ArtiaX session save: Unknown class name 'ArtiaX'

[matthias.vorlaender@…]

The following bug report has been submitted:
Platform:        macOS-10.16-x86_64-i386-64bit
ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 UTC)
Description
Hi, when ArtiaX is running it is impossible to save a session. A fix would be very much appreciated since preparing tomographic sessions is a lot of wotk! Thanks for deceloping thsi incredible tool.
Best wishes from Swtizerland,
Matthias

Log:
> set selectionWidth 4

UCSF ChimeraX version: 1.6.1 (2023-05-09)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/triggerset.py", line 138, in invoke  
return self._func(self._name, data)  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-packages/chimerax/isolde/tool.py", line 42, in
_launch_main_gui  
tw = self.tool_window = IsoldeMainWin(self)  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-packages/chimerax/isolde/ui/main_win.py", line 54,
in __init__  
self.general_tab = GeneralTab(self.session, self.isolde, self, tabw)  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-packages/chimerax/isolde/ui/ui_base.py", line 226,
in __init__  
self.populate()  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-
packages/chimerax/isolde/ui/general_tab/__init__.py", line 26, in populate  
self.addWidget(ComputationalPlatformPanel(session, isolde, parent, gui))  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-
packages/chimerax/isolde/ui/general_tab/platform.py", line 14, in __init__  
cpd = self.content = ComputationalPlatformDialog(session, isolde, gui, self)  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-
packages/chimerax/isolde/ui/general_tab/platform.py", line 26, in __init__  
self._populate_platform_combo_box()  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-
packages/chimerax/isolde/ui/general_tab/platform.py", line 36, in
_populate_platform_combo_box  
platform_names = list(sorted(platform_names, key=lambda
p:sim_params.platforms.index(p)))  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-
packages/chimerax/isolde/ui/general_tab/platform.py", line 36, in <lambda>  
platform_names = list(sorted(platform_names, key=lambda
p:sim_params.platforms.index(p)))  
ValueError: tuple.index(x): x not in tuple  
  
Error processing trigger "new frame":  
ValueError: tuple.index(x): x not in tuple  
  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-
packages/chimerax/isolde/ui/general_tab/platform.py", line 36, in  
platform_names = list(sorted(platform_names, key=lambda
p:sim_params.platforms.index(p)))  
  
See log for complete Python traceback.  
  

> open /Users/matthias.vorlaender/Downloads/FileZila/649.rec format imodmap

Summary of feedback from opening
/Users/matthias.vorlaender/Downloads/FileZila/649.rec  
---  
note | /Users/matthias.vorlaender/Downloads/FileZila/649.rec: invalid cell
angles 0,0,0 must be between 0 and 180.  
  
Opened 649.rec as #1, grid size 1024,1024,512, pixel 1, shown at step 1,
values float32  

> vop gauss #1 sd 3

Opened 649.rec gaussian as #2, grid size 1024,1024,512, pixel 1, shown at step
1, values float32  

> artiax start

Using preset: ArtiaX / Artiax Default  
Preset expands to these ChimeraX commands:

    
    
    set bgColor black
    lighting depthCue false
    camera ortho

  

> artiax add tomo #2

Opened 649.rec gaussian as #3.1.1, grid size 1024,1024,512, pixel 1, shown at
level 52.8, step 1, values float32  

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> artiax tomo #3.1.1 pixelSize 7.6

> artiax view xy

> artiax tomo #3.1.1 pixelSize 7.6

> artiax view xy

> artiax tomo #3.1.1 pixelSize 7.6

> artiax view xy

> artiax tomo #3.1.1 contrastCenter 2.1908

> artiax tomo #3.1.1 contrastWidth 85.9912

> view

> view orient

> artiax tomo #3.1.1 slice 264

> opem 7apk

Unknown command: opem 7apk  

> artiax tomo #3.1.1 slice 273

> artiax tomo #3.1.1 slice 296

> artiax tomo #3.1.1 slice 256

> open /Users/matthias.vorlaender/Downloads/emd_16753_additional_1.map

Opened emd_16753_additional_1.map as #2, grid size 180,180,180, pixel 3, shown
at level 0.00594, step 1, values float32  

> view

[Repeated 1 time(s)]

> hide #!3 models

> color #2 #57ba77ff models

> show #!3 models

> ui mousemode right "mark surface"

> marker #4 position 2854,1719,1942 color yellow radius 1

> marker change #4 radius 100

> hide #!3 models

> select add #2

1 atom, 1 residue, 3 models selected  

> marker #4 position 313.5,151.8,275.6 color yellow radius 100

> marker #4 position 324.1,131.9,373 color yellow radius 100

> marker #4 position 380.2,94.46,446.9 color yellow radius 100

> close #4

> show #!3 models

> marker #4 position 2854,1692,1942 color yellow radius 100

> ui mousemode right "translate selected models"

> select add #2

1 atom, 1 residue, 3 models selected  

> view matrix models
> #2,1,0,0,57.967,0,1,0,43.607,0,0,1,0,#4,1,0,0,57.967,0,1,0,43.607,0,0,1,0

> select subtract #4

2 models selected  

> view matrix models #2,1,0,0,2540.8,0,1,0,1461.8,0,0,1,0

> view matrix models #2,1,0,0,2614.7,0,1,0,1469.5,0,0,1,0

> view matrix models #2,1,0,0,2801,0,1,0,1389.1,0,0,1,1626.1

> view matrix models #2,1,0,0,2594.3,0,1,0,1476.3,0,0,1,1694.9

> view matrix models
> #2,0.017747,0.12525,-0.99197,3167.8,0.05727,0.99037,0.12607,1420,0.9982,-0.059048,0.010403,1782.9

> view matrix models
> #2,-0.18127,0.16256,-0.96991,3203.8,0.13953,0.98052,0.13826,1396.2,0.97349,-0.11027,-0.20042,1876.1

> view matrix models
> #2,-0.43289,0.2024,-0.87843,3229.4,0.16974,0.97534,0.14108,1388.5,0.88532,-0.088035,-0.45657,1982.3

> view matrix models
> #2,-0.43289,0.2024,-0.87843,3245.9,0.16974,0.97534,0.14108,1359,0.88532,-0.088035,-0.45657,1983.3

> view matrix models
> #2,-0.18893,0.84408,-0.50183,2876.9,0.33333,0.53581,0.77576,1214.5,0.92369,-0.020709,-0.38259,1929.3

> view matrix models
> #2,-0.049309,0.73917,-0.67171,2926.1,-0.29114,0.63268,0.7176,1376.9,0.95541,0.23094,0.184,1657.3

> view matrix models
> #2,-0.049309,0.73917,-0.67171,2820.5,-0.29114,0.63268,0.7176,1277.3,0.95541,0.23094,0.184,1639.5

> view matrix models
> #2,-0.049309,0.73917,-0.67171,2864.5,-0.29114,0.63268,0.7176,1287.6,0.95541,0.23094,0.184,1632.9

> volume #2 level 0.00481

> view matrix models
> #2,-0.049309,0.73917,-0.67171,2895.9,-0.29114,0.63268,0.7176,1282.4,0.95541,0.23094,0.184,1628.8

> view matrix models
> #2,-0.07848,0.7193,-0.69026,2917.3,-0.16522,0.67343,0.72055,1229.1,0.98313,0.1706,0.065995,1677

> view matrix models
> #2,-0.097844,0.71087,-0.69649,2928.1,-0.12146,0.68608,0.71731,1212.5,0.98776,0.15478,0.019215,1695.9

> view matrix models
> #2,-0.18285,0.68695,-0.70332,2964.8,-0.055792,0.70698,0.70503,1189.6,0.98156,0.16815,-0.090943,1732.4

> view matrix models
> #2,-0.11797,0.70439,-0.69994,2937.6,-0.097127,0.69329,0.71408,1203.7,0.98826,0.15222,-0.013373,1707.7

> view matrix models
> #2,-0.13483,0.78683,-0.60226,2886.9,-0.063054,0.59977,0.79769,1189.2,0.98886,0.14552,-0.031252,1715.6

> view matrix models
> #2,-0.15564,0.77957,-0.60667,2897.2,-0.022809,0.61115,0.79119,1175.2,0.98755,0.13698,-0.077338,1734.3

> view matrix models
> #2,-0.15564,0.77957,-0.60667,2900.2,-0.022809,0.61115,0.79119,1197.5,0.98755,0.13698,-0.077338,1732.7

> view matrix models
> #2,-0.15564,0.77957,-0.60667,2901,-0.022809,0.61115,0.79119,1205.7,0.98755,0.13698,-0.077338,1714.7

> view matrix models
> #2,-0.17147,0.77703,-0.60565,2906.6,-0.022168,0.61156,0.79089,1205.5,0.98494,0.14904,-0.08764,1715.8

> view matrix models
> #2,-0.3464,0.6665,-0.66014,3012.6,-0.043053,0.69167,0.72093,1214.8,0.9371,0.27815,-0.2109,1745.5

> view matrix models
> #2,-0.26629,0.86077,-0.43378,2855.1,0.034685,0.45829,0.88812,1195.3,0.96327,0.22146,-0.1519,1732

> view matrix models
> #2,-0.26629,0.86077,-0.43378,2837,0.034685,0.45829,0.88812,1208,0.96327,0.22146,-0.1519,1734.7

> view matrix models
> #2,-0.24531,0.86198,-0.44364,2833.2,0.0031603,0.45833,0.88878,1218.1,0.96944,0.21663,-0.11516,1721.3

> volume #2 level 0.004055

> view matrix models
> #2,-0.24531,0.86198,-0.44364,2840.2,0.0031603,0.45833,0.88878,1201.3,0.96944,0.21663,-0.11516,1716.9

> view matrix models
> #2,-0.24531,0.86198,-0.44364,2849.2,0.0031603,0.45833,0.88878,1197.8,0.96944,0.21663,-0.11516,1716.3

> view matrix models
> #2,-0.32172,0.84002,-0.43687,2873.8,0.03461,0.47153,0.88117,1187.8,0.9462,0.26837,-0.18077,1726.2

> vop gauss #2 sd 3

Opened emd_16753_additional_1.map gaussian as #5, grid size 180,180,180, pixel
3, shown at step 1, values float32  

> volume #5 level 0.001529

> view matrix models
> #2,-0.32172,0.84002,-0.43687,2873.8,0.03461,0.47153,0.88117,1187.8,0.9462,0.26837,-0.18077,1726.2

> volume #5 level 0.005939

> view matrix models
> #2,-0.32172,0.84002,-0.43687,2873.8,0.03461,0.47153,0.88117,1187.8,0.9462,0.26837,-0.18077,1726.2

> view matrix models
> #2,-0.32172,0.84002,-0.43687,2834.7,0.03461,0.47153,0.88117,1159.9,0.9462,0.26837,-0.18077,1727.3

> volume #5 level 0.004804

> vop gauss #2 sd 5

Opened emd_16753_additional_1.map gaussian as #6, grid size 180,180,180, pixel
3, shown at step 1, values float32  

> volume #6 level 0.003951

> view matrix models
> #2,-0.32172,0.84002,-0.43687,2834.7,0.03461,0.47153,0.88117,1159.9,0.9462,0.26837,-0.18077,1727.3

> select add #6

4 models selected  

> view matrix models
> #2,0.21806,0.79374,-0.56782,2743.3,-0.24335,0.60767,0.75599,1238.2,0.94511,-0.026672,0.32566,1645.6,#6,0.21806,0.79374,-0.56782,2743.3,-0.24335,0.60767,0.75599,1238.2,0.94511,-0.026672,0.32566,1645.6

> view matrix models
> #2,0.281,0.78967,-0.5454,2720.3,-0.32997,0.61315,0.71775,1272.3,0.9012,-0.021725,0.43286,1621.9,#6,0.281,0.78967,-0.5454,2720.3,-0.32997,0.61315,0.71775,1272.3,0.9012,-0.021725,0.43286,1621.9

> view matrix models
> #2,0.281,0.78967,-0.5454,2735.1,-0.32997,0.61315,0.71775,1271.4,0.9012,-0.021725,0.43286,1617.3,#6,0.281,0.78967,-0.5454,2735.1,-0.32997,0.61315,0.71775,1271.4,0.9012,-0.021725,0.43286,1617.3

> artiax tomo #3.1.1 slice 253

> view

> view orient

> view

> hide #!6 models

> show #!6 models

> hide #!6 models

> show #!6 models

> view matrix models
> #2,0.34342,0.80043,-0.4913,2698.1,-0.50326,0.59851,0.62332,1352.3,0.79297,0.033189,0.60836,1575.6,#6,0.34342,0.80043,-0.4913,2698.1,-0.50326,0.59851,0.62332,1352.3,0.79297,0.033189,0.60836,1575.6

> hide #!6 models

> show #!6 models

> hide #!6 models

> view matrix models
> #2,0.34342,0.80043,-0.4913,2698.1,-0.50326,0.59851,0.62332,1352.3,0.79297,0.033189,0.60836,1575.6,#6,0.34342,0.80043,-0.4913,2698.1,-0.50326,0.59851,0.62332,1352.3,0.79297,0.033189,0.60836,1575.6

> show #!6 models

> view matrix models
> #2,0.47659,0.8283,-0.29458,2591.8,-0.56237,0.5448,0.62204,1383.1,0.67572,-0.1308,0.72546,1614.2,#6,0.47659,0.8283,-0.29458,2591.8,-0.56237,0.5448,0.62204,1383.1,0.67572,-0.1308,0.72546,1614.2

> hide #!6 models

> show #!6 models

> hide #!6 models

> show #!6 models

> vop vopy #6

> volume vopy #6

Expected a density maps specifier or a keyword  

> vop copy #6

Opened emd_16753_additional_1.map gaussian copy as #7, grid size 180,180,180,
pixel 3, shown at step 1, values float32  

> select add #7

6 models selected  

> view matrix models
> #2,0.35831,0.61876,-0.69911,2809.4,-0.33729,0.78405,0.52106,1290,0.87054,0.049105,0.48963,1588.3,#6,0.35831,0.61876,-0.69911,2809.4,-0.33729,0.78405,0.52106,1290,0.87054,0.049105,0.48963,1588.3,#7,0.35831,0.61876,-0.69911,2809.4,-0.33729,0.78405,0.52106,1290,0.87054,0.049105,0.48963,1588.3

> view matrix models
> #2,0.35831,0.61876,-0.69911,2939.8,-0.33729,0.78405,0.52106,1662.3,0.87054,0.049105,0.48963,1592.5,#6,0.35831,0.61876,-0.69911,2939.8,-0.33729,0.78405,0.52106,1662.3,0.87054,0.049105,0.48963,1592.5,#7,0.35831,0.61876,-0.69911,2939.8,-0.33729,0.78405,0.52106,1662.3,0.87054,0.049105,0.48963,1592.5

> view matrix models
> #2,-0.85705,0.48818,-0.16476,3132.5,-0.21492,-0.62937,-0.7468,2415.8,-0.46826,-0.60464,0.64432,2081.1,#6,-0.85705,0.48818,-0.16476,3132.5,-0.21492,-0.62937,-0.7468,2415.8,-0.46826,-0.60464,0.64432,2081.1,#7,-0.85705,0.48818,-0.16476,3132.5,-0.21492,-0.62937,-0.7468,2415.8,-0.46826,-0.60464,0.64432,2081.1

> view matrix models
> #2,-0.95017,0.30994,0.033283,3142.6,-0.23148,-0.63004,-0.74126,2418.6,-0.20877,-0.71203,0.67039,2031.7,#6,-0.95017,0.30994,0.033283,3142.6,-0.23148,-0.63004,-0.74126,2418.6,-0.20877,-0.71203,0.67039,2031.7,#7,-0.95017,0.30994,0.033283,3142.6,-0.23148,-0.63004,-0.74126,2418.6,-0.20877,-0.71203,0.67039,2031.7

> view sel

> view matrix models
> #2,-0.99647,-0.083898,-0.0039098,3273.3,0.016367,-0.14832,-0.9888,2300.7,0.082378,-0.98537,0.14917,2193.3,#6,-0.99647,-0.083898,-0.0039098,3273.3,0.016367,-0.14832,-0.9888,2300.7,0.082378,-0.98537,0.14917,2193.3,#7,-0.99647,-0.083898,-0.0039098,3273.3,0.016367,-0.14832,-0.9888,2300.7,0.082378,-0.98537,0.14917,2193.3

> view matrix models
> #2,-0.9931,-0.11638,0.014607,3274.2,0.014806,-0.24792,-0.96867,2317.8,0.11635,-0.96177,0.24793,2146.2,#6,-0.9931,-0.11638,0.014607,3274.2,0.014806,-0.24792,-0.96867,2317.8,0.11635,-0.96177,0.24793,2146.2,#7,-0.9931,-0.11638,0.014607,3274.2,0.014806,-0.24792,-0.96867,2317.8,0.11635,-0.96177,0.24793,2146.2

> view matrix models
> #2,-0.9931,-0.11638,0.014607,3277.9,0.014806,-0.24792,-0.96867,2243.4,0.11635,-0.96177,0.24793,2142.8,#6,-0.9931,-0.11638,0.014607,3277.9,0.014806,-0.24792,-0.96867,2243.4,0.11635,-0.96177,0.24793,2142.8,#7,-0.9931,-0.11638,0.014607,3277.9,0.014806,-0.24792,-0.96867,2243.4,0.11635,-0.96177,0.24793,2142.8

> view matrix models
> #2,-0.99655,-0.081629,0.014769,3269.4,0.017967,-0.38621,-0.92224,2265,0.080985,-0.91879,0.38634,2096.5,#6,-0.99655,-0.081629,0.014769,3269.4,0.017967,-0.38621,-0.92224,2265,0.080985,-0.91879,0.38634,2096.5,#7,-0.99655,-0.081629,0.014769,3269.4,0.017967,-0.38621,-0.92224,2265,0.080985,-0.91879,0.38634,2096.5

> view

> view matrix models
> #2,-0.99737,-0.066754,0.028175,3261.4,-0.013845,-0.20612,-0.97843,2243,0.071121,-0.97625,0.20465,2172.7,#6,-0.99737,-0.066754,0.028175,3261.4,-0.013845,-0.20612,-0.97843,2243,0.071121,-0.97625,0.20465,2172.7,#7,-0.99737,-0.066754,0.028175,3261.4,-0.013845,-0.20612,-0.97843,2243,0.071121,-0.97625,0.20465,2172.7

> show #!6 models

> hide #!6 models

> show #!5 models

> hide #!3 models

> volume #7 level 0.005813

> volume #5 level 0.006856

> show #!3 models

> view

> artiax tomo #3.1.1 slice 255

> fitmap sel inMap #3

Multiple maps for sel  

> fitmap sel inMap #3.1

Multiple maps for sel  

> fitmap sel inMap #3.1.1

Multiple maps for sel  

> select subtract #6

4 models selected  

> select subtract #2

2 models selected  

> fitmap sel inMap #3.1.1

Fit map emd_16753_additional_1.map gaussian copy in map 649.rec gaussian using
44829 points  
correlation = 0.9019, correlation about mean = -0.04033, overlap = 1.266e+04  
steps = 360, shift = 182, angle = 131 degrees  
  
Position of emd_16753_additional_1.map gaussian copy (#7) relative to 649.rec
gaussian (#3.1.1) coordinates:  
Matrix rotation and translation  
-0.37364421 0.06068129 0.92558510 2795.35554522  
0.61134176 -0.73435387 0.29493328 2086.65899855  
0.69760394 0.67604894 0.23729006 1630.42566074  
Axis 0.53873575 0.32226858 0.77840013  
Axis point 718.92829668 815.94310760 0.00000000  
Rotation angle (degrees) 159.28541324  
Shift along axis 3447.54613061  
  

> undo

> view matrix models
> #2,-0.99737,-0.066754,0.028175,3220.8,-0.013845,-0.20612,-0.97843,2252.1,0.071121,-0.97625,0.20465,2145.2,#7,-0.37364,0.060681,0.92559,2754.8,0.61134,-0.73435,0.29493,2095.8,0.6976,0.67605,0.23729,1602.9

> view matrix models
> #2,0.64001,-0.044397,0.76708,2628.7,0.21421,0.96906,-0.12264,1921,-0.7379,0.24281,0.62972,2176.8,#7,-0.057828,0.67991,-0.73102,2898.7,-0.61212,-0.6026,-0.51204,2583.6,-0.78865,0.41786,0.45103,2022.8

> view matrix models
> #2,0.43096,0.18427,0.88336,2650.1,0.76486,-0.59403,-0.24923,2002,0.47881,0.78305,-0.39694,1785.7,#7,-0.37735,0.66298,-0.64658,2969.3,0.89722,0.088823,-0.43256,1970.4,-0.22934,-0.74335,-0.62836,2443.5

> view matrix models
> #2,0.46776,0.15079,0.8709,2644.6,0.72503,-0.629,-0.28051,2023,0.50549,0.76264,-0.40355,1780.9,#7,-0.33013,0.66936,-0.66556,2959.4,0.92266,0.079983,-0.37722,1952.7,-0.19926,-0.73862,-0.644,2437.9

> view matrix models
> #2,0.69899,-0.26175,0.66551,2652.7,0.19385,-0.82642,-0.52863,2245.9,0.68836,0.49852,-0.52692,1774.3,#7,0.18389,0.704,-0.68598,2816.2,0.97286,-0.030626,0.22936,1823.9,0.14046,-0.70954,-0.69052,2349.4

> view matrix models
> #2,0.69923,-0.031955,0.71419,2612.2,0.25755,-0.92066,-0.29335,2220.7,0.6669,0.38905,-0.63552,1807.6,#7,-0.01841,0.62798,-0.77801,2913.3,0.9633,0.21956,0.15442,1776.8,0.26779,-0.74662,-0.60897,2305.6

> view matrix models
> #2,0.69923,-0.031955,0.71419,2658.5,0.25755,-0.92066,-0.29335,1974.3,0.6669,0.38905,-0.63552,1851.9,#7,-0.01841,0.62798,-0.77801,2959.7,0.9633,0.21956,0.15442,1530.5,0.26779,-0.74662,-0.60897,2349.8

> view matrix models
> #2,0.9509,0.28756,-0.11447,2596.3,0.27746,-0.95589,-0.096427,1957,-0.13715,0.05993,-0.98874,2192.2,#7,0.22193,-0.24787,-0.94303,3170.8,0.90734,0.40664,0.10665,1506.5,0.35704,-0.87932,0.31515,2140.4

> view matrix models
> #2,0.9509,0.28756,-0.11447,2707.9,0.27746,-0.95589,-0.096427,2022.2,-0.13715,0.05993,-0.98874,2103.3,#7,0.22193,-0.24787,-0.94303,3282.4,0.90734,0.40664,0.10665,1571.7,0.35704,-0.87932,0.31515,2051.6

> view matrix models
> #2,0.9509,0.28756,-0.11447,2714.3,0.27746,-0.95589,-0.096427,2017.6,-0.13715,0.05993,-0.98874,2082.9,#7,0.22193,-0.24787,-0.94303,3288.8,0.90734,0.40664,0.10665,1567.1,0.35704,-0.87932,0.31515,2031.2

> view matrix models
> #2,0.93323,0.34167,-0.1111,2711.1,0.33501,-0.93927,-0.074467,1994.6,-0.12979,0.032276,-0.99102,2085.1,#7,0.17073,-0.27267,-0.94684,3310.2,0.90793,0.41684,0.043666,1579.2,0.38278,-0.86712,0.31873,2020.1

> view matrix models
> #2,0.9183,0.34859,0.18765,2689.9,0.37675,-0.9151,-0.14369,1983.1,0.12163,0.20265,-0.97167,1975.6,#7,0.019937,-0.019689,-0.99961,3295.3,0.93855,0.34492,0.011925,1598,0.34455,-0.93842,0.025356,2119.9

> view matrix models
> #2,0.97834,0.16493,0.12509,2704.9,0.1861,-0.9654,-0.18266,2055.7,0.09064,0.20198,-0.97519,1986,#7,0.21758,0.020624,-0.97583,3225.3,0.91716,0.33769,0.21163,1557.9,0.33389,-0.94103,0.054559,2116.5

> view matrix models
> #2,0.99445,0.05902,0.087068,2719.6,0.075393,-0.97715,-0.19874,2094.5,0.073349,0.2042,-0.97618,1991.3,#7,0.32479,0.042236,-0.94484,3183.1,0.88802,0.33016,0.32002,1541.9,0.32547,-0.94298,0.069727,2115.6

> view matrix models
> #2,0.99445,0.05902,0.087068,2703.1,0.075393,-0.97715,-0.19874,2010.8,0.073349,0.2042,-0.97618,1979.3,#7,0.32479,0.042236,-0.94484,3166.6,0.88802,0.33016,0.32002,1458.2,0.32547,-0.94298,0.069727,2103.6

> view matrix models
> #2,0.95157,-0.0042237,0.3074,2708.4,0.085826,-0.9565,-0.27882,2010.9,0.2952,0.2917,-0.90982,1888.5,#7,0.25385,0.26393,-0.93054,3122.4,0.9135,0.25079,0.32034,1472.7,0.31792,-0.93137,-0.17743,2161.7

> view matrix models
> #2,0.95157,-0.0042237,0.3074,2731.1,0.085826,-0.9565,-0.27882,2008.1,0.2952,0.2917,-0.90982,1875.2,#7,0.25385,0.26393,-0.93054,3145.1,0.9135,0.25079,0.32034,1469.9,0.31792,-0.93137,-0.17743,2148.3

> show #!6 models

> hide #!6 models

> select add #6

6 models selected  

> select subtract #6

4 models selected  

> select add #5

6 models selected  

> view matrix models
> #2,0.95279,-0.0013815,0.30362,2730.2,0.083578,-0.96016,-0.26665,2009,0.29189,0.27944,-0.91472,1879.9,#5,-0.31739,0.84052,-0.43908,2873.5,0.021968,0.46941,0.88271,1190.9,0.94804,0.27052,-0.16745,1719.8,#7,0.2539,0.25922,-0.93185,3146.3,0.90977,0.26312,0.32108,1468,0.32842,-0.92928,-0.16902,2144.2

> select subtract #7

4 models selected  

> select subtract #2

2 models selected  

> view matrix models
> #5,-0.41859,0.80185,-0.4264,2907.8,0.0016291,0.47017,0.88257,1196.2,0.90817,0.36875,-0.19812,1712.6

> view matrix models
> #5,-0.41384,0.73015,-0.54371,2958.3,-0.040047,0.58207,0.81215,1196.7,0.90947,0.35787,-0.21164,1718.9

> view matrix models
> #5,-0.41384,0.73015,-0.54371,2978.5,-0.040047,0.58207,0.81215,1187.6,0.90947,0.35787,-0.21164,1695.5

> view matrix models
> #5,-0.21257,0.82565,-0.5226,2892.5,0.16952,0.55787,0.81243,1137.5,0.96233,0.084101,-0.25855,1768.1

> view matrix models
> #5,-0.22131,0.68571,-0.69341,2980,0.13881,0.72596,0.67359,1138.9,0.96527,0.052818,-0.25584,1775

> select subtract #5

Nothing selected  

> select add #7

2 models selected  

> view matrix models
> #7,-0.35097,-0.01438,-0.93628,3384.6,0.89305,0.29551,-0.33931,1621.8,0.28156,-0.95523,-0.090874,2145.2

> view matrix models
> #7,-0.35097,-0.01438,-0.93628,3229.9,0.89305,0.29551,-0.33931,1813.5,0.28156,-0.95523,-0.090874,2109.9

> view matrix models
> #7,0.12607,0.58157,-0.80367,2908.5,-0.6879,-0.53247,-0.49323,2500.8,-0.71477,0.61503,0.33293,1853.6

> view matrix models
> #7,-0.15349,0.62224,-0.76763,2964.4,0.048166,-0.7712,-0.63476,2400.4,-0.98698,-0.1344,0.0884,2187.9

> view matrix models
> #7,-0.21536,-0.59485,-0.77445,3311.3,0.39246,0.67347,-0.62643,1915.3,0.8942,-0.43885,0.088412,1762.2

> view matrix models
> #7,0.20002,0.60536,-0.77041,2874.1,-0.25014,-0.72869,-0.63752,2470.1,-0.94732,0.32023,0.005669,2074.2

> view matrix models
> #7,0.20002,0.60536,-0.77041,2982.6,-0.25014,-0.72869,-0.63752,2408,-0.94732,0.32023,0.005669,2090.4

> view matrix models
> #7,0.19534,0.60563,-0.7714,2984,-0.26228,-0.72564,-0.63612,2410.1,-0.94501,0.32658,0.0171,2085.3

> view matrix models
> #7,0.2131,0.69599,-0.68571,2934.3,-0.24628,-0.6409,-0.72705,2404.7,-0.94548,0.32381,0.03483,2081.9

> view matrix models
> #7,0.3411,-0.80068,-0.4925,3257.6,0.20162,0.57404,-0.79361,1971.6,0.91815,0.17141,0.35724,1542.8

> view matrix models
> #7,0.35038,-0.62142,-0.70077,3256.5,0.085709,0.76633,-0.6367,1913.5,0.93268,0.16302,0.32176,1549.6

> view matrix models
> #7,-0.023767,-0.67327,-0.73901,3380.7,0.13015,0.73084,-0.67002,1919,0.99121,-0.1121,0.070255,1668.3

> view matrix models
> #7,-0.03283,-0.67454,-0.73751,3382.1,0.10598,0.7314,-0.67366,1882.9,0.99383,-0.10028,0.047474,1674.9

> artiax tomo #3.1.1 contrastCenter -5.62658

> artiax tomo #3.1.1 slice 262

> view matrix models
> #7,-0.17095,-0.24744,-0.9537,3355.8,0.017707,0.96702,-0.25407,1742.7,0.98512,-0.06032,-0.16093,1716.3

> view matrix models
> #7,0.13464,0.50332,-0.85354,3046.6,0.52382,-0.76734,-0.36986,2102,-0.84112,-0.3973,-0.36697,2349.7

> view matrix models
> #7,0.2607,0.34949,-0.89994,3065.2,0.1026,-0.93692,-0.33413,2253,-0.95995,-0.0052266,-0.28012,2255.1

> view matrix models
> #7,0.19029,0.35244,-0.91628,3087.3,0.09819,-0.93549,-0.33944,2255.1,-0.97681,-0.025378,-0.21262,2249

> view matrix models
> #7,0.20871,0.35269,-0.91217,2934,0.10328,-0.93544,-0.33806,2040.8,-0.97251,-0.023657,-0.23166,2204.3

> view matrix models
> #7,0.83752,0.16494,0.52092,2472,0.172,-0.98447,0.035175,1946.2,0.51863,0.060138,-0.85288,1927.7

> view matrix models
> #7,-0.28531,0.35463,0.89041,2635.5,-0.35568,-0.90186,0.24522,2016.1,0.89,-0.24673,0.38345,1614.4

> view matrix models
> #7,-0.28531,0.35463,0.89041,2507.7,-0.35568,-0.90186,0.24522,1967.3,0.89,-0.24673,0.38345,1583

> view matrix models
> #7,-0.26799,0.30127,0.91511,2511.5,-0.02022,-0.9514,0.3073,1875.3,0.96321,0.063849,0.26106,1508.7

> view matrix models
> #7,-0.26799,0.30127,0.91511,2492.8,-0.02022,-0.9514,0.3073,1887.4,0.96321,0.063849,0.26106,1505.5

> view matrix models
> #7,-0.26799,0.30127,0.91511,2437,-0.02022,-0.9514,0.3073,1869.1,0.96321,0.063849,0.26106,1492

> view matrix models
> #7,-0.26799,0.30127,0.91511,2491.9,-0.02022,-0.9514,0.3073,1891.6,0.96321,0.063849,0.26106,1505.6

> view matrix models
> #7,-0.26799,0.30127,0.91511,2494.8,-0.02022,-0.9514,0.3073,1890.1,0.96321,0.063849,0.26106,1587.8

> view matrix models
> #7,-0.27838,0.2558,0.92578,2507.4,0.095822,-0.95168,0.29177,1862.6,0.95568,0.16993,0.24042,1566.1

> view matrix models
> #7,-0.27838,0.2558,0.92578,2505.7,0.095822,-0.95168,0.29177,1862.3,0.95568,0.16993,0.24042,1573

> view matrix models
> #7,-0.27838,0.2558,0.92578,2507.1,0.095822,-0.95168,0.29177,1862.2,0.95568,0.16993,0.24042,1583.8

> view matrix models
> #7,-0.27838,0.2558,0.92578,2475.6,0.095822,-0.95168,0.29177,1857.9,0.95568,0.16993,0.24042,1583.6

> hide #4 models

> view

> surface dust #7 size 30

[Repeated 1 time(s)]

> artiax tomo #3.1.1 contrastCenter 2.1908

> artiax tomo #3.1.1 contrastWidth 83.3854

> view orient

> select clear

> hide #!5 models

> hide #!7 models

> artiax tomo #3.1.1 slice 266

> artiax tomo #3.1.1 slice 255

> artiax view xy

> artiax view xz

> artiax view yz

> artiax view xy

> artiax tomo #3.1.1 sliceDirection 0.0,0.0,5.0

> artiax tomo #3.1.1 slice 260

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> mousemode rightMode "move planes"

> artiax tomo #3.1.1 sliceDirection 0,1,0

> artiax view xz

> mousemode rightMode "move planes"

> artiax tomo #3.1.1 sliceDirection 1,0,0

> artiax view yz

> mousemode rightMode "move planes"

> artiax tomo #3.1.1 sliceDirection 0,1,0

> artiax view xz

> mousemode rightMode "move planes"

> artiax tomo #3.1.1 slice 277

> show #!5 models

> show #!6 models

> show #!7 models

> artiax tomo #3.1.1 slice 240

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> mousemode rightMode "move planes"

> hide #!6 models

> hide #!7 models

> hide #!5 models

> artiax tomo #3.1.1 contrastWidth 153.74184

> artiax tomo #3.1.1 contrastWidth 156.34763

> artiax tomo #3.1.1 contrastCenter 4.79659

> volume #3.1.1 style surface

> volume #3.1.1 level 62.44

> volume #3.1.1 level 60.02

> volume #3.1.1 level 56.39

> volume #3.1.1 level 46.72

> invert

Unknown command: invert  

> vop invert #3

> volume invert #3

Expected a density maps specifier or a keyword  

> vop invert #3.1

> volume invert #3.1

Expected a density maps specifier or a keyword  

> vop gauss #3 sd 5 invert true

Opened 649.rec gaussian as #8, grid size 1024,1024,512, pixel 7.6, shown at
step 1, values float32  

> volume #8 level -85.51

> volume #8 step 4

> volume #8 level -18.88

> volume #8 level -6.067

> volume #8 level -2.223

> volume #8 level 0.3395

> surface dust #8 size 76

> volume #8 level -0.9418

> surface dust #8 size 200

> surface dust #8 size 400

> view

> volume #8 level 8.027

> volume #8 level 9.309

> volume #8 level 10

> volume #8 level 12

> volume #8 level 8

> volume #8 level 6

> volume #8 level -6.813

> volume #8 level -2.969

> volume #8 level 0.8748

> volume #8 level 6

> volume #8 level 9.844

> volume #8 level 4.719

> volume #8 step 1

> volume #8 level 11.16

> lighting simple

[Repeated 1 time(s)]

> volume #8 level 1

> lighting simple

> view orient

> surface dust #8 size 76

> surface dust #8 size 400

> surface dust #8 size 800

> vop copy #8

Opened 649.rec gaussian copy as #9, grid size 1024,1024,512, pixel 7.6, shown
at step 1, values float32  

> surface dust #9 size 1000

> surface dust #9 size 2000

> surface dust #9 size 1500

> surface dust #9 size 1000

> ui mousemode right "move planes"

> volume #9 region 0,0,0,1023,1023,511

> hide #!3 models

> ui mousemode right clip

> ui tool show "Side View"

> view orient

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> mousemode rightMode "move planes"

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> mousemode rightMode "move planes"

> volume #9 region 0,0,0,1023,1023,511

[Repeated 3 time(s)]

> hide #!9 models

> show #!8 models

> hide #!8 models

> show #!9 models

> volume #9 region 0,0,0,1023,1023,511

[Repeated 1 time(s)]

> ~clip

> ui mousemode right "mark surface"

> marker #4 position 2874,1716,2219 color yellow radius 100

> show #4 models

> vop zone #9 near #4 newMap true minimalBounds true

Opened 649.rec gaussian copy zone as #10, grid size 8,5,39, pixel 7.6, shown
at step 1, values float32  

> vop zone #9 near #4 range 1000 newMap true minimalBounds true

Opened 649.rec gaussian copy zone as #11, grid size 270,267,302, pixel 7.6,
shown at step 1, values float32  

> close #10

> volume #11 level -4.759

> volume #11 level -0.2519

> surface dust #11 size 1000

> volume #11 level 2.001

> volume #11 level 0.2489

> volume #11 level -0.001499

> volume #11 step 4

> volume #11 level -0.001499

> volume #11 step 1

> surface dust #11 size 100

> surface dust #11 size 200

> volume #11 level 1.501

> volume #11 level 0.4993

> volume #11 level 4.255

> volume #11 level -0.7526

> vop gauss #11 sd 3

Opened 649.rec gaussian copy zone gaussian as #10, grid size 270,267,302,
pixel 7.6, shown at step 1, values float32  

> volume #10 level 0.75

> volume #10 level -2.235

> vop gauss #10 sd 3

Opened 649.rec gaussian copy zone gaussian as #12, grid size 270,267,302,
pixel 7.6, shown at step 1, values float32  

> close #12

> surface dust #10 size 200

> surface dust #10 size 500

> open 7apk

7apk title:  
Structure of the human THO - UAP56 complex [more info...]  
  
Chain information for 7apk #12  
---  
Chain | Description | UniProt  
A I a i | THO complex subunit 1 | THOC1_HUMAN 2-657  
B J b j | THO complex subunit 2 | THOC2_HUMAN 1-1203  
C K c k | THO complex subunit 3 | THOC3_HUMAN 1-351  
E M e m | THO complex subunit 5 homolog | THOC5_HUMAN 1-683  
F N f n | THO complex subunit 6 homolog | THOC6_HUMAN 1-341  
G O g o | THO complex subunit 7 homolog | THOC7_HUMAN 1-204  
H P h p | Spliceosome RNA helicase DDX39B | DX39B_HUMAN 1-428  
X x | THOC2 anchor (putative) |  
  

> hide #4 models

> hide #!10 models

> show #!10 models

> view

> select add #12

72698 atoms, 73887 bonds, 204 pseudobonds, 9968 residues, 3 models selected  

> ui mousemode right "translate selected models"

> view matrix models
> #4,1,0,0,2135,0,1,0,2303.8,0,0,1,227.18,#12,1,0,0,2077,0,1,0,2260.2,0,0,1,227.18

> view matrix models
> #4,1,0,0,3081.5,0,1,0,1977,0,0,1,1441.8,#12,1,0,0,3023.6,0,1,0,1933.4,0,0,1,1441.8

> view matrix models
> #4,0.10199,0.93367,-0.3433,3155.4,0.10045,0.33367,0.93732,1839.7,0.9897,-0.13009,-0.059756,1566.9,#12,0.10199,0.93367,-0.3433,3108.8,0.10045,0.33367,0.93732,1819.3,0.9897,-0.13009,-0.059756,1515.2

> view matrix models
> #4,0.10199,0.93367,-0.3433,3039.5,0.10045,0.33367,0.93732,1565.3,0.9897,-0.13009,-0.059756,1938.5,#12,0.10199,0.93367,-0.3433,2992.9,0.10045,0.33367,0.93732,1545,0.9897,-0.13009,-0.059756,1886.9

> view matrix models
> #4,-0.018507,0.96012,-0.27897,3041,0.06326,0.27958,0.95804,1581.1,0.99783,8.2866e-05,-0.065911,1906.1,#12,-0.018507,0.96012,-0.27897,3000.2,0.06326,0.27958,0.95804,1565.2,0.99783,8.2866e-05,-0.065911,1848.3

> view matrix models
> #4,-0.39843,0.89387,-0.20556,3121.7,0.020904,0.23291,0.97227,1598,0.91696,0.38309,-0.11148,1842.7,#12,-0.39843,0.89387,-0.20556,3105.9,0.020904,0.23291,0.97227,1586.7,0.91696,0.38309,-0.11148,1772.8

> view matrix models
> #4,0.18563,0.74244,-0.64368,3158.1,0.14258,0.62778,0.76522,1534,0.97222,-0.23382,0.010681,1947.3,#12,0.18563,0.74244,-0.64368,3115,0.14258,0.62778,0.76522,1498.4,0.97222,-0.23382,0.010681,1901.1

> view matrix models
> #4,-0.28575,0.94381,-0.16604,3071.9,-0.21222,0.10664,0.97139,1682.7,0.93451,0.31281,0.16983,1772,#12,-0.28575,0.94381,-0.16604,3047.3,-0.21222,0.10664,0.97139,1690.3,0.93451,0.31281,0.16983,1704.2

> view matrix models
> #4,-0.28575,0.94381,-0.16604,3067.4,-0.21222,0.10664,0.97139,1649.1,0.93451,0.31281,0.16983,1792.9,#12,-0.28575,0.94381,-0.16604,3042.8,-0.21222,0.10664,0.97139,1656.7,0.93451,0.31281,0.16983,1725.1

> view matrix models
> #4,-0.28575,0.94381,-0.16604,2890.5,-0.21222,0.10664,0.97139,1596.5,0.93451,0.31281,0.16983,1735.3,#12,-0.28575,0.94381,-0.16604,2865.9,-0.21222,0.10664,0.97139,1604.2,0.93451,0.31281,0.16983,1667.5

> view matrix models
> #4,0.15172,0.87105,-0.46718,2899.5,0.34064,0.39762,0.85198,1434.3,0.92787,-0.2884,-0.23638,2008.3,#12,0.15172,0.87105,-0.46718,2852.8,0.34064,0.39762,0.85198,1397.2,0.92787,-0.2884,-0.23638,1967.1

> view matrix models
> #4,0.21136,0.82021,-0.53159,2918,-0.0099358,0.54565,0.83795,1481.2,0.97736,-0.17182,0.12348,1860.3,#12,0.21136,0.82021,-0.53159,2869.9,-0.0099358,0.54565,0.83795,1457.9,0.97736,-0.17182,0.12348,1811.1

> view matrix models
> #4,0.20869,0.82248,-0.52913,2893.5,-0.0093947,0.5427,0.83987,1483,0.97794,-0.1703,0.12099,1863.9,#12,0.20869,0.82248,-0.52913,2845.6,-0.0093947,0.5427,0.83987,1459.8,0.97794,-0.1703,0.12099,1814.6

> view matrix models
> #4,0.34188,0.38419,-0.85762,3070.9,0.34072,0.79984,0.49413,1442.9,0.8758,-0.46114,0.14255,1953.1,#12,0.34188,0.38419,-0.85762,3034.3,0.34072,0.79984,0.49413,1388.3,0.8758,-0.46114,0.14255,1922.4

> view matrix models
> #4,-0.29904,0.93538,-0.18878,2878.7,-0.10993,0.16274,0.98052,1558.4,0.94789,0.31397,0.054163,1770,#12,-0.29904,0.93538,-0.18878,2855.3,-0.10993,0.16274,0.98052,1557.6,0.94789,0.31397,0.054163,1701.4

> view matrix models
> #4,-0.29904,0.93538,-0.18878,2892,-0.10993,0.16274,0.98052,1613.2,0.94789,0.31397,0.054163,1741.1,#12,-0.29904,0.93538,-0.18878,2868.6,-0.10993,0.16274,0.98052,1612.5,0.94789,0.31397,0.054163,1672.4

> view matrix models
> #4,-0.29172,0.9243,-0.2461,2910.3,-0.26212,0.17019,0.94991,1655,0.91989,0.34162,0.19263,1699.1,#12,-0.29172,0.9243,-0.2461,2886.9,-0.26212,0.17019,0.94991,1662.8,0.91989,0.34162,0.19263,1630.9

> view matrix models
> #4,-0.34598,0.87418,-0.34074,2963.4,-0.16458,0.30099,0.93932,1603.5,0.92369,0.38106,0.039736,1734.2,#12,-0.34598,0.87418,-0.34074,2945.4,-0.16458,0.30099,0.93932,1599.9,0.92369,0.38106,0.039736,1664

> view matrix models
> #4,-0.33776,0.87698,-0.34179,2960.5,-0.16468,0.30246,0.93883,1600.6,0.92671,0.37339,0.04226,1736.2,#12,-0.33776,0.87698,-0.34179,2941.8,-0.16468,0.30246,0.93883,1597,0.92671,0.37339,0.04226,1666.2

> view matrix models
> #4,-0.33776,0.87698,-0.34179,2957.5,-0.16468,0.30246,0.93883,1596.4,0.92671,0.37339,0.04226,1743.1,#12,-0.33776,0.87698,-0.34179,2938.9,-0.16468,0.30246,0.93883,1592.7,0.92671,0.37339,0.04226,1673.1

> view matrix models
> #4,-0.2288,0.84947,-0.47544,2979.7,-0.15212,0.4512,0.87936,1574.3,0.96151,0.27353,0.025985,1765,#12,-0.2288,0.84947,-0.47544,2955.9,-0.15212,0.4512,0.87936,1563.4,0.96151,0.27353,0.025985,1697.3

> view matrix models
> #4,-0.21789,0.8569,-0.46717,2973.3,-0.15397,0.4425,0.88345,1573.7,0.96375,0.26443,0.035523,1762.7,#12,-0.21789,0.8569,-0.46717,2948.6,-0.15397,0.4425,0.88345,1563.3,0.96375,0.26443,0.035523,1695.3

> view matrix models
> #4,-0.21789,0.8569,-0.46717,2970.4,-0.15397,0.4425,0.88345,1570,0.96375,0.26443,0.035523,1769.5,#12,-0.21789,0.8569,-0.46717,2945.7,-0.15397,0.4425,0.88345,1559.6,0.96375,0.26443,0.035523,1702.2

> view matrix models
> #4,-0.2975,0.94515,-0.13486,2867,-0.36045,0.019613,0.93257,1707.5,0.88407,0.32605,0.33485,1682.7,#12,-0.2975,0.94515,-0.13486,2843,-0.36045,0.019613,0.93257,1727.6,0.88407,0.32605,0.33485,1617.2

> view matrix models
> #4,-0.31237,0.94765,-0.06629,2849.2,-0.18238,0.0086592,0.98319,1654.7,0.93229,0.3192,0.17013,1722.7,#12,-0.31237,0.94765,-0.06629,2826,-0.18238,0.0086592,0.98319,1664.9,0.93229,0.3192,0.17013,1654.8

> view matrix models
> #4,0.43824,0.89704,-0.057184,2688.8,-0.040163,-0.044013,-0.99822,2228.7,-0.89796,0.43976,0.016739,2153.9,#12,0.43824,0.89704,-0.057184,2624.3,-0.040163,-0.044013,-0.99822,2232.9,-0.89796,0.43976,0.016739,2186.8

> view matrix models
> #4,0.34986,0.93334,0.080445,2658.6,-0.045424,0.10267,-0.99368,2192,-0.9357,0.34399,0.078317,2167.9,#12,0.34986,0.93334,0.080445,2597.6,-0.045424,0.10267,-0.99368,2190.1,-0.9357,0.34399,0.078317,2207.2

> view matrix models
> #4,0.3514,0.92532,0.14245,2641.7,0.11959,0.10655,-0.98709,2151.6,-0.92856,0.3639,-0.07322,2206.7,#12,0.3514,0.92532,0.14245,2581,0.11959,0.10655,-0.98709,2140,-0.92856,0.3639,-0.07322,2244.7

> view matrix models
> #4,0.3514,0.92532,0.14245,2638.7,0.11959,0.10655,-0.98709,2162.3,-0.92856,0.3639,-0.07322,2214.7,#12,0.3514,0.92532,0.14245,2578,0.11959,0.10655,-0.98709,2150.7,-0.92856,0.3639,-0.07322,2252.7

> view matrix models
> #4,0.25229,0.96712,0.032102,2683.8,0.17149,-0.012035,-0.98511,2179.5,-0.95234,0.25404,-0.16888,2276.1,#12,0.25229,0.96712,0.032102,2627,0.17149,-0.012035,-0.98511,2170.1,-0.95234,0.25404,-0.16888,2320.3

> view matrix models
> #4,0.25229,0.96712,0.032102,2689.9,0.17149,-0.012035,-0.98511,2154,-0.95234,0.25404,-0.16888,2259.5,#12,0.25229,0.96712,0.032102,2633.1,0.17149,-0.012035,-0.98511,2144.6,-0.95234,0.25404,-0.16888,2303.6

> view matrix models
> #4,0.25229,0.96712,0.032102,2693.9,0.17149,-0.012035,-0.98511,2154.4,-0.95234,0.25404,-0.16888,2249.6,#12,0.25229,0.96712,0.032102,2637.1,0.17149,-0.012035,-0.98511,2144.9,-0.95234,0.25404,-0.16888,2293.8

> view matrix models
> #4,0.24201,0.9663,0.087746,2679.8,0.31524,0.0072211,-0.94898,2106.1,-0.91763,0.25733,-0.30287,2281,#12,0.24201,0.9663,0.087746,2623.7,0.31524,0.0072211,-0.94898,2087.5,-0.91763,0.25733,-0.30287,2323

> view matrix models
> #4,0.2392,0.96603,0.097864,2677.5,0.34123,0.010726,-0.93992,2096.6,-0.90904,0.25823,-0.32707,2286.1,#12,0.2392,0.96603,0.097864,2621.5,0.34123,0.010726,-0.93992,2076.4,-0.90904,0.25823,-0.32707,2327.5

> view matrix models
> #4,0.2392,0.96603,0.097864,2667.1,0.34123,0.010726,-0.93992,2094.8,-0.90904,0.25823,-0.32707,2311.4,#12,0.2392,0.96603,0.097864,2611.1,0.34123,0.010726,-0.93992,2074.6,-0.90904,0.25823,-0.32707,2352.9

> transparency #10 50

> view matrix models
> #4,0.2392,0.96603,0.097864,2681.1,0.34123,0.010726,-0.93992,2089.3,-0.90904,0.25823,-0.32707,2303.3,#12,0.2392,0.96603,0.097864,2625.1,0.34123,0.010726,-0.93992,2069.1,-0.90904,0.25823,-0.32707,2344.7

> view matrix models
> #4,0.31499,0.94758,0.053676,2681.7,0.31558,-0.051231,-0.94751,2112.8,-0.89509,0.3154,-0.31517,2282.3,#12,0.31499,0.94758,0.053676,2622.2,0.31558,-0.051231,-0.94751,2096.8,-0.89509,0.3154,-0.31517,2320.4

> view matrix models
> #4,0.31499,0.94758,0.053676,2681.9,0.31558,-0.051231,-0.94751,2113,-0.89509,0.3154,-0.31517,2281.5,#12,0.31499,0.94758,0.053676,2622.3,0.31558,-0.051231,-0.94751,2097,-0.89509,0.3154,-0.31517,2319.6

> select clear

> hide #!12 models

> hide #!10 models

> show #!8 models

> hide #!8 models

> show #!3 models

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> mousemode rightMode "move planes"

> show #!12 models

> molmap #12 40

Opened 7apk map 40 as #13, grid size 43,32,43, pixel 13.3, shown at level
0.0172, step 1, values float32  

> volume #13 color #29923b

> close #13

> molmap #12 25

Opened 7apk map 25 as #13, grid size 58,40,57, pixel 8.33, shown at level
0.0264, step 1, values float32  

> volume #13 color #57ba77

> volume #13 color #29923b

> hide #!12 models

> vieworient

Unknown command: vieworient  

> view orient

> volume #13 level 0.07709

> show #!12 models

> color #12 forestgreen

> artiax tomo #3.1.1 slice 264

> combine #12

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> hide #!3 models

> show #!11 models

> ui mousemode right "map eraser"

> select add #15

1 model selected  

> volume erase #11 center 2847.3,1746.3,1795.4 radius 527.46 outside true

> close #15

> select add #12

72697 atoms, 73887 bonds, 204 pseudobonds, 9967 residues, 2 models selected  

> hide #!14 models

> hide #15 models

> show #!14 models

> ui mousemode right "translate selected models"

> view matrix models
> #12,-0.027059,0.95786,0.28595,2647.2,-0.08678,0.28273,-0.95527,2116.1,-0.99586,-0.050664,0.075472,2338.6

> hide #!12 models

> show #!12 models

> hide #!14 models

> view matrix models
> #12,-0.027059,0.95786,0.28595,2648.2,-0.08678,0.28273,-0.95527,2134.2,-0.99586,-0.050664,0.075472,2324.4

> view matrix models
> #12,-0.034619,0.95096,0.30737,2646,0.09774,0.3093,-0.94593,2071.1,-0.99461,-0.0027056,-0.10365,2363.6

> view matrix models
> #12,-0.034722,0.95089,0.30758,2645.8,0.099699,0.30953,-0.94565,2070.1,-0.99441,-0.0021691,-0.10555,2365.6

> view matrix models
> #12,-0.034722,0.95089,0.30758,2637.5,0.099699,0.30953,-0.94565,2252.9,-0.99441,-0.0021691,-0.10555,2373.3

> view matrix models
> #12,0.14496,0.9795,-0.13985,2711.9,0.10461,-0.15572,-0.98225,2398.6,-0.98389,0.12775,-0.12504,2338.1

> view matrix models
> #12,0.14053,0.98136,-0.1311,2710,0.18224,-0.15579,-0.97083,2373.1,-0.97316,0.11254,-0.20074,2362.2

> view matrix models
> #12,0.14053,0.98136,-0.1311,2720,0.18224,-0.15579,-0.97083,2168.3,-0.97316,0.11254,-0.20074,2347.4

> view matrix models
> #12,0.33406,0.94229,-0.022174,2643.7,0.21249,-0.098212,-0.97221,2143.2,-0.91829,0.32007,-0.23304,2280.6

> view matrix models
> #12,0.33437,0.94207,-0.026589,2644.6,0.2115,-0.1025,-0.97199,2161.8,-0.91841,0.31938,-0.23352,2278.8

> view matrix models
> #12,0.32968,0.9439,-0.019087,2643.1,0.27856,-0.11657,-0.95332,2141.2,-0.90206,0.30898,-0.30137,2297.5

> view matrix models
> #12,0.32968,0.9439,-0.019087,2639.2,0.27856,-0.11657,-0.95332,2157.7,-0.90206,0.30898,-0.30137,2324.7

> fitmap #12 inMap #11

Fit molecule 7apk (#12) to map 649.rec gaussian copy zone (#11) using 72697
atoms  
average map value = 41.66, steps = 316  
shifted from previous position = 144  
rotated from previous position = 71.1 degrees  
atoms outside contour = 963, contour level = -0.75262  
  
Position of 7apk (#12) relative to 649.rec gaussian copy zone (#11)
coordinates:  
Matrix rotation and translation  
-0.33207503 0.94216063 0.04538187 2924.62958585  
0.92220319 0.33439588 -0.19421806 1689.21295072  
-0.19816012 -0.02264366 -0.97990807 2380.32687905  
Axis 0.57463860 0.81567314 -0.06684163  
Axis point 985.73900521 0.00000000 1201.46472742  
Rotation angle (degrees) 171.41427706  
Shift along axis 2899.34576146  
  

> view matrix models
> #12,0.073074,0.95332,-0.29297,2907.2,-0.22435,-0.27052,-0.93621,2415.1,-0.97176,0.13414,0.19411,2203.4

> view matrix models
> #12,0.14028,0.97176,-0.18976,2851.8,-0.060943,-0.18282,-0.98126,2356.3,-0.98824,0.14921,0.033576,2251.7

> view matrix models
> #12,0.14028,0.97176,-0.18976,2788.5,-0.060943,-0.18282,-0.98126,2239.8,-0.98824,0.14921,0.033576,2284.3

> view matrix models
> #12,-0.097209,0.96176,-0.25606,2878.9,-0.11822,-0.26662,-0.95652,2273.2,-0.98822,-0.06271,0.13962,2314.6

> view matrix models
> #12,-0.21528,0.95084,-0.2226,2905.7,0.37582,-0.12972,-0.91757,2080.7,-0.90134,-0.2812,-0.32942,2494.3

> view matrix models
> #12,-0.22376,0.92459,0.30833,2756.9,0.264,0.36202,-0.894,1961.6,-0.93821,-0.11865,-0.3251,2455.9

> view matrix models
> #12,-0.22376,0.92459,0.30833,2753.9,0.264,0.36202,-0.894,1972.5,-0.93821,-0.11865,-0.3251,2461.8

> view matrix models
> #12,0.22296,0.82855,0.51361,2593.3,0.030379,0.52071,-0.85319,1980.4,-0.97435,0.20583,0.090928,2252.5

> view matrix models
> #12,0.15429,0.96684,0.20351,2665.2,0.32972,0.14378,-0.93307,2029.4,-0.93139,0.21107,-0.2966,2354.8

> view matrix models
> #12,0.23805,0.95422,0.1811,2651.8,0.32696,0.096846,-0.94006,2046,-0.91457,0.28299,-0.28894,2326.6

> view matrix models
> #12,0.21366,0.97435,0.070599,2685.9,0.19725,0.027752,-0.97996,2115.1,-0.95679,0.2233,-0.18626,2325.4

> view matrix models
> #12,0.21366,0.97435,0.070599,2676.1,0.19725,0.027752,-0.97996,2107.7,-0.95679,0.2233,-0.18626,2332.4

> view matrix models
> #12,0.21366,0.97435,0.070599,2650.1,0.19725,0.027752,-0.97996,2139.6,-0.95679,0.2233,-0.18626,2325.9

> view matrix models
> #12,0.2102,0.97468,0.076272,2649.3,0.2296,0.026619,-0.97292,2128.7,-0.95032,0.22202,-0.21819,2334

> view matrix models
> #12,0.2102,0.97468,0.076272,2640.8,0.2296,0.026619,-0.97292,2126.5,-0.95032,0.22202,-0.21819,2326

> view matrix models
> #12,0.12641,0.98345,0.12981,2646.1,0.26682,0.092333,-0.95931,2092.5,-0.95542,0.1559,-0.25073,2356.6

> transparency #11 50

> view matrix models
> #12,0.12641,0.98345,0.12981,2645.3,0.26682,0.092333,-0.95931,2091.6,-0.95542,0.1559,-0.25073,2357

> view matrix models
> #12,0.18458,0.9816,-0.048975,2682.8,0.26666,-0.097981,-0.9588,2147.2,-0.94595,0.16392,-0.27984,2360.7

> view matrix models
> #12,0.18458,0.9816,-0.048975,2671.5,0.26666,-0.097981,-0.9588,2131.8,-0.94595,0.16392,-0.27984,2362.8

> view matrix models
> #12,0.16954,0.9816,-0.087823,2687.4,0.019618,-0.092456,-0.99552,2211.5,-0.98533,0.16705,-0.034932,2299.7

> view matrix models
> #12,0.16954,0.9816,-0.087823,2690.5,0.019618,-0.092456,-0.99552,2206.9,-0.98533,0.16705,-0.034932,2275.8

> hide #!12 models

> show #!12 models

> view matrix models
> #12,0.18118,0.98157,-0.060779,2679.1,0.19505,-0.096439,-0.97604,2152.3,-0.96391,0.16498,-0.20893,2322.4

> view matrix models
> #12,0.18118,0.98157,-0.060779,2676.6,0.19505,-0.096439,-0.97604,2160.9,-0.96391,0.16498,-0.20893,2344.1

> view matrix models
> #12,0.18818,0.98056,-0.055667,2673.4,0.14959,-0.084635,-0.98512,2173.1,-0.97067,0.17705,-0.16261,2328.6

> view matrix models
> #12,0.065764,0.9956,-0.066761,2707.2,0.12963,-0.074863,-0.98873,2177,-0.98938,0.056369,-0.13398,2360.7

> view matrix models
> #12,0.065764,0.9956,-0.066761,2709.5,0.12963,-0.074863,-0.98873,2166.2,-0.98938,0.056369,-0.13398,2367.1

> show #!13 models

> hide #!12 models

> show #!12 models

> hide #!12 models

> show #!12 models

> close #13

> hide #!12 models

> show #!12 models

> show #!14 models

> select subtract #12

Nothing selected  

> hide #!14 models

> select add #14

72697 atoms, 73887 bonds, 204 pseudobonds, 9967 residues, 2 models selected  

> select subtract #14

Nothing selected  

> show #!14 models

> select add #14

72697 atoms, 73887 bonds, 204 pseudobonds, 9967 residues, 2 models selected  

> view matrix models
> #14,0.31499,0.94758,0.053676,2456.7,0.31558,-0.051231,-0.94751,1631,-0.89509,0.3154,-0.31517,2400.9

> view matrix models
> #14,0.74152,0.40537,0.53463,2350,0.2364,-0.9036,0.35724,1512.6,0.6279,-0.13851,-0.76587,2234.9

> view matrix models
> #14,0.5841,0.44392,0.67953,2340.2,0.66156,-0.74543,-0.081689,1476.6,0.47028,0.49726,-0.72909,2082.6

> view orient

> view matrix models
> #14,0.5841,0.44392,0.67953,2407.3,0.66156,-0.74543,-0.081689,1547.9,0.47028,0.49726,-0.72909,2072.3

> show #!3 models

> view orient

> hide #!11 models

> view matrix models
> #14,0.38605,-0.92247,-0.0044948,3068.6,-0.898,-0.37469,-0.23067,1928.3,0.2111,0.093085,-0.97302,2337.5

> view matrix models
> #14,0.19026,-0.97676,0.098733,3109.4,-0.96574,-0.20429,-0.16006,1876.5,0.17651,-0.064897,-0.98216,2396.3

> view matrix models
> #14,0.19026,-0.97676,0.098733,2911.5,-0.96574,-0.20429,-0.16006,2098.4,0.17651,-0.064897,-0.98216,2396.3

> view matrix models
> #14,0.17511,-0.97717,0.12032,2909.5,-0.94773,-0.2004,-0.24829,2118.5,0.26674,-0.070551,-0.96118,2366

> view matrix models
> #14,0.17511,-0.97717,0.12032,2910.8,-0.94773,-0.2004,-0.24829,2028.8,0.26674,-0.070551,-0.96118,2268

> view matrix models
> #14,0.17511,-0.97717,0.12032,2896.1,-0.94773,-0.2004,-0.24829,2101.3,0.26674,-0.070551,-0.96118,2270.5

> view matrix models
> #14,0.12958,-0.98121,0.14298,2903.4,-0.98853,-0.13911,-0.058718,2038.2,0.077505,-0.13374,-0.98798,2350.9

> view matrix models
> #14,0.32112,-0.93586,0.14508,2835,-0.94645,-0.32251,0.014475,2058,0.033244,-0.14196,-0.98931,2366.4

> view matrix models
> #14,0.32144,-0.93966,0.11713,2844.4,-0.94663,-0.32197,0.014946,2057.8,0.023669,-0.11569,-0.993,2362.5

> view matrix models
> #14,0.32665,-0.94513,-0.005506,2881.2,-0.94512,-0.32658,-0.0099665,2066.1,0.0076214,0.0084593,-0.99994,2332.8

> view matrix models
> #14,0.53483,-0.84321,0.054381,2774.1,-0.8297,-0.53626,-0.15502,2138.1,0.15987,0.037788,-0.98641,2276.8

> view matrix models
> #14,0.53483,-0.84321,0.054381,2759.3,-0.8297,-0.53626,-0.15502,2137.2,0.15987,0.037788,-0.98641,2238.6

> view matrix models
> #14,0.53483,-0.84321,0.054381,2755.2,-0.8297,-0.53626,-0.15502,2136.1,0.15987,0.037788,-0.98641,2229.3

> view matrix models
> #14,0.53567,-0.84388,0.030446,2762.3,-0.83949,-0.53609,-0.088741,2119,0.091208,0.021977,-0.99559,2256.2

> view matrix models
> #14,0.3657,-0.93069,0.0086401,2842.7,-0.92573,-0.36467,-0.1002,2096.8,0.096408,0.028645,-0.99493,2252.6

> view matrix models
> #14,0.3657,-0.93069,0.0086401,2841.7,-0.92573,-0.36467,-0.1002,2100.7,0.096408,0.028645,-0.99493,2252.7

> view matrix models
> #14,0.3657,-0.93069,0.0086401,2837.5,-0.92573,-0.36467,-0.1002,2110.8,0.096408,0.028645,-0.99493,2253

> select clear

> surface #12,14

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> mousemode rightMode "move planes"

> artiax tomo #3.1.1 slice 294

> artiax tomo #3.1.1 slice 285

> artiax tomo #3.1.1 slice 236

> show #!11 models

> hide #!3 models

> vop gauss #11

Opened 649.rec gaussian copy zone gaussian as #13, grid size 270,267,302,
pixel 7.6, shown at step 1, values float32  

> volume #13 level -9.448

> volume #13 level -6.756

> surface dust #13 size 76

> surface dust #13 size 200

> surface dust #13 size 1000

> surface dust #13 size 100

> surface dust #13 size 120

> vop copy #14

> combine #14

> select add #16

72697 atoms, 73887 bonds, 204 pseudobonds, 9967 residues, 2 models selected  

> ui mousemode right "translate selected models"

> view matrix models
> #16,0.3657,-0.93069,0.0086401,3182.8,-0.92573,-0.36467,-0.1002,1756.8,0.096408,0.028645,-0.99493,2243.5

> view matrix models
> #16,0.022882,-0.23183,-0.97249,3369.5,-0.72004,-0.67864,0.14484,1716.8,-0.69355,0.69692,-0.18246,2029.7

> view matrix models
> #16,-0.011178,-0.21458,-0.97664,3375.4,-0.92349,-0.37234,0.092377,1700.7,-0.38347,0.90295,-0.194,1884.4

> view matrix models
> #16,-0.33688,0.11824,-0.9341,3358,-0.5235,-0.84813,0.081439,1729.4,-0.7826,0.51643,0.34761,1949.2

> view matrix models
> #16,-0.09884,0.42036,-0.90196,3192.1,-0.61527,-0.7382,-0.27661,1830.5,-0.7821,0.5276,0.3316,1950.6

> view matrix models
> #16,0.028952,0.54984,-0.83477,3097.7,-0.62512,-0.6417,-0.44435,1855.3,-0.77999,0.53469,0.32514,1949.8

> view matrix models
> #16,0.094913,0.52004,-0.84885,3091.8,-0.31017,-0.79481,-0.52161,1833.5,-0.94593,0.31279,0.085862,2133.7

> view matrix models
> #16,0.096692,0.51856,-0.84956,3045.4,-0.34995,-0.78135,-0.51675,2018.8,-0.93176,0.34727,0.10592,2121

> view matrix models
> #16,0.19847,0.51476,-0.83405,3012.9,-0.28297,-0.78464,-0.5516,2011.1,-0.93837,0.34549,-0.01007,2158.1

> view matrix models
> #16,0.24537,0.51308,-0.82252,2996.5,-0.25021,-0.78619,-0.56506,2006.3,-0.93658,0.34445,-0.064533,2174.2

> view matrix models
> #16,0.24537,0.51308,-0.82252,2974.7,-0.25021,-0.78619,-0.56506,2017.9,-0.93658,0.34445,-0.064533,2241.9

> view matrix models
> #16,0.24537,0.51308,-0.82252,2963,-0.25021,-0.78619,-0.56506,2008.6,-0.93658,0.34445,-0.064533,2238.5

> view matrix models
> #16,0.24537,0.51308,-0.82252,2953.9,-0.25021,-0.78619,-0.56506,2000.4,-0.93658,0.34445,-0.064533,2233.6

> view matrix models
> #16,0.25685,0.4569,-0.85163,2975.8,-0.21166,-0.8332,-0.51086,1987,-0.94299,0.31147,-0.1173,2260.9

> view matrix models
> #16,0.23928,0.45867,-0.85578,2981.5,-0.18743,-0.84299,-0.50422,1981,-0.95269,0.28105,-0.11574,2272.1

> view matrix models
> #16,0.16371,0.53615,-0.8281,2972.1,-0.16347,-0.81308,-0.55874,1981.7,-0.97287,0.22683,-0.045466,2272.7

> view matrix models
> #16,0.23508,0.58617,-0.77534,2921.3,-0.095817,-0.77983,-0.61862,1970.6,-0.96724,0.21971,-0.12715,2297.6

> view matrix models
> #16,0.23508,0.58617,-0.77534,2940.1,-0.095817,-0.77983,-0.61862,1990.1,-0.96724,0.21971,-0.12715,2300.4

> view matrix models
> #16,0.19008,0.66543,-0.72185,2913.7,-0.14074,-0.70919,-0.69083,2003.9,-0.97163,0.23291,-0.041153,2272.1

> view matrix models
> #16,0.2243,0.68545,-0.69271,2889.3,-0.10781,-0.689,-0.71669,1996.3,-0.96854,0.23543,-0.08064,2282.3

> view matrix models
> #16,0.29555,0.55834,-0.77518,2931,-0.029868,-0.80563,-0.59166,1970.8,-0.95486,0.19802,-0.22143,2331.5

> view matrix models
> #16,0.24308,0.5585,-0.79309,2951.2,0.25135,-0.82595,-0.50461,1870.6,-0.93687,-0.076685,-0.34116,2442.6

> view matrix models
> #16,0.24308,0.5585,-0.79309,3152,0.25135,-0.82595,-0.50461,1610.1,-0.93687,-0.076685,-0.34116,2263.2

> view matrix models
> #16,0.19877,0.60775,-0.76885,3143,0.42516,-0.76031,-0.49108,1537.3,-0.88302,-0.22927,-0.40952,2313

> view matrix models
> #16,0.19877,0.60775,-0.76885,2950.2,0.42516,-0.76031,-0.49108,1783.9,-0.88302,-0.22927,-0.40952,2462.5

> view matrix models
> #16,0.32091,0.58301,-0.74641,2915.9,0.22808,-0.81247,-0.53654,1868.9,-0.91924,0.0019386,-0.3937,2400.4

> view matrix models
> #16,0.52554,0.34018,-0.7798,2938.7,0.037779,-0.92501,-0.37807,1908.6,-0.84993,0.16923,-0.49898,2363.2

> view matrix models
> #16,0.29615,0.55543,-0.77704,2940.2,0.25221,-0.83014,-0.49726,1855.4,-0.92124,-0.048715,-0.38593,2413.5

> view matrix models
> #16,0.40763,0.66336,-0.62752,2832.1,0.3103,-0.74694,-0.58804,1841.7,-0.85881,0.044983,-0.51032,2405.5

> view matrix models
> #16,0.33667,0.69456,-0.63579,2845.6,0.48599,-0.7065,-0.51446,1757.8,-0.80651,-0.13579,-0.57541,2463

> view matrix models
> #16,0.33667,0.69456,-0.63579,2843.3,0.48599,-0.7065,-0.51446,1781.3,-0.80651,-0.13579,-0.57541,2492.3

> view matrix models
> #16,0.39626,0.60935,-0.68679,2866.5,0.88677,-0.44786,0.11428,1403.2,-0.23795,-0.6543,-0.71782,2524.8

> view matrix models
> #16,0.18009,0.971,0.15726,2569.6,0.71111,-0.23898,0.66122,1228.4,0.67962,-0.0072448,-0.73353,2078.6

> view matrix models
> #16,0.024665,0.93968,0.34116,2568,0.68973,-0.26302,0.6746,1237.5,0.72364,0.21867,-0.65462,1976.3

> view matrix models
> #16,0.16776,0.96463,0.20334,2561.1,0.63899,-0.26346,0.72269,1237.7,0.7507,0.0086924,-0.66059,2031.9

> view matrix models
> #16,0.49579,0.79969,-0.33866,2678.2,0.79685,-0.26387,0.5435,1246.5,0.34527,-0.53933,-0.76806,2340

> view matrix models
> #16,0.45039,0.8614,-0.23481,2642,0.83443,-0.31255,0.45392,1276.9,0.31762,-0.40037,-0.85955,2334.6

> view matrix models
> #16,0.37387,0.92745,0.0075067,2571.9,0.89976,-0.36465,0.23972,1337.6,0.22507,-0.082872,-0.97081,2301.3

> view matrix models
> #16,0.33848,0.92607,0.16679,2534.7,0.9241,-0.36057,0.12661,1363.4,0.17738,0.11128,-0.97783,2260.1

> view matrix models
> #16,0.33229,0.91696,0.22085,2523,0.9196,-0.367,0.14017,1362.5,0.20959,0.15652,-0.96518,2233.9

> view matrix models
> #16,0.38624,0.76643,0.51323,2464.2,0.86759,-0.4908,0.080006,1431.5,0.31321,0.41437,-0.85451,2095.7

> view matrix models
> #16,0.38624,0.76643,0.51323,2428,0.86759,-0.4908,0.080006,1418.8,0.31321,0.41437,-0.85451,2133.4

> view matrix models
> #16,0.41887,0.79302,0.44234,2432.2,0.85208,-0.51164,0.11039,1420.2,0.31386,0.33067,-0.89003,2168.4

> view matrix models
> #16,0.43446,0.81881,0.37521,2440.3,0.84963,-0.51085,0.13101,1414.5,0.29895,0.26187,-0.91763,2201

> view matrix models
> #16,0.44651,0.83463,0.32253,2448,0.84961,-0.50855,0.1398,1411.2,0.2807,0.2116,-0.93618,2226.5

> view matrix models
> #16,0.48362,0.84828,0.21573,2465.4,0.83035,-0.5226,0.19344,1404.8,0.27683,0.085577,-0.9571,2270.8

> view matrix models
> #16,0.45613,0.82553,0.33234,2445,0.8311,-0.52867,0.17255,1412.6,0.31814,0.19751,-0.92724,2217.3

> view matrix models
> #16,0.50085,0.86537,0.017079,2514.9,0.84745,-0.4943,0.19365,1391.6,0.17602,-0.082516,-0.98092,2355.8

> view matrix models
> #16,0.35137,0.93623,0.0033405,2540.9,0.90317,-0.3399,0.2622,1310,0.24662,-0.089112,-0.96501,2332.9

> view matrix models
> #16,0.36116,0.93145,-0.04432,2553.8,0.90108,-0.33636,0.2737,1306.1,0.24003,-0.13879,-0.96079,2348

> view matrix models
> #16,0.29018,0.95686,0.014603,2548.9,0.58347,-0.189,0.78984,1198.9,0.75852,-0.22068,-0.61314,2120.2

> view matrix models
> #16,0.24434,0.96935,0.025614,2555,0.41814,-0.12916,0.89916,1195.8,0.87491,-0.20899,-0.43688,2030.9

> view matrix models
> #16,0.18382,0.98236,0.034282,2565.8,0.25741,-0.081768,0.96284,1208.6,0.94866,-0.16816,-0.2679,1947.4

> view matrix models
> #16,-0.047717,0.99863,0.021543,2630.9,-0.024388,-0.022726,0.99944,1260.6,0.99856,0.047165,0.025439,1782.3

> view matrix models
> #16,0.070636,0.99666,0.040952,2591.9,-0.14437,-0.030408,0.98906,1300.2,0.987,-0.075775,0.14174,1786.8

> view matrix models
> #16,-0.019552,0.99905,0.038861,2617.5,0.093115,-0.03688,0.99497,1232.7,0.99546,0.023072,-0.092306,1825.5

> view matrix models
> #16,-0.022579,0.98735,0.15696,2586.5,0.090492,-0.15433,0.98387,1271.1,0.99564,0.036418,-0.085862,1819.6

> view matrix models
> #16,0.091711,0.98322,0.15771,2554.9,0.22156,-0.17455,0.9594,1247,0.97083,-0.053046,-0.23385,1897.1

> view matrix models
> #16,-0.076436,0.97575,0.20511,2590.8,0.34797,-0.16667,0.92257,1219.7,0.93438,0.14189,-0.32679,1878.3

> view matrix models
> #16,-0.48207,0.84602,0.22771,2737.6,0.13041,-0.18772,0.97353,1272.6,0.86637,0.49901,-0.01983,1701.2

> view matrix models
> #16,-0.48207,0.84602,0.22771,2745.6,0.13041,-0.18772,0.97353,1266.2,0.86637,0.49901,-0.01983,1702.3

> view matrix models
> #16,-0.34383,0.89401,0.28726,2674.3,0.092557,-0.27216,0.95779,1306.5,0.93446,0.3559,0.010829,1715.6

> view matrix models
> #16,-0.1712,0.85845,0.48349,2576.8,-0.028786,-0.49488,0.86848,1433,0.98482,0.13477,0.10944,1736.5

> view matrix models
> #16,-0.1712,0.85845,0.48349,2567.3,-0.028786,-0.49488,0.86848,1437.4,0.98482,0.13477,0.10944,1749.1

> view matrix models
> #16,-0.1712,0.85845,0.48349,2548.3,-0.028786,-0.49488,0.86848,1414.3,0.98482,0.13477,0.10944,1769.7

> view matrix models
> #16,-0.1712,0.85845,0.48349,2553.8,-0.028786,-0.49488,0.86848,1410.7,0.98482,0.13477,0.10944,1771.9

> view matrix models
> #16,-0.1712,0.85845,0.48349,2559.1,-0.028786,-0.49488,0.86848,1410.1,0.98482,0.13477,0.10944,1774.6

> view matrix models
> #16,-0.1712,0.85845,0.48349,2565.9,-0.028786,-0.49488,0.86848,1417.7,0.98482,0.13477,0.10944,1772.2

> view matrix models
> #16,-0.12478,0.89265,0.43313,2557.7,-0.041258,-0.44083,0.89664,1397,0.99133,0.09401,0.091835,1787.6

> view matrix models
> #16,-0.11907,0.90041,0.41844,2558.2,-0.039121,-0.42537,0.90417,1389.6,0.99212,0.091287,0.085872,1789.9

> view matrix models
> #16,-0.11907,0.90041,0.41844,2571.7,-0.039121,-0.42537,0.90417,1406.9,0.99212,0.091287,0.085872,1788.4

> view matrix models
> #16,-0.11907,0.90041,0.41844,2579.3,-0.039121,-0.42537,0.90417,1398.7,0.99212,0.091287,0.085872,1787.3

> show #!3 models

> hide #!13 models

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> mousemode rightMode "move planes"

> hide #!16 models

> artiax tomo #3.1.1 slice 243

> artiax tomo #3.1.1 slice 251

> show #!16 models

> volume #3.1.1 tiltedSlabOffset 1904 tiltedSlabPlaneCount 1

[Repeated 3 time(s)]

> ui mousemode right "translate selected models"

> view matrix models
> #16,0.55814,0.7743,0.29821,2459.3,0.67744,-0.63277,0.37507,1413.7,0.47912,-0.0073191,-0.87772,2250.8

> view matrix models
> #16,0.69211,0.72175,-0.0078418,2528.1,0.64748,-0.61603,0.44864,1395.3,0.31897,-0.31559,-0.89368,2391.4

> view matrix models
> #16,0.71254,0.69916,-0.058848,2544.2,0.59807,-0.56137,0.57199,1356.4,0.36688,-0.44276,-0.81814,2392.4

> view matrix models
> #16,0.78474,0.59189,-0.18401,2592.5,0.51715,-0.46158,0.72076,1305.7,0.34167,-0.66077,-0.66832,2418.6

> view matrix models
> #16,0.83773,0.4686,-0.28039,2642.3,0.46193,-0.33425,0.82152,1254,0.29124,-0.81774,-0.49647,2427.5

> view matrix models
> #16,0.76656,0.60903,0.20363,2476.6,0.62703,-0.77831,-0.032574,1592.7,0.13865,0.15265,-0.97851,2331.1

> view matrix models
> #16,0.77162,0.6123,0.1723,2483.6,0.615,-0.78732,0.043732,1575.9,0.16243,0.07222,-0.98407,2349.5

> view matrix models
> #16,0.84513,0.50457,0.17653,2492.9,0.50928,-0.86034,0.020924,1634.2,0.16243,0.07222,-0.98407,2349.5

> view matrix models
> #16,0.84513,0.50457,0.17653,2467.4,0.50928,-0.86034,0.020924,1629.7,0.16243,0.07222,-0.98407,2349.5

> view matrix models
> #16,0.85568,0.50577,0.10958,2484.1,0.4932,-0.86113,0.12332,1603.9,0.15673,-0.051478,-0.9863,2388.1

> view matrix models
> #16,0.85566,0.50536,0.11165,2483.6,0.47487,-0.8524,0.21889,1577.9,0.20579,-0.13427,-0.96934,2393.2

> view matrix models
> #16,0.85566,0.50536,0.11165,2493.4,0.47487,-0.8524,0.21889,1526.2,0.20579,-0.13427,-0.96934,2340

> view matrix models
> #16,0.85566,0.50536,0.11165,2499.1,0.47487,-0.8524,0.21889,1517.5,0.20579,-0.13427,-0.96934,2329.4

> view matrix models
> #16,0.85566,0.50536,0.11165,2510.4,0.47487,-0.8524,0.21889,1545.4,0.20579,-0.13427,-0.96934,2331.2

> artiax tomo #3.1.1 slice 243

> artiax tomo #3.1.1 slice 232

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> mousemode rightMode "move planes"

> select clear

> select add #16

72697 atoms, 73887 bonds, 204 pseudobonds, 9967 residues, 2 models selected  

> volume #3.1.1 tiltedSlabOffset 1949 tiltedSlabPlaneCount 1

[Repeated 1 time(s)]

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> mousemode rightMode "move planes"

> volume #3.1.1 tiltedSlabOffset 1949 tiltedSlabPlaneCount 1

> select clear

> save /Users/matthias.vorlaender/Desktop/AweSomeTomo.cxs includeMaps true

Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 299, in process  
return copy_state(data, convert=convert)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 219, in copy_state  
return _copy(data)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 217, in _copy  
return convert(data)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 298, in convert  
return add_obj(obj, parents)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 270, in _add_obj  
uid = _UniqueName.from_obj(self.session, obj)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 142, in from_obj  
if obj_cls != bundle_info.get_class(obj_cls.__name__, session.logger):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/toolshed/info.py", line 476, in get_class  
return f(class_name)  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-packages/chimerax/artiax/__init__.py", line 37, in
get_class  
raise ValueError("Unknown class name '%s'" % class_name)  
ValueError: Unknown class name 'ArtiaX'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 899, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'models' -> <chimerax.core.models.Models object
at 0x7feb9ab8f0a0>: Unknown class name 'ArtiaX'  
  
ValueError: error processing: 'models' -> : Unknown class name 'ArtiaX'  
  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 299, in process  
return copy_state(data, convert=convert)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 219, in copy_state  
return _copy(data)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 217, in _copy  
return convert(data)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 298, in convert  
return add_obj(obj, parents)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 270, in _add_obj  
uid = _UniqueName.from_obj(self.session, obj)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 142, in from_obj  
if obj_cls != bundle_info.get_class(obj_cls.__name__, session.logger):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/toolshed/info.py", line 476, in get_class  
return f(class_name)  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-packages/chimerax/artiax/__init__.py", line 37, in
get_class  
raise ValueError("Unknown class name '%s'" % class_name)  
ValueError: Unknown class name 'ArtiaX'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 116, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 51, in display  
run(session, cmd)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 90, in provider_save  
saver_info.save(session, path, **provider_kw)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core_formats/__init__.py", line 84, in save  
return cxs_save(session, path, **kw)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 899, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'models' -> <chimerax.core.models.Models object
at 0x7feb9ab8f0a0>: Unknown class name 'ArtiaX'  
  
ValueError: error processing: 'models' -> : Unknown class name 'ArtiaX'  
  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  

> hide #!12 models

> hide #!14 models

> hide #!16 models

> show #!11 models

> show #!13 models

> hide #!13 models

> show #!13 models

> hide #!13 models

> volume #11 step 4

> volume #11 level -0.3043

> volume #11 step 1

> volume #11 step 16

> volume #11 step 8

> volume #11 step 4

> volume #11 step 2

> volume #11 step 1

> lighting soft

> transparency 0

> color #11 forestgreen

> movie record

> turn y 2 180

> wait 180

> movie encode /Users/matthias.vorlaender/Desktop/movie1.mp4

Movie saved to /Users/matthias.vorlaender/Desktop/movie1.mp4  
  

> artiax tomo #3.1.1 slice 264

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> mousemode rightMode "move planes"

> artiax tomo #3.1.1 sliceDirection 0,0,1

> artiax view xy

> mousemode rightMode "move planes"

> hide #!11 models

> artiax tomo #3.1.1 slice 205

> open help:user/artiax_index.html

Opened help:user/artiax_index.html  

> artiax tomo #3.1.1 slice 304

[Repeated 1 time(s)]

> view name end

> artiax tomo #3.1.1 slice 205

> view name start

> view start

> view end 25

> artiax tomo #3.1.1 slice 205

> view name start

> artiax tomo #3.1.1 slice 304

> view name end

> view start

> view end 25

> view start

> artiax tomo #3.1.1 slice 205

> artiax tomo #3.1.1 slice 305

> view name end

> view list

Named views: end, start  

> view end

> view start

[Repeated 1 time(s)]

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,305 frames 100

Error executing per-frame command 'artiax tomo #3.1.1 slice 206.01': Invalid
"slice" argument: Expected an integer  

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,305

> artiax tomo #3.1.1 slice 256

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,256

> show #!11 models

> show #!12 models

> hide #!11 models

> lighting simple

> windowsize

window size 1163 1249  

> hide #!11,12,14,15 models

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,305 frames 100

> wait 100

Error executing per-frame command 'artiax tomo #3.1.1 slice 206.01': Invalid
"slice" argument: Expected an integer  

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205 frames 100

> wait 100

Error executing per-frame command 'artiax tomo #3.1.1 slice 303.99': Invalid
"slice" argument: Expected an integer  

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,256

> wait 100

> show #!11 models

> wait 20

> perframe "artiax tomo #3.1.1 slice $1" ranges 256,305

> wait 50

> hide #!11 models

> show #!12,14,15 models

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205 frames 100

> wait 100

Error executing per-frame command 'artiax tomo #3.1.1 slice 303.99': Invalid
"slice" argument: Expected an integer  

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,305 frames 100

Error executing per-frame command 'artiax tomo #3.1.1 slice 206.01': Invalid
"slice" argument: Expected an integer  

> close #15

> hide #!11,12,14,16 models

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,305 frames 100

Error executing per-frame command 'artiax tomo #3.1.1 slice 206.01': Invalid
"slice" argument: Expected an integer  

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,305

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,305

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,256

> show #!11 models

> perframe "artiax tomo #3.1.1 slice $1" ranges 256,305

> hide #!11 models

> show #!12,14,16 models

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205

> hide #!11,12,14,16 models

> show #!11 models

> hide #!11 models

> hide #!11,12,14,16 models

[Repeated 1 time(s)]

> movie record supersample 4 size 1163,1249

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,305

> wait 100

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,256

> wait 100

> show #!11 models

> wait 20

> perframe "artiax tomo #3.1.1 slice $1" ranges 256,305

> wait 50

> hide #!11 models

> show #!12,14,16 models

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205

> movie encode /Users/matthias.vorlaender/Library/CloudStorage/OneDrive-
> VBC/Basel/Movies/Chlamy_649.mrc quality highest

Unrecognized movie file suffix Chlamy_649.mrc, use *.mp4, *.wmv, *.mov, *.avi,
*.png, *.webm, *.ogv  

> movie encode /Users/matthias.vorlaender/Library/CloudStorage/OneDrive-
> VBC/Basel/Movies/Chlamy_649.mp4 quality highest

Movie saved to /Users/matthias.vorlaender/.../Movies/Chlamy_649.mp4  
  

> y highest

Unknown command: y highest  

> hide #!11,12,14,16 models

> movie record supersample 4 size 1163,1249

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,305

> wait 100

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205

> wait 100

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,256

> wait 100

> show #!11 models

> wait 20

> perframe "artiax tomo #3.1.1 slice $1" ranges 256,305

> wait 50

> hide #!11 models

> show #!12,14,16 models

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205

> movie encode /Users/matthias.vorlaender/Library/CloudStorage/OneDrive-
> VBC/Basel/Movies/Chlamy_649.mp4 quality highest

Movie saved to /Users/matthias.vorlaender/.../Movies/Chlamy_649.mp4  
  

> hide #!11,12,14,16 models

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,305

> wait 100

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205

> wait 100

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,256

> wait 100

> show #!11 models

> wait 20

> perframe "artiax tomo #3.1.1 slice $1" ranges 256,305

> wait 50

> hide #!11 models

> show #!12,14,16 models

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205

> wait 100

> hide #!11,12,14,16 models

> movie record supersample 4 size 1163,1249

> hide #!11,12,14,16 models

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,305

> wait 100

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205

> wait 100

> perframe "artiax tomo #3.1.1 slice $1" ranges 205,256

> wait 100

> show #!11 models

> wait 20

> perframe "artiax tomo #3.1.1 slice $1" ranges 256,305

> wait 50

> hide #!11 models

> show #!12,14,16 models

> perframe "artiax tomo #3.1.1 slice $1" ranges 305,205

> wait 100

> movie encode /Users/matthias.vorlaender/Library/CloudStorage/OneDrive-
> VBC/Basel/Movies/Chlamy_649.mp4 quality highest

Movie saved to /Users/matthias.vorlaender/.../Movies/Chlamy_649.mp4  
  

> save /Users/matthias.vorlaender/Desktop/test.cxs

Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 299, in process  
return copy_state(data, convert=convert)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 219, in copy_state  
return _copy(data)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 217, in _copy  
return convert(data)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 298, in convert  
return add_obj(obj, parents)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 270, in _add_obj  
uid = _UniqueName.from_obj(self.session, obj)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 142, in from_obj  
if obj_cls != bundle_info.get_class(obj_cls.__name__, session.logger):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/toolshed/info.py", line 476, in get_class  
return f(class_name)  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-packages/chimerax/artiax/__init__.py", line 37, in
get_class  
raise ValueError("Unknown class name '%s'" % class_name)  
ValueError: Unknown class name 'ArtiaX'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 899, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'named views' ->
<chimerax.std_commands.view.NamedViews object at 0x7fe2a9f0be20> ->
<chimerax.std_commands.view.NamedView object at 0x7fe2a5dd2490>: Unknown class
name 'ArtiaX'  
  
ValueError: error processing: 'named views' -> -> : Unknown class name
'ArtiaX'  
  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 299, in process  
return copy_state(data, convert=convert)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 219, in copy_state  
return _copy(data)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 204, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/state.py", line 217, in _copy  
return convert(data)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 298, in convert  
return add_obj(obj, parents)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 270, in _add_obj  
uid = _UniqueName.from_obj(self.session, obj)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 142, in from_obj  
if obj_cls != bundle_info.get_class(obj_cls.__name__, session.logger):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/toolshed/info.py", line 476, in get_class  
return f(class_name)  
File "/Users/matthias.vorlaender/Library/Application
Support/ChimeraX/1.6/site-packages/chimerax/artiax/__init__.py", line 37, in
get_class  
raise ValueError("Unknown class name '%s'" % class_name)  
ValueError: Unknown class name 'ArtiaX'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 116, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 51, in display  
run(session, cmd)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 90, in provider_save  
saver_info.save(session, path, **provider_kw)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core_formats/__init__.py", line 84, in save  
return cxs_save(session, path, **kw)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 899, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'named views' ->
<chimerax.std_commands.view.NamedViews object at 0x7fe2a9f0be20> ->
<chimerax.std_commands.view.NamedView object at 0x7fe2a5dd2490>: Unknown class
name 'ArtiaX'  
  
ValueError: error processing: 'named views' -> -> : Unknown class name
'ArtiaX'  
  
File
"/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  

> close #3

> artiaX close

Unknown command: artiaX close  

> artiaX close

Unknown command: artiaX close  

> save /Users/matthias.vorlaender/Desktop/test.cxs




OpenGL version: 4.1 INTEL-20.6.4
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics OpenGL Engine
OpenGL vendor: Intel Inc.

Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.4.2, Qt 6.4.2
Qt runtime version: 6.4.3
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Pro
      Model Identifier: MacBookPro16,2
      Processor Name: Quad-Core Intel Core i7
      Processor Speed: 2.3 GHz
      Number of Processors: 1
      Total Number of Cores: 4
      L2 Cache (per Core): 512 KB
      L3 Cache: 8 MB
      Hyper-Threading Technology: Enabled
      Memory: 16 GB
      System Firmware Version: 1968.140.7.0.0 (iBridge: 20.16.6072.0.0,0)
      OS Loader Version: 577.140.2~15

Software:

    System Software Overview:

      System Version: macOS 13.5.2 (22G91)
      Kernel Version: Darwin 22.6.0
      Time since boot: 3 days, 2 hours, 11 minutes

Graphics/Displays:

    Intel Iris Plus Graphics:

      Chipset Model: Intel Iris Plus Graphics
      Type: GPU
      Bus: Built-In
      VRAM (Dynamic, Max): 1536 MB
      Vendor: Intel
      Device ID: 0x8a53
      Revision ID: 0x0007
      Metal Support: Metal 3
      Displays:
        Color LCD:
          Display Type: Built-In Retina LCD
          Resolution: 2560 x 1600 Retina
          Framebuffer Depth: 30-Bit Color (ARGB2101010)
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal
        LEN T24h-20:
          Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
          UI Looks like: 2560 x 1440 @ 60.00Hz
          Framebuffer Depth: 30-Bit Color (ARGB2101010)
          Display Serial Number: V3079LXV    
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Rotation: Supported
          Connection Type: DVI or HDMI
          Adapter Firmware Version: 5.06


Installed Packages:
    alabaster: 0.7.13
    appdirs: 1.4.4
    appnope: 0.1.3
    asttokens: 2.2.1
    Babel: 2.12.1
    backcall: 0.2.0
    beautifulsoup4: 4.11.2
    blockdiag: 3.0.0
    build: 0.10.0
    certifi: 2021.10.8
    cftime: 1.6.2
    charset-normalizer: 3.1.0
    ChimeraX-AddCharge: 1.5.9.1
    ChimeraX-AddH: 2.2.5
    ChimeraX-AlignmentAlgorithms: 2.0.1
    ChimeraX-AlignmentHdrs: 3.3.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.9.3
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.3
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-ArtiaX: 0.3
    ChimeraX-Atomic: 1.43.10
    ChimeraX-AtomicLibrary: 10.0.6
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.3.2
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.1.2
    ChimeraX-BondRot: 2.0.1
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.8
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.2
    ChimeraX-ChangeChains: 1.0.2
    ChimeraX-CheckWaters: 1.3.1
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.2.4
    ChimeraX-Clipper: 0.20.0
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.3
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.6.1
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.4.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2
    ChimeraX-DistMonitor: 1.4
    ChimeraX-DockPrep: 1.1.1
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.3
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1.1
    ChimeraX-Hbonds: 2.4
    ChimeraX-Help: 1.2.1
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ISOLDE: 1.6.dev0
    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: 1.1.4
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.2
    ChimeraX-MatchMaker: 2.0.12
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.12
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.9
    ChimeraX-ModelPanel: 1.3.7
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.0
    ChimeraX-NRRD: 1.0
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.10.1
    ChimeraX-PDB: 2.7.2
    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-RenderByAttr: 1.1
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 3.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.1
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.8.3
    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: 1.10.3
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1.2
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.2.1
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.1
    ChimeraX-Topography: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.28.4
    ChimeraX-uniprot: 2.2.2
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.2
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.2
    ChimeraX-WebServices: 1.1.1
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.1.3
    contourpy: 1.0.7
    cxservices: 1.2.2
    cycler: 0.11.0
    Cython: 0.29.33
    debugpy: 1.6.7
    decorator: 5.1.1
    docutils: 0.19
    executing: 1.2.0
    filelock: 3.9.0
    fonttools: 4.39.3
    funcparserlib: 1.0.1
    geomdl: 5.3.1
    grako: 3.16.5
    h5py: 3.8.0
    html2text: 2020.1.16
    idna: 3.4
    ihm: 0.35
    imagecodecs: 2022.2.22
    imagesize: 1.4.1
    importlib-metadata: 6.6.0
    ipykernel: 6.21.1
    ipython: 8.10.0
    ipython-genutils: 0.2.0
    ipywidgets: 8.0.6
    jedi: 0.18.2
    Jinja2: 3.1.2
    jupyter-client: 8.0.2
    jupyter-core: 5.3.0
    jupyterlab-widgets: 3.0.7
    kiwisolver: 1.4.4
    line-profiler: 4.0.2
    lxml: 4.9.2
    lz4: 4.3.2
    MarkupSafe: 2.1.2
    matplotlib: 3.6.3
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.5.6
    netCDF4: 1.6.2
    networkx: 2.8.8
    nibabel: 5.0.1
    nptyping: 2.5.0
    numexpr: 2.8.4
    numpy: 1.23.5
    openvr: 1.23.701
    packaging: 21.3
    pandas: 2.1.0
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pexpect: 4.8.0
    pickleshare: 0.7.5
    Pillow: 9.3.0
    pip: 23.0
    pkginfo: 1.9.6
    platformdirs: 3.5.0
    prompt-toolkit: 3.0.38
    psutil: 5.9.4
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.14.0
    pynrrd: 1.0.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.9
    pyproject-hooks: 1.0.0
    PyQt6-commercial: 6.4.2
    PyQt6-Qt6: 6.4.3
    PyQt6-sip: 13.4.1
    PyQt6-WebEngine-commercial: 6.4.0
    PyQt6-WebEngine-Qt6: 6.4.3
    python-dateutil: 2.8.2
    pytz: 2023.3
    pyzmq: 25.0.2
    qtconsole: 5.4.0
    QtPy: 2.3.1
    RandomWords: 0.4.0
    requests: 2.28.2
    scipy: 1.9.3
    setuptools: 67.4.0
    setuptools-scm: 7.0.5
    sfftk-rw: 0.7.3
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.4.1
    sphinx: 6.1.3
    sphinx-autodoc-typehints: 1.22
    sphinxcontrib-applehelp: 1.0.4
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.2
    sphinxcontrib-htmlhelp: 2.0.1
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.3
    sphinxcontrib-serializinghtml: 1.1.5
    stack-data: 0.6.2
    starfile: 0.4.12
    superqt: 0.5.4
    tables: 3.7.0
    tcia-utils: 1.2.0
    tifffile: 2022.10.10
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.3.1
    traitlets: 5.9.0
    typing-extensions: 4.5.0
    tzdata: 2023.3
    urllib3: 1.26.15
    wcwidth: 0.2.6
    webcolors: 1.12
    wheel: 0.38.4
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.7
    zipp: 3.15.0

[Utz Ermel]

Dear Matthias,

Saving in ChimeraX sessions is now supported starting with ArtiaX version 0.4.1, which I have just released on the toolshed (available for  ChimeraX 1.7.1). It is also available on the ArtiaX GitHub repository. 

To install the new version using the toolshed run the following commands in ChimeraX 1.7.1:

toolshed reload available
toolshed install ArtiaX

Best, 
Utz