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Changes between Initial Version and Version 1 of Ticket #16553

Timestamp:: Jan 6, 2025, 10:35:10 AM (10 months ago)
Author:: Eric Pettersen
Comment:

Legend:

: Unmodified
: Added
: Removed
: Modified

Ticket #16553
- Property Component Unassigned → Window Toolkit
- Property Owner set to Tom Goddard
- Property Platform → all
- Property Project → ChimeraX
- Property Status new → assigned
- Property Summary ChimeraX bug report submission → Crash on Mac waking from sleep

Ticket #16553 – Description

-              initial
+              v1
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+    "size" : 532476,
+    "uuid" : "96556ba0-9c34-326a-89f4-d3835de617ae",
+    "path" : "\/usr\/lib\/system\/libsystem_c.dylib",
+    "name" : "libsystem_c.dylib"
+  },
+  {
+    "source" : "P",
+    "arch" : "arm64e",
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+    "size" : 32740,
+    "uuid" : "7d01a5f7-2dbb-36b1-b44d-04d289d8f4b0",
+    "path" : "\/usr\/lib\/system\/libsystem_platform.dylib",
+    "name" : "libsystem_platform.dylib"
+  },
+  {
+    "source" : "P",
+    "arch" : "arm64e",
+    "base" : 6869110784,
+    "CFBundleShortVersionString" : "6.9",
+    "CFBundleIdentifier" : "com.apple.AppKit",
+    "size" : 20955136,
+    "uuid" : "49d8b1b6-0ea8-36ad-89fd-a41acf00a742",
+    "path" : "\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit",
+    "name" : "AppKit",
+    "CFBundleVersion" : "2575.20.21"
+  },
+  {
+    "source" : "P",
+    "arch" : "arm64e",
+    "base" : 6902390784,
+    "CFBundleShortVersionString" : "1.600.0",
+    "CFBundleIdentifier" : "com.apple.SkyLight",
+    "size" : 5337088,
+    "uuid" : "f58ee474-0fae-374f-bdc5-ba206a6a611b",
+    "path" : "\/System\/Library\/PrivateFrameworks\/SkyLight.framework\/Versions\/A\/SkyLight",
+    "name" : "SkyLight"
+  },
+  {
+    "source" : "P",
+    "arch" : "arm64e",
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+    "size" : 290816,
+    "uuid" : "9ea577db-73c2-39d8-9fc0-544fa595a142",
+    "path" : "\/usr\/lib\/system\/libdispatch.dylib",
+    "name" : "libdispatch.dylib"
+  },
+  {
+    "source" : "P",
+    "arch" : "arm64e",
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+    "CFBundleShortVersionString" : "6.9",
+    "CFBundleIdentifier" : "com.apple.CoreFoundation",
+    "size" : 5197824,
+    "uuid" : "ae4610f8-7c5c-3484-858e-cae7457d206e",
+    "path" : "\/System\/Library\/Frameworks\/CoreFoundation.framework\/Versions\/A\/CoreFoundation",
+    "name" : "CoreFoundation",
+    "CFBundleVersion" : "3107"
+  },
+  {
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+    "arch" : "arm64e",
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+    "CFBundleShortVersionString" : "2.1.1",
+    "CFBundleIdentifier" : "com.apple.HIToolbox",
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+    "uuid" : "738685cb-aca1-3dfe-91c5-192bab97a042",
+    "path" : "\/System\/Library\/Frameworks\/Carbon.framework\/Versions\/A\/Frameworks\/HIToolbox.framework\/Versions\/A\/HIToolbox",
+    "name" : "HIToolbox"
+  },
+  {
+    "source" : "P",
+    "arch" : "arm64e",
+    "base" : 6802661376,
+    "size" : 534452,
+    "uuid" : "6beafde4-b011-3e47-8aae-4d7b6e4bb7e8",
+    "path" : "\/usr\/lib\/dyld",
+    "name" : "dyld"
+  },
+  {
+    "size" : 0,
+    "source" : "A",
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+    "uuid" : "00000000-0000-0000-0000-000000000000"
+  },
+  {
+    "source" : "P",
+    "arch" : "arm64e",
+    "base" : 6805405696,
+    "size" : 581628,
+    "uuid" : "601f843f-71f1-30bb-88fb-55b131097d1d",
+    "path" : "\/usr\/lib\/libc++.1.dylib",
+    "name" : "libc++.1.dylib"
+  }
+[deleted to fit within ticket limits]
 ],
   "sharedCache" : {
 …
+> select subtract #5
+Nothing selected
+> ui mousemode right translate
+> volume #5 level 0.2155
+> volume #5 level 0.2135
+> ui mousemode right clip
+> ui mousemode right translate
+> rename #5 J1770_FE
+> save /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs includeMaps true
+——— End of log from Tue Dec 24 23:20:40 2024 ———
+opened ChimeraX session
+> ui mousemode right clip
+> show #!4 models
+> volume #4 level 0.29
+> hide #!4 models
+> hide #!3 models
+> show #!3 models
+> hide #!5 models
+> show #!5 models
+> hide #!3 models
+> show #!3 models
+> hide #!5 models
+> show #!5 models
+> hide #!3 models
+> show #!3 models
+> hide #!5 models
+> show #!5 models
+> hide #!3 models
+> show #!2 models
+> volume #2 level 0.28
+> show #!1 models
+> hide #!5 models
+> hide #!2 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> show #!3 models
+> hide #!3 models
+> show #!3 models
+> hide #!3 models
+> ui tool show "Fit in Map"
+> fitmap #5 inMap #1
+Fit map J1770_FE in map emdb35243_ODV using 851116 points
+correlation = 0.8483, correlation about mean = 0.2293, overlap = 8e+04
+steps = 48, shift = 0.243, angle = 0.0164 degrees
+Position of J1770_FE (#5) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.13132850 0.99133890 -0.00006754 -37.26648368
+.99133890 -0.13132851 -0.00003051 66.19760087
+-0.00003911 -0.00006295 -1.00000000 760.18993780
+Axis -0.75209153 -0.65905867 0.00001272
+Axis point 0.00000000 49.43258156 380.09425290
+Rotation angle (degrees) 179.99876430
+Shift along axis -15.59062842
+> fitmap #5 inMap #1
+Fit map J1770_FE in map emdb35243_ODV using 851116 points
+correlation = 0.8483, correlation about mean = 0.2294, overlap = 8e+04
+steps = 36, shift = 0.00413, angle = 0.0029 degrees
+Position of J1770_FE (#5) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.13135235 0.99133574 -0.00002496 -37.29061767
+.99133574 -0.13135236 -0.00001744 66.20215683
+-0.00002057 -0.00002245 -1.00000000 760.16825748
+Axis -0.75201734 -0.65914331 -0.00013191
+Axis point 0.00000000 49.44453715 380.08733738
+Rotation angle (degrees) 179.99980896
+Shift along axis -15.69379233
+> volume #1 level 0.3717
+> fitmap #5 inMap #1
+Fit map J1770_FE in map emdb35243_ODV using 851116 points
+correlation = 0.8483, correlation about mean = 0.2294, overlap = 8e+04
+steps = 36, shift = 0.0043, angle = 0.000951 degrees
+Position of J1770_FE (#5) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.13135135 0.99133588 -0.00003949 -37.28663274
+.99133587 -0.13135136 -0.00002539 66.20350274
+-0.00003036 -0.00003581 -1.00000000 760.17965366
+Axis -0.75206738 -0.65908623 -0.00004758
+Axis point 0.00000000 49.44186881 380.09087758
+Rotation angle (degrees) 179.99960320
+Shift along axis -15.62792528
+> volume #1 level 0.3405
+> view front
+> volume #5 color #7a81ff
+> volume #4 level 0.2677
+> volume #5 level 0.1741
+> volume #3 level 0.1949
+> volume #1 color #d2d2d3
+> volume #1 color #7a81ff
+> volume #5 color #dfd9fc
+> volume #5 color #c2cafd
+> volume #5 color #dbd3be
+> volume #5 color #d2d2d3
+> volume #5 color #d2d2d37f
+> view front
+> volume #5 color #d2d2d3cb
+> volume #5 color #d2d2d3bf
+> volume #4 color #c1153c
+> view front
+> ui mousemode right "clip rotate"
+> ui mousemode right clip
+> volume #1 level 0.3058
+> hide #!1 models
+> volume #5 color #d2d2d3
+> volume #5 color #7a81ff
+> volume #5 color #dbd3be
+> volume #5 color #f34d8f
+> volume #5 color #c2cafd
+> volume #5 color #75ff79
+> volume #5 color #c1153c
+> volume #5 color #7a81ff
+> volume #5 level 0.2135
+> volume #5 level 0.22
+> volume #1 level 0.3301
+> volume #1 color #c1153c
+> volume #1 level 0.357
+> volume #5 level 0.2296
+> volume #2 level 0.3571
+> volume #3 level 0.275
+> volume #5 level 0.22
+> fitmap #2 inMap #5
+Fit map emdb43590_BV in map J1770_FE using 1970231 points
+correlation = 0.7092, correlation about mean = 0.03558, overlap = 1.518e+05
+steps = 132, shift = 5.67, angle = 0.682 degrees
+Position of emdb43590_BV (#2) relative to J1770_FE (#5) coordinates:
+Matrix rotation and translation
+.99488447 0.10096665 -0.00326011 -145.50060887
+.10099751 -0.99482187 0.01135595 832.26782874
+-0.00209666 -0.01162712 -0.99993021 951.49886823
+Axis -0.99872025 -0.05055749 0.00134102
+Axis point 0.00000000 422.55694258 473.23931095
+Rotation angle (degrees) 179.34072539
+Shift along axis 104.51300645
+> fitmap #2 inMap #5
+Fit map emdb43590_BV in map J1770_FE using 1970231 points
+correlation = 0.7092, correlation about mean = 0.03558, overlap = 1.518e+05
+steps = 48, shift = 0.00365, angle = 0.0012 degrees
+Position of emdb43590_BV (#2) relative to J1770_FE (#5) coordinates:
+Matrix rotation and translation
+.99488316 0.10097978 -0.00325450 -145.50768201
+.10101054 -0.99482072 0.01134053 832.26735347
+-0.00209248 -0.01161124 -0.99993040 951.48602193
+Axis -0.99871992 -0.05056405 0.00133857
+Axis point 0.00000000 422.55359730 473.23634432
+Rotation angle (degrees) 179.34162287
+Shift along axis 104.51223978
+> select add #2
+models selected
+> ui mousemode right "translate selected models"
+> view matrix models
+> #2,1,0.002004,-0.0020819,-1.4849,-0.0020281,0.99993,-0.011639,4.0605,0.0020584,0.011643,0.99993,-6.8056
+> fitmap #2 inMap #5
+Fit map emdb43590_BV in map J1770_FE using 1970231 points
+correlation = 0.7093, correlation about mean = 0.03518, overlap = 1.518e+05
+steps = 56, shift = 4.96, angle = 0.332 degrees
+Position of emdb43590_BV (#2) relative to J1770_FE (#5) coordinates:
+Matrix rotation and translation
+.99484759 0.10105423 -0.00814346 -144.38287979
+.10112086 -0.99484008 0.00823324 833.24382317
+-0.00726943 -0.00901429 -0.99993295 952.76155498
+Axis -0.99871104 -0.05061005 0.00385835
+Axis point 0.00000000 422.33880063 474.28921584
+Rotation angle (degrees) 179.50525064
+Shift along axis 105.70234875
+> select subtract #2
+Nothing selected
+> select add #2
+models selected
+> view matrix models
+> #2,0.99997,0.0020761,-0.0072544,4.7579,-0.0021416,0.99996,-0.009031,6.2994,0.0072354,0.0090463,0.99993,-13.222
+> fitmap #2 inMap #5
+Fit map emdb43590_BV in map J1770_FE using 1970231 points
+correlation = 0.7092, correlation about mean = 0.03557, overlap = 1.518e+05
+steps = 92, shift = 4.21, angle = 0.327 degrees
+Position of emdb43590_BV (#2) relative to J1770_FE (#5) coordinates:
+Matrix rotation and translation
+.99488426 0.10096572 -0.00335336 -145.47747429
+.10099761 -0.99482217 0.01132865 832.27857560
+-0.00219219 -0.01160938 -0.99993021 951.53886178
+Axis -0.99872020 -0.05055728 0.00138827
+Axis point 0.00000000 422.55644599 473.26057510
+Rotation angle (degrees) 179.34201733
+Shift along axis 104.53454580
+> view matrix models
+> #2,1,0.0019899,-0.0021815,1.6101,-0.0020151,0.99993,-0.011637,7.3811,0.0021581,0.011641,0.99993,-12.102
+> select subtract #2
+Nothing selected
+> ui mousemode right clip
+> ui mousemode right "clip rotate"
+> ui mousemode right clip
+> ui mousemode right "clip rotate"
+> ui mousemode right zone
+> ui mousemode right clip
+> hide #!2 models
+> show #!2 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!1 models
+> volume #2 level 0.3298
+> volume #1 level 0.3739
+> show #!1 models
+> hide #!5 models
+> view front
+> volume #2 color #cbc9d261
+> volume #2 color #cbc9d292
+> volume #2 color #cbc9d280
+> save /Users/ConstantinePetridis/Desktop/BV_ODV_front.png width 3000 height
+> 1873 supersample 4
+> name view diagonal
+"diagonal": invalid atom specifier
+> view name diagonal
+> save /Users/ConstantinePetridis/Desktop/BV_ODV_diag.png width 3000 height
+> 1873 supersample 4
+> view name top
+> save /Users/ConstantinePetridis/Desktop/BV_ODV_top.png width 3000 height
+> 1873 supersample 4
+> view front
+> save /Users/ConstantinePetridis/Desktop/BV_ODV_slice.png width 3000 height
+> 1873 supersample 4
+> lighting gentle
+> lighting soft
+> save /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs includeMaps true
+> volume #1 level 0.3635
+> volume #1 level 0.369
+> volume #1 level 0.368
+> volume #1 level 0.367
+> volume #1 level 0.366
+> volume #1 level 0.365
+> volume #1 level 0.363
+> volume #1 level 0.364
+> volume #1 level 0.365
+> save /Users/ConstantinePetridis/Desktop/BV_ODV_slice.png width 3000 height
+> 1873 supersample 4
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> volume #1 level 0.369
+> volume #1 level 0.37
+> volume #1 level 0.371
+> volume #1 level 0.37
+> volume #1 level 0.372
+> volume #1 level 0.37
+> volume #1 level 0.371
+> volume #1 level 0.37
+> volume #1 level 0.371
+> volume #1 level 0.37
+> volume #1 level 0.371
+> volume #1 level 0.37
+> save /Users/ConstantinePetridis/Desktop/BV_ODV_slice.png width 3000 height
+> 1873 supersample 4
+> show #!5 models
+> hide #!2 models
+> hide #!1 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> color #2 #cbc9d2ff models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> volume #5 level 0.218
+> ui tool show "Hide Dust"
+> surface dust #2 size 1.41
+> surface dust #5 size 13.13
+> surface dust #5 size 12.94
+> surface dust #5 size 14.56
+> surface dust #5 size 13.84
+> surface dust #5 size 24.07
+> surface dust #1 size 58.58
+> surface dust #2 size 1.41
+> surface dust #2 size 1.53
+> surface dust #2 size 7.02
+> volume #2 color #cbc9d280
+> surface dust #2 size 7.9
+> surface dust #2 size 13.04
+> volume #2 color #cbc9d2
+> surface dust #1 size 58.26
+> surface dust #1 size 23.5
+> volume #2 color #6f7073
+> undo
+> volume #2 color #d2d2d3
+> volume #2 color #d2d2d37f
+> volume #2 level 0.328
+> volume #2 level 0.329
+> volume #2 level 0.33
+> volume #2 level 0.329
+> surface dust #1 size 23.91
+> surface dust #2 size 12.41
+> surface dust #2 size 13.27
+> volume #2 level 0.3136
+> volume #2 level 0.315
+> surface dust #2 size 13.71
+> surface dust #2 size 7.26
+> surface dust #1 size 22.74
+> surface dust #1 size 24.72
+> volume #5 level 0.2003
+> volume #5 level 0.2042
+> volume #5 level 0.2022
+> save /Users/ConstantinePetridis/Desktop/BV_ODV_slice2.png width 3000 height
+> 1873 supersample 4
+> name view slice
+"slice": invalid atom specifier
+> view name slice
+> volume #2 color #d2d2d3
+> view name slice
+> volume #5 level 0.203
+> volume #5 level 0.205
+> volume #5 level 0.215
+> volume #5 level 0.213
+> surface dust #5 size 11.7
+> surface dust #5 size 11.51
+> surface dust #5 size 15.31
+> surface dust #5 size 15.57
+> surface dust #5 size 22.14
+> surface dust #5 size 21.05
+> surface dust #5 size 14.56
+> surface dust #5 size 15
+> surface dust #5 size 15.5
+> volume #5 level 0.215
+> volume #5 level 0.22
+> volume #5 level 0.215
+> volume #5 level 0.214
+> volume #5 level 0.21
+> volume #5 level 0.212
+> volume #2 color #d2d2d382
+> volume #2 color #d2d2d381
+> volume #2 color #d2d2d380
+> volume #5 color #7a81ff82
+> volume #5 color #7a81ff80
+> volume #5 color #7a81ff
+> volume #5 color #7d82ff
+> volume #5 color #9096ff
+> volume #5 color #8b90ff
+> volume #5 color #8186ee
+> volume #5 color #928cee
+> volume #5 color #8687ee
+> volume #5 color #7a81ff
+> volume #5 color #8687ee
+> volume #5 color #7a81ff
+> volume #5 color #8687ee
+> volume #5 color #7a81ff
+> volume #5 color #8687ee
+> volume #5 color #8d8efd
+> volume #5 color #8c8dfc
+> save /Users/ConstantinePetridis/Desktop/FE_slice.png width 3000 height 1873
+> supersample 4
+> view front
+> save /Users/ConstantinePetridis/Desktop/FE_front.png width 3000 height 1873
+> supersample 4
+> view side
+Expected an objects specifier or a view name or a keyword
+> view top
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> save /Users/ConstantinePetridis/Desktop/FE_top.png width 3000 height 1873
+> supersample 4
+> view diagonal
+> save /Users/ConstantinePetridis/Desktop/FE_diag.png width 3000 height 1873
+> supersample 4
+> open
+> /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1558_003_volume_map.mrc
+Opened cryosparc_P23_J1558_003_volume_map.mrc as #6, grid size 256,256,256,
+pixel 3.33, shown at level 0.217, step 1, values float32
+> hide #!5 models
+> volume #6 level 0.3811
+> volume #6 level 0.3328
+> open
+> /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1556_003_volume_map.mrc
+Opened cryosparc_P23_J1556_003_volume_map.mrc as #7, grid size 256,256,256,
+pixel 3.33, shown at level 0.21, step 1, values float32
+> volume #7 level 0.4989
+> show #!5 models
+> select add #7
+models selected
+> ui mousemode right "translate selected models"
+> view matrix models #7,1,0,0,-16.351,0,1,0,47.951,0,0,1,138.25
+> view matrix models #7,1,0,0,29.518,0,1,0,46.948,0,0,1,111.17
+> view matrix models #7,1,0,0,25.184,0,1,0,58.062,0,0,1,121.54
+> view matrix models #7,1,0,0,26.356,0,1,0,61.724,0,0,1,120.42
+> volume #7 level 1.549
+> view matrix models #7,1,0,0,-5.8723,0,1,0,212.92,0,0,1,115.91
+> view matrix models #7,1,0,0,21.885,0,1,0,66.685,0,0,1,255.9
+> view matrix models #7,1,0,0,51.063,0,1,0,63.802,0,0,1,118.77
+> view matrix models #7,1,0,0,62.627,0,1,0,64.199,0,0,1,115.71
+> volume #5 level 0.145
+> show #!2 models
+> volume #2 level 0.192
+> volume #5 level 0.212
+> view matrix models #7,1,0,0,62.623,0,1,0,64.137,0,0,1,124.05
+> volume #7 level 1.238
+> volume #2 level 0.2791
+> volume #2 level 0.2433
+> volume #2 color #d2d2d3
+> select subtract #7
+Nothing selected
+> show #!5 models
+> hide #!2 models
+> close #6-7
+> view slice
+> ui mousemode right clip
+> open /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1772_map_locres.mrc
+Opened cryosparc_P23_J1772_map_locres.mrc as #6, grid size 360,360,360, pixel
+.19, shown at level 15.3, step 2, values float32
+> ui tool show "Surface Color"
+> open /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1772_map_locres.mrc
+Opened cryosparc_P23_J1772_map_locres.mrc as #7, grid size 360,360,360, pixel
+.19, shown at level 15.3, step 2, values float32
+> close #7
+> ui tool show "Color Zone"
+> volume #6 level 34.88
+> color sample #5.1 map #6 palette #ff0000:#ffffff:#0000ff
+Map values for surface "surface": minimum 0, mean 3.268, maximum 84.67
+Map values for surface "cap front": minimum 0, mean 3.597, maximum 75.98
+> color sample #5.1 map #6 palette #ff0000:#ffffff:#0000ff
+Map values for surface "surface": minimum 0, mean 3.268, maximum 84.67
+Map values for surface "cap front": minimum 0, mean 3.597, maximum 75.98
+> color sample #5.1 map #6 palette #0000ff:#00ff00:#ff0000
+Map values for surface "surface": minimum 0, mean 3.268, maximum 84.67
+Map values for surface "cap front": minimum 0, mean 3.597, maximum 75.98
+> color sample #5.1 map #6 palette #0000ff:#00ff00:#ff0000
+Map values for surface "surface": minimum 0, mean 3.268, maximum 84.67
+Map values for surface "cap front": minimum 0, mean 3.597, maximum 75.98
+> color sample #5.1 map #6 palette #0000ff:#00ff00:#ff0000
+Map values for surface "surface": minimum 0, mean 3.268, maximum 84.67
+Map values for surface "cap front": minimum 0, mean 3.597, maximum 75.98
+> color sample #5.1 map #6 palette #0000ff:#00ff00:#ff0000
+Map values for surface "surface": minimum 0, mean 3.268, maximum 84.67
+Map values for surface "cap front": minimum 0, mean 3.597, maximum 75.98
+> color sample #5.1 map #6 palette 4,#0000ff:8,#00ff00:12,#ff0000
+Map values for surface "surface": minimum 0, mean 3.268, maximum 84.67
+Map values for surface "cap front": minimum 0, mean 3.597, maximum 75.98
+> hide #!6 models
+> show #!6 models
+> hide #!6 models
+> show #!6 models
+> volume #6 level 13.26
+> select add #6
+models selected
+> ui mousemode right "translate selected models"
+> view matrix models #6,1,0,0,40.565,0,1,0,120.88,0,0,1,-18.957
+> view matrix models #6,1,0,0,41.114,0,1,0,127.8,0,0,1,-119.02
+> volume #6 level 8.559
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.79891,-0.6006,-0.0319,370.49,-0.60062,-0.79947,0.010071,1069.1,-0.031552,0.011114,-0.99944,738.08
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.79891,-0.6006,-0.0319,372.71,-0.60062,-0.79947,0.010071,1065,-0.031552,0.011114,-0.99944,940.36
+> view matrix models
+> #6,0.79891,-0.6006,-0.0319,414.56,-0.60062,-0.79947,0.010071,1058.5,-0.031552,0.011114,-0.99944,943.96
+> view matrix models
+> #6,0.79891,-0.6006,-0.0319,407.83,-0.60062,-0.79947,0.010071,1047.6,-0.031552,0.011114,-0.99944,923.68
+> color sample #5.1 map #6 palette 4,#0000ff:8,#00ff00:12,#ff0000
+Map values for surface "surface": minimum 0, mean 5.765, maximum 74.22
+Map values for surface "cap front": minimum 0, mean 6.344, maximum 14.45
+> show #!6 models
+> select add #6
+models selected
+> select subtract #6
+Nothing selected
+> volume #6 level 11.07
+> ui tool show "Fit in Map"
+> fitmap #6 inMap #5
+Fit map cryosparc_P23_J1772_map_locres.mrc in map J1770_FE using 235274 points
+correlation = 0.622, correlation about mean = -0.02491, overlap = 3.607e+05
+steps = 176, shift = 31.5, angle = 3.74 degrees
+Position of cryosparc_P23_J1772_map_locres.mrc (#6) relative to J1770_FE (#5)
+coordinates:
+Matrix rotation and translation
+.72829231 -0.67899329 -0.09251157 390.10224659
+.67932068 0.73310920 -0.03277637 -151.45118045
+.09007602 -0.03897424 0.99517199 -23.78717197
+Axis -0.00452220 -0.13322261 0.99107582
+Axis point 388.57482759 419.00286192 0.00000000
+Rotation angle (degrees) 43.25704092
+Shift along axis -5.16228847
+> volume #6 level 5.917
+> select add #6
+models selected
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.70474,-0.70639,-0.06603,498.29,-0.70626,-0.70735,0.029181,1038.5,-0.067319,0.026069,-0.99739,960.59
+> ui mousemode right "translate selected models"
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.7101,-0.70395,0.014309,461.1,-0.70409,-0.71001,0.01201,1046,0.0017056,-0.018603,-0.99983,952.03
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.7101,-0.70395,0.014309,466.45,-0.70409,-0.71001,0.01201,1044.9,0.0017056,-0.018603,-0.99983,952.74
+> view matrix models
+> #6,0.7101,-0.70395,0.014309,469.04,-0.70409,-0.71001,0.01201,1051.1,0.0017056,-0.018603,-0.99983,951.55
+> view matrix models
+> #6,0.7101,-0.70395,0.014309,476.39,-0.70409,-0.71001,0.01201,1047.6,0.0017056,-0.018603,-0.99983,951.57
+> fitmap #6 inMap #5
+Fit map cryosparc_P23_J1772_map_locres.mrc in map J1770_FE using 713538 points
+correlation = 0.42, correlation about mean = -0.02124, overlap = 6.456e+05
+steps = 96, shift = 10.1, angle = 0.907 degrees
+Position of cryosparc_P23_J1772_map_locres.mrc (#6) relative to J1770_FE (#5)
+coordinates:
+Matrix rotation and translation
+.62551415 -0.78013599 0.01094819 439.41706404
+.78021115 0.62548012 -0.00671941 -153.86127727
+-0.00160582 0.01274498 0.99991748 -2.24018364
+Axis 0.01247302 0.00804476 0.99988985
+Axis point 380.02074921 380.80499582 0.00000000
+Rotation angle (degrees) 51.28434410
+Shift along axis 2.00314369
+> color sample #5.1 map #6 palette 4,#0000ff:8,#00ff00:12,#ff0000
+Map values for surface "surface": minimum 0, mean 6.769, maximum 84.46
+Map values for surface "cap front": minimum 4.775, mean 6.84, maximum 14.92
+> color sample #5.1 map #6 palette #0000ff:#00ff00:#ff0000
+Map values for surface "surface": minimum 0, mean 6.769, maximum 84.46
+Map values for surface "cap front": minimum 4.775, mean 6.84, maximum 14.92
+> color sample #5.1 map #6 palette 3,#0000ff:6,#00ff00:9,#ff0000
+Map values for surface "surface": minimum 0, mean 6.769, maximum 84.46
+Map values for surface "cap front": minimum 4.775, mean 6.84, maximum 14.92
+> fitmap #6 inMap #5
+Fit map cryosparc_P23_J1772_map_locres.mrc in map J1770_FE using 713538 points
+correlation = 0.42, correlation about mean = -0.02125, overlap = 6.456e+05
+steps = 40, shift = 0.194, angle = 0.0295 degrees
+Position of cryosparc_P23_J1772_map_locres.mrc (#6) relative to J1770_FE (#5)
+coordinates:
+Matrix rotation and translation
+.62537365 -0.78024819 0.01097844 439.53472662
+.78032286 0.62534576 -0.00623573 -153.90759639
+-0.00199990 0.01246638 0.99992028 -1.94177383
+Axis 0.01198287 0.00831552 0.99989363
+Axis point 380.09000393 380.79996395 0.00000000
+Rotation angle (degrees) 51.29433191
+Shift along axis 2.04549844
+> volume #6 level 11.86
+> view matrix models
+> #6,0.69955,-0.71451,0.010273,486.54,-0.71458,-0.69951,0.0073239,1048.3,0.0019532,-0.012465,-0.99992,942.21
+> fitmap #6 inMap #5
+Fit map cryosparc_P23_J1772_map_locres.mrc in map J1770_FE using 194529 points
+correlation = 0.6868, correlation about mean = -0.005782, overlap = 3.239e+05
+steps = 176, shift = 6.12, angle = 3.47 degrees
+Position of cryosparc_P23_J1772_map_locres.mrc (#6) relative to J1770_FE (#5)
+coordinates:
+Matrix rotation and translation
+.60157471 -0.79878007 -0.00763050 470.20395732
+.79733311 0.60101206 -0.05517589 -133.26339412
+.04865942 0.02710837 0.99844748 -32.85683310
+Axis 0.05145263 -0.03519828 0.99805496
+Axis point 369.71797118 404.49193271 0.00000000
+Rotation angle (degrees) 53.09305594
+Shift along axis -3.90905469
+> view matrix models
+> #6,0.67755,-0.73536,-0.013089,520.23,-0.73386,-0.67713,0.054182,1032.8,-0.048706,-0.027105,-0.99845,972.09
+> view matrix models
+> #6,0.67755,-0.73536,-0.013089,519.12,-0.73386,-0.67713,0.054182,1029.5,-0.048706,-0.027105,-0.99845,972.47
+> color sample #5.1 map #6 palette 3,#0000ff:6,#00ff00:9,#ff0000
+Map values for surface "surface": minimum 0, mean 6.738, maximum 83.65
+Map values for surface "cap front": minimum 0, mean 6.805, maximum 12.79
+> volume #6 level 7.105
+> view matrix models
+> #6,0.67755,-0.73536,-0.013089,514.54,-0.73386,-0.67713,0.054182,1021.4,-0.048706,-0.027105,-0.99845,972.32
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.674,-0.73835,-0.023878,521.69,-0.73736,-0.67436,0.039227,1028,-0.045066,-0.0088322,-0.99894,963.9
+> undo
+> view matrix models
+> #6,0.67655,-0.73609,-0.021086,518.61,-0.735,-0.67676,0.042162,1026.8,-0.045305,-0.013027,-0.99889,965.63
+> view matrix models
+> #6,0.67863,-0.73447,0.0027947,507.02,-0.73431,-0.6784,0.023716,1035,-0.015523,-0.018147,-0.99971,956.26
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.67863,-0.73447,0.0027947,508.2,-0.73431,-0.6784,0.023716,1038.3,-0.015523,-0.018147,-0.99971,956.19
+> fitmap #6 inMap #5
+Fit map cryosparc_P23_J1772_map_locres.mrc in map J1770_FE using 556136 points
+correlation = 0.4654, correlation about mean = 0.004979, overlap = 5.607e+05
+steps = 192, shift = 9.81, angle = 10.6 degrees
+Position of cryosparc_P23_J1772_map_locres.mrc (#6) relative to J1770_FE (#5)
+coordinates:
+Matrix rotation and translation
+.44852051 -0.89365997 -0.01418363 570.85480520
+.89242120 0.44865831 -0.04785486 -120.70874369
+.04912958 0.00880612 0.99875358 -24.87285560
+Axis 0.03168780 -0.03540807 0.99887044
+Axis point 383.75107879 402.05737701 0.00000000
+Rotation angle (degrees) 63.38672762
+Shift along axis -2.48156606
+> undo
+> color sample #5.1 map #6 palette 3,#0000ff:6,#00ff00:9,#ff0000
+Map values for surface "surface": minimum 0, mean 6.734, maximum 83.39
+Map values for surface "cap front": minimum 3.706, mean 6.824, maximum 13.41
+> ui mousemode right clip
+> color sample #5.1 map #6 palette 3,#0000ff:6,#00ff00:9,#ff0000
+Map values for surface "surface": minimum 0, mean 6.734, maximum 83.39
+Map values for surface "cap front": minimum 4.775, mean 6.985, maximum 41.66
+> volume #6 level 11.2
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.67863,-0.73447,0.0027947,509.23,-0.73431,-0.6784,0.023716,1035.7,-0.015523,-0.018147,-0.99971,956.19
+> volume #6 level 7.105
+> color sample #5.1 map #6 palette 3,#0000ff:6,#00ff00:9,#ff0000
+Map values for surface "surface": minimum 0, mean 6.704, maximum 83.63
+> ui mousemode right clip
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.7012,-0.71296,0.00026846,492.93,-0.71283,-0.70106,0.019856,1037.8,-0.013968,-0.014114,-0.9998,954.02
+> color sample #5.1 map #6 palette 3,#0000ff:6,#00ff00:9,#ff0000
+Map values for surface "surface": minimum 0, mean 6.687, maximum 83.62
+Map values for surface "cap front": minimum 4.775, mean 5.637, maximum 9.86
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.7012,-0.71296,0.00026846,498.59,-0.71283,-0.70106,0.019856,1042.5,-0.013968,-0.014114,-0.9998,954.59
+> ui mousemode right clip
+> color sample #5.1 map #6 palette 3,#0000ff:6,#00ff00:9,#ff0000
+Map values for surface "surface": minimum 0, mean 6.63, maximum 83.86
+> color sample #5.1 map #6 palette 3,#0000ff:6,#00ff00:9,#ff0000
+Map values for surface "surface": minimum 0, mean 6.63, maximum 83.86
+Map values for surface "cap front": minimum 4.775, mean 6.806, maximum 13.48
+> color sample #5.1 map #6 palette 4,#0000ff:6,#00ff00:9,#ff0000
+Map values for surface "surface": minimum 0, mean 6.63, maximum 83.86
+Map values for surface "cap front": minimum 4.775, mean 6.806, maximum 13.48
+> color sample #5.1 map #6 palette 4,#0000ff:7,#00ff00:10,#ff0000
+Map values for surface "surface": minimum 0, mean 6.63, maximum 83.86
+Map values for surface "cap front": minimum 4.775, mean 6.806, maximum 13.48
+> color sample #5.1 map #6 palette 5,#0000ff:8,#00ff00:11,#ff0000
+Map values for surface "surface": minimum 0, mean 6.63, maximum 83.86
+Map values for surface "cap front": minimum 4.775, mean 6.806, maximum 13.48
+> ui mousemode right "rotate selected models"
+> ui mousemode right clip
+> fitmap #6 inMap #5
+Fit map cryosparc_P23_J1772_map_locres.mrc in map J1770_FE using 556136 points
+correlation = 0.4654, correlation about mean = 0.004986, overlap = 5.607e+05
+steps = 232, shift = 10.9, angle = 12.3 degrees
+Position of cryosparc_P23_J1772_map_locres.mrc (#6) relative to J1770_FE (#5)
+coordinates:
+Matrix rotation and translation
+.44843477 -0.89370215 -0.01423684 570.92176745
+.89245986 0.44857475 -0.04791714 -120.66744478
+.04920994 0.00878190 0.99874983 -24.85908666
+Axis 0.03170755 -0.03548105 0.99886722
+Axis point 383.73998016 402.08218830 0.00000000
+Rotation angle (degrees) 63.39227213
+Shift along axis -2.44698898
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.53458,-0.84491,-0.018944,623.91,-0.84368,-0.53484,0.046304,1016.7,-0.049255,-0.0087703,-0.99875,965.32
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.3124,-0.94994,0.0049256,742.68,-0.9477,-0.3113,0.070378,959.43,-0.065321,-0.026654,-0.99751,978.17
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.3124,-0.94994,0.0049256,742.74,-0.9477,-0.3113,0.070378,959.02,-0.065321,-0.026654,-0.99751,978.19
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.29215,-0.95632,0.010024,751.07,-0.95409,-0.29071,0.072135,952.67,-0.06607,-0.030638,-0.99734,979.99
+> view matrix models
+> #6,0.31166,-0.95014,-0.010037,749.47,-0.94798,-0.31163,0.065024,961.53,-0.06491,-0.010751,-0.99783,971.9
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.31166,-0.95014,-0.010037,750.23,-0.94798,-0.31163,0.065024,964.57,-0.06491,-0.010751,-0.99783,969.55
+> color sample #5.1 map #6 palette 5,#0000ff:8,#00ff00:11,#ff0000
+Map values for surface "surface": minimum 0, mean 6.704, maximum 81.87
+Map values for surface "cap front": minimum 0.1064, mean 5.961, maximum 10.3
+> ui mousemode right clip
+> color sample #5.1 map #6 palette 5,#0000ff:8,#00ff00:11,#ff0000
+Map values for surface "surface": minimum 0, mean 6.704, maximum 81.87
+Map values for surface "cap front": minimum 2.423, mean 6.735, maximum 13.35
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.31249,-0.94992,-0.00018017,745.63,-0.94992,-0.31248,-0.0036285,994.83,0.0033905,0.001305,-0.99999,938.81
+> view matrix models
+> #6,0.31248,-0.94989,-0.0084239,749.12,-0.9499,-0.31241,-0.0092514,997.18,0.0061561,0.010893,-0.99992,933.91
+> color sample #5.1 map #6 palette 5,#0000ff:8,#00ff00:11,#ff0000
+Map values for surface "surface": minimum 0, mean 6.609, maximum 84.34
+> ui mousemode right clip
+> color sample #5.1 map #6 palette 5,#0000ff:8,#00ff00:11,#ff0000
+Map values for surface "surface": minimum 0, mean 6.609, maximum 84.34
+Map values for surface "cap front": minimum 4.775, mean 6.786, maximum 13.29
+> ui mousemode right "rotate selected models"
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.31248,-0.94989,-0.0084239,749.68,-0.9499,-0.31241,-0.0092514,996.07,0.0061561,0.010893,-0.99992,934.92
+> color sample #5.1 map #6 palette 5,#0000ff:8,#00ff00:11,#ff0000
+Map values for surface "surface": minimum 0, mean 6.608, maximum 84.13
+Map values for surface "cap front": minimum 4.775, mean 6.786, maximum 13.43
+> color sample #5.1 map #6 palette 5,#0000ff:8,#00ff00:11,#ff0000
+Map values for surface "surface": minimum 0, mean 6.608, maximum 84.13
+Map values for surface "cap front": minimum 4.775, mean 6.786, maximum 13.43
+> color sample #5.1 map #6 palette 4,#0000ff:8,#00ff00:11,#ff0000
+Map values for surface "surface": minimum 0, mean 6.608, maximum 84.13
+Map values for surface "cap front": minimum 4.775, mean 6.786, maximum 13.43
+> color sample #5.1 map #6 palette
+> 3,#0000ff:5,#00ffff:7,#00ff00:9,#ffff00:11,#ff0000
+Map values for surface "surface": minimum 0, mean 6.608, maximum 84.13
+Map values for surface "cap front": minimum 4.775, mean 6.786, maximum 13.43
+> color sample #5.1 map #6 palette
+> 4,#0000ff:6,#00ffff:8,#00ff00:10,#ffff00:12,#ff0000
+Map values for surface "surface": minimum 0, mean 6.608, maximum 84.13
+Map values for surface "cap front": minimum 4.775, mean 6.786, maximum 13.43
+> view slice
+> view matrix models
+> #6,0.31248,-0.94989,-0.0084239,749.68,-0.9499,-0.31241,-0.0092514,995.13,0.0061561,0.010893,-0.99992,938.88
+> color sample #5.1 map #6 palette
+> 4,#0000ff:6,#00ffff:8,#00ff00:10,#ffff00:12,#ff0000
+Map values for surface "surface": minimum 0, mean 6.65, maximum 83.6
+Map values for surface "cap front": minimum 4.775, mean 6.723, maximum 12.76
+> view slice
+> key rainbow :4 :6 :8 :10 :12 showTool true
+> ui mousemode right "color key"
+> ui mousemode right "translate selected models"
+> undo
+> view slice
+> undo
+> view slice
+> color sample #5.1 map #6 palette
+> 5,#0000ff:6,#00ffff:8,#00ff00:10,#ffff00:12,#ff0000
+Map values for surface "surface": minimum 0, mean 6.65, maximum 83.6
+Map values for surface "cap front": minimum 4.775, mean 6.723, maximum 12.76
+> color sample #5.1 map #6 palette
+> 4,#0000ff:5,#00ffff:8,#00ff00:10,#ffff00:12,#ff0000
+Map values for surface "surface": minimum 0, mean 6.65, maximum 83.6
+Map values for surface "cap front": minimum 4.775, mean 6.723, maximum 12.76
+> color sample #5.1 map #6 palette
+> 4,#0000ff:5,#00ffff:8,#00ff00:10,#ffff00:12,#ff0000
+Map values for surface "surface": minimum 0, mean 6.65, maximum 83.6
+Map values for surface "cap front": minimum 4.775, mean 6.723, maximum 12.76
+> color sample #5.1 map #6 palette
+> 5,#0000ff:7,#00ffff:9,#00ff00:11,#ffff00:13,#ff0000
+Map values for surface "surface": minimum 0, mean 6.65, maximum 83.6
+Map values for surface "cap front": minimum 4.775, mean 6.723, maximum 12.76
+> color sample #5.1 map #6 palette
+> 4,#0000ff:6,#00ffff:8,#00ff00:10,#ffff00:12,#ff0000
+Map values for surface "surface": minimum 0, mean 6.65, maximum 83.6
+Map values for surface "cap front": minimum 4.775, mean 6.723, maximum 12.76
+> save /Users/ConstantinePetridis/Desktop/localres.png width 3000 height 2655
+> supersample 4
+> view slice
+> ui mousemode right rotate
+> save /Users/ConstantinePetridis/Desktop/localres.png width 3000 height 2655
+> supersample 4
+> close #7
+> close #6
+> color #5 #8c8dfcff
+> open /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1772_map_locres.mrc
+Opened cryosparc_P23_J1772_map_locres.mrc as #6, grid size 360,360,360, pixel
+.19, shown at level 15.3, step 2, values float32
+> volume #6 level 4.338
+> view slice
+> select add #6
+models selected
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.73792,-0.65748,-0.15229,426.93,-0.65684,-0.7515,0.06169,922.6,-0.15501,0.054508,-0.98641,883.06
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.73792,-0.65748,-0.15229,481.25,-0.65684,-0.7515,0.06169,1044.3,-0.15501,0.054508,-0.98641,976.95
+> view matrix models
+> #6,0.73792,-0.65748,-0.15229,521.56,-0.65684,-0.7515,0.06169,1039.7,-0.15501,0.054508,-0.98641,983.22
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.77527,-0.63157,0.0082957,428.45,-0.63144,-0.77464,0.034901,1050.2,-0.015616,-0.032296,-0.99936,968
+> view matrix models
+> #6,0.57957,-0.8149,0.005019,579.17,-0.81492,-0.57955,0.0047301,1058.4,-0.0009458,-0.0068316,-0.99998,952.45
+> view matrix models
+> #6,0.56528,-0.82392,0.040091,573.46,-0.82321,-0.56657,-0.036471,1074,0.052763,-0.012386,-0.99853,932.87
+> view matrix models
+> #6,0.59292,-0.80379,0.048658,551,-0.80287,-0.59474,-0.041117,1079.1,0.061988,-0.014687,-0.99797,929.9
+> view matrix models
+> #6,0.64649,-0.7621,0.035332,519.13,-0.75938,-0.64726,-0.066303,1093.4,0.073399,0.016034,-0.99717,912.96
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.64649,-0.7621,0.035332,530.48,-0.75938,-0.64726,-0.066303,1094.8,0.073399,0.016034,-0.99717,896.38
+> ui mousemode right clip
+> volume #6 level 8.563
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.64649,-0.7621,0.035332,526.11,-0.75938,-0.64726,-0.066303,1077.4,0.073399,0.016034,-0.99717,897.09
+> view matrix models
+> #6,0.64649,-0.7621,0.035332,519.94,-0.75938,-0.64726,-0.066303,1083,0.073399,0.016034,-0.99717,897.33
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.64806,-0.75633,-0.089372,570,-0.75997,-0.64987,-0.011,1060.8,-0.049761,0.075049,-0.99594,922.08
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.64806,-0.75633,-0.089372,576.4,-0.75997,-0.64987,-0.011,1054.9,-0.049761,0.075049,-0.99594,921.37
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.6425,-0.75609,-0.12456,593.44,-0.75795,-0.65097,0.041827,1032.1,-0.11271,0.067537,-0.99133,947.17
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.6425,-0.75609,-0.12456,593.72,-0.75795,-0.65097,0.041827,1031.3,-0.11271,0.067537,-0.99133,947.14
+> volume #6 level 6.847
+> view matrix models
+> #6,0.6425,-0.75609,-0.12456,592.38,-0.75795,-0.65097,0.041827,1030.9,-0.11271,0.067537,-0.99133,947.42
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.64591,-0.75866,-0.085075,575.28,-0.75837,-0.65043,0.042488,1030.5,-0.087569,0.037075,-0.99547,951.28
+> view matrix models
+> #6,0.72579,-0.68433,-0.070145,508.19,-0.68645,-0.72712,-0.0089347,1054.3,-0.04489,0.054635,-0.9975,928.4
+> view matrix models
+> #6,0.72509,-0.685,-0.070781,509,-0.686,-0.72748,0.012928,1044.9,-0.060348,0.039182,-0.99741,940.54
+> view matrix models
+> #6,0.66079,-0.74786,-0.063795,556.13,-0.74283,-0.66378,0.087132,1010.7,-0.10751,-0.010187,-0.99415,977.19
+> volume #6 level 8.827
+> transparency #6
+Missing or invalid "percent" argument: Expected a number
+> transparency #6 50
+> volume #6 level 8.167
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.66079,-0.74786,-0.063795,560.77,-0.74283,-0.66378,0.087132,1001.6,-0.10751,-0.010187,-0.99415,976.52
+> view matrix models
+> #6,0.66079,-0.74786,-0.063795,568.86,-0.74283,-0.66378,0.087132,1002.1,-0.10751,-0.010187,-0.99415,976.76
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.60104,-0.76193,-0.24127,673.3,-0.7084,-0.64766,0.28054,900.01,-0.37001,0.0022994,-0.92902,1047.6
+> view matrix models
+> #6,0.6286,-0.74356,-0.22801,649.58,-0.74019,-0.66195,0.11807,987.15,-0.23872,0.094554,-0.96647,975.44
+> view matrix models
+> #6,0.65931,-0.74084,-0.12833,594.08,-0.74854,-0.66281,-0.019335,1049.1,-0.070734,0.10881,-0.99154,914.29
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.65931,-0.74084,-0.12833,584.52,-0.74854,-0.66281,-0.019335,1056.8,-0.070734,0.10881,-0.99154,917.83
+> view matrix models
+> #6,0.65931,-0.74084,-0.12833,584.07,-0.74854,-0.66281,-0.019335,1055.8,-0.070734,0.10881,-0.99154,917.84
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.65065,-0.75059,-0.1152,585.75,-0.75,-0.65894,0.05741,1022.3,-0.119,0.049046,-0.99168,960.46
+> view matrix models
+> #6,0.66794,-0.73266,-0.1306,578.41,-0.73646,-0.67599,0.025754,1037.1,-0.10715,0.078978,-0.9911,943.76
+> view matrix models
+> #6,0.67045,-0.73938,-0.061804,550.86,-0.74121,-0.67117,-0.011271,1052.8,-0.033148,0.053367,-0.99802,927.63
+> view matrix models
+> #6,0.67828,-0.73209,-0.063063,545.43,-0.73394,-0.67915,-0.0098613,1052.5,-0.035609,0.052973,-0.99796,928.73
+> view matrix models
+> #6,0.66893,-0.74053,-0.064409,553.01,-0.74248,-0.66978,-0.010479,1052.4,-0.03538,0.054832,-0.99787,927.87
+> volume #6 level 7.507
+> ui mousemode right clip
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.66911,-0.74205,-0.04069,543.47,-0.74285,-0.66942,-0.0076748,1051.2,-0.021544,0.035362,-0.99914,930.63
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.66911,-0.74205,-0.04069,536.2,-0.74285,-0.66942,-0.0076748,1050.5,-0.021544,0.035362,-0.99914,931.48
+> view matrix models
+> #6,0.66911,-0.74205,-0.04069,533.53,-0.74285,-0.66942,-0.0076748,1051.2,-0.021544,0.035362,-0.99914,931.93
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.66873,-0.74274,-0.03382,531.04,-0.74335,-0.66884,-0.0094975,1051.9,-0.015566,0.031491,-0.99938,931.21
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.66873,-0.74274,-0.03382,532.76,-0.74335,-0.66884,-0.0094975,1051.4,-0.015566,0.031491,-0.99938,931.66
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.66744,-0.74437,-0.020672,528.32,-0.74465,-0.66731,-0.013922,1053.2,-0.0034315,0.024686,-0.99969,929.69
+> ui mousemode right "translate selected models"
+> view matrix models
+> #6,0.66744,-0.74437,-0.020672,534.92,-0.74465,-0.66731,-0.013922,1054.9,-0.0034315,0.024686,-0.99969,929.71
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #6,0.66683,-0.74518,0.0062522,524.05,-0.74518,-0.66686,-0.0035196,1050.6,0.006792,-0.002312,-0.99997,936.44
+> ui tool show "Surface Color"
+> color sample #5.1 map #6 palette #0000ff:#00ffff:#00ff00:#ffff00:#ff0000
+Map values for surface "surface": minimum 0, mean 6.678, maximum 84.54
+> hide #!6 models
+> select subtract #6
+Nothing selected
+> view slice
+> color sample #5.1 map #6 palette
+> 4,#0000ff:6,#00ffff:8,#00ff00:10,#ffff00:12,#ff0000
+Map values for surface "surface": minimum 0, mean 6.678, maximum 84.54
+Map values for surface "cap front": minimum 4.775, mean 6.72, maximum 12.62
+> view slice
+> ui mousemode right rotate
+> save /Users/ConstantinePetridis/Desktop/localres.png width 3000 height 2655
+> supersample 4
+> open
+> /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1586_003_volume_map.mrc
+Opened cryosparc_P23_J1586_003_volume_map.mrc as #7, grid size 256,256,256,
+pixel 3.33, shown at level 0.585, step 1, values float32
+> hide #!5 models
+> volume #7 level 0.7706
+> ui mousemode right clip
+> open
+> /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1577_001_volume_map.mrc
+Opened cryosparc_P23_J1577_001_volume_map.mrc as #8, grid size 636,636,636,
+pixel 1.34, shown at level 0.041, step 4, values float32
+> volume #8 level 0.072
+> volume #8 step 1
+> volume #8 step 2
+> volume #8 step 4
+> volume #8 level 0.06093
+> ui mousemode right rotate
+> close #7-8
+> show #!3 models
+> show #!2 models
+> view front
+> color #3 #8c8dfcff models
+> color #3 #8c8dfc80 models
+> hide #!3 models
+> show #!3 models
+> hide #!2 models
+> show #!2 models
+> volume #2 level 0.3359
+> volume #3 level 0.2475
+> volume #2 level 0.1906
+> volume #2 level 0.1716
+> volume #2 level 0.336
+> volume #3 level 0.212
+> volume #2 level 0.3002
+> ui tool show "Hide Dust"
+> surface dust #2 size 1.41
+> surface dust #3 size 14.2
+> surface dust #3 size 14.43
+> surface dust #3 size 65.43
+> hide #!2 models
+> surface dust #3 size 68.1
+> surface dust #3 size 8.53
+> ui mousemode right clip
+> surface dust #3 size 8.64
+> surface dust #3 size 2.37
+> surface dust #3 size 6
+> surface dust #3 size 63
+> surface dust #3 size 6
+> surface dust #3 size 60
+> show #!2 models
+> view front
+> volume #3 color #8687ee
+> volume #3 color #8c8dfc
+> volume #3 color #7a81ff
+> volume #3 color #8687ee
+> volume #3 color #8c8dfc
+> volume #3 color #8c8dfc80
+> volume #3 color #8c8dfc8c
+> volume #2 level 0.2462
+> volume #2 level 0.24
+> volume #2 level 0.26
+> volume #2 level 0.2125
+> volume #2 level 0.2773
+> volume #2 level 0.2902
+> volume #3 level 0.21
+> volume #3 level 0.208
+> surface dust #2 size 3.56
+> surface dust #2 size 3.42
+> surface dust #2 size 8.43
+> surface dust #3 size 6
+> surface dust #3 size 62
+> surface dust #3 size 6
+> surface dust #3 size 64
+> surface dust #3 size 6
+> surface dust #3 size 62
+> surface dust #3 size 67.21
+> surface dust #3 size 57.94
+> surface dust #3 size 6
+> surface dust #3 size 60
+> view front
+> volume #3 level 0.212
+> volume #3 level 0.21
+> volume #3 level 0.209
+> volume #3 level 0.211
+> view front
+> save /Users/ConstantinePetridis/Desktop/BV_FE_front.png width 3000 height
+> 1974 supersample 4
+> view side
+Expected an objects specifier or a view name or a keyword
+> view diagonal
+> save /Users/ConstantinePetridis/Desktop/BV_FE_diag.png width 3000 height
+> 1974 supersample 4
+> view top
+> save /Users/ConstantinePetridis/Desktop/BV_FE_top.png width 3000 height 1974
+> supersample 4
+> view slice
+> save /Users/ConstantinePetridis/Desktop/BV_FE_slice.png width 3000 height
+> 1974 supersample 4
+> view front
+> volume #3 color #8c8dfc80
+> view slice
+> ui tool show "Side View"
+> view name slice
+> undo
+> view name slice
+> ui mousemode right rotate
+> ui mousemode right clip
+> view name slice
+> view matrix
+view matrix camera
+-0.94831,0.019789,-0.31672,-111.3,-0.31734,-0.059575,0.94644,2298.4,-0.00014037,0.99803,0.062776,594.4
+view matrix models
+#1,0.22884,0.97346,2.2675e-07,6.5664,-0.97346,0.22884,5.8736e-07,795.07,5.199e-07,-3.5514e-07,1,179.58,#1.1,1,0,0,0,0,1,0,0,0,0,1,0,#2,1,0.00083921,3.6674e-07,-0.41412,-0.00083921,1,1.9537e-07,0.41458,-3.6657e-07,-1.9568e-07,1,-0.16369,#2.1,1,0,0,0,0,1,0,0,0,0,1,0,#2.2,1,0,0,0,0,1,0,0,0,0,1,0,#2.2.1,1,0,0,0,0,1,0,0,0,0,1,0,#3,1,-0.00067234,5.3385e-06,67.653,0.00067234,1,2.164e-05,67.085,-5.353e-06,-2.1636e-05,1,119.77,#3.1,1,0,0,0,0,1,0,0,0,0,1,0,#3.1.1,1,0,0,0,0,1,0,0,0,0,1,0,#4,-0.077036,0.99703,2.7381e-05,101.45,-0.99703,-0.077036,3.09e-05,951.16,3.2916e-05,-2.4918e-05,1,58.136,#4.1,1,0,0,0,0,1,0,0,0,0,1,0,#5,0.99509,0.098993,-3.3983e-05,62.481,0.098993,-0.99509,3.2042e-05,846.52,-3.0643e-05,-3.5249e-05,-1,939.76,#5.1,1,0,0,0,0,1,0,0,0,0,1,0,#6,0.66683,-0.74518,0.0062522,524.05,-0.74518,-0.66686,-0.0035196,1050.6,0.006792,-0.002312,-0.99997,936.44,#6.1,1,0,0,0,0,1,0,0,0,0,1,0
+> save /Users/ConstantinePetridis/Desktop/BV_FE_slice.png width 3000 height
+> 1974 supersample 4
+> volume #2 color #d2d2d3f4
+> volume #2 color #d2d2d3
+> volume #2 color #d2d2d3f3
+> volume #2 color #d2d2d3
+> save /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs includeMaps true
+> open 8I8B
+i8b title:
+Outer shell and inner layer structures of Autographa californica multiple
+nucleopolyhedrovirus (AcMNPV) [more info...]
+Chain information for 8i8b #7
+---
+Chain | Description | UniProt
+A B C | Viral capsid associated protein | A0A0N7CTI8_9ABAC 1-691
+D | AcOrf-109 peptide | A0A0N7CRZ7_9ABAC 1-390
+E | Early 49 Daa protein | A0A0N7CTL8_9ABAC 1-477
+F G | P40 | A0A0N7CQX9_9ABAC 1-361
+H I | Occlusion-derived virus envelope/capsid protein | A0A0N7CT36_9ABAC 1-290
+J | 38K | A0A0N7CSX4_9ABAC 1-320
+W X Y Z | Major viral capsid protein | A0A0N6WHR0_9ABAC 1-347
+> select add #7
+atoms, 30679 bonds, 10 pseudobonds, 3660 residues, 2 models selected
+> show sel cartoons
+> hide sel surfaces
+> hide sel atoms
+> select subtract #7
+Nothing selected
+> sequence chain #7/A#7/B#7/C
+Alignment identifier is 1
+> hide cartoons
+> show surfaces
+> hide surfaces
+> show #7/A-C
+> show #7/A-C cartoons
+> hide surfaces
+> hide #7/A-C surfaces
+> hide atoms
+> select add #7
+atoms, 30679 bonds, 10 pseudobonds, 3660 residues, 2 models selected
+> ui mousemode right "translate selected models"
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #7,-0.55519,-0.77651,0.29799,690.82,0.76662,-0.3388,0.54544,-241.77,-0.32258,0.53127,0.78339,103.57
+> ui mousemode right "translate selected models"
+> view matrix models
+> #7,-0.55519,-0.77651,0.29799,664.48,0.76662,-0.3388,0.54544,-203.22,-0.32258,0.53127,0.78339,294.77
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #7,0.90677,0.38864,0.16346,-123.03,-0.24069,0.79549,-0.55612,374.79,-0.34616,0.46493,0.81487,306.61
+> view matrix models
+> #7,0.5346,0.83963,0.096021,-35.653,-0.77475,0.53231,-0.34119,571.6,-0.33759,0.10801,0.93508,331.78
+> view matrix models
+> #7,0.57975,0.79531,0.17713,-74.058,-0.81452,0.56002,0.15147,408.62,0.021266,-0.23209,0.97246,238.4
+> ui mousemode right "translate selected models"
+> view matrix models
+> #7,0.57975,0.79531,0.17713,-33.385,-0.81452,0.56002,0.15147,460.61,0.021266,-0.23209,0.97246,248.01
+> view matrix models
+> #7,0.57975,0.79531,0.17713,-53.863,-0.81452,0.56002,0.15147,465.73,0.021266,-0.23209,0.97246,233.23
+> hide #!2 models
+> view matrix models
+> #7,0.57975,0.79531,0.17713,-34.001,-0.81452,0.56002,0.15147,475.16,0.021266,-0.23209,0.97246,227.42
+> view matrix models
+> #7,0.57975,0.79531,0.17713,-42.007,-0.81452,0.56002,0.15147,472.25,0.021266,-0.23209,0.97246,239.31
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #7,0.57983,0.78956,-0.20099,92.537,-0.7095,0.6106,0.35181,348.17,0.4005,-0.061389,0.91424,69.47
+> view matrix models
+> #7,0.91297,0.39972,-0.081914,-9.1552,-0.35383,0.87556,0.32894,156.79,0.2032,-0.27133,0.94079,183.29
+> ui mousemode right zoom
+> ui mousemode right "translate selected models"
+> view matrix models
+> #7,0.91297,0.39972,-0.081914,-18.147,-0.35383,0.87556,0.32894,159.95,0.2032,-0.27133,0.94079,183.5
+> ui tool show "Fit in Map"
+> fitmap #7 inMap #3
+Fit molecule 8i8b (#7) to map J1663_FE (#3) using 30015 atoms
+average map value = 0.2814, steps = 96
+shifted from previous position = 10.8
+rotated from previous position = 16.1 degrees
+atoms outside contour = 8860, contour level = 0.211
+Position of 8i8b (#7) relative to J1663_FE (#3) coordinates:
+Matrix rotation and translation
+.90246535 0.42993054 0.02675881 -121.96814063
+-0.43063237 0.89892384 0.08057105 209.56352313
+.01058582 -0.08423580 0.99638962 74.38816054
+Axis -0.18806028 0.01845492 -0.98198409
+Axis point 396.19186388 393.80100387 0.00000000
+Rotation angle (degrees) 25.98753426
+Shift along axis -46.24314981
+> select clear
+> hide #!3 models
+> select #7/A-C/485
+atoms, 5151 bonds, 2 pseudobonds, 605 residues, 2 models selected
+> select #7/A-C:485
+atoms, 8 bonds, 1 residue, 1 model selected
+> select #7/A-C:480
+atoms, 8 bonds, 1 residue, 1 model selected
+> rainbow sel
+> select add #7
+atoms, 30679 bonds, 10 pseudobonds, 3660 residues, 3 models selected
+> rainbow sel
+> select clear
+> show #!5 models
+> color #5 #8c8dfc70 models
+> color #5 #8c8dfc7e models
+> color #5 #8c8dfc46 models
+> color #5 #8c8dfc58 models
+> show #!2 models
+> hide #!2 models
+> open
+> /Users/ConstantinePetridis/Downloads/fold_2025_01_03_16_08_vp80x1/fold_2025_01_03_16_08_vp80x1_model_0.cif
+Chain information for fold_2025_01_03_16_08_vp80x1_model_0.cif #8
+---
+Chain | Description
+A | .
+> hide #8 models
+> show #8 models
+> hide #8 models
+> show #8 models
+> hide #8 models
+> show #8 models
+> hide #!7 models
+> hide #!5 models
+> show #!5 models
+> show #!7 models
+> select add #8
+atoms, 5698 bonds, 691 residues, 1 model selected
+> ui mousemode right "move picked models"
+> ui mousemode right "translate selected models"
+> view matrix models #8,1,0,0,414.74,0,1,0,29.281,0,0,1,615.06
+> view matrix models #8,1,0,0,376.64,0,1,0,25.149,0,0,1,578.93
+> open
+> /Users/ConstantinePetridis/Downloads/fold_2025_01_03_16_08_vp80x1/fold_2025_01_03_16_08_vp80x1_model_1.cif
+Chain information for fold_2025_01_03_16_08_vp80x1_model_1.cif #9
+---
+Chain | Description
+A | .
+> select add #9
+atoms, 11396 bonds, 1382 residues, 2 models selected
+> select subtract #8
+atoms, 5698 bonds, 691 residues, 1 model selected
+> view matrix models #9,1,0,0,127.72,0,1,0,53.916,0,0,1,531.41
+> view matrix models #9,1,0,0,243.93,0,1,0,-8.1051,0,0,1,567.78
+> hide #9 models
+> select subtract #9
+Nothing selected
+> select add #8
+atoms, 5698 bonds, 691 residues, 1 model selected
+> view matrix models #8,1,0,0,584.9,0,1,0,192.74,0,0,1,569.87
+> view matrix models #8,1,0,0,568.66,0,1,0,323.29,0,0,1,503.74
+> view matrix models #8,1,0,0,437.31,0,1,0,247.49,0,0,1,572.67
+> view matrix models #8,1,0,0,460.65,0,1,0,249.63,0,0,1,580.54
+> ui tool show Matchmaker
+> matchmaker #8/A to #7/C pairing ss
+Parameters
+---
+Chain pairing | ss
+Alignment algorithm | Needleman-Wunsch
+Similarity matrix | BLOSUM-62
+SS fraction | 0.3
+Gap open (HH/SS/other) | 18/18/6
+Gap extend | 1
+SS matrix |  |  | H | S | O
+---|---|---|---
+H | 6 | -9 | -6
+S |  | 6 | -6
+O |  |  | 4
+Iteration cutoff | 2
+Matchmaker 8i8b, chain C (#7) with fold_2025_01_03_16_08_vp80x1_model_0.cif,
+chain A (#8), sequence alignment score = 2774.4
+RMSD between 179 pruned atom pairs is 0.767 angstroms; (across all 229 pairs:
+.472)
+> hide #8 models
+> volume #3 level 0.1697
+> volume #3 level 0.211
+> show #8 models
+> matchmaker #8 to #7/A pairing bs
+Parameters
+---
+Chain pairing | bs
+Alignment algorithm | Needleman-Wunsch
+Similarity matrix | BLOSUM-62
+SS fraction | 0.3
+Gap open (HH/SS/other) | 18/18/6
+Gap extend | 1
+SS matrix |  |  | H | S | O
+---|---|---|---
+H | 6 | -9 | -6
+S |  | 6 | -6
+O |  |  | 4
+Iteration cutoff | 2
+Matchmaker 8i8b, chain A (#7) with fold_2025_01_03_16_08_vp80x1_model_0.cif,
+chain A (#8), sequence alignment score = 2745
+RMSD between 126 pruned atom pairs is 0.835 angstroms; (across all 188 pairs:
+.377)
+> matchmaker #8 to #7/C pairing bs
+Parameters
+---
+Chain pairing | bs
+Alignment algorithm | Needleman-Wunsch
+Similarity matrix | BLOSUM-62
+SS fraction | 0.3
+Gap open (HH/SS/other) | 18/18/6
+Gap extend | 1
+SS matrix |  |  | H | S | O
+---|---|---|---
+H | 6 | -9 | -6
+S |  | 6 | -6
+O |  |  | 4
+Iteration cutoff | 2
+Matchmaker 8i8b, chain C (#7) with fold_2025_01_03_16_08_vp80x1_model_0.cif,
+chain A (#8), sequence alignment score = 2774.4
+RMSD between 179 pruned atom pairs is 0.767 angstroms; (across all 229 pairs:
+.472)
+> matchmaker #9 to #7/C pairing bs
+Parameters
+---
+Chain pairing | bs
+Alignment algorithm | Needleman-Wunsch
+Similarity matrix | BLOSUM-62
+SS fraction | 0.3
+Gap open (HH/SS/other) | 18/18/6
+Gap extend | 1
+SS matrix |  |  | H | S | O
+---|---|---|---
+H | 6 | -9 | -6
+S |  | 6 | -6
+O |  |  | 4
+Iteration cutoff | 2
+Matchmaker 8i8b, chain C (#7) with fold_2025_01_03_16_08_vp80x1_model_1.cif,
+chain A (#9), sequence alignment score = 2787
+RMSD between 180 pruned atom pairs is 0.786 angstroms; (across all 229 pairs:
+.833)
+> show #9 models
+> hide #8 models
+> select subtract #8
+Nothing selected
+> open
+> /Users/ConstantinePetridis/Downloads/fold_2025_01_03_16_08_vp80x1/fold_2025_01_03_16_08_vp80x1_model_2.cif
+Chain information for fold_2025_01_03_16_08_vp80x1_model_2.cif #10
+---
+Chain | Description
+A | .
+> open
+> /Users/ConstantinePetridis/Downloads/fold_2025_01_03_16_08_vp80x1/fold_2025_01_03_16_08_vp80x1_model_3.cif
+Chain information for fold_2025_01_03_16_08_vp80x1_model_3.cif #11
+---
+Chain | Description
+A | .
+> open
+> /Users/ConstantinePetridis/Downloads/fold_2025_01_03_16_08_vp80x1/fold_2025_01_03_16_08_vp80x1_model_4.cif
+Chain information for fold_2025_01_03_16_08_vp80x1_model_4.cif #12
+---
+Chain | Description
+A | .
+> ui tool show Matchmaker
+> matchmaker #8-12 to #7/C pairing bs
+Parameters
+---
+Chain pairing | bs
+Alignment algorithm | Needleman-Wunsch
+Similarity matrix | BLOSUM-62
+SS fraction | 0.3
+Gap open (HH/SS/other) | 18/18/6
+Gap extend | 1
+SS matrix |  |  | H | S | O
+---|---|---|---
+H | 6 | -9 | -6
+S |  | 6 | -6
+O |  |  | 4
+Iteration cutoff | 2
+Matchmaker 8i8b, chain C (#7) with fold_2025_01_03_16_08_vp80x1_model_0.cif,
+chain A (#8), sequence alignment score = 2774.4
+RMSD between 179 pruned atom pairs is 0.767 angstroms; (across all 229 pairs:
+.472)
+Matchmaker 8i8b, chain C (#7) with fold_2025_01_03_16_08_vp80x1_model_1.cif,
+chain A (#9), sequence alignment score = 2787
+RMSD between 180 pruned atom pairs is 0.786 angstroms; (across all 229 pairs:
+.833)
+Matchmaker 8i8b, chain C (#7) with fold_2025_01_03_16_08_vp80x1_model_2.cif,
+chain A (#10), sequence alignment score = 2775
+RMSD between 178 pruned atom pairs is 0.812 angstroms; (across all 229 pairs:
+.873)
+Matchmaker 8i8b, chain C (#7) with fold_2025_01_03_16_08_vp80x1_model_3.cif,
+chain A (#11), sequence alignment score = 2781
+RMSD between 181 pruned atom pairs is 0.820 angstroms; (across all 229 pairs:
+.164)
+Matchmaker 8i8b, chain C (#7) with fold_2025_01_03_16_08_vp80x1_model_4.cif,
+chain A (#12), sequence alignment score = 2775
+RMSD between 179 pruned atom pairs is 0.784 angstroms; (across all 229 pairs:
+.761)
+> hide #9 models
+> hide #10 models
+> hide #11 models
+> hide #12 models
+> show #11 models
+> show #10 models
+> hide #11 models
+> show #9 models
+> hide #9 models
+> show #8 models
+> hide #10 models
+> close #9-12
+> select add #8
+atoms, 5698 bonds, 691 residues, 1 model selected
+> view matrix models
+> #8,-0.33087,0.92677,0.17782,239.4,0.17859,-0.12354,0.97614,420.91,0.92662,0.35474,-0.12464,625.24
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #8,0.96976,0.18739,-0.15635,229.57,-0.1066,0.90154,0.41935,414.16,0.21953,-0.39001,0.89426,642.41
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,0.96976,0.18739,-0.15635,320.18,-0.1066,0.90154,0.41935,268.06,0.21953,-0.39001,0.89426,613.06
+> view matrix models
+> #8,0.96976,0.18739,-0.15635,366.43,-0.1066,0.90154,0.41935,253.63,0.21953,-0.39001,0.89426,618.23
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #8,0.23162,-0.971,0.059244,378.67,0.93761,0.23906,0.25248,246.88,-0.25932,-0.0029305,0.96579,620.94
+> ui mousemode right "move picked models"
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,0.23162,-0.971,0.059244,390.01,0.93761,0.23906,0.25248,355.44,-0.25932,-0.0029305,0.96579,590.38
+> view matrix models
+> #8,0.23162,-0.971,0.059244,431.94,0.93761,0.23906,0.25248,332.25,-0.25932,-0.0029305,0.96579,584.9
+> view matrix models
+> #8,0.23162,-0.971,0.059244,425.8,0.93761,0.23906,0.25248,336.21,-0.25932,-0.0029305,0.96579,585.13
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #8,-0.3126,-0.94721,-0.071286,428.77,0.93721,-0.31977,0.13921,337.52,-0.15465,-0.023295,0.98769,584.59
+> view matrix models
+> #8,-0.27615,-0.92399,-0.26454,426.74,0.90243,-0.34398,0.25941,338.91,-0.33069,-0.16709,0.92883,586.03
+> view matrix models
+> #8,0.24386,-0.89807,-0.36607,421.77,0.92524,0.10232,0.36533,337.82,-0.29064,-0.42779,0.85588,586.16
+> view matrix models
+> #8,0.3086,-0.94876,-0.067985,424.03,0.90394,0.27027,0.33144,337.01,-0.29609,-0.16374,0.94102,585.85
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,0.3086,-0.94876,-0.067985,424.13,0.90394,0.27027,0.33144,335.13,-0.29609,-0.16374,0.94102,591.48
+> view matrix models
+> #8,0.3086,-0.94876,-0.067985,422.75,0.90394,0.27027,0.33144,337.64,-0.29609,-0.16374,0.94102,594.67
+> fitmap #8 inMap #3
+Fit molecule fold_2025_01_03_16_08_vp80x1_model_0.cif (#8) to map J1663_FE
+(#3) using 5609 atoms
+average map value = 0.2021, steps = 276
+shifted from previous position = 37.8
+rotated from previous position = 62.6 degrees
+atoms outside contour = 2697, contour level = 0.211
+Position of fold_2025_01_03_16_08_vp80x1_model_0.cif (#8) relative to J1663_FE
+(#3) coordinates:
+Matrix rotation and translation
+.07597177 -0.98817675 -0.13317281 374.71403761
+.19670877 -0.11608066 0.97356609 277.83676812
+-0.97751417 -0.10015980 0.18556418 443.06936938
+Axis -0.59379417 0.46693945 0.65526790
+Axis point 298.40216197 218.87930806 0.00000000
+Rotation angle (degrees) 115.29458126
+Shift along axis 197.55907340
+> select subtract #8
+Nothing selected
+> hide #!3 models
+> show #!3 models
+> hide #!3 models
+> hide #8 models
+> ui mousemode right clip
+> show #!2 models
+> volume #5 level 0.21
+> hide #!5 models
+> show #!5 models
+> color #5 #00000058 models
+> undo
+> color #5 #a3a7ff58 models
+> color #5 #8c8dfcff models
+> color #5 #c1153cff models
+> volume #5 level 0.1967
+> volume #5 level 0.1901
+> volume #5 level 0.1818
+> volume #2 level 0.2924
+> volume #5 level 0.1801
+> volume #5 color #8c8dfc80
+> show #8 models
+> hide #!5 models
+> hide #8/A:470-691
+> hide #8/A:470-691 cartoons
+> select add #8
+atoms, 5698 bonds, 691 residues, 1 model selected
+> select clear
+> ui mousemode right "translate selected models"
+> select add #8
+atoms, 5698 bonds, 691 residues, 1 model selected
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #8,-0.784,-0.58956,0.19434,449.97,0.5852,-0.80637,-0.085449,335.96,0.20709,0.046738,0.9772,559.89
+> view matrix models
+> #8,-0.7894,0.25957,-0.5563,440.13,-0.31772,-0.94815,0.0084374,344.28,-0.52526,0.1834,0.83094,563.71
+> view matrix models
+> #8,-0.89125,-0.39728,0.21872,450.22,0.45335,-0.79308,0.40682,341.13,0.011841,0.46174,0.88694,558.93
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,-0.89125,-0.39728,0.21872,457.51,0.45335,-0.79308,0.40682,329.37,0.011841,0.46174,0.88694,551.89
+> view matrix models
+> #8,-0.89125,-0.39728,0.21872,455.73,0.45335,-0.79308,0.40682,324,0.011841,0.46174,0.88694,552.62
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #8,-0.87984,-0.43916,0.1817,455.5,0.47518,-0.80567,0.3537,323.43,-0.0089451,0.39754,0.91754,553.31
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,-0.87984,-0.43916,0.1817,453.6,0.47518,-0.80567,0.3537,325.37,-0.0089451,0.39754,0.91754,554.25
+> show #!5 models
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #8,-0.45511,-0.88406,0.10639,451.5,0.83548,-0.38264,0.3944,321.22,-0.30797,0.26838,0.91276,557.03
+> open 8I8B
+i8b title:
+Outer shell and inner layer structures of Autographa californica multiple
+nucleopolyhedrovirus (AcMNPV) [more info...]
+Chain information for 8i8b #9
+---
+Chain | Description | UniProt
+A B C | Viral capsid associated protein | A0A0N7CTI8_9ABAC 1-691
+D | AcOrf-109 peptide | A0A0N7CRZ7_9ABAC 1-390
+E | Early 49 Daa protein | A0A0N7CTL8_9ABAC 1-477
+F G | P40 | A0A0N7CQX9_9ABAC 1-361
+H I | Occlusion-derived virus envelope/capsid protein | A0A0N7CT36_9ABAC 1-290
+J | 38K | A0A0N7CSX4_9ABAC 1-320
+W X Y Z | Major viral capsid protein | A0A0N6WHR0_9ABAC 1-347
+> ui tool show Matchmaker
+> matchmaker #9/A#9/B#9/C to #7/A#7/B#7/C pairing ss
+Parameters
+---
+Chain pairing | ss
+Alignment algorithm | Needleman-Wunsch
+Similarity matrix | BLOSUM-62
+SS fraction | 0.3
+Gap open (HH/SS/other) | 18/18/6
+Gap extend | 1
+SS matrix |  |  | H | S | O
+---|---|---|---
+H | 6 | -9 | -6
+S |  | 6 | -6
+O |  |  | 4
+Iteration cutoff | 2
+Matchmaker 8i8b, chain A (#7) with 8i8b, chain A (#9), sequence alignment
+score = 2761.8
+Matchmaker 8i8b, chain B (#7) with 8i8b, chain B (#9), sequence alignment
+score = 2761.8
+Matchmaker 8i8b, chain C (#7) with 8i8b, chain C (#9), sequence alignment
+score = 2822.4
+RMSD between 605 pruned atom pairs is 0.000 angstroms; (across all 605 pairs:
+.000)
+> hide sel atoms
+> select add #9
+atoms, 36377 bonds, 10 pseudobonds, 4351 residues, 3 models selected
+> hide sel atoms
+> show sel cartoons
+> color #9 #0d1c2cff
+> select subtract #9
+atoms, 5698 bonds, 691 residues, 1 model selected
+> select subtract #8
+Nothing selected
+> select add #8
+atoms, 5698 bonds, 691 residues, 1 model selected
+> select subtract #8
+Nothing selected
+> hide #8 models
+> ui mousemode right clip
+> show #!2 models
+> hide #!2 models
+> color #9 #0d1c2cff
+> color #9 #d2d2d3ff
+> show #8 models
+> select add #8
+atoms, 5698 bonds, 691 residues, 1 model selected
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,-0.45511,-0.88406,0.10639,491.36,0.83548,-0.38264,0.3944,332.76,-0.30797,0.26838,0.91276,581.52
+> open 8VWI
+Summary of feedback from opening 8VWI fetched from pdb
+---
+warnings | Atom H1 is not in the residue template for MET /N:1
+Atom H1 is not in the residue template for MET /i:1
+note | Fetching compressed mmCIF 8vwi from http://files.rcsb.org/download/8vwi.cif
+vwi title:
+The base complex of the AcMNPV baculovirus nucleocapsid (Class 1, localised
+reconstruction) [more info...]
+Chain information for 8vwi #10
+---
+Chain | Description | UniProt
+A B C D E F V W X Y Z a | Major capsid protein | MCP_NPVAC 1-347
+G H I b c d | Capsid-associated protein VP80 | VP80_NPVAC 1-691
+J M Q S e h | Occlusion-derived virus envelope protein E27 | E27_NPVAC 1-290
+K L R T f g | Protein C42 | C42_NPVAC 1-361
+N i | Protein AC109 | AC109_NPVAC 1-390
+O j | Protein AC142 | AC142_NPVAC 1-477
+P k | 38K (AC98) protein in P143-LEF5 intergenic region | 38K_NPVAC 1-320
+Non-standard residues in 8vwi #10
+---
+ZN — zinc ion
+> select add #10
+atoms, 163633 bonds, 77 pseudobonds, 10305 residues, 4 models selected
+> select subtract #8
+atoms, 157935 bonds, 77 pseudobonds, 9614 residues, 3 models selected
+> show sel cartoons
+> hide sel atoms
+> select clear
+> select #10/b:472-668
+atoms, 3323 bonds, 197 residues, 1 model selected
+> select #10/c:477-682
+atoms, 3488 bonds, 206 residues, 1 model selected
+> select #10/d:460-688
+atoms, 3780 bonds, 1 pseudobond, 223 residues, 2 models selected
+> select #10/I:460-688
+atoms, 3777 bonds, 1 pseudobond, 224 residues, 2 models selected
+> select #10/H:473-682
+atoms, 3549 bonds, 210 residues, 1 model selected
+> select #10/G:475-668
+atoms, 3263 bonds, 194 residues, 1 model selected
+> matchmaker #10/G#10/H#10/I to #7/A#7/B#7/C pairing ss
+Parameters
+---
+Chain pairing | ss
+Alignment algorithm | Needleman-Wunsch
+Similarity matrix | BLOSUM-62
+SS fraction | 0.3
+Gap open (HH/SS/other) | 18/18/6
+Gap extend | 1
+SS matrix |  |  | H | S | O
+---|---|---|---
+H | 6 | -9 | -6
+S |  | 6 | -6
+O |  |  | 4
+Iteration cutoff | 2
+Matchmaker 8i8b, chain A (#7) with 8vwi, chain G (#10), sequence alignment
+score = 2652.6
+Matchmaker 8i8b, chain B (#7) with 8vwi, chain H (#10), sequence alignment
+score = 2649.6
+Matchmaker 8i8b, chain C (#7) with 8vwi, chain I (#10), sequence alignment
+score = 2731.8
+RMSD between 311 pruned atom pairs is 1.250 angstroms; (across all 581 pairs:
+.160)
+> select clear
+> hide #!9 models
+> hide #!7 models
+> color #10 #d2d2d3ff
+> hide #8 models
+> rainbow #!10
+> color #10 #dfd9fcff
+> show #8 models
+> select add #8
+atoms, 5698 bonds, 691 residues, 1 model selected
+> view matrix models
+> #8,-0.45511,-0.88406,0.10639,543.02,0.83548,-0.38264,0.3944,283.99,-0.30797,0.26838,0.91276,617.35
+> view matrix models
+> #8,-0.45511,-0.88406,0.10639,444.98,0.83548,-0.38264,0.3944,459.45,-0.30797,0.26838,0.91276,600.64
+> view matrix models
+> #8,-0.45511,-0.88406,0.10639,331.15,0.83548,-0.38264,0.3944,410.32,-0.30797,0.26838,0.91276,602.64
+> ui mousemode right clip
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,-0.45511,-0.88406,0.10639,354.2,0.83548,-0.38264,0.3944,388.46,-0.30797,0.26838,0.91276,579.93
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #8,-0.33008,-0.94352,-0.02851,352.33,0.70873,-0.26766,0.65273,391.17,-0.62349,0.19525,0.75706,581.32
+> view matrix models
+> #8,-0.22548,-0.95818,-0.17623,350.32,0.80248,-0.28523,0.52408,389.43,-0.55243,-0.023249,0.83323,582.32
+> view matrix models
+> #8,-0.3036,-0.95103,-0.058011,351.91,0.88451,-0.30396,0.35391,387.42,-0.35421,0.056136,0.93348,581.33
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,-0.3036,-0.95103,-0.058011,359.35,0.88451,-0.30396,0.35391,385.58,-0.35421,0.056136,0.93348,586.37
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #8,-0.32482,-0.9245,0.19946,361.6,0.9278,-0.27055,0.25688,384.28,-0.18352,0.2685,0.94564,584.3
+> view matrix models
+> #8,-0.27759,-0.95214,0.12796,360.74,0.94212,-0.24373,0.23025,383.83,-0.18804,0.18446,0.96468,584.84
+> view matrix models
+> #8,-0.052316,-0.98479,0.16568,359.47,0.9806,-0.019274,0.19508,382.32,-0.18892,0.17267,0.96669,584.91
+> volume #5 level 0.05217
+> ui mousemode right clip
+> volume #5 level 0.1153
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,-0.052316,-0.98479,0.16568,434.57,0.9806,-0.019274,0.19508,331.79,-0.18892,0.17267,0.96669,566.71
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #8,0.3051,-0.91518,-0.26338,427.88,0.85205,0.1388,0.50472,334.78,-0.42535,-0.3784,0.82213,569.54
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,0.3051,-0.91518,-0.26338,429.63,0.85205,0.1388,0.50472,338.7,-0.42535,-0.3784,0.82213,590.77
+> view matrix models
+> #8,0.3051,-0.91518,-0.26338,427.92,0.85205,0.1388,0.50472,341.73,-0.42535,-0.3784,0.82213,595.28
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #8,0.41522,-0.90379,-0.10372,428.39,0.74173,0.27033,0.6138,342.97,-0.52671,-0.33179,0.78262,595.53
+> view matrix models
+> #8,0.41891,-0.90352,-0.090411,428.48,0.73123,0.27664,0.62352,343.11,-0.53835,-0.32731,0.77656,595.55
+> view matrix models
+> #8,0.35537,-0.93028,-0.091064,429.07,0.73966,0.22031,0.6359,343.38,-0.5715,-0.29334,0.76638,595.58
+> view matrix models
+> #8,0.47009,-0.86177,-0.1907,427.06,0.77137,0.29613,0.56329,342.21,-0.42895,-0.4119,0.80395,595.29
+> view matrix models
+> #8,0.42451,-0.88862,-0.17364,427.66,0.77195,0.25499,0.5823,342.53,-0.47317,-0.38123,0.79421,595.42
+> view matrix models
+> #8,0.4645,-0.88458,0.041929,429.18,0.73537,0.41167,0.5383,341.8,-0.49342,-0.21921,0.84171,595.32
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,0.4645,-0.88458,0.041929,426.69,0.73537,0.41167,0.5383,340.14,-0.49342,-0.21921,0.84171,595.5
+> volume #5 level 0.03555
+> volume #5 level 0.018
+> volume #5 level 0.18
+> hide #10/Q
+> hide #10/Q cartoons
+> hide #10/R cartoons
+> hide #10/S cartoons
+> hide #10/T cartoons
+> show #!7 models
+> select subtract #8
+Nothing selected
+> hide #8 models
+> save /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs includeMaps true
+> graphics silhouettes width 2.3
+> cartoon style protein modeHelix tube radius 1.9 sides 24
+> hide #!10 models
+> show #!10 models
+> hide #!10 models
+> show #!10 models
+> hide #!5 models
+> select add #10
+atoms, 157935 bonds, 77 pseudobonds, 9614 residues, 3 models selected
+> rainbow sel
+> select subtract #10
+Nothing selected
+> show #!5 models
+> close #7
+> close #9
+> fitmap #10 inMap #5
+Fit molecule 8vwi (#10) to map J1770_FE (#5) using 156266 atoms
+average map value = 0.1952, steps = 68
+shifted from previous position = 1.47
+rotated from previous position = 0.601 degrees
+atoms outside contour = 69289, contour level = 0.18
+Position of 8vwi (#10) relative to J1770_FE (#5) coordinates:
+Matrix rotation and translation
+-0.95114419 0.30851336 0.01201014 507.01050285
+.30844994 0.95121582 -0.00686308 171.49398090
+-0.01354159 -0.00282325 -0.99990432 663.94584373
+Axis 0.15616368 0.98772815 -0.00245184
+Axis point 242.12403205 0.00000000 330.65209235
+Rotation angle (degrees) 179.25888171
+Shift along axis 246.93816886
+> graphics silhouettes width 2
+> cartoon style protein modeHelix tube radius 1.9 sides 24
+> graphics silhouettes width 1.8
+> cartoon style protein modeHelix tube radius 1.9 sides 24
+> graphics silhouettes width 2
+> cartoon style protein modeHelix tube radius 1.9 sides 24
+> rainbow #!10
+> color #10 #dfd9fcff
+> color #10 #d2d2d3ff
+> rainbow #10/G-I
+> rainbow #10/G-I, a-c
+> color #10 #d2d2d3ff
+> rainbow #10/G-I, b-d
+> show #8 models
+> select add #8
+atoms, 5698 bonds, 691 residues, 1 model selected
+> save /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs includeMaps true
+> combine #8
+> select subtract #8
+Nothing selected
+> hide #8 models
+> show #8 models
+> hide #8 models
+> select #7/A:470
+atoms, 10 bonds, 1 residue, 1 model selected
+> select #7/A:400-500
+atoms, 832 bonds, 101 residues, 1 model selected
+> select ~sel & ##selected
+atoms, 4866 bonds, 590 residues, 1 model selected
+> hide sel cartoons
+> hide #7 models
+> show #8 models
+> select add #7
+atoms, 5698 bonds, 691 residues, 1 model selected
+> select subtract #7
+Nothing selected
+> hide #8 models
+> combine #10
+> select add #9
+atoms, 157935 bonds, 77 pseudobonds, 9614 residues, 3 models selected
+> view matrix models
+> #9,-0.91594,0.40116,0.011306,759.79,-0.40109,-0.916,0.0079862,699.55,0.01356,0.0027803,0.9999,284.09
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #9,-0.023922,0.9961,-0.084868,336.7,-0.99927,-0.021291,0.031773,633.54,0.029842,0.085566,0.99589,256.92
+> ui mousemode right "translate selected models"
+> view matrix models
+> #9,-0.023922,0.9961,-0.084868,318.59,-0.99927,-0.021291,0.031773,660.89,0.029842,0.085566,0.99589,247.99
+> fitmap #9 inMap #5
+Fit molecule copy of 8vwi (#9) to map J1770_FE (#5) using 156266 atoms
+average map value = 0.1949, steps = 156
+shifted from previous position = 14.3
+rotated from previous position = 14.5 degrees
+atoms outside contour = 69434, contour level = 0.18
+Position of copy of 8vwi (#9) relative to J1770_FE (#5) coordinates:
+Matrix rotation and translation
+-0.35161523 0.93614178 0.00230234 290.34008114
+.93604499 0.35161263 -0.01372346 166.93593417
+-0.01365663 -0.00267028 -0.99990318 663.93776430
+Axis 0.56936499 0.82206973 -0.00498571
+Axis point 89.32448801 0.00000000 332.12096287
+Rotation angle (degrees) 179.44384500
+Shift along axis 299.23225730
+> fitmap #9 inMap #5
+Fit molecule copy of 8vwi (#9) to map J1770_FE (#5) using 156266 atoms
+average map value = 0.1949, steps = 64
+shifted from previous position = 0.0435
+rotated from previous position = 0.0124 degrees
+atoms outside contour = 69469, contour level = 0.18
+Position of copy of 8vwi (#9) relative to J1770_FE (#5) coordinates:
+Matrix rotation and translation
+-0.35151369 0.93617997 0.00227930 290.29988511
+.93608576 0.35151128 -0.01353766 166.88646018
+-0.01347489 -0.00262505 -0.99990577 663.90706851
+Axis 0.56940993 0.82203903 -0.00491563
+Axis point 89.28958893 0.00000000 332.10303069
+Rotation angle (degrees) 179.45096154
+Shift along axis 299.22329777
+> fitmap #10 inMap #5
+Fit molecule 8vwi (#10) to map J1770_FE (#5) using 156266 atoms
+average map value = 0.1952, steps = 36
+shifted from previous position = 0.00764
+rotated from previous position = 0.00785 degrees
+atoms outside contour = 69303, contour level = 0.18
+Position of 8vwi (#10) relative to J1770_FE (#5) coordinates:
+Matrix rotation and translation
+-0.95113781 0.30853057 0.01207278 506.99277074
+.30846860 0.95121063 -0.00674289 171.46073760
+-0.01356415 -0.00268934 -0.99990439 663.91009296
+Axis 0.15617301 0.98772683 -0.00238753
+Axis point 242.12405813 0.00000000 330.62354681
+Rotation angle (degrees) 179.25640919
+Shift along axis 246.94985558
+> select subtract #9
+Nothing selected
+> color #5 #8c8dfcb8 models
+> color #5 #8c8dfc8e models
+> color #5 #8c8dfc97 models
+> color #5 #8c8dfc8b models
+> color #5 #8c8dfc8c models
+> volume #5 level 0.185
+> fitmap #10 inMap #5
+Fit molecule 8vwi (#10) to map J1770_FE (#5) using 156266 atoms
+average map value = 0.1952, steps = 40
+shifted from previous position = 0.0422
+rotated from previous position = 0.0145 degrees
+atoms outside contour = 71358, contour level = 0.185
+Position of 8vwi (#10) relative to J1770_FE (#5) coordinates:
+Matrix rotation and translation
+-0.95109418 0.30866693 0.01202463 506.97708424
+.30860782 0.95116688 -0.00654130 171.36935100
+-0.01345651 -0.00251050 -0.99990631 663.86047366
+Axis 0.15624444 0.98771576 -0.00229126
+Axis point 242.10363491 0.00000000 330.59970629
+Rotation angle (degrees) 179.26091982
+Shift along axis 246.95548428
+> fitmap #9 inMap #5
+Fit molecule copy of 8vwi (#9) to map J1770_FE (#5) using 156266 atoms
+average map value = 0.1949, steps = 60
+shifted from previous position = 0.0357
+rotated from previous position = 0.0123 degrees
+atoms outside contour = 71528, contour level = 0.185
+Position of copy of 8vwi (#9) relative to J1770_FE (#5) coordinates:
+Matrix rotation and translation
+-0.35160420 0.93614601 0.00226718 290.34012686
+.93604924 0.35160111 -0.01372904 166.93723607
+-0.01364953 -0.00270499 -0.99990318 663.95299970
+Axis 0.56936991 0.82206625 -0.00499799
+Axis point 89.31818671 0.00000000 332.13076163
+Rotation angle (degrees) 179.44531541
+Shift along axis 299.22597294
+> show #7 models
+> hide #7 models
+> show #8 models
+> select add #8
+atoms, 5698 bonds, 691 residues, 1 model selected
+> view matrix models
+> #8,0.4645,-0.88458,0.041929,254.05,0.73537,0.41167,0.5383,383.08,-0.49342,-0.21921,0.84171,578.19
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #8,0.90788,0.068724,0.41356,249.76,0.28545,-0.82382,-0.48973,382.97,0.30704,0.56267,-0.76755,554.8
+> view matrix models
+> #8,0.11967,-0.97019,0.21075,258.62,-0.64511,-0.23734,-0.7263,386.07,0.75466,-0.049041,-0.65428,554.64
+> ui mousemode right "translate selected models"
+> view matrix models
+> #8,0.11967,-0.97019,0.21075,314.75,-0.64511,-0.23734,-0.7263,312.16,0.75466,-0.049041,-0.65428,576.83
+> view matrix models
+> #8,0.11967,-0.97019,0.21075,357.49,-0.64511,-0.23734,-0.7263,326.61,0.75466,-0.049041,-0.65428,592.4
+> open
+> /Users/ConstantinePetridis/Desktop/fold_2025_01_03_17_19/fold_2025_01_03_17_19_model_0.cif
+Chain information for fold_2025_01_03_17_19_model_0.cif #11
+---
+Chain | Description
+A | .
+> open
+> /Users/ConstantinePetridis/Desktop/fold_2025_01_03_17_19/fold_2025_01_03_17_19_model_1.cif
+Chain information for fold_2025_01_03_17_19_model_1.cif #12
+---
+Chain | Description
+A | .
+> open
+> /Users/ConstantinePetridis/Desktop/fold_2025_01_03_17_19/fold_2025_01_03_17_19_model_2.cif
+Chain information for fold_2025_01_03_17_19_model_2.cif #13
+---
+Chain | Description
+A | .
+> open
+> /Users/ConstantinePetridis/Desktop/fold_2025_01_03_17_19/fold_2025_01_03_17_19_model_3.cif
+Chain information for fold_2025_01_03_17_19_model_3.cif #14
+---
+Chain | Description
+A | .
+> open
+> /Users/ConstantinePetridis/Desktop/fold_2025_01_03_17_19/fold_2025_01_03_17_19_model_4.cif
+Chain information for fold_2025_01_03_17_19_model_4.cif #15
+---
+Chain | Description
+A | .
+> select subtract #8
+Nothing selected
+> hide #11 models
+> hide #12 models
+> hide #13 models
+> hide #14 models
+> show #14 models
+> hide #15 models
+> show #13 models
+> show #12 models
+> show #15 models
+> hide #14 models
+> hide #13 models
+> hide #12 models
+> show #11 models
+> hide #11 models
+> show #14 models
+> hide #15 models
+> show #7 models
+> hide #7 models
+> show #7 models
+> select add #7
+atoms, 5698 bonds, 691 residues, 1 model selected
+> view matrix models
+> #7,0.4645,-0.88458,0.041929,265,0.73537,0.41167,0.5383,318.93,-0.49342,-0.21921,0.84171,-42.397
+> select clear
+> hide #!5 models
+> show #!5 models
+> select add #7
+atoms, 5698 bonds, 691 residues, 1 model selected
+> select subtract #7
+Nothing selected
+> select add #9
+atoms, 157935 bonds, 77 pseudobonds, 9614 residues, 3 models selected
+> select add #8
+atoms, 163633 bonds, 77 pseudobonds, 10305 residues, 4 models selected
+> select subtract #9
+atoms, 5698 bonds, 691 residues, 1 model selected
+> view matrix models
+> #8,0.11967,-0.97019,0.21075,416.93,-0.64511,-0.23734,-0.7263,158.71,0.75466,-0.049041,-0.65428,598.5
+> color #5 #d2d2d3ff models
+> color #5 #d2d2d3ad models
+> color #5 #8c8dfcff models
+> color #5 #8c8dfcad models
+> color #5 #8c8dfc93 models
+> color #5 #8c8dfc8d models
+> color #5 #8c8dfc54 models
+> color #5 #8c8dfc65 models
+> color #5 #8c8dfc72 models
+===== Log before crash end =====
+Log:
+UCSF ChimeraX version: 1.8 (2024-06-10)
+© 2016-2024 Regents of the University of California. All rights reserved.
+> open /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs
+Opened emdb35243_ODV as #1, grid size 600,600,600, pixel 1.35, shown at level
+.37, step 1, values float32
+Opened emdb43590_BV as #2, grid size 700,700,700, pixel 1.41, shown at level
+.292, step 1, values float32
+Opened J1663_FE as #3, grid size 360,360,360, pixel 2.37, shown at level
+.211, step 1, values float32
+Opened J1671_PE z flip as #4, grid size 360,360,360, pixel 2.37, shown at
+level 0.268, step 1, values float32
+Opened J1770_FE as #5, grid size 360,360,360, pixel 2.19, shown at level 0.18,
+step 1, values float32
+Opened cryosparc_P23_J1772_map_locres.mrc as #6, grid size 360,360,360, pixel
+.19, shown at level 7.51, step 2, values float32
+Log from Fri Jan 3 17:12:52 2025UCSF ChimeraX version: 1.8 (2024-06-10)
+© 2016-2024 Regents of the University of California. All rights reserved.
+> open /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs
+Opened emdb35243_ODV as #1, grid size 600,600,600, pixel 1.35, shown at level
+.32, step 1, values float32
+Opened emdb43590_BV as #2, grid size 700,700,700, pixel 1.41, shown at level
+.203, step 1, values float32
+Opened J1663_FE as #3, grid size 360,360,360, pixel 2.37, shown at level
+.255, step 1, values float32
+Opened J1671_PE z flip as #4, grid size 360,360,360, pixel 2.37, shown at
+level 0.0763, step 1, values float32
+Opened J1770_FE as #5, grid size 360,360,360, pixel 2.19, shown at level
+.214, step 1, values float32
+Log from Tue Dec 24 23:20:40 2024UCSF ChimeraX version: 1.8 (2024-06-10)
+© 2016-2024 Regents of the University of California. All rights reserved.
+> open /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs
+Opened emdb35243_ODV as #1, grid size 600,600,600, pixel 1.35, shown at level
+.284, step 1, values float32
+Opened emdb43590_BV as #2, grid size 700,700,700, pixel 1.41, shown at level
+.159, step 1, values float32
+Opened J1663_FE as #4, grid size 360,360,360, pixel 2.37, shown at level
+.0733, step 1, values float32
+Opened J1671_PE z flip as #5, grid size 360,360,360, pixel 2.37, shown at
+level 0.0913, step 1, values float32
+Opened J1748_FE as #3, grid size 588,588,588, pixel 1.34, shown at level
+.0321, step 1, values float32
+Log from Tue Dec 24 17:47:32 2024UCSF ChimeraX version: 1.8 (2024-06-10)
+© 2016-2024 Regents of the University of California. All rights reserved.
+> open /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs
+Opened emdb35243_ODV as #1, grid size 600,600,600, pixel 1.35, shown at level
+.284, step 1, values float32
+Opened emdb43590_BV as #2, grid size 700,700,700, pixel 1.41, shown at level
+.0696, step 1, values float32
+Opened J1663_FE as #4, grid size 360,360,360, pixel 2.37, shown at level
+.0908, step 1, values float32
+Opened J1671_PE z flip as #5, grid size 360,360,360, pixel 2.37, shown at
+level 0.0913, step 1, values float32
+Log from Tue Dec 24 14:48:02 2024UCSF ChimeraX version: 1.8 (2024-06-10)
+© 2016-2024 Regents of the University of California. All rights reserved.
+> open /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs
+Opened emdb35243_ODV as #1, grid size 600,600,600, pixel 1.35, shown at level
+.229, step 1, values float32
+Opened emdb43590_BV as #2, grid size 700,700,700, pixel 1.41, shown at level
+.167, step 1, values float32
+Opened J1663_FE as #4, grid size 360,360,360, pixel 2.37, shown at level
+.254, step 1, values float32
+Opened J1671_PE z flip as #5, grid size 360,360,360, pixel 2.37, shown at
+level 0.109, step 1, values float32
+Log from Tue Dec 24 14:33:25 2024 Startup Messages
+---
+note | available bundle cache has not been initialized yet
+UCSF ChimeraX version: 1.8 (2024-06-10)
+© 2016-2024 Regents of the University of California. All rights reserved.
+How to cite UCSF ChimeraX
+> open
+> /Users/ConstantinePetridis/Downloads/cryosparc_P32_J53_002_volume_map.mrc
+Opened cryosparc_P32_J53_002_volume_map.mrc as #1, grid size 720,720,720,
+pixel 1.06, shown at step 1, values float32
+> volume #1 region 0,0,0,719,719,719 step 4
+[Repeated 1 time(s)]
+> volume #1 step 1
+> volume #1 change image level -0.02425,0 level 0.1837,0.8 level 0.3523,1
+> volume #1 level 0.151
+Drag select of 1 cryosparc_P32_J53_002_volume_map.mrc
+> select clear
+> open
+> /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1668_003_volume_map.mrc
+Opened cryosparc_P23_J1668_003_volume_map.mrc as #2, grid size 360,360,360,
+pixel 2.37, shown at level 0.334, step 2, values float32
+> hide #!1 models
+> volume #2 step 1
+> volume #2 level 0.2509
+> ui mousemode right clip
+> ui mousemode right translate
+> volume #2 level 0.2417
+> volume #2 level 0.2094
+> volume #2 level 0.2532
+> open emdb:43590\
+Fetching url
+ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-43590\/map/emd_43590\\.map.gz
+failed:
+<urlopen error 550 Failed to change directory.>
+> open emdb:43590
+Summary of feedback from opening 43590 fetched from emdb
+---
+notes | Fetching compressed map 43590 from ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-43590/map/emd_43590.map.gz
+Fetching map header 43590 from
+ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-43590/header/emd-43590.xml
+Opened emdb 43590 as #3, grid size 700,700,700, pixel 1.41, shown at step 1,
+values float32
+> volume #3 region 0,0,0,699,699,699 step 4
+[Repeated 1 time(s)]
+> volume #3 step 1
+> volume #3 change image level -0.05584,0 level 0.4551,0.8 level 0.773,1
+> hide #!3 models
+> show #!3 models
+> hide #!2 models
+> ui mousemode right clip
+> ui mousemode right translate
+> open emdb:43591
+Summary of feedback from opening 43591 fetched from emdb
+---
+notes | Fetching compressed map 43591 from ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-43591/map/emd_43591.map.gz
+Fetching map header 43591 from
+ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-43591/header/emd-43591.xml
+Opened emdb 43591 as #4, grid size 384,384,384, pixel 1.41, shown at level
+.225, step 2, values float32
+> close #4
+> close #1
+The cached device pixel ratio value was stale on window expose. Please file a
+QTBUG which explains how to reproduce.
+> open emdb:35243
+Opened emdb 35243 as #1, grid size 600,600,600, pixel 1.35, shown at level
+.35, step 4, values float32
+> close #2
+> rename #1 emdb35243_ODV
+> rename #3 emdb43590 id #2
+> rename #2 emdb43590_BV
+> open
+> /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1671_004_volume_map.mrc
+Opened cryosparc_P23_J1671_004_volume_map.mrc as #3, grid size 360,360,360,
+pixel 2.37, shown at level 0.355, step 2, values float32
+> open
+> /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1663_003_volume_map.mrc
+Opened cryosparc_P23_J1663_003_volume_map.mrc as #4, grid size 360,360,360,
+pixel 2.37, shown at level 0.302, step 2, values float32
+> hide #!4 models
+> hide #!3 models
+> rename #3 J1671_PE
+> rename #4 J1663_FE
+> ui tool show "Fit in Map"
+The cached device pixel ratio value was stale on window expose. Please file a
+QTBUG which explains how to reproduce.
+> fitmap #1 inMap #2
+Fit map emdb35243_ODV in map emdb43590_BV using 42321 points
+correlation = 0.6504, correlation about mean = 0.07068, overlap = 3677
+steps = 840, shift = 215, angle = 14.7 degrees
+Position of emdb35243_ODV (#1) relative to emdb43590_BV (#2) coordinates:
+Matrix rotation and translation
+.97285467 0.11356563 -0.20163492 106.14728499
+-0.13398831 0.98682657 -0.09066670 173.53911084
+.18868208 0.11522224 0.97525530 66.06041994
+Axis 0.40690739 -0.77140072 -0.48925178
+Axis point 69.18299426 0.00000000 765.33059572
+Rotation angle (degrees) 14.65465662
+Shift along axis -122.99625756
+> fitmap #1 inMap #2
+Fit map emdb35243_ODV in map emdb43590_BV using 42321 points
+correlation = 0.6504, correlation about mean = 0.07071, overlap = 3677
+steps = 104, shift = 0.0146, angle = 0.00468 degrees
+Position of emdb35243_ODV (#1) relative to emdb43590_BV (#2) coordinates:
+Matrix rotation and translation
+.97283638 0.11360386 -0.20170163 106.14959138
+-0.13402943 0.98682367 -0.09063750 173.53917511
+.18874717 0.11520941 0.97524422 66.03781833
+Axis 0.40672513 -0.77147305 -0.48928928
+Axis point 69.36205442 0.00000000 764.99261400
+Rotation angle (degrees) 14.65831075
+Shift along axis -123.01868679
+> fitmap #1 inMap #2
+Fit map emdb35243_ODV in map emdb43590_BV using 42321 points
+correlation = 0.6504, correlation about mean = 0.07066, overlap = 3677
+steps = 60, shift = 0.0202, angle = 0.00485 degrees
+Position of emdb35243_ODV (#1) relative to emdb43590_BV (#2) coordinates:
+Matrix rotation and translation
+.97285464 0.11356683 -0.20163440 106.14869030
+-0.13397976 0.98683234 -0.09061650 173.52336845
+.18868832 0.11517161 0.97526008 66.07751356
+Axis 0.40674044 -0.77147333 -0.48927612
+Axis point 69.15375523 0.00000000 765.29725022
+Rotation angle (degrees) 14.65346616
+Shift along axis -123.02383462
+> select add #2
+models selected
+> select add #1
+models selected
+> select subtract #2
+models selected
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #1,0.17627,0.98434,-0.00073339,8.4342,-0.98191,0.17589,0.070127,791.23,0.069158,-0.011641,0.99754,158.34
+> fitmap #1 inMap #2
+Fit map emdb35243_ODV in map emdb43590_BV using 42321 points
+correlation = 0.8508, correlation about mean = 0.2973, overlap = 5847
+steps = 124, shift = 16.6, angle = 5.06 degrees
+Position of emdb35243_ODV (#1) relative to emdb43590_BV (#2) coordinates:
+Matrix rotation and translation
+.22884137 0.97346373 0.00000023 6.56644567
+-0.97346373 0.22884137 0.00000059 795.07225194
+.00000052 -0.00000036 1.00000000 179.58410153
+Axis -0.00000048 -0.00000015 -1.00000000
+Axis point 505.10857801 393.39162659 0.00000000
+Rotation angle (degrees) 76.77113185
+Shift along axis -179.58422442
+The cached device pixel ratio value was stale on window expose. Please file a
+QTBUG which explains how to reproduce.
+> volume #1 step 1
+> ui mousemode right rotate
+> ui mousemode right translate
+> select subtract #1
+Nothing selected
+> volume #3 level 0.2279
+> select add #3
+models selected
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #3,-0.62102,0.77799,-0.095165,399.88,0.76736,0.62824,0.12834,-223.39,0.15964,0.0066773,-0.98715,777.94
+> ui mousemode right "translate selected models"
+Drag select of 1 emdb35243_ODV , 2 emdb43590_BV , 3 J1671_PE
+> select clear
+> select subtract #3
+Nothing selected
+> select add #3
+models selected
+> view matrix models
+> #3,-0.62102,0.77799,-0.095165,386.59,0.76736,0.62824,0.12834,-139.06,0.15964,0.0066773,-0.98715,840.43
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #3,-0.59828,0.78575,0.15701,265.87,0.79956,0.59829,0.052522,-107.63,-0.05267,0.15696,-0.9862,866.45
+> ui mousemode right "translate selected models"
+> view matrix models
+> #3,-0.59828,0.78575,0.15701,346.36,0.79956,0.59829,0.052522,-134.36,-0.05267,0.15696,-0.9862,880.56
+> view matrix models
+> #3,-0.59828,0.78575,0.15701,-3.4192,0.79956,0.59829,0.052522,-21.834,-0.05267,0.15696,-0.9862,804.23
+> vflip #3
+Unknown command: vflip #3
+> volume flip #3
+Opened J1671_PE z flip as #5, grid size 360,360,360, pixel 2.37, shown at step
+, values float32
+> close #3
+> ui mousemode right "rotate selected models"
+> select add #5
+models selected
+> view matrix models
+> #5,-0.98925,0.0012409,-0.14622,625.6,0.060453,-0.90704,-0.41668,1132.8,-0.13315,-0.42104,0.89722,289.05
+> ui mousemode right "translate selected models"
+> view matrix models
+> #5,-0.98925,0.0012409,-0.14622,983.74,0.060453,-0.90704,-0.41668,1047,-0.13315,-0.42104,0.89722,347.49
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #5,-0.9746,0.21646,-0.05741,848.26,-0.17632,-0.89974,-0.39923,1137.4,-0.13807,-0.37897,0.91505,324.12
+> view matrix models
+> #5,0.015509,0.99968,0.019979,59.911,-0.99511,0.013483,0.097818,887.14,0.097517,-0.021399,0.995,37.586
+The cached device pixel ratio value was stale on window expose. Please file a
+QTBUG which explains how to reproduce.
+> fitmap #5 inMap #1
+Fit map J1671_PE z flip in map emdb35243_ODV using 1058456 points
+correlation = 0.7675, correlation about mean = 0.06833, overlap = 1.003e+05
+steps = 264, shift = 16.4, angle = 7.76 degrees
+Position of J1671_PE z flip (#5) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.95303348 0.30286496 0.00002327 -130.17331272
+-0.30286496 0.95303348 0.00003703 127.93398000
+-0.00001097 -0.00004234 1.00000000 -121.40095851
+Axis -0.00013103 0.00005653 -0.99999999
+Axis point 347.39215679 483.62545297 0.00000000
+Rotation angle (degrees) 17.62976098
+Shift along axis 121.42524514
+> view matrix models
+> #5,0.30902,0.29306,0.90478,-145.34,-0.83128,-0.37894,0.40666,837.38,0.46203,-0.87779,0.12651,604.39
+> undo
+> select add #5
+models selected
+> select subtract #5
+Nothing selected
+> ui mousemode right rotate
+> ui mousemode right translate
+> show #!4 models
+> select add #4
+models selected
+> ui mousemode right "translate selected models"
+> view matrix models #4,1,0,0,344.93,0,1,0,0.63352,0,0,1,128.18
+> volume #4 level 0.2379
+> view matrix models #4,1,0,0,81.692,0,1,0,-19.877,0,0,1,125.49
+> view matrix models #4,1,0,0,83.558,0,1,0,70.413,0,0,1,133.11
+> view matrix models #4,1,0,0,70.873,0,1,0,70.205,0,0,1,133.5
+> fitmap #4 inMap #1
+Fit map J1663_FE in map emdb35243_ODV using 99734 points
+correlation = 0.83, correlation about mean = 0.228, overlap = 9730
+steps = 88, shift = 14.2, angle = 0.0496 degrees
+Position of J1663_FE (#4) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.22800509 -0.97365994 -0.00000874 722.74511445
+.97365994 0.22800508 0.00010883 -107.11178091
+-0.00010397 -0.00003333 0.99999999 -59.46670416
+Axis -0.00007300 0.00004890 1.00000000
+Axis point 428.91462448 402.21523340 0.00000000
+Rotation angle (degrees) 76.82034903
+Shift along axis -59.52470265
+> ui mousemode right zoom
+> ui mousemode right rotate
+> select subtract #4
+Nothing selected
+> ui mousemode right translate
+> volume #2 level 0.2977
+> volume #1 level 0.3465
+> volume #4 level 0.2335
+The cached device pixel ratio value was stale on window expose. Please file a
+QTBUG which explains how to reproduce.
+> volume #4 step 1
+> fitmap #4 inMap #1
+Fit map J1663_FE in map emdb35243_ODV using 827535 points
+correlation = 0.8296, correlation about mean = 0.234, overlap = 7.948e+04
+steps = 44, shift = 0.055, angle = 0.0137 degrees
+Position of J1663_FE (#4) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.22793154 -0.97367716 0.00001878 722.76413763
+.97367715 0.22793154 -0.00011550 -106.96571476
+.00010818 0.00004462 0.99999999 -59.55985998
+Axis 0.00008222 -0.00004590 1.00000000
+Axis point 428.83496900 402.26790985 0.00000000
+Rotation angle (degrees) 76.82467682
+Shift along axis -59.49552349
+> fitmap #2 inMap #1
+Fit map emdb43590_BV in map emdb35243_ODV using 3024743 points
+correlation = 0.7983, correlation about mean = 0.1452, overlap = 3.651e+05
+steps = 44, shift = 0.128, angle = 0.0297 degrees
+Position of emdb43590_BV (#2) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.22934616 -0.97334492 0.00000038 772.16317142
+.97334492 0.22934616 -0.00000003 -188.52800554
+-0.00000006 0.00000038 1.00000000 -179.71258188
+Axis 0.00000021 0.00000022 1.00000000
+Axis point 505.13813030 393.36165391 0.00000000
+Rotation angle (degrees) 76.74141952
+Shift along axis -179.71246293
+> fitmap #4 inMap #1
+Fit map J1663_FE in map emdb35243_ODV using 827535 points
+correlation = 0.8296, correlation about mean = 0.234, overlap = 7.948e+04
+steps = 36, shift = 0.0126, angle = 0.00531 degrees
+Position of J1663_FE (#4) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.22793225 -0.97367699 -0.00000066 722.77597776
+.97367699 0.22793225 -0.00002493 -107.00856619
+.00002443 0.00000504 1.00000000 -59.50745513
+Axis 0.00001539 -0.00001288 1.00000000
+Axis point 428.86473096 402.25276864 0.00000000
+Rotation angle (degrees) 76.82463471
+Shift along axis -59.49495194
+> fitmap #5 inMap #1
+Fit map J1671_PE z flip in map emdb35243_ODV using 1058456 points
+correlation = 0.7675, correlation about mean = 0.06833, overlap = 1.003e+05
+steps = 96, shift = 0.0142, angle = 0.00165 degrees
+Position of J1671_PE z flip (#5) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.95302877 0.30287977 0.00000058 -130.16785956
+-0.30287977 0.95302877 0.00002874 127.93693847
+.00000815 -0.00002757 1.00000000 -121.42680505
+Axis -0.00009296 -0.00001250 -1.00000000
+Axis point 347.40797876 483.60691161 0.00000000
+Rotation angle (degrees) 17.63065109
+Shift along axis 121.43730542
+> hide #!4 models
+> show #!4 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> ui mousemode right clip
+> volume #2 color white
+> volume #2 color #ff9300
+> volume #2 color #942192
+> volume #1 color #ff40ff
+> volume #1 color white
+> volume #2 color white
+> ui mousemode right translate
+> volume #2 level 0.1926
+> volume #1 level 0.2772
+> volume #2 level 0.2234
+> volume #2 level 0.29
+> volume #1 level 0.3743
+> volume #2 level 0.3284
+> volume #5 color #ff2600
+> volume #5 color #00fdff
+> volume #5 color #7a81ff
+> hide #!1 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> volume #5 level 0.2478
+> volume #1 level 0.3951
+> volume #4 level 0.2535
+> hide #!2 models
+> show #!2 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> show #!1 models
+> hide #!2 models
+> set bgColor white
+> graphics silhouettes true
+> lighting depthCue false
+> lighting soft
+> graphics bgColor white
+> graphics silhouettes width 2.3
+> volume #1 level 0.2287
+> show #!2 models
+> hide #!1 models
+> volume #2 level 0.1747
+> volume #2 level 0.2541
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> volume #5 level 0.1086
+> volume #2 level 0.167
+> save /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs includeMaps true
+——— End of log from Tue Dec 24 14:33:25 2024 ———
+opened ChimeraX session
+> hide #!5 models
+> color #2 #fffb00ff models
+> hide #!1 models
+> show #!4 models
+> volume #4 level 0.1109
+> volume #2 level 0.2362
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!5 models
+> hide #!5 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> show #!5 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> hide #!4 models
+> show #!4 models
+> hide #!5 models
+> show #!2 models
+> hide #!1 models
+> show #!1 models
+> hide #!4 models
+> volume #1 level 0.2842
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> volume #2 level 0.2669
+> show #!4 models
+> volume #4 level 0.1666
+> hide #!2 models
+> show #!2 models
+> hide #!1 models
+> show #!1 models
+> hide #!2 models
+> hide #!1 models
+> show #!1 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> show #!2 models
+> hide #!1 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> show #!5 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!5 models
+> show #!1 models
+> hide #!2 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> volume #4 level 0.09079
+> hide #!4 models
+> show #!5 models
+> volume #2 level 0.1363
+> volume #5 level 0.09125
+> hide #!2 models
+> show #!2 models
+> show #!4 models
+> hide #!5 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!4 models
+> volume #2 level 0.003029
+> volume #2 level 0.06965
+> save /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs includeMaps true
+——— End of log from Tue Dec 24 14:48:02 2024 ———
+opened ChimeraX session
+> ui tool show "Fit in Map"
+The cached device pixel ratio value was stale on window expose. Please file a
+QTBUG which explains how to reproduce.
+[Repeated 1 time(s)]
+> show #!5 models
+> show #!4 models
+> show #!1 models
+> fitmap #2 inMap #1
+Fit map emdb43590_BV in map emdb35243_ODV using 14658219 points
+correlation = 0.7541, correlation about mean = 0.4206, overlap = 6.34e+05
+steps = 44, shift = 0.0918, angle = 0.00815 degrees
+Position of emdb43590_BV (#2) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.22948454 -0.97331231 -0.00000019 772.07912980
+.97331231 0.22948454 0.00000002 -188.58027009
+.00000003 -0.00000019 1.00000000 -179.80414440
+Axis -0.00000011 -0.00000011 1.00000000
+Axis point 505.14652168 393.35360876 0.00000000
+Rotation angle (degrees) 76.73327344
+Shift along axis -179.80420481
+> volume #2 level 0.1593
+> fitmap #2 inMap #1
+Fit map emdb43590_BV in map emdb35243_ODV using 6420765 points
+correlation = 0.788, correlation about mean = 0.2153, overlap = 5.315e+05
+steps = 40, shift = 0.0561, angle = 0.0102 degrees
+Position of emdb43590_BV (#2) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.22965823 -0.97327134 0.00000041 771.97288598
+.97327134 0.22965823 0.00000005 -188.64582157
+-0.00000014 0.00000039 1.00000000 -179.74825591
+Axis 0.00000018 0.00000028 1.00000000
+Axis point 505.15663052 393.34320391 0.00000000
+Rotation angle (degrees) 76.72304870
+Shift along axis -179.74817265
+> fitmap #4 inMap #1
+Fit map J1663_FE in map emdb35243_ODV using 3515214 points
+correlation = 0.7547, correlation about mean = 0.4947, overlap = 1.23e+05
+steps = 44, shift = 1.44, angle = 0.00292 degrees
+Position of J1663_FE (#4) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.22797990 -0.97366584 0.00000032 722.75242081
+.97366584 0.22797990 -0.00001052 -107.05172737
+.00001017 0.00000271 1.00000000 -58.05938758
+Axis 0.00000679 -0.00000506 1.00000000
+Axis point 428.88300196 402.23914637 0.00000000
+Rotation angle (degrees) 76.82183100
+Shift along axis -58.05393872
+> fitmap #5 inMap #1
+Fit map J1671_PE z flip in map emdb35243_ODV using 2887742 points
+correlation = 0.7439, correlation about mean = 0.3608, overlap = 1.359e+05
+steps = 84, shift = 0.0126, angle = 0.0165 degrees
+Position of J1671_PE z flip (#5) relative to emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.95294192 0.30315291 -0.00002329 -130.23084526
+-0.30315291 0.95294192 0.00003337 128.08923520
+.00003231 -0.00002474 1.00000000 -121.44780533
+Axis -0.00009584 -0.00009171 -0.99999999
+Axis point 347.50822763 483.49288311 0.00000000
+Rotation angle (degrees) 17.64707305
+Shift along axis 121.44853799
+> save /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs includeMaps true
+> open
+> /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1748_004_volume_map.mrc
+Opened cryosparc_P23_J1748_004_volume_map.mrc as #3, grid size 588,588,588,
+pixel 1.34, shown at level 0.129, step 4, values float32
+> hide #!4 models
+> hide #!5 models
+> hide #!3 models
+> hide #!2 models
+> show #!3 models
+The cached device pixel ratio value was stale on window expose. Please file a
+QTBUG which explains how to reproduce.
+> volume #3 step 1
+> ui mousemode right clip
+> ui mousemode right translate
+> select add #3
+models selected
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #3,0.40948,-0.77865,-0.47542,760.83,-0.71746,-0.59673,0.35938,744.31,-0.56353,0.19394,-0.80301,985.38
+> view matrix models
+> #3,0.32041,-0.69825,0.64014,244.66,-0.90173,-0.43184,-0.019699,928.51,0.2902,-0.57093,-0.768,934.07
+> view matrix models
+> #3,0.39371,-0.91284,-0.10826,648.9,-0.91524,-0.37831,-0.1386,968.12,0.085564,0.15365,-0.98441,830.02
+> ui mousemode right "translate selected models"
+> view matrix models
+> #3,0.39371,-0.91284,-0.10826,762.28,-0.91524,-0.37831,-0.1386,1064.7,0.085564,0.15365,-0.98441,801.88
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #3,0.37861,-0.92556,-0.0013901,723.46,-0.91898,-0.37574,-0.11957,1056.3,0.11015,0.046549,-0.99282,838.31
+> ui mousemode right "translate selected models"
+> view matrix models
+> #3,0.37861,-0.92556,-0.0013901,717.57,-0.91898,-0.37574,-0.11957,1053,0.11015,0.046549,-0.99282,889.03
+> view matrix models
+> #3,0.37861,-0.92556,-0.0013901,714.64,-0.91898,-0.37574,-0.11957,1041.5,0.11015,0.046549,-0.99282,889.68
+> fitmap #3 inMap #1
+Fit map cryosparc_P23_J1748_004_volume_map.mrc in map emdb35243_ODV using
+2033906 points
+correlation = 0.8586, correlation about mean = 0.213, overlap = 1.155e+05
+steps = 176, shift = 23, angle = 7.82 degrees
+Position of cryosparc_P23_J1748_004_volume_map.mrc (#3) relative to
+emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.99578155 0.09175521 0.00000256 -23.45858541
+.09175519 -0.99578156 -0.00000778 761.14443305
+.00000183 0.00000798 -0.99999997 760.15790824
+Axis 0.99892332 0.04637151 -0.00137005
+Axis point 0.00000000 381.11520699 380.06436878
+Rotation angle (degrees) 179.99954802
+Shift along axis 10.82063276
+> fitmap #3 inMap #1
+Fit map cryosparc_P23_J1748_004_volume_map.mrc in map emdb35243_ODV using
+2033906 points
+correlation = 0.8586, correlation about mean = 0.2131, overlap = 1.155e+05
+steps = 36, shift = 0.0092, angle = 0.00079 degrees
+Position of cryosparc_P23_J1748_004_volume_map.mrc (#3) relative to
+emdb35243_ODV (#1) coordinates:
+Matrix rotation and translation
+.99578150 0.09175583 0.00001530 -23.45998132
+.09175581 -0.99578151 -0.00000256 761.14824253
+.00001500 0.00000396 -0.99999997 760.15889297
+Axis 0.99888925 0.04700335 -0.00330788
+Axis point 0.00000000 381.12546248 380.04122309
+Rotation angle (degrees) 179.99981308
+Shift along axis 9.82808080
+> select subtract #3
+Nothing selected
+> volume #3 level 0.03398
+> volume #3 level 0.04519
+> volume #3 color #3b8fff
+> ui mousemode right clip
+> ui mousemode right translate
+> hide #!1 models
+> volume #3 level 0.05546
+> volume #4 level 0.1149
+> volume #4 level 0.1236
+> show #!4 models
+> hide #!3 models
+> show #!3 models
+> hide #!4 models
+> show #!4 models
+> hide #!3 models
+> show #!3 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!3 models
+> show #!3 models
+> hide #!3 models
+> show #!3 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> volume #3 level 0.05173
+> volume #3 level 0.03211
+> volume #4 level 0.07328
+> hide #!4 models
+> show #!4 models
+> hide #!4 models
+> rename #3 J1748_FE
+> show #!5 models
+> hide #!5 models
+> save /Users/ConstantinePetridis/Desktop/AcMNPV_Caps.cxs includeMaps true
+——— End of log from Tue Dec 24 17:47:32 2024 ———
+opened ChimeraX session
+> show #!2 models
+> show #!1 models
+> hide #!2 models
+> hide #!1 models
+> volume #3 level 0.04733
+> volume #3 level 0.06065
+> ui mousemode right clip
+> show #!1 models
+> show #!2 models
+> show #!5 models
+> volume #5 level 0.1186
+> volume #5 level 0.1111
+> volume #2 level 0.1926
+> show #!4 models
+> volume #4 level 0.1535
+> hide #!5 models
+> close #4
+> volume #2 level 0.2003
+> volume #1 level 0.2218
+> hide #!2 models
+> hide #!3 models
+> show #!2 models
+> hide #!2 models
+> show #!3 models
+> volume #1 level 0.1698
+> hide #!3 models
+> volume #1 level 0.2252
+> volume #1 level 0.2703
+> hide #!5 models
+> show #!3 models
+> volume #3 level 0.06804
+> volume #3 level 0.07359
+> volume #3 level 0.05788
+> ui tool show "Hide Dust"
+> surface dust #3 size 8.04
+> surface dust #3 size 8.8
+> surface dust #3 size 18.45
+> surface dust #3 size 18.75
+> surface dust #3 size 37.37
+> volume #1 level 0.2495
+> volume #1 level 0.246
+> surface dust #3 size 37.37
+The cached device pixel ratio value was stale on window expose. Please file a
+QTBUG which explains how to reproduce.
+> surface dust #1 size 8.1
+> surface dust #1 size 8.02
+> surface dust #1 size 20.2
+> surface dust #1 size 18.89
+> surface dust #1 size 23.12
+> volume #2 level 0.2054
+> volume #2 color #dfd9fc
+> volume #2 color #c2cafd
+> volume #2 color #f34d8f
+> volume #2 color #3b8fff
+> volume #2 color #7a81ff
+> volume #2 color #d2d2d3
+> volume #2 color #dfd9fc
+> volume #2 color #c2cafd
+> volume #2 color #f34d8f
+> volume #2 color #235091
+> volume #2 color #d2d2d3
+> volume #2 color #d9776e
+> volume #5 level 0.1409
+> ui mousemode right rotate
+> ui mousemode right translate
+> surface dust #2 size 8.46
+> surface dust #2 size 8.3
+[Repeated 1 time(s)]
+> transparency #3 50
+> transparency #3 40
+> volume #2 level 0.2403
+> volume #3 level 0.06527
+> volume #1 level 0.2595
+> volume #1 color #c2cafd
+> ui tool show "Hide Dust"
+> surface dust #1 size 1.35
+The cached device pixel ratio value was stale on window expose. Please file a
+QTBUG which explains how to reproduce.
+> surface dust #5 size 14.2
+> surface dust #5 size 15.03
+> surface dust #5 size 37.91
+> surface dust #1 size 12.83
+> surface dust #1 size 13.96
+> surface dust #1 size 33.45
+> surface dust #1 size 14.19
+> surface dust #1 size 27.82
+> surface dust #1 size 33.45
+> surface dust #1 size 58.26
+> ui mousemode right clip
+> volume #5 level 0.02913
+> volume #5 level 0.1086
+> volume #5 level 0.07634
+> transparency #3 0
+> volume #3 level 0.0158
+> volume #3 level 0.03958
+> open
+> /Users/ConstantinePetridis/Downloads/cryosparc_P23_J1663_003_volume_map.mrc
+Opened cryosparc_P23_J1663_003_volume_map.mrc as #4, grid size 360,360,360,
+pixel 2.37, shown at level 0.302, step 2, values float32
+The cached device pixel ratio value was stale on window expose. Please file a
+QTBUG which explains how to reproduce.
+> volume #4 step 1
+> volume #4 level 0.09233
+> volume #4 level 0.1146
+> ui mousemode right translate
+> volume #4 level 0.0901
+> ui mousemode right clip
+> select add #4
+models selected
+> ui mousemode right "translate selected models"
+> view matrix models #4,1,0,0,65.037,0,1,0,-9.76,0,0,1,122.44
+> ui tool show "Fit in Map"
+> surface dust #1 size 58.3
+> surface dust #1 size 58.42
+> surface dust #1 size 58.58
+The cached device pixel ratio value was stale on window expose. Please file a
+QTBUG which explains how to reproduce.
+[Repeated 1 time(s)]
+> fitmap #4 inMap #3
+Fit map cryosparc_P23_J1663_003_volume_map.mrc in map J1748_FE using 3557522
+points
+correlation = 0.4347, correlation about mean = -0.02198, overlap = 1.693e+04
+steps = 188, shift = 24, angle = 3.93 degrees
+Position of cryosparc_P23_J1663_003_volume_map.mrc (#4) relative to J1748_FE
+(#3) coordinates:
+Matrix rotation and translation
+.33050798 -0.94178203 0.06173458 681.45164000
+-0.94275723 -0.33251334 -0.02537203 979.22027943
+.04442248 -0.04981506 -0.99777009 818.62961298
+Axis -0.81561934 0.57767311 -0.03254049
+Axis point 0.00000000 734.69129100 391.17873063
+Rotation angle (degrees) 179.14142847
+Shift along axis -16.77451928
+> view matrix models
+> #4,0.99891,0.016612,0.043643,30.823,-0.014401,0.99862,-0.050483,34.399,-0.044421,0.049799,0.99777,106.43
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #4,0.99791,-0.016664,-0.062458,89.788,0.016304,0.99985,-0.0062726,2.309,0.062553,0.0052411,0.99803,79.721
+> fitmap #4 inMap #3
+Fit map cryosparc_P23_J1663_003_volume_map.mrc in map J1748_FE using 3557522
+points
+correlation = 0.4361, correlation about mean = -0.01796, overlap = 1.701e+04
+steps = 152, shift = 17, angle = 1.78 degrees
+Position of cryosparc_P23_J1663_003_volume_map.mrc (#4) relative to J1748_FE
+(#3) coordinates:
+Matrix rotation and translation
+.31830062 -0.94776499 -0.02064779 722.74851077
+-0.94395812 -0.31887832 0.08520406 917.64991711
+-0.08733756 -0.00762985 -0.99614958 857.77294072
+Axis -0.81170878 0.58311312 0.03328592
+Axis point 0.00000000 733.56123549 427.29369258
+Rotation angle (degrees) 176.72179560
+Shift along axis -23.01584556
+> volume #4 level 0.1302
+> ui mousemode right clip
+> ui mousemode right "translate selected models"
+> view matrix models
+> #4,0.99618,0.0017832,-0.087354,122.51,-0.0024414,0.99997,-0.0074289,67.89,0.087338,0.0076138,0.99615,82.111
+> view matrix models
+> #4,0.99618,0.0017832,-0.087354,111.55,-0.0024414,0.99997,-0.0074289,66.848,0.087338,0.0076138,0.99615,83.851
+> ui mousemode right "rotate selected models"
+> view matrix models
+> #4,0.99989,-0.012706,0.0079521,78.608,0.012717,0.99992,-0.0013316,58.009,-0.0079345,0.0014326,0.99997,125.58
+> ui mousemode right "translate selected models"
+> view matrix models
+> #4,0.99989,-0.012706,0.0079521,73.359,0.012717,0.99992,-0.0013316,57.418,-0.0079345,0.0014326,0.99997,127
+> fitmap #4 inMap #3
+Fit map cryosparc_P23_J1663_003_volume_map.mrc in map J1748_FE using 1934742
+points
+correlation = 0.9722, correlation about mean = 0.8889, overlap = 4.877e+04
+steps = 72, shift = 7.35, angle = 0.83 degrees
+Position of cryosparc_P23_J1663_003_volume_map.mrc (#4) relative to J1748_FE
+(#3) coordinates:
+Matrix rotation and translation
+.31655931 -0.94857276 -0.00000334 663.27925709
+-0.94857276 -0.31655929 -0.00000757 933.06974962
+.00000612 0.00000557 -1.00000003 819.98524864
+Axis 0.81162632 -0.58417690 0.00025913
+Axis point 0.00000000 705.23406850 409.88905627
+Rotation angle (degrees) 179.99953615
+Shift along axis -6.53039807
+> select subtract #4
+Nothing selected
+> ui mousemode right translate
+> volume #3 level 0.05385
+> transparency #3 50
+> transparency #3 0
+> volume #3 level 0.051
+> ui mousemode right clip
+> volume #3 level 0.03007
+> volume #3 level 0.04434
+> volume #3 level 0.03958
+> volume #3 level 0.04
+> volume #3 level 0.042
+> show #!2 models
+> show #!1 models
+> hide #!3 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> volume #1 level 0.2422
+> volume #1 level 0.25
+> volume #2 level 0.248
+> ui mousemode right translate
+> volume #2 level 0.275
+> volume #1 level 0.24
+> volume #2 level 0.28
+> ui mousemode right clip
+> ui mousemode right "clip rotate"
+> ui mousemode right clip
+> ui mousemode right "clip rotate"
+> ui mousemode right clip
+> ui tool show "Side View"
+> ui mousemode right translate
+> show #!3 models
+> hide #!3 models
+> show #!3 models
+> hide #!3 models
+> show #!3 models
+> hide #!3 models
+> show #!5 models
+> hide #!5 models
+> show #!3 models
+> show #!4 models
+> hide #!3 models
+> show #!3 models
+> hide #!4 models
+> show #!4 models
+> hide #!2 models
+> hide #!1 models
+> volume #4 level 0.1035
+> hide #!3 models
+> show #!3 models
+> hide #!4 models
+> show #!4 models
+> hide #!3 models
+> volume #4 level 0.1146
+> show #!3 models
+> hide #!4 models
+> show #!4 models
+> hide #!3 models
+> hide #!4 models
+> show #!3 models
+> show #!2 models
+> show #!1 models
+> hide #!3 models
+> transparency #2 50
+> transparency #2 40
+> volume #1 level 0.2712
+> show #!5 models
+> hide #!5 models
+> color #2 #d2d2d3ff models
+> color #2 #c2cafdff models
+> color #1 #f34d8fff models
+> color #1 #c1153cff models
+> color #1 #f34d8fff models
+> color #1 white models
+> color #1 #5f90e2ff models
+> color #1 #74fad9ff models
+> color #1 white models
+> color #1 #71ed4eff models
+> color #1 white models
+> color #1 #6057e0ff models
+> transparency #2 40
+> transparency #2 0
+> transparency #1 40
+> transparency #2 40
+> transparency #1 0
+> color #1 #7f51e0ff models
+> color #1 #5573e1ff models
+> color #1 #4e5ce0ff models
+> color #2 #c3b2e9ff models
+> color #2 #c9b8eaff models
+> color #2 #7a81ffff models
+> color #2 #fefefeff models
+> color #2 white models
+> transparency #2 0
+> color #2 #f6f0e1ff models
+> color #2 #d2d2d3ff models
+> color #2 #d2d2d366 models
+> transparency #2 0
+> transparency #1 40
+> transparency #2 40
+> transparency #1 40
+> transparency #1 0
+> lighting gentle
+> lighting soft
+> lighting gentle
+> lighting flat
+> lighting gentle
+> lighting soft
+> lighting gentle
+> lighting soft
+> color #1 #d2d2d3ff models
+> color #2 #3b8fffff models
+> color #2 #c2cafdff models
+> color #2 #7a81ffff models
+> transparency #1 40
+> transparency #1 0
+> transparency #2 40
+> color #1 #fafcfbff models
+> color #1 #f7eef5ff models
+> color #1 #f1dcedff models
+> color #1 #f9f3f0ff models
+> color #1 #f8f7ebff models
+> color #1 #edf8caff models
+> color #1 #f0f8cbff models
+> color #1 #f8f1d9ff models
+> color #1 #f8efd7ff models
+> color #1 #e1d8c3ff models
+> color #1 #f2e9d2ff models
+> color #1 #dfd7c2ff models
+> color #1 #dbd3beff models
+> color #1 #7a81ffff models
+> color #2 #dbd3beff models
+> transparency #2 40
+> transparency #2 0
+> transparency #1 40
+> color #2 #d2e2d7ff models
+> color #2 #c9e2c2ff models
+> color #2 #dcd9e2ff models
+> color #2 #f8f4ffff models
+> color #2 #e4e0eaff models
+> transparency #1 50
+> transparency #1 35
+> name view front
+"front": invalid atom specifier
+> view name front
+> save /Users/ConstantinePetridis/Desktop/BV_ODV.png width 3000 height 1962
+> supersample 4
+> color #2 #8d8b91ff models
+> color #2 #a3a1a8ff models
+> transparency #1 35
+> transparency #2 0
+> color #2 #f7f5ffff models
+> color #2 #cbc9d1ff models
+> color #2 #cbc9d2ff models
+> lighting soft
+> lighting gentle
+> lighting soft
+> ui mousemode right rotate
+> ui mousemode right zoom
+> ui mousemode right rotate
+> ui mousemode right translate
+> ui mousemode right "clip rotate"
+> ui mousemode right clip
+> ui mousemode right translate
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> volume #1 level 0.3024
+> color #1 #7a81ffff models
+> color #1 #7a81ff00 models
+> color #1 #7a81ff34 models
+> color #1 #7a81ffff models
+> ui mousemode right clip
+> ui mousemode right "clip rotate"
+> ui mousemode right clip
+> ui mousemode right translate
+> show #!2 models
+> hide #!1 models
+> show #!1 models
+> hide #!1 models
+> show #!1 models
+> hide #!2 models
+> show #!2 models
+> hide #!2 models
+> show #!2 models
+> hide #!1 models
+> show #!1 models
+[deleted to fit within ticket limits]
 > hide #!2 models