glDrawBuffer: invalid operation

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Linux-4.18.0-513.18.1.el8_9.x86_64-x86_64-with-glibc2.28
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.  
How to cite UCSF ChimeraX  

> open /data/gautamR/Downloads/cryosparc_P27_J46_class_01_final_volume.mrc

Opened cryosparc_P27_J46_class_01_final_volume.mrc as #1, grid size
128,128,128, pixel 1.95, shown at level 0.132, step 1, values float32  

> volume #1 level 0.2942

> volume #1 level 0.3864

> open /data/gautamR/Downloads/8act.pdb

8act.pdb title:  
Structure of the human β-cardiac myosin folded-back off state [more info...]  
  
Chain information for 8act.pdb #2  
---  
Chain | Description | UniProt  
A B | myosin-7 | MYH7_HUMAN  
C D | myosin light chain 3 | MYL3_HUMAN  
E F | myosin regulatory light chain 2, ventricular/cardiac muscle isoform |
MLRV_HUMAN  
  
Non-standard residues in 8act.pdb #2  
---  
ADP — adenosine-5'-diphosphate  
MG — magnesium ion  
PO4 — phosphate ion  
  

> select clear

> volume #1 level 0.2419

> transparency 50

> select add #2

18834 atoms, 19195 bonds, 19 pseudobonds, 2328 residues, 3 models selected  

> ui mousemode right "translate selected models"

> view matrix models #2,1,0,0,-14.648,0,1,0,-106.31,0,0,1,-11.954

> view matrix models #2,1,0,0,-26.561,0,1,0,-57.37,0,0,1,-114.03

> view matrix models #2,1,0,0,-34.367,0,1,0,-52.091,0,0,1,-107.08

> ui mousemode right translate

> ui mousemode right "move picked models"

> view matrix models #2,1,0,0,-64.789,0,1,0,-85.639,0,0,1,-18.609

> open /data/gautamR/Downloads/cryosparc_P27_J48_002_volume_map_sharp.mrc

Opened cryosparc_P27_J48_002_volume_map_sharp.mrc as #3, grid size
300,300,300, pixel 0.83, shown at level 0.0737, step 2, values float32  

> open /data/gautamR/Downloads/cryosparc_P27_J48_002_volume_mask_refine.mrc

Opened cryosparc_P27_J48_002_volume_mask_refine.mrc as #4, grid size
300,300,300, pixel 0.83, shown at level 1, step 2, values float32  

> volume #4 level 0.1544

> volume #3 level 0.01885

> transparency 0

> select subtract #2

Nothing selected  

> transparency 50

> view matrix models #4,1,0,0,0.018551,0,1,0,-2.5571,0,0,1,80.824

> view matrix models #4,1,0,0,15.37,0,1,0,-4.7376,0,0,1,60.282

> volume #3 level 0.0207

> select add #3

2 models selected  

> ui mousemode right "translate selected models"

> view matrix models #3,1,0,0,38.083,0,1,0,124.12,0,0,1,213.33

> volume #3 level 0.07681

> volume #3 level 0.02255

> view matrix models #3,1,0,0,-8.9871,0,1,0,-7.1945,0,0,1,89.392

> ui mousemode right translate

> hide #!1 models

> hide #!4 models

> ui mousemode right "translate selected models"

> view matrix models #3,1,0,0,-0.86083,0,1,0,14.439,0,0,1,73.588

> view matrix models #3,1,0,0,23.318,0,1,0,2.5054,0,0,1,66.184

> ui mousemode right "rotate selected models"

> view matrix models
> #3,0.94989,-0.31228,0.013889,65.478,0.29045,0.89815,0.33009,-63.086,-0.11556,-0.30952,0.94385,125.01

> ui mousemode right "translate selected models"

> volume #3 level 0.05338

> ui mousemode right "rotate selected models"

> ui mousemode right "translate selected models"

> view matrix models
> #3,0.94989,-0.31228,0.013889,76.438,0.29045,0.89815,0.33009,-14.795,-0.11556,-0.30952,0.94385,236.05

> ui mousemode right "rotate selected models"

> view matrix models
> #3,0.90306,-0.42899,0.021297,95.674,-0.016941,0.013971,0.99976,47.178,-0.42918,-0.9032,0.0053495,467.16

> view matrix models
> #3,0.96818,-0.2481,-0.032711,72.208,0.21909,0.77719,0.58989,-23.775,-0.12093,-0.57829,0.80682,286.51

> view matrix models
> #3,0.96604,-0.25669,-0.029624,73.133,0.21245,0.72378,0.65651,-24.892,-0.14708,-0.64051,0.75373,304.13

> volume #3 level 0.02194

> ui mousemode right "translate selected models"

> view matrix models
> #3,0.96604,-0.25669,-0.029624,62.561,0.21245,0.72378,0.65651,-75.558,-0.14708,-0.64051,0.75373,203.54

> view matrix models
> #3,0.96604,-0.25669,-0.029624,62.026,0.21245,0.72378,0.65651,-77.987,-0.14708,-0.64051,0.75373,200.78

> volume #3 level 0.05277

> hide #!2 models

> volume #3 level 0.1157

> view matrix models
> #3,0.96604,-0.25669,-0.029624,52.762,0.21245,0.72378,0.65651,-102.28,-0.14708,-0.64051,0.75373,193.85

> ui mousemode right "rotate selected models"

> view matrix models
> #3,-0.87863,-0.41745,-0.23184,330.44,0.46402,-0.63187,-0.62082,186.32,0.11267,-0.65305,0.74889,163.09

> volume #3 level 0.0318

> view matrix models
> #3,-0.87559,-0.3497,-0.33325,334.64,0.47998,-0.55201,-0.68184,182.31,0.054477,-0.75696,0.65118,195.41

> show #!2 models

> view matrix models
> #3,-0.81651,-0.40673,-0.40973,343.53,0.57578,-0.52187,-0.62939,159.72,0.042164,-0.74982,0.6603,194.99

> ui mousemode right "translate selected models"

> view matrix models
> #3,-0.81651,-0.40673,-0.40973,352.57,0.57578,-0.52187,-0.62939,184.37,0.042164,-0.74982,0.6603,198.77

> view matrix models
> #3,-0.81651,-0.40673,-0.40973,352.91,0.57578,-0.52187,-0.62939,183.2,0.042164,-0.74982,0.6603,205.62

> fitmap #2 inMap #3

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J48_002_volume_map_sharp.mrc
(#3) using 18834 atoms  
average map value = 0.04967, steps = 400  
shifted from previous position = 18.7  
rotated from previous position = 37.7 degrees  
atoms outside contour = 10070, contour level = 0.031802  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J48_002_volume_map_sharp.mrc (#3) coordinates:  
Matrix rotation and translation  
-0.97226138 0.17522344 -0.15493365 326.90618102  
-0.11079079 -0.92838659 -0.35471621 410.55103583  
-0.20599293 -0.32771167 0.92204763 45.96260858  
Axis 0.09254841 0.17498738 -0.98021131  
Axis point 180.60821539 197.34607093 0.00000000  
Rotation angle (degrees) 171.61093747  
Shift along axis 57.04282772  
  

> fitmap #2 inMap #3

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J48_002_volume_map_sharp.mrc
(#3) using 18834 atoms  
average map value = 0.04967, steps = 44  
shifted from previous position = 0.0158  
rotated from previous position = 0.00816 degrees  
atoms outside contour = 10070, contour level = 0.031802  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J48_002_volume_map_sharp.mrc (#3) coordinates:  
Matrix rotation and translation  
-0.97225865 0.17513884 -0.15504637 326.93105705  
-0.11067167 -0.92840066 -0.35471659 410.52792939  
-0.20606981 -0.32771704 0.92202854 45.98462412  
Axis 0.09259676 0.17498836 -0.98020657  
Axis point 180.61137310 197.34422101 0.00000000  
Rotation angle (degrees) 171.61691510  
Shift along axis 57.03593710  
  

> volume #3 level 0.0614

> view matrix models
> #3,-0.81651,-0.40673,-0.40973,347.34,0.57578,-0.52187,-0.62939,181.75,0.042164,-0.74982,0.6603,90.296

> ui mousemode right "rotate selected models"

> view matrix models
> #3,-0.83986,-0.088153,-0.53559,327.96,0.51028,0.20816,-0.83444,128.25,0.18505,-0.97411,-0.12985,199.59

> view matrix models
> #3,-0.89744,0.19794,-0.39424,282.86,0.3782,0.80527,-0.45662,25.118,0.22708,-0.55889,-0.79755,229.14

> view matrix models
> #3,-0.93471,0.28429,-0.21329,254.2,0.29853,0.95368,-0.037109,-35.954,0.19287,-0.098361,-0.97628,200.77

> view matrix models
> #3,-0.91741,0.25411,-0.30625,267.45,0.33493,0.90865,-0.24937,-8.1747,0.2149,-0.33134,-0.91871,218.7

> view matrix models
> #3,-0.97061,0.22223,0.092348,227.38,0.23034,0.74681,0.62388,-86.412,0.069675,0.62681,-0.77605,103.66

> volume #3 level 0.1039

> view matrix models
> #3,-0.89458,0.32385,0.30797,178.37,0.24181,0.93029,-0.27586,3.5716,-0.37583,-0.17231,-0.91053,272.92

> view matrix models
> #3,-0.97108,0.20325,0.12528,225.56,0.057944,0.70964,-0.70218,107.1,-0.23162,-0.67461,-0.70089,288.3

> view matrix models
> #3,-0.90474,0.31633,0.28527,183.42,0.21825,0.91938,-0.32727,14.352,-0.3658,-0.23383,-0.90084,277.79

> view matrix models
> #3,-0.8617,-0.45027,0.23394,276.19,0.23673,-0.76454,-0.59953,247.91,0.44881,-0.46124,0.7654,-8.5691

> view matrix models
> #3,-0.64302,-0.07114,0.76254,136.38,0.76585,-0.05928,0.64029,-60.059,-0.00034719,0.9957,0.092601,-41.084

> view matrix models
> #3,0.49787,0.84255,-0.2055,3.9626,-0.86684,0.47616,-0.14786,182.75,-0.026729,0.25175,0.96742,-58.934

> view matrix models
> #3,0.5264,0.73855,-0.42124,39.979,-0.77212,0.20781,-0.60053,259.89,-0.35598,0.64137,0.67964,-27.445

> view matrix models
> #3,0.77912,0.21315,-0.58952,91.96,-0.53793,0.7102,-0.45415,151.52,0.32188,0.67096,0.66799,-115.7

> view matrix models
> #3,0.69147,0.52958,-0.49134,52.847,-0.69382,0.67629,-0.24749,149.35,0.20123,0.51203,0.83506,-102.39

> view matrix models
> #3,0.59555,0.39516,-0.69941,107.36,-0.66581,0.72995,-0.15452,127.65,0.44947,0.5577,0.69782,-122.12

> ui mousemode right "translate selected models"

> view matrix models
> #3,0.59555,0.39516,-0.69941,113.58,-0.66581,0.72995,-0.15452,126.66,0.44947,0.5577,0.69782,34.338

> view matrix models
> #3,0.59555,0.39516,-0.69941,103.21,-0.66581,0.72995,-0.15452,107.37,0.44947,0.5577,0.69782,-5.7397

> volume #3 level 0.0318

> ui mousemode right "rotate selected models"

> view matrix models
> #3,0.95842,-0.24293,-0.14971,64.188,0.24454,0.96961,-0.0078813,-57.333,0.14707,-0.029056,0.9887,67.383

> fitmap #2 inMap #3

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J48_002_volume_map_sharp.mrc
(#3) using 18834 atoms  
average map value = 0.05044, steps = 1072  
shifted from previous position = 31.7  
rotated from previous position = 63.8 degrees  
atoms outside contour = 10496, contour level = 0.031802  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J48_002_volume_map_sharp.mrc (#3) coordinates:  
Matrix rotation and translation  
0.95763438 -0.05718337 0.28225177 -126.62180415  
0.28400363 0.34995056 -0.89267925 172.65802930  
-0.04772774 0.93502104 0.35136505 -138.38379718  
Axis 0.96789334 0.17474690 0.18068204  
Axis point 0.00000000 182.99198588 83.14008998  
Rotation angle (degrees) 70.76308341  
Shift along axis -117.38841177  
  

> volume #3 level 0.06695

> view matrix models
> #3,0.93181,-0.078339,-0.3544,73.91,-0.0065933,0.97261,-0.23233,3.5685,0.36289,0.21882,0.90577,20.028

> ui mousemode right "translate selected models"

> view matrix models
> #3,0.93181,-0.078339,-0.3544,76.512,-0.0065933,0.97261,-0.23233,-4.4468,0.36289,0.21882,0.90577,10.411

> fitmap #2 inMap #3

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J48_002_volume_map_sharp.mrc
(#3) using 18834 atoms  
average map value = 0.05044, steps = 208  
shifted from previous position = 12.4  
rotated from previous position = 22.2 degrees  
atoms outside contour = 13709, contour level = 0.066948  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J48_002_volume_map_sharp.mrc (#3) coordinates:  
Matrix rotation and translation  
0.95760768 -0.05716731 0.28234561 -126.63682467  
0.28407787 0.35009946 -0.89259724 172.59477848  
-0.04782164 0.93496628 0.35149797 -138.38252045  
Axis 0.96786655 0.17485457 0.18072138  
Axis point 0.00000000 182.97818458 83.13333130  
Rotation angle (degrees) 70.75534234  
Shift along axis -117.39724028  
  

> volume #3 level 0.005288

> show #!4 models

> volume #4 level 0.03232

> hide #!3 models

> select subtract #3

Nothing selected  

> select add #4

2 models selected  

> view matrix models #4,1,0,0,43.164,0,1,0,45.412,0,0,1,35.534

> view matrix models #4,1,0,0,89.728,0,1,0,119.93,0,0,1,-15.786

> volume #4 level 0.1239

> view matrix models #4,1,0,0,82.764,0,1,0,89.434,0,0,1,-28.206

> ui mousemode right "rotate selected models"

> view matrix models
> #4,0.82203,0.070453,0.56507,26.067,-0.56202,0.26015,0.78515,151.9,-0.091689,-0.96299,0.25345,193.36

> view matrix models
> #4,0.99819,0.039143,0.045648,72.544,-0.044141,0.99248,0.11419,81.645,-0.040835,-0.116,0.99241,-8.046

> view matrix models
> #4,0.82459,-0.55781,-0.094386,184.29,0.073307,0.27078,-0.95985,288.51,0.56097,0.78456,0.26417,-102.12

> view matrix models
> #4,0.59194,-0.42918,0.68221,101.01,-0.69789,-0.69635,0.16747,362.15,0.40318,-0.57524,-0.71172,204.54

> view matrix models
> #4,0.89831,0.13268,0.41886,27.173,-0.41356,0.57724,0.7041,104.86,-0.14836,-0.80572,0.57341,141.47

> view matrix models
> #4,-0.2368,-0.83098,-0.50339,406.09,0.45543,-0.55261,0.698,128.65,-0.8582,-0.063968,0.50931,152.49

> view matrix models
> #4,-0.88896,-0.39484,0.23206,345.43,0.41831,-0.4937,0.76242,118.26,-0.18646,0.77483,0.60404,-47.052

> view matrix models
> #4,-0.91881,-0.39364,0.029091,374.76,0.35767,-0.79915,0.48314,197.98,-0.16693,0.45432,0.87506,-45.325

> select subtract #4

Nothing selected  

> select add #2

18834 atoms, 19195 bonds, 19 pseudobonds, 2328 residues, 3 models selected  

> view matrix models
> #2,0.88996,-0.25622,-0.37725,83.565,-0.29134,0.31699,-0.90257,267.01,0.35085,0.91316,0.20746,-118.23

> view matrix models
> #2,0.88904,-0.27201,-0.36827,85.151,-0.29237,0.28169,-0.91387,276.9,0.35232,0.92014,0.17091,-112.35

> select subtract #2

Nothing selected  

> select add #2

18834 atoms, 19195 bonds, 19 pseudobonds, 2328 residues, 3 models selected  

> select add #4

18834 atoms, 19195 bonds, 19 pseudobonds, 2328 residues, 5 models selected  

> view matrix models
> #2,0.8967,0.39171,0.20613,-116.78,-0.34868,0.33824,0.87408,21.536,0.27267,-0.85566,0.43989,180.61,#4,-0.8053,0.35318,0.4762,135.8,0.39357,0.91915,-0.016135,-118,-0.4434,0.17442,-0.87919,287.05

> view matrix models
> #2,0.18063,0.56277,-0.80663,149.14,0.82482,0.36007,0.43592,-153.13,0.53577,-0.74406,-0.39915,233.66,#4,-0.052415,-0.59194,0.80428,200.56,-0.74498,0.55951,0.36325,73.52,-0.66502,-0.58013,-0.47031,435.1

> select subtract #2

2 models selected  

> ui mousemode right "translate selected models"

> view matrix models
> #4,-0.052415,-0.59194,0.80428,99.861,-0.74498,0.55951,0.36325,152.46,-0.66502,-0.58013,-0.47031,316.47

> show #!3 models

> select subtract #4

Nothing selected  

> select add #3

2 models selected  

> view matrix models
> #3,0.93181,-0.078339,-0.3544,67.822,-0.0065933,0.97261,-0.23233,70.261,0.36289,0.21882,0.90577,-103.14

> select subtract #3

Nothing selected  

> volume #3 level 0.01392

> hide #!4 models

> hide #!2 models

> volume #3 level 0.02194

> ui mousemode right "rotate selected models"

> volume #3 level 0.05893

> volume #3 level 0.02995

> show #!2 models

> ui mousemode right "move picked models"

> view matrix models
> #3,0.93181,-0.078339,-0.3544,83.448,-0.0065933,0.97261,-0.23233,81.769,0.36289,0.21882,0.90577,-110.01

> ui mousemode right "rotate selected models"

> select add #3

2 models selected  

> view matrix models
> #3,-0.077878,-0.54636,-0.83392,330.26,-0.50812,-0.69792,0.5047,255.02,-0.85776,0.46304,-0.22326,159.84

> view matrix models
> #3,-0.11727,-0.61265,-0.78161,336.74,0.77888,0.43153,-0.45511,73.88,0.61611,-0.66215,0.42657,23.902

> view matrix models
> #3,0.76557,-0.5526,0.32945,75.978,0.13264,0.63666,0.75966,-20.495,-0.62953,-0.53787,0.5607,152.46

> view matrix models
> #3,0.7837,-0.072832,0.61685,-20.369,0.60802,0.29296,-0.73789,148.18,-0.12697,0.95335,0.27388,-55.956

> view matrix models
> #3,0.14305,-0.88781,0.43741,182.98,0.83393,-0.12989,-0.53637,144.71,0.53301,0.4415,0.72179,-135.61

> view matrix models
> #3,-0.041746,0.048651,0.99794,23.335,0.65516,-0.75277,0.064104,167.26,0.75434,0.65649,-0.00044898,-99.145

> volume #3 level 0.08236

> view matrix models
> #3,0.20738,0.94956,-0.23524,38.645,0.8244,-0.040179,0.56458,-4.1603,0.52665,-0.31101,-0.79115,147.42

> volume #3 level 0.02995

> open /data/gautamR/Downloads/cryosparc_P27_J54_001_volume_map_sharp.mrc

Opened cryosparc_P27_J54_001_volume_map_sharp.mrc as #5, grid size
300,300,300, pixel 0.83, shown at level 0.0768, step 2, values float32  

> select subtract #3

Nothing selected  

> select add #5

2 models selected  

> view matrix models
> #5,0.51776,0.28583,-0.80637,129.76,0.44744,-0.89383,-0.029535,169.07,-0.72919,-0.34551,-0.59068,334.44

> volume #5 level 0.026

> hide #!3 models

> ui mousemode right "translate selected models"

> view matrix models
> #5,0.51776,0.28583,-0.80637,161.75,0.44744,-0.89383,-0.029535,366,-0.72919,-0.34551,-0.59068,202.3

> ui mousemode right "rotate selected models"

> view matrix models
> #5,-0.11702,0.59211,-0.79732,205.78,0.50075,-0.65813,-0.56224,398.66,-0.85764,-0.46505,-0.21948,185.97

> view matrix models
> #5,0.14844,0.60841,-0.77962,167.33,0.56862,0.59249,0.57064,95.888,0.8091,-0.52801,-0.25801,-16.596

> ui mousemode right "translate selected models"

> view matrix models
> #5,0.14844,0.60841,-0.77962,147.49,0.56862,0.59249,0.57064,-53.625,0.8091,-0.52801,-0.25801,84.363

> view matrix models
> #5,0.14844,0.60841,-0.77962,141.31,0.56862,0.59249,0.57064,-51.043,0.8091,-0.52801,-0.25801,99.332

> view matrix models
> #5,0.14844,0.60841,-0.77962,142.35,0.56862,0.59249,0.57064,-46.062,0.8091,-0.52801,-0.25801,91.861

> volume #5 level 0.0156

> transparency sel 50

> view matrix models
> #5,0.14844,0.60841,-0.77962,142.91,0.56862,0.59249,0.57064,-48.539,0.8091,-0.52801,-0.25801,95.435

> view matrix models
> #5,0.14844,0.60841,-0.77962,146.01,0.56862,0.59249,0.57064,-43.72,0.8091,-0.52801,-0.25801,106.55

> fitmap #2 inMap #5

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J54_001_volume_map_sharp.mrc
(#5) using 18834 atoms  
average map value = 0.04993, steps = 200  
shifted from previous position = 17.6  
rotated from previous position = 8.9 degrees  
atoms outside contour = 7514, contour level = 0.015604  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J54_001_volume_map_sharp.mrc (#5) coordinates:  
Matrix rotation and translation  
0.95193891 -0.17873583 -0.24872839 6.35135399  
0.19854066 0.97844839 0.05674771 -138.42220915  
0.23322504 -0.10340305 0.96690946 -84.69866618  
Axis -0.25313676 -0.76178306 0.59632907  
Axis point 497.21805447 0.00000000 -16.26386350  
Rotation angle (degrees) 18.44127237  
Shift along axis 53.33165572  
  

> volume #5 level 0.03985

> ui mousemode right "rotate selected models"

> view matrix models
> #5,0.038061,0.86071,-0.50767,95.395,0.90641,0.18414,0.38015,-14.143,0.42068,-0.47463,-0.77315,215.91

> fitmap #2 inMap #5

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J54_001_volume_map_sharp.mrc
(#5) using 18834 atoms  
average map value = 0.04983, steps = 212  
shifted from previous position = 15.7  
rotated from previous position = 20.3 degrees  
atoms outside contour = 10995, contour level = 0.039854  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J54_001_volume_map_sharp.mrc (#5) coordinates:  
Matrix rotation and translation  
0.98101149 0.09129238 -0.17112032 -74.80915808  
-0.13723860 0.95018378 -0.27985051 5.09188095  
0.13704753 0.29802086 0.94467007 -153.17472458  
Axis 0.83310615 -0.44427972 -0.32946876  
Axis point 0.00000000 511.88213463 -95.34135510  
Rotation angle (degrees) 20.29277458  
Shift along axis -14.11990259  
  

> ui mousemode right "translate selected models"

> view matrix models
> #5,0.038061,0.86071,-0.50767,39.579,0.90641,0.18414,0.38015,-101.05,0.42068,-0.47463,-0.77315,334.23

> ui mousemode right "rotate selected models"

> view matrix models
> #5,-0.076229,-0.81166,-0.57914,264.02,0.78369,0.31033,-0.53807,16.545,0.61645,-0.49488,0.61244,135

> view matrix models
> #5,0.20739,-0.37262,-0.90451,216.13,-0.87648,-0.48144,-0.0026286,257.86,-0.43449,0.79333,-0.42644,248.52

> ui mousemode right "translate selected models"

> view matrix models
> #5,0.20739,-0.37262,-0.90451,275.52,-0.87648,-0.48144,-0.0026286,338.69,-0.43449,0.79333,-0.42644,121.18

> fitmap #2 inMap #5

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J54_001_volume_map_sharp.mrc
(#5) using 18834 atoms  
average map value = 0.05081, steps = 204  
shifted from previous position = 13.4  
rotated from previous position = 13.7 degrees  
atoms outside contour = 10702, contour level = 0.039854  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J54_001_volume_map_sharp.mrc (#5) coordinates:  
Matrix rotation and translation  
-0.95611939 0.22832175 -0.18358895 318.78879762  
-0.16400922 -0.93636246 -0.31036476 412.76414991  
-0.24276884 -0.26663548 0.93272120 39.75902554  
Axis 0.10955003 0.14825670 -0.98286252  
Axis point 182.34401989 193.35294322 0.00000000  
Rotation angle (degrees) 168.48725609  
Shift along axis 57.04071630  
  

> volume #5 level 0.01618

> surface dust #5 size 8.3

[Repeated 1 time(s)]

> view matrix models
> #5,0.20739,-0.37262,-0.90451,271.23,-0.87648,-0.48144,-0.0026286,338.12,-0.43449,0.79333,-0.42644,120.1

> fitmap #2 inMap #5

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J54_001_volume_map_sharp.mrc
(#5) using 18834 atoms  
average map value = 0.05081, steps = 72  
shifted from previous position = 4.46  
rotated from previous position = 0.00492 degrees  
atoms outside contour = 6364, contour level = 0.016181  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J54_001_volume_map_sharp.mrc (#5) coordinates:  
Matrix rotation and translation  
-0.95612108 0.22826375 -0.18365223 318.80939829  
-0.16393848 -0.93637966 -0.31035025 412.74836807  
-0.24280993 -0.26662475 0.93271357 39.76759079  
Axis 0.10957632 0.14824950 -0.98286068  
Axis point 182.34770375 193.34986872 0.00000000  
Rotation angle (degrees) 168.49106372  
Shift along axis 57.03769765  
  

> volume #5 level 0.01965

> surface dust #5 size 8.3

> ui mousemode right translate

> ui mousemode right "translate selected models"

> view matrix models
> #5,0.20739,-0.37262,-0.90451,288.41,-0.87648,-0.48144,-0.0026286,339.9,-0.43449,0.79333,-0.42644,115.62

> ui mousemode right "rotate selected models"

> view matrix models
> #5,0.52687,-0.28136,-0.80203,223.24,-0.7858,-0.52088,-0.33347,375.04,-0.32393,0.80593,-0.49553,108.65

> ui mousemode right "translate selected models"

> view matrix models
> #5,0.52687,-0.28136,-0.80203,217.9,-0.7858,-0.52088,-0.33347,374.18,-0.32393,0.80593,-0.49553,110.74

> ui mousemode right "rotate selected models"

> view matrix models
> #5,0.35755,-0.29284,-0.88679,251.89,-0.86814,-0.45422,-0.20003,359.82,-0.34423,0.84138,-0.41663,99.072

> fitmap #2 inMap #5

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J54_001_volume_map_sharp.mrc
(#5) using 18834 atoms  
average map value = 0.05081, steps = 140  
shifted from previous position = 11.6  
rotated from previous position = 11.4 degrees  
atoms outside contour = 7172, contour level = 0.019646  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J54_001_volume_map_sharp.mrc (#5) coordinates:  
Matrix rotation and translation  
-0.95612061 0.22824659 -0.18367602 318.82179073  
-0.16391763 -0.93638664 -0.31034019 412.74334566  
-0.24282588 -0.26661491 0.93271223 39.76864910  
Axis 0.10958635 0.14824414 -0.98286037  
Axis point 182.35188012 193.34830149 0.00000000  
Rotation angle (degrees) 168.49219047  
Shift along axis 57.03827000  
  

> volume #5 level 0.04216

> volume #5 level 0.01503

> surface dust #5 size 8.3

> volume #5 level 0.02196

> open /data/gautamR/Downloads/cryosparc_P27_J57_001_volume_map_sharp.mrc

Opened cryosparc_P27_J57_001_volume_map_sharp.mrc as #6, grid size
300,300,300, pixel 0.83, shown at level 0.0755, step 2, values float32  

> hide #!5 models

> select subtract #5

Nothing selected  

> ui mousemode right "translate selected models"

> select add #6

2 models selected  

> view matrix models #6,1,0,0,3.4849,0,1,0,9.6465,0,0,1,71.819

> view matrix models #6,1,0,0,6.7776,0,1,0,13.298,0,0,1,98.885

> ui mousemode right "rotate selected models"

> view matrix models
> #6,0.65105,0.097894,0.7527,-56.502,-0.10359,0.99383,-0.039651,32.384,-0.75193,-0.052161,0.65717,245.34

> view matrix models
> #6,-0.71383,0.078934,0.69585,127.95,-0.10693,0.96969,-0.21969,58.73,-0.6921,-0.23123,-0.68376,430.63

> view matrix models
> #6,-0.42797,-0.13161,-0.89416,319.9,0.10828,0.97475,-0.1953,27.426,0.89728,-0.18041,-0.40291,184.94

> view matrix models
> #6,0.37356,-0.12823,-0.9187,219.92,0.118,0.98892,-0.090054,11.022,0.92007,-0.074765,0.38456,68.652

> view matrix models
> #6,0.22383,-0.1357,-0.96514,245.94,0.12302,0.98627,-0.11014,13.265,0.96683,-0.094077,0.23745,83.788

> view matrix models
> #6,-0.080241,0.12347,0.9891,3.9112,-0.14112,0.9809,-0.1339,50.796,-0.98674,-0.15032,-0.061284,379.08

> view matrix models
> #6,0.35933,0.11863,0.92564,-43.722,-0.12909,0.98867,-0.076592,40.995,-0.92424,-0.091973,0.37057,308.85

> ui mousemode right "translate selected models"

> view matrix models
> #6,0.35933,0.11863,0.92564,-45.768,-0.12909,0.98867,-0.076592,10.829,-0.92424,-0.091973,0.37057,83.711

> ui mousemode right "rotate selected models"

> view matrix models
> #6,0.92848,0.22407,0.29617,-50.985,-0.068282,0.88689,-0.45691,63.917,-0.36505,0.40401,0.83876,-107.61

> view matrix models
> #6,0.82097,0.24115,0.51754,-67.558,-0.051546,0.93403,-0.35345,42.864,-0.56864,0.2635,0.77924,-56.968

> volume #6 level 0.03138

> view matrix models
> #6,0.096292,0.61909,0.77939,-52.73,-0.17966,0.78098,-0.59816,108.74,-0.979,-0.082428,0.18643,112.52

> ui mousemode right "translate selected models"

> view matrix models
> #6,0.096292,0.61909,0.77939,-43.121,-0.17966,0.78098,-0.59816,85.036,-0.979,-0.082428,0.18643,121.25

> view matrix models
> #6,0.096292,0.61909,0.77939,31.342,-0.17966,0.78098,-0.59816,-7.3615,-0.979,-0.082428,0.18643,157.7

> view matrix models
> #6,0.096292,0.61909,0.77939,38.859,-0.17966,0.78098,-0.59816,-4.146,-0.979,-0.082428,0.18643,156.01

> view matrix models
> #6,0.096292,0.61909,0.77939,51.166,-0.17966,0.78098,-0.59816,94.679,-0.979,-0.082428,0.18643,64.964

> ui mousemode right translate

> ui mousemode right "translate selected models"

> view matrix models
> #6,0.096292,0.61909,0.77939,22.751,-0.17966,0.78098,-0.59816,173.48,-0.979,-0.082428,0.18643,-40.096

> ui mousemode right "rotate selected models"

> view matrix models
> #6,0.0046384,0.57774,0.81621,34.892,-0.21507,0.79769,-0.56341,171.64,-0.97659,-0.17293,0.12795,-22.121

> view matrix models
> #6,-0.35453,0.29768,0.8864,106.04,-0.39682,0.81047,-0.43089,176.78,-0.84667,-0.5045,-0.16921,38.61

> view matrix models
> #6,-0.47393,0.14023,0.86933,142.55,-0.48068,0.78598,-0.38883,185.22,-0.7378,-0.60214,-0.30509,53.505

> view matrix models
> #6,0.41038,0.68292,0.60432,-3.2968,-0.086694,0.68891,-0.71964,187.93,-0.90779,0.24293,0.34192,-108.1

> view matrix models
> #6,0.39217,0.68264,0.61661,-2.4682,-0.090841,0.69577,-0.71249,186.74,-0.9154,0.2234,0.33487,-103.88

> view matrix models
> #6,0.956,-0.11451,-0.27008,132.89,-0.2561,0.12322,-0.95876,308.1,0.14307,0.98575,0.088472,-300.97

> view matrix models
> #6,-0.16072,0.47518,0.86508,62.379,-0.28913,0.81536,-0.50159,171.24,-0.9437,-0.33074,0.0063466,8.0096

> ui mousemode right "translate selected models"

[Repeated 1 time(s)]

> view matrix models
> #6,-0.16072,0.47518,0.86508,10.602,-0.28913,0.81536,-0.50159,117.36,-0.9437,-0.33074,0.0063466,104.3

> view matrix models
> #6,-0.16072,0.47518,0.86508,9.7379,-0.28913,0.81536,-0.50159,116.8,-0.9437,-0.33074,0.0063466,104.97

> ui mousemode right "rotate selected models"

> view matrix models
> #6,0.41654,0.64966,0.63595,-56.726,-0.73896,0.64942,-0.1794,154.04,-0.52955,-0.39522,0.75059,-34.738

> volume #6 level 0.04916

> view matrix models
> #6,0.27921,0.2511,0.92682,-27.705,-0.77969,0.62265,0.066195,131.42,-0.56046,-0.74111,0.36964,59.298

> view matrix models
> #6,0.4909,0.79517,0.35598,-48.432,-0.73049,0.59834,-0.32919,178.1,-0.47476,-0.098443,0.87459,-93.37

> view matrix models
> #6,0.5756,0.24748,-0.77938,150.58,-0.80786,0.02445,-0.58887,290.28,-0.12668,0.96858,0.214,-183.5

> view matrix models
> #6,0.61165,0.56498,-0.5538,79.007,-0.75405,0.20452,-0.62417,266.05,-0.23938,0.79936,0.55111,-191.2

> view matrix models
> #6,0.20559,0.19138,0.95974,-15.114,-0.78301,0.62045,0.044008,134.93,-0.58705,-0.76054,0.27741,76.789

> view matrix models
> #6,-0.18088,0.57415,0.79852,9.3664,-0.23487,-0.81364,0.53182,174.83,0.95505,-0.091355,0.28202,-204.81

> view matrix models
> #6,0.49488,0.86876,-0.018484,-10.342,-0.82846,0.46529,-0.31171,204.65,-0.2622,0.16957,0.95,-162.86

> volume flip #6

Opened cryosparc_P27_J57_001_volume_map_sharp.mrc z flip as #7, grid size
300,300,300, pixel 0.83, shown at step 1, values float32  

> select subtract #6

Nothing selected  

> ui mousemode right "translate selected models"

> select add #7

2 models selected  

> view matrix models
> #7,0.49488,0.86876,-0.018484,5.9396,-0.82846,0.46529,-0.31171,215.21,-0.2622,0.16957,0.95,5.5572

> view matrix models
> #7,0.49488,0.86876,-0.018484,-11.478,-0.82846,0.46529,-0.31171,222.81,-0.2622,0.16957,0.95,28.904

> view matrix models
> #7,0.49488,0.86876,-0.018484,5.0547,-0.82846,0.46529,-0.31171,234.58,-0.2622,0.16957,0.95,-0.21243

> ui mousemode right "rotate selected models"

> view matrix models
> #7,0.81926,0.55659,-0.13792,15.065,-0.56542,0.82415,-0.032728,123.28,0.095448,0.10479,0.9899,-43.697

> view matrix models
> #7,0.58294,0.62679,0.51702,-42.199,-0.70417,0.7072,-0.063384,159.12,-0.40537,-0.32712,0.85362,89.979

> ui mousemode right "translate selected models"

> view matrix models
> #7,0.58294,0.62679,0.51702,-37.428,-0.70417,0.7072,-0.063384,158.93,-0.40537,-0.32712,0.85362,97.613

> ui mousemode right "rotate selected models"

> view matrix models
> #7,0.2985,0.7623,0.57427,-23.774,-0.91081,0.4073,-0.067228,222.4,-0.28515,-0.50299,0.8159,107.79

> ui mousemode right "translate selected models"

> view matrix models
> #7,0.2985,0.7623,0.57427,-28.797,-0.91081,0.4073,-0.067228,223.98,-0.28515,-0.50299,0.8159,102.07

> volume #7 level 0.01846

> surface dust #7 size 8.3

> transparency sel 50

> view matrix models
> #7,0.2985,0.7623,0.57427,-43.334,-0.91081,0.4073,-0.067228,223.89,-0.28515,-0.50299,0.8159,94.954

> fitmap #2 inMap #7

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J57_001_volume_map_sharp.mrc z
flip (#7) using 18834 atoms  
average map value = 0.05128, steps = 208  
shifted from previous position = 21.2  
rotated from previous position = 5.24 degrees  
atoms outside contour = 7865, contour level = 0.018465  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J57_001_volume_map_sharp.mrc z flip (#7) coordinates:  
Matrix rotation and translation  
-0.96801544 0.14765475 -0.20284056 340.42224235  
0.18578680 0.96520392 -0.18402378 -79.67298510  
0.16861048 -0.21582297 -0.96176456 333.51913258  
Axis -0.08485336 -0.99118436 0.10175202  
Axis point 158.12582470 0.00000000 179.24246879  
Rotation angle (degrees) 169.20023053  
Shift along axis 84.02089112  
  

> volume #7 level 0.0246

> volume #7 level 0.01785

> view matrix models
> #7,0.2985,0.7623,0.57427,-45.484,-0.91081,0.4073,-0.067228,222.84,-0.28515,-0.50299,0.8159,95.243

> fitmap #2 inMap #7

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J57_001_volume_map_sharp.mrc z
flip (#7) using 18834 atoms  
average map value = 0.05128, steps = 76  
shifted from previous position = 2.41  
rotated from previous position = 0.00592 degrees  
atoms outside contour = 7705, contour level = 0.017851  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J57_001_volume_map_sharp.mrc z flip (#7) coordinates:  
Matrix rotation and translation  
-0.96800228 0.14761259 -0.20293402 340.44167692  
0.18576610 0.96520745 -0.18402617 -79.66744912  
0.16870881 -0.21583604 -0.96174438 333.49802786  
Axis -0.08483808 -0.99118517 0.10175682  
Axis point 158.12758263 0.00000000 179.24155153  
Rotation angle (degrees) 169.19459591  
Shift along axis 84.01847344  
  

> volume #7 level 0.02522

> open /data/gautamR/Downloads/cryosparc_P27_J60_class_00_final_volume.mrc
> /data/gautamR/Downloads/cryosparc_P27_J60_class_01_final_volume.mrc
> /data/gautamR/Downloads/cryosparc_P27_J60_class_02_final_volume.mrc

Opened cryosparc_P27_J60_class_00_final_volume.mrc as #8.1, grid size
128,128,128, pixel 1.95, shown at level 0.0468, step 1, values float32  
Opened cryosparc_P27_J60_class_01_final_volume.mrc as #8.2, grid size
128,128,128, pixel 1.95, shown at level 0.153, step 1, values float32  
Opened cryosparc_P27_J60_class_02_final_volume.mrc as #8.3, grid size
128,128,128, pixel 1.95, shown at level 0.0428, step 1, values float32  

> select subtract #7

Nothing selected  

> hide #!7 models

> hide #!8 models

> show #!8 models

> hide #!8.2 models

> hide #!8.3 models

> select add #8.1

2 models selected  

> view matrix models #8.1,1,0,0,-20.729,0,1,0,25.936,0,0,1,-181.22

> volume #8.1 level 0.0953

> select subtract #8.1

Nothing selected  

> show #!8.2 models

> hide #!8.1 models

> select add #8.2

2 models selected  

> view matrix models #8.2,1,0,0,-48.026,0,1,0,43.214,0,0,1,-174.87

> volume #8.2 level 0.1657

> view matrix models #8.2,1,0,0,-51.211,0,1,0,24.152,0,0,1,-163.39

> volume #8.2 level 0.6398

> ui mousemode right "rotate selected models"

> view matrix models
> #8.2,0.75465,-0.57464,-0.31671,84.508,-0.53316,-0.25571,-0.80645,335.17,0.38243,0.77744,-0.49934,-103.61

> view matrix models
> #8.2,0.88925,-0.010448,-0.4573,22.208,-0.37624,-0.58528,-0.71825,342.97,-0.26015,0.81076,-0.5244,-28.329

> view matrix models
> #8.2,0.38971,-0.12678,-0.91217,153.33,-0.51877,-0.8486,-0.10369,310.45,-0.76092,0.51362,-0.39648,48.264

> ui mousemode right "translate selected models"

> view matrix models
> #8.2,0.38971,-0.12678,-0.91217,273.12,-0.51877,-0.8486,-0.10369,338.86,-0.76092,0.51362,-0.39648,30.109

> volume #8.2 level 0.2234

> view matrix models
> #8.2,0.38971,-0.12678,-0.91217,270.6,-0.51877,-0.8486,-0.10369,340.32,-0.76092,0.51362,-0.39648,23.69

> ui mousemode right "rotate selected models"

> view matrix models
> #8.2,0.67766,-0.54328,-0.4956,231.67,-0.7045,-0.67285,-0.22571,357.96,-0.21084,0.50211,-0.83871,12.421

> view matrix models
> #8.2,-0.19689,-0.74242,-0.64034,383.64,-0.97228,0.063814,0.22496,245.48,-0.12615,0.66688,-0.7344,-31.3

> view matrix models
> #8.2,-0.86394,-0.35972,-0.35243,384.5,-0.50332,0.59394,0.62761,71.664,-0.016436,0.71961,-0.69419,-56.512

> view matrix models
> #8.2,-0.40257,0.63093,-0.66322,246.97,-0.75906,0.17487,0.6271,154.23,0.51163,0.75588,0.40851,-267.34

> view matrix models
> #8.2,0.37494,0.64424,-0.66661,148.38,0.92066,-0.34303,0.18631,62.207,-0.10864,-0.68358,-0.72175,127.49

> view matrix models
> #8.2,-0.23497,0.46014,-0.85619,271.08,-0.82458,-0.56075,-0.075063,340.34,-0.51465,0.68836,0.51118,-143.69

> view matrix models
> #8.2,-0.044165,-0.0091922,-0.99898,321.85,-0.91903,-0.39169,0.044235,316.64,-0.3917,0.92005,0.0088512,-123.08

> view matrix models
> #8.2,0.050113,-0.53783,-0.84156,353.66,-0.98626,-0.15943,0.043163,297.24,-0.15739,0.82784,-0.53844,-71.699

> view matrix models
> #8.2,0.019264,-0.80529,-0.59257,358.04,-0.58448,-0.48993,0.6468,209.89,-0.81118,0.33389,-0.48012,62.267

> view matrix models
> #8.2,0.41785,-0.85966,-0.29393,276.65,0.42805,-0.099078,0.89831,3.966,-0.80136,-0.50117,0.32658,58.937

> view matrix models
> #8.2,0.4009,0.27522,-0.8738,215.92,0.84677,0.25271,0.4681,-36.114,0.34965,-0.92757,-0.13173,24.375

> volume #8.2 level 0.1828

> select subtract #8.2

Nothing selected  

> hide #!8.2 models

> show #!8.3 models

> select add #8.3

2 models selected  

> select subtract #8.3

Nothing selected  

> ui mousemode right "translate selected models"

> select add #8.3

2 models selected  

> select subtract #8.3

Nothing selected  

> select add #8.3

2 models selected  

> view matrix models #8.3,1,0,0,67.945,0,1,0,124.09,0,0,1,-122.78

> volume #8.3 level 0.08647

> view matrix models #8.3,1,0,0,54.85,0,1,0,115.2,0,0,1,-130.53

> view matrix models #8.3,1,0,0,23.497,0,1,0,93.993,0,0,1,-155.86

> view matrix models #8.3,1,0,0,77.649,0,1,0,130.66,0,0,1,-115.22

> view matrix models #8.3,1,0,0,116.28,0,1,0,156.64,0,0,1,-73.332

> view matrix models #8.3,1,0,0,160.35,0,1,0,186.47,0,0,1,-39.283

> view matrix models #8.3,1,0,0,223.35,0,1,0,229.16,0,0,1,6.0415

> view matrix models #8.3,1,0,0,259.91,0,1,0,253.78,0,0,1,43.125

> view matrix models #8.3,1,0,0,279.41,0,1,0,267.81,0,0,1,-1.2321

> view matrix models #8.3,1,0,0,218.68,0,1,0,226.92,0,0,1,-63.766

> view matrix models #8.3,1,0,0,105.7,0,1,0,150.29,0,0,1,-139.17

> ui mousemode right "rotate selected models"

> view matrix models
> #8.3,0.99674,-0.068136,-0.043192,119.74,-0.073855,-0.5553,-0.82837,452.2,0.032458,0.82886,-0.55852,-63.503

> view matrix models
> #8.3,-0.17784,-0.6563,-0.73324,417.82,-0.90913,0.39476,-0.13284,352.54,0.37664,0.64299,-0.66687,-69.261

> view matrix models
> #8.3,0.25019,-0.62212,-0.74187,362.47,-0.9672,-0.12587,-0.22064,435.32,0.043883,0.77274,-0.6332,-49.044

> view matrix models
> #8.3,0.81275,0.51361,0.27504,31.568,-0.58046,0.67328,0.45799,207.94,0.050051,-0.53188,0.84534,-60.237

> view matrix models
> #8.3,0.38325,0.02525,-0.9233,286.38,-0.87905,0.31683,-0.35622,384.99,0.28353,0.94815,0.14362,-191.78

> view matrix models
> #8.3,0.33986,-0.94018,-0.023741,306.86,-0.90118,-0.33278,0.27773,394.54,-0.26902,-0.072994,-0.96037,133.78

> view matrix models
> #8.3,0.24963,-0.62996,-0.73542,362.76,-0.96753,-0.13116,-0.21607,435.49,0.039659,0.76547,-0.64224,-46.552

> view matrix models
> #8.3,0.61349,0.54654,-0.57002,151.27,-0.72126,0.68172,-0.12263,292.44,0.32157,0.48636,0.81243,-217.25

> view matrix models
> #8.3,0.79629,0.18307,0.57655,39.54,-0.58917,0.45076,0.6706,211.89,-0.13712,-0.87367,0.46679,50.068

> view matrix models
> #8.3,0.35888,-0.93231,0.044661,295.5,-0.88784,-0.32621,0.32455,386.57,-0.28801,-0.15613,-0.94481,144.7

> view matrix models
> #8.3,0.30925,-0.24923,-0.91774,329.19,-0.92883,0.12792,-0.34772,413.77,0.20406,0.95996,-0.19194,-144.05

> ui mousemode right "translate selected models"

> view matrix models
> #8.3,0.30925,-0.24923,-0.91774,246.82,-0.92883,0.12792,-0.34772,355.38,0.20406,0.95996,-0.19194,-18.86

> view matrix models
> #8.3,0.30925,-0.24923,-0.91774,257.99,-0.92883,0.12792,-0.34772,290.07,0.20406,0.95996,-0.19194,-16.736

> volume #8.3 level 0.03272

> surface dust #8.3 size 19.5

> fitmap #2 inMap #8.3

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J60_class_02_final_volume.mrc
(#8.3) using 18834 atoms  
average map value = 0.04313, steps = 200  
shifted from previous position = 20  
rotated from previous position = 33 degrees  
atoms outside contour = 13175, contour level = 0.032722  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J60_class_02_final_volume.mrc (#8.3) coordinates:  
Matrix rotation and translation  
-0.87219423 0.14910015 -0.46588246 380.31159820  
0.34852367 -0.47886910 -0.80573918 321.97707090  
-0.34323255 -0.86513206 0.36570193 281.99110680  
Axis -0.24589528 -0.50778875 0.82564284  
Axis point 220.78098421 261.44397797 0.00000000  
Rotation angle (degrees) 173.06353528  
Shift along axis -24.18922403  
  

> volume #8.3 level 0.06967

> fitmap #2 inMap #8.3

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J60_class_02_final_volume.mrc
(#8.3) using 18834 atoms  
average map value = 0.04314, steps = 40  
shifted from previous position = 0.0346  
rotated from previous position = 0.022 degrees  
atoms outside contour = 15774, contour level = 0.06967  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J60_class_02_final_volume.mrc (#8.3) coordinates:  
Matrix rotation and translation  
-0.87205778 0.14908585 -0.46614239 380.37197161  
0.34866852 -0.47912322 -0.80552542 321.94273853  
-0.34343208 -0.86499382 0.36584158 281.97411223  
Axis -0.24602395 -0.50765913 0.82568422  
Axis point 220.82178836 261.40681030 0.00000000  
Rotation angle (degrees) 173.05832225  
Shift along axis -24.19621042  
  

> transparency sel 50

> hide #!2 models

> show #!2 models

> ui mousemode right "rotate selected models"

> view matrix models
> #8.3,0.52894,-0.12812,-0.83893,206.89,-0.71535,-0.59919,-0.35951,356.77,-0.45662,0.79029,-0.40859,110.13

> view matrix models
> #8.3,0.57348,0.14173,-0.80686,163.88,0.028212,-0.98775,-0.15345,291.11,-0.81873,0.065238,-0.57046,264

> view matrix models
> #8.3,0.18699,0.32703,-0.92633,201.56,0.9388,-0.33719,0.070467,72.817,-0.2893,-0.88281,-0.37007,295.09

> view matrix models
> #8.3,0.3625,-0.34278,-0.86666,257.24,-0.9319,-0.12062,-0.34208,320.94,0.012722,0.93164,-0.36316,30.202

> fitmap #2 inMap #8.3

Fit molecule 8act.pdb (#2) to map cryosparc_P27_J60_class_02_final_volume.mrc
(#8.3) using 18834 atoms  
average map value = 0.04313, steps = 120  
shifted from previous position = 0.936  
rotated from previous position = 15.3 degrees  
atoms outside contour = 15771, contour level = 0.06967  
  
Position of 8act.pdb (#2) relative to
cryosparc_P27_J60_class_02_final_volume.mrc (#8.3) coordinates:  
Matrix rotation and translation  
-0.87231883 0.14932070 -0.46557843 380.24514772  
0.34806650 -0.47909629 -0.80580174 322.12597752  
-0.34337978 -0.86496822 0.36595117 281.93348798  
Axis -0.24581728 -0.50769529 0.82572353  
Axis point 220.75781727 261.42398372 0.00000000  
Rotation angle (degrees) 173.08790228  
Shift along axis -24.21355761  
  

> volume #8.3 level 0.03776

> show #!7 models

> hide #!7 models

> show #!7 models

> volume #7 level 0.04179

> volume #8.3 level 0.06967

> select subtract #8.3

Nothing selected  

> hide #!8.3 models

> select add #7

2 models selected  

> hide #!8 models

> view matrix models
> #7,0.38706,0.7947,0.46758,-47.894,-0.91287,0.40166,0.073011,206.74,-0.12979,-0.4551,0.88093,61.429

> view matrix models
> #7,0.026598,0.80286,0.59557,-17.719,-0.96199,0.18254,-0.20311,273.08,-0.27178,-0.56753,0.7772,105.99

> view matrix models
> #7,0.035468,0.79352,0.60751,-19.194,-0.94996,0.21554,-0.22608,270.34,-0.31034,-0.56909,0.76146,113.09

> view matrix models
> #7,0.27943,0.87759,0.38955,-34.446,-0.93294,0.15224,0.32625,208.61,0.22701,-0.45459,0.86129,17.511

> view matrix models
> #7,0.21269,0.89123,0.40059,-28.781,-0.95867,0.26962,-0.090856,248.51,-0.18898,-0.36471,0.91174,54.463

> ui mousemode right "translate selected models"

> view matrix models
> #7,0.21269,0.89123,0.40059,-25.257,-0.95867,0.26962,-0.090856,248.99,-0.18898,-0.36471,0.91174,57.424

> hide #!2 models

> select subtract #7

Nothing selected  

> show #!2 models

> hide #!2 models

> volume #7 level 0.01662

> volume #7 level 0.05284

> show #!2 models

> hide #!7 models

> set bgColor white

> set bgColor #ffffff00

> lighting flat

> lighting shadows true intensity 0.5

> ui tool show "Side View"

> lighting shadows false

> lighting flat

[Repeated 1 time(s)]

> lighting shadows true intensity 0.5

> lighting flat

> lighting shadows true intensity 0.5

> lighting soft

> lighting shadows true intensity 0.5

> lighting flat

> view

> show #!7 models

> lighting shadows true intensity 0.5

> volume #7 level 0.03811

> volume #7 level 0.09397

An error occurred in drawing the scene. Redrawing graphics is now stopped to
avoid a continuous stream of error messages. To restart graphics use the
command "graphics restart" after changing the settings that caused the error.  
  
GLError(  
err = 1282,  
description = b'invalid operation',  
baseOperation = glDrawBuffer,  
cArguments = (GL_BACK,)  
)  
  
Traceback (most recent call last):  
File "/usr/libexec/UCSF-ChimeraX/lib/python3.9/site-
packages/chimerax/core/updateloop.py", line 73, in draw_new_frame  
view.draw(check_for_changes = False)  
File "/usr/libexec/UCSF-ChimeraX/lib/python3.9/site-
packages/chimerax/graphics/view.py", line 177, in draw  
self._draw_scene(camera, drawings)  
File "/usr/libexec/UCSF-ChimeraX/lib/python3.9/site-
packages/chimerax/graphics/view.py", line 215, in _draw_scene  
shadow, multishadow = self._compute_shadowmaps(opaque_drawings,
transparent_drawings, camera)  
File "/usr/libexec/UCSF-ChimeraX/lib/python3.9/site-
packages/chimerax/graphics/view.py", line 609, in _compute_shadowmaps  
shadow_enabled = r.shadow.use_shadow_map(camera, shadow_drawings)  
File "/usr/libexec/UCSF-ChimeraX/lib/python3.9/site-
packages/chimerax/graphics/opengl.py", line 1440, in use_shadow_map  
shadow_map = self._finish_rendering_shadowmap() # Depth texture  
File "/usr/libexec/UCSF-ChimeraX/lib/python3.9/site-
packages/chimerax/graphics/opengl.py", line 1470, in
_finish_rendering_shadowmap  
fb = r.pop_framebuffer()  
File "/usr/libexec/UCSF-ChimeraX/lib/python3.9/site-
packages/chimerax/graphics/opengl.py", line 722, in pop_framebuffer  
fb.activate()  
File "/usr/libexec/UCSF-ChimeraX/lib/python3.9/site-
packages/chimerax/graphics/opengl.py", line 2271, in activate  
GL.glDrawBuffer(self._draw_buffer)  
File "src/errorchecker.pyx", line 58, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError  
OpenGL.error.GLError: GLError(  
err = 1282,  
description = b'invalid operation',  
baseOperation = glDrawBuffer,  
cArguments = (GL_BACK,)  
)  
  




OpenGL version: 3.3.0 NVIDIA 550.54.15
OpenGL renderer: NVIDIA GeForce RTX 2080 Ti/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.9.11
Locale: en_US.UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: xcb

XDG_SESSION_TYPE=x11
DESKTOP_SESSION=gnome-classic
XDG_SESSION_DESKTOP=gnome-classic
XDG_CURRENT_DESKTOP=GNOME-Classic:GNOME
DISPLAY=:2
Manufacturer: TYAN
Model: B7105F48TV8HR-2T-G
OS: Rocky Linux 8.9 Green Obsidian
Architecture: 64bit ELF
Virtual Machine: none
CPU: 48 Intel(R) Xeon(R) Silver 4116 CPU @ 2.10GHz
Cache Size: 16896 KB
Memory:
	              total        used        free      shared  buff/cache   available
	Mem:          251Gi       7.8Gi        11Gi       152Mi       231Gi       241Gi
	Swap:         127Gi       7.1Gi       120Gi

Graphics:
	04:00.0 VGA compatible controller [0300]: ASPEED Technology, Inc. ASPEED Graphics Family [1a03:2000] (rev 41)	
	Subsystem: ASPEED Technology, Inc. ASPEED Graphics Family [1a03:2000]	
	Kernel driver in use: ast

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-LinuxSupport: 1.0.1
    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
    cxservices: 1.2
    cycler: 0.11.0
    Cython: 0.29.32
    debugpy: 1.6.4
    decorator: 5.1.1
    distro: 1.7.0
    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
    pexpect: 4.8.0
    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
    ptyprocess: 0.7.0
    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
    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
    zipp: 3.11.0

[Tom Goddard]

Linux OpenGL invalid operation error glDrawBuffer(GL_BACK). Have seen it many times, only on Linux. No clues why it happens.