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Timeline
Aug 8, 2017:
- 6:06 PM Ticket #787 (label pseudobonds doesn't work if given pbond model number) closed by
- fixed: Fixed.
- 5:37 PM Ticket #774 (sym assembly model lacks metal coordination pbonds) closed by
- fixed
- 3:55 PM Ticket #790 (error saving session with crosslinks histogram) created by
- If I open the attached cxc file and then try to save session, I get …
- 3:30 PM Ticket #789 (Optimize atom radius lookup) created by
- Looking up atom radii values during graphics updates and when …
- 1:59 PM Ticket #788 (hbonds "selrestrict both" causes error) closed by
- fixed: Fixed as a side effect of findclash-like command syntax changes
- 12:20 PM Ticket #788 (hbonds "selrestrict both" causes error) created by
- This may be moot since you're getting rid of the selrestrict option, …
- 12:06 PM Ticket #787 (label pseudobonds doesn't work if given pbond model number) created by
- I'm pretty sure this used to work, but now the following doesn't show …
- 11:55 AM Ticket #786 (need method to reset view to default state) created by
- When closing a session, all of the tools are reset to the default …
Aug 7, 2017:
- 5:38 PM Ticket #785 (opening session w/ sequence after closing a sequence gives traceback) closed by
- fixed: The tools manager wasn't handling the change of tool ID during session …
- 4:37 PM Ticket #781 (hbonds error on 1bzm) closed by
- fixed
- 1:49 PM Ticket #785 (opening session w/ sequence after closing a sequence gives traceback) created by
- Restoring the attached session in a fresh ChimeraX seems to work fine, …
- 11:37 AM Ticket #784 (Revise BundleAPI for registering commands) created by
- Instead of passing in the command name, pass in the bundle's …
- 11:35 AM Ticket #783 (Integrate bundle help files with core help) created by
- Start by modifying help URLs to work with help in bundles: …
- 11:27 AM Ticket #782 (Need to be able to generate documention for bundles) created by
- Bundles are built using the ChimeraX application. Thus sphinx et. al. …
- 10:49 AM Ticket #781 (hbonds error on 1bzm) created by
- open1 bzm hb Traceback (most recent call last): File …
- 10:06 AM BundleSessionSupport created by
Aug 5, 2017:
- 1:40 PM Ticket #700 (Toolshed dependency issue) closed by
- fixed: Fixed in 79500db. The toolshed code was expecting an …
Aug 4, 2017:
- 10:54 AM Ticket #777 (3D labels sideways on matched model) closed by
- fixed: Humorous slanted labels. Fixed.
- 10:49 AM Ticket #780 (Prerequisite dependency versions listed in two places) created by
- Some of the prerequisite dependency versions are listed in two or …
- 8:05 AM Ticket #779 (Fresh build breaks on appdirs requirement) closed by
- not a bug: Never mind. Seems I had some old partial build after all. After I …
- 7:18 AM Ticket #779 (Fresh build breaks on appdirs requirement) created by
- Traceback: […] There's quite a bit of chatter about this online …
- 3:58 AM Ticket #778 (changing coordinates very slow for large structures) created by
- It would seem that in large structures (i.e. over 100k atoms), moving …
Aug 3, 2017:
- 3:02 PM 2017-08-03 created by
- 2:39 PM DeveloperMeetings edited by
- (diff)
- 12:49 PM Ticket #777 (3D labels sideways on matched model) created by
- If I've moved a model separately from the scene, its labels are not …
Aug 2, 2017:
- 11:29 AM Ticket #772 (4gbc "sym #1 assembly 1 copies t" gives traceback) closed by
- fixed: Fixed.
- 10:56 AM Ticket #770 (Memory leak on windows with any model open, 40 Mb / minute) closed by
- fixed: "Fixed" by 1b849bdc2. The ChangeTracker.changed method …
Aug 1, 2017:
- 5:49 PM Ticket #773 (sideways labels on graphical copies) closed by
- wontfix: I think this probably won't be fixed. A "graphical copy" is very …
- 12:59 PM Ticket #776 (Right-click on Side View produces traceback) created by
- Traceback (most recent call last): File …
Jul 31, 2017:
- 7:25 PM Ticket #775 (add matrix/place attr to C++ Structure) created by
- ...to make it easy to get the transformed coordinates, and to get a …
- 4:41 PM Ticket #774 (sym assembly model lacks metal coordination pbonds) created by
- open 4gbc ... see two metal-coordination pbonds sym #1 assem 1 ... …
- 3:57 PM Ticket #773 (sideways labels on graphical copies) created by
- example (image attached): open 4gbc sym #1 assem 1 view la :gly res
- 2:32 PM Ticket #771 ("hb salt true" causes traceback on 5o3o) closed by
- fixed: Fixed now.
- 2:17 PM Ticket #730 (unhelpful links in Log from "open formats" command) closed by
- fixed: Used help:user/commands/... links to link to internal documentation.
- 12:47 PM Ticket #772 (4gbc "sym #1 assembly 1 copies t" gives traceback) created by
- From the Log: open 4gbc Summary of feedback from opening 4gbc fetched …
- 12:41 PM Ticket #719 (SSL error fetching from PDB on Windows) closed by
- worksforme: No longer able to reproduce bug. -- Greg
- 12:14 PM Ticket #615 (Add support for 3d labels) closed by
- fixed: Added session support for 3d labels. I think the current capabilities …
- 11:48 AM Ticket #771 ("hb salt true" causes traceback on 5o3o) created by
- open 5o3o format mmcif fromDatabase pdb Summary of feedback from …
Jul 28, 2017:
- 9:04 AM Ticket #770 (Memory leak on windows with any model open, 40 Mb / minute) created by
- On WIndows with any model (tested PDB, mol2, density map) open …
Jul 27, 2017:
- 3:34 PM 2017-07-27 created by
- 3:29 PM Ticket #769 (Implement findclash) created by
- findclash is needed by RINalyzer. Now that hbond is available, …
- 2:07 PM DeveloperMeetings edited by
- (diff)
- 1:35 PM 2017-07-06 edited by
- (diff)
- 1:27 PM 2017-07-06 edited by
- (diff)
- 1:23 PM Ticket #768 (depth-cueing off not remembered in session) closed by
- fixed: Fixed. Depth cue was not being saved in sessions.
- 11:26 AM Ticket #768 (depth-cueing off not remembered in session) created by
- If I set "light depth f" and then use "light" w/o arguments it shows …
Jul 26, 2017:
- 5:43 PM Ticket #767 (image save from this session gives quadrant missing silhouette edges) created by
- On my Mac laptop with Intel graphics, OpenGL version: 4.1 …
Jul 25, 2017:
- 4:27 PM Ticket #766 (2dlabels ignores newline \n) created by
- Example: 2d create lab color orange text 'phosphorylated \n …
Jul 24, 2017:
- 6:42 PM Ticket #598 (Use QPainter to draw label text instead of PIL so Qt can handle fonts) closed by
- fixed: Done. Both 2d and 3d labels now use Qt instead of Pillow to draw …
- 4:11 PM Ticket #751 (contacts command fails) closed by
- fixed: Updated to networkx 2.0 (prerelease) from current git source code. …
- 1:23 PM Ticket #765 ("usage blast" gives traceback (delayed registration failed)) closed by
- fixed: Fixed in 2837440. Wrong ChimeraX classifiers were added …
- 12:16 PM Ticket #765 ("usage blast" gives traceback (delayed registration failed)) created by
- usage blast Traceback (most recent call last): File …
- 10:36 AM Ticket #764 (Error closing pseudobond group) closed by
- fixed: Moved pbg removal from open models list from pbg.delete() to …
- 10:26 AM Ticket #763 (undisplayed labels make everything really slow (and closing gives ...) closed by
- fixed: Decided to let Eric fix the pseudobond group delete problem, made new …
- 10:24 AM Ticket #764 (Error closing pseudobond group) created by
- open 2gbp close gives error below. Apparently trying to remove a …
- 9:35 AM Ticket #763 (undisplayed labels make everything really slow (and closing gives ...) created by
- I don't know if the traceback is from the undisplayed labels, but I'm …
Jul 21, 2017:
- 7:21 PM Ticket #762 (Histogram mouse over does not work on Mac retina display) closed by
- fixed: I put in a hack to fix this by multiplying mouse positions by 2 on …
- 7:18 PM Ticket #762 (Histogram mouse over does not work on Mac retina display) created by
- Mousing over a histogram of pseudobond lengths does not highlight the …
Jul 20, 2017:
- 4:37 PM Ticket #761 (Need user interface to be able to choose which tools autostart) closed by
- fixed
- 4:37 PM Ticket #761 (Need user interface to be able to choose which tools autostart) created by
- per summary
- 3:11 PM Ticket #759 (matchmaker broken (couldn't find alignment module)) closed by
- fixed: Seems to be working now... tested in 2017-07-19 build,
- 9:31 AM Ticket #760 (ChimeraX/Isolde error: can't import clipper) created by
- […]
Jul 19, 2017:
- 2:42 PM Ticket #588 (unstable tube orientation in morph) closed by
- fixed: Fixed in 5f5b11940. The unstable helix is six residues …
Jul 18, 2017:
- 5:11 PM Ticket #757 (Save multimodel PDB error) closed by
- fixed: Same problem as #758
- 5:09 PM Ticket #758 (save pdb crashes) closed by
- fixed: PDB saving was basically redeclaring the "models" keyword as a …
- 2:52 PM Ticket #759 (matchmaker broken (couldn't find alignment module)) created by
- I don't think it matters what data, but here's an example: open 2mnr …
- 1:48 PM WikiStart edited by
- (diff)
- 1:41 PM Ticket #754 (file-history thumbnails don't account for saving selected-only or ...) closed by
- wontfix: To create a correct file history icon when saving a part of a model …
- 1:24 PM Ticket #758 (save pdb crashes) created by
- open 1r7z save test.pdb model #1.1 crashes Fatal Python error: …
- 1:19 PM Ticket #756 (file-history logic doesn't account for multi-save with model name/ID ...) closed by
- fixed: Made it so nothing is added to file history in cases where the save …
- 12:56 PM Ticket #757 (Save multimodel PDB error) created by
- open 1r7z save test[ID].pdb model #1 Traceback (most recent call …
- 9:56 AM Ticket #756 (file-history logic doesn't account for multi-save with model name/ID ...) created by
- Example with NMR ensemble: open 1g1p save ~/Desktop/junk[ID].pdb ... …
Jul 17, 2017:
- 5:44 PM 2017-07-06 edited by
- (diff)
- 1:33 PM Ticket #755 (Fetch mmcif files from rcsb instead of erratic www.pdb.org) closed by
- fixed: Changed fetching of mmCIF and PDB files to use files.rcsb.org instead …
- 1:04 PM Ticket #755 (Fetch mmcif files from rcsb instead of erratic www.pdb.org) created by
- ChimeraX fetches mmCIF files from www.pdb.org. That site is currently …
- 11:00 AM Ticket #754 (file-history thumbnails don't account for saving selected-only or ...) created by
- The logic for saving an image in file history doesn’t account for …
Jul 16, 2017:
Jul 15, 2017:
Jul 14, 2017:
- 12:56 PM BundleReformatting edited by
- (diff)
- 10:36 AM Ticket #726 (opening CFTR structure and multiple sequence alignment in either order ...) closed by
- fixed: Okay, fixed, but it brings up another issue. The resulting …
Jul 13, 2017:
- 10:34 PM BundleReformatting edited by
- (diff)
- 8:12 PM BundleReformatting edited by
- (diff)
- 8:01 PM BundleReformatting edited by
- (diff)
- 5:39 PM Ticket #731 (Side View starts too small (can only see checkboxes)) closed by
- fixed: Fixed in [develop 8239d1612].
- 4:34 PM Ticket #753 (Support saving trajectories into multiple PDB files) created by
- Is there a way to save a trajectory to multiple files? I could save …
- 4:27 PM Ticket #636 (Side View does not renormalize) closed by
- fixed: Should be fixed by [develop 1b2e98ec3].
Jul 12, 2017:
- 10:29 PM BundleReformatting edited by
- (diff)
- 10:16 PM BundleReformatting edited by
- (diff)
- 10:02 PM BundleReformatting edited by
- (diff)
- 9:44 PM BundleReformatting edited by
- (diff)
- 2:31 PM Ticket #601 (Add ability to write PDB) closed by
- fixed: The call-back-into-Python stuff isn't working, but that isn't essential.
- 1:15 PM BundleReformatting edited by
- (diff)
- 1:07 PM BundleReformatting edited by
- (diff)
- 12:13 PM BundleReformatting edited by
- (diff)
- 12:06 PM BundleReformatting edited by
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- 11:55 AM BundleReformatting edited by
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