id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 15331 Pbond command aschedlbauer@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: Linux-4.18.0-348.2.1.el8_5.x86_64-x86_64-with-glibc2.28 ChimeraX Version: 1.7.1 (2024-01-23 01:58:08 UTC) Description pbond not working 'unknown command' example: pbond #1/A:1601@CL01 #1/A:796@O2' output: 'unknown command: pbond' I could not find any bug report online, any idea? (https://www.cgl.ucsf.edu/chimerax/docs/user/commands/pbond.html) Log: Startup Messages --- warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with that from NMRSTAR bundle You can double click a model's Name or ID in the model panel to edit those fields UCSF ChimeraX version: 1.7.1 (2024-01-23) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open complex3_body_J266.pdb Chain information for complex3_body_J266.pdb #1 --- Chain | Description A | No description available D | No description available E | No description available F | No description available H | No description available K | No description available L | No description available O | No description available P | No description available Q | No description available R | No description available T | No description available U | No description available > set bgColor white > style stick Changed 35257 atom styles > view #1:1601 > lighting soft > view #1:1601 > ui tool show ""Side View"" > select #1:1601 45 atoms, 46 bonds, 2 residues, 1 model selected > show #1:1601 > show #1:@A:1601 Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models', 'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword > show #1@A:1601 > show #1@2:32 > getcrd #1@2:32 Atom /1:32@O 237.408 213.349 161.516 Atom /2:32@K 224.948 251.118 179.276 Atom /3:32@MG 229.135 183.751 117.370 Atom /A:32@P 188.564 200.971 133.396 Atom /A:32@OP1 187.122 200.867 133.725 Atom /A:32@OP2 188.999 201.043 131.980 Atom /A:32@O5' 189.149 202.241 134.154 Atom /A:32@C5' 188.346 202.971 135.063 Atom /A:32@C4' 188.961 203.027 136.437 Atom /A:32@O4' 190.344 203.457 136.343 Atom /A:32@C3' 188.318 204.019 137.390 Atom /A:32@O3' 187.174 203.482 138.029 Atom /A:32@C2' 189.451 204.361 138.347 Atom /A:32@O2' 189.604 203.344 139.325 Atom /A:32@C1' 190.660 204.317 137.414 Atom /A:32@N9 190.999 205.636 136.844 Atom /A:32@C8 191.208 205.871 135.510 Atom /A:32@N7 191.509 207.107 135.222 Atom /A:32@C5 191.505 207.736 136.453 Atom /A:32@C6 191.755 209.066 136.808 Atom /A:32@N6 192.057 210.008 135.918 Atom /A:32@N1 191.679 209.395 138.111 Atom /A:32@C2 191.372 208.440 138.998 Atom /A:32@N3 191.117 207.149 138.780 Atom /A:32@C4 191.200 206.850 137.470 Atom /D:32@N 180.817 240.501 105.792 Atom /D:32@CA 181.191 240.810 107.167 Atom /D:32@C 182.502 241.580 107.155 Atom /D:32@O 183.224 241.609 106.155 Atom /D:32@CB 181.326 239.544 108.022 Atom /D:32@SG 182.811 238.568 107.672 Atom /E:32@N 217.710 249.380 132.915 Atom /E:32@CA 218.206 249.348 131.556 Atom /E:32@C 217.785 248.035 130.916 Atom /E:32@O 217.361 247.093 131.594 Atom /E:32@CB 219.715 249.519 131.527 Atom /E:32@OG 220.211 248.861 130.398 Atom /F:32@N 293.332 201.478 176.475 Atom /F:32@CA 292.329 200.882 175.606 Atom /F:32@C 292.752 200.795 174.138 Atom /F:32@O 291.886 200.544 173.296 Atom /F:32@CB 291.023 201.666 175.714 Atom /H:32@N 252.737 197.125 119.519 Atom /H:32@CA 251.368 197.621 119.382 Atom /H:32@C 251.375 199.100 119.039 Atom /H:32@O 250.594 199.561 118.195 Atom /H:32@CB 250.565 197.379 120.665 Atom /H:32@CG 249.089 197.814 120.678 Atom /H:32@CD1 248.353 197.164 119.519 Atom /H:32@CD2 248.398 197.477 121.993 Atom /K:32@N 263.961 256.178 191.551 Atom /K:32@CA 265.383 256.504 191.472 Atom /K:32@C 265.986 256.284 192.852 Atom /K:32@O 265.536 256.893 193.831 Atom /K:32@CB 265.613 257.951 191.008 Atom /K:32@CG1 267.016 258.114 190.440 Atom /K:32@CG2 264.555 258.367 189.999 Atom /L:32@N 186.162 210.248 155.158 Atom /L:32@CA 186.491 210.439 156.549 Atom /L:32@C 185.444 211.230 157.305 Atom /L:32@O 184.600 211.921 156.727 Atom /O:32@N 267.531 192.065 155.324 Atom /O:32@CA 266.366 192.583 156.036 Atom /O:32@C 266.180 191.872 157.370 Atom /O:32@O 265.909 192.512 158.396 Atom /O:32@CB 265.114 192.456 155.168 Atom /O:32@CG 265.045 193.469 154.025 Atom /O:32@CD1 263.755 193.373 153.211 Atom /O:32@CD2 265.254 194.889 154.550 Atom /P:32@N 198.399 174.848 121.868 Atom /P:32@CA 198.424 173.865 120.788 Atom /P:32@C 199.848 173.477 120.406 Atom /P:32@O 200.819 174.142 120.775 Atom /P:32@CB 197.737 174.441 119.542 Atom /P:32@CG 198.328 175.751 119.100 Atom /P:32@CD1 199.340 175.790 118.161 Atom /P:32@CD2 197.902 176.943 119.661 Atom /P:32@CE1 199.909 176.999 117.781 Atom /P:32@CE2 198.464 178.152 119.275 Atom /P:32@CZ 199.466 178.175 118.331 Atom /Q:32@N 226.463 193.220 132.924 Atom /Q:32@CA 225.277 193.625 132.150 Atom /Q:32@C 225.067 195.128 132.063 Atom /Q:32@O 224.472 195.584 131.080 Atom /Q:32@CB 224.111 192.975 132.906 Atom /Q:32@CG 224.706 192.026 133.837 Atom /Q:32@CD 226.085 192.480 134.140 Atom /R:32@N 281.339 237.936 164.404 Atom /R:32@CA 279.942 237.606 164.156 Atom /R:32@C 279.066 237.779 165.387 Atom /R:32@O 277.921 237.306 165.392 Atom /R:32@CB 279.836 236.178 163.619 Atom /R:32@CG 280.630 235.995 162.354 Atom /R:32@CD1 280.171 236.509 161.151 Atom /R:32@CD2 281.847 235.330 162.361 Atom /R:32@CE1 280.893 236.358 159.991 Atom /R:32@CE2 282.578 235.172 161.202 Atom /R:32@CZ 282.095 235.689 160.019 Atom /R:32@OH 282.812 235.541 158.854 Atom /T:32@N 207.228 138.037 150.288 Atom /T:32@CA 208.562 138.641 150.231 Atom /T:32@C 209.317 138.379 151.531 Atom /T:32@O 210.499 137.997 151.533 Atom /T:32@CB 208.458 140.150 149.947 Atom /T:32@CG1 207.761 140.398 148.611 Atom /T:32@CG2 209.836 140.802 149.996 Atom /T:32@CD1 208.424 139.729 147.453 Atom /U:32@N 261.487 243.871 175.323 Atom /U:32@CA 260.667 243.952 176.528 Atom /U:32@C 259.207 244.194 176.166 Atom /U:32@O 258.305 243.520 176.675 Atom /U:32@CB 261.203 245.043 177.471 Atom /U:32@CG1 260.171 245.386 178.533 Atom /U:32@CG2 262.498 244.588 178.119 > view #1:1601 > view #1:1498 [Repeated 1 time(s)] > view #1:1601 > lighting full > lighting soft > lighting flat > lighting shadows true intensity 0.5 > lighting shadows false > graphics silhouettes false > lighting flat > lighting soft > ui mousemode right ""tape measure"" > ui mousemode right select > select /A:1601@C15 1 atom, 1 residue, 1 model selected > select /A:1601@C21 1 atom, 1 residue, 1 model selected > select add /A:1601@N07 2 atoms, 1 residue, 1 model selected > select add /A:1601@C22 3 atoms, 1 residue, 1 model selected > select add /A:1601@N06 4 atoms, 1 residue, 1 model selected > select add /A:1601@C15 5 atoms, 1 residue, 1 model selected > ui mousemode right ""mark center"" > measure center sel mark true radius 0.3 color cyan Center of mass of 5 atoms = (234.22, 253.66, 181.10) > hide #2 models > show #2 models > ui mousemode right select > select clear > select #1/A:693@N1 1 atom, 1 residue, 1 model selected > select #1/A:693@C6 1 atom, 1 residue, 1 model selected > select #1/A:693@N1 1 atom, 1 residue, 1 model selected > select add #1/A:693@C6 2 atoms, 1 residue, 1 model selected > select add #1/A:693@C5 3 atoms, 1 residue, 1 model selected > select add #1/A:693@C4 4 atoms, 1 residue, 1 model selected > select add #1/A:693@N3 5 atoms, 1 residue, 1 model selected > select add #1/A:693@C2 6 atoms, 1 residue, 1 model selected > measure center sel mark true radius 0.3 color cyan Center of mass of 6 atoms = (237.23, 254.53, 183.02) > select clear [Repeated 1 time(s)] > select add #1/A:1601@C23 1 atom, 1 residue, 1 model selected > select add #1/A:1601@C19 2 atoms, 1 residue, 1 model selected > select add #1/A:1601@N08 3 atoms, 1 residue, 1 model selected > select add #1/A:1601@C24 4 atoms, 1 residue, 1 model selected > select add #1/A:1601@N09 5 atoms, 1 residue, 1 model selected > ui mousemode right ""mark center"" > marker #2 position 239.3,249.7,177.6 color yellow radius 1 > hide #3 models > show #3 models > hide #2 models > show #2 models > ui mousemode right ""delete markers"" > marker delete #2:2 > ui mousemode right select > select #2/M:1@M 1 atom, 1 residue, 1 model selected > select add #3/M:1@M 2 atoms, 2 residues, 2 models selected > select clear > select #2/M:1 1 atom, 1 residue, 1 model selected > ui mousemode right ""delete markers"" > distance #2/M:1 #3/M:1 Distance between complex3_body_J266.pdb center 5 atoms #2/M mark 1 M and complex3_body_J266.pdb center 6 atoms #3/M mark 1 M: 3.673Å > hide #3 models > show #3 models > hide #4.1 models > hide #!4 models > show #!4 models > hide #2 models > show #2 models > distance style #2,3/M color grey > distance style color grey > distance style #2,3/M color grey70 Invalid ""color"" argument: Invalid color name or specifier > color #4 #d3d7cfff models > color #4 #888a85ff models > color #4 #babdb6ff models > color #4 #888a85ff models > marker change #2/M:1 markers false > marker change #2/M:1 radius 0.0 Traceback (most recent call last): File ""/usr/libexec/UCSF-ChimeraX/lib/python3.11/site- packages/chimerax/cmd_line/tool.py"", line 319, in execute cmd.run(cmd_text) File ""/usr/libexec/UCSF-ChimeraX/lib/python3.11/site- packages/chimerax/core/commands/cli.py"", line 2908, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/usr/libexec/UCSF-ChimeraX/lib/python3.11/site- packages/chimerax/markers/cmd.py"", line 74, in marker_change m.radius = radius ^^^^^^^^ File ""atomic_cpp/cymol.pyx"", line 467, in chimerax.atomic.cymol.CyAtom.radius.__set__ RuntimeError: radius must be positive RuntimeError: radius must be positive File ""atomic_cpp/cymol.pyx"", line 467, in chimerax.atomic.cymol.CyAtom.radius.__set__ See log for complete Python traceback. > marker change #2/M:1 radius 0.01 > marker change #2,3/M:1 radius 0.01 > marker change #2,3/M:1 radius 0.001 > ui mousemode right select > select #1/A:1601@C23 1 atom, 1 residue, 1 model selected > select add #1/A:1601@C19 2 atoms, 1 residue, 1 model selected > select add #1/A:1601@N08 3 atoms, 1 residue, 1 model selected > select add #1/A:1601@C24 4 atoms, 1 residue, 1 model selected > select add #1/A:1601@N09 5 atoms, 1 residue, 1 model selected > measure center sel mark true radius 0.3 color cyan modelId 4 Center of mass of 5 atoms = (240.16, 250.14, 177.78) Traceback (most recent call last): File ""/usr/libexec/UCSF-ChimeraX/lib/python3.11/site- packages/chimerax/cmd_line/tool.py"", line 319, in execute cmd.run(cmd_text) File ""/usr/libexec/UCSF-ChimeraX/lib/python3.11/site- packages/chimerax/core/commands/cli.py"", line 2908, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/usr/libexec/UCSF-ChimeraX/lib/python3.11/site- packages/chimerax/std_commands/measure_center.py"", line 68, in measure_center place_marker(session, xyz, rgba, r, mname, model_id) File ""/usr/libexec/UCSF-ChimeraX/lib/python3.11/site- packages/chimerax/std_commands/measure_center.py"", line 157, in place_marker session.models.add([mset]) File ""/usr/libexec/UCSF-ChimeraX/lib/python3.11/site- packages/chimerax/core/models.py"", line 733, in add p = self._parent_for_added_model(model, parent, root_model = root_model) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""/usr/libexec/UCSF-ChimeraX/lib/python3.11/site- packages/chimerax/core/models.py"", line 802, in _parent_for_added_model raise ValueError('Tried to add model %s with the same id as another model %s' ValueError: Tried to add model complex3_body_J266.pdb center 5 atoms #4 with the same id as another model distances #4 ValueError: Tried to add model complex3_body_J266.pdb center 5 atoms #4 with the same id as another model distances #4 File ""/usr/libexec/UCSF-ChimeraX/lib/python3.11/site- packages/chimerax/core/models.py"", line 802, in _parent_for_added_model raise ValueError('Tried to add model %s with the same id as another model %s' See log for complete Python traceback. > measure center sel mark true radius 0.3 color cyan modelId 5 Center of mass of 5 atoms = (240.16, 250.14, 177.78) > measure center sel mark true radius 0.3 color cyan modelId 5 Center of mass of 5 atoms = (240.16, 250.14, 177.78) > distance #2/M:1 #1/K:129@CB Distance between complex3_body_J266.pdb center 5 atoms #2/M mark 1 M and complex3_body_J266.pdb #1/K VAL 129 CB: 11.022Å > hide #!4 models > show #!4 models > distance delete #1/K:129@CB > distance delete #2/M:1 #1/K:129@CB > distance #5/M:1 #1/K:129@CB Distance between complex3_body_J266.pdb center 5 atoms #5/M mark 1 M and complex3_body_J266.pdb #1/K VAL 129 CB: 3.690Å > select clear > select #1/A:1-1543 23172 atoms, 25951 bonds, 1 pseudobond, 1078 residues, 2 models selected > hbonds /A:1601 restrict /A:1-1543 reveal true 4 hydrogen bonds found > ui mousemode right select > select clear > select #1/A:1601@O01 1 atom, 1 residue, 1 model selected > select #1/A:1601@N08 1 atom, 1 residue, 1 model selected > select add #1/A:1601@O01 2 atoms, 1 residue, 1 model selected > distance /A:1601@N08 /A:1601@O01 color yellow radius 0.2 dashes 9 Distance between complex3_body_J266.pdb #1/A GE8 1601 N08 and O01: 2.878Å > distance /A:1601@N08 /A:1601@O01 color yellow radius 0.1 dashes 9 Distance already exists; modify distance properties with 'distance style' > distance style /A:1601@N08 /A:1601@O01 color yellow radius 0.1 dashes 9 > distance style color yellow > distance style /A:1601@N08 /A:1601@O01 color yellow radius 0.1 dashes 6 > distance style dashes 6 > distance /A:1601@CL01 #1/A:796@O2 color yellow radius 0.1 dashes 9 Distance between complex3_body_J266.pdb #1/A GE8 1601 CL01 and C 796 O2: 5.950Å > distance delete /A:1601@CL01 #1/A:796@O2 > distance /A:1601@CL01 #1/A:796@O2' color yellow radius 0.1 dashes 9 Distance between complex3_body_J266.pdb #1/A GE8 1601 CL01 and C 796 O2': 3.630Å > select clear > distance style #5/M:1 #1/K:129@CB color light slate gray > distance style color lightslategrey > hide #!4 models > show #!4 models > distance delete /A:1601@CL01 #1/A:796@O2' > pbond /A:1601@CL01 #1/A:796@O2' reveal true color yellow radius 0.1 dashes 6 Unknown command: pbond /A:1601@CL01 #1/A:796@O2' reveal true color yellow radius 0.1 dashes 6 > pbond /A:1601@CL01 #1/A:796@O2' Unknown command: pbond /A:1601@CL01 #1/A:796@O2' > pbond /A:1601@CL01 #1/A:796@O2' Unknown command: pbond /A:1601@CL01 #1/A:796@O2' > pbond #2/M:1 #1/K:129@CB Unknown command: pbond #2/M:1 #1/K:129@CB > pbond Unknown command: pbond > distance Missing or invalid ""objects"" argument: empty atom specifier > pbond Unknown command: pbond > pbonds Unknown command: pbonds > pbond Unknown command: pbond > pbond Unknown command: pbond > pbond Unknown command: pbond > pbond Unknown command: pbond OpenGL version: 3.3.0 NVIDIA 460.84 OpenGL renderer: Quadro K620/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Python: 3.11.2 Locale: en_US.UTF-8 Qt version: PyQt6 6.3.1, Qt 6.3.1 Qt runtime version: 6.3.2 Qt platform: xcb XDG_SESSION_TYPE=x11 DESKTOP_SESSION=gnome XDG_SESSION_DESKTOP=gnome XDG_CURRENT_DESKTOP=GNOME DISPLAY=:1 Manufacturer: Hewlett-Packard Model: HP Z440 Workstation OS: CentOS Stream 8 Architecture: 64bit ELF Virtual Machine: none CPU: 8 Intel(R) Xeon(R) CPU E5-1620 v3 @ 3.50GHz Cache Size: 10240 KB Memory: total used free shared buff/cache available Mem: 15Gi 11Gi 338Mi 496Mi 3.4Gi 3.0Gi Swap: 7.8Gi 1.4Gi 6.5Gi Graphics: 02:00.0 VGA compatible controller [0300]: NVIDIA Corporation GM107GL [Quadro K620] [10de:13bb] (rev a2) Subsystem: Hewlett-Packard Company Device [103c:1098] Kernel driver in use: nvidia Installed Packages: alabaster: 0.7.16 appdirs: 1.4.4 asttokens: 2.4.1 Babel: 2.14.0 backcall: 0.2.0 beautifulsoup4: 4.11.2 blockdiag: 3.0.0 blosc2: 2.0.0 build: 0.10.0 certifi: 2023.11.17 cftime: 1.6.3 charset-normalizer: 3.3.2 ChimeraX-AddCharge: 1.5.13 ChimeraX-AddH: 2.2.5 ChimeraX-AlignmentAlgorithms: 2.0.1 ChimeraX-AlignmentHdrs: 3.4.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.12.2 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.1.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.49.1 ChimeraX-AtomicLibrary: 12.1.5 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3.2 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.1.2 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.10.5 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.2 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.3.2 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.3.2 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.2.4 ChimeraX-Clipper: 0.22.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.5 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.7.1 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2 ChimeraX-DistMonitor: 1.4 ChimeraX-DockPrep: 1.1.3 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ESMFold: 1.0 ChimeraX-FileHistory: 1.0.1 ChimeraX-FunctionKey: 1.0.1 ChimeraX-Geometry: 1.3 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.2 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ISOLDE: 1.7.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-Label: 1.1.8 ChimeraX-LinuxSupport: 1.0.1 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.1.6 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 ChimeraX-Map: 1.1.4 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0.1 ChimeraX-MapFilter: 2.0.1 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1.1 ChimeraX-Markers: 1.0.1 ChimeraX-Mask: 1.0.2 ChimeraX-MatchMaker: 2.1.2 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.6.1 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.12.1 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.14 ChimeraX-ModelPanel: 1.4 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0.3 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.2 ChimeraX-MouseModes: 1.2 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nifti: 1.1 ChimeraX-NRRD: 1.1 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.13.1 ChimeraX-PDB: 2.7.3 ChimeraX-PDBBio: 1.0.1 ChimeraX-PDBLibrary: 1.0.4 ChimeraX-PDBMatrices: 1.0 ChimeraX-PhenixUI: 1.2.2 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.2 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 4.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.2 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.11 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.2 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.12.4 ChimeraX-STL: 1.0.1 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1.2 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0.1 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.2.2 ChimeraX-TapeMeasure: 1.0 ChimeraX-TaskManager: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.33.3 ChimeraX-uniprot: 2.3 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.3.2 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-vrml: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.2 ChimeraX-WebServices: 1.1.3 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.1 contourpy: 1.2.0 cxservices: 1.2.2 cycler: 0.12.1 Cython: 0.29.33 debugpy: 1.8.0 decorator: 5.1.1 distro: 1.7.0 docutils: 0.19 executing: 2.0.1 filelock: 3.9.0 fonttools: 4.47.2 funcparserlib: 2.0.0a0 glfw: 2.6.4 grako: 3.16.5 h5py: 3.10.0 html2text: 2020.1.16 idna: 3.6 ihm: 0.38 imagecodecs: 2023.9.18 imagesize: 1.4.1 ipykernel: 6.23.2 ipython: 8.14.0 ipython-genutils: 0.2.0 ipywidgets: 8.1.1 jedi: 0.18.2 Jinja2: 3.1.2 jupyter-client: 8.2.0 jupyter-core: 5.7.1 jupyterlab-widgets: 3.0.9 kiwisolver: 1.4.5 line-profiler: 4.0.2 lxml: 4.9.2 lz4: 4.3.2 MarkupSafe: 2.1.4 matplotlib: 3.7.2 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.6.0 netCDF4: 1.6.2 networkx: 3.1 nibabel: 5.0.1 nptyping: 2.5.0 numexpr: 2.8.8 numpy: 1.25.1 openvr: 1.23.701 packaging: 23.2 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pexpect: 4.9.0 pickleshare: 0.7.5 pillow: 10.2.0 pip: 23.0 pkginfo: 1.9.6 platformdirs: 4.1.0 prompt-toolkit: 3.0.43 psutil: 5.9.5 ptyprocess: 0.7.0 pure-eval: 0.2.2 py-cpuinfo: 9.0.0 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.16.1 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.2801 pyparsing: 3.0.9 pyproject-hooks: 1.0.0 PyQt6-commercial: 6.3.1 PyQt6-Qt6: 6.3.2 PyQt6-sip: 13.4.0 PyQt6-WebEngine-commercial: 6.3.1 PyQt6-WebEngine-Qt6: 6.3.2 python-dateutil: 2.8.2 pytz: 2023.3.post1 pyzmq: 25.1.2 qtconsole: 5.4.3 QtPy: 2.4.1 RandomWords: 0.4.0 requests: 2.31.0 scipy: 1.11.1 setuptools: 67.4.0 sfftk-rw: 0.7.3 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.5 sphinx: 6.1.3 sphinx-autodoc-typehints: 1.22 sphinxcontrib-applehelp: 1.0.8 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.6 sphinxcontrib-htmlhelp: 2.0.5 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.7 sphinxcontrib-serializinghtml: 1.1.10 stack-data: 0.6.3 superqt: 0.5.0 tables: 3.8.0 tcia-utils: 1.5.1 tifffile: 2023.7.18 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.4 traitlets: 5.9.0 typing-extensions: 4.9.0 tzdata: 2023.4 urllib3: 2.1.0 wcwidth: 0.2.13 webcolors: 1.12 wheel: 0.38.4 wheel-filename: 1.4.1 widgetsnbextension: 4.0.9 }}} " defect closed normal Structure Editing not a bug all ChimeraX