id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 6150 ISOLDE symmetry handler: Spgr_descr: No such HM symbol mks131@… Tristan Croll "{{{ The following bug report has been submitted: Platform: Darwin-19.6.0-x86_64-i386-64bit ChimeraX Version: 1.1.1 (2020-10-07 08:32:49 UTC) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 1.1.1 (2020-10-07) © 2016-2020 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/ubcg90c/Downloads/cryosparc_P208_J2848_007_volume_map_sharp.mrc Opened cryosparc_P208_J2848_007_volume_map_sharp.mrc, grid size 282,282,282, pixel 1.3, shown at level 0.228, step 2, values float32 > volume #1 level 0.351 > volume #1 step 1 > volume #1 level 0.4011 > volume #1 level 0.2342 > open > /Users/ubcg90c/Downloads/6ipu_align_Lin28b_extraDNAbuild_relativealign_J2708_P1.pdb Chain information for 6ipu_align_Lin28b_extraDNAbuild_relativealign_J2708_P1.pdb #2 --- Chain | Description A E | No description available B | No description available C G | No description available D H | No description available F | No description available I | No description available J | No description available > open > /Users/ubcg90c/Downloads/6ipu_align_Lin28b_extraDNAbuild_relativealign_J2708_P1.pdb Chain information for 6ipu_align_Lin28b_extraDNAbuild_relativealign_J2708_P1.pdb #3 --- Chain | Description A E | No description available B | No description available C G | No description available D H | No description available F | No description available I | No description available J | No description available > open > /Users/ubcg90c/Downloads/cryosparc_P208_J2708_007_volume_map_sharp-2.mrc Opened cryosparc_P208_J2708_007_volume_map_sharp-2.mrc, grid size 286,286,286, pixel 1.3, shown at level 0.182, step 2, values float32 > open > /Users/ubcg90c/Desktop/Tf_new_data/RealSpaceRefine_237/6ipu_align_Lin28b_extraDNAbuild_relativealign_J2708_P1_real_space_refined.cif Summary of feedback from opening /Users/ubcg90c/Desktop/Tf_new_data/RealSpaceRefine_237/6ipu_align_Lin28b_extraDNAbuild_relativealign_J2708_P1_real_space_refined.cif --- warnings | Skipping chem_comp category: Missing column 'type' near line 917 Missing entity information. Treating each chain as a separate entity. Unable to infer polymer connectivity due to unspecified label_seq_id for residue ""DA"" near line 7080 Missing first residue in struct_conn ""C00001"" Missing first residue in struct_conn ""C00002"" Missing first residue in struct_conn ""C00003"" Missing first residue in struct_conn ""C00004"" Missing first residue in struct_conn ""C00005"" 6 messages similar to the above omitted Missing second residue in struct_conn ""C00012"" Missing first residue in struct_conn ""C00013"" Missing first residue in struct_conn ""C00014"" Missing first residue in struct_conn ""C00015"" Missing first residue in struct_conn ""C00016"" Missing first residue in struct_conn ""C00017"" 12 messages similar to the above omitted Missing second residue in struct_conn ""C00030"" Missing first residue in struct_conn ""C00031"" Missing first residue in struct_conn ""C00032"" Missing first residue in struct_conn ""C00033"" Missing first residue in struct_conn ""C00034"" Missing first residue in struct_conn ""C00035"" 16 messages similar to the above omitted Missing second residue in struct_conn ""C00052"" Missing first residue in struct_conn ""C00053"" Missing first residue in struct_conn ""C00054"" Missing first residue in struct_conn ""C00055"" Missing first residue in struct_conn ""C00056"" Missing first residue in struct_conn ""C00057"" 32 messages similar to the above omitted Missing second residue in struct_conn ""C00090"" Missing first residue in struct_conn ""C00091"" Missing first residue in struct_conn ""C00092"" Missing first residue in struct_conn ""C00093"" Missing first residue in struct_conn ""C00094"" Missing first residue in struct_conn ""C00095"" 4 messages similar to the above omitted Missing second residue in struct_conn ""C00100"" Missing first residue in struct_conn ""C00101"" Missing first residue in struct_conn ""C00102"" Missing first residue in struct_conn ""C00103"" Missing first residue in struct_conn ""C00104"" Missing first residue in struct_conn ""C00105"" 2 messages similar to the above omitted Missing second residue in struct_conn ""C00108"" Missing first residue in struct_conn ""C00109"" Missing first residue in struct_conn ""C00110"" Missing first residue in struct_conn ""C00111"" Missing first residue in struct_conn ""C00112"" Missing first residue in struct_conn ""C00113"" 26 messages similar to the above omitted Missing second residue in struct_conn ""C00140"" Missing second residue in struct_conn ""C00141"" Missing first residue in struct_conn ""C00142"" Missing first residue in struct_conn ""C00143"" Missing first residue in struct_conn ""C00144"" Missing first residue in struct_conn ""C00145"" Missing first residue in struct_conn ""C00146"" Missing second residue in struct_conn ""C00147"" Missing first residue in struct_conn ""C00148"" Missing first residue in struct_conn ""C00149"" Missing first residue in struct_conn ""C00150"" Missing first residue in struct_conn ""C00151"" Missing first residue in struct_conn ""C00152"" 32 messages similar to the above omitted Missing second residue in struct_conn ""C00185"" Missing first residue in struct_conn ""C00186"" Missing first residue in struct_conn ""C00187"" Missing first residue in struct_conn ""C00188"" Missing first residue in struct_conn ""C00189"" Missing first residue in struct_conn ""C00190"" 14 messages similar to the above omitted Missing second residue in struct_conn ""C00205"" Missing first residue in struct_conn ""C00206"" Missing first residue in struct_conn ""C00207"" Missing first residue in struct_conn ""C00208"" Missing first residue in struct_conn ""C00209"" Missing first residue in struct_conn ""C00210"" 18 messages similar to the above omitted Missing second residue in struct_conn ""C00229"" Missing first residue in struct_conn ""C00230"" Missing first residue in struct_conn ""C00231"" Missing first residue in struct_conn ""C00232"" Missing first residue in struct_conn ""C00233"" Missing first residue in struct_conn ""C00234"" 30 messages similar to the above omitted Missing second residue in struct_conn ""C00265"" Missing first residue in struct_conn ""C00266"" Missing first residue in struct_conn ""C00267"" Missing first residue in struct_conn ""C00268"" Missing first residue in struct_conn ""C00269"" Missing first residue in struct_conn ""C00270"" 3 messages similar to the above omitted Missing second residue in struct_conn ""C00274"" Missing first residue in struct_conn ""C00275"" Missing first residue in struct_conn ""C00276"" Missing first residue in struct_conn ""C00277"" Missing first residue in struct_conn ""C00278"" Missing first residue in struct_conn ""C00279"" 2 messages similar to the above omitted Missing second residue in struct_conn ""C00282"" Missing first residue in struct_conn ""C00283"" Missing first residue in struct_conn ""C00284"" Missing first residue in struct_conn ""C00285"" Missing first residue in struct_conn ""C00286"" Missing first residue in struct_conn ""C00287"" 28 messages similar to the above omitted Missing second residue in struct_conn ""C00316"" Missing second residue in struct_conn ""C00317"" Missing first residue in struct_conn ""C00318"" Missing first residue in struct_conn ""C00319"" Missing first residue in struct_conn ""C00320"" Missing first residue in struct_conn ""C00321"" Missing first residue in struct_conn ""C00322"" Missing second residue in struct_conn ""C00323"" Missing first residue in struct_conn ""C00324"" Missing first residue in struct_conn ""C00325"" Missing first residue in struct_conn ""C00326"" Missing first residue in struct_conn ""C00327"" Missing first residue in struct_conn ""C00328"" 354 messages similar to the above omitted Bad residue range for struct_conf ""4"" near line 105 Bad residue range for struct_conf ""8"" near line 109 Bad residue range for struct_conf ""17"" near line 118 Bad residue range for struct_conf ""21"" near line 122 Bad residue range for struct_conf ""31"" near line 132 1 messages similar to the above omitted Missing or incomplete entity_poly_seq table. Inferred polymer connectivity. Chain information for 6ipu_align_Lin28b_extraDNAbuild_relativealign_J2708_P1_real_space_refined.cif #5 --- Chain | Description A E | No description available B | No description available C G | No description available D H | No description available F | No description available > hide #5 models > show #!4 models > hide #!4 models > show #5 models > show #!4 models > hide #5 models > hide #!4 models > show #5 models > hide #3 models > hide #2 models > show #!4 models > hide #!4 models > show #3 models > hide #3 models > show #3 models > hide #3 models > show #3 models > open /Users/ubcg90c/Downloads/P208_J2708_07_new.mrc Opened P208_J2708_07_new.mrc, grid size 286,286,286, pixel 1.3, shown at level 0.182, step 2, values float32 > volume #6 level 0.3206 Drag select of 489 atoms, 223 bonds, 6 P208_J2708_07_new.mrc > select #3/J:72@O3' 1 atom, 1 residue, 1 model selected Drag select of 9 atoms, 3 bonds, 6 P208_J2708_07_new.mrc Drag select of 731 atoms, 384 bonds, 6 P208_J2708_07_new.mrc > nucleotides sel ladder > rainbow sel > nucleotides sel atoms > style nucleic & sel stick Changed 353 atom styles > hide sel surfaces > ui tool show ISOLDE > set selectionWidth 4 Traceback (most recent call last): File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/toolshed/info.py"", line 531, in start_tool ti = api._api_caller.start_tool(api, session, self, tool_info) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/toolshed/__init__.py"", line 1253, in start_tool return cls._get_func(api, ""start_tool"")(session, ti.name) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/__init__.py"", line 139, in start_tool return tools.get_singleton(session, ISOLDE_ToolUI, 'ISOLDE', create=True) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/tools.py"", line 193, in get_singleton tinst = tool_class(session, tool_name, **kw) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/tool.py"", line 186, in __init__ self.isolde = isolde.Isolde(self) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/isolde.py"", line 312, in __init__ self._start_gui(gui) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/isolde.py"", line 456, in _start_gui self._populate_menus_and_update_params() File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/isolde.py"", line 559, in _populate_menus_and_update_params self._update_model_list(None, None, force=True) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/isolde.py"", line 1027, in _update_model_list self._change_selected_model(model=current_model) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/isolde.py"", line 2486, in _change_selected_model sh = get_symmetry_handler(m, create=True, auto_add_to_session=True) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 159, in get_symmetry_handler sh = _get_symmetry_handler(structure, create) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 170, in _get_symmetry_handler return SymmetryManager(structure.session, model=structure) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 573, in __init__ spotlight_mode=spotlight_mode) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 601, in add_model self.cell, self.spacegroup, self.grid, self.resolution, self._has_symmetry = f(*args) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 202, in symmetry_from_model_metadata return symmetry_from_model_metadata_pdb(model) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 447, in symmetry_from_model_metadata_pdb spgr_descr = Spgr_descr(symstr, symstr_type) RuntimeError: Spgr_descr: No such HM symbol During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/ui/gui.py"", line 1501, in run(ses, ""ui tool show %s"" % StringArg.unparse(tool_name))) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/commands/run.py"", line 31, in run results = command.run(text, log=log) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/commands/cli.py"", line 2805, in run result = ci.function(session, **kw_args) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/ui/cmd.py"", line 187, in ui_tool_show bi.start_tool(session, name) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/toolshed/info.py"", line 537, in start_tool ""start_tool() failed for tool %s in bundle %s:\n%s"" % (tool_name, self.name, str(e))) chimerax.core.toolshed.ToolshedError: start_tool() failed for tool ISOLDE in bundle ChimeraX-ISOLDE: Spgr_descr: No such HM symbol chimerax.core.toolshed.ToolshedError: start_tool() failed for tool ISOLDE in bundle ChimeraX-ISOLDE: Spgr_descr: No such HM symbol File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/toolshed/info.py"", line 537, in start_tool ""start_tool() failed for tool %s in bundle %s:\n%s"" % (tool_name, self.name, str(e))) See log for complete Python traceback. 'ISOLDE_ToolUI' object has no attribute 'isolde' > ui tool show ISOLDE > set selectionWidth 4 Traceback (most recent call last): File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/toolshed/info.py"", line 531, in start_tool ti = api._api_caller.start_tool(api, session, self, tool_info) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/toolshed/__init__.py"", line 1253, in start_tool return cls._get_func(api, ""start_tool"")(session, ti.name) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/__init__.py"", line 139, in start_tool return tools.get_singleton(session, ISOLDE_ToolUI, 'ISOLDE', create=True) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/tools.py"", line 193, in get_singleton tinst = tool_class(session, tool_name, **kw) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/tool.py"", line 186, in __init__ self.isolde = isolde.Isolde(self) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/isolde.py"", line 312, in __init__ self._start_gui(gui) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/isolde.py"", line 456, in _start_gui self._populate_menus_and_update_params() File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/isolde.py"", line 559, in _populate_menus_and_update_params self._update_model_list(None, None, force=True) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/isolde.py"", line 1027, in _update_model_list self._change_selected_model(model=current_model) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/isolde/isolde.py"", line 2486, in _change_selected_model sh = get_symmetry_handler(m, create=True, auto_add_to_session=True) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 159, in get_symmetry_handler sh = _get_symmetry_handler(structure, create) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 170, in _get_symmetry_handler return SymmetryManager(structure.session, model=structure) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 573, in __init__ spotlight_mode=spotlight_mode) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 601, in add_model self.cell, self.spacegroup, self.grid, self.resolution, self._has_symmetry = f(*args) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 202, in symmetry_from_model_metadata return symmetry_from_model_metadata_pdb(model) File ""/Users/ubcg90c/Library/Application Support/ChimeraX/1.1/site- packages/chimerax/clipper/symmetry.py"", line 447, in symmetry_from_model_metadata_pdb spgr_descr = Spgr_descr(symstr, symstr_type) RuntimeError: Spgr_descr: No such HM symbol During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/ui/gui.py"", line 1501, in run(ses, ""ui tool show %s"" % StringArg.unparse(tool_name))) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/commands/run.py"", line 31, in run results = command.run(text, log=log) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/commands/cli.py"", line 2805, in run result = ci.function(session, **kw_args) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/ui/cmd.py"", line 187, in ui_tool_show bi.start_tool(session, name) File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/toolshed/info.py"", line 537, in start_tool ""start_tool() failed for tool %s in bundle %s:\n%s"" % (tool_name, self.name, str(e))) chimerax.core.toolshed.ToolshedError: start_tool() failed for tool ISOLDE in bundle ChimeraX-ISOLDE: Spgr_descr: No such HM symbol chimerax.core.toolshed.ToolshedError: start_tool() failed for tool ISOLDE in bundle ChimeraX-ISOLDE: Spgr_descr: No such HM symbol File ""/Applications/ChimeraX-1.1.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/toolshed/info.py"", line 537, in start_tool ""start_tool() failed for tool %s in bundle %s:\n%s"" % (tool_name, self.name, str(e))) See log for complete Python traceback. OpenGL version: 4.1 ATI-3.10.23 OpenGL renderer: AMD Radeon Pro 5500M OpenGL Engine OpenGL vendor: ATI Technologies Inc.Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro16,1 Processor Name: 8-Core Intel Core i9 Processor Speed: 2.3 GHz Number of Processors: 1 Total Number of Cores: 8 L2 Cache (per Core): 256 KB L3 Cache: 16 MB Hyper-Threading Technology: Enabled Memory: 32 GB Boot ROM Version: 1715.81.2.0.0 (iBridge: 19.16.10744.0.0,0) Software: System Software Overview: System Version: macOS 10.15.7 (19H1713) Kernel Version: Darwin 19.6.0 Time since boot: 11 days 18:52 Graphics/Displays: Intel UHD Graphics 630: Chipset Model: Intel UHD Graphics 630 Type: GPU Bus: Built-In VRAM (Dynamic, Max): 1536 MB Vendor: Intel Device ID: 0x3e9b Revision ID: 0x0002 Automatic Graphics Switching: Supported gMux Version: 5.0.0 Metal: Supported, feature set macOS GPUFamily2 v1 AMD Radeon Pro 5500M: Chipset Model: AMD Radeon Pro 5500M Type: GPU Bus: PCIe PCIe Lane Width: x8 VRAM (Total): 4 GB Vendor: AMD (0x1002) Device ID: 0x7340 Revision ID: 0x0040 ROM Revision: 113-D3220E-190 VBIOS Version: 113-D32206U1-019 Option ROM Version: 113-D32206U1-019 EFI Driver Version: 01.A1.190 Automatic Graphics Switching: Supported gMux Version: 5.0.0 Metal: Supported, feature set macOS GPUFamily2 v1 Displays: Color LCD: Display Type: Built-In Retina LCD Resolution: 3072 x 1920 Retina Framebuffer Depth: 24-Bit Color (ARGB8888) Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: No Connection Type: Internal 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 appnope: 0.1.0 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-Clipper: 0.15.0 ChimeraX-ColorActions: 1.0 ChimeraX-ColorGlobe: 1.0 ChimeraX-CommandLine: 1.1.3 ChimeraX-ConnectStructure: 2.0 ChimeraX-Contacts: 1.0 ChimeraX-Core: 1.1.1 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-ISOLDE: 1.1.0 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 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 msgpack: 1.0.0 netifaces: 0.10.9 networkx: 2.4 numexpr: 2.7.1 numpy: 1.18.5 numpydoc: 1.0.0 openvr: 1.12.501 packaging: 20.4 ParmEd: 3.2.0 parso: 0.7.1 pexpect: 4.8.0 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 ptyprocess: 0.6.0 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 pyzmq: 19.0.2 qtconsole: 4.7.4 QtPy: 1.9.0 RandomWords: 0.3.0 requests: 2.24.0 scipy: 1.4.1 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 versioneer: 0.20 wcwidth: 0.2.5 webcolors: 1.11.1 wheel: 0.34.2 }}} " defect closed normal Third Party duplicate all ChimeraX