Problem starting ISOLDE

[sabrina.pospich@…]

The following bug report has been submitted:
Platform:        Darwin-17.7.0-x86_64-i386-64bit
ChimeraX Version: 0.9 (2019-06-06)
Description
Starting Isolde (using mouse wheel)in absence of map

Log:
UCSF ChimeraX version: 0.9 (2019-06-06)  
© 2016-2019 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open
/Users/pospich/Documents/Projects/Myosin/Myo5a_Houdusse_Sweeny/2019_Data/20_Isolde/01_Aged_PHD_Myo5a_Rigor/PHD_only_forIsolde.pdb

Chain information for PHD_only_forIsolde.pdb #1  
---  
Chain | Description  
H | No description available  
  

> toolshed show ISOLDE

> set selectionWidth 4

Chain information for PHD_only_forIsolde.pdb  
---  
Chain | Description  
1.3/H | No description available  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/mouse_modes/mousemodes.py", line 457, in _wheel_event  
f.wheel(MouseEvent(event))  
File
"/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/mouse_modes/std_modes.py", line 389, in wheel  
self.zoom(100*d*psize, stereo_scaling = not event.alt_down())  
File "/Users/pospich/Library/Application Support/ChimeraX/0.9/site-
packages/chimerax/clipper/mousemodes.py", line 168, in zoom  
self.far_clip.plane_point = new_origin + distance*(1+self.far_clip_multiplier)  
File "/Users/pospich/Library/Application Support/ChimeraX/0.9/site-
packages/chimerax/clipper/mousemodes.py", line 113, in far_clip  
from chimerax.core.graphics.clipping import CameraClipPlane  
ModuleNotFoundError: No module named 'chimerax.core.graphics.clipping'  
  
ModuleNotFoundError: No module named 'chimerax.core.graphics.clipping'  
  
File "/Users/pospich/Library/Application Support/ChimeraX/0.9/site-
packages/chimerax/clipper/mousemodes.py", line 113, in far_clip  
from chimerax.core.graphics.clipping import CameraClipPlane  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/mouse_modes/mousemodes.py", line 457, in _wheel_event  
f.wheel(MouseEvent(event))  
File
"/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/mouse_modes/std_modes.py", line 389, in wheel  
self.zoom(100*d*psize, stereo_scaling = not event.alt_down())  
File "/Users/pospich/Library/Application Support/ChimeraX/0.9/site-
packages/chimerax/clipper/mousemodes.py", line 168, in zoom  
self.far_clip.plane_point = new_origin + distance*(1+self.far_clip_multiplier)  
File "/Users/pospich/Library/Application Support/ChimeraX/0.9/site-
packages/chimerax/clipper/mousemodes.py", line 113, in far_clip  
from chimerax.core.graphics.clipping import CameraClipPlane  
ModuleNotFoundError: No module named 'chimerax.core.graphics.clipping'  
  
ModuleNotFoundError: No module named 'chimerax.core.graphics.clipping'  
  
File "/Users/pospich/Library/Application Support/ChimeraX/0.9/site-
packages/chimerax/clipper/mousemodes.py", line 113, in far_clip  
from chimerax.core.graphics.clipping import CameraClipPlane  
  
See log for complete Python traceback.  
  
Done loading forcefield  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/mouse_modes/mousemodes.py", line 457, in _wheel_event  
f.wheel(MouseEvent(event))  
File
"/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/mouse_modes/std_modes.py", line 389, in wheel  
self.zoom(100*d*psize, stereo_scaling = not event.alt_down())  
File "/Users/pospich/Library/Application Support/ChimeraX/0.9/site-
packages/chimerax/clipper/mousemodes.py", line 168, in zoom  
self.far_clip.plane_point = new_origin + distance*(1+self.far_clip_multiplier)  
File "/Users/pospich/Library/Application Support/ChimeraX/0.9/site-
packages/chimerax/clipper/mousemodes.py", line 113, in far_clip  
from chimerax.core.graphics.clipping import CameraClipPlane  
ModuleNotFoundError: No module named 'chimerax.core.graphics.clipping'  
  
ModuleNotFoundError: No module named 'chimerax.core.graphics.clipping'  
  
File "/Users/pospich/Library/Application Support/ChimeraX/0.9/site-
packages/chimerax/clipper/mousemodes.py", line 113, in far_clip  
from chimerax.core.graphics.clipping import CameraClipPlane  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 ATI-1.68.20
OpenGL renderer: AMD Radeon R9 M390 OpenGL Engine
OpenGL vendor: ATI Technologies Inc.

[Tristan Croll]

Unfortunately, installations of ISOLDE into ChimeraX 0.9 no longer work correctly due to pip erroneously installing a too-new version of Clipper. I'd strongly recommend updating to ChimeraX 0.91 and installing ISOLDE into that.

[Tristan Croll]

Duplicate of #2215.