id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 6915 "Tried to get the position of deleted drawing ""Room camera""" rkrishnan@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.19044 ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC) Description vr on vr roomcamera wanted to select the vrcamera frame and moveit. Log: UCSF ChimeraX version: 1.3 (2021-12-08) © 2016-2021 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""L:\Graphics\GRPHX01\Chimera 1.15rc\bcx4161\bcx4161-7n7x.cxs"" format > session No such file/path: L:\Graphics\GRPHX01\Chimera 1.15rc\bcx4161\bcx4161-7n7x.cxs > open 7n7x format mmcif fromDatabase pdb 7n7x title: Crystal structure of BCX7353(ORLADEYO) in complex with human plasma kallikrein serine protease domain at 2.1 angstrom resolution [more info...] Chain information for 7n7x #1 --- Chain | Description | UniProt AAA | Plasma kallikrein light chain | KLKB1_HUMAN Non-standard residues in 7n7x #1 --- 0RI — Orladeyo (1-[3-(aminomethyl)phenyl]-N-(5-{(R)-[3-(aminomethyl)phenyl][(cyclopropylmethyl)amino]methyl}-2-fluorophenyl)-3-(trifluoromethyl)-1H-pyrazole-5-carboxamide) PO4 — phosphate ion > realsense on realsense is provided by the uninstalled bundle RealSense versions 1.2 – 1.8 > realsense on realsense is provided by the uninstalled bundle RealSense versions 1.2 – 1.8 > vr true started SteamVR rendering > sequence chain #1/AAA Alignment identifier is 1/AAA > view > ui mousemode right select > ui mousemode right zoom > ui mousemode right translate > ui mousemode right rotate > ui mousemode right zoom > ui mousemode right ""rotate selected models"" > preset cartoons/nucleotides ribbons/slabs Changed 0 atom styles Preset expands to these ChimeraX commands: show nucleic hide protein|solvent|H surf hide style (protein|nucleic|solvent) & @@draw_mode=0 stick cartoon cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20 cartoon style ~(nucleic|strand) x round cartoon style (nucleic|strand) x rect nucleotides tube/slab shape box > preset cartoons/nucleotides cylinders/stubs Changed 0 atom styles Preset expands to these ChimeraX commands: show nucleic hide protein|solvent|H surf hide style (protein|nucleic|solvent) & @@draw_mode=0 stick cartoon cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20 cartoon style ~(nucleic|strand) x round cartoon style (nucleic|strand) x rect cartoon style protein modeh tube rad 2 sides 24 thick 0.6 cartoon style nucleic x round width 1.6 thick 1.6 nucleotides stubs > preset ""initial styles"" cartoon Preset implemented in Python; no expansion to individual ChimeraX commands available. > preset ""initial styles"" ""space-filling (chain colors)"" Preset implemented in Python; no expansion to individual ChimeraX commands available. > preset ""molecular surfaces"" ""ghostly white"" Changed 3629 atom styles Preset expands to these ChimeraX commands: style (protein|nucleic|solvent) & @@draw_mode=0 stick surface color white targ s trans 80 > preset ""overall look"" publication Preset expands to these ChimeraX commands: set bg white graphics silhouettes t > preset cartoons/nucleotides ribbons/slabs Changed 0 atom styles Preset expands to these ChimeraX commands: show nucleic hide protein|solvent|H surf hide style (protein|nucleic|solvent) & @@draw_mode=0 stick cartoon cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20 cartoon style ~(nucleic|strand) x round cartoon style (nucleic|strand) x rect nucleotides tube/slab shape box > preset ""initial styles"" ""original look"" Preset implemented in Python; no expansion to individual ChimeraX commands available. > show surfaces > transparency 0 > style ball Changed 3788 atom styles > style sphere Changed 3788 atom styles > style ball Changed 3788 atom styles > color byhetero > color bychain > color bypolymer > coulombic Using Amber 20 recommended default charges and atom types for standard residues Coulombic values for 7n7x_AAA SES surface #1.2: minimum, -16.87, mean 2.07, maximum 17.98 To also show corresponding color key, enter the above coulombic command and add key true > mlp Map values for surface ""7n7x_AAA SES surface"": minimum -26.98, mean -4.04, maximum 27.25 To also show corresponding color key, enter the above mlp command and add key true > style ball Changed 3788 atom styles > select protein 3629 atoms, 3679 bonds, 1 pseudobond, 229 residues, 2 models selected > graphics silhouettes false > lighting shadows true > graphics silhouettes true > lighting full > lighting simple > lighting soft > lighting full > lighting simple > select protein 3629 atoms, 3679 bonds, 1 pseudobond, 229 residues, 2 models selected > select ::name=""0RI"" 67 atoms, 71 bonds, 1 residue, 1 model selected > ui tool show ""Color Actions"" > color sel byhetero > color sel forest green target a > color sel byhetero > color sel gold target a > color sel byhetero > set bgColor blue > set bgColor black > coulombic sel Using Amber 20 recommended default charges and atom types for standard residues Assigning partial charges to residue 0RI (net charge -2) with am1-bcc method Running ANTECHAMBER command: C:/ChimeraX 1.3/bin/amber20/bin/antechamber -ek qm_theory='AM1', -i C:\Users\RKRISH~1\AppData\Local\Temp\tmpt6916ml8\ante.in.mol2 -fi mol2 -o C:\Users\RKRISH~1\AppData\Local\Temp\tmpt6916ml8\ante.out.mol2 -fo mol2 -c bcc -nc -2 -j 5 -s 2 -dr n (0RI) `` (0RI) `Welcome to antechamber 20.0: molecular input file processor.` (0RI) `` (0RI) `Info: Finished reading file (C:\Users\RKRISH~1\AppData\Local\Temp\tmpt6916ml8\ante.in.mol2); atoms read (67), bonds read (71).` (0RI) `Info: Determining atomic numbers from atomic symbols which are case sensitive.` (0RI) `Running: ""C:/ChimeraX 1.3/bin/amber20/bin/bondtype"" -j part -i ANTECHAMBER_BOND_TYPE.AC0 -o ANTECHAMBER_BOND_TYPE.AC -f ac` (0RI) `bash.exe: warning: could not find /tmp, please create!` (0RI) `` (0RI) `` (0RI) `Running: ""C:/ChimeraX 1.3/bin/amber20/bin/atomtype"" -i ANTECHAMBER_AC.AC0 -o ANTECHAMBER_AC.AC -p gaff` (0RI) `bash.exe: warning: could not find /tmp, please create!` (0RI) `Info: Total number of electrons: 294; net charge: -2` (0RI) `` (0RI) `Running: ""C:/ChimeraX 1.3/bin/amber20/bin/sqm"" -O -i sqm.in -o sqm.out` (0RI) `bash.exe: warning: could not find /tmp, please create!` (0RI) `/usr/bin/antechamber: Fatal Error!` (0RI) `Cannot properly run """"C:/ChimeraX 1.3/bin/amber20/bin/sqm"" -O -i sqm.in -o sqm.out"".` Failure running ANTECHAMBER for residue 0RI Check reply log for details > coulombic sel Using Amber 20 recommended default charges and atom types for standard residues Assigning partial charges to residue 0RI (net charge -2) with am1-bcc method Running ANTECHAMBER command: C:/ChimeraX 1.3/bin/amber20/bin/antechamber -ek qm_theory='AM1', -i C:\Users\RKRISH~1\AppData\Local\Temp\tmpst39jaid\ante.in.mol2 -fi mol2 -o C:\Users\RKRISH~1\AppData\Local\Temp\tmpst39jaid\ante.out.mol2 -fo mol2 -c bcc -nc -2 -j 5 -s 2 -dr n (0RI) `` (0RI) `Welcome to antechamber 20.0: molecular input file processor.` (0RI) `` (0RI) `Info: Finished reading file (C:\Users\RKRISH~1\AppData\Local\Temp\tmpst39jaid\ante.in.mol2); atoms read (67), bonds read (71).` (0RI) `Info: Determining atomic numbers from atomic symbols which are case sensitive.` (0RI) `Running: ""C:/ChimeraX 1.3/bin/amber20/bin/bondtype"" -j part -i ANTECHAMBER_BOND_TYPE.AC0 -o ANTECHAMBER_BOND_TYPE.AC -f ac` (0RI) `bash.exe: warning: could not find /tmp, please create!` (0RI) `` (0RI) `` (0RI) `Running: ""C:/ChimeraX 1.3/bin/amber20/bin/atomtype"" -i ANTECHAMBER_AC.AC0 -o ANTECHAMBER_AC.AC -p gaff` (0RI) `bash.exe: warning: could not find /tmp, please create!` (0RI) `Info: Total number of electrons: 294; net charge: -2` (0RI) `` (0RI) `Running: ""C:/ChimeraX 1.3/bin/amber20/bin/sqm"" -O -i sqm.in -o sqm.out` (0RI) `bash.exe: warning: could not find /tmp, please create!` (0RI) `/usr/bin/antechamber: Fatal Error!` (0RI) `Cannot properly run """"C:/ChimeraX 1.3/bin/amber20/bin/sqm"" -O -i sqm.in -o sqm.out"".` Failure running ANTECHAMBER for residue 0RI Check reply log for details > select /AAA 3788 atoms, 3754 bonds, 1 pseudobond, 318 residues, 2 models selected > coulombic sel Coulombic values for 7n7x_AAA SES surface #1.2: minimum, -16.87, mean 2.07, maximum 17.98 To also show corresponding color key, enter the above coulombic command and add key true > hide sel surfaces > show sel surfaces > style sel sphere Changed 3788 atom styles > style sel stick Changed 3788 atom styles > select ::name=""0RI"" 67 atoms, 71 bonds, 1 residue, 1 model selected > style sel ball Changed 67 atom styles > movie record > turn y 2 180 > wait 180 > movie encode C:\Users\rkrishnan\Desktop\movie7.mp4 Movie saved to \C:Users\\...\Desktop\movie7.mp4 > save C:\Users\rkrishnan\Desktop\image3.png supersample 3 > show sel cartoons Color zone shortcut requires 1 displayed atomic model and 1 map, got 1 atomic models, 0 maps. > ui tool show H-Bonds > hbonds sel color #ffffff distSlop 0.8 angleSlop 25.0 reveal true 9 hydrogen bonds found > select H 1827 atoms, 230 residues, 1 model selected > label (#!1 & sel) attribute label_specifier > ~label (#!1 & sel) residues > select clear > realsense on realsense is provided by the uninstalled bundle RealSense versions 1.2 – 1.8 > ui tool show ""Model Panel"" > realsense on realsense is provided by the uninstalled bundle RealSense versions 1.2 – 1.8 > Realsesnse Unknown command: Realsesnse > toolshed show Downloading bundle ChimeraX_RealSense-1.8-cp39-cp39-win_amd64.whl Errors may have occurred when running pip: pip standard error: \--- WARNING: Value for scheme.platlib does not match. Please report this to distutils: C:\Users\rkrishnan\AppData\Local\UCSF\ChimeraX\1.3\site-packages sysconfig: C:\Users\rkrishnan\AppData\Roaming\Python\Python39\site-packages WARNING: Value for scheme.purelib does not match. Please report this to distutils: C:\Users\rkrishnan\AppData\Local\UCSF\ChimeraX\1.3\site-packages sysconfig: C:\Users\rkrishnan\AppData\Roaming\Python\Python39\site-packages WARNING: Value for scheme.headers does not match. Please report this to distutils: C:\Users\rkrishnan\AppData\Local\UCSF\ChimeraX\Python39\Include\pyrealsense2 sysconfig: C:\Users\rkrishnan\AppData\Roaming\Python\Python39\Include\pyrealsense2 WARNING: Value for scheme.scripts does not match. Please report this to distutils: C:\Users\rkrishnan\AppData\Local\UCSF\ChimeraX\Python39\Scripts sysconfig: C:\Users\rkrishnan\AppData\Roaming\Python\Python39\Scripts WARNING: Value for scheme.data does not match. Please report this to distutils: C:\Users\rkrishnan\AppData\Local\UCSF\ChimeraX sysconfig: C:\Users\rkrishnan\AppData\Roaming\Python WARNING: Additional context: user = True home = None root = None prefix = None WARNING: Value for scheme.headers does not match. Please report this to distutils: C:\Users\rkrishnan\AppData\Local\UCSF\ChimeraX\Python39\Include\ChimeraX- RealSense sysconfig: C:\Users\rkrishnan\AppData\Roaming\Python\Python39\Include\ChimeraX-RealSense WARNING: Value for scheme.headers does not match. Please report this to distutils: C:\Users\rkrishnan\AppData\Local\UCSF\ChimeraX\Python39\Include\UNKNOWN sysconfig: C:\Users\rkrishnan\AppData\Roaming\Python\Python39\Include\UNKNOWN WARNING: You are using pip version 21.2.4; however, version 22.1 is available. You should consider upgrading via the 'C:\ChimeraX 1.3\bin\ChimeraX- console.exe -m pip install --upgrade pip' command. \--- pip standard output: \--- Looking in indexes: https://pypi.org/simple, https://cxtoolshed.rbvi.ucsf.edu/pypi/ Processing c:\users\rkrishnan\downloads\chimerax_realsense-1.8-cp39-cp39-win_amd64.whl Requirement already satisfied: ChimeraX-Geometry~=1.0 in c:\chimerax 1.3\bin\lib\site-packages (from ChimeraX-RealSense==1.8) (1.1) Requirement already satisfied: ChimeraX-Vive~=1.1 in c:\chimerax 1.3\bin\lib\site-packages (from ChimeraX-RealSense==1.8) (1.1) Requirement already satisfied: ChimeraX-Graphics~=1.0 in c:\chimerax 1.3\bin\lib\site-packages (from ChimeraX-RealSense==1.8) (1.1) Collecting pyrealsense2>=2 Using cached pyrealsense2-2.50.0.3812-cp39-cp39-win_amd64.whl (24.2 MB) Requirement already satisfied: ChimeraX-Arrays~=1.0 in c:\chimerax 1.3\bin\lib\site-packages (from ChimeraX-RealSense==1.8) (1.0) Requirement already satisfied: ChimeraX-Core~=1.0 in c:\chimerax 1.3\bin\lib\site-packages (from ChimeraX-RealSense==1.8) (1.3) Installing collected packages: pyrealsense2, ChimeraX-RealSense Successfully installed ChimeraX-RealSense-1.8 pyrealsense2-2.50.0.3812 \--- Successfully installed ChimeraX-RealSense-1.8 pyrealsense2-2.50.0.3812 Installed ChimeraX-RealSense (1.8) > realsesnse on Unknown command: realsesnse on > realsense true RealSense camera model #2 > windowsize 960 540 > vr roomCamera true fieldOfView 69.4 VR mode select > select #100 5 models selected VR mode translate selected models [Repeated 1 time(s)]VR mode select VR mode move scene > select #100 5 models selected > select #100 5 models selected > select #2 1 model selected VR mode select [Repeated 2 time(s)]VR mode move scene [Repeated 2 time(s)] > select #1 3788 atoms, 3754 bonds, 10 pseudobonds, 318 residues, 3 models selected VR mode select > select #2 1 model selected VR mode select VR mode move scene [Repeated 1 time(s)] > select /AAA:305@HG3 1 atom, 1 residue, 1 model selected > select /AAA:115@C 1 atom, 1 residue, 1 model selected VR mode rotate selected models > select /AAA:272@HE2 1 atom, 1 residue, 1 model selected > select down 1 atom, 1 residue, 2 models selected > view matrix models > #1,0.88192,0.15472,0.44529,6.9596,-0.21366,0.9732,0.085023,0.95548,-0.4202,-0.17012,0.89134,-10.085 > select /AAA:13@HG3 1 atom, 1 residue, 1 model selected > select down 1 atom, 1 residue, 2 models selected > view matrix models > #1,0.55188,0.030507,0.83336,8.0091,-0.49502,0.8162,0.29794,0.97885,-0.6711,-0.57696,0.46555,-25.984 > select /AAA:21@CG 1 atom, 1 residue, 1 model selected > select down 1 atom, 1 residue, 2 models selected > view matrix models > #1,-0.080177,-0.010062,0.99673,0.93679,-0.81556,0.57558,-0.059794,-10.804,-0.57309,-0.81769,-0.054354,-37.173 > select /AAA:51@CB 1 atom, 1 residue, 1 model selected > select down 1 atom, 1 residue, 2 models selected > view matrix models > #1,-0.38398,-0.19436,0.90265,-7.6921,-0.86519,0.41719,-0.27821,-16.165,-0.32251,-0.88779,-0.32835,-40.041 VR mode select > select #2 1 model selected VR mode move scene VR mode select > select #2 1 model selected VR mode select VR mode zoom > select clear VR mode move picked models > view matrix models > #100.4,0.85257,-0.50865,-0.11996,-0.0392,0.34977,0.72594,-0.59218,7.1432,0.3883,0.46292,0.79683,4.8476 > view matrix models > #100.4,0.81617,-0.57729,-0.024334,4.7781,0.47441,0.69357,-0.54212,9.5747,0.32984,0.43092,0.83995,10.448 > view matrix models > #100.4,0.78449,-0.61759,-0.05618,3.9045,0.52947,0.7142,-0.45779,11.118,0.32285,0.32939,0.88728,10.311 > view matrix models > #100.4,0.83586,-0.53622,-0.11747,1.4432,0.43332,0.7759,-0.45849,6.7827,0.337,0.33233,0.8809,8.8784 VR mode rotate selected models VR mode select > select down 1 model selected VR mode translate selected models > view matrix models > #100.4,0.89572,-0.43916,-0.069437,-1.4373,0.40521,0.8706,-0.27904,6.3808,0.18299,0.22181,0.95777,6.3103 > view matrix models > #100.4,0.8662,-0.37118,0.33454,-0.73792,0.42272,0.90132,-0.094464,6.1529,-0.26647,0.22324,0.93764,4.1026 > view matrix models > #100.4,0.87089,-0.47194,0.13718,-5.8776,0.48523,0.78127,-0.39265,0.62457,0.07813,0.40852,0.9094,5.9769 > view matrix models > #100.4,0.9242,-0.36931,-0.097324,-10.417,0.26279,0.79983,-0.53964,-3.4853,0.27714,0.47315,0.83626,5.8555 > view matrix models > #100.4,0.87195,-0.40727,0.27174,-3.3826,0.47308,0.8438,-0.25338,1.7256,-0.1261,0.34949,0.92842,4.1622 > view matrix models > #100.4,0.87743,-0.41949,0.2327,-3.207,0.4795,0.7811,-0.39994,-0.14603,-0.013988,0.4625,0.88651,4.6703 > view matrix models > #100.4,0.84183,-0.43669,0.31721,-0.079866,0.52026,0.813,-0.26147,1.1026,-0.1437,0.38514,0.9116,4.359 > view matrix models > #100.4,0.7665,-0.46672,0.44119,1.1508,0.55762,0.82446,-0.0966,2.715,-0.31866,0.32006,0.8922,4.2032 > view matrix models > #100.4,0.8651,-0.48197,-0.13894,-9.3404,0.49905,0.85493,0.14161,1.3338,0.050529,-0.19184,0.98013,-1.9594 > view matrix models > #100.4,0.83052,-0.55462,-0.0514,-4.2679,0.55115,0.80496,0.21972,4.8102,-0.080485,-0.21081,0.97421,5.346 > view matrix models > #100.4,0.81792,-0.57408,0.038026,-2.7449,0.57188,0.81846,0.055382,5.4729,-0.062917,-0.023552,0.99774,6.5971 > view matrix models > #100.4,0.84884,-0.52681,0.044096,-0.2656,0.52837,0.84815,-0.038176,5.3111,-0.017288,0.055704,0.9983,8.2917 > view matrix models > #100.4,0.90144,-0.43288,0.0039884,-0.35749,0.42889,0.89179,-0.14409,3.1873,0.058818,0.1316,0.98956,10.013 > view matrix models > #100.4,0.87422,-0.44069,0.20377,2.2039,0.46967,0.87397,-0.12486,3.8705,-0.12307,0.20486,0.97102,7.7281 > view matrix models > #100.4,0.86638,-0.44645,0.22377,2.1797,0.48987,0.84685,-0.20705,2.9225,-0.097062,0.28901,0.95239,7.1105 > view matrix models > #100.4,0.7075,-0.49217,0.50717,4.4674,0.5213,0.84799,0.095705,6.208,-0.47718,0.19667,0.85652,3.3914 > view matrix models > #100.4,0.63707,-0.50797,0.57975,4.6824,0.5904,0.80512,0.05666,5.0579,-0.49555,0.30619,0.81282,4.0488 > view matrix models > #100.4,0.61402,-0.54669,0.56931,4.1821,0.58372,0.80003,0.13868,5.6057,-0.53128,0.24716,0.81034,3.4075 > view matrix models > #100.4,0.63613,-0.36084,0.682,4.6718,0.60085,0.78619,-0.14448,2.8663,-0.48405,0.50169,0.71694,1.7806 > view matrix models > #100.4,0.71514,-0.51405,0.47363,4.3149,0.53414,0.83897,0.10406,3.9385,-0.45085,0.17856,0.87456,4.9316 > view matrix models > #100.4,0.71705,-0.45355,0.52927,6.9961,0.52329,0.85189,0.02108,3.6017,-0.46044,0.26185,0.84819,5.8955 > select clear > vr roomCamera saveTrackerMount true VR mode translate selected models > select #2 1 model selected VR mode select VR mode translate selected models > view matrix models > #100.4,0.36134,-0.42139,0.83179,5.1899,0.75758,0.65273,0.0015729,5.1238,-0.5436,0.62958,0.55509,1.8957 > view matrix models > #100.4,0.43094,-0.8539,0.29179,-8.5732,0.8637,0.48397,0.14071,7.5647,-0.26137,0.19138,0.94608,14.423 > view matrix models > #100.4,0.4745,-0.79113,0.38595,-7.5539,0.70259,0.60453,0.37539,7.5392,-0.5303,0.093038,0.84269,10.631 > view matrix models > #100.4,0.39401,-0.85024,0.34906,-9.6839,0.79292,0.5065,0.33873,8.7227,-0.4648,0.14331,0.87374,10.696 > view matrix models > #100.4,0.36124,-0.74748,0.55748,-6.2218,0.77005,0.57629,0.2737,7.3332,-0.52586,0.33042,0.78377,8.034 > view matrix models > #100.4,0.40356,-0.59307,0.69671,-4.1999,0.76451,0.63691,0.099321,3.156,-0.50265,0.49256,0.71044,5.2277 > view matrix models > #100.4,0.40487,-0.32368,0.85517,-2.763,0.7426,0.66208,-0.10098,0.35967,-0.5335,0.67593,0.50842,1.9933 > view matrix models > #100.4,0.32376,-0.65037,0.68716,-4.3539,0.82504,0.54958,0.13143,3.509,-0.46313,0.52439,0.71452,4.3421 > view matrix models > #100.4,0.41033,-0.58788,0.69715,-3.9731,0.82716,0.56182,-0.013094,1.5727,-0.38397,0.58203,0.71681,3.6964 > view matrix models > #100.4,0.33928,-0.83143,0.44002,-8.1489,0.84744,0.4732,0.24069,5.8353,-0.40833,0.29123,0.86513,6.444 > view matrix models > #100.4,0.38656,-0.662,0.64212,-2.4049,0.80245,0.58461,0.11963,4.4011,-0.45459,0.46902,0.75721,6.3012 > view matrix models > #100.4,0.4129,-0.61425,0.67247,-0.57402,0.79978,0.59777,0.054953,3.9446,-0.43574,0.51514,0.73808,6.8318 > view matrix models > #100.4,0.46118,-0.59341,0.65969,0.43768,0.7658,0.64172,0.041882,3.8506,-0.44818,0.48587,0.75037,7.4133 > view matrix models > #100.4,0.47823,-0.5881,0.65226,1.4521,0.7844,0.62005,-0.016062,3.5422,-0.39498,0.51931,0.75783,8.2221 > view matrix models > #100.4,0.44416,-0.57163,0.6899,2.8067,0.81216,0.58202,-0.040631,3.9683,-0.37831,0.57836,0.72276,7.4739 > view matrix models > #100.4,0.45444,-0.56163,0.69142,3.0077,0.81525,0.57501,-0.068758,3.575,-0.35896,0.59493,0.71918,7.5428 > view matrix models > #100.4,0.46184,-0.62761,0.62675,2.1662,0.81658,0.57672,-0.02422,4.4194,-0.34626,0.52298,0.77885,8.7117 > view matrix models > #100.4,0.43745,-0.58772,0.6806,3.7284,0.8111,0.58468,-0.016439,4.5032,-0.38827,0.55922,0.73247,8.4547 > view matrix models > #100.4,0.46484,-0.57556,0.6728,5.0848,0.80164,0.5962,-0.043836,4.5637,-0.37589,0.55972,0.73853,9.3437 > view matrix models > #100.4,0.49312,-0.41698,0.76352,6.036,0.76746,0.62181,-0.15607,3.4321,-0.40969,0.66293,0.62664,7.5824 > vr roomCamera saveTrackerMount true [Repeated 1 time(s)] > cofr sel > select ::name=""0RI"" 67 atoms, 71 bonds, 1 residue, 1 model selected > view sel > select clear > select up Nothing selected > select up Nothing selected > select down Nothing selected Traceback (most recent call last): File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\triggerset.py"", line 134, in invoke return self._func(self._name, data) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 802, in _next_frame self.process_controller_events() File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 830, in process_controller_events self.process_controller_buttons() File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 857, in process_controller_buttons hc.process_event(e) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 2681, in process_event self._dispatch_event(m, event) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 2689, in _dispatch_event mode.released(hand_event) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 3526, in released self._click(hand_button_event) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 3536, in _click m.vr_release(e) File ""C:\ChimeraX 1.3\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 522, in vr_release self._undo_save() File ""C:\ChimeraX 1.3\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 469, in _undo_save new_model_positions = [m.position for m in models] TypeError: 'NoneType' object is not iterable Error processing trigger ""new frame"": TypeError: 'NoneType' object is not iterable File ""C:\ChimeraX 1.3\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 469, in _undo_save new_model_positions = [m.position for m in models] See log for complete Python traceback. > ui mousemode right select > ui mousemode right zoom > realsesnse off Unknown command: realsesnse off > realsense false > view > vr false > vr true started SteamVR rendering > select /AAA:109@NE2 1 atom, 1 residue, 1 model selected > select down 1 atom, 1 residue, 2 models selected > select down 1 atom, 1 residue, 2 models selected > view matrix models > #1,0.013609,0.59248,0.80547,-2.095,-0.9979,-0.042936,0.048442,-24.463,0.063284,-0.80444,0.59065,-54.367 > view matrix models > #1,0.92654,0.32188,0.19472,18.937,-0.21527,0.87812,-0.42727,-20.334,-0.30852,0.35397,0.8829,-71.883 > view matrix models > #1,-0.19939,0.78723,0.58354,-9.8763,-0.97418,-0.094876,-0.20488,-32.279,-0.10592,-0.60932,0.78582,-60.073 > view matrix models > #1,-0.89914,0.38672,0.20491,-20.767,-0.33567,-0.30893,-0.88988,-17.023,-0.28083,-0.86892,0.40758,-62.783 > view matrix models > #1,-0.84021,0.45784,0.29057,-9.7303,-0.39588,-0.1517,-0.90568,-23.385,-0.37058,-0.87599,0.30871,-70.262 > view matrix models > #1,-0.42414,0.31441,0.84927,8.476,-0.71312,0.46207,-0.52721,-20.509,-0.55818,-0.82924,0.028226,-74.808 > view matrix models > #1,-0.32115,-0.085745,0.94314,10.427,-0.91495,0.2851,-0.28563,-21.447,-0.2444,-0.95466,-0.17001,-71.531 > view matrix models > #1,-0.49791,-0.21969,0.83894,8.4478,-0.81056,0.46185,-0.36012,-20.611,-0.30835,-0.85932,-0.40803,-72.876 > view matrix models > #1,-0.38931,0.024791,0.92077,11.574,-0.72652,0.60624,-0.3235,-20.759,-0.56623,-0.7949,-0.218,-75.564 > view matrix models > #1,-0.33561,-0.13226,0.93267,6.9752,-0.9027,0.32816,-0.27829,-23.559,-0.26926,-0.93532,-0.22952,-72.045 > view matrix models > #1,-0.10418,-0.13963,0.98471,13.333,-0.97802,0.19417,-0.075934,-18.958,-0.1806,-0.97098,-0.15679,-71.723 > view matrix models > #1,-0.20573,-0.28807,0.93525,15.718,-0.97641,0.12447,-0.17645,-22.12,-0.065576,-0.94949,-0.30688,-72.566 > select /AAA:401@C37 1 atom, 1 residue, 1 model selected > view matrix models > #1,0.065571,-0.98993,0.12542,-16.879,-0.9868,-0.045675,0.15539,-19.367,-0.1481,-0.13396,-0.97986,-65.912 > tracker true Unknown command: tracker true > vr roomCamera > select #100 5 models selected VR mode select VR mode move picked models Traceback (most recent call last): File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\triggerset.py"", line 134, in invoke return self._func(self._name, data) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 802, in _next_frame self.process_controller_events() File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 830, in process_controller_events self.process_controller_buttons() File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 857, in process_controller_buttons hc.process_event(e) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 2681, in process_event self._dispatch_event(m, event) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 2689, in _dispatch_event mode.released(hand_event) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 3526, in released self._click(hand_button_event) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 3536, in _click m.vr_release(e) File ""C:\ChimeraX 1.3\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 523, in vr_release self._log_command() File ""C:\ChimeraX 1.3\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 480, in _log_command cmd = self._move_command() File ""C:\ChimeraX 1.3\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 490, in _move_command cmd = 'view matrix models %s' % model_positions_string(models) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\std_commands\view.py"", line 488, in model_positions_string mpos = ','.join('#%s,%s' % (m.id_string, _position_string(m.position)) for m in models) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\std_commands\view.py"", line 488, in mpos = ','.join('#%s,%s' % (m.id_string, _position_string(m.position)) for m in models) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\graphics\drawing.py"", line 479, in _drawing_get_position raise RuntimeError('Tried to get the position of deleted drawing ""%s""' % self.name) RuntimeError: Tried to get the position of deleted drawing ""Room camera"" Error processing trigger ""new frame"": RuntimeError: Tried to get the position of deleted drawing ""Room camera"" File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\graphics\drawing.py"", line 479, in _drawing_get_position raise RuntimeError('Tried to get the position of deleted drawing ""%s""' % self.name) See log for complete Python traceback. > vr roomCamera > vr false > vr true started SteamVR rendering > vr roomCamera > select #100 5 models selected VR mode move picked models Traceback (most recent call last): File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\triggerset.py"", line 134, in invoke return self._func(self._name, data) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 802, in _next_frame self.process_controller_events() File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 830, in process_controller_events self.process_controller_buttons() File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 857, in process_controller_buttons hc.process_event(e) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 2681, in process_event self._dispatch_event(m, event) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 2689, in _dispatch_event mode.released(hand_event) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 3526, in released self._click(hand_button_event) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\vive\vr.py"", line 3536, in _click m.vr_release(e) File ""C:\ChimeraX 1.3\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 523, in vr_release self._log_command() File ""C:\ChimeraX 1.3\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 480, in _log_command cmd = self._move_command() File ""C:\ChimeraX 1.3\bin\lib\site- packages\chimerax\mouse_modes\std_modes.py"", line 490, in _move_command cmd = 'view matrix models %s' % model_positions_string(models) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\std_commands\view.py"", line 488, in model_positions_string mpos = ','.join('#%s,%s' % (m.id_string, _position_string(m.position)) for m in models) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\std_commands\view.py"", line 488, in mpos = ','.join('#%s,%s' % (m.id_string, _position_string(m.position)) for m in models) File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\graphics\drawing.py"", line 479, in _drawing_get_position raise RuntimeError('Tried to get the position of deleted drawing ""%s""' % self.name) RuntimeError: Tried to get the position of deleted drawing ""Room camera"" Error processing trigger ""new frame"": RuntimeError: Tried to get the position of deleted drawing ""Room camera"" File ""C:\ChimeraX 1.3\bin\lib\site-packages\chimerax\graphics\drawing.py"", line 479, in _drawing_get_position raise RuntimeError('Tried to get the position of deleted drawing ""%s""' % self.name) See log for complete Python traceback. OpenGL version: 3.3.0 NVIDIA 462.31 OpenGL renderer: Quadro P5000/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Manufacturer: Dell Inc. Model: Precision 5820 Tower OS: Microsoft Windows 10 Pro for Workstations (Build 19044) Memory: 34,020,671,488 MaxProcessMemory: 137,438,953,344 CPU: 16 Intel(R) Xeon(R) W-2145 CPU @ 3.70GHz OSLanguage: en-US Locale: ('en_US', 'cp1252') PyQt5 5.15.2, Qt 5.15.2 Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 Babel: 2.9.1 backcall: 0.2.0 blockdiag: 2.0.1 certifi: 2021.10.8 cftime: 1.5.1.1 charset-normalizer: 2.0.9 ChimeraX-AddCharge: 1.2.2 ChimeraX-AddH: 2.1.11 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.2.3 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.31 ChimeraX-AtomicLibrary: 4.2 ChimeraX-AtomSearch: 2.0 ChimeraX-AtomSearchLibrary: 1.0 ChimeraX-AxesPlanes: 2.0 ChimeraX-BasicActions: 1.1 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.0 ChimeraX-BondRot: 2.0 ChimeraX-BugReporter: 1.0 ChimeraX-BuildStructure: 2.6.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.1 ChimeraX-ButtonPanel: 1.0 ChimeraX-CageBuilder: 1.0 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.2 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.2.2 ChimeraX-ColorActions: 1.0 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5 ChimeraX-CommandLine: 1.1.5 ChimeraX-ConnectStructure: 2.0 ChimeraX-Contacts: 1.0 ChimeraX-Core: 1.3 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.3.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0 ChimeraX-DataFormats: 1.2.2 ChimeraX-Dicom: 1.0 ChimeraX-DistMonitor: 1.1.5 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: 1.1 ChimeraX-Hbonds: 2.1.2 ChimeraX-Help: 1.2 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0 ChimeraX-Label: 1.1 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.4 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.1 ChimeraX-Map: 1.1 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1 ChimeraX-Markers: 1.0 ChimeraX-Mask: 1.0 ChimeraX-MatchMaker: 2.0.4 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.1 ChimeraX-Meeting: 1.0 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.4 ChimeraX-MMTF: 2.1 ChimeraX-Modeller: 1.2.6 ChimeraX-ModelPanel: 1.2.1 ChimeraX-ModelSeries: 1.0 ChimeraX-Mol2: 2.0 ChimeraX-Morph: 1.0 ChimeraX-MouseModes: 1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.2 ChimeraX-OpenCommand: 1.7 ChimeraX-PDB: 2.6.5 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.0.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-RealSense: 1.8 ChimeraX-Registration: 1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-ResidueFit: 1.0 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0.1 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.4.6 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0 ChimeraX-Shortcuts: 1.1 ChimeraX-ShowAttr: 1.0 ChimeraX-ShowSequences: 1.0 ChimeraX-SideView: 1.0 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.6.1 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-Struts: 1.0 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0 ChimeraX-SwapRes: 2.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1 ChimeraX-ToolshedUtils: 1.2 ChimeraX-Tug: 1.0 ChimeraX-UI: 1.13.7 ChimeraX-uniprot: 2.2 ChimeraX-UnitCell: 1.0 ChimeraX-ViewDockX: 1.0.1 ChimeraX-VIPERdb: 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: 0.4.4 comtypes: 1.1.10 cxservices: 1.1 cycler: 0.11.0 Cython: 0.29.24 decorator: 5.1.0 docutils: 0.17.1 filelock: 3.0.12 funcparserlib: 0.3.6 grako: 3.16.5 h5py: 3.6.0 html2text: 2020.1.16 idna: 3.3 ihm: 0.21 imagecodecs: 2021.4.28 imagesize: 1.3.0 ipykernel: 5.5.5 ipython: 7.23.1 ipython-genutils: 0.2.0 jedi: 0.18.0 Jinja2: 3.0.1 jupyter-client: 6.1.12 jupyter-core: 4.9.1 kiwisolver: 1.3.2 lxml: 4.6.3 lz4: 3.1.3 MarkupSafe: 2.0.1 matplotlib: 3.4.3 matplotlib-inline: 0.1.3 msgpack: 1.0.2 netCDF4: 1.5.7 networkx: 2.6.3 numexpr: 2.8.0 numpy: 1.21.2 openvr: 1.16.801 packaging: 21.3 ParmEd: 3.2.0 parso: 0.8.3 pickleshare: 0.7.5 Pillow: 8.3.2 pip: 21.2.4 pkginfo: 1.7.1 prompt-toolkit: 3.0.23 psutil: 5.8.0 pycollada: 0.7.1 pydicom: 2.1.2 Pygments: 2.10.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.6 PyQt5-commercial: 5.15.2 PyQt5-sip: 12.8.1 PyQtWebEngine-commercial: 5.15.2 pyrealsense2: 2.50.0.3812 python-dateutil: 2.8.2 pytz: 2021.3 pywin32: 228 pyzmq: 22.3.0 qtconsole: 5.1.1 QtPy: 1.11.3 RandomWords: 0.3.0 requests: 2.26.0 scipy: 1.7.1 setuptools: 57.5.0 sfftk-rw: 0.7.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 Sphinx: 4.2.0 sphinx-autodoc-typehints: 1.12.0 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 2.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 suds-jurko: 0.6 tables: 3.6.1 tifffile: 2021.4.8 tinyarray: 1.2.3 tornado: 6.1 traitlets: 5.1.1 urllib3: 1.26.7 wcwidth: 0.2.5 webcolors: 1.11.1 wheel: 0.37.0 wheel-filename: 1.3.0 WMI: 1.5.1 }}} " defect closed normal VR fixed all ChimeraX