id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 2558 Wrong version of Clipper in ChimeraX 0.9 peter.mace@… Conrad Huang "{{{ The following bug report has been submitted: Platform: Darwin-18.7.0-x86_64-i386-64bit ChimeraX Version: 0.9 (2019-06-06) Description New install of ChimeraX/iSolde on macbook pro with external GPU, error occurs when zooming in or out 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 3wa9 format mmCIF fromDatabase pdb 3wa9 title: The nucleosome containing human H2A.Z.1 [more info...] Chain information for 3wa9 #1 --- Chain | Description A E | Histone H3.1 B F | Histone H4 C G | Histone H2A.Z D H | Histone H2B type 1-J I J | DNA (146-mer) > toolshed show ISOLDE > set selectionWidth 4 3wa9 title: The nucleosome containing human H2A.Z.1 [more info...] Chain information for 3wa9 --- Chain | Description 1.3/A 1.3/E | Histone H3.1 1.3/B 1.3/F | Histone H4 1.3/C 1.3/G | Histone H2A.Z 1.3/D 1.3/H | Histone H2B type 1-J 1.3/I 1.3/J | DNA (146-mer) 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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/clipper/mousemodes.py"", line 169, in zoom self.far_clip.plane_point = new_origin + new_view_vec*(1+self.far_clip_multiplier) File ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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 ""/Applications/ChimeraX-0.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/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-2.11.20 OpenGL renderer: AMD Radeon RX 570 OpenGL Engine OpenGL vendor: ATI Technologies Inc. }}} " defect closed normal Tool Shed duplicate all ChimeraX