The following bug report has been submitted:
Platform: Windows-10-10.0.19041
ChimeraX Version: 1.2.dev202010010012 (2020-10-01 00:12:24 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
UCSF ChimeraX version: 1.2.dev202010010012 (2020-10-01)
© 2016-2020 Regents of the University of California. All rights reserved.
> meeting 13.56.232.159 faceImage "C:\Users\ACE MALI VR
> 1/Desktop/MeghanMcCarthy.jpg"
Log from Thu Oct 1 11:15:12 2020UCSF ChimeraX version: 1.2.dev202010010012
(2020-10-01)
© 2016-2020 Regents of the University of California. All rights reserved.
> open C:\cygwin64\home\goddard\ucsf\data\sars-cov-2-pore\sars-pores3.cxs
> format session
Log from Wed Sep 30 19:47:59 2020UCSF ChimeraX version: 1.2.dev202009300503
(2020-09-30)
© 2016-2020 Regents of the University of California. All rights reserved.
> open /Users/goddard/ucsf/data/sars-cov-2-pore/sars-pores2.cxs format session
Log from Wed Sep 30 17:54:31 2020UCSF ChimeraX version: 1.2.dev202009300503
(2020-09-30)
© 2016-2020 Regents of the University of California. All rights reserved.
> open /Users/goddard/ucsf/data/sars-cov-2-pore/sars-pores.cxs format session
Log from Fri Sep 18 10:47:56 2020UCSF ChimeraX version: 1.2.dev202009020044
(2020-09-02)
© 2016-2020 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/goddard/ucsf/data/sars-cov-2-pore/emd_11514.map
Opened emd_11514.map, grid size 96,96,96, pixel 7.02, shown at level 3.21,
step 1, values float32
> volume #1 level 2.022
> open /Users/goddard/ucsf/data/sars-cov-2-pore/models/QHD43415_3.pdb
Chain information for QHD43415_3.pdb #2
---
Chain | Description
| No description available
> rainbow #2
Drag select of 287 residues
> ui mousemode right translate
> ui mousemode right "translate selected models"
> select clear
> open /Users/goddard/ucsf/data/sars-cov-2-pore/F1.large.png
Opened multi-channel map F1.large.png, 3 channels, grid size 1280,639,1, pixel
1, shown at step 1, values uint8
> volume #3.1 level 105,0 level 120,0.8 level 255,1
> volume #3.1 level 120,0.8 level 255,1 color red color red
> volume #3.1 level 0.4713,0 level 255,1
> volume #3.2 level 107,0 level 121.8,0.8 level 255,1
> volume #3.2 level 107,0 level 255,1 color lime color lime
> volume #3.2 level 0,0 level 255,1
> volume #3.3 level 86.99,0 level 103.8,0.8 level 255,1
> volume #3.3 level 86.99,0 level 255,1 color blue color blue
> volume #3.3 level 0,0 level 255,1
> select #3
7 models selected
> select clear
> lighting full
> save sars-pores.cxs
opened ChimeraX session
> close #3
> open /Users/goddard/ucsf/data/sars-cov-2-pore/F1.large.jpg
Opened image F1.large.jpg
> ui mousemode right "move picked models"
> view matrix models #3,1,0,0,-66.333,0,1,0,-644.48,0,0,1,343.15
> view matrix models
> #3,0.9918,-0.12365,0.032338,-66.333,-0.067921,-0.29559,0.9529,-644.48,-0.10826,-0.94728,-0.30156,343.15
> view matrix models
> #3,0.9853,-0.044457,0.16497,-66.333,-0.15335,0.19566,0.96861,-644.48,-0.07534,-0.97966,0.18597,343.15
> view matrix models
> #3,0.9611,-0.13297,0.2421,-66.333,-0.2303,0.098158,0.96816,-644.48,-0.1525,-0.98625,0.063716,343.15
> view matrix models
> #3,-0.95885,-0.090898,0.26896,-66.333,0.28389,-0.29665,0.91181,-644.48,-0.0030938,0.95065,0.31025,343.15
> open /Users/goddard/ucsf/data/sars-cov-2-pore/F2.large.jpg
Opened image F2.large.jpg
> close #4
> open /Users/goddard/ucsf/data/sars-cov-2-pore/F2.large.jpg format photo
Opened image F2.large.jpg
> view matrix models #4,1,0,0,-904.05,0,1,0,61.98,0,0,1,150.79
> view matrix models #4,1,0,0,-979.47,0,1,0,123.66,0,0,1,56.087
> view matrix models
> #4,-0.79402,0.52269,-0.31036,-979.47,-0.53392,-0.35559,0.76713,123.66,0.29061,0.77482,0.56142,56.087
> view matrix models
> #4,-0.97197,-0.21499,-0.095174,-979.47,0.0020878,-0.41268,0.91087,123.66,-0.2351,0.88514,0.40156,56.087
> view matrix models
> #4,-0.13764,0.28993,0.9471,-979.47,0.89258,-0.3782,0.24549,123.66,0.42937,0.87915,-0.20673,56.087
> view matrix models
> #4,-0.23117,-0.20228,0.95165,-1051.1,0.84163,-0.53228,0.09131,-2.5657,0.48808,0.82205,0.29329,564.7
> view matrix models
> #3,-0.95578,-0.11723,0.26969,-66.333,0.29382,-0.41838,0.85944,-644.48,0.012082,0.90068,0.43432,343.15
> save sars-pores2.cxs
opened ChimeraX session
> usage rename
rename models [name] [id id]
— rename a model or change its id number
name: a text string
id: a model id
> open /Users/goddard/ucsf/data/sars-cov-2-pore/models/QHD43415_4.pdb
Chain information for QHD43415_4.pdb #5
---
Chain | Description
| No description available
> hide #5 models
> show #5 models
> hide #4 models
> hide #2 models
> hide #3 models
> show #2 models
> show #3 models
> hide #2 models
> show #4 models
> hide #4 models
> hide #3 models
> hide #!1 models
> open /Users/goddard/ucsf/data/sars-cov-2-pore/models/QHD43415_6.pdb
Chain information for QHD43415_6.pdb #6
---
Chain | Description
| No description available
> show #!1 models
> show #2 models
> hide #!1 models
> ui mousemode right "move picked models"
> view matrix models #5,1,0,0,46.693,0,1,0,215.51,0,0,1,83.347
> view matrix models #6,1,0,0,70.795,0,1,0,73.781,0,0,1,-79.717
> view matrix models #5,1,0,0,124.63,0,1,0,161.13,0,0,1,144.79
> view matrix models #6,1,0,0,143.28,0,1,0,22.959,0,0,1,-34.14
> show #!1 models
> hide #!1 models
> view matrix models #6,1,0,0,181.33,0,1,0,59.891,0,0,1,105.96
> show #!1 models
> hide #2 models
> hide #5-6 cartoons
> show #5-6 atoms
> style #5-6 sphere
Changed 12595 atom styles
> show #2 models
> show #3 models
> show #4 models
> save /Users/goddard/ucsf/data/sars-cov-2-pore/sars-pores3.cxs
opened ChimeraX session
> vr true
> lighting simple
started SteamVR rendering
VR mode move picked models
> view matrix models
> #4,-0.27849,-0.14028,0.95014,-918.5,0.86213,-0.47251,0.18293,116.01,0.42329,0.87009,0.25253,679.54
> view matrix models
> #1,0.99803,0.055103,0.029838,-166.48,-0.050121,0.98776,-0.14769,-108.25,-0.037611,0.1459,0.98858,72.945
> view matrix models
> #5,0.84127,0.49704,0.21265,-167.45,-0.4759,0.86748,-0.14486,90.048,-0.25647,0.020668,0.96633,186.23
> view matrix models
> #6,0.86874,0.49524,0.0041218,-81.17,-0.49114,0.86042,0.13583,-19.352,0.063726,-0.12003,0.99072,205.38
> view matrix models
> #2,0.86719,0.41069,-0.28164,-76.539,-0.40315,0.91098,0.08706,36.455,0.29232,0.038046,0.95556,244.68
VR mode move scene
> meeting start faceImage C:\Users\goddard/Desktop/tomg.png
Meeting at DESKTOP-J8FC2Q4 or 192.168.0.2 port 52194
Connection accepted from 192.168.0.169 port 61695
> vr false
> vr true
started SteamVR rendering
Connection accepted from 192.168.0.2 port 53818
fromIccProfile: failed minimal tag size sanity
Connection accepted from 192.168.0.2 port 53827
fromIccProfile: failed minimal tag size sanity
> view matrix models
> #3,-0.97806,-0.10792,0.17818,-10.095,0.2072,-0.41543,0.88571,-724.16,-0.021568,0.9032,0.42868,345.75
> view matrix models
> #4,-0.22015,-0.21306,0.95191,-848.56,0.9202,-0.36916,0.13019,161.74,0.32367,0.90461,0.27733,640.46
> view matrix models
> #5,0.79306,0.55368,0.25395,-259.09,-0.57035,0.82135,-0.0095943,59.119,-0.21389,-0.13723,0.96717,253.68
> view matrix models
> #6,0.82138,0.56698,0.062217,-245.72,-0.56948,0.80903,0.14548,134.94,0.032153,-0.15493,0.9874,261.4
> view matrix models
> #1,0.99971,-0.023225,0.0070015,-103.16,0.023762,0.99564,-0.090146,-114.85,-0.0048771,0.090286,0.9959,113.43
> view matrix models
> #5,0.86264,0.48574,0.14108,-152.14,-0.50037,0.86029,0.09761,35.306,-0.073958,-0.1548,0.98517,255.64
started SteamVR rendering
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\core\triggerset.py", line 130, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 740, in _vr_tracking_cb
gu = self._gui_updates(c)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 816, in _gui_updates
pchange['image'] = _encode_numpy_array(rgba)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 1073, in _encode_numpy_array
data = b64encode(compress(array.tobytes(), level = 1))
AttributeError: 'NoneType' object has no attribute 'tobytes'
Error processing trigger "vr update":
AttributeError: 'NoneType' object has no attribute 'tobytes'
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 1073, in _encode_numpy_array
data = b64encode(compress(array.tobytes(), level = 1))
See log for complete Python traceback.
> hide #3 models
> show #3 models
> vr false
> vr true
started SteamVR rendering
> vr true
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\core\triggerset.py", line 130, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 740, in _vr_tracking_cb
gu = self._gui_updates(c)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 816, in _gui_updates
pchange['image'] = _encode_numpy_array(rgba)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 1073, in _encode_numpy_array
data = b64encode(compress(array.tobytes(), level = 1))
AttributeError: 'NoneType' object has no attribute 'tobytes'
Error processing trigger "vr update":
AttributeError: 'NoneType' object has no attribute 'tobytes'
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 1073, in _encode_numpy_array
data = b64encode(compress(array.tobytes(), level = 1))
See log for complete Python traceback.
> hide #!103 models
> show #!103 models
> hide #!104 models
> show #!104 models
> marker segment #7 position -61.31,155.3,250 toPosition -156.4,164.5,294
> color yellow radius 0.8609 label 105.1 labelHeight 10.51 labelColor yellow
C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\label\label3d.py:84: FutureWarning: elementwise comparison
failed; returning scalar instead, but in the future will perform elementwise
comparison
elif color == 'default':
> marker segment #7 position -77.38,-97.65,260.9 toPosition
> -126.8,-156.3,259.9 color yellow radius 0.8609 label 76.72 labelHeight 7.672
> labelColor yellow
> marker delete #7
Deleted 4 markers
VR mode distance
> view matrix models
> #1,0.97491,-0.18686,0.12095,-126.57,0.18448,0.98235,0.030712,-142.61,-0.12456,-0.0076299,0.99218,89.234
VR mode distance
> view matrix models
> #5,0.76752,-0.24544,0.59216,-317.77,-0.076465,0.88215,0.46473,-108.07,-0.63644,-0.40199,0.6583,230.13
> view matrix models
> #3,-0.981,-0.12981,0.14414,16.564,0.19127,-0.52353,0.83026,-683.91,-0.032319,0.84206,0.53841,257.14
VR mode distance
> view matrix models
> #4,-0.33776,-0.15935,0.92764,-853.25,0.88941,-0.37654,0.25916,157.92,0.308,0.91259,0.26891,670.62
> view matrix models
> #4,-0.38344,-0.20819,0.89979,-912.67,0.88985,-0.34412,0.29958,159.52,0.24726,0.91555,0.31721,635.85
> view matrix models
> #4,-0.33741,-0.27582,0.90004,-939.78,0.89068,-0.40301,0.2104,166.04,0.30469,0.87264,0.38165,663.65
> view matrix models
> #4,-0.25472,-0.27631,0.9267,-906.79,0.9288,-0.33664,0.15492,227.41,0.26916,0.90018,0.34239,696.7
> view matrix models
> #3,-0.94982,-0.23156,0.21028,-69.673,0.28439,-0.35938,0.8888,-744.26,-0.13024,0.90401,0.4072,378.03
> view matrix models
> #3,-0.93641,-0.20359,0.2858,-124.94,0.34466,-0.38063,0.8581,-767.75,-0.065918,0.90204,0.42659,312.39
> view matrix models
> #4,-0.2213,-0.092851,0.97077,-890.21,0.95602,-0.21714,0.19717,286.54,0.19248,0.97171,0.13682,742.28
> view matrix models
> #4,-0.34528,-0.27254,0.89805,-1058.5,0.88088,-0.42425,0.20993,134.25,0.32378,0.86356,0.38656,657.41
> view matrix models
> #2,0.74536,0.58592,-0.31802,-59.984,-0.63054,0.77448,-0.050917,39.544,0.21647,0.23848,0.94672,271.99
> view matrix models
> #2,0.67655,0.60475,-0.4202,-48.007,-0.63382,0.7687,0.085815,19.086,0.3749,0.20828,0.90337,284.38
VR mode move picked models
> view matrix models
> #5,0.77461,0.59765,0.20687,-446.41,0.033094,-0.36498,0.93042,-11.907,0.63157,-0.71387,-0.30252,429.82
> view matrix models
> #5,0.49428,0.868,0.047838,-391.47,0.56851,-0.3644,0.73756,8.6513,0.65763,-0.33735,-0.67359,442.03
> view matrix models
> #5,0.33886,0.94061,0.021006,-205.51,0.78968,-0.27222,-0.54984,-77.417,-0.51146,0.20292,-0.835,349.69
> view matrix models
> #5,0.46418,0.7912,0.3982,-360.75,0.49685,-0.60477,0.6224,-141.03,0.73326,-0.091041,-0.67384,346.35
> view matrix models
> #5,0.40835,0.70538,0.57939,-397.66,0.72169,-0.63813,0.26822,-98.509,0.55893,0.30863,-0.76965,367.95
> view matrix models
> #5,0.48087,0.83423,0.26987,-310.69,0.86916,-0.41305,-0.27194,-100.38,-0.11538,0.36534,-0.92369,379.85
> view matrix models
> #5,0.42666,0.88354,0.19324,-259.43,0.84552,-0.31383,-0.43198,-85.4,-0.32102,0.34771,-0.88093,368.94
> view matrix models
> #5,0.41273,0.88628,0.21019,-240.09,0.8425,-0.28375,-0.45792,-83.175,-0.34619,0.3661,-0.86378,357.08
> view matrix models
> #5,0.37445,0.90723,0.19166,-209.27,0.85471,-0.25757,-0.4507,-86.392,-0.35952,0.33259,-0.87185,324.8
> view matrix models
> #5,0.048029,0.91443,0.40192,-309.18,-0.17606,-0.38834,0.90455,-122.86,0.98321,-0.11419,0.14232,350.9
> view matrix models
> #5,0.26477,-0.49093,-0.83001,-121.23,-0.80409,-0.58752,0.091,-50.836,-0.53228,0.64331,-0.5503,293.57
> view matrix models
> #5,0.71286,-0.5086,-0.48287,-171.55,-0.52534,-0.8434,0.11277,-70.02,-0.46458,0.17328,-0.86841,317.02
> view matrix models
> #5,-0.50925,0.68484,-0.5212,-309.01,-0.64333,0.099327,0.75913,-73.827,0.57165,0.72192,0.38998,303.74
> view matrix models
> #3,-0.90277,-0.38261,0.19653,-187.53,0.2955,-0.21965,0.92975,-692.23,-0.31257,0.89741,0.31136,561.03
> view matrix models
> #5,-0.67209,-0.18524,-0.71693,-318.15,-0.74046,0.16778,0.65083,-76.149,-0.00024161,0.96828,-0.24993,396.85
VR mode distance
> distance #5:497@O #5:498@CG1
Distance between QHD43415_4.pdb #5 ALA 497 O and VAL 498 CG1: 4.407Å
VR mode select
> select #5:264@C
1 atom, 1 residue, 1 model selected
> select #5:461@OG1
1 atom, 1 residue, 1 model selected
> select clear
VR mode move picked models
> view matrix models
> #5,-0.67209,-0.18524,-0.71693,-318.15,-0.74046,0.16778,0.65083,-76.149,-0.00024161,0.96828,-0.24993,396.85
> view matrix models
> #4,-0.79969,-0.24202,0.54947,-1126.7,0.60039,-0.31362,0.73565,-69.317,-0.0057258,0.91819,0.39609,520.23
> view matrix models
> #3,-0.88854,-0.27974,-0.36366,4.7843,-0.36696,-0.042461,0.92927,-294.07,-0.27539,0.95913,-0.064927,623.67
> view matrix models
> #3,-0.74998,-0.35533,-0.55792,33.995,-0.56848,-0.084976,0.81831,-269.97,-0.33816,0.93086,-0.13827,606.89
> view matrix models
> #3,-0.62452,-0.24383,-0.74198,-42.016,-0.73031,-0.15437,0.66545,-187.45,-0.27678,0.95744,-0.081665,716.49
> view matrix models
> #3,-0.53735,-0.25857,-0.80275,10.022,-0.77086,-0.23551,0.59187,-216.55,-0.34208,0.93684,-0.072773,714.7
> view matrix models
> #3,-0.61828,-0.30022,-0.72637,46.918,-0.69932,-0.21168,0.68276,-310.76,-0.35872,0.93007,-0.079078,730.86
> view matrix models
> #3,-0.40513,-0.26522,-0.87495,140.01,-0.84746,-0.25016,0.46824,-162.19,-0.34304,0.93116,-0.12342,758.07
> view matrix models
> #4,-0.83401,-0.26368,0.48466,-1056,0.54194,-0.22645,0.80934,-262.43,-0.10366,0.93765,0.33174,509.2
> view matrix models
> #4,-0.93719,-0.17095,0.30407,-801.46,0.34433,-0.31362,0.88492,-534.09,-0.055924,0.93403,0.35276,563.89
> view matrix models
> #4,-0.96512,-0.15741,0.20919,-728.72,0.25445,-0.37585,0.89106,-569.96,-0.061638,0.91322,0.40277,509.69
> view matrix models
> #3,-0.42613,-0.22854,-0.87533,185.46,-0.8236,-0.30232,0.47989,-187.75,-0.37428,0.9254,-0.059398,707.34
> view matrix models
> #4,-0.95844,-0.1941,0.20908,-744.02,0.2716,-0.39633,0.87702,-585.22,-0.087364,0.89736,0.43256,495.97
> view matrix models
> #4,-0.96109,-0.16412,0.22219,-697.83,0.26776,-0.35561,0.89546,-587.74,-0.067946,0.92011,0.3857,469.6
> view matrix models
> #4,-0.9471,-0.22228,0.23151,-724.11,0.29774,-0.33909,0.8924,-561.26,-0.11986,0.91412,0.38731,468.93
> view matrix models
> #4,-0.94884,-0.22893,0.2175,-718.57,0.28752,-0.34143,0.89485,-560.53,-0.1306,0.9116,0.38976,467.41
VR mode zoom
VR mode zoom
> view matrix models
> #4,-0.92059,-0.211,0.32865,-771.16,0.38871,-0.41297,0.82363,-728.41,-0.038065,0.88596,0.46217,365.09
> view matrix models
> #4,-0.89365,-0.17275,0.41419,-788.88,0.44803,-0.39689,0.8011,-753.94,0.025996,0.90146,0.43206,425.05
VR mode move picked models
> view matrix models
> #4,-0.89365,-0.17275,0.41419,-788.88,0.44803,-0.39689,0.8011,-753.94,0.025996,0.90146,0.43206,425.05
> view matrix models
> #3,-0.61005,-0.25334,-0.75079,244.06,-0.62528,-0.42808,0.65252,-456.93,-0.48669,0.8675,0.10274,683.05
> view matrix models
> #4,-0.91309,-0.2179,0.34468,-760.04,0.40616,-0.41038,0.81648,-490.83,-0.036464,0.8855,0.46319,360.75
> view matrix models
> #4,-0.72696,-0.19262,0.65911,-1074.9,0.67923,-0.3428,0.64896,-466.58,0.10094,0.91945,0.38002,309.93
> view matrix models
> #4,-0.75013,-0.21207,0.62637,-1060.1,0.65508,-0.36794,0.65993,-416.91,0.090512,0.90534,0.41491,328.49
> view matrix models
> #4,-0.30636,-0.12564,0.94359,-1351.8,0.88564,-0.40104,0.23415,-294.31,0.34899,0.9074,0.23413,304.62
> view matrix models
> #4,-0.63901,-0.22723,0.73487,-1089.7,0.74761,-0.40824,0.52386,-411.64,0.18097,0.88414,0.43074,293.43
> view matrix models
> #1,0.97253,-0.19686,0.12419,-126.51,0.19111,0.97992,0.056793,-140.8,-0.13289,-0.0315,0.99063,96.539
> view matrix models
> #1,0.98445,-0.0025701,-0.17565,-505.37,-0.049899,0.9546,-0.29363,-154.39,0.16843,0.29783,0.93964,190.2
> view matrix models
> #3,-0.56108,-0.17276,-0.80955,189.82,-0.71781,-0.38552,0.57977,-308.86,-0.41224,0.90638,0.092295,643.86
> view matrix models
> #4,-0.78277,-0.24578,0.57173,-1045.9,0.61803,-0.41478,0.66784,-521.62,0.073002,0.8761,0.47656,255.81
> view matrix models
> #4,-0.80737,-0.25733,0.53097,-867.32,0.58988,-0.32986,0.73706,-424.62,-0.014526,0.90827,0.4181,327.08
> view matrix models
> #1,0.96264,-0.090214,-0.2553,-381.73,0.0088917,0.95288,-0.30318,-82.601,0.27063,0.28958,0.91809,252.91
> view matrix models
> #1,0.96358,-0.028737,-0.26587,-363.87,-0.052244,0.95481,-0.29254,-70.335,0.26227,0.29578,0.91855,260.71
> view matrix models
> #2,0.69059,0.49586,-0.52651,-556.58,-0.42994,0.86684,0.25246,-157.53,0.58157,0.052028,0.81182,389.74
> view matrix models
> #6,0.42931,0.22136,-0.87562,-392.6,-0.51046,-0.74033,-0.43743,-12.602,-0.74506,0.63477,-0.20483,402.92
> view matrix models
> #5,0.094842,0.68017,-0.72691,-591.45,0.88345,0.27907,0.37637,126.39,0.45881,-0.67789,-0.57444,615.5
> show surfaces
> view matrix models
> #5,-0.050747,0.86524,-0.49881,-450.87,0.98891,-0.026235,-0.14615,82.832,-0.13955,-0.50072,-0.85431,870.71
> view matrix models
> #4,-0.80514,-0.27141,0.52733,-867.17,0.59255,-0.33016,0.73478,-423.29,-0.025326,0.90405,0.42664,317.54
> view matrix models
> #2,0.62344,-0.78021,-0.050815,-140.92,0.72092,0.54851,0.42356,-439.34,-0.30261,-0.30071,0.90444,733.21
> view matrix models
> #3,-0.55895,-0.29144,-0.77631,273.42,-0.7055,-0.32481,0.62991,-375.52,-0.43572,0.89975,-0.024065,654.2
VR mode move scene
VR mode move scene
> view matrix models
> #6,-0.060838,0.54756,-0.83456,-405.36,-0.94155,0.24606,0.2301,47.624,0.33135,0.79977,0.50058,523.43
> view matrix models
> #1,0.99094,0.13413,-0.0066588,-492.36,-0.13217,0.96518,-0.22567,-90.182,-0.023838,0.22451,0.97418,308.94
> view matrix models
> #1,0.99044,0.062181,0.1231,-482.78,-0.046442,0.99083,-0.1268,-96.699,-0.12985,0.11988,0.98426,328.57
VR mode mark surface
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\core\triggerset.py", line 130, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 740, in _vr_tracking_cb
gu = self._gui_updates(c)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 816, in _gui_updates
pchange['image'] = _encode_numpy_array(rgba)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 1073, in _encode_numpy_array
data = b64encode(compress(array.tobytes(), level = 1))
AttributeError: 'NoneType' object has no attribute 'tobytes'
Error processing trigger "vr update":
AttributeError: 'NoneType' object has no attribute 'tobytes'
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 1073, in _encode_numpy_array
data = b64encode(compress(array.tobytes(), level = 1))
See log for complete Python traceback.
VR mode mark surface
VR mode mark surface
VR mode mark surface
VR mode mark surface
VR mode mark surface
VR mode mark center
VR mode mark point
VR mode link markers
VR mode mark surface
VR mode mark plane
VR mode mark surface
VR mode move markers
VR mode resize markers
VR mode mark surface
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\core\triggerset.py", line 130, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 740, in _vr_tracking_cb
gu = self._gui_updates(c)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 816, in _gui_updates
pchange['image'] = _encode_numpy_array(rgba)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 1073, in _encode_numpy_array
data = b64encode(compress(array.tobytes(), level = 1))
AttributeError: 'NoneType' object has no attribute 'tobytes'
Error processing trigger "vr update":
AttributeError: 'NoneType' object has no attribute 'tobytes'
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 1073, in _encode_numpy_array
data = b64encode(compress(array.tobytes(), level = 1))
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\core\triggerset.py", line 130, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 740, in _vr_tracking_cb
gu = self._gui_updates(c)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 816, in _gui_updates
pchange['image'] = _encode_numpy_array(rgba)
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 1073, in _encode_numpy_array
data = b64encode(compress(array.tobytes(), level = 1))
AttributeError: 'NoneType' object has no attribute 'tobytes'
Error processing trigger "vr update":
AttributeError: 'NoneType' object has no attribute 'tobytes'
File "C:\Program Files\ChimeraX 1.2.dev202010010012\bin\lib\site-
packages\chimerax\meeting\meeting.py", line 1073, in _encode_numpy_array
data = b64encode(compress(array.tobytes(), level = 1))
See log for complete Python traceback.
OpenGL version: 3.3.0 NVIDIA 456.55
OpenGL renderer: GeForce RTX 2070 with Max-Q Design/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: Alienware
Model: Alienware m15
OS: Microsoft Windows 10 Pro (Build 19041)
Memory: 34,143,154,176
MaxProcessMemory: 137,438,953,344
CPU: 12 Intel(R) Core(TM) i7-9750H CPU @ 2.60GHz
OSLanguage: en-US
Locale: ('en_US', 'cp1252')
PyQt version: 5.15.1
Compiled Qt version: 5.15.1
Runtime Qt version: 5.15.1
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
Babel: 2.8.0
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2020.6.20
cftime: 1.2.1
chardet: 3.0.4
ChimeraX-AddH: 2.1.1
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.1
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.8.2
ChimeraX-AtomicLibrary: 1.0
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 1.1
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.2
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.0
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.1
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.1
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-CommandLine: 1.1.3
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.2.dev202010010012
ChimeraX-CoreFormats: 1.0
ChimeraX-coulombic: 1.0.1
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-DataFormats: 1.0
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.0
ChimeraX-Hbonds: 2.1
ChimeraX-Help: 1.0
ChimeraX-HKCage: 1.0
ChimeraX-IHM: 1.0
ChimeraX-ImageFormats: 1.0
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0
ChimeraX-Label: 1.0
ChimeraX-ListInfo: 1.0
ChimeraX-Log: 1.1.1
ChimeraX-LookingGlass: 1.1
ChimeraX-Map: 1.0.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.0
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 1.1
ChimeraX-MDcrds: 2.1
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.0
ChimeraX-mmCIF: 2.2
ChimeraX-MMTF: 2.0
ChimeraX-Modeller: 1.0
ChimeraX-ModelPanel: 1.0
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.0
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0
ChimeraX-OpenCommand: 1.3
ChimeraX-PDB: 2.1.1
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0
ChimeraX-PubChem: 2.0.1
ChimeraX-Read-Pbonds: 1.0
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.2
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SeqView: 2.2.1
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.0
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.0.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.1
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.0
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.0
ChimeraX-ToolshedUtils: 1.0
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.3.1
ChimeraX-uniprot: 2.0
ChimeraX-ViewDockX: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.3
comtypes: 1.1.7
cxservices: 1.0
cycler: 0.10.0
Cython: 0.29.21
decorator: 4.4.2
distlib: 0.3.1
docutils: 0.16
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 2.10.0
html2text: 2020.1.16
idna: 2.10
ihm: 0.17
imagecodecs: 2020.5.30
imagecodecs-lite: 2020.1.31
imagesize: 1.2.0
ipykernel: 5.3.4
ipython: 7.18.1
ipython-genutils: 0.2.0
jedi: 0.17.2
Jinja2: 2.11.2
jupyter-client: 6.1.7
jupyter-core: 4.6.3
kiwisolver: 1.2.0
line-profiler: 2.1.2
lxml: 4.5.2
MarkupSafe: 1.1.1
matplotlib: 3.3.2
msgpack: 1.0.0
netCDF4: 1.5.4
netifaces: 0.10.9
networkx: 2.5
numexpr: 2.7.1
numpy: 1.19.2
numpydoc: 1.1.0
openvr: 1.14.1501
packaging: 20.4
parso: 0.7.1
pickleshare: 0.7.5
Pillow: 7.2.0
pip: 20.2.3
pkginfo: 1.5.0.1
prompt-toolkit: 3.0.7
psutil: 5.7.2
pycollada: 0.7.1
pydicom: 2.0.0
Pygments: 2.7.1
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 2.4.7
PyQt5-commercial: 5.15.1
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.1
python-dateutil: 2.8.1
pytz: 2020.1
pywin32: 228
pyzmq: 19.0.2
qtconsole: 4.7.7
QtPy: 1.9.0
RandomWords: 0.3.0
requests: 2.24.0
scipy: 1.5.2
setuptools: 50.3.0
sfftk-rw: 0.6.6.dev0
six: 1.15.0
snowballstemmer: 2.0.0
sortedcontainers: 2.2.2
Sphinx: 3.2.1
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 1.0.3
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.4
suds-jurko: 0.6
tables: 3.6.1
tifffile: 2020.9.3
tinyarray: 1.2.3
tornado: 6.0.4
traitlets: 5.0.4
urllib3: 1.25.10
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.34.2
WMI: 1.5.1
![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Fixed. Reported by Meghan McCarthy.
When showing the GUI in VR in a meeting, if a GUI panel appeared but was not yet drawn in VR then the meeting code raised an error because the panel had no image. This happened when pressing any of the toolbar Marker tab buttons that show the Marker gui panel. I made the meeting code ignore the panel until it is drawn in VR.