id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 356 vop boxes causing later failure? Elaine Meng Tom Goddard "I'm not sure exactly how this problem is triggered. One time I got it with vop boxes and useMarkerSize true but later using that same set of options didn't cause it. I'd ignored the warning the first time and kept going, but as per the warning, later there was a volume surface still displayed after I'd closed (all) models and the Model Panel was empty. Here are the commands and resulting log messages culminating in the second occurrence of the problem after using vop boxes again. I indented the actual commands I entered: open 1zik molmap /a 6 vop boxes #2 centers /a:17@ca useMarkerSize true box region ([18, 15, 14], [21, 18, 17], (1, 1, 1)) False vop boxes #2 centers /a:17@ca size 5 box region ([18.0, 14, 14], [22.0, 18, 18], (1, 1, 1)) False /Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/map/data/griddata.py:236: VisibleDeprecationWarning: using a non-integer number instead of an integer will result in an error in the future m = matrix[k1:k2:kstep, j1:j2:jstep, i1:i2:istep] ... again I kept going but after using ""volume"" to change color and style, redraw was halted: [... various other commands ...] volume #3-5 style mesh volume #3-5 style solid Error in drawing scene. Redraw is now stopped. Traceback (most recent call last): File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/updateloop.py"", line 31, in draw_new_frame view.draw(check_for_changes = False) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/graphics/view.py"", line 179, in draw draw_drawings(r, cpinv, mdraw) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/graphics/drawing.py"", line 998, in draw_drawings lambda: _draw_multiple(drawings, r, p, Drawing.TRANSPARENT_DRAW_PASS)) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/graphics/opengl.py"", line 652, in draw_transparent draw() File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/graphics/drawing.py"", line 998, in lambda: _draw_multiple(drawings, r, p, Drawing.TRANSPARENT_DRAW_PASS)) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/graphics/drawing.py"", line 1004, in _draw_multiple d.draw(renderer, place, draw_pass, selected_only) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/graphics/drawing.py"", line 533, in draw self._draw_children(renderer, pp, draw_pass, selected_only) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/graphics/drawing.py"", line 566, in _draw_children d.draw(renderer, place, draw_pass, selected_only) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/graphics/drawing.py"", line 533, in draw self._draw_children(renderer, pp, draw_pass, selected_only) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/graphics/drawing.py"", line 566, in _draw_children d.draw(renderer, place, draw_pass, selected_only) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/map/grayscale.py"", line 155, in draw self.make_planes() File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/map/grayscale.py"", line 192, in make_planes plist = self.make_axis_planes() File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/map/grayscale.py"", line 197, in make_axis_planes planes = tuple((k, axis) for k in range(0,self.grid_size[axis])) TypeError: 'float' object cannot be interpreted as an integer " defect closed major Volume Data fixed all ChimeraX