller image than the window the silhouettes become much …
- 3:17 PM 2019-04-04 created by
- 2:11 PM DeveloperMeetings edited by
- (diff)
Apr 3, 2019:
- 10:46 AM Ticket #1821 (surface-center marker placement: cannot import name 'surface' from ...) created by
- […]
- 10:42 AM Ticket #1820 (Matchmaker for specific selections) closed by
- not a bug: Okay, win-win. :-)
- 7:13 AM Ticket #1820 (Matchmaker for specific selections) created by
- Working on adding reference model-based restraints to ISOLDE - I have …
- 6:31 AM Ticket #1819 (Problem with PyPI dependencies (or dependencies of dependencies?)) created by
- I've just recently added the PyPI package ParmEd (for working with and …
- 1:39 AM Ticket #1818 (Normals incorrect for instanced objects different scaling along each axis) created by
- Context is a new "adaptive" distance restraint scheme (see …
Apr 2, 2019:
- 1:28 PM Ticket #1817 (Save log as commands) created by
- Extract and save commands from log
- 1:27 PM Ticket #1816 (Restore log contents from sessions) created by
- Use dated disclosure triangle to hide/show previous work. Trick is to …
- 1:07 PM Ticket #1784 (Spurious "command replacing existing command" log entries) closed by
- fixed: Greg apparently fixed this.
- 1:06 PM Ticket #1661 (Support adding state managers from bundles) closed by
- fixed: Implemented in 895143f2c45. Added Managers, Manager, …
- 1:03 PM Ticket #1327 (Tethers not hidden correctly) closed by
- fixed: Fixed in ec5804859. Tethers were always displayed for …
Apr 1, 2019:
- 5:39 PM Ticket #1813 (Header sequence restore: missing 1 required positional argument: ...) closed by
- duplicate: Fixed on 2/27
- 5:36 PM Ticket #1811 (Header sequence restore: missing 1 required positional argument: ...) closed by
- duplicate: Fixed on 2/27
Mar 29, 2019:
- 10:18 AM Ticket #1815 (style selAtom gives keyword error) created by
- In particular "style selAtom & nucleic ringFill on" fails with …
- 9:41 AM Ticket #1814 (missing cartoon tethers to nucleotides) created by
- Repeat by opening 2bna and switching all atoms with "nuc atoms" and …
- 9:03 AM Ticket #1813 (Header sequence restore: missing 1 required positional argument: ...) created by
- […]
- 8:48 AM Ticket #1812 (Changing lighting of MRC volume: 'numpy.float64' object cannot be ...) created by
- […]
- 7:30 AM Ticket #1811 (Header sequence restore: missing 1 required positional argument: ...) created by
- […]
Mar 27, 2019:
- 5:10 PM Ticket #1767 (AddH: trying to bind bonded geometry of atom with no bonds) closed by
- fixed: When finding H-bonds, skip donors/acceptors missing heavy-atom bond …
- 11:28 AM Ticket #1809 (Qt crash) closed by
- can't reproduce: Hi Paul, Thank you so much for providing details about what you were …
- 7:57 AM Ticket #1810 (Morph: ValueError: models have different number of chains) created by
- […]
Mar 26, 2019:
- 7:04 PM Ticket #1809 (Qt crash) created by
- […] phospholipide-eau.cxs
- 10:50 AM Ticket #1808 (self._positions is None) closed by
- duplicate
- 10:50 AM Ticket #1807 (self._positions is None) closed by
- duplicate
- 10:48 AM Ticket #1806 (self._positions is None) closed by
- duplicate
- 10:47 AM Ticket #1805 (Qt crash) closed by
- can't reproduce
- 10:34 AM Ticket #1804 (Error in AddH error message :-)) closed by
- fixed
- 10:27 AM Ticket #1803 (Tab completion failing on session.view) closed by
- nonchimerax: Apparently tab completion doesn't work on properties. 'view' is a …
- 8:17 AM Ticket #1808 (self._positions is None) created by
- […]
- 7:40 AM Ticket #1807 (self._positions is None) created by
- […]
- 7:37 AM Ticket #1806 (self._positions is None) created by
- […]
- 7:27 AM Ticket #1805 (Qt crash) created by
- […]
- 7:08 AM Ticket #1804 (Error in AddH error message :-)) created by
- […]
- 4:09 AM Ticket #1803 (Tab completion failing on session.view) created by
- Not sure if it's related to #1802 or not, but there's some weirdness …
- 3:25 AM Ticket #1802 (Python shell: tab completion produces "KeyError: 'matches' " after ...) created by
- […]
Mar 25, 2019:
- 4:19 PM 2019-03-21 edited by
- (diff)
- 4:10 PM 2019-03-21 edited by
- (diff)
- 11:59 AM Ticket #1801 (error reading DICOM RTDOSE: tuple object not callable) created by
- for example, any of the RT DOSE subdirs in the same dataset as …
- 11:56 AM Ticket #1800 (error reading DICOM CT: TypeError: Cannot cast ufunc multiply output) created by
- for example, the CT subdirectory in the same dataset as attached to …
- 11:46 AM Ticket #1798 ('Session' object has no attribute 'preset_mgr') closed by
- duplicate: Hi Klaas, This problem was fixed the day after the version you …
- 11:14 AM Ticket #1799 (error reading DICOM SEG models: IndexError: tuple index out of range) created by
- Reading these files was working fine for a while, but another change …
- 11:02 AM Ticket #1797 ('Session' object has no attribute 'preset_mgr') closed by
- duplicate: Hi Kuen, This problem was fixed the day after the version you got(!), …
Mar 24, 2019:
Mar 23, 2019:
Mar 21, 2019:
- 4:24 PM 2019-03-21 edited by
- (diff)
- 4:23 PM 2019-03-21 edited by
- (diff)
- 4:17 PM 2019-03-21 edited by
- (diff)
- 4:16 PM 2019-03-21 edited by
- (diff)
- 4:16 PM 2019-03-21 edited by
- (diff)
- 3:20 PM 2019-03-21 created by
- 2:05 PM DeveloperMeetings edited by
- (diff)
- 11:42 AM Ticket #1795 (self._positions is None) closed by
- duplicate: Fixed last month.
Mar 20, 2019:
- 4:28 PM Ticket #1796 (Some kind of crash on the GPU) created by
- […]
- 6:30 AM Ticket #1795 (self._positions is None) created by
- […]
Mar 19, 2019:
- 5:28 PM Ticket #1793 (Add VR hand controller support for ISOLDE mouse modes) created by
- Add virtual reality hand controller support for ISOLDE mouse modes. …
- 4:27 PM Ticket #1792 (command "preset cartoon" TypeError: expected 1 arguments, got 0) closed by
- fixed: Missed some parens in a custom-sortable-string class I implemented. …
- 4:18 PM Ticket #1792 (command "preset cartoon" TypeError: expected 1 arguments, got 0) created by
- […]
- 12:49 PM Ticket #1791 (single-color space-filling preset lighting) closed by
- fixed
- 11:07 AM Ticket #1791 (single-color space-filling preset lighting) created by
- […] Screen Shot 2019-03-19 at 2.04.49 PM.png
Mar 18, 2019:
- 3:10 PM 2019-03-07 edited by
- (diff)
- 11:48 AM Ticket #1788 (Error handling: cannot unpack non-iterable NoneType object) closed by
- fixed
- 11:21 AM ChangeLog edited by
- (diff)
- 10:42 AM Ticket #1790 (Crash handling event) closed by
- can't reproduce: Seems to be entirely within Qt and graphics driver
- 10:26 AM Ticket #1790 (Crash handling event) created by
- […]
- 5:42 AM Ticket #1788 (Error handling: cannot unpack non-iterable NoneType object) created by
- […]
- 4:43 AM Ticket #1787 (Separate development builds on the Tool Shed) created by
- As per discussions last week, it would be great to have the ability to …
- 3:58 AM Ticket #1786 (Naming of development bundles) created by
- Setup Tools seems to be doing some automatic reformatting of bundles …
Mar 15, 2019:
- 2:57 PM Ticket #1785 (Have "view" not override center-of-view rotation mode) created by
- If rotation mode is center-of-view, have "view" command just continue …
- 2:38 PM Ticket #1784 (Spurious "command replacing existing command" log entries) created by
- […]
- 2:28 PM Ticket #1780 (Include .pyx file in distribution for reference purposes) closed by
- fixed
- 2:12 PM Ticket #1783 (mmCIF: non-standard nucleotides disconnected in 5tna) created by
- In 5tna, residue 2MG (:10) does not connect to either the nucleotide …
- 1:45 PM Ticket #1778 (ISOLDE installation: UnicodeDecodeError) closed by
- duplicate
- 7:19 AM Ticket #1782 (Crash finding 6-member planar NR2 ring in 5vpx) created by
- […] 5vpx.cif
- 7:17 AM Ticket #1781 (Crash finding 6-member planar NR2 ring in 5vrj) created by
- […] 5vrj.cif
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
- […]
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