![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Timeline
Jan 16, 2019:
- 11:54 PM FAI edited by
- (diff)
- 5:28 PM Ticket #1617 (Blast Protein lower case chain) created by
- Blast results have lower case chains reported as a doubling of the …
- 4:40 PM Ticket #1613 (windowing mouse mode swap horizontal/vertical behavior) closed by
- fixed: Fixed. Made vertical drag do leveling and horizontal do windowing. …
- 4:26 PM Ticket #1615 (Drag select: glDrawBuffer(GL_FRONT): invalid operation) closed by
- fixed: Fixed. Drawing code pushed the silhouette framebuffer and then an …
- 3:49 PM Ticket #1616 (Session restore: msgpack: max_ext_len exceeded) created by
- […]
- 3:45 PM Ticket #1615 (Drag select: glDrawBuffer(GL_FRONT): invalid operation) created by
- […]
- 3:39 PM Ticket #1608 (Problem reshowing volume series) closed by
- can't reproduce: Not sure how you removed the threshold. Perhaps there is a bug where …
- 2:56 PM Ticket #1121 (Erroneous bonding at RNA chain break in PDB 5an9) closed by
- fixed: Apparently fixed by other previous changes/fixes.
- 10:52 AM ChangeLog edited by
- (diff)
- 9:33 AM Ticket #1614 (RFE: visual (text) feedback of window/threshold values) created by
- This could apply to both the graphics window in desktop use and in VR …
- 9:29 AM Ticket #1613 (windowing mouse mode swap horizontal/vertical behavior) created by
- Looks like both Horos and 3DSlicer windowing mouse modes use vertical …
Jan 15, 2019:
- 10:32 PM Ticket #1612 (DICOM unsupported value type) closed by
- fixed: Ok, can read this segmentation DICOM file now. This took more work …
- 1:35 PM Ticket #1540 (AddH: no lone pairs on acceptor) closed by
- fixed: Fixed by implementing tau test for aniline as an acceptor so that it …
- 12:41 PM Ticket #1612 (DICOM unsupported value type) created by
- […] 11-06-2014-1-96508.zip
- 11:34 AM Ticket #1561 (Bundle build system does not recompile changed C++ files) closed by
- fixed: Machine this bug occurred on had numpy 1.14.3 in ChimeraX. Updating …
- 7:55 AM Ticket #1611 (AddH: list index out of range in roomiest()) created by
- […]
- 7:55 AM Ticket #1610 (AddH: acc_phi_psi() takes 8 positional arguments but 9 were given) created by
- […]
- 3:50 AM Ticket #1608 (Problem reshowing volume series) created by
- […]
- 1:48 AM Ticket #1607 (Reading DCD: UnicodeDecodeError: unexpected end of data) created by
- […]
Jan 14, 2019:
- 6:00 PM Ticket #1606 (Singular matrix reading DICOM time series) closed by
- fixed: Error was caused by reading a DICOM time series which is not yet …
- 5:03 PM Ticket #1124 (Remove bot traffic from Toolshed download stats?) closed by
-
fixed: I've added a
robots.txtthat forbids mining all cxtoolshed pages. - 10:41 AM Ticket #1606 (Singular matrix reading DICOM time series) created by
- […] 10-01-2010-339068828-GBMintracranial-631.2.zip
- 4:42 AM Ticket #1605 (Residue.atoms yields corrupted array after residue deleted) created by
- If I have a model open: […]
Jan 11, 2019:
- 4:34 PM Ticket #1602 (Problem playing through multiple volume series: object of type ...) closed by
- fixed: Fixed. Attempting to use map series slider after first map in series …
- 3:44 PM Ticket #1603 (Multiple OpenGL errors) closed by
- nonchimerax: Inadequate graphics driver. Incomplete framebuffer errors are startup.
- 9:56 AM Ticket #1603 (Multiple OpenGL errors) created by
- […]
- 1:44 AM Ticket #1602 (Problem playing through multiple volume series: object of type ...) created by
- […]
Jan 10, 2019:
- 6:31 PM Ticket #1600 (Reading map: 'numpy.float64' object cannot be interpreted as an integer) closed by
- fixed: Fixed. Move planes mouse mode in orthoplanes mode was broken because …
- 3:13 PM Ticket #1601 (test notify-when-closed) closed by
- not a bug: Here we go!
- 3:12 PM Ticket #1601 (test notify-when-closed) created by
- 3:04 PM Ticket #1600 (Reading map: 'numpy.float64' object cannot be interpreted as an integer) created by
- […]
- 2:43 PM 2019-01-10 created by
- 2:08 PM DeveloperMeetings edited by
- (diff)
- 2:08 PM DeveloperMeetings2018 created by
- 1:45 PM Ticket #1599 (RFE: command (or other way) to restore initial display settings of a volume) created by
- Would be nice if there was a way to restore the thresholds and perhaps …
- 1:41 PM Ticket #1598 (RFE: command to report current volume-rendering settings) created by
- I keep wishing for some command to report the current rendering …
- 11:09 AM Ticket #1597 (error adding distance if Distances window previously closed) closed by
- fixed: Wasn't deregistering all trigger handlers when tool deleted
- 9:56 AM Ticket #1597 (error adding distance if Distances window previously closed) created by
- I had a few distances, showed the Distance tool, and then deleted all …
Jan 9, 2019:
- 5:11 PM Ticket #1596 (Volume Viewer interface not happy with non-Z planes) closed by
- fixed: Fixed. Volume viewer code was not switching back to showing full …
- 3:54 PM Ticket #1596 (Volume Viewer interface not happy with non-Z planes) created by
- If I use a command to show non-Z planes, e.g. vol #1 planes y,110 …
- 3:21 PM Ticket #1595 (glDrawBuffer(GL_FRONT): invalid operation) closed by
- duplicate: Fourth report of this error on different computer systems. Unclear …
- 2:25 AM Ticket #1595 (glDrawBuffer(GL_FRONT): invalid operation) created by
- […]
Jan 8, 2019:
- 11:16 AM Ticket #1539 (AddH: incorrect removal from hbond_info) closed by
- fixed: Metals being noted as "acceptors" also needed coordinators noted as donors.
- 10:47 AM Ticket #1594 (Eventually parsing of save-image keyword 'transparentBackground' goes south) closed by
- fixed
- 10:26 AM Ticket #1592 (select by minimum/maximum length selects non-pseudobonds) closed by
- fixed: Ok. If minimumLength or maximumLength is specified with the select …
- 10:00 AM Ticket #1591 (Molecular surface session restore: can't set attribute) closed by
- duplicate: duplicate of #1425
- 8:27 AM Ticket #1594 (Eventually parsing of save-image keyword 'transparentBackground' goes south) created by
- […]
- 7:58 AM ChangeLog edited by
- (diff)
Jan 7, 2019:
- 4:48 PM Ticket #1593 (multi-level "sel back/forward") created by
- Implement multi-level selection-only undo/redo as "sel back/forward" …
- 2:22 PM Ticket #1590 (Session restore of graphics: self._positions is None) closed by
- can't reproduce: Ok. Seems likely that there was an error on saving the session then. …
- 1:36 PM Ticket #1592 (select by minimum/maximum length selects non-pseudobonds) created by
- The select command minimumLength and maximumLength options were …
- 11:32 AM Ticket #1591 (Molecular surface session restore: can't set attribute) created by
- […]
Jan 5, 2019:
Jan 4, 2019:
- 8:00 PM Ticket #1588 (glDrawBuffer(GL_FRONT): invalid operation) closed by
- can't reproduce: Will wait for another report before putting in extra debug code.
- 7:57 PM Ticket #1569 (OpenGL startup error: invalid enumerant) closed by
- can't reproduce: Appears to be inadequate graphics driver giving an error on startup on …
- 10:51 AM Ticket #1589 (Selection demotion: Drawing: can't set attribute) closed by
- fixed: Fixed.
Jan 3, 2019:
- 4:09 PM Ticket #1589 (Selection demotion: Drawing: can't set attribute) created by
- […]
- 11:28 AM Ticket #1549 (AddH: More than 2 coplanar positions specified!) closed by
- fixed
- 9:53 AM Ticket #1588 (glDrawBuffer(GL_FRONT): invalid operation) created by
- […]
Jan 2, 2019:
- 4:50 PM Ticket #1585 ("open browse" file browser does not allow multi-file selection and opening) closed by
- fixed: Fixed by expanding upon 'RepeatOf's hacked argument parsing.
- 12:45 PM Ticket #694 (Add C-alpha trace depictions) closed by
- fixed: Chain trace display for atomic structures is on by default now.
- 11:37 AM Ticket #863 (collate message as HTML) closed by
- fixed
- 10:14 AM Ticket #1586 (Seq Viewer: unproved enter() call on region browser) closed by
- duplicate: previously fixed
- 4:34 AM Ticket #1587 (Registration internal error) created by
- […]
Dec 29, 2018:
Dec 28, 2018:
- 4:17 PM Ticket #1585 ("open browse" file browser does not allow multi-file selection and opening) created by
- per summary
- 1:31 PM Ticket #1583 (Updating 3D label triggers: KeyError: 'setting changed') closed by
- duplicate: Fixed 5 days after the date of the version in the bug report.
- 1:12 PM Ticket #1581 (NameError when deleting from command history) closed by
- duplicate: Fixed a few days ago.
- 1:08 PM Ticket #1572 (Some kind of resizing crash) closed by
- can't reproduce
Dec 27, 2018:
- 12:23 PM Ticket #1584 (multi-file open incorrectly logged) created by
- If I use menu: File... Open and use click + Shift-click to choose …
Dec 26, 2018:
Dec 23, 2018:
- 11:15 PM Ticket #1582 (Volume Viewer deleted twice(?)) created by
- […]
- 5:15 AM Ticket #1581 (NameError when deleting from command history) created by
- […]
Dec 22, 2018:
- 9:43 AM Ticket #1580 (Make VR grip button move models) created by
- With oculus touch controllers users often press the grip button …
- 9:41 AM Ticket #1579 (Make selection mouse mode issue command) created by
- Make selection mouse mode issue an equivalent command when mouse …
- 9:39 AM Ticket #1578 (Make bond rotation mouse mode issue command) created by
- Want bond rotation mouse mode to issue equivalent command when mouse …
- 9:37 AM Ticket #1577 (Make volume crop mouse mode issue a command) created by
- Want volume bounds mouse mode to issue an equivalent command when …
- 9:36 AM Ticket #1576 (Make clip mouse mode issue command) created by
- Make translate and rotate clip planes mouse modes issue a command …
- 9:35 AM Ticket #1575 (Make volume threshold change on histogram issue command) created by
- When user changes volume contour level or solid rendering transfer …
- 9:33 AM Ticket #1574 (Make swapaa mouse mode issue command) created by
- When mouse button released after using swapaa mouse mode issue an …
- 9:30 AM Ticket #1573 (Turn off depth cueing for VR meeting head and hands) created by
- In a VR meeting other people's head and hands vanish due to depth …
- 8:53 AM Ticket #1572 (Some kind of resizing crash) created by
- […]
Dec 21, 2018:
- 5:58 PM Ticket #1570 (Chain info incorrect when microheterogenicity) closed by
- fixed: Found it. In Structure::_delete_atoms it asks for the residue's chain …
- 4:19 PM Ticket #1571 (Undo selection buggy) created by
- […]
- 1:28 PM Ticket #1544 (AddH: z_align endpoints must be distinct) closed by
- nonchimerax: The seems to be an error in the 1ggr entry. The coordinates of all …
- 1:06 PM Ticket #1570 (Chain info incorrect when microheterogenicity) created by
- For structures with microheterogenicity, the mmCIF reader produces two …
- 11:07 AM Ticket #1568 (unknown command coordset) closed by
- fixed
- 10:56 AM Ticket #1569 (OpenGL startup error: invalid enumerant) created by
- […]
- 8:14 AM Ticket #1568 (unknown command coordset) created by
- […]
Dec 20, 2018:
- 5:19 PM Ticket #1030 (make "info" report metadata; upon opening file, provide "info" ...) closed by
- fixed: Okay, #2 implemented, though it only shows the principal citation.
- 4:36 PM ChangeLog edited by
- (diff)
- 2:27 PM ChangeLog edited by
- (diff)
- 1:15 PM Ticket #1566 (Return pressed in help browser is also captured by command line) closed by
- fixed: Well, "fixed" by having floating windows not forward keystrokes to the …
- 11:39 AM Ticket #1567 (glDrawBuffer: invalid enumerant) closed by
- can't reproduce: OpenGL error in drag select setting draw buffer to GL_FRONT on Windows …
- 11:21 AM Ticket #1567 (glDrawBuffer: invalid enumerant) created by
- […]
- 10:54 AM Ticket #1562 (Contradiction in Collection documentation) closed by
- fixed: The current documentation in molarray.py already says: "Collections …
- 10:11 AM Ticket #1564 (Crash involving QDockWidget) closed by
- can't reproduce
- 8:39 AM Ticket #1566 (Return pressed in help browser is also captured by command line) created by
- When logging into the ToolShed, pressing <Enter> after entering my …
- 7:54 AM Ticket #1565 (Can't upload bundle to ToolShed) created by
- I get the following error: […] If, in my bundle_info.xml I change …
- 7:20 AM Ticket #1564 (Crash involving QDockWidget) created by
- […]
- 6:40 AM Ticket #1563 (Various ChimeraX startup switches ineffective in Windows) created by
- The following commands just drop back to the shell with no apparent …
- 2:47 AM Ticket #1562 (Contradiction in Collection documentation) created by
-
Minor thing, but...
In docstring for
atomic.Collection(and similar …
Dec 19, 2018:
- 9:08 PM Ticket #1561 (Bundle build system does not recompile changed C++ files) created by
- Changing a C++ file in a bundle (such as histogram.cpp in …
- 6:10 PM Ticket #1559 (vr update trigger: missing head image) closed by
- duplicate: VR head image file path is wrong -- I guess with the escaped spaces. …
- 4:57 PM Ticket #1560 (Need command style guide) created by
- Would like to have guidance for outside developers on how to construct …
- 2:32 PM Ticket #1559 (vr update trigger: missing head image) created by
- […]
- 1:55 PM Ticket #1558 (Apparent infinite recursion of find_close_points_boxes) closed by
- duplicate: Fixed a few days ago. Get the ChimeraX daily build or 0.8 release. …
- 1:37 PM Ticket #1558 (Apparent infinite recursion of find_close_points_boxes) created by
- […]
- 11:57 AM ChangeLog edited by
- (diff)
- 11:32 AM Ticket #1555 (Error trying to delete from command history) closed by
- fixed: Hi Katherine, Thanks for reporting this error. I have committed a …
- 11:28 AM Ticket #1554 (glClear: invalid enumerant) closed by
- duplicate: Duplicate. Probably bad graphics driver. Intel graphics, Windows 7, …
- 10:51 AM Ticket #1557 (Bad bond selection) created by
- When using the tilde operator, bonds remain selected when they …
- 10:30 AM Ticket #1556 (save command option to exclude hydrogens) closed by
- wontfix: I'm not going to implement this for two reasons: 1) As of yesterday, …
- 8:22 AM Ticket #1556 (save command option to exclude hydrogens) created by
- Wanting to save only heavy atoms from a model with hydrogens is a very …
- 5:34 AM Ticket #1555 (Error trying to delete from command history) created by
- […]
- 2:52 AM Ticket #1554 (glClear: invalid enumerant) created by
- […]
Dec 18, 2018:
- 5:45 PM Ticket #1547 (Symmetry position atom: LinAlgError("Singular matrix")) closed by
- fixed
- 2:53 PM Ticket #1552 (glClear: invalid enumerant) closed by
- can't reproduce: Graphics driver or WIndows 7 problem. Looks like same reporter as …
- 2:30 PM Ticket #1403 (AddH: skip falsely terminal heavy atoms of standard residues) closed by
- fixed: Fix available in next daily build
- 2:23 PM Ticket #1553 (MeetingServer: Must call either listen, or connect, not both) created by
- […]
- 1:01 PM Ticket #1552 (glClear: invalid enumerant) created by
- […]
- 11:16 AM Ticket #1551 (Model.get_selected() doesn't consider child Drawings) closed by
- fixed: Ok. This behavior was intentional. If a Model has Drawing children it …
- 11:02 AM Ticket #1550 (glClear: invalid enumerant) closed by
- can't reproduce: Appears to be inadequate OpenGL 3.3 producing an error on …
- 8:24 AM Ticket #1551 (Model.get_selected() doesn't consider child Drawings) created by
- The symptoms mainly show up in the Model Panel "Selected" column. If a …
- 5:16 AM Ticket #1550 (glClear: invalid enumerant) created by
- […]
Dec 17, 2018:
- 5:53 PM Milestone 0.8 completed
- == Chimera Features * mask map with surface #1337 * map statistics …
- 5:18 PM ChangeLog edited by
- (diff)
- 4:44 PM Ticket #1549 (AddH: More than 2 coplanar positions specified!) created by
- […]
- 3:48 PM Ticket #1548 (KeyError while writing mmCIF) created by
- […] 1f8p_assembly.cif
- 2:37 PM Ticket #1547 (Symmetry position atom: LinAlgError("Singular matrix")) created by
- […] 1dwx_assembly.cif
- 1:42 PM Ticket #1545 (AddH: 'Atom' object has no attribute 'oslIdent') closed by
- fixed: Hydrogen-addition has its own internal bug reporting when "cannot …
- 1:39 PM Ticket #1543 (Help Viewer: "help help:user": KeyError: 'href') closed by
- fixed: Fixed on Oct 25th.
- 1:07 PM Ticket #1541 (AddH: skip falsely terminal heavy atoms of standard residues) closed by
- duplicate: Truncated arginine; duplicate of #1403
- 11:37 AM Ticket #1538 (NameError: name 'p' is not defined) closed by
- fixed: Hi Sarah, Also. this problem was fixed in April, but only affects …
- 9:50 AM Ticket #1546 ("Nightly build" system for Tool Shed) created by
- It would be great if the Tool Shed had a facility to upload regular …
- 7:03 AM Ticket #1545 (AddH: 'Atom' object has no attribute 'oslIdent') created by
- […]
- 6:58 AM Ticket #1544 (AddH: z_align endpoints must be distinct) created by
- […]
- 6:52 AM Ticket #1543 (Help Viewer: "help help:user": KeyError: 'href') created by
- […]
- 6:52 AM Ticket #1542 (Handle microheterogenicity in PDB files) created by
- […]
- 6:50 AM Ticket #1541 (AddH: skip falsely terminal heavy atoms of standard residues) created by
- […]
- 5:47 AM Ticket #1540 (AddH: no lone pairs on acceptor) created by
- […]
- 5:39 AM Ticket #1539 (AddH: incorrect removal from hbond_info) created by
- […]
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