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Opened 6 years ago
Closed 6 years ago
#2200 closed defect (fixed)
_handlers weak-value already gone
| Reported by: | Owned by: | pett | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted: Platform: Darwin-17.7.0-x86_64-i386-64bit ChimeraX Version: 0.91 (2019-07-10) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 0.91 (2019-07-10) © 2016-2019 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/stella/Downloads/ChimeraX/PDB/6n2y.cif 6n2y.cif title: Bacillus PS3 ATP synthase class 1 [more info...] Chain information for 6n2y.cif #1 --- Chain | Description A B C | ATP synthase subunit α D E F | ATP synthase subunit β G | ATP synthase γ chain H | ATP synthase ε chain I | ATP synthase subunit δ a | ATP synthase subunit a b1 | ATP synthase subunit b b2 | ATP synthase subunit b c0 c1 c2 c3 c4 c5 c6 c7 c8 c9 | ATP synthase subunit c Non-standard residues in 6n2y.cif #1 --- ADP — adenosine-5'-diphosphate ATP — adenosine-5'-triphosphate MG — magnesium ion PO4 — phosphate ion > select /A:2-501 3827 atoms, 3888 bonds, 1 model selected > select :ADP 27 atoms, 29 bonds, 1 model selected > select :ADP 27 atoms, 29 bonds, 1 model selected > style selAtoms stick Changed 27 atom styles > style selAtoms stick Changed 27 atom styles > style selAtoms stick Changed 27 atom styles > style selAtoms stick Changed 27 atom styles > style selAtoms stick Changed 27 atom styles > select clear > select /B:254@NZ 1 atom, 1 model selected > select clear > select /B:252@CE 1 atom, 1 model selected > select /B:252@NZ 1 atom, 1 model selected > select /B:248@OH 1 atom, 1 model selected > select /B:252@NZ 1 atom, 1 model selected > select /B:248@OH 1 atom, 1 model selected > select /B:248@CE1 1 atom, 1 model selected > select /B:253@CA 1 atom, 1 model selected > select /B:252@O 1 atom, 1 model selected > select /B:254@NZ 1 atom, 1 model selected > select /B:252@O 1 atom, 1 model selected > select /B:254@CG 1 atom, 1 model selected > select /B:254@CD 1 atom, 1 model selected > select /B:254@NZ 1 atom, 1 model selected > select /B:252@CE 1 atom, 1 model selected > select /B:478@CG2 1 atom, 1 model selected > select /B:478@CA 1 atom, 1 model selected > select /B:477@O 1 atom, 1 model selected > select /B:479@NZ 1 atom, 1 model selected > select clear > style selAtoms stick Changed 35043 atom styles > style selAtoms stick Changed 35043 atom styles > style selAtoms sphere Changed 35043 atom styles > style selAtoms stick Changed 35043 atom styles > style selAtoms sphere Changed 35043 atom styles > select /B:187@NZ 1 atom, 1 model selected > select /B:187@CD 1 atom, 1 model selected > select /B:187@CG 1 atom, 1 model selected > select clear > select clear > style selAtoms ball Changed 35043 atom styles > style selAtoms ball Changed 35043 atom styles > style selAtoms sphere Changed 35043 atom styles > show selAtoms ribbons > style selAtoms sphere Changed 35043 atom styles > preset "initial styles" "original look" Preset implemented in Python; no expansion to individual ChimeraX commands available. > show ribbons > preset "initial styles" "original look" Preset implemented in Python; no expansion to individual ChimeraX commands available. > hide > show ribbons > preset "initial styles" "original look" Preset implemented in Python; no expansion to individual ChimeraX commands available. > set bgColor white > lighting soft > lighting soft > lighting full > lighting soft > lighting full > lighting simple > lighting full > set bgColor black > lighting soft > hide > show ribbons > show selAtoms ribbons > show selAtoms ribbons > show selAtoms ribbons > show selAtoms > show selAtoms ribbons > show selAtoms ribbons > show selAtoms > preset "initial styles" "original look" Preset implemented in Python; no expansion to individual ChimeraX commands available. > set bgColor white > save /Users/stella/Desktop/image1.png supersample 3 Empty filename passed to function > save image /Users/stella/test.tif width 1500 height 1258 > save /Users/stella/Desktop/test.png width 1500 > show selAtoms surfaces > color bfactor selAtoms 35043 atoms, 4722 residues, 22 surfaces, atom bfactor range 0 to 144 > mlp selAtoms Map values for surface "6n2y.cif_A SES surface": minimum -49.67, mean -9.103, maximum 22.97 Map values for surface "6n2y.cif_B SES surface": minimum -54.79, mean -9.429, maximum 23.24 Map values for surface "6n2y.cif_C SES surface": minimum -48.93, mean -9.469, maximum 24.15 Map values for surface "6n2y.cif_D SES surface": minimum -49.82, mean -8.614, maximum 25.56 Map values for surface "6n2y.cif_E SES surface": minimum -49, mean -8.976, maximum 23.87 Map values for surface "6n2y.cif_F SES surface": minimum -49.92, mean -8.684, maximum 22.56 Map values for surface "6n2y.cif_G SES surface": minimum -43.34, mean -8.507, maximum 22.41 Map values for surface "6n2y.cif_H SES surface": minimum -43.27, mean -8.606, maximum 23.31 Map values for surface "6n2y.cif_I SES surface": minimum -46.41, mean -8.739, maximum 25.32 /private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/data/arrays.py:152: RuntimeWarning: invalid value encountered in multiply v = fbc + b * (lbc - fbc) / self.bins Map values for surface "6n2y.cif_b2 SES surface": minimum -inf, mean -inf, maximum 22.08 Map values for surface "6n2y.cif_b1 SES surface": minimum -44.2, mean -11.65, maximum 22.09 Map values for surface "6n2y.cif_a SES surface": minimum -47.69, mean -5.122, maximum 23.05 Map values for surface "6n2y.cif_c0 SES surface": minimum -39.73, mean -4.977, maximum 22.62 Map values for surface "6n2y.cif_c1 SES surface": minimum -39.53, mean -4.684, maximum 21.9 Map values for surface "6n2y.cif_c2 SES surface": minimum -40.37, mean -4.997, maximum 22.64 Map values for surface "6n2y.cif_c3 SES surface": minimum -38.97, mean -4.955, maximum 22.04 Map values for surface "6n2y.cif_c4 SES surface": minimum -40.82, mean -5.091, maximum 21.96 Map values for surface "6n2y.cif_c5 SES surface": minimum -42.06, mean -5.229, maximum 22.34 Map values for surface "6n2y.cif_c6 SES surface": minimum -38.51, mean -5.224, maximum 22.54 Map values for surface "6n2y.cif_c7 SES surface": minimum -41.11, mean -4.995, maximum 21.92 Map values for surface "6n2y.cif_c8 SES surface": minimum -40.72, mean -5.006, maximum 22.67 Map values for surface "6n2y.cif_c9 SES surface": minimum -39.75, mean -4.963, maximum 22.49 > hide selAtoms > show selAtoms > hide selAtoms > hide selAtoms ribbons > show selAtoms ribbons > show selAtoms > set bgColor black > color selAtoms bychain > color bypolymer > select /A/B/C 11476 atoms, 11659 bonds, 9 pseudobonds, 2 models selected > color sel orange > color selAtoms byhetero > color selAtoms byhetero > style selAtoms sphere Changed 11476 atom styles > color selAtoms bychain > select clear > open /Users/stella/Downloads/chimerax_tutorial/6n2z.cif 6n2z.cif title: Bacillus PS3 ATP synthase class 2 [more info...] Chain information for 6n2z.cif #2 --- Chain | Description A B C | ATP synthase subunit α D E F | ATP synthase subunit β G | ATP synthase γ chain H | ATP synthase ε chain I | Bacillus PS3 ATP synthase subunit δ a | Bacillus PS3 ATP synthase subunit a b1 | Bacillus PS3 ATP synthase subunit b b2 | Bacillus PS3 ATP synthase subunit b c0 c1 c2 c3 c4 c5 c6 c7 c8 c9 | ATP synthase subunit c Non-standard residues in 6n2z.cif #2 --- ADP — adenosine-5'-diphosphate ATP — adenosine-5'-triphosphate MG — magnesium ion PO4 — phosphate ion > open /Users/stella/Downloads/chimerax_tutorial/6n30.cif 6n30.cif title: Bacillus PS3 ATP synthase class 3 [more info...] Chain information for 6n30.cif #3 --- Chain | Description A B C | ATP synthase subunit α D E F | ATP synthase subunit β G | ATP synthase γ chain H | ATP synthase ε chain I | Bacillus PS3 ATP synthase subunit δ a | Bacillus PS3 ATP synthase subunit a b1 | Bacillus PS3 ATP synthase subunit b b2 | Bacillus PS3 ATP synthase subunit b c0 c1 c2 c3 c4 c5 c6 c7 c8 c9 | ATP synthase subunit c Non-standard residues in 6n30.cif #3 --- ADP — adenosine-5'-diphosphate ATP — adenosine-5'-triphosphate MG — magnesium ion PO4 — phosphate ion > hide #!2 models > show #!2 models > hide #!1 models > hide #!3 models > show #!3 models > show #!1 models > morph #1,2 Computed 21 frame morph #4 > coordset #4 1,21 > close #4 > show #!1 models > show #!2 models > hide #!3 models > hide #!2 models > show #!2 models > show #!3 models > morph #1,2,3 wrap true same true Computed 61 frame morph #4 > coordset #4 1,61 > movie record > movie encode /Users/stella/Desktop/movie.mp4 framerate 25.0 Movie saved to /Users/stella/Desktop/movie.mp4 > movie record > movie encode /Users/stella/Desktop/movie.mp4 framerate 25.0 Movie saved to /Users/stella/Desktop/movie.mp4 > close #4 > show #!1 models > preset "initial styles" "original look" Preset implemented in Python; no expansion to individual ChimeraX commands available. > color selAtoms bychain > color selAtoms bychain > close #2 > show #!3 models > hide #!3 models > close #3 > color selAtoms bychain Unknown command: Color bypolymer > color bypolymer > select /A/B/C 11476 atoms, 11659 bonds, 9 pseudobonds, 2 models selected > color orange Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword > color sel orange > preset "initial styles" "original look" Preset implemented in Python; no expansion to individual ChimeraX commands available. > color sel orange > select clear > open /Users/stella/Downloads/chimerax_tutorial/6n2z.cif 6n2z.cif title: Bacillus PS3 ATP synthase class 2 [more info...] Chain information for 6n2z.cif #2 --- Chain | Description A B C | ATP synthase subunit α D E F | ATP synthase subunit β G | ATP synthase γ chain H | ATP synthase ε chain I | Bacillus PS3 ATP synthase subunit δ a | Bacillus PS3 ATP synthase subunit a b1 | Bacillus PS3 ATP synthase subunit b b2 | Bacillus PS3 ATP synthase subunit b c0 c1 c2 c3 c4 c5 c6 c7 c8 c9 | ATP synthase subunit c Non-standard residues in 6n2z.cif #2 --- ADP — adenosine-5'-diphosphate ATP — adenosine-5'-triphosphate MG — magnesium ion PO4 — phosphate ion > open /Users/stella/Downloads/chimerax_tutorial/6n30.cif 6n30.cif title: Bacillus PS3 ATP synthase class 3 [more info...] Chain information for 6n30.cif #3 --- Chain | Description A B C | ATP synthase subunit α D E F | ATP synthase subunit β G | ATP synthase γ chain H | ATP synthase ε chain I | Bacillus PS3 ATP synthase subunit δ a | Bacillus PS3 ATP synthase subunit a b1 | Bacillus PS3 ATP synthase subunit b b2 | Bacillus PS3 ATP synthase subunit b c0 c1 c2 c3 c4 c5 c6 c7 c8 c9 | ATP synthase subunit c Non-standard residues in 6n30.cif #3 --- ADP — adenosine-5'-diphosphate ATP — adenosine-5'-triphosphate MG — magnesium ion PO4 — phosphate ion > hide #!1 models > hide #!2 models > hide #!3 models > show #!1 models Unknown command: morph#1,2,3 wrap true same true > morph #1,2,3 wrap true same true Computed 61 frame morph #4 > coordset #4 1,61 > movie record > movie encode /Users/stella/Desktop/movie.mp4 framerate 25.0 Movie saved to /Users/stella/Desktop/movie.mp4 > select #4/D:180@CA 1 atom, 1 model selected > select up 4 atoms, 3 bonds, 1 model selected > select up 16 atoms, 15 bonds, 1 model selected > select up 3560 atoms, 3623 bonds, 1 model selected > select down 16 atoms, 15 bonds, 1 model selected > select down 4 atoms, 3 bonds, 1 model selected > select up 16 atoms, 15 bonds, 1 model selected > select up 3560 atoms, 3623 bonds, 1 model selected > select up 34569 atoms, 35102 bonds, 1 model selected > select up 139514 atoms, 141664 bonds, 4 models selected > select up 139514 atoms, 141664 bonds, 4 models selected > select up 139514 atoms, 141664 bonds, 4 models selected > select up 139514 atoms, 141664 bonds, 4 models selected > select up 139514 atoms, 141664 bonds, 4 models selected > select clear Empty filename passed to function > save image /Users/stella/Desktop/test.gif width 745 height 604 > preset "initial styles" "original look" Preset implemented in Python; no expansion to individual ChimeraX commands available. Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword > show #!1 models > hide #!4 models Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword > color selAtoms bychain Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword > color bypolymer > select #1/A#1/B#1/C#2/A#2/B#2/C#3/A#3/B#3/C#4/A#4/B#4/C 45669 atoms, 46405 bonds, 27 pseudobonds, 7 models selected > color sel orange > hide #!1 models > show #!1 models > select clear > show #!4 models > hide #!1 models > show #!1 models > show #!2 models > show #!3 models > hide #!3 models > hide #!2 models > hide #!1 models > hide #!4 models > show #!1 models > select #1/D:177@CB 1 atom, 1 model selected > select up 9 atoms, 8 bonds, 2 models selected > select up 136 atoms, 137 bonds, 2 models selected > select up 3622 atoms, 3685 bonds, 2 models selected > select clear > close #4 > close #2 #3 > preset "initial styles" "original look" Preset implemented in Python; no expansion to individual ChimeraX commands available. > open /Users/stella/Downloads/chimerax_tutorial/emd_9333.map Opened emd_9333.map, grid size 320,320,320, pixel 1.06, shown at level 0.32, step 2, values float32 > hide #!1 models > lighting simple > lighting soft > select #2 2 models selected > volume selMaps style surface > volume selMaps show > show #!1 models > select clear > view :ADP > style selAtoms stick Changed 35043 atom styles > view :ADP > lighting simple > select :ADP 27 atoms, 29 bonds, 1 model selected > select /F:601@MG 1 atom, 1 model selected > view sel > view :ADP > select clear > select /F:600@PA 1 atom, 1 model selected > select up 2 atoms, 1 bond, 1 model selected > select up 27 atoms, 29 bonds, 1 model selected > view sel > select ~sel 35016 atoms, 35550 bonds, 13 pseudobonds, 7 models selected > volume selMaps style mesh > select clear > volume #2 subdivideSurface true > clip off > view :ADP > hide selAtoms > show :ADP > clip off > surface zone #2 nearAtoms :ADP > surface zone #2 nearAtoms :ADP distance 10 > select :ADP 27 atoms, 29 bonds, 1 model selected > select sel:<5 175 atoms, 168 bonds, 2 pseudobonds, 2 models selected > show selAtoms > show selAtoms surfaces > volume selMaps style surface > volume selMaps style mesh > volume selMaps style mesh > hide #!2 models > show #!2 models > select clear > volume selMaps style mesh > volume selMaps style surface > close #1 > open /Users/stella/Downloads/chimerax_tutorial/4xd7.cif Summary of feedback from opening /Users/stella/Downloads/chimerax_tutorial/4xd7.cif --- note | Fetching CCD SO4 from http://ligand-expo.rcsb.org/reports/S/SO4/SO4.cif 4xd7.cif title: Structure of thermophilic F1-ATPase inhibited by ε subunit [more info...] Chain information for 4xd7.cif #1 --- Chain | Description A B C | ATP synthase subunit α D E F | ATP synthase subunit β G | ATP synthase γ chain H | ATP synthase ε chain Non-standard residues in 4xd7.cif #1 --- ADP — adenosine-5'-diphosphate SO4 — sulfate ion > close #2 > close > open /Users/stella/Downloads/chimerax_tutorial/emd_9333.map Opened emd_9333.map, grid size 320,320,320, pixel 1.06, shown at level 0.32, step 2, values float32 > open /Users/stella/Downloads/chimerax_tutorial/4xd7.cif 4xd7.cif title: Structure of thermophilic F1-ATPase inhibited by ε subunit [more info...] Chain information for 4xd7.cif #2 --- Chain | Description A B C | ATP synthase subunit α D E F | ATP synthase subunit β G | ATP synthase γ chain H | ATP synthase ε chain Non-standard residues in 4xd7.cif #2 --- ADP — adenosine-5'-diphosphate SO4 — sulfate ion > ui mousemode rightMode "translate selected models" > select #2 22656 atoms, 22944 bonds, 25 pseudobonds, 2 models selected > ~select #2 Nothing selected > ui mousemode rightMode "translate selected models" > hide #!2 models > show #!2 models > select #2 22656 atoms, 22944 bonds, 25 pseudobonds, 2 models selected > ~select #2 Nothing selected > ui mousemode rightMode "rotate selected models" > select #2 22656 atoms, 22944 bonds, 25 pseudobonds, 2 models selected > ui mousemode rightMode "translate selected models" > ui mousemode rightMode "rotate selected models" Traceback (most recent call last): File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/triggerset.py", line 130, in invoke return self._func(self._name, data) File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/objects.py", line 73, in _model_deleted_cb del self._handlers[model] File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] KeyError: <chimerax.core.models.Surface object at 0x137f8f5f8> Error processing trigger "deleted": : KeyError: File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] See log for complete Python traceback. Traceback (most recent call last): File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/triggerset.py", line 130, in invoke return self._func(self._name, data) File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/objects.py", line 73, in _model_deleted_cb del self._handlers[model] File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] KeyError: <chimerax.core.models.Surface object at 0x137f8f5f8> Error processing trigger "deleted": : KeyError: File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] See log for complete Python traceback. Traceback (most recent call last): File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/triggerset.py", line 130, in invoke return self._func(self._name, data) File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/objects.py", line 73, in _model_deleted_cb del self._handlers[model] File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] KeyError: <chimerax.core.models.Surface object at 0x137f8f5f8> Error processing trigger "deleted": : KeyError: File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] See log for complete Python traceback. Traceback (most recent call last): File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/triggerset.py", line 130, in invoke return self._func(self._name, data) File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/objects.py", line 73, in _model_deleted_cb del self._handlers[model] File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] KeyError: <chimerax.core.models.Surface object at 0x161078cf8> Error processing trigger "deleted": : KeyError: File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] See log for complete Python traceback. Traceback (most recent call last): File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/triggerset.py", line 130, in invoke return self._func(self._name, data) File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/objects.py", line 73, in _model_deleted_cb del self._handlers[model] File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] KeyError: <chimerax.core.models.Surface object at 0x161078cf8> Error processing trigger "deleted": : KeyError: File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] See log for complete Python traceback. Traceback (most recent call last): File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/triggerset.py", line 130, in invoke return self._func(self._name, data) File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/objects.py", line 73, in _model_deleted_cb del self._handlers[model] File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] KeyError: <chimerax.core.models.Surface object at 0x161078cf8> Error processing trigger "deleted": : KeyError: File "/private/var/folders/kn/65_bx0212qn3djrc3swp0jth0000gn/T/AppTranslocation/AE328A1C-3E26-42C5-963A-0B37B3BE4A1C/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/weakref.py", line 146, in __delitem__ del self.data[key] See log for complete Python traceback. OpenGL version: 4.1 INTEL-10.36.19 OpenGL renderer: Intel Iris Pro OpenGL Engine OpenGL vendor: Intel Inc.
Change History (2)
comment:1 by , 6 years ago
| Component: | Unassigned → Core |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → _handlers weak-value already gone |
comment:2 by , 6 years ago
| Resolution: | → fixed |
|---|---|
| Status: | accepted → closed |
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Switched to strong-ref dict since opened models will always call delete() when closed. Implies that unopened model will have to explicitly call delete() to clean up.