Error restoring session: self.bond_rotaters.values(): AttributeError: 'list' object has no attribute 'values'

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.26100
ChimeraX Version: 1.5 (2022-11-24 00:03:27 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 1.5 (2022-11-24)  
© 2016-2022 Regents of the University of California. All rights reserved.  

> open "D:\\\iHBUT\\\湖北工业大学\\\结构生物学\\\Cryo-EM\\\200KV-WD\\\p51 j45 align p51
> j46.cxs"

Opened cryosparc_P51_J44_003_volume_map_sharp.mrc as #1, grid size
360,360,360, pixel 0.824, shown at level 0.0816, step 1, values float32  
Opened cryosparc_P51_J45_004_volume_map_sharp.mrc as #2, grid size
360,360,360, pixel 0.824, shown at level 0.127, step 1, values float32  
Opened cryosparc_P51_J45_004_volume_map_sharp.mrc z flip as #3, grid size
360,360,360, pixel 0.824, shown at level 0.13, step 1, values float32  
Opened cryosparc_P51_J46_004_volume_map_sharp.mrc as #4, grid size
360,360,360, pixel 0.824, shown at level 0.125, step 1, values float32  
Log from Wed Jun 25 16:17:47 2025 Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/ybzair/Downloads/cryosparc_P51_J44_003_volume_map_sharp.mrc
> format mrc

Opened cryosparc_P51_J44_003_volume_map_sharp.mrc as #1, grid size
360,360,360, pixel 0.824, shown at level 0.0623, step 2, values float32  

> open /Users/ybzair/Downloads/cryosparc_P51_J45_004_volume_map_sharp.mrc
> format mrc

Opened cryosparc_P51_J45_004_volume_map_sharp.mrc as #2, grid size
360,360,360, pixel 0.824, shown at level 0.0669, step 2, values float32  

> volume #1 step 1

> volume #2 step 1

> volume #1 level 0.1219

> volume #2 level 0.1244

> ui mousemode right select

> select #2

2 models selected  

> ui mousemode right "translate selected models"

> view matrix models #2,1,0,0,-46.003,0,1,0,-84.632,0,0,1,-10.798

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.2587,0.60681,-0.75157,80.08,0.67082,0.44698,0.59178,-185.2,0.69503,-0.65726,-0.29143,176.55

> view matrix models
> #2,0.13182,0.95306,-0.27256,-23.944,0.95216,-0.19822,-0.23259,-7.8898,-0.2757,-0.22886,-0.9336,346.96

> view matrix models
> #2,-0.13203,0.8936,-0.42901,46.321,0.95909,0.22451,0.17247,-132.11,0.25044,-0.38869,-0.88668,287.74

> view matrix models
> #2,0.22551,0.89173,-0.39239,-10.753,0.84776,-0.37807,-0.37198,54.893,-0.48006,-0.24876,-0.84122,366.16

> view matrix models
> #2,0.49944,0.63737,-0.58679,16.325,0.22223,-0.7489,-0.62431,238.87,-0.83736,0.1814,-0.51567,305.43

> view matrix models
> #2,0.09037,-0.44031,-0.89329,283.62,-0.76275,-0.60733,0.2222,236.78,-0.64035,0.66127,-0.39073,185.94

> ui tool show "Hide Dust"

> surface dust #1 size 12

> surface dust #2 size 12

> view matrix models
> #2,-0.79913,-0.57577,-0.17286,336.56,0.45549,-0.76758,0.45095,42.988,-0.39232,0.28164,0.87565,24.746

> view matrix models
> #2,0.37535,0.22783,-0.89844,140.61,0.25968,-0.95635,-0.13402,184.52,-0.88976,-0.183,-0.41813,354.64

> view matrix models
> #2,0.55957,-0.33983,-0.75591,177.59,-0.49172,-0.87032,0.027269,262.87,-0.66715,0.35644,-0.65411,273.36

> view matrix models
> #2,0.90198,-0.35225,-0.2497,55.219,-0.42166,-0.84305,-0.33387,299.6,-0.092908,0.40643,-0.90894,214.85

> volume #2 level 0.208

> volume #2 level 0.1514

> view matrix models
> #2,0.66145,-0.38147,-0.64573,152.01,-0.44015,-0.89456,0.077602,251.33,-0.60725,0.23289,-0.75961,296.22

> ui mousemode right "translate selected models"

> ui mousemode right select

> select #1

2 models selected  

> ui mousemode right "rotate selected models"

> view matrix models
> #1,0.067463,0.91184,0.40498,-54.459,-0.99743,0.05174,0.04966,268.37,0.024329,-0.40728,0.91298,66.538

> view matrix models
> #1,-0.73449,0.36012,0.57519,112.75,-0.39536,-0.91596,0.068619,316.29,0.55156,-0.17701,0.81514,-26.764

> view matrix models
> #1,-0.090148,0.93462,0.34404,-26.406,-0.93327,-0.19987,0.29842,258.64,0.34767,-0.29418,0.89027,7.8745

> view matrix models
> #1,0.8481,0.46557,-0.25293,-7.3258,-0.48292,0.87563,-0.0075243,87.345,0.21797,0.12853,0.96746,-44.414

> view matrix models
> #1,0.5349,-0.43979,-0.72143,232.72,0.16779,0.89214,-0.41945,52.11,0.82809,0.10331,0.55099,-67.335

> vop flip #2

Opened cryosparc_P51_J45_004_volume_map_sharp.mrc z flip as #3, grid size
360,360,360, pixel 0.824, shown at step 1, values float32  

> surface dust #3 size 12

> view matrix models
> #1,-0.30608,0.92288,-0.23369,89.71,0.95107,0.30728,-0.032163,-33.087,0.042125,-0.2321,-0.97178,312.48

> view matrix models
> #1,-0.76522,0.59652,0.24209,132.09,0.63678,0.75663,0.14841,-77.843,-0.094642,0.26772,-0.95884,259.65

> view matrix models
> #1,-0.85028,-0.52162,0.070234,326.65,-0.0057313,0.14261,0.98976,-21.822,-0.5263,0.84117,-0.12425,119.32

> view matrix models
> #1,-0.80432,-0.32615,-0.49669,374.73,-0.59391,0.41498,0.68925,67.062,-0.018684,0.84936,-0.52748,104.36

> ui mousemode right select

> select #3

2 models selected  

> ui mousemode right "translate selected models"

> ui mousemode right "rotate selected models"

> view matrix models
> #3,0.61352,-0.63875,-0.46431,169.02,0.16662,-0.47003,0.86678,-23.009,-0.7719,-0.60916,-0.18194,355.54

> view matrix models
> #3,0.85325,-0.44139,-0.27775,75.512,0.0059703,-0.52429,0.85152,11.4,-0.52147,-0.72822,-0.44471,375.67

> ui mousemode right "translate selected models"

> view matrix models
> #3,0.85325,-0.44139,-0.27775,110,0.0059703,-0.52429,0.85152,69.393,-0.52147,-0.72822,-0.44471,391.78

> view matrix models
> #3,0.85325,-0.44139,-0.27775,117.97,0.0059703,-0.52429,0.85152,84.558,-0.52147,-0.72822,-0.44471,394.38

> ui mousemode right "translate selected models"

> ui mousemode right "rotate selected models"

> view matrix models
> #3,0.7983,0.027503,-0.60163,107.3,0.55699,-0.41369,0.72016,5.7736,-0.22908,-0.91,-0.34557,361.86

> ui mousemode right "translate selected models"

> view matrix models
> #3,0.7983,0.027503,-0.60163,102.67,0.55699,-0.41369,0.72016,6.6795,-0.22908,-0.91,-0.34557,369.91

> ui tool show "Fit in Map"

> fitmap #1 inMap #3

Fit map cryosparc_P51_J44_003_volume_map_sharp.mrc in map
cryosparc_P51_J45_004_volume_map_sharp.mrc z flip using 142844 points  
correlation = 0.5883, correlation about mean = 0.1002, overlap = 2311  
steps = 88, shift = 1.75, angle = 4.94 degrees  
  
Position of cryosparc_P51_J44_003_volume_map_sharp.mrc (#1) relative to
cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) coordinates:  
Matrix rotation and translation  
-0.94780003 -0.27729657 0.15742211 309.34241515  
0.30676604 -0.92767179 0.21288411 204.15304989  
0.08700402 0.25006332 0.96431252 -36.17645827  
Axis 0.06307270 0.11946082 0.99083346  
Axis point 140.36914031 127.74546927 0.00000000  
Rotation angle (degrees) 162.85847322  
Shift along axis 8.05450802  
  

> fitmap #1 inMap #3

Fit map cryosparc_P51_J44_003_volume_map_sharp.mrc in map
cryosparc_P51_J45_004_volume_map_sharp.mrc z flip using 142844 points  
correlation = 0.5882, correlation about mean = 0.1002, overlap = 2311  
steps = 40, shift = 0.00743, angle = 0.0401 degrees  
  
Position of cryosparc_P51_J44_003_volume_map_sharp.mrc (#1) relative to
cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) coordinates:  
Matrix rotation and translation  
-0.94767051 -0.27789501 0.15714631 309.45389771  
0.30729107 -0.92747423 0.21298767 204.03489072  
0.08656094 0.25013179 0.96433464 -36.11917084  
Axis 0.06289251 0.11951530 0.99083835  
Axis point 140.39789505 127.73955113 0.00000000  
Rotation angle (degrees) 162.82456457  
Shift along axis 8.05936284  
  

> volume #3 level 0.1945

> volume #3 level 0.1136

> ui mousemode right "rotate selected models"

> view matrix models
> #3,0.14954,0.36335,-0.91957,195.17,0.80829,0.49074,0.32535,-107.29,0.56948,-0.79193,-0.22031,215.91

> view matrix models
> #3,-0.44506,0.2077,-0.87108,298.49,0.35901,0.93252,0.038918,-64.908,0.82039,-0.29541,-0.48959,144.83

> view matrix models
> #3,-0.67435,-0.19085,-0.71332,368.54,-0.25786,0.96607,-0.014699,28.505,0.69192,0.17402,-0.70068,124.52

> view matrix models
> #3,-0.58906,-0.36663,-0.72013,383.81,-0.63681,0.75922,0.13437,92.666,0.49747,0.53775,-0.6807,94.659

> view matrix models
> #3,-0.024946,-0.44675,-0.89431,339.99,-0.81245,-0.5122,0.27853,289.62,-0.5825,0.73353,-0.35018,172.55

> view matrix models
> #3,0.54308,-0.13573,-0.82864,199.52,0.81471,0.32407,0.48086,-106.65,0.20327,-0.93624,0.28658,214.05

> view matrix models
> #3,0.039955,0.16786,-0.985,250.92,0.73666,0.66107,0.14254,-94.77,0.67508,-0.73131,-0.097242,172.44

> view matrix models
> #3,0.063777,0.18881,-0.97994,243.48,0.79643,0.58207,0.16398,-94.789,0.60136,-0.79091,-0.11325,194.74

> open /Users/ybzair/Downloads/cryosparc_P51_J46_004_volume_map_sharp.mrc
> format mrc

Opened cryosparc_P51_J46_004_volume_map_sharp.mrc as #4, grid size
360,360,360, pixel 0.824, shown at level 0.0667, step 2, values float32  

> volume #4 step 1

> volume #4 level 0.1195

> surface dust #4 size 12

> ui mousemode right select

> select #4

2 models selected  

> ui mousemode right "translate selected models"

> view matrix models #4,1,0,0,2.2204e-16,0,1,0,-2.2204e-16,0,0,1,0

> view matrix models #4,1,0,0,37.932,0,1,0,56.887,0,0,1,-42.576

> ui mousemode right "rotate selected models"

> view matrix models
> #4,0.45925,0.21791,-0.86116,214.6,-0.72081,-0.47516,-0.50463,456.93,-0.51915,0.85249,-0.061146,67.077

> view matrix models
> #4,0.71367,0.27252,-0.6453,137.35,0.30389,-0.95046,-0.065313,316.8,-0.63113,-0.14949,-0.76113,341.58

> view matrix models
> #4,0.19527,0.89487,-0.40134,78.597,0.95083,-0.07242,0.30114,37.989,0.24042,-0.44041,-0.86501,279.6

> view matrix models
> #4,0.45178,0.22031,-0.8645,215.8,-0.096163,-0.95136,-0.2927,408.12,-0.88693,0.21537,-0.40862,267.87

> view matrix models
> #4,0.03561,0.7061,-0.70721,176.69,0.99862,0.0022613,0.05254,58.753,0.038698,-0.70811,-0.70504,323.02

> view matrix models
> #4,-0.095953,0.52904,-0.84315,242.71,0.82684,0.51398,0.2284,-21.245,0.5542,-0.67523,-0.48675,212.2

> view matrix models
> #4,-0.083711,0.51242,-0.85464,245.28,0.87653,0.44584,0.18146,-10.682,0.47402,-0.73393,-0.48647,232.14

> volume #4 level 0.1353

> volume #3 level 0.1298

> view matrix models
> #4,-0.20367,0.59794,-0.77523,238.23,-0.40489,0.66949,0.62277,79.469,0.89139,0.44073,0.10574,-96.413

> view matrix models
> #4,-0.15026,0.1817,-0.97181,322.47,-0.96967,0.1646,0.18071,307.43,0.19279,0.96948,0.15146,-77.403

> view matrix models
> #4,0.16294,0.096939,-0.98186,289.73,-0.65016,-0.73798,-0.18075,449.57,-0.74212,0.66782,-0.057219,139.61

> view matrix models
> #4,0.59691,0.41716,-0.68533,131.31,0.63671,-0.76603,0.088282,219.44,-0.48816,-0.48906,-0.72286,376.45

> view matrix models
> #4,0.26113,0.77382,-0.57708,111.86,0.74445,0.21913,0.6307,-26.94,0.6145,-0.5943,-0.51884,195.42

> ui mousemode right "translate selected models"

> view matrix models
> #4,0.26113,0.77382,-0.57708,99.448,0.74445,0.21913,0.6307,-13.336,0.6145,-0.5943,-0.51884,187.52

> view matrix models
> #4,0.26113,0.77382,-0.57708,91.242,0.74445,0.21913,0.6307,-16.85,0.6145,-0.5943,-0.51884,188.88

> ui mousemode right "rotate selected models"

> view matrix models
> #4,0.063865,0.33432,0.94029,-49.315,0.057127,0.93945,-0.3379,129.33,-0.99632,0.075296,0.040899,243.81

> view matrix models
> #4,0.53287,-0.17227,0.82848,-27.005,0.062501,0.9844,0.16449,43.956,-0.84389,-0.035872,0.53532,160.82

> ui mousemode right "translate selected models"

> view matrix models
> #4,0.53287,-0.17227,0.82848,-29.216,0.062501,0.9844,0.16449,-12.522,-0.84389,-0.035872,0.53532,155.86

> view matrix models
> #4,0.53287,-0.17227,0.82848,-85.086,0.062501,0.9844,0.16449,-94.96,-0.84389,-0.035872,0.53532,184.38

> view matrix models
> #4,0.53287,-0.17227,0.82848,-77.86,0.062501,0.9844,0.16449,-109.29,-0.84389,-0.035872,0.53532,176.09

> view matrix models
> #4,0.53287,-0.17227,0.82848,-81.728,0.062501,0.9844,0.16449,-107.18,-0.84389,-0.035872,0.53532,178.9

> view matrix models
> #4,0.53287,-0.17227,0.82848,-88.883,0.062501,0.9844,0.16449,-116.29,-0.84389,-0.035872,0.53532,177

> view matrix models
> #4,0.53287,-0.17227,0.82848,-87.004,0.062501,0.9844,0.16449,-113.96,-0.84389,-0.035872,0.53532,174.61

> ui mousemode right "rotate selected models"

> view matrix models
> #4,-0.97087,0.1465,0.18963,189.79,-0.23714,-0.4737,-0.84816,304.22,-0.034428,-0.86842,0.49464,183.3

> view matrix models
> #4,-0.97876,0.10992,0.17303,198.97,-0.20499,-0.53032,-0.82265,303.85,0.0013385,-0.84064,0.54159,166.55

> view matrix models
> #4,-0.98049,0.092787,0.1733,201.73,-0.19002,-0.6731,-0.71472,306.06,0.050332,-0.7337,0.6776,122.26

> view matrix models
> #4,-0.92957,0.17812,0.32276,158.27,-0.3508,-0.69653,-0.62593,319.83,0.11332,-0.69507,0.70996,102.08

> ui tool show "Fit in Map"

> fitmap #2 inMap #4

Fit map cryosparc_P51_J45_004_volume_map_sharp.mrc in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 102836 points  
correlation = 0.7705, correlation about mean = 0.2878, overlap = 2779  
steps = 100, shift = 4.77, angle = 6.51 degrees  
  
Position of cryosparc_P51_J45_004_volume_map_sharp.mrc (#2) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
-0.61126410 0.66592743 0.42766441 74.10552021  
0.79048591 0.48738249 0.37093171 -98.93143272  
0.03857745 0.56479993 -0.82432567 188.02377438  
Axis 0.42871860 0.86042372 0.27544760  
Axis point 74.24265155 0.00000000 104.87056903  
Rotation angle (degrees) 166.93231497  
Shift along axis -1.56183907  
  

> volume #4 level 0.1274

> volume #3 level 0.2188

> volume #2 level 0.1163

> volume #4 level 0.1274

> volume #2 level 0.08932

> volume #4 level 0.09572

> volume #4 level 0.09836

> ui mousemode right "translate selected models"

> ui mousemode right select

> select clear

> select #1

2 models selected  

> ui mousemode right "translate selected models"

> view matrix models
> #1,-0.80015,-0.39784,-0.44886,378.36,-0.59263,0.40903,0.69389,-11.053,-0.092457,0.82123,-0.56306,72.893

> volume #3 level 0.1999

> volume #3 level 0.1541

> view matrix models
> #1,-0.80015,-0.39784,-0.44886,386.8,-0.59263,0.40903,0.69389,56.911,-0.092457,0.82123,-0.56306,115.53

> view matrix models
> #1,-0.80015,-0.39784,-0.44886,375.8,-0.59263,0.40903,0.69389,59.687,-0.092457,0.82123,-0.56306,125.97

> ui mousemode right "rotate selected models"

> view matrix models
> #1,-0.26171,-0.5012,-0.82481,368.22,-0.5601,-0.6171,0.5527,220.11,-0.786,0.60662,-0.11922,190.58

> view matrix models
> #1,-0.084667,-0.24617,-0.96552,327.48,-0.28337,-0.92304,0.26019,266.23,-0.95527,0.29563,0.0083924,240

> ui mousemode right "move picked models"

> view matrix models
> #3,0.063777,0.18881,-0.97994,246.24,0.79643,0.58207,0.16398,-95.064,0.60136,-0.79091,-0.11325,189.58

> view matrix models
> #1,-0.084667,-0.24617,-0.96552,326.55,-0.28337,-0.92304,0.26019,274.2,-0.95527,0.29563,0.0083924,235

> view matrix models
> #3,0.063777,0.18881,-0.97994,245.74,0.79643,0.58207,0.16398,-94.902,0.60136,-0.79091,-0.11325,191.8

> view matrix models
> #3,0.063777,0.18881,-0.97994,244.81,0.79643,0.58207,0.16398,-97.614,0.60136,-0.79091,-0.11325,191.86

> ui tool show "Fit in Map"

> fitmap #1 inMap #3

Fit map cryosparc_P51_J44_003_volume_map_sharp.mrc in map
cryosparc_P51_J45_004_volume_map_sharp.mrc z flip using 142844 points  
correlation = 0.8549, correlation about mean = 0.513, overlap = 4477  
steps = 140, shift = 7.56, angle = 10.9 degrees  
  
Position of cryosparc_P51_J44_003_volume_map_sharp.mrc (#1) relative to
cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) coordinates:  
Matrix rotation and translation  
-0.85527508 -0.43929168 0.27482244 297.97941525  
0.45059199 -0.89240251 -0.02417886 218.40768276  
0.25587381 0.10315322 0.96119093 -45.29349360  
Axis 0.14161429 0.02107401 0.98969757  
Axis point 126.03347144 145.40022755 0.00000000  
Rotation angle (degrees) 153.28367439  
Shift along axis 1.97400827  
  

> volume #3 level 0.1271

> volume #1 level 0.1192

> ui mousemode right select

> select #4

2 models selected  

> ui mousemode right "rotate selected models"

Drag select of 4 cryosparc_P51_J46_004_volume_map_sharp.mrc  

> ui mousemode right "translate selected models"

> view matrix models
> #4,-0.92957,0.17812,0.32276,178.49,-0.3508,-0.69653,-0.62593,332.23,0.11332,-0.69507,0.70996,100.87

> ui mousemode right "rotate selected models"

> view matrix models
> #4,0.23425,0.039745,-0.97136,239.48,0.37351,-0.92616,0.052179,160.46,-0.89756,-0.37504,-0.2318,339.95

> view matrix models
> #4,0.61517,0.49701,-0.612,60.151,0.61518,0.18288,0.76688,-154.81,0.49307,-0.84826,-0.19325,212.44

> view matrix models
> #4,0.36311,0.34821,-0.86423,157.51,0.81075,0.33903,0.47724,-160.77,0.45918,-0.87396,-0.15921,215.79

> view matrix models
> #4,0.3416,0.50371,-0.79346,125.63,0.75037,0.36218,0.55296,-167.73,0.56591,-0.78428,-0.25426,202.01

> ui mousemode right "translate selected models"

> view matrix models
> #4,0.3416,0.50371,-0.79346,135.17,0.75037,0.36218,0.55296,-133.42,0.56591,-0.78428,-0.25426,197.45

> view matrix models
> #4,0.3416,0.50371,-0.79346,147.98,0.75037,0.36218,0.55296,-128.39,0.56591,-0.78428,-0.25426,206.71

> view matrix models
> #4,0.3416,0.50371,-0.79346,146.38,0.75037,0.36218,0.55296,-120,0.56591,-0.78428,-0.25426,209.68

> view matrix models
> #4,0.3416,0.50371,-0.79346,147.8,0.75037,0.36218,0.55296,-122.93,0.56591,-0.78428,-0.25426,210.42

> view matrix models
> #4,0.3416,0.50371,-0.79346,141.1,0.75037,0.36218,0.55296,-182.04,0.56591,-0.78428,-0.25426,161.2

> volume #4 level 0.1247

> view matrix models
> #4,0.3416,0.50371,-0.79346,140.41,0.75037,0.36218,0.55296,-115.96,0.56591,-0.78428,-0.25426,210.8

> view matrix models
> #4,0.3416,0.50371,-0.79346,157.43,0.75037,0.36218,0.55296,-113.07,0.56591,-0.78428,-0.25426,131.95

> view matrix models
> #4,0.3416,0.50371,-0.79346,143.15,0.75037,0.36218,0.55296,-83.116,0.56591,-0.78428,-0.25426,163.82

> view matrix models
> #4,0.3416,0.50371,-0.79346,147.21,0.75037,0.36218,0.55296,-104.41,0.56591,-0.78428,-0.25426,213.26

> view matrix models
> #4,0.3416,0.50371,-0.79346,138.12,0.75037,0.36218,0.55296,-108.75,0.56591,-0.78428,-0.25426,212.04

> ui mousemode right "rotate selected models"

> view matrix models
> #4,-0.12533,0.20647,-0.97039,275.6,-0.41974,0.87522,0.24043,26.875,0.89895,0.43744,-0.023025,-53.702

> view matrix models
> #4,-0.16452,0.43953,-0.88303,232.48,-0.37028,0.80224,0.4683,-4.8286,0.91424,0.40401,0.03077,-59.264

> view matrix models
> #4,-0.3848,0.53591,-0.75149,228.19,0.020748,0.81899,0.57343,-78.443,0.92277,0.20506,-0.32626,25.314

> view matrix models
> #4,-0.1489,0.44892,-0.88108,228.58,-0.16833,0.8665,0.46994,-42.921,0.97442,0.21828,-0.053459,-26.651

> ui tool show "Fit in Map"

> fitmap #3 inMap #4

Fit map cryosparc_P51_J45_004_volume_map_sharp.mrc z flip in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 150658 points  
correlation = 0.5844, correlation about mean = 0.137, overlap = 2096  
steps = 128, shift = 3.03, angle = 7.37 degrees  
  
Position of cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
0.33584687 -0.94077625 -0.04633482 251.24481938  
0.88038337 0.33101503 -0.33963828 18.33655243  
0.33486115 0.07327405 0.93941414 -43.34139984  
Axis 0.21665028 -0.20000908 0.95554122  
Axis point 116.07683586 182.96197535 0.00000000  
Rotation angle (degrees) 72.35382242  
Shift along axis 9.35029032  
  

> fitmap #3 inMap #4

Fit map cryosparc_P51_J45_004_volume_map_sharp.mrc z flip in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 150658 points  
correlation = 0.5844, correlation about mean = 0.137, overlap = 2096  
steps = 48, shift = 0.00891, angle = 0.00768 degrees  
  
Position of cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
0.33595869 -0.94073403 -0.04638136 251.23621045  
0.88035339 0.33113852 -0.33959561 18.31019436  
0.33482781 0.07325811 0.93942726 -43.33612324  
Axis 0.21662852 -0.20002430 0.95554297  
Axis point 116.08786432 182.96666028 0.00000000  
Rotation angle (degrees) 72.34635326  
Shift along axis 9.35291713  
  

> fitmap #3 inMap #4

Fit map cryosparc_P51_J45_004_volume_map_sharp.mrc z flip in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 150658 points  
correlation = 0.5844, correlation about mean = 0.137, overlap = 2096  
steps = 28, shift = 0.0187, angle = 0.0145 degrees  
  
Position of cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
0.33574314 -0.94081343 -0.04633176 251.26501003  
0.88040069 0.33091266 -0.33969315 18.36776170  
0.33491964 0.07325914 0.93939445 -43.33662462  
Axis 0.21666308 -0.20003063 0.95553381  
Axis point 116.06509451 182.97022805 0.00000000  
Rotation angle (degrees) 72.36060978  
Shift along axis 9.35612720  
  

> fitmap #3 inMap #4

Fit map cryosparc_P51_J45_004_volume_map_sharp.mrc z flip in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 150658 points  
correlation = 0.5844, correlation about mean = 0.1371, overlap = 2096  
steps = 44, shift = 0.00962, angle = 0.016 degrees  
  
Position of cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
0.33589100 -0.94074963 -0.04655482 251.27634430  
0.88030848 0.33112279 -0.33972734 18.35152764  
0.33501374 0.07312876 0.93937105 -43.32333503  
Axis 0.21662472 -0.20020821 0.95550531  
Axis point 116.07489521 183.00483706 0.00000000  
Rotation angle (degrees) 72.35055121  
Shift along axis 9.36286318  
  

> fitmap #3 inMap #4

Fit map cryosparc_P51_J45_004_volume_map_sharp.mrc z flip in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 150658 points  
correlation = 0.5844, correlation about mean = 0.137, overlap = 2096  
steps = 44, shift = 0.0164, angle = 0.0125 degrees  
  
Position of cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
0.33587670 -0.94076431 -0.04636098 251.24572194  
0.88036982 0.33105172 -0.33963765 18.32949058  
0.33486686 0.07326156 0.93941307 -43.34042033  
Axis 0.21664577 -0.20002799 0.95553829  
Axis point 116.08127973 182.96557076 0.00000000  
Rotation angle (degrees) 72.35185461  
Shift along axis 9.35147992  
  

> fitmap #3 inMap #4

Fit map cryosparc_P51_J45_004_volume_map_sharp.mrc z flip in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 150658 points  
correlation = 0.5844, correlation about mean = 0.1371, overlap = 2096  
steps = 40, shift = 0.0157, angle = 0.00816 degrees  
  
Position of cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
0.33581516 -0.94078184 -0.04645107 251.27142374  
0.88034961 0.33101750 -0.33972336 18.36252941  
0.33498169 0.07319108 0.93937763 -43.33054290  
Axis 0.21664901 -0.20013112 0.95551595  
Axis point 116.06838793 182.98904886 0.00000000  
Rotation angle (degrees) 72.35579894  
Shift along axis 9.35976776  
  

> fitmap #3 inMap #4

Fit map cryosparc_P51_J45_004_volume_map_sharp.mrc z flip in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 150658 points  
correlation = 0.5844, correlation about mean = 0.137, overlap = 2096  
steps = 40, shift = 0.00426, angle = 0.00543 degrees  
  
Position of cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
0.33587817 -0.94076135 -0.04641038 251.25064118  
0.88035145 0.33106703 -0.33967035 18.34533333  
0.33491369 0.07323041 0.93939881 -43.33326978  
Axis 0.21664667 -0.20007856 0.95552749  
Axis point 116.07050226 182.97812112 0.00000000  
Rotation angle (degrees) 72.35177894  
Shift along axis 9.35597705  
  

> fitmap #3 inMap #4

Fit map cryosparc_P51_J45_004_volume_map_sharp.mrc z flip in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 150658 points  
correlation = 0.5844, correlation about mean = 0.137, overlap = 2096  
steps = 44, shift = 0.0053, angle = 0.0141 degrees  
  
Position of cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
0.33565996 -0.94084078 -0.04637893 251.28865399  
0.88040249 0.33084585 -0.33975355 18.38795071  
0.33499827 0.07320953 0.93937028 -43.33461726  
Axis 0.21666245 -0.20009082 0.95552135  
Axis point 116.06276598 182.98090196 0.00000000  
Rotation angle (degrees) 72.36584551  
Shift along axis 9.35840456  
  

> fitmap #3 inMap #4

Fit map cryosparc_P51_J45_004_volume_map_sharp.mrc z flip in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 150658 points  
correlation = 0.5844, correlation about mean = 0.1371, overlap = 2096  
steps = 40, shift = 0.00492, angle = 0.0126 degrees  
  
Position of cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
0.33583717 -0.94077221 -0.04648701 251.27326997  
0.88034013 0.33105070 -0.33971560 18.35793954  
0.33498456 0.07316475 0.93937866 -43.32733082  
Axis 0.21663316 -0.20015337 0.95551489  
Axis point 116.07125783 182.99372331 0.00000000  
Rotation angle (degrees) 72.35410815  
Shift along axis 9.35980944  
  

> fitmap #1 inMap #4

Fit map cryosparc_P51_J44_003_volume_map_sharp.mrc in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 149543 points  
correlation = 0.6299, correlation about mean = 0.1873, overlap = 2317  
steps = 308, shift = 6.18, angle = 21.2 degrees  
  
Position of cryosparc_P51_J44_003_volume_map_sharp.mrc (#1) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
-0.55192560 0.72492528 0.41214252 58.49024127  
-0.79287993 -0.60929731 0.00990989 350.69951526  
0.25830126 -0.32131001 0.91106549 33.12661736  
Axis -0.21216765 0.09854523 -0.97225188  
Axis point 112.50363351 163.10767982 0.00000000  
Rotation angle (degrees) 128.68796467  
Shift along axis -10.05739045  
  

> fitmap #1 inMap #4

Fit map cryosparc_P51_J44_003_volume_map_sharp.mrc in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 149543 points  
correlation = 0.63, correlation about mean = 0.1871, overlap = 2317  
steps = 40, shift = 0.0752, angle = 0.0524 degrees  
  
Position of cryosparc_P51_J44_003_volume_map_sharp.mrc (#1) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
-0.55166782 0.72465058 0.41296991 58.37659507  
-0.79287041 -0.60930804 0.01001121 350.71615848  
0.25888052 -0.32190876 0.91068964 33.11922454  
Axis -0.21263015 0.09871069 -0.97213405  
Axis point 112.44351415 163.14408984 0.00000000  
Rotation angle (degrees) 128.69269192  
Shift along axis -9.98951480  
  

> undo

[Repeated 6 time(s)]

> fitmap #1 inMap #3

Fit map cryosparc_P51_J44_003_volume_map_sharp.mrc in map
cryosparc_P51_J45_004_volume_map_sharp.mrc z flip using 149543 points  
correlation = 0.8532, correlation about mean = 0.5147, overlap = 4547  
steps = 172, shift = 5.44, angle = 22.5 degrees  
  
Position of cryosparc_P51_J44_003_volume_map_sharp.mrc (#1) relative to
cryosparc_P51_J45_004_volume_map_sharp.mrc z flip (#3) coordinates:  
Matrix rotation and translation  
-0.85515700 -0.43934775 0.27510010 297.93188344  
0.45066213 -0.89236511 -0.02425202 218.40219103  
0.25614480 0.10323792 0.96110966 -45.34441410  
Axis 0.14176661 0.02107797 0.98967568  
Axis point 126.01215649 145.39990134 0.00000000  
Rotation angle (degrees) 153.27894644  
Shift along axis 1.96400457  
  

> volume #3 level 0.1136

> volume #1 level 0.1058

> volume #1 level 0.0467

> volume #3 level 0.1298

> volume #1 level 0.0816

> save "/Users/ybzair/Desktop/p51 j44 align p51 j45.cxs" includeMaps true

> view matrix models
> #4,0.71096,-0.07719,-0.69899,178.02,0.4901,-0.65843,0.5712,73.281,-0.50433,-0.74867,-0.43028,303.72

> ui mousemode right "translate selected models"

> view matrix models
> #4,0.71096,-0.07719,-0.69899,162.89,0.4901,-0.65843,0.5712,74.139,-0.50433,-0.74867,-0.43028,376.11

> ui mousemode right "rotate selected models"

> view matrix models
> #4,0.69844,0.022152,-0.71532,152.32,0.66592,-0.38626,0.63824,-1.6931,-0.26216,-0.92212,-0.28453,345.4

> view matrix models
> #4,0.37528,-0.19303,-0.90659,259.68,0.022648,-0.97587,0.21716,242.49,-0.92664,-0.10203,-0.36185,327.53

> view matrix models
> #4,0.086073,-0.12638,-0.98824,302.9,-0.4732,-0.87808,0.071081,320.01,-0.87674,0.46152,-0.13538,200.65

> ui mousemode right "translate selected models"

> view matrix models
> #4,0.086073,-0.12638,-0.98824,306.09,-0.4732,-0.87808,0.071081,320.26,-0.87674,0.46152,-0.13538,224.53

> view matrix models
> #4,0.086073,-0.12638,-0.98824,300.53,-0.4732,-0.87808,0.071081,323.52,-0.87674,0.46152,-0.13538,232.74

> ui mousemode right "rotate selected models"

> view matrix models
> #4,-0.13702,-0.31273,-0.93991,352.02,-0.80476,-0.5181,0.28971,281.65,-0.57757,0.79609,-0.18068,147.94

> view matrix models
> #4,-0.41627,0.49872,-0.76026,241.34,0.0016449,0.83656,0.54788,-74.352,0.90924,0.22682,-0.34906,51.896

> view matrix models
> #4,-0.42582,0.51251,-0.74566,238.32,0.0085845,0.82636,0.56308,-76.178,0.90477,0.23337,-0.35628,52.672

> ui mousemode right "translate selected models"

> view matrix models
> #4,-0.42582,0.51251,-0.74566,239.51,0.0085845,0.82636,0.56308,-85.05,0.90477,0.23337,-0.35628,38.649

> view matrix models
> #4,-0.42582,0.51251,-0.74566,238.17,0.0085845,0.82636,0.56308,-83.918,0.90477,0.23337,-0.35628,38.486

> ui mousemode right "rotate selected models"

> view matrix models
> #4,0.044277,0.79881,-0.59995,106.78,0.99059,0.042731,0.13,-35.844,0.12948,-0.60006,-0.78941,339.51

> view matrix models
> #4,-0.25249,0.70667,-0.66096,171.6,0.65259,0.62871,0.4229,-122.3,0.7144,-0.32456,-0.61991,189.97

> view matrix models
> #4,-0.35065,0.62691,-0.69572,202.71,0.60585,0.71835,0.34194,-116.51,0.71414,-0.3016,-0.6317,188.41

> view matrix models
> #4,0.19694,0.75063,-0.63069,97.491,0.88185,0.14548,0.44852,-85.979,0.42843,-0.64451,-0.63329,279.93

> view matrix models
> #4,-0.11923,0.67784,-0.72548,167.42,0.59388,0.63425,0.495,-126.24,0.79567,-0.37183,-0.47818,163.47

> view matrix models
> #4,-0.16043,0.75406,-0.63692,147.88,0.66785,0.55806,0.49248,-124.76,0.7268,-0.34636,-0.59313,187.3

> view matrix models
> #4,-0.2344,0.70074,-0.67381,171.98,0.38235,0.70371,0.59883,-123.37,0.89379,-0.11727,-0.43288,104.54

> view matrix models
> #4,-0.21455,0.60933,-0.76334,196.93,0.096822,0.79096,0.60416,-97.383,0.9719,0.055715,-0.2287,35.711

> view matrix models
> #4,-0.37419,0.59876,-0.70815,212.16,-0.014575,0.75973,0.65008,-84.343,0.92724,0.25357,-0.27556,19.665

> view matrix models
> #4,0.033636,0.75857,-0.65072,122.25,0.96549,0.14357,0.21727,-61.123,0.25824,-0.63558,-0.72757,317.14

> view matrix models
> #4,-0.57979,-0.79434,-0.1813,366.92,0.49344,-0.16526,-0.85393,219.01,0.64835,-0.58457,0.48778,64.473

> ui mousemode right "translate selected models"

> view matrix models
> #4,-0.57979,-0.79434,-0.1813,394.64,0.49344,-0.16526,-0.85393,233.02,0.64835,-0.58457,0.48778,65.402

> volume #2 level 0.1109

> ui mousemode right "rotate selected models"

> view matrix models
> #4,-0.46683,0.6543,0.59495,40.214,-0.7061,0.12928,-0.69621,331.75,-0.53244,-0.74511,0.40165,267.9

> view matrix models
> #4,-0.26834,0.85055,0.45228,5.4637,-0.91361,-0.075817,-0.39947,344.94,-0.30548,-0.5204,0.79741,140.49

> view matrix models
> #4,0.80051,0.50491,0.32287,-71.797,-0.48705,0.86201,-0.14045,104.29,-0.34924,-0.044823,0.93596,53.66

> view matrix models
> #4,0.9889,-0.11011,0.099813,28.964,0.11454,0.99262,-0.039836,-15.084,-0.09469,0.050826,0.99421,-5.3543

> view matrix models
> #4,0.87894,0.36214,0.31036,-59.409,-0.361,0.93041,-0.063284,64.339,-0.31168,-0.056417,0.94851,48.183

> ui mousemode right "translate selected models"

> view matrix models
> #4,0.87894,0.36214,0.31036,-133.72,-0.361,0.93041,-0.063284,19.054,-0.31168,-0.056417,0.94851,45.218

> view matrix models
> #4,0.87894,0.36214,0.31036,-135.51,-0.361,0.93041,-0.063284,0.89301,-0.31168,-0.056417,0.94851,26.929

> view matrix models
> #4,0.87894,0.36214,0.31036,-126.53,-0.361,0.93041,-0.063284,2.1715,-0.31168,-0.056417,0.94851,28.696

> ui mousemode right "translate selected models"

> ui mousemode right "rotate selected models"

> view matrix models
> #4,0.65676,0.61325,0.43885,-153.25,-0.53824,0.78881,-0.29678,84.744,-0.52817,-0.041294,0.84814,72.41

> view matrix models
> #4,0.78554,0.5262,0.32564,-140.45,-0.51057,0.84846,-0.1394,47.271,-0.34965,-0.05676,0.93516,36.145

> ui tool show "Fit in Map"

> fitmap #2 inMap #4

Fit map cryosparc_P51_J45_004_volume_map_sharp.mrc in map
cryosparc_P51_J46_004_volume_map_sharp.mrc using 199306 points  
correlation = 0.7834, correlation about mean = 0.3732, overlap = 4012  
steps = 144, shift = 8.97, angle = 12.3 degrees  
  
Position of cryosparc_P51_J45_004_volume_map_sharp.mrc (#2) relative to
cryosparc_P51_J46_004_volume_map_sharp.mrc (#4) coordinates:  
Matrix rotation and translation  
0.99268441 0.07042920 -0.09806822 3.79469643  
0.06669609 -0.99693709 -0.04084207 289.65143813  
-0.10064433 0.03400252 -0.99434126 310.36826148  
Axis 0.99816878 0.03435630 -0.04978678  
Axis point 0.00000000 141.84585328 158.00008328  
Rotation angle (degrees) 177.85142351  
Shift along axis -1.71313580  
  

> volume #2 level 0.1028

> volume #4 level 0.09572

> volume #2 level 0.1244

> volume #4 level 0.1247

[Repeated 1 time(s)]

> volume #2 level 0.1271

> save "/Users/ybzair/Desktop/p51 j45 align p51 j46.cxs" includeMaps true

——— End of log from Wed Jun 25 16:17:47 2025 ———

opened ChimeraX session  

> open "D:\iHBUT\湖北工业大学\结构生物学\Cryo-EM\200KV-WD\p51 j45 align p51 j46.cxs"
> format session

Unable to restore session, resetting.  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 700, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 700, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 320, in interceptRequest  
self._callback(info)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 93, in _intercept  
return interceptor(request_info, *args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 353, in intercept  
chimerax_intercept(*args, view=view, session=session)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 455, in chimerax_intercept  
session.ui.thread_safe(defer, session, qurl.url(no_formatting), from_dir)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line
364, in thread_safe  
func(*args, **kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 446, in defer  
cxcmd(session, topic)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 464, in cxcmd  
run(session, cmd)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 118, in cmd_open  
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 193, in provider_open  
models, status = collated_open(session, None, [data], data_format,
_add_models,  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 458, in collated_open  
return remember_data_format()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 428, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 26, in open  
return cxs_open(session, data, **kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 1004, in open  
session.restore(stream, path=path, resize_window=resize_window)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 742, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
AttributeError: 'list' object has no attribute 'values'  
  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
  
See log for complete Python traceback.  
  

> open "D:\iHBUT\湖北工业大学\结构生物学\Cryo-EM\200KV-WD\p51 j45 align p51 j46.cxs"
> format session

Unable to restore session, resetting.  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 700, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 700, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 320, in interceptRequest  
self._callback(info)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 93, in _intercept  
return interceptor(request_info, *args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 353, in intercept  
chimerax_intercept(*args, view=view, session=session)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 455, in chimerax_intercept  
session.ui.thread_safe(defer, session, qurl.url(no_formatting), from_dir)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line
364, in thread_safe  
func(*args, **kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 446, in defer  
cxcmd(session, topic)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 464, in cxcmd  
run(session, cmd)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 118, in cmd_open  
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 193, in provider_open  
models, status = collated_open(session, None, [data], data_format,
_add_models,  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 458, in collated_open  
return remember_data_format()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 428, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 26, in open  
return cxs_open(session, data, **kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 1004, in open  
session.restore(stream, path=path, resize_window=resize_window)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 742, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
AttributeError: 'list' object has no attribute 'values'  
  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
  
See log for complete Python traceback.  
  

> open "D:\iHBUT\湖北工业大学\结构生物学\Cryo-EM\200KV-WD\p51 j45 align p51 j46.cxs"
> format session

Unable to restore session, resetting.  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 700, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 700, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 320, in interceptRequest  
self._callback(info)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 93, in _intercept  
return interceptor(request_info, *args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 353, in intercept  
chimerax_intercept(*args, view=view, session=session)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 455, in chimerax_intercept  
session.ui.thread_safe(defer, session, qurl.url(no_formatting), from_dir)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line
364, in thread_safe  
func(*args, **kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 446, in defer  
cxcmd(session, topic)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 464, in cxcmd  
run(session, cmd)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 118, in cmd_open  
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 193, in provider_open  
models, status = collated_open(session, None, [data], data_format,
_add_models,  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 458, in collated_open  
return remember_data_format()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 428, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 26, in open  
return cxs_open(session, data, **kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 1004, in open  
session.restore(stream, path=path, resize_window=resize_window)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 742, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
AttributeError: 'list' object has no attribute 'values'  
  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
  
See log for complete Python traceback.  
  

> open "D:\iHBUT\湖北工业大学\结构生物学\Cryo-EM\200KV-WD\p51 j45 align p51 j46.cxs"
> format session

Unable to restore session, resetting.  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 700, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 700, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 320, in interceptRequest  
self._callback(info)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 93, in _intercept  
return interceptor(request_info, *args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 353, in intercept  
chimerax_intercept(*args, view=view, session=session)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 455, in chimerax_intercept  
session.ui.thread_safe(defer, session, qurl.url(no_formatting), from_dir)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line
364, in thread_safe  
func(*args, **kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 446, in defer  
cxcmd(session, topic)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 464, in cxcmd  
run(session, cmd)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 118, in cmd_open  
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 193, in provider_open  
models, status = collated_open(session, None, [data], data_format,
_add_models,  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 458, in collated_open  
return remember_data_format()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 428, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 26, in open  
return cxs_open(session, data, **kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 1004, in open  
session.restore(stream, path=path, resize_window=resize_window)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 742, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
AttributeError: 'list' object has no attribute 'values'  
  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
  
See log for complete Python traceback.  
  

> open "D:\iHBUT\湖北工业大学\结构生物学\Cryo-EM\200KV-WD\p51 j45 align p51 j46.cxs"
> format session

Unable to restore session, resetting.  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 700, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 700, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 320, in interceptRequest  
self._callback(info)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 93, in _intercept  
return interceptor(request_info, *args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 353, in intercept  
chimerax_intercept(*args, view=view, session=session)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 455, in chimerax_intercept  
session.ui.thread_safe(defer, session, qurl.url(no_formatting), from_dir)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-packages\chimerax\ui\gui.py", line
364, in thread_safe  
func(*args, **kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 446, in defer  
cxcmd(session, topic)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\ui\widgets\htmlview.py", line 464, in cxcmd  
run(session, cmd)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 118, in cmd_open  
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 193, in provider_open  
models, status = collated_open(session, None, [data], data_format,
_add_models,  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 458, in collated_open  
return remember_data_format()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 428, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 26, in open  
return cxs_open(session, data, **kw)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 1004, in open  
session.restore(stream, path=path, resize_window=resize_window)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 742, in restore  
self.reset()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\core\session.py", line 541, in reset  
sm.reset_state(container, self)  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 149, in reset_state  
self.clear()  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
AttributeError: 'list' object has no attribute 'values'  
  
AttributeError: 'list' object has no attribute 'values'  
  
File "D:\UCSF Chimera\ChimeraX\bin\lib\site-
packages\chimerax\bond_rot\manager.py", line 45, in delete_all_rotations  
for rotater in self.bond_rotaters.values():  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 Core Profile Context 23.10.24.02.230811
OpenGL renderer: AMD Radeon(TM) Graphics
OpenGL vendor: ATI Technologies Inc.

Python: 3.9.11
Locale: zh_CN.cp936
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: windows

Manufacturer: LENOVO
Model: 82SN
OS: Microsoft Windows 11 家庭中文版 (Build 26100)
Memory: 14,702,026,752
MaxProcessMemory: 137,438,953,344
CPU: 16 AMD Ryzen 7 6800H with Radeon Graphics         
OSLanguage: zh-CN

Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    asttokens: 2.1.0
    Babel: 2.11.0
    backcall: 0.2.0
    blockdiag: 3.0.0
    build: 0.8.0
    certifi: 2022.9.24
    cftime: 1.6.2
    charset-normalizer: 2.1.1
    ChimeraX-AddCharge: 1.4
    ChimeraX-AddH: 2.2.1
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2.1
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.6
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.3
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.41.5
    ChimeraX-AtomicLibrary: 8.0.3
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.3
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.1.2
    ChimeraX-BondRot: 2.0.1
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.7.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.1
    ChimeraX-ChangeChains: 1.0.2
    ChimeraX-CheckWaters: 1.3
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.2.4
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.2
    ChimeraX-CommandLine: 1.2.4
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.5
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.2
    ChimeraX-Dicom: 1.1
    ChimeraX-DistMonitor: 1.3
    ChimeraX-DockPrep: 1.0
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ExperimentalCommands: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.2
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1
    ChimeraX-Hbonds: 2.4
    ChimeraX-Help: 1.2.1
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-Label: 1.1.7
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.5
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.2
    ChimeraX-Map: 1.1.2
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.1
    ChimeraX-MatchMaker: 2.0.9
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.8
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.6
    ChimeraX-ModelPanel: 1.3.6
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.1
    ChimeraX-MouseModes: 1.1.1
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.9.1
    ChimeraX-PDB: 2.6.8
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    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: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.7.2
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.1
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.10
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.1.3
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.1
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.24.3
    ChimeraX-uniprot: 2.2.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.1.4
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.1
    ChimeraX-WebServices: 1.1.0
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.5
    comtypes: 1.1.10
    cxservices: 1.2
    cycler: 0.11.0
    Cython: 0.29.32
    debugpy: 1.6.4
    decorator: 5.1.1
    docutils: 0.19
    entrypoints: 0.4
    executing: 1.2.0
    filelock: 3.7.1
    fonttools: 4.38.0
    funcparserlib: 1.0.1
    grako: 3.16.5
    h5py: 3.7.0
    html2text: 2020.1.16
    idna: 3.4
    ihm: 0.33
    imagecodecs: 2022.7.31
    imagesize: 1.4.1
    importlib-metadata: 5.1.0
    ipykernel: 6.15.3
    ipython: 8.4.0
    ipython-genutils: 0.2.0
    jedi: 0.18.1
    Jinja2: 3.1.2
    jupyter-client: 7.3.4
    jupyter-core: 5.1.0
    kiwisolver: 1.4.4
    line-profiler: 3.5.1
    lxml: 4.9.1
    lz4: 4.0.2
    MarkupSafe: 2.1.1
    matplotlib: 3.5.2
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.5.6
    netCDF4: 1.6.0
    networkx: 2.8.5
    numexpr: 2.8.4
    numpy: 1.23.1
    openvr: 1.23.701
    packaging: 21.3
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pickleshare: 0.7.5
    Pillow: 9.2.0
    pip: 22.2.2
    pkginfo: 1.8.3
    platformdirs: 2.5.4
    prompt-toolkit: 3.0.33
    psutil: 5.9.1
    pure-eval: 0.2.2
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.12.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.9
    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: 2022.6
    pywin32: 303
    pyzmq: 24.0.1
    qtconsole: 5.3.1
    QtPy: 2.3.0
    RandomWords: 0.4.0
    requests: 2.28.1
    scipy: 1.9.0
    setuptools: 65.1.1
    sfftk-rw: 0.7.2
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 5.1.1
    sphinx-autodoc-typehints: 1.19.1
    sphinxcontrib-applehelp: 1.0.2
    sphinxcontrib-blockdiag: 3.0.0
    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
    stack-data: 0.6.2
    tables: 3.7.0
    tifffile: 2022.7.31
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.2
    traitlets: 5.3.0
    urllib3: 1.26.13
    wcwidth: 0.2.5
    webcolors: 1.12
    wheel: 0.37.1
    wheel-filename: 1.4.1
    WMI: 1.5.1
    zipp: 3.11.0

[Tom Goddard]

In old ChimeraX 1.5.

[Eric Pettersen]

Duplicate of #18447