id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 4530 access violation trying to create Atoms collection chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.19041 ChimeraX Version: 1.1 (2020-09-09 22:22:27 UTC) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 1.1 (2020-09-09) © 2016-2020 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open C:\Users\BD2020212\Downloads\6yyt.pdb format pdb 6yyt.pdb title: Structure of replicating sars-cov-2 polymerase [more info...] Chain information for 6yyt.pdb #1 --- Chain | Description A | NSP12 B D | NSP8 C | NSP7 P Q T U | RNA product Non-standard residues in 6yyt.pdb #1 --- ZN — zinc ion > show atoms > show cartoons > hide atoms > show surfaces > show cartoons > show atoms QFileSystemWatcher::removePaths: list is empty > save C:/work/design/pdb/proteintest/test.obj > hide atoms > hide cartoons > hide surfaces > show surfaces > show cartoons > show surfaces > interfaces ~solvent 8 buried areas: A B 2523, D C 1366, A T 1092, A C 796, A D 789, A P 625, P T 526, Q U 523 > select /C:1-73 559 atoms, 562 bonds, 73 residues, 1 model selected > transparency (#!1 & sel) 50 > select clear > close session > open 2mr '2mr' has no suffix > open 2mfr Summary of feedback from opening 2mfr fetched from pdb --- note | Fetching compressed mmCIF 2mfr from http://files.rcsb.org/download/2mfr.cif 2mfr title: Solution structure of the transmembrane domain of the insulin receptor in micelles [more info...] Chain information for 2mfr --- Chain | Description 1.1/A 1.2/A 1.3/A 1.4/A 1.5/A 1.6/A 1.7/A 1.8/A 1.9/A 1.10/A 1.11/A 1.12/A 1.13/A 1.14/A 1.15/A 1.16/A 1.17/A 1.18/A 1.19/A 1.20/A | Insulin receptor > select #1.1/A 958 atoms, 976 bonds, 57 residues, 1 model selected > select ~sel 18202 atoms, 18544 bonds, 1083 residues, 20 models selected > delete atoms sel > delete bonds sel > open 1irk Summary of feedback from opening 1irk fetched from pdb --- notes | Fetching compressed mmCIF 1irk from http://files.rcsb.org/download/1irk.cif Fetching CCD EMC from http://ligand-expo.rcsb.org/reports/E/EMC/EMC.cif 1irk title: Crystal structure of the tyrosine kinase domain of the human insulin receptor [more info...] Chain information for 1irk #2 --- Chain | Description A | insulin receptor tyrosine kinase domain Non-standard residues in 1irk #2 --- EMC — ethyl mercury ion > select #1.1/A 958 atoms, 976 bonds, 57 residues, 1 model selected > select #2/A 2574 atoms, 2427 bonds, 2 pseudobonds, 504 residues, 2 models selected > ui tool show ""Show Sequence Viewer"" > hide #!2 models > show #!2 models > hide #!1 models > sequence chain #2/A Alignment identifier is 2/A > show #!1 models > select protein 3327 atoms, 3399 bonds, 360 residues, 2 models selected > hide #!1 models > show #!1 models > hide #!2 models > show #!2 models > select #2/A:981 6 atoms, 5 bonds, 1 residue, 1 model selected > select clear > select #2/A:983 7 atoms, 6 bonds, 1 residue, 1 model selected > select #2/A:981 6 atoms, 5 bonds, 1 residue, 1 model selected > select clear > select #1.1/A:57 18 atoms, 18 bonds, 1 residue, 1 model selected > select #1.1/A:57 18 atoms, 18 bonds, 1 residue, 1 model selected > select clear > select #1.1/A:57 18 atoms, 18 bonds, 1 residue, 1 model selected > select clear > select #2/A:981 6 atoms, 5 bonds, 1 residue, 1 model selected > ui tool show ""Build Structure"" > select #2/A:983 7 atoms, 6 bonds, 1 residue, 1 model selected > select #2/A:984 5 atoms, 4 bonds, 1 residue, 1 model selected Drag select of 360 residues, 25 atoms, 2 pseudobonds, 20 bonds > combin Unknown command: combin > combine Unknown command: combine > select clear > combine Unknown command: combine > combine Unknown command: combine > combine Unknown command: combine > combine Unknown command: combine > combine Unknown command: combine > select #2/A:1220 9 atoms, 8 bonds, 1 residue, 1 model selected > build start atom ""custom built"" > build start atom ""custom built"" > build start atom ""custom built"" > delete atoms sel > delete bonds sel > delete atoms > delete bonds > undo Undo failed, probably because structures have been modified. > close session > open 2mfr format mmcif fromDatabase pdb 2mfr title: Solution structure of the transmembrane domain of the insulin receptor in micelles [more info...] Chain information for 2mfr --- Chain | Description 1.1/A 1.2/A 1.3/A 1.4/A 1.5/A 1.6/A 1.7/A 1.8/A 1.9/A 1.10/A 1.11/A 1.12/A 1.13/A 1.14/A 1.15/A 1.16/A 1.17/A 1.18/A 1.19/A 1.20/A | Insulin receptor > delete atoms > delete bonds > close session > open 2mfr format mmcif fromDatabase pdb 2mfr title: Solution structure of the transmembrane domain of the insulin receptor in micelles [more info...] Traceback (most recent call last): File ""C:\Program Files\ChimeraX 1.1\bin\lib\site-packages\chimerax\ui\gui.py"", line 629, in customEvent func(*args, **kw) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\ui\widgets\htmlview.py"", line 440, in defer cxcmd(session, topic) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\ui\widgets\htmlview.py"", line 456, in cxcmd run(session, cmd) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\commands\run.py"", line 31, in run results = command.run(text, log=log) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2805, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\open_command\cmd.py"", line 100, in cmd_open return Command(session, registry=registry).run(provider_cmd_text, log=log) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2805, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\open_command\cmd.py"", line 188, in provider_open session.models.add(opened_models) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\models.py"", line 670, in add m.added_to_session(session) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\structure.py"", line 1152, in added_to_session super().added_to_session(session) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\structure.py"", line 124, in added_to_session self.apply_auto_styling(set_lighting = self._is_only_model()) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\structure.py"", line 1210, in apply_auto_styling ions = atoms.filter(atoms.structure_categories == ""ions"") File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\molarray.py"", line 238, in filter return self._objects_class(self._pointers[mask_or_indices]) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\molarray.py"", line 730, in __init__ Collection.__init__(self, atom_pointers, molobject.Atom, Atoms) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\molarray.py"", line 122, in __init__ set_cvec_pointer(self, pointers) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\molc.py"", line 238, in set_cvec_pointer self._c_pointers = pointer(pointers) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\molc.py"", line 322, in pointer p = a.ctypes.data_as(ctypes.POINTER(cty)) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\numpy\core\\_internal.py"", line 283, in data_as ptr = self._ctypes.cast(self._data, obj) File ""C:\Program Files\ChimeraX 1.1\bin\lib\ctypes\\__init__.py"", line 498, in cast return _cast(obj, obj, typ) OSError: exception: access violation writing 0x000001DE8BCBD480 OSError: exception: access violation writing 0x000001DE8BCBD480 File ""C:\Program Files\ChimeraX 1.1\bin\lib\ctypes\\__init__.py"", line 498, in cast return _cast(obj, obj, typ) See log for complete Python traceback. > open 2mfr format mmcif fromDatabase pdb 2mfr title: Solution structure of the transmembrane domain of the insulin receptor in micelles [more info...] Chain information for 2mfr --- Chain | Description 2.1/A 2.2/A 2.3/A 2.4/A 2.5/A 2.6/A 2.7/A 2.8/A 2.9/A 2.10/A 2.11/A 2.12/A 2.13/A 2.14/A 2.15/A 2.16/A 2.17/A 2.18/A 2.19/A 2.20/A | Insulin receptor > hide atoms > hide #!2 models > show #!2 models > hide #!2 models > select #1.1/A 958 atoms, 976 bonds, 57 residues, 1 model selected > select ~sel 37362 atoms, 38064 bonds, 2223 residues, 41 models selected > delete atoms (#1.2-20 & sel) Traceback (most recent call last): File ""C:\Program Files\ChimeraX 1.1\bin\lib\site-packages\chimerax\ui\gui.py"", line 1144, in run(ses, cmd % (sel_or_all(ses, ['atoms', 'bonds']), sel_or_all(ses, ['atoms', 'bonds'])))) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\commands\run.py"", line 31, in run results = command.run(text, log=log) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2805, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\std_commands\delete.py"", line 41, in delete_atoms session.models.close([s for s in session.models File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\models.py"", line 886, in close self.remove(mopen) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\models.py"", line 856, in remove m.removed_from_session(session) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\structure.py"", line 132, in removed_from_session self._graphics_updater.remove_structure(self) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\structure.py"", line 1554, in remove_structure self._structures.remove(s) KeyError: KeyError: File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\structure.py"", line 1554, in remove_structure self._structures.remove(s) See log for complete Python traceback. Traceback (most recent call last): File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\triggerset.py"", line 130, in invoke return self._func(self._name, data) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\structure.py"", line 1562, in _update_graphics_if_needed s = self._array() File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\structure.py"", line 1607, in _array self._structures_array = sa = StructureDatas(object_pointers(self._structures)) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\molarray.py"", line 1423, in object_pointers pointers = array(tuple(o._c_pointer.value for o in objects), dtype = cptr,) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\molarray.py"", line 1423, in pointers = array(tuple(o._c_pointer.value for o in objects), dtype = cptr,) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 43, in _getattr_ return base.__getattr__(self, attr_name, look_in_class=base) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 39, in _getattr_ return look_in_class._attr_registration.get_attr(attr_name) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 69, in get_attr raise AttributeError(""'%s' object has no attribute '%s'"" % (self.class_.__name__, attr_name)) from None AttributeError: 'Structure' object has no attribute '_c_pointer' Error processing trigger ""graphics update"": AttributeError: 'Structure' object has no attribute '_c_pointer' File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 69, in get_attr raise AttributeError(""'%s' object has no attribute '%s'"" % (self.class_.__name__, attr_name)) from None See log for complete Python traceback. Traceback (most recent call last): File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\mousemodes.py"", line 637, in gw.mouseReleaseEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_up"") File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\mousemodes.py"", line 535, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 59, in mouse_up mouse_select(event, mode, self.session, self.view) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 184, in mouse_select select_pick(session, pick, mode) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 196, in select_pick sel.undo_add_selected(undo_state, False) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 71, in undo_add_selected items = self.items(oname) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 34, in items for m in self.models(): File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 30, in models return [m for m in self._all_models if m.get_selected(include_children=True)] File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 30, in return [m for m in self._all_models if m.get_selected(include_children=True)] File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\structure.py"", line 674, in get_selected if self.atoms.num_selected > 0 or self.bonds.num_selected > 0: File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 43, in _getattr_ return base.__getattr__(self, attr_name, look_in_class=base) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 39, in _getattr_ return look_in_class._attr_registration.get_attr(attr_name) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 67, in get_attr raise AttributeError(""Execution of '%s' object's '%s' property raised AttributeError"" % (self.class_.__name__, attr_name)) from None AttributeError: Execution of 'Structure' object's 'atoms' property raised AttributeError AttributeError: Execution of 'Structure' object's 'atoms' property raised AttributeError File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 67, in get_attr raise AttributeError(""Execution of '%s' object's '%s' property raised AttributeError"" % (self.class_.__name__, attr_name)) from None See log for complete Python traceback. Traceback (most recent call last): File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\mousemodes.py"", line 635, in gw.mousePressEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_down"") File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\mousemodes.py"", line 529, in _dispatch_mouse_event lm.mouse_up(MouseEvent(event, modifiers=modifiers)) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 56, in mouse_up mouse_drag_select(self.mouse_down_position, event, mode, self.session, self.view) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 190, in mouse_drag_select select_pick(session, pick, mode) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 196, in select_pick sel.undo_add_selected(undo_state, False) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 71, in undo_add_selected items = self.items(oname) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 34, in items for m in self.models(): File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 30, in models return [m for m in self._all_models if m.get_selected(include_children=True)] File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 30, in return [m for m in self._all_models if m.get_selected(include_children=True)] File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\structure.py"", line 674, in get_selected if self.atoms.num_selected > 0 or self.bonds.num_selected > 0: File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 43, in _getattr_ return base.__getattr__(self, attr_name, look_in_class=base) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 39, in _getattr_ return look_in_class._attr_registration.get_attr(attr_name) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 67, in get_attr raise AttributeError(""Execution of '%s' object's '%s' property raised AttributeError"" % (self.class_.__name__, attr_name)) from None AttributeError: Execution of 'Structure' object's 'atoms' property raised AttributeError AttributeError: Execution of 'Structure' object's 'atoms' property raised AttributeError File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 67, in get_attr raise AttributeError(""Execution of '%s' object's '%s' property raised AttributeError"" % (self.class_.__name__, attr_name)) from None See log for complete Python traceback. Traceback (most recent call last): File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\mousemodes.py"", line 637, in gw.mouseReleaseEvent = lambda e, s=self: s._dispatch_mouse_event(e, ""mouse_up"") File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\mousemodes.py"", line 535, in _dispatch_mouse_event f(MouseEvent(event, modifiers=modifiers)) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 56, in mouse_up mouse_drag_select(self.mouse_down_position, event, mode, self.session, self.view) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 190, in mouse_drag_select select_pick(session, pick, mode) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 196, in select_pick sel.undo_add_selected(undo_state, False) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 71, in undo_add_selected items = self.items(oname) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 34, in items for m in self.models(): File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 30, in models return [m for m in self._all_models if m.get_selected(include_children=True)] File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\core\selection.py"", line 30, in return [m for m in self._all_models if m.get_selected(include_children=True)] File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\structure.py"", line 674, in get_selected if self.atoms.num_selected > 0 or self.bonds.num_selected > 0: File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 43, in _getattr_ return base.__getattr__(self, attr_name, look_in_class=base) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 39, in _getattr_ return look_in_class._attr_registration.get_attr(attr_name) File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 67, in get_attr raise AttributeError(""Execution of '%s' object's '%s' property raised AttributeError"" % (self.class_.__name__, attr_name)) from None AttributeError: Execution of 'Structure' object's 'atoms' property raised AttributeError AttributeError: Execution of 'Structure' object's 'atoms' property raised AttributeError File ""C:\Program Files\ChimeraX 1.1\bin\lib\site- packages\chimerax\atomic\attr_registration.py"", line 67, in get_attr raise AttributeError(""Execution of '%s' object's '%s' property raised AttributeError"" % (self.class_.__name__, attr_name)) from None See log for complete Python traceback. OpenGL version: 3.3.0 NVIDIA 442.70 OpenGL renderer: GeForce GTX 1050/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Manufacturer: Dell Inc. Model: XPS 15 9560 OS: Microsoft Windows 10 家庭中文版 (Build 19042) Memory: 34,204,643,328 MaxProcessMemory: 137,438,953,344 CPU: 8 Intel(R) Core(TM) i7-7700HQ CPU @ 2.80GHz"" PyQt version: 5.12.3 Compiled Qt version: 5.12.4 Runtime Qt version: 5.12.9 Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 Babel: 2.8.0 backcall: 0.2.0 blockdiag: 2.0.1 certifi: 2020.6.20 chardet: 3.0.4 ChimeraX-AddH: 2.1.3 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.1 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.6.1 ChimeraX-AtomSearch: 2.0 ChimeraX-AxesPlanes: 2.0 ChimeraX-BasicActions: 1.1 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 1.0.1 ChimeraX-BondRot: 2.0 ChimeraX-BugReporter: 1.0 ChimeraX-BuildStructure: 2.0 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.0 ChimeraX-ButtonPanel: 1.0 ChimeraX-CageBuilder: 1.0 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.1 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.0 ChimeraX-ColorActions: 1.0 ChimeraX-ColorGlobe: 1.0 ChimeraX-CommandLine: 1.1.3 ChimeraX-ConnectStructure: 2.0 ChimeraX-Contacts: 1.0 ChimeraX-Core: 1.1 ChimeraX-CoreFormats: 1.0 ChimeraX-coulombic: 1.0.1 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-DataFormats: 1.0 ChimeraX-Dicom: 1.0 ChimeraX-DistMonitor: 1.1 ChimeraX-DistUI: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0 ChimeraX-FunctionKey: 1.0 ChimeraX-Geometry: 1.1 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.0 ChimeraX-Hbonds: 2.0 ChimeraX-Help: 1.0 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.0 ChimeraX-ImageFormats: 1.0 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0 ChimeraX-Label: 1.0 ChimeraX-ListInfo: 1.0 ChimeraX-Log: 1.1.1 ChimeraX-LookingGlass: 1.1 ChimeraX-Map: 1.0.1 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.0 ChimeraX-Markers: 1.0 ChimeraX-Mask: 1.0 ChimeraX-MatchMaker: 1.1 ChimeraX-MDcrds: 2.0 ChimeraX-MedicalToolbar: 1.0.1 ChimeraX-Meeting: 1.0 ChimeraX-MLP: 1.0 ChimeraX-mmCIF: 2.2 ChimeraX-MMTF: 2.0 ChimeraX-Modeller: 1.0 ChimeraX-ModelPanel: 1.0 ChimeraX-ModelSeries: 1.0 ChimeraX-Mol2: 2.0 ChimeraX-Morph: 1.0 ChimeraX-MouseModes: 1.0 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0 ChimeraX-OpenCommand: 1.2.1 ChimeraX-PDB: 2.1 ChimeraX-PDBBio: 1.0 ChimeraX-PickBlobs: 1.0 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.0 ChimeraX-PubChem: 2.0 ChimeraX-Read-Pbonds: 1.0 ChimeraX-Registration: 1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-ResidueFit: 1.0 ChimeraX-RestServer: 1.0 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.2 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SeqView: 2.2 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0 ChimeraX-Shortcuts: 1.0 ChimeraX-ShowAttr: 1.0 ChimeraX-ShowSequences: 1.0 ChimeraX-SideView: 1.0 ChimeraX-Smiles: 2.0 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.0.4 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-Struts: 1.0 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0 ChimeraX-SwapRes: 2.0 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.0 ChimeraX-ToolshedUtils: 1.0 ChimeraX-Tug: 1.0 ChimeraX-UI: 1.2.3 ChimeraX-uniprot: 2.0 ChimeraX-ViewDockX: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0 ChimeraX-WebServices: 1.0 ChimeraX-Zone: 1.0 colorama: 0.4.3 comtypes: 1.1.7 cxservices: 1.0 cycler: 0.10.0 Cython: 0.29.20 decorator: 4.4.2 distlib: 0.3.1 docutils: 0.16 filelock: 3.0.12 funcparserlib: 0.3.6 gdcm: 2.8.8 grako: 3.16.5 h5py: 2.10.0 html2text: 2020.1.16 idna: 2.10 ihm: 0.16 imagecodecs: 2020.5.30 imagecodecs-lite: 2020.1.31 imagesize: 1.2.0 ipykernel: 5.3.0 ipython: 7.15.0 ipython-genutils: 0.2.0 jedi: 0.17.2 Jinja2: 2.11.2 jupyter-client: 6.1.3 jupyter-core: 4.6.3 kiwisolver: 1.2.0 line-profiler: 2.1.2 lxml: 4.5.1 MarkupSafe: 1.1.1 matplotlib: 3.2.1 MolecularDynamicsViewer: 1.1 msgpack: 1.0.0 netifaces: 0.10.9 networkx: 2.4 numexpr: 2.7.1 numpy: 1.18.5+mkl numpydoc: 1.0.0 openvr: 1.12.501 packaging: 20.4 parso: 0.7.1 pickleshare: 0.7.5 Pillow: 7.1.2 pip: 20.2.2 pkginfo: 1.5.0.1 prompt-toolkit: 3.0.7 psutil: 5.7.0 pycollada: 0.7.1 pydicom: 2.0.0 Pygments: 2.6.1 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 2.4.7 PyQt5-commercial: 5.12.3 PyQt5-sip: 4.19.19 PyQtWebEngine-commercial: 5.12.1 python-dateutil: 2.8.1 pytz: 2020.1 pywin32: 228 pyzmq: 19.0.2 qtconsole: 4.7.4 QtPy: 1.9.0 RandomWords: 0.3.0 requests: 2.24.0 scipy: 1.4.1 Send2Trash: 1.5.0 SEQCROW: 0.25.2 setuptools: 49.4.0 sfftk-rw: 0.6.6.dev0 six: 1.15.0 snowballstemmer: 2.0.0 sortedcontainers: 2.2.2 Sphinx: 3.1.1 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 2.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 1.0.3 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.4 suds-jurko: 0.6 tables: 3.6.1 tifffile: 2020.6.3 tinyarray: 1.2.2 tornado: 6.0.4 traitlets: 5.0.4 urllib3: 1.25.10 wcwidth: 0.2.5 webcolors: 1.11.1 wheel: 0.34.2 WMI: 1.5.1 }}} " defect closed normal Core can't reproduce Eric Pettersen all ChimeraX