ArtiaX: rotate selected particles: arrays used as indices must be of integer (or boolean) type

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        macOS-12.5.1-arm64-arm-64bit
ChimeraX Version: 1.5 (2022-11-24 00:03:27 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 1.5 (2022-11-24)  
© 2016-2022 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open
> /Users/zhenhou/Desktop/Nucleosome/segmentation/lamellae_014_1_bin6_display_small.em
> format motl

Summary of feedback from opening
/Users/zhenhou/Desktop/Nucleosome/segmentation/lamellae_014_1_bin6_display_small.em  
---  
notes | Using preset: ArtiaX / Artiax Default  
Preset expands to these ChimeraX commands:

    
    
    set bgColor black  
    lighting depthCue false  
    camera ortho

  
15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Opened Particle list lamellae_014_1_bin6_display_small.em with 196 particles.  

> artiax hide markers

> artiax show markers

> artiax hide axes

> open
> /Users/zhenhou/Desktop/Nucleosome/nucleosome_movie_presentation/run_class001.mrc

Opened run_class001.mrc as #2, grid size 128,128,128, pixel 4.36, shown at
level 0.04, step 1, values float32  

> artiax attach #2 toParticleList #1.2.1

Opened run_class001.mrc as #1.2.1.1.1, grid size 128,128,128, pixel 4.36,
shown at level 0.04, step 1, values float32  

> volume #1.2.1.1.1 capFaces false

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(NoModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ShiftModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ControlModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ShiftModifier|ControlModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(AltModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ShiftModifier|AltModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ControlModifier|AltModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ShiftModifier|ControlModifier|AltModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(MetaModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ShiftModifier|MetaModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ControlModifier|MetaModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ShiftModifier|ControlModifier|MetaModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(AltModifier|MetaModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ShiftModifier|AltModifier|MetaModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ControlModifier|AltModifier|MetaModifier)  

Mismatch between Cocoa '\x0' and Carbon '\xd' for virtual key 36 with
QFlags<Qt::KeyboardModifier>(ShiftModifier|ControlModifier|AltModifier|MetaModifier)  

set axis size 196.2  
196.2  
['.arrow', '0', '0', '0', '196.2', '0', '0', '13.08', '52.32']  

> artiax particles #1.2.1 originScaleFactor 13.08

> artiax view xy

> artiax particles #1.2.1 surfaceLevel 0.13142

> artiax particles #1.2.1 color 100,64,2,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 96,72,25,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 96,71,25,100

> artiax particles #1.2.1 color 95,71,25,100

> artiax particles #1.2.1 color 94,71,25,100

> artiax particles #1.2.1 color 94,70,25,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 94,70,24,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 93,70,24,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 93,69,24,100

[Repeated 3 time(s)]

> artiax particles #1.2.1 color 92,69,24,100

[Repeated 4 time(s)]

> artiax particles #1.2.1 color 93,70,24,100

> artiax particles #1.2.1 color 94,70,24,100

> artiax particles #1.2.1 color 95,71,25,100

> artiax particles #1.2.1 color 96,72,25,100

[Repeated 3 time(s)]

> artiax particles #1.2.1 color 97,73,25,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 98,73,25,100

[Repeated 5 time(s)]

> artiax particles #1.2.1 color 98,74,26,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 99,74,26,100

[Repeated 3 time(s)]

> artiax particles #1.2.1 color 100,75,26,100

[Repeated 3 time(s)]

> artiax particles #1.2.1 color 100,77,23,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,78,23,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 100,80,22,100

> artiax particles #1.2.1 color 100,81,22,100

> artiax particles #1.2.1 color 100,82,22,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 100,83,22,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,84,22,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,85,21,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 100,86,21,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 100,87,21,100

> artiax particles #1.2.1 color 100,87,22,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 100,88,22,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 100,89,22,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,90,22,100

[Repeated 3 time(s)]

> artiax particles #1.2.1 color 100,91,23,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 100,91,24,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,91,25,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,91,26,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,92,27,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,92,28,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,92,29,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 100,91,29,100

> artiax particles #1.2.1 color 100,92,30,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 100,92,31,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,92,32,100

> artiax particles #1.2.1 color 100,91,32,100

> artiax particles #1.2.1 color 100,91,33,100

> artiax particles #1.2.1 color 100,92,33,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,92,34,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,92,35,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 100,93,35,100

> artiax particles #1.2.1 color 100,92,36,100

> artiax particles #1.2.1 color 100,93,36,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 100,93,37,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,92,38,100

[Repeated 4 time(s)]

> artiax particles #1.2.1 color 100,92,39,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,91,41,100

> artiax particles #1.2.1 color 100,91,42,100

> artiax particles #1.2.1 color 100,90,43,100

> artiax particles #1.2.1 color 100,89,44,100

> artiax particles #1.2.1 color 100,89,45,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 100,88,45,100

> set bgColor white

> artiax particles #1.2.1 color 98,95,61,100

> artiax particles #1.2.1 color 99,95,62,100

> lighting soft

> artiax particles #1.2.1 surfaceLevel 0.17607

> artiax particles #1.2.1 color 79,68,45,100

> artiax particles #1.2.1 color 79,69,45,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 80,69,46,100

[Repeated 4 time(s)]

> artiax particles #1.2.1 color 80,70,46,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 81,70,46,100

> artiax particles #1.2.1 color 81,70,47,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 81,71,47,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 82,71,47,100

[Repeated 3 time(s)]

> artiax particles #1.2.1 color 83,72,47,100

> artiax particles #1.2.1 color 83,72,48,100

[Repeated 2 time(s)]

> artiax particles #1.2.1 color 84,72,48,100

> artiax particles #1.2.1 color 84,73,48,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 surfaceLevel 0.24583

> artiax hide markers

> artiax show markers

> ui mousemode right select

> select /M:107@M

1 atom, 1 residue, 1 model selected  
fine  

> select /M:129@M

1 atom, 1 residue, 1 model selected  
fine  

> select /M:126@M

1 atom, 1 residue, 1 model selected  

> select /M:151@M

1 atom, 1 residue, 1 model selected  
fine  

> select /M:143@M

1 atom, 1 residue, 1 model selected  
fine  

> select /M:110@M

1 atom, 1 residue, 1 model selected  
fine  

> select /M:134@M

1 atom, 1 residue, 1 model selected  
fine  

> select /M:163@M

1 atom, 1 residue, 1 model selected  
fine  

> select /M:148@M

1 atom, 1 residue, 1 model selected  
fine  

> select /M:171@M

1 atom, 1 residue, 1 model selected  
fine  

> select /M:155@M

1 atom, 1 residue, 1 model selected  
fine  

> artiax hide markers

> artiax particles #1.2.1 color 84,73,48,100

> artiax particles #1.2.1 color 85,78,59,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 86,78,59,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 86,78,60,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 87,79,60,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 87,80,60,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 88,80,60,100

> artiax particles #1.2.1 color 88,80,61,100

> artiax particles #1.2.1 color 89,80,61,100

> artiax particles #1.2.1 color 89,81,62,100

> artiax particles #1.2.1 color 90,82,62,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 90,84,61,100

> artiax particles #1.2.1 color 90,84,60,100

[Repeated 5 time(s)]

> artiax particles #1.2.1 color 90,84,59,100

> artiax particles #1.2.1 color 90,85,59,100

[Repeated 1 time(s)]

> artiax particles #1.2.1 color 90,85,58,100

> artiax particles #1.2.1 color 100,97,64,100

> artiax particles #1.2.1 color 93,80,52,100

> artiax particles #1.2.1 surfaceLevel 0.2235

> select #1.2.1.2

1 model selected  

> select #1.2.1.2

1 model selected  

> artiax show markers

> select /M:137@M

1 atom, 1 residue, 1 model selected  

> select clear

> select /M:137@M

1 atom, 1 residue, 1 model selected  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> select #1.2.1.2

1 model selected  

> select /M:133@M

1 atom, 1 residue, 1 model selected  
fine  

> select /M:114@M

1 atom, 1 residue, 1 model selected  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> select /M:118@M

1 atom, 1 residue, 1 model selected  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> select /M:137@M

1 atom, 1 residue, 1 model selected  
Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 537, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 36, in mouse_drag  
self._rotate(axis, angle)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/mouse.py", line 72, in _rotate  
rotate_instances(saxis, angle, self._collections, self._masks)  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
rotate_instances  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 617, in
<listcomp>  
b = bounds.union_bounds([d.masked_bounds(m) for d, m in zip(drawings, masks)])  
File "/Users/zhenhou/Library/Application Support/ChimeraX/1.5/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 400, in
masked_bounds  
spos = self.child_positions.masked(mask)  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
IndexError: arrays used as indices must be of integer (or boolean) type  
  
File
"/Users/zhenhou/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/geometry/place.py", line 728, in masked  
p = Places(place_array=self.array()[mask])  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 Metal - 76.3
OpenGL renderer: Apple M2
OpenGL vendor: Apple

Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Pro
      Model Identifier: Mac14,7
      Chip: Apple M2
      Total Number of Cores: 8 (4 performance and 4 efficiency)
      Memory: 24 GB
      System Firmware Version: 7459.141.1
      OS Loader Version: 7459.141.1

Software:

    System Software Overview:

      System Version: macOS 12.5.1 (21G83)
      Kernel Version: Darwin 21.6.0
      Time since boot: 20 days 27 minutes

Graphics/Displays:

    Apple M2:

      Chipset Model: Apple M2
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 10
      Vendor: Apple (0x106b)
      Metal Family: Supported, Metal GPUFamily Apple 7
      Displays:
        Color LCD:
          Display Type: Built-In Retina LCD
          Resolution: 2560 x 1600 Retina
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal


Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    appnope: 0.1.3
    asttokens: 2.1.0
    Babel: 2.11.0
    backcall: 0.2.0
    blockdiag: 3.0.0
    build: 0.8.0
    certifi: 2021.10.8
    cftime: 1.6.2
    charset-normalizer: 2.1.1
    ChimeraX-AddCharge: 1.4
    ChimeraX-AddH: 2.2.1
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2.1
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.6
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.3
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-ArtiaX: 0.3
    ChimeraX-Atomic: 1.41.5
    ChimeraX-AtomicLibrary: 8.0.3
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.3
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.1.2
    ChimeraX-BondRot: 2.0.1
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.7.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.1
    ChimeraX-ChangeChains: 1.0.2
    ChimeraX-CheckWaters: 1.3
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.2.4
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.2
    ChimeraX-CommandLine: 1.2.4
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.5
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.2
    ChimeraX-Dicom: 1.1
    ChimeraX-DistMonitor: 1.3
    ChimeraX-DockPrep: 1.0
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ExperimentalCommands: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.2
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1
    ChimeraX-Hbonds: 2.4
    ChimeraX-Help: 1.2.1
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-Label: 1.1.7
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.5
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.2
    ChimeraX-Map: 1.1.2
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.1
    ChimeraX-MatchMaker: 2.0.9
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.8
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.6
    ChimeraX-ModelPanel: 1.3.6
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.1
    ChimeraX-MouseModes: 1.1.1
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.9.1
    ChimeraX-PDB: 2.6.8
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 2.0.1
    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
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.7.2
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.1
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.10
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.1.3
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.1
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.24.3
    ChimeraX-uniprot: 2.2.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.1.4
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.1
    ChimeraX-WebServices: 1.1.0
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.5
    cxservices: 1.2
    cycler: 0.11.0
    Cython: 0.29.32
    debugpy: 1.6.4
    decorator: 5.1.1
    docutils: 0.19
    entrypoints: 0.4
    executing: 1.2.0
    filelock: 3.7.1
    fonttools: 4.38.0
    funcparserlib: 1.0.1
    geomdl: 5.3.1
    grako: 3.16.5
    h5py: 3.7.0
    html2text: 2020.1.16
    idna: 3.4
    ihm: 0.33
    imagecodecs: 2022.7.31
    imagesize: 1.4.1
    importlib-metadata: 5.1.0
    ipykernel: 6.15.3
    ipython: 8.4.0
    ipython-genutils: 0.2.0
    jedi: 0.18.1
    Jinja2: 3.1.2
    jupyter-client: 7.3.4
    jupyter-core: 5.1.0
    kiwisolver: 1.4.4
    line-profiler: 3.5.1
    lxml: 4.9.1
    lz4: 4.0.2
    MarkupSafe: 2.1.1
    matplotlib: 3.5.2
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.5.6
    netCDF4: 1.6.0
    networkx: 2.8.5
    numexpr: 2.8.4
    numpy: 1.23.1
    openvr: 1.23.701
    packaging: 21.3
    pandas: 1.5.2
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pexpect: 4.8.0
    pickleshare: 0.7.5
    Pillow: 9.2.0
    pip: 22.2.2
    pkginfo: 1.8.3
    platformdirs: 2.5.4
    prompt-toolkit: 3.0.33
    psutil: 5.9.1
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.12.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.9
    PyQt6-commercial: 6.3.1
    PyQt6-Qt6: 6.3.2
    PyQt6-sip: 13.4.0
    PyQt6-WebEngine-commercial: 6.3.1
    PyQt6-WebEngine-Qt6: 6.3.2
    python-dateutil: 2.8.2
    pytz: 2022.6
    pyzmq: 24.0.1
    qtconsole: 5.3.1
    QtPy: 2.3.0
    RandomWords: 0.4.0
    requests: 2.28.1
    scipy: 1.9.0
    setuptools: 65.1.1
    setuptools-scm: 7.0.5
    sfftk-rw: 0.7.2
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 5.1.1
    sphinx-autodoc-typehints: 1.19.1
    sphinxcontrib-applehelp: 1.0.2
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.2
    sphinxcontrib-htmlhelp: 2.0.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.3
    sphinxcontrib-serializinghtml: 1.1.5
    stack-data: 0.6.2
    starfile: 0.4.11
    superqt: 0.4.1
    tables: 3.7.0
    tifffile: 2022.7.31
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.2
    traitlets: 5.3.0
    typing-extensions: 4.4.0
    urllib3: 1.26.13
    wcwidth: 0.2.5
    webcolors: 1.12
    wheel: 0.37.1
    wheel-filename: 1.4.1
    zipp: 3.11.0