id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 3113 Surface caps: Array argument has non-numeric values chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Darwin-18.7.0-x86_64-i386-64bit ChimeraX Version: 0.91 (2019-07-30) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 0.91 (2019-07-30) © 2016-2019 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_000.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_001.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_002.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_003.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_004.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_005.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_006.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_007 (1).mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_008.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_009.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_010.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_011.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_012.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_013.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_014.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_015.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_016.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_017.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_018.mrc"" ""/Users/psexton/Documents/Science/GPCR structure projects 3/SecR/Secretin receptor data from Sarah/CryoSparc multivzriant/Component 000/frame_019.mrc"" vseries true Opened map series frame_000.mrc, 20 images, grid size 288,288,288, pixel 0.83, shown at level 0.154, step 2, values float32 > view clip false > toolshed show ""Side View"" Traceback (most recent call last): File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/updateloop.py"", line 127, in _redraw_timer_callback self.draw_new_frame() File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/updateloop.py"", line 61, in draw_new_frame surface.update_clip_caps(view) File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 27, in update_clip_caps subdivision = settings.clipping_cap_subdivision) File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 38, in show_surface_clip_caps varray, tarray = refine_mesh(varray, tarray, subdivision) TypeError: Array argument has non-numeric values TypeError: Array argument has non-numeric values File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 38, in show_surface_clip_caps varray, tarray = refine_mesh(varray, tarray, subdivision) See log for complete Python traceback. Traceback (most recent call last): File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/updateloop.py"", line 127, in _redraw_timer_callback self.draw_new_frame() File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/updateloop.py"", line 61, in draw_new_frame surface.update_clip_caps(view) File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 27, in update_clip_caps subdivision = settings.clipping_cap_subdivision) File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 38, in show_surface_clip_caps varray, tarray = refine_mesh(varray, tarray, subdivision) TypeError: Array argument has non-numeric values TypeError: Array argument has non-numeric values File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 38, in show_surface_clip_caps varray, tarray = refine_mesh(varray, tarray, subdivision) See log for complete Python traceback. Traceback (most recent call last): File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/updateloop.py"", line 127, in _redraw_timer_callback self.draw_new_frame() File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/updateloop.py"", line 61, in draw_new_frame surface.update_clip_caps(view) File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 27, in update_clip_caps subdivision = settings.clipping_cap_subdivision) File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 38, in show_surface_clip_caps varray, tarray = refine_mesh(varray, tarray, subdivision) TypeError: Array argument has non-numeric values TypeError: Array argument has non-numeric values File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 38, in show_surface_clip_caps varray, tarray = refine_mesh(varray, tarray, subdivision) See log for complete Python traceback. [lots of these deleted] Traceback (most recent call last): File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/updateloop.py"", line 127, in _redraw_timer_callback self.draw_new_frame() File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/updateloop.py"", line 61, in draw_new_frame surface.update_clip_caps(view) File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 27, in update_clip_caps subdivision = settings.clipping_cap_subdivision) File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 38, in show_surface_clip_caps varray, tarray = refine_mesh(varray, tarray, subdivision) TypeError: Array argument has non-numeric values TypeError: Array argument has non-numeric values File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 38, in show_surface_clip_caps varray, tarray = refine_mesh(varray, tarray, subdivision) See log for complete Python traceback. Traceback (most recent call last): File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/updateloop.py"", line 127, in _redraw_timer_callback self.draw_new_frame() File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/updateloop.py"", line 61, in draw_new_frame surface.update_clip_caps(view) File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 27, in update_clip_caps subdivision = settings.clipping_cap_subdivision) File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 38, in show_surface_clip_caps varray, tarray = refine_mesh(varray, tarray, subdivision) TypeError: Array argument has non-numeric values TypeError: Array argument has non-numeric values File ""/Users/psexton/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/surface/cap.py"", line 38, in show_surface_clip_caps varray, tarray = refine_mesh(varray, tarray, subdivision) See log for complete Python traceback. OpenGL version: 4.1 ATI-2.11.21 OpenGL renderer: AMD Radeon RX Vega 56 OpenGL Engine OpenGL vendor: ATI Technologies Inc. }}} " defect closed normal Surface duplicate all ChimeraX