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Opened 9 months ago
Closed 9 months ago
#17004 closed defect (fixed)
Segmentation cursor is None
| Reported by: | Owned by: | Zach Pearson | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | DICOM | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-15.3.1-x86_64-i386-64bit
ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Users/almaghr/Documents/RA5-G2/consenus map /SPisonet_misalignment
> correction volume/cryosparc_P1_run_class001.mrc"
Opened cryosparc_P1_run_class001.mrc as #1, grid size 336,336,336, pixel 0.93,
shown at level 0.00179, step 2, values float32
> open 6TNY fromDatabase pdb
6tny title:
Processive human polymerase δ holoenzyme [more info...]
Chain information for 6tny #2
---
Chain | Description | UniProt
A | DNA polymerase delta catalytic subunit | DPOD1_HUMAN 1-1107
B | DNA polymerase delta subunit 2 | DPOD2_HUMAN 1-469
C | DNA polymerase delta subunit 3 | DPOD3_HUMAN 2-466
D | DNA polymerase delta subunit 4 | DPOD4_HUMAN 2-107
E F G | Proliferating cell nuclear antigen | PCNA_HUMAN 1-261
P | DNA primer |
T | DNA template |
Non-standard residues in 6tny #2
---
DOC — 2',3'-dideoxycytidine-5'-monophosphate
SF4 — iron/sulfur cluster
TTP — thymidine-5'-triphosphate
ZN — zinc ion
4 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
> hide target a
> cartoon hide
> cartoon
> select add #2
19722 atoms, 20206 bonds, 72 pseudobonds, 2452 residues, 4 models selected
> ui mousemode right "translate selected models"
> view matrix models #2,1,0,0,-66.72,0,1,0,-74.92,0,0,1,46.914
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.69116,-0.51027,-0.51178,161.5,-0.24285,0.503,-0.82947,197.31,0.68068,0.69758,0.22373,-42.354
> view matrix models
> #2,0.33985,-0.90375,-0.26028,239.97,-0.70604,-0.062346,-0.70542,345.87,0.62129,0.4235,-0.65927,171.99
> view matrix models
> #2,0.80961,-0.34956,-0.47153,107.87,-0.11471,0.69362,-0.71115,123.05,0.57565,0.62985,0.52146,-67.241
> view matrix models
> #2,-0.30973,-0.77,0.55782,183.54,0.85102,-0.48615,-0.19854,49.784,0.42407,0.41322,0.80587,-57.821
> ui mousemode right "translate selected models"
> view matrix models
> #2,-0.30973,-0.77,0.55782,183.85,0.85102,-0.48615,-0.19854,124.29,0.42407,0.41322,0.80587,-92.023
> view matrix models
> #2,-0.30973,-0.77,0.55782,182.26,0.85102,-0.48615,-0.19854,137.47,0.42407,0.41322,0.80587,-121.1
> view matrix models
> #2,-0.30973,-0.77,0.55782,226.56,0.85102,-0.48615,-0.19854,135.55,0.42407,0.41322,0.80587,-146.53
> fitmap #2 inMap #1
Fit molecule 6tny (#2) to map cryosparc_P1_run_class001.mrc (#1) using 19722
atoms
average map value = 0.00297, steps = 204
shifted from previous position = 22.4
rotated from previous position = 23.7 degrees
atoms outside contour = 6358, contour level = 0.0017858
Position of 6tny (#2) relative to cryosparc_P1_run_class001.mrc (#1)
coordinates:
Matrix rotation and translation
-0.06727253 -0.87318352 0.48272657 231.33409366
0.73108085 -0.37238492 -0.57170817 192.74605030
0.67896625 0.31445190 0.66341904 -138.83435572
Axis 0.48076782 -0.10646579 0.87036046
Axis point 81.72033522 181.64107346 0.00000000
Rotation angle (degrees) 112.83752167
Shift along axis -30.13880548
> select /E/F/G
5750 atoms, 5824 bonds, 4 pseudobonds, 749 residues, 2 models selected
> delete atoms (#!2 & sel)
> delete bonds (#!2 & sel)
> select /B
3304 atoms, 3380 bonds, 2 pseudobonds, 431 residues, 2 models selected
> delete atoms (#!2 & sel)
> delete bonds (#!2 & sel)
> select /C
1130 atoms, 1149 bonds, 143 residues, 1 model selected
> delete atoms sel
> delete bonds sel
> select /D
554 atoms, 574 bonds, 66 residues, 1 model selected
> delete atoms sel
> delete bonds sel
> hide #!1 models
Drag select of 1056 residues, 3 pseudobonds
Drag select of 1059 residues, 3 pseudobonds
> color (#!2 & sel) red
> show #!1 models
> ui tool show Segmentations
> ui view fourup
> segmentations mouseModes false
Mouse bindings not saved; ignoring 'mouseModes false'
> ui view fourup
No segmentations to remove.
> close #3
> close #4
> close #5
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Error in sys.excepthook:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 896, in event
self.leaveEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 923, in leaveEvent
self.segmentation_tool.make_puck_invisible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 814, in
make_puck_invisible
self.segmentation_cursors[axis].display = False
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QExposeEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 334, in ehook
self.session.ui.thread_safe(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 516, in report_exception
self.bug(err_msg.replace("\n", "<br>"), is_html=True)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 394, in bug
self._log(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 572, in _log
if log.log(*args):
^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 342, in log
self.session.ui.thread_safe(f)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 341, in <lambda>
f = lambda self=self, msg=dlg_msg: self.show_error_message(msg, bug=bug)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 262, in show_error_message
ed.showMessage(msg)
SystemError: <built-in method showMessage of BiggerErrorDialog object at
0x1335c29e0> returned a result with an exception set
Original exception was:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Error in sys.excepthook:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 896, in event
self.leaveEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 923, in leaveEvent
self.segmentation_tool.make_puck_invisible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 814, in
make_puck_invisible
self.segmentation_cursors[axis].display = False
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QExposeEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 334, in ehook
self.session.ui.thread_safe(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 516, in report_exception
self.bug(err_msg.replace("\n", "<br>"), is_html=True)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 394, in bug
self._log(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 572, in _log
if log.log(*args):
^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 342, in log
self.session.ui.thread_safe(f)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 341, in <lambda>
f = lambda self=self, msg=dlg_msg: self.show_error_message(msg, bug=bug)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 262, in show_error_message
ed.showMessage(msg)
SystemError: <built-in method showMessage of BiggerErrorDialog object at
0x1335c29e0> returned a result with an exception set
Original exception was:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Error in sys.excepthook:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 896, in event
self.leaveEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 923, in leaveEvent
self.segmentation_tool.make_puck_invisible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 814, in
make_puck_invisible
self.segmentation_cursors[axis].display = False
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QExposeEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 334, in ehook
self.session.ui.thread_safe(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 516, in report_exception
self.bug(err_msg.replace("\n", "<br>"), is_html=True)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 394, in bug
self._log(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 572, in _log
if log.log(*args):
^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 342, in log
self.session.ui.thread_safe(f)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 341, in <lambda>
f = lambda self=self, msg=dlg_msg: self.show_error_message(msg, bug=bug)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 262, in show_error_message
ed.showMessage(msg)
SystemError: <built-in method showMessage of BiggerErrorDialog object at
0x1335c29e0> returned a result with an exception set
Original exception was:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Error in sys.excepthook:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 896, in event
self.leaveEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 923, in leaveEvent
self.segmentation_tool.make_puck_invisible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 814, in
make_puck_invisible
self.segmentation_cursors[axis].display = False
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QExposeEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 334, in ehook
self.session.ui.thread_safe(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 516, in report_exception
self.bug(err_msg.replace("\n", "<br>"), is_html=True)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 394, in bug
self._log(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 572, in _log
if log.log(*args):
^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 342, in log
self.session.ui.thread_safe(f)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 341, in <lambda>
f = lambda self=self, msg=dlg_msg: self.show_error_message(msg, bug=bug)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 262, in show_error_message
ed.showMessage(msg)
SystemError: <built-in method showMessage of BiggerErrorDialog object at
0x1335c29e0> returned a result with an exception set
Original exception was:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Error in sys.excepthook:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 896, in event
self.leaveEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 923, in leaveEvent
self.segmentation_tool.make_puck_invisible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 814, in
make_puck_invisible
self.segmentation_cursors[axis].display = False
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QExposeEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 334, in ehook
self.session.ui.thread_safe(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 516, in report_exception
self.bug(err_msg.replace("\n", "<br>"), is_html=True)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 394, in bug
self._log(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 572, in _log
if log.log(*args):
^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 342, in log
self.session.ui.thread_safe(f)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 341, in <lambda>
f = lambda self=self, msg=dlg_msg: self.show_error_message(msg, bug=bug)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 262, in show_error_message
ed.showMessage(msg)
SystemError: <built-in method showMessage of BiggerErrorDialog object at
0x1335c29e0> returned a result with an exception set
Original exception was:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Error in sys.excepthook:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 896, in event
self.leaveEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 923, in leaveEvent
self.segmentation_tool.make_puck_invisible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 814, in
make_puck_invisible
self.segmentation_cursors[axis].display = False
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QExposeEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 334, in ehook
self.session.ui.thread_safe(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 516, in report_exception
self.bug(err_msg.replace("\n", "<br>"), is_html=True)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 394, in bug
self._log(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 572, in _log
if log.log(*args):
^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 342, in log
self.session.ui.thread_safe(f)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 341, in <lambda>
f = lambda self=self, msg=dlg_msg: self.show_error_message(msg, bug=bug)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 262, in show_error_message
ed.showMessage(msg)
SystemError: <built-in method showMessage of BiggerErrorDialog object at
0x1335c29e0> returned a result with an exception set
Original exception was:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
Error in sys.excepthook:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 896, in event
self.leaveEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 923, in leaveEvent
self.segmentation_tool.make_puck_invisible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 814, in
make_puck_invisible
self.segmentation_cursors[axis].display = False
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtCore.QEvent'> returned a result with an exception
set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
SystemError: <class 'PyQt6.QtGui.QExposeEvent'> returned a result with an
exception set
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 334, in ehook
self.session.ui.thread_safe(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 516, in report_exception
self.bug(err_msg.replace("\n", "<br>"), is_html=True)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 394, in bug
self._log(
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 572, in _log
if log.log(*args):
^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 342, in log
self.session.ui.thread_safe(f)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 423, in thread_safe
func(*args, **kw)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 341, in <lambda>
f = lambda self=self, msg=dlg_msg: self.show_error_message(msg, bug=bug)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 262, in show_error_message
ed.showMessage(msg)
SystemError: <built-in method showMessage of BiggerErrorDialog object at
0x1335c29e0> returned a result with an exception set
Original exception was:
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 894, in event
self.enterEvent()
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/orthoplanes.py", line 918, in enterEvent
self.segmentation_tool.make_puck_visible(self.axis)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segmentations/ui/segmentations.py", line 810, in
make_puck_visible
self.segmentation_cursors[axis].display = True
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 266, in __setattr__
super(Drawing, self).__setattr__(key, value)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 345, in _set_display
Drawing.set_display(self, display)
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 392, in set_display
dp = self.display_positions
^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/drawing.py", line 406, in get_display_positions
dp = ones((len(self._positions),), bool)
^^^^^^^^^^^^^^^^^^^^
TypeError: object of type 'NoneType' has no len()
OpenGL version: 4.1 ATI-6.1.13
OpenGL renderer: AMD Radeon Pro 5500 XT OpenGL Engine
OpenGL vendor: ATI Technologies Inc.
Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.6.1, Qt 6.6.1
Qt runtime version: 6.6.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: iMac
Model Identifier: iMac20,1
Processor Name: 8-Core Intel Core i7
Processor Speed: 3.8 GHz
Number of Processors: 1
Total Number of Cores: 8
L2 Cache (per Core): 256 KB
L3 Cache: 16 MB
Hyper-Threading Technology: Enabled
Memory: 16 GB
System Firmware Version: 2069.80.3.0.0 (iBridge: 22.16.13051.0.0,0)
OS Loader Version: 582~3311
Software:
System Software Overview:
System Version: macOS 15.3.1 (24D70)
Kernel Version: Darwin 24.3.0
Time since boot: 1 day, 2 hours, 36 minutes
Graphics/Displays:
AMD Radeon Pro 5500 XT:
Chipset Model: AMD Radeon Pro 5500 XT
Type: GPU
Bus: PCIe
PCIe Lane Width: x16
VRAM (Total): 8 GB
Vendor: AMD (0x1002)
Device ID: 0x7340
Revision ID: 0x0041
ROM Revision: 113-D3220I-231
VBIOS Version: 113-D322A1XT-012
Option ROM Version: 113-D322A1XT-012
EFI Driver Version: 01.01.231
Metal Support: Metal 3
Displays:
iMac:
Display Type: Built-In Retina LCD
Resolution: Retina 5K (5120 x 2880)
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Installed Packages:
alabaster: 0.7.16
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 2.4.1
Babel: 2.15.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 2.0.0
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4
charset-normalizer: 3.3.2
ChimeraX-AddCharge: 1.5.17
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.12.7
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.57.1
ChimeraX-AtomicLibrary: 14.0.6
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.4.6
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.12.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.7
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.4
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.2.4
ChimeraX-Clipper: 0.23.1
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.6
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.8
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.3
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.4
ChimeraX-DiffPlot: 1.0
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.3
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1.1
ChimeraX-Hbonds: 2.4
ChimeraX-Help: 1.2.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ISOLDE: 1.8
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-Label: 1.1.10
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.1.6
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.2
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.1.3
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.1
ChimeraX-MedicalToolbar: 1.0.3
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.1
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.17
ChimeraX-ModelPanel: 1.5
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.13.5
ChimeraX-PDB: 2.7.5
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.1
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.4.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.2
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.2
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.0.15
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.11.2
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.16.5
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.2
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.39.1
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.3
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.4
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
contourpy: 1.2.1
cxservices: 1.2.2
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.1
decorator: 5.1.1
docutils: 0.20.1
executing: 2.0.1
filelock: 3.13.4
fonttools: 4.53.0
funcparserlib: 2.0.0a0
glfw: 2.7.0
grako: 3.16.5
h5py: 3.11.0
html2text: 2024.2.26
idna: 3.7
ihm: 1.0
imagecodecs: 2024.1.1
imagesize: 1.4.1
ipykernel: 6.29.2
ipython: 8.21.0
ipywidgets: 8.1.3
jedi: 0.19.1
jinja2: 3.1.4
jupyter-client: 8.6.0
jupyter-core: 5.7.2
jupyterlab-widgets: 3.0.11
kiwisolver: 1.4.5
line-profiler: 4.1.2
lxml: 5.2.1
lz4: 4.3.3
MarkupSafe: 2.1.5
matplotlib: 3.8.4
matplotlib-inline: 0.1.7
msgpack: 1.0.8
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.0
numpy: 1.26.4
openvr: 1.26.701
packaging: 23.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pexpect: 4.9.0
pillow: 10.3.0
pip: 24.0
pkginfo: 1.10.0
platformdirs: 4.2.2
prompt-toolkit: 3.0.47
psutil: 5.9.8
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pygments: 2.17.2
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.1.2
pyproject-hooks: 1.1.0
PyQt6-commercial: 6.6.1
PyQt6-Qt6: 6.6.3
PyQt6-sip: 13.6.0
PyQt6-WebEngine-commercial: 6.6.0
PyQt6-WebEngine-Qt6: 6.6.3
python-dateutil: 2.9.0.post0
pytz: 2024.1
pyzmq: 26.0.3
qtconsole: 5.5.1
QtPy: 2.4.1
RandomWords: 0.4.0
requests: 2.31.0
scipy: 1.13.0
setuptools: 69.5.1
setuptools-scm: 8.0.4
sfftk-rw: 0.8.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.5
sphinx: 7.2.6
sphinx-autodoc-typehints: 2.0.1
sphinxcontrib-applehelp: 1.0.8
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.6
sphinxcontrib-htmlhelp: 2.0.5
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.7
sphinxcontrib-serializinghtml: 1.1.10
stack-data: 0.6.3
superqt: 0.6.3
tables: 3.8.0
tcia-utils: 1.5.1
tifffile: 2024.1.30
tinyarray: 1.2.4
tornado: 6.4.1
traitlets: 5.14.2
typing-extensions: 4.12.2
tzdata: 2024.1
urllib3: 2.2.1
wcwidth: 0.2.13
webcolors: 1.13
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.11
Change History (2)
comment:1 by , 9 months ago
| Cc: | added |
|---|---|
| Component: | Unassigned → DICOM |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Segmentation cursor is None |
comment:2 by , 9 months ago
| Resolution: | → fixed |
|---|---|
| Status: | assigned → closed |
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