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#18329 assigned defect

ArtiaX: math domain error

Reported by:	chimerax-bug-report@…	Owned by:	Utz Ermel
Priority:	normal	Milestone:
Component:	Third Party	Version:
Keywords:		Cc:
Blocked By:		Blocking:
Notify when closed:		Platform:	all
Project:	ChimeraX

Description (last modified by Eric Pettersen)

The following bug report has been submitted:
Platform:        macOS-14.5-arm64-arm-64bit
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Replace this text with list of actions that caused this problem to occur

Log:
UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> set bgColor #ffffff00

Log from Wed Jul 30 11:51:18 2025UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open /Users/tatjana.taubitz/Desktop/Movieversion.cxs format session

/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7microtubuli.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7membranes.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7mitoproteins.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7ribosomes.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
Using preset: ArtiaX / Artiax Default  
Preset expands to these ChimeraX commands:

    
    
    set bgColor black
    lighting depthCue false
    camera ortho

  
Opened 22t7microtubuli.mrc as #1, grid size 512,512,256, pixel 1, shown at
step 4, values uint8  
Opened 22t7membranes.mrc as #2, grid size 512,512,256, pixel 1, shown at level
148, step 2, values uint8  
Opened 22t7mitoproteins.mrc as #3, grid size 512,512,256, pixel 1, shown at
level 173, step 2, values uint8  
Opened 22t7ribosomes.mrc as #4, grid size 512,512,256, pixel 1, shown at level
140, step 2, values uint8  
Opened 22t7microtubuli.mrc gaussian as #6, grid size 512,512,256, pixel 1,
shown at level 80, step 1, values uint8  
Opened 22t7mitoproteins.mrc gaussian as #5, grid size 512,512,256, pixel 1,
shown at level 80, step 1, values uint8  
Opened 22t7ribosomes.mrc gaussian as #7, grid size 512,512,256, pixel 1, shown
at level 70, step 1, values uint8  
Opened 22t7membranes.mrc gaussian as #10, grid size 512,512,256, pixel 1,
shown at level 69.6, step 1, values uint8  
Opened rec_la22t7.mrc as #8, grid size 512,512,192, pixel 12.5, shown at step
2, values float32  
Opened 22t7mitoproteins.mrc gaussian copy as #9, grid size 512,512,256, pixel
12.5, shown at level 80, step 1, values uint8  
Opened 22t7microtubuli.mrc gaussian copy as #11, grid size 512,512,256, pixel
12.5, shown at level 80, step 1, values uint8  
Opened 22t7ribosomes.mrc gaussian copy as #12, grid size 512,512,256, pixel
12.5, shown at level 70, step 1, values uint8  
Opened 22t7membranes.mrc gaussian copy as #13, grid size 512,512,256, pixel
12.5, shown at level 69.6, step 1, values uint8  
Opened rec_la22t7.mrc as #15.1.1, grid size 512,512,256, pixel 12.5, shown at
step 2, values float32  
Opened Filtered rec_la22t7.mrc pixels, lp=900.0 as #15.1.2, grid size
512,512,256, pixel 12.5, shown at step 1, values float32  
Opened rec_la22t7.mrc as #14, grid size 512,512,256, pixel 12.5, shown at step
2, values float32  
Opened rec_la22t7.mrc gaussian as #16, grid size 512,512,256, pixel 12.5,
shown at step 1, values float32  
Log from Tue Jul 29 10:42:53 2025UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open "/Users/tatjana.taubitz/Desktop/Images for
> publication/22t7Segmentation.cxs" format session

/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7microtubuli.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7membranes.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7mitoproteins.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7ribosomes.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
Using preset: ArtiaX / Artiax Default  
Preset expands to these ChimeraX commands:

    
    
    set bgColor black
    lighting depthCue false
    camera ortho

  
Opened 22t7microtubuli.mrc as #1, grid size 512,512,256, pixel 1, shown at
level 132, step 4, values uint8  
Opened 22t7membranes.mrc as #2, grid size 512,512,256, pixel 1, shown at level
148, step 2, values uint8  
Opened 22t7mitoproteins.mrc as #3, grid size 512,512,256, pixel 1, shown at
level 173, step 2, values uint8  
Opened 22t7ribosomes.mrc as #4, grid size 512,512,256, pixel 1, shown at level
140, step 2, values uint8  
Opened 22t7microtubuli.mrc gaussian as #6, grid size 512,512,256, pixel 1,
shown at level 80, step 1, values uint8  
Opened 22t7mitoproteins.mrc gaussian as #5, grid size 512,512,256, pixel 1,
shown at level 80, step 1, values uint8  
Opened 22t7ribosomes.mrc gaussian as #7, grid size 512,512,256, pixel 1, shown
at level 70, step 1, values uint8  
Opened 22t7membranes.mrc gaussian as #10, grid size 512,512,256, pixel 1,
shown at level 69.6, step 1, values uint8  
Opened rec_la22t7.mrc as #8, grid size 512,512,192, pixel 12.5, shown at step
2, values float32  
Opened 22t7mitoproteins.mrc gaussian copy as #9, grid size 512,512,256, pixel
12.5, shown at level 80, step 1, values uint8  
Opened 22t7microtubuli.mrc gaussian copy as #11, grid size 512,512,256, pixel
12.5, shown at level 80, step 1, values uint8  
Opened 22t7ribosomes.mrc gaussian copy as #12, grid size 512,512,256, pixel
12.5, shown at level 70, step 1, values uint8  
Opened 22t7membranes.mrc gaussian copy as #13, grid size 512,512,256, pixel
12.5, shown at level 69.6, step 1, values uint8  
Opened rec_la22t7.mrc as #15.1.1, grid size 512,512,256, pixel 12.5, shown at
step 2, values float32  
Opened Filtered rec_la22t7.mrc pixels, lp=900.0 as #15.1.2, grid size
512,512,256, pixel 12.5, shown at step 1, values float32  
Log from Thu Jul 17 15:29:31 2025UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open "/Users/tatjana.taubitz/Desktop/Images for
> publication/22t7Segmentation.cxs"

/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7microtubuli.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7membranes.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7mitoproteins.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7ribosomes.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
Opened 22t7microtubuli.mrc as #1, grid size 512,512,256, pixel 1, shown at
level 132, step 4, values uint8  
Opened 22t7membranes.mrc as #2, grid size 512,512,256, pixel 1, shown at level
148, step 2, values uint8  
Opened 22t7mitoproteins.mrc as #3, grid size 512,512,256, pixel 1, shown at
level 173, step 2, values uint8  
Opened 22t7ribosomes.mrc as #4, grid size 512,512,256, pixel 1, shown at level
140, step 2, values uint8  
Opened 22t7microtubuli.mrc gaussian as #6, grid size 512,512,256, pixel 1,
shown at level 80, step 1, values uint8  
Opened 22t7mitoproteins.mrc gaussian as #5, grid size 512,512,256, pixel 1,
shown at level 80, step 1, values uint8  
Opened 22t7ribosomes.mrc gaussian as #7, grid size 512,512,256, pixel 1, shown
at level 70, step 1, values uint8  
Opened 22t7membranes.mrc gaussian as #10, grid size 512,512,256, pixel 1,
shown at level 69.6, step 1, values uint8  
Opened rec_la22t7.mrc as #8, grid size 512,512,192, pixel 12.5, shown at step
2, values float32  
Opened 22t7mitoproteins.mrc gaussian copy as #9, grid size 512,512,256, pixel
12.5, shown at level 80, step 1, values uint8  
Opened 22t7microtubuli.mrc gaussian copy as #11, grid size 512,512,256, pixel
12.5, shown at level 80, step 1, values uint8  
Opened 22t7ribosomes.mrc gaussian copy as #12, grid size 512,512,256, pixel
12.5, shown at level 70, step 1, values uint8  
Opened 22t7membranes.mrc gaussian copy as #13, grid size 512,512,256, pixel
12.5, shown at level 69.6, step 1, values uint8  
Opened rec_la22t7.mrc as #14, grid size 512,512,256, pixel 12.5, shown at step
2, values float32  
Log from Thu Jul 17 08:54:40 2025UCSF ChimeraX version: 1.5 (2022-11-24)  
© 2016-2022 Regents of the University of California. All rights reserved.  

> open "/Users/tatjana.taubitz/Desktop/Images for
> publication/22t7Segmentation.cxs" format session

/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7microtubuli.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7membranes.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7mitoproteins.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
/Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7ribosomes.mrc: invalid cell
angles 0,0,0 must be between 0 and 180.  
Opened 22t7microtubuli.mrc as #1, grid size 512,512,256, pixel 1, shown at
level 1, step 2, values uint8  
Opened 22t7membranes.mrc as #2, grid size 512,512,256, pixel 1, shown at level
148, step 2, values uint8  
Opened 22t7mitoproteins.mrc as #3, grid size 512,512,256, pixel 1, shown at
level 173, step 2, values uint8  
Opened 22t7ribosomes.mrc as #4, grid size 512,512,256, pixel 1, shown at step
2, values uint8  
Opened 22t7membranes.mrc gaussian as #8, grid size 512,512,256, pixel 1, shown
at level 100, step 1, values uint8  
Opened 22t7microtubuli.mrc gaussian as #6, grid size 512,512,256, pixel 1,
shown at level 80, step 1, values uint8  
Opened 22t7mitoproteins.mrc gaussian as #5, grid size 512,512,256, pixel 1,
shown at level 80, step 1, values uint8  
Opened 22t7ribosomes.mrc gaussian as #7, grid size 512,512,256, pixel 1, shown
at level 70, step 1, values uint8  
Log from Thu Jul 10 16:18:17 2025You can double click a model's Name or ID in
the model panel to edit those fields  
UCSF ChimeraX version: 1.5 (2022-11-24)  
© 2016-2022 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Volumes/abt3-em/krios-
> temp/Tatjana/Segmentation/microtubules/22t7/22t7microtubuli.mrc

Summary of feedback from opening /Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7microtubuli.mrc  
---  
note | /Volumes/abt3-em/krios-temp/Tatjana/Segmentation/microtubules/22t7/22t7microtubuli.mrc: invalid cell angles 0,0,0 must be between 0 and 180.  
  
Opened 22t7microtubuli.mrc as #1, grid size 512,512,256, pixel 1, shown at
level 0.0128, step 2, values uint8  

> open /Volumes/abt3-em/krios-
> temp/Tatjana/Segmentation/microtubules/22t7/22t7membranes.mrc

Summary of feedback from opening /Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7membranes.mrc  
---  
note | /Volumes/abt3-em/krios-temp/Tatjana/Segmentation/microtubules/22t7/22t7membranes.mrc: invalid cell angles 0,0,0 must be between 0 and 180.  
  
Opened 22t7membranes.mrc as #2, grid size 512,512,256, pixel 1, shown at level
255, step 2, values uint8  

> open /Volumes/abt3-em/krios-
> temp/Tatjana/Segmentation/microtubules/22t7/22t7mitoproteins.mrc

Summary of feedback from opening /Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7mitoproteins.mrc  
---  
note | /Volumes/abt3-em/krios-temp/Tatjana/Segmentation/microtubules/22t7/22t7mitoproteins.mrc: invalid cell angles 0,0,0 must be between 0 and 180.  
  
Opened 22t7mitoproteins.mrc as #3, grid size 512,512,256, pixel 1, shown at
level 255, step 2, values uint8  

> open /Volumes/abt3-em/krios-
> temp/Tatjana/Segmentation/microtubules/22t7/22t7ribosomes.mrc

Summary of feedback from opening /Volumes/abt3-em/krios-
temp/Tatjana/Segmentation/microtubules/22t7/22t7ribosomes.mrc  
---  
note | /Volumes/abt3-em/krios-temp/Tatjana/Segmentation/microtubules/22t7/22t7ribosomes.mrc: invalid cell angles 0,0,0 must be between 0 and 180.  
  
Opened 22t7ribosomes.mrc as #4, grid size 512,512,256, pixel 1, shown at level
255, step 2, values uint8  

> hide #!1 models

> show #!1 models

> volume #1 color #72bf6f

> volume #2 color #fffe5f

> volume #1 level 129.2

> undo

> volume #1 level 116.4

> volume #2 level 147.5

> volume #3 level 172.5

> volume #4 level 139.5

> volume #4 color #ba69ff

Drag select of 2 22t7membranes.mrc , 3 22t7mitoproteins.mrc  

> undo

> vop gaussian #1 sdev 3

Opened 22t7microtubuli.mrc gaussian as #5, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> volume #5 color #29ff54

> volume #5 color #16872c

> vop gaussian #1 sdev 2

Opened 22t7microtubuli.mrc gaussian as #6, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> close #6

> volume #5 style mesh

> volume #5 style image

> volume #5 maximumIntensityProjection true

> volume #5 region 0,0,127,511,511,127 step 1 maximumIntensityProjection false
> showOutlineBox true

> volume #5 region 0,0,0,511,511,255 step 2

> volume #5 region 0,0,0,511,511,255 step 1 colorMode opaque8 orthoplanes xyz
> positionPlanes 255,255,127 imageMode orthoplanes

> volume #5 style surface

> volume #5

[Repeated 1 time(s)]

> volume #5 style image region 0,0,0,511,511,255 step 2

> volume #5 region 0,0,0,511,511,255 step 1 imageMode "box faces"

> volume #5 region 0,0,0,511,511,255 step 2 colorMode auto8 imageMode "tilted
> slab" tiltedSlabAxis 0.05124,0.1689,-0.9843 tiltedSlabOffset -81.38
> tiltedSlabPlaneCount 25

> volume #5 style surface

> vop gaussian #2 sdev 3

Opened 22t7membranes.mrc gaussian as #6, grid size 512,512,256, pixel 1, shown
at step 1, values uint8  

> volume #6 color #fce42a

> vop gaussian #2 sdev

> volume gaussian #2 sDev

Missing "sDev" keyword's argument  

> vop gaussian #2 sdev 2

Opened 22t7membranes.mrc gaussian as #7, grid size 512,512,256, pixel 1, shown
at step 1, values uint8  

> vop gaussian #2 sdev 5

Opened 22t7membranes.mrc gaussian as #8, grid size 512,512,256, pixel 1, shown
at step 1, values uint8  

> close #7

> close #8

> vop gaussian #3 sdev 3

Opened 22t7mitoproteins.mrc gaussian as #7, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> vop gaussian #3 sdev 2

Opened 22t7mitoproteins.mrc gaussian as #8, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> vop gaussian #1 sdev 1

Opened 22t7microtubuli.mrc gaussian as #9, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> close #9

> close #8

> close #7

> vop gaussian #2 sdev 1

Opened 22t7membranes.mrc gaussian as #7, grid size 512,512,256, pixel 1, shown
at step 1, values uint8  

> vop gaussian #2 sdev 1.5

Opened 22t7membranes.mrc gaussian as #8, grid size 512,512,256, pixel 1, shown
at step 1, values uint8  

> close #7

> close #6

> volume #8 color #fff350

> vop gaussian #1 sdev 1.5

Opened 22t7microtubuli.mrc gaussian as #6, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> vop gaussian #1 sdev 2

Opened 22t7microtubuli.mrc gaussian as #7, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> close #7

> volume #6 color #40ff7b

> volume #6 color #29a14d

> volume #6 color #4ba14a

> close #5

> vop gaussian #3 sdev 1.5

Opened 22t7mitoproteins.mrc gaussian as #5, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> volume #5 color #5ff8fc

> volume #5 color #3bd6fc

> vop gaussian #4 sdev 1.5

Opened 22t7ribosomes.mrc gaussian as #7, grid size 512,512,256, pixel 1, shown
at step 1, values uint8  

> vop gaussian #4 sdev 3

Opened 22t7ribosomes.mrc gaussian as #9, grid size 512,512,256, pixel 1, shown
at step 1, values uint8  

> close #9

> volume #7 color #b162eb

> volume #7 style image region 0,0,0,511,511,255 step 2 colorMode opaque8
> showOutlineBox true orthoplanes xyz positionPlanes 255,255,127 imageMode
> orthoplanes

> volume #8 region 0,0,0,511,511,255

> volume #7 style surface region 0,0,0,511,511,255 step 1

> volume #7 style image region 0,0,0,511,511,255 step 2

> volume #7 color #da7eff color #ffd4aa color #ffd4aa

Drag select of 8 22t7membranes.mrc gaussian  

> volume #7 style surface region 0,0,0,511,511,255 step 1

> volume #7 style image region 0,0,0,511,511,255 step 2

> volume #7 style surface region 0,0,0,511,511,255 step 1

> volume #7 style image region 0,0,0,511,511,255 step 2

> mousemode mode right "move planes"

Expected a keyword  

> volume #8 region 0,0,0,511,511,255

> ui tool show "Volume Viewer"

[Repeated 1 time(s)]

> volume #8 region 0,0,0,511,511,255

> ui windowfill toggle

[Repeated 1 time(s)]

> volume #7 level 0,0 level 232,0.8 level 249.3,0.3692

> volume #7 level 0,0 level 220.7,0.7231 level 249.3,0.3692

> volume #7 level 0,0 level 220.7,0.7231 level 250.7,0.7385

> volume #7 style surface region 0,0,0,511,511,255 step 1

> select subtract #8

Nothing selected  

> volume #7 slive

Expected a keyword  

> volume #7 slice

Expected a keyword  

> volume #8 region 0,0,0,511,511,255

> volume #7 style image region 0,0,0,511,511,255 step 2

> volume #7 color #da7eff color #ffd4aa color #bc49ff

> ui tool show "Volume Viewer"

> lighting soft

> lighting simple

> lighting full

> lighting simple

> lighting soft

> set bgColor white

> set bgColor #ffffff00

> set bgColor black

> set bgColor transparent

> set bgColor white

> set bgColor #ffffff00

> volume #1 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #2 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #3 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #4 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #8 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #6 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #5 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #7 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #1 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #2 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #3 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #4 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #8 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #6 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #5 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #7 orthoplanes xyz positionPlanes 256,256,128 style image region all

> mousemode rightMode "move planes"

> volume #1 style surface

> volume #2 style surface

> volume #3 style surface

> volume #!5-8 style surface

> volume #7 style image region 0,0,0,511,511,255 step 2 positionPlanes
> 255,255,127

> ui mousemode right "move planes"

[Repeated 2 time(s)]

> volume #8 region 0,0,0,511,511,255

[Repeated 4 time(s)]

> ui mousemode right "rotate slab"

> volume #8 tiltedSlabAxis -0.05866,-0.6522,0.7557 tiltedSlabOffset 28.76

> volume #8 tiltedSlabAxis -0.683,-0.7256,-0.0836 tiltedSlabOffset -283

> ui mousemode right rotate

> volume #7 style surface region 0,0,0,511,511,255 step 1

> volume #7 planes xPlane 100 yPlane 120 zPlane 80

Invalid "planes" argument: Planes argument first field must be x, y, or z, got
"xPlane"  

> volume #7 xPlane 100 yPlane 120 zPlane 80

Expected a keyword  

> volume #7 planes x 100 y 120 z 80

Expected a keyword  

> volume #7 planes x100 y 120 z 80

Invalid "planes" argument: Planes argument first field must be x, y, or z, got
"x100"  

> volume #7 style image region 0,0,0,511,511,255 step 2

> select add #1

4 models selected  

> select subtract #1

2 models selected  

> select add #5

5 models selected  

> select subtract #5

2 models selected  

> select add #6

5 models selected  

> select subtract #6

2 models selected  

> select add #7

5 models selected  

> select subtract #7

2 models selected  

> select add #8

3 models selected  

> select subtract #8

Nothing selected  

> select add #4

2 models selected  

> select subtract #4

Nothing selected  

> select add #3

2 models selected  

> select subtract #3

Nothing selected  

> select add #2

2 models selected  

> select subtract #2

Nothing selected  

> select add #1

2 models selected  

> select subtract #1

Nothing selected  

> volume #7 style surface region 0,0,0,511,511,255 step 1

> volume #1 level 0.9

> show #!1 models

> hide #!5 models

> show #!5 models

> hide #!6 models

> hide #!5 models

> hide #!7 models

> hide #!8 models

> volume #1 level 1

> volume #1 level 0.1

> volume #1 level 1

> hide #!1 models

> show #!6 models

> show #!5 models

> show #!7 models

> show #!8 models

> volume #7 style image region 0,0,0,511,511,255 step 2

> volume #8 region 0,0,0,511,511,255

> select clear

> volume #8 region 0,0,0,511,511,255

[Repeated 2 time(s)]

> ui mousemode right "move planes"

> volume #8 region 0,0,0,511,511,255

[Repeated 1 time(s)]

> ui mousemode right rotate

> volume #7 style surface region 0,0,0,511,511,255 step 1

> volume #7 level 10

> volume #7 level 232

> volume #7 level 40

> volume #7 level 100

> volume #7 level 50

> volume #7 level 70

> volume #5 level 80

> volume #5 change image level 0,0 level 118,0.8 level 254,1

> volume #6 level 60

> volume #6 change image level 0,0 level 26.99,0.8 level 252,1

> volume #6 level 80

> volume #8 level 120

> volume #8 change image level 0,0 level 175,0.8 level 253,1

> volume #8 level 50

> volume #8 level 100

> save "/Users/tatjana.taubitz/Desktop/Images for
> publication/22t7Segmentation.cxs" includeMaps true

> save "/Users/tatjana.taubitz/Desktop/Images for
> publication/22t7Segmentation.cxs"

——— End of log from Thu Jul 10 16:18:17 2025 ———

opened ChimeraX session  

> volume #7 color #b162eb25

> volume #6 color #68ad80

> lighting soft

> lighting full

> lighting simple

> lighting soft

> ui tool show "Side View"

> volume #7 color #b162eb43

> volume #7 color #b162eb42

> clip model #7 front 10

Expected true or false or a keyword  

> volume #1 planes z,10,50

> volume #1 planes z,10,100

> volume #1 planes z,100,100

> volume #1 planes z,100,0

> volume #1 planes z,1000,0

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> volume #1 planes z,0,0

> volume #1 planes z,all

Invalid "planes" argument: Planes arguments after axis must be numbers  

> volume #1 planes z,0.256

> volume #1 planes z,0,256

> show #!1 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!1 models

> show #!1 models

> volume #1 planes full

Invalid "planes" argument: Planes argument first field must be x, y, or z, got
"full"  

> volume #1 planes z,full

Invalid "planes" argument: Planes arguments after axis must be numbers  

> volume #1

> volume #1 z,0,256

Expected a keyword  

> volume #1 planes z,0,256

[Repeated 1 time(s)]

> show #!2 models

> hide #!2 models

> show #!2 models

> show #!3 models

> hide #!2 models

> hide #!3 models

> show #!2 models

> hide #!1 models

> show #!1 models

> info volume #1

Expected a models specifier or a keyword  

> volume viewer

Expected a density maps specifier or a keyword  

> volume #1 level -0.001848

> volume #1 level 0.1682

> volume #1 step 2

> volume #1 level -0.001848

> hide #!2 models

> volume #1 level 0.5453

> volume #1 planes z,0,256

> volume #1 level 0.464

> volume #1 planes z,0,256

> volume #1 style image

> volume #1 region 0,0,0,511,511,255 step 4

> volume #1 style surface region 0,0,0,511,511,255 step 4

> volume #1 change image level 0.0001,0 level 9.001e-05,0.8 level 0,1

> volume #1 level 144.7

> volume #1 level 135.3

> volume #1 level 157.9

> volume #1 level 132

> hide #!1 models

> hide #!2 models

> show #!6 models

> show #!8 models

> show #!5 models

> hide #!5 models

> hide #!2 models

> show #!7 models

> hide #!7 models

> show #!7 models

> volume #7 planes z,50,256

> volume #7 style image

> volume #7 region 0,0,0,511,511,255 step 1

> volume #7 style surface region 0,0,0,511,511,255 step 1

> volume #7 planes z,50,256

> volume #7 style image

> volume #7 region 0,0,0,511,511,255 step 1

> volume #7 style surface region 0,0,0,511,511,255 step 1

> volume #7 planes z,50,256

> volume #7 style image

> volume #7 region 0,0,0,511,511,255 step 1

> volume #7 style surface region 0,0,0,511,511,255 step 1

> volume #7 0,0,50,512,512,256

Expected a keyword  

> volume #7 region 0,0,50,512,512,256

> volume #7 region 0,0,70,512,512,256

> volume #7 region 0,0,100,512,512,256

> volume #7 region 0,0,130,512,512,256

> volume #7 region 0,0,0,512,512,256

> volume #7 region 0,0,130,512,512,256

> volume #7 color #b162ebc2

> volume #7 color #b162eb80

> show #!5 models

> save "/Users/tatjana.taubitz/Desktop/Images for
> publication/22t7Segmentation.cxs"

> surface #8 level 0.5

No atoms specified by #8  

> volume #8 level 151.6

> volume #8 level 145.1

> volume #8 step 2

> volume #8 step 4

> volume #8 level 94.57

> volume #8 step 1

> volume #8 level 141

> volume #8 survace level 0.5

Expected a keyword  

> volume #8 surfaceSmoothing level 0.5

Invalid "surfaceSmoothing" argument: Expected true or false (or 1 or 0)  

> volume #8 surfaceSmoothing level 0.5

Invalid "surfaceSmoothing" argument: Expected true or false (or 1 or 0)  

> volume #8 surfaceSmoothing level 0.5 surfaceSmoothing true

Invalid "surfaceSmoothing" argument: Expected true or false (or 1 or 0)  

> help volume surface

> volume #8 level 144.3

> volume #8 level 145.1

> vop gaussian #2 sdev3

> volume gaussian #2 sdev3

Expected a keyword  

> vop gaussian #2 sdev 3

Opened 22t7membranes.mrc gaussian as #9, grid size 512,512,256, pixel 1, shown
at step 1, values uint8  

> hide #!7 models

> hide #!6 models

> hide #!5 models

> hide #!8 models

> volume #9 level 122.7

> vop gaussian #2 sdev 5

Opened 22t7membranes.mrc gaussian as #10, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> volume #10 level 38.87

> volume #10 color #ff83c9

> volume #10 level 47.24

> vop gaussian #2 sdev 1.5

Opened 22t7membranes.mrc gaussian as #11, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> hide #!10 models

> volume #11 level 26.18

> vop gaussian #2 sdev 2

Opened 22t7membranes.mrc gaussian as #12, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> volume #12 level 47.35

> volume #12 level 72.91

> volume #12 level 88.89

> close #11

> close #10

> close #9

> show #!8 models

> hide #!12 models

> volume #8 level 89.21

> hide #!8 models

> show #!8 models

> hide #!12 models

> show #!12 models

> close #12

> vop gaussian #2 sdev 2.5

Opened 22t7membranes.mrc gaussian as #9, grid size 512,512,256, pixel 1, shown
at step 1, values uint8  

> hide #!8 models

> volume #9 level 72.83

> volume #8 level 71.83

> hide #!9 models

> show #!9 models

> hide #!8 models

> show #!8 models

> hide #!9 models

> show #!9 models

> hide #!8 models

> vop gaussian #2 sdev 3

Opened 22t7membranes.mrc gaussian as #10, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> hide #!9 models

> volume #10 level 69.57

> close #9

> close #8

> color #10 #ffd72aff models

> color #10 #ffd513ff models

> show #!7 models

> show #!5 models

> show #!6 models

> color #5 #faf9fdff models

> color #5 #d2d1d5ff models

> color #5 #3ab1d5ff models

> color #5 #35c4d5ff models

> color #5 #2daed5ff models

> color #5 #29b6d5ff models

> color #5 #2dc8eaff models

> color #5 #5dcceaff models

> color #5 #77cceaff models

> color #5 #45bceaff models

> color #5 #61c8eaff models

> volume #7 color #b455ef80

> volume #7 color #b455ef

> volume #7 color #b455ef89

> volume #6 color #5d8f71

> volume #6 color #359b76

> volume #6 color #42c293

> hide #!10 models

> vop median #2 radius 1

> volume median #2 radius 1

Expected a keyword  

> show #!10 models

> save "/Users/tatjana.taubitz/Desktop/Images for
> publication/22t7Segmentation.cxs"

> open /Users/tatjana.taubitz/Desktop/rec_la22t7.mrc

Opened rec_la22t7.mrc as #8, grid size 512,512,192, pixel 12.5, shown at level
0.64, step 2, values float32  

> color #8 black models

> volume #8 level -1.914

> color #8 #b6f4b7ff models

> color #8 #e8f4e9ff models

> volume #8 level 0.4786

> volume #8 style mesh

> volume #8 style image

> volume #8 level -0.3323,0 level 0.6391,0.8 level 6.165,1

[Repeated 1 time(s)]

> volume #8 level -0.3323,0 level -3.393,0.4462 level 6.165,1

> volume #8 region 0,0,0,511,511,191 step 1 colorMode opaque8 showOutlineBox
> true orthoplanes xyz positionPlanes 255,255,95 imageMode orthoplanes

> close #8

> open /Volumes/abt3-em/krios-
> temp/Tatjana/Segmentation/microtubules/tomos/interference_deepclean2_12px/rec_la22t7.tiff

Opened rec_la22t7.tiff as #8, grid size 256,256,128, pixel 1, shown at level
0.812, step 1, values float32  

> volume #8 level 0.3856

> close #8

> open /Volumes/abt3-em/krios-
> temp/Tatjana/Segmentation/microtubules/tomos/job059/tomograms/rec_la22t7.mrc

Opened rec_la22t7.mrc as #8, grid size 512,512,256, pixel 12.5, shown at level
0.648, step 2, values float32  

> volume #8 level 1.457

> close #8

> open /Volumes/abt3-em/krios-
> temp/Tatjana/Segmentation/microtubules/tomos/job060/tomograms/rec_la22t7.mrc

Opened rec_la22t7.mrc as #8, grid size 512,512,192, pixel 12.5, shown at level
0.64, step 2, values float32  

> volume #8 level 0.2367

> volume #8 style image

> volume #8 level -0.3323,0 level 0.6391,0.8 level 6.165,1

> volume #8 level -0.3323,0 level 0.02091,0.8923 level 6.165,1

> volume #8 colormapSize gray

Invalid "colormapSize" argument: Expected an integer  

> volume #8

> volume list

Expected a density maps specifier or a keyword  

> info #8

3 models  
#8, rec_la22t7.mrc, shown size 512,512,192, step 2, voxel size 12.48,
level/intensity -0.3323 (0.00), 0.02091 (0.89), 6.165 (1.00), value range
-8.376 - 6.1654, value type float32, 0 symmetry operators  
#8.1, surface, hidden, 8077466 triangles  
#8.2, image, shown  

> volume #8 step 8

> volume #8 step 2

> volume #8 step 1

> volume #8 step 2

> hide #!8 models

> volume copy #5 id #11

Expected a keyword  

> volume copy #5

Opened 22t7mitoproteins.mrc gaussian copy as #9, grid size 512,512,256, pixel
1, shown at step 1, values uint8  

> volume copy #6

Opened 22t7microtubuli.mrc gaussian copy as #11, grid size 512,512,256, pixel
1, shown at step 1, values uint8  

> volume copy #7

Opened 22t7ribosomes.mrc gaussian copy as #12, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> volume copy #10

Opened 22t7membranes.mrc gaussian copy as #13, grid size 512,512,256, pixel 1,
shown at step 1, values uint8  

> hide #!9 models

> show #!9 models

> volume #12 region 0,0,130,512,512,256

> show #!8 models

> volume #8 maximumIntensityProjection true

> volume #8 style surface maximumIntensityProjection false

> volume #8 style image

> volume #9 voxelSize 12.48

> volume #11 voxelSize 12.48

> volume #12 voxelSize 12.48

> volume #13 voxelSize 12.48

> show #!8 models

> hide #!8 models

> open /Volumes/abt3-em/krios-
> temp/Tatjana/Segmentation/microtubules/tomos/job059/tomograms/rec_la22t7.mrc

Opened rec_la22t7.mrc as #14, grid size 512,512,256, pixel 12.5, shown at
level 0.648, step 2, values float32  

> volume #14 style image

> hide #!8 models

> view #8 clip false

No displayed objects specified.  

> volume #14 level -0.336,0 level 0.6473,0.8 level 6.264,1

> volume #14 level -0.336,0 level -1.86,0.1077 level 6.264,1

> volume #14 level -1.01,0.9077 level -1.86,0.1077 level 6.264,1

> volume #14 level -1.01,0.9077 level -1.86,0.1077 level 2.058,0.2462

> volume #14 level -0.3629,0.4615 level -1.86,0.1077 level 2.058,0.2462

> volume #14 region 0,0,126,511,511,126 step 1 showOutlineBox true

> volume #14 region 0,0,0,511,511,255 step 2

[Repeated 1 time(s)]

> volume #14 level -0.3629,0.4615 level -1.86,0.1077 level 2.84,0.9692

> volume #14 level 0.6887,0.9538 level -1.86,0.1077 level 2.84,0.9692

> volume #14 colormag gray

Expected a keyword  

> volume #14 colormapSize gray

Invalid "colormapSize" argument: Expected an integer  

> volume #14 style image

> volume #14 colormapSize gray

Invalid "colormapSize" argument: Expected an integer  

> ui tool show "Volume Viewer"

> volume #14 color grey color #ffb3ff color #ffb3ff

> volume #14 color #404040 color #ffb3ff color #ffb3ff

> volume #14 level 0.01,0.1

> volume #14 color #929292

> volume #14 level -2.794,0.3923

> volume #14 level -0.9068,0.8538

> volume #14 level -1.203,0.2538

> volume #14 level 1.25,0.4923

> volume #14 step 4

> volume #14 step 2

> volume #14 level -1.581,0.7385

> volume #14 level 1,1

> volume #14 level -1,1

> volume #14 level -1,-1

> volume #14 level 0.1594,0.6615

> volume #14 level -2.618,0.6615

> volume #14 level -1,-5

> volume #14 level -1,-10

> volume #14 level 0,0

> volume #14 level 0,100

> volume #14 level 0,100 level 0.2781,0.9692 color #929292 color #929292

> volume #14 level 0,100 level 1.114,0.6923

> volume #14 level -1.294,0.6154 level 1.114,0.6923

> volume #14 level -1.294,0.6154 level 1.491,0.7846

> volume #14 level -1.834,0.4308 level 1.491,0.7846

> volume #14 level -1.834,0.4308 level 0.8173,0.7385

> volume #14 region 0,0,140,512,512,150

> volume #14 region 0,0,155,512,512,165

> info #14

3 models  
#14, rec_la22t7.mrc, shown size 512,512,256, step 1, voxel size 12.48,
level/intensity -1.834 (0.43), 0.8173 (0.74), value range -8.8929 - 5.8446,
value type float32, 0 symmetry operators  
#14.1, surface, hidden, 647888 triangles  
#14.2, image, shown  

> volume #14 level -2,2

> volume #14 level -8,6

> volume #14 style image

> volume #14 level -3,3

> volume #14 level -1.556,0.6

> volume #14 color black

> volume #14 color #797979

> volume #14 level 1.059,0.6769

> volume #14 level -2.019,0.5077

> volume #14 region 0,0,160,511,511,160 step 1

> volume #14 step 2

> volume #14 level 1.111,0.7846

> volume #14 level -3,3

> hide #!12 models

> hide #!9 models

> show #!9 models

> hide #!13 models

> volume #14 level -2,2

> volume #14 region 0,0,0,511,511,255 step 16

> volume #14 region 0,0,0,511,511,255 step 4 colorMode opaque8 orthoplanes xyz
> positionPlanes 255,255,127 imageMode orthoplanes

> volume #14 step 2

> volume #14 level -0.8857,0.4769

> volume #14 step 8

> volume #14 level -0.8092,0.5692

> volume #14 level 2,0.5692

> volume #14 step 2

> volume #14 level -1.25,0.6462

> volume #14 step 1

> volume #14 region 0,0,0,511,511,255 step 2 imageMode "box faces"

> volume #14 region 0,0,0,511,511,255 step 8 colorMode auto8 imageMode "tilted
> slab" tiltedSlabAxis 0.1908,0.4838,-0.8541 tiltedSlabOffset 762.5
> tiltedSlabSpacing 12.48 tiltedSlabPlaneCount 6

> volume #14 step 2

> volume #14 level -0.1985,0.3231

> volume #14 level -1.708,0.5692

> volume #14 maximumIntensityProjection true imageMode "full region"

> volume #14 style mesh maximumIntensityProjection false

> volume #14 style image

> hide #!14 models

> show #!13 models

> show #!12 models

> show #!6 models

> hide #!6 models

> open /Volumes/abt3-em/krios-
> temp/Tatjana/Segmentation/microtubules/tomos/interference_deepclean2_12px/rec_la22t7.tiff

Opened rec_la22t7.tiff as #15, grid size 256,256,128, pixel 1, shown at level
0.812, step 1, values float32  

> volume #15 voxelSize 12.48

> volume #15 style image

> volume #15 level -2,2

> volume #15 level 0.1134,0.8462

> volume #15 color #797979

> volume #15 level -2,1

> volume #15 level -2,0.1

> volume #15 level -2,0.01

> volume #15 level -2,0.2

> volume #15 level -2,0.3

> volume #15 level -2,0.5

> volume #15 showOutlineBox true

> volume #15 showOutlineBox false

> volume #15 level -2,0.5 level 0.5866,0.5077 color #797979 color #797979

> volume #15 level -2,0.5

> volume #15 level -1,0.5

> volume #15 color #797979

> close #15

> save "/Users/tatjana.taubitz/Desktop/Images for
> publication/22t7Segmentation.cxs"

——— End of log from Thu Jul 17 08:54:40 2025 ———

opened ChimeraX session  

> artiax start

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

    
    
    set bgColor black
    lighting depthCue false
    camera ortho

  

> set bgColor white

> color #12 #b455efff models

> volume #12 region 0,0,189,512,512,256

> volume #12 region 0,0,195,512,512,256

> volume #12 region 0,0,175,512,512,256

> volume #12 region 0,0,185,512,512,256

> artiax add tomo #14

Opened rec_la22t7.mrc as #15.1.1, grid size 512,512,256, pixel 12.5, shown at
level 0.648, step 2, values float32  

> artiax clip off

> artiax tomo #15.1.1 sliceDirection 0,0,1

> artiax view xy

> artiax tomo #15.1.1 slice 207

Opened Filtered rec_la22t7.mrc pixels, lp=900.0 as #15.1.2, grid size
512,512,256, pixel 12.5, shown at level 0.648, step 1, values float32  

> artiax clip off

> artiax filter #15.1.1 900.0 0 lpd None hpd None unit pixels lpCutoff
> gaussian hpCutoff gaussian threshold 0.001

> artiax tomo #15.1.2 slice 142

> show #!15.1.1 models

> hide #!15.1.1 models

> show #!15.1.1 models

> artiax tomo #15.1.2 slice 88

> hide #!15.1.1 models

> show #!15.1.1 models

> artiax tomo #15.1.1 slice 92

> hide #!15.1.1 models

> show #!15.1.1 models

> hide #!15.1.1 models

> show #!15.1.1 models

> artiax tomo #15.1.1 slice 85

> hide #!15.1.1 models

> show #!15.1.1 models

> hide #!15.1.1 models

> artiax tomo #15.1.2 slice 196

> save "/Users/tatjana.taubitz/Desktop/Images for
> publication/22t7Segmentation.cxs"

——— End of log from Thu Jul 17 15:29:31 2025 ———

opened ChimeraX session  

> hide #!15 models

> open rec_la22t7.merc

Unrecognized file suffix '.merc'  

> open rec_la22t7.mrc

Opened rec_la22t7.mrc as #14, grid size 512,512,256, pixel 12.5, shown at
level 0.648, step 2, values float32  

> volume #14 style image colorMode opaque8 showOutlineBox true imageMode "box
> faces"

> volume #14 color #eaffde color #ffffb3 color #ffffb3

> volume #14 color white color #ffffb3 color #ffffb3

> volume #14 color #00f900 color #ffffb3 color #ffffb3

> volume #14 color white color #ffffb3 color #ffffb3

> volume #14 color black color #ffffb3 color #ffffb3

> volume 47 region 0,0,130,512,512,256

Expected a density maps specifier or a keyword  

> volume #14 region 0,0,130,512,512,256

> volume #14 region 0,0,130,511,511,255 step 2 colorMode auto8 imageMode
> "tilted slab" tiltedSlabAxis 0.0601,0.5243,-0.8494 tiltedSlabOffset -250.6
> tiltedSlabSpacing 12.48 tiltedSlabPlaneCount 12

> volume #14 region 0,0,192,511,511,192 step 1 imageMode "full region"

> volume #14 region 0,0,0,511,511,255 step 2

> volume #14 region 0,0,0,511,511,255 step 2 maximumIntensityProjection true

> hide #!15.1 models

> hide #15.2 models

> hide #15.3 models

> hide #!14 models

> show #!14 models

> volume #14 maximumIntensityProjection false

> volume #14 style mesh

> volume #14 style surface

> volume #14 style image region 0,0,126,511,511,126 step 1

> volume #14 color black color #ffffb3 color #ffffb3

> volume #14 region 0,0,0,511,511,255 step 2

> volume #14 region 0,0,0,511,511,255 step 1 colorMode opaque8 orthoplanes xyz
> positionPlanes 255,255,127 imageMode orthoplanes

> volume #14 imageMode "box faces"

> set bgColor black

> ui tool show "Surface Color"

> volume #1 orthoplanes xyz

[Repeated 7 time(s)]

> volume #14 imageMode orthoplanes

> volume #14 showOutlineBox false

> volume #13 showOutlineBox false

> volume #12 showOutlineBox false

> volume #11 showOutlineBox false

> volume #9 showOutlineBox false

> volume #14 region 0,0,126,511,511,126 step 1 colorMode auto8 showOutlineBox
> true imageMode "full region"

> select ~sel & ##selected

Nothing selected  

> volume #1 white

Expected a keyword  

> volume #1 color white

[Repeated 1 time(s)]

> volume #14 region 0,0,0,511,511,255 step 2

> volume #14 region 0,0,0,511,511,255 step 1 colorMode opaque8 imageMode
> orthoplanes

> volume #1 color white

[Repeated 3 time(s)]

> volume #14 color #aa7942 color #ffffb3 color #ffffb3

> volume #14 color black color #ffffb3 color #ffffb3

> volume #14 color white color #ffffb3 color #ffffb3

> volume #14 color #fffb00 color #ffffb3 color #ffffb3

> volume #14 color white color #ffffb3 color #ffffb3

> volume #14 color black color #ffffb3 color #ffffb3

> set bgColor white

[Repeated 1 time(s)]

> set bgColor black

> volume #14 colormapSize gray

Invalid "colormapSize" argument: Expected an integer  

> volume #14 color gray

> volume #14 color #bfbfbf color grey color grey

> volume #14 color #bbbbbb color grey color grey

> volume #14 color #bababa color grey color grey

> volume #14 orthoplanes xy,xz

Invalid "orthoplanes" argument: Should be one of 'off', 'xy', 'xyz', 'xz', or
'yz'  

> volume #9 region 0,0,0,511,511,255

> ui mousemode right "translate selected atoms"

> ui mousemode right "move picked models"

> view matrix models #14,1,0,0,-75.165,0,1,0,267.31,0,0,1,220.04

> undo

> ui mousemode right "move planes"

> volume #9 region 0,0,0,511,511,255

[Repeated 1 time(s)]

> ui mousemode right "rotate slab"

> volume #9 tiltedSlabAxis -0.3013,-0.789,-0.5355 tiltedSlabOffset -1416

> ui mousemode right "move picked models"

> view matrix models #14,1,0,0,-70.084,0,1,0,161.76,0,0,1,120.97

> undo

> ui mousemode right zoom

> ui mousemode right translate

> ui mousemode right pivot

> ui mousemode right "rotate selected models"

> ui mousemode right "move planes"

> volume #9 region 0,0,0,511,511,255

> ui mousemode right "next docked"

> ui mousemode right "crop volume"

> volume #9 region 0,0,0,511,511,255

> ui mousemode right "rotate slab"

> volume #9 tiltedSlabAxis -0.36,-0.702,-0.6145 tiltedSlabOffset -1178

> ui mousemode right "contour level"

> volume #14 level -0.1636,0 level 0.8197,0.8 level 8.562,1

> undo

> volume #14 level -0.4393,0 level 0.5439,0.8 level 8.286,1

> ui mousemode right clip

> ui mousemode right "clip rotate"

> ui mousemode right distance

> ui mousemode right "bond rotation"

> ui mousemode right select

> select #14

3 models selected  
Drag select of 13 22t7membranes.mrc gaussian copy  
Drag select of 9 22t7mitoproteins.mrc gaussian copy , 12 22t7ribosomes.mrc
gaussian copy , 13 22t7membranes.mrc gaussian copy  

> volume #14 region 0,0,126,511,511,126 step 1 colorMode auto8 imageMode "full
> region"

> volume #9 region 0,0,0,511,511,255

> volume #14 region 0,0,0,511,511,255 step 2

> volume #14 region 0,0,0,511,511,255 step 1 colorMode opaque8 imageMode
> orthoplanes

> ui mousemode right select

> select clear

> ui mousemode right rotate

> volume #14 orthoplanes position 5

Invalid "orthoplanes" argument: Should be one of 'off', 'xy', 'xyz', 'xz', or
'yz'  

> volume #14 style mesh

> volume #14 style image region 0,0,0,511,511,255 step 2

> volume #14 orthoplanes xyz positionPlanes 5,10,0

> volume #14 orthoplanes xyz positionPlanes 5,10,192

> volume #14 orthoplanes xyz positionPlanes 2,2,192

> volume #14 orthoplanes xyz positionPlanes 0,0,192

> select add #9

3 models selected  

> select subtract #9

Nothing selected  

> select add #9

3 models selected  

> select subtract #9

Nothing selected  

> select subtract #12

Nothing selected  

> select subtract #13

Nothing selected  

> hide #!13 models

> hide #!12 models

> hide #!9 models

> hide #!11 models

> volume #14 style image

> volume #14 level -0.3,0 level 0.5439,0.8 level 8.286,1

> volume #14 level -0.5,0 level 0.5439,0.8 level 8.286,1

> volume #14 level -0.7,0 level 0.5439,0.8 level 8.286,1

> volume #14 level -0.2,0 level 0.5439,0.8 level 8.286,1

[Repeated 1 time(s)]

> volume #14 level -0.2,0 level 0.421,0.8 level 8.286,1

> volume #14 level -0.7621,0.01538 level 0.421,0.8 level 8.286,1

> volume #14 level -0.7621,0.01538 level 0.7723,0.8769 level 8.286,1

> volume #14 style surface region 0,0,0,511,511,255 step 1

> volume #14 style image region 0,0,0,511,511,255 step 2 positionPlanes
> 255,255,127

> vop gaussian #14 sdev 3

Opened rec_la22t7.mrc gaussian as #16, grid size 512,512,256, pixel 12.5,
shown at step 1, values float32  

> color #16 #edededff models

> volume #16 color gray

> show #!14 models

> hide #!14 models

> show #!14 models

> hide #!16 models

> show #!16 models

> hide #!14 models

> volume #14 level -0.7621,0.01538 level 0.7196,0.8769 level 8.286,1

> volume #16 level -0.336,0 level 0.6464,0.8 level 6.26,1

> volume #16 level -1.33,0.03077 level 0.6464,0.8 level 6.26,1

> volume #16 level -1.33,0.03077 level 1.054,0.8462 level 6.26,1

> volume #16 level -1.483,0 level 1.054,0.8462 level 6.26,1

> volume #16 color white

> volume #14 orthoplanes xyz positionPlanes 0,0,192

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> volume #16 orthoplanes xyz positionPlanes 0,0,5

> volume #16 orthoplanes xyz positionPlanes 0,0,0

> volume #16 orthoplanes xyz positionPlanes 10,0,0

> volume #16 orthoplanes xyz positionPlanes 0,0,0

> movie record supersample 2 size 1280,720

> volume #16 orthoplanes xyz positionPlanes 0,0,0

> volume #16 step 1,1,1

> view

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,8

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,16

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,24

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,32

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,40

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,48

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,56

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,64

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,72

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,80

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,88

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,96

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,104

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,112

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,120

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,128

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,136

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,144

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,152

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,160

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,168

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,176

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,184

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,200

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,208

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,216

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,224

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,232

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,240

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,248

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,256

> wait 2

> volume #16 hide

> wait 30

> movie encode output orthoplane_XY_sweep_only.mp4

Movie saved to orthoplane_XY_sweep_only.mp4  
  

> show #!13 models

> show #!12 models

> show #!11 models

> show #!9 models

> artiax tomo #15.1.2 slice 153

> show #!15 models

> show #!15.1 models

> show #15.2 models

> show #15.3 models

> artiax tomo #15.1.2 slice 186

> hide #!15 models

> hide #!15.1 models

> show #!15.1 models

> hide #!15 models

> show #!15 models

> hide #!15 models

> show #!16 models

> movie record supersample 2 size 1280,720

> volume #9 style surface region 0,0,256,512,512,256

> volume #9 step 1,1,1

> volume #11 style surface region 0,0,256,512,512,256

> volume #11 step 1,1,1

> volume #12 style surface region 0,0,256,512,512,256

> volume #12 step 1,1,1

> volume #13 style surface region 0,0,256,512,512,256

> volume #13 step 1,1,1

> volume #16 orthoplanes xyz positionPlanes 0,0,0

> volume #16 step 1,1,1

> view

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,8

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,16

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,24

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,32

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,40

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,48

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,56

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,64

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,72

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,80

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,88

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,96

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,104

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,112

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,120

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,128

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,136

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,144

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,152

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,160

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,168

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,176

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,184

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,200

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,208

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,216

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,224

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,232

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,240

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,248

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,256

> wait 2

> wait 30

> volume #16 orthoplanes xyz positionPlanes 0,0,8

> volume #9 region 0,0,248,512,512,256

> volume #11 region 0,0,248,512,512,256

> volume #12 region 0,0,248,512,512,256

> volume #13 region 0,0,248,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,16

> volume #9 region 0,0,240,512,512,256

> volume #11 region 0,0,240,512,512,256

> volume #12 region 0,0,240,512,512,256

> volume #13 region 0,0,240,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,24

> volume #9 region 0,0,232,512,512,256

> volume #11 region 0,0,232,512,512,256

> volume #12 region 0,0,232,512,512,256

> volume #13 region 0,0,232,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,32

> volume #9 region 0,0,224,512,512,256

> volume #11 region 0,0,224,512,512,256

> volume #12 region 0,0,224,512,512,256

> volume #13 region 0,0,224,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,40

> volume #9 region 0,0,216,512,512,256

> volume #11 region 0,0,216,512,512,256

> volume #12 region 0,0,216,512,512,256

> volume #13 region 0,0,216,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,48

> volume #9 region 0,0,208,512,512,256

> volume #11 region 0,0,208,512,512,256

> volume #12 region 0,0,208,512,512,256

> volume #13 region 0,0,208,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,56

> volume #9 region 0,0,200,512,512,256

> volume #11 region 0,0,200,512,512,256

> volume #12 region 0,0,200,512,512,256

> volume #13 region 0,0,200,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,64

> volume #9 region 0,0,192,512,512,256

> volume #11 region 0,0,192,512,512,256

> volume #12 region 0,0,192,512,512,256

> volume #13 region 0,0,192,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,72

> volume #9 region 0,0,184,512,512,256

> volume #11 region 0,0,184,512,512,256

> volume #12 region 0,0,184,512,512,256 # volume #12 stops here

Expected a keyword  

> volume #13 region 0,0,184,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,80

> volume #9 region 0,0,176,512,512,256

> volume #11 region 0,0,176,512,512,256

> volume #13 region 0,0,176,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,88

> volume #9 region 0,0,168,512,512,256

> volume #11 region 0,0,168,512,512,256

> volume #13 region 0,0,168,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,96

> volume #9 region 0,0,160,512,512,256

> volume #11 region 0,0,160,512,512,256

> volume #13 region 0,0,160,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,104

> volume #9 region 0,0,152,512,512,256

> volume #11 region 0,0,152,512,512,256

> volume #13 region 0,0,152,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,112

> volume #9 region 0,0,144,512,512,256

> volume #11 region 0,0,144,512,512,256

> volume #13 region 0,0,144,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,120

> volume #9 region 0,0,136,512,512,256

> volume #11 region 0,0,136,512,512,256

> volume #13 region 0,0,136,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,128

> volume #9 region 0,0,128,512,512,256

> volume #11 region 0,0,128,512,512,256

> volume #13 region 0,0,128,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,136

> volume #9 region 0,0,120,512,512,256

> volume #11 region 0,0,120,512,512,256

> volume #13 region 0,0,120,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,144

> volume #9 region 0,0,112,512,512,256

> volume #11 region 0,0,112,512,512,256

> volume #13 region 0,0,112,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,152

> volume #9 region 0,0,104,512,512,256

> volume #11 region 0,0,104,512,512,256

> volume #13 region 0,0,104,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,160

> volume #9 region 0,0,96,512,512,256

> volume #11 region 0,0,96,512,512,256

> volume #13 region 0,0,96,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,168

> volume #9 region 0,0,88,512,512,256

> volume #11 region 0,0,88,512,512,256

> volume #13 region 0,0,88,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,176

> volume #9 region 0,0,80,512,512,256

> volume #11 region 0,0,80,512,512,256

> volume #13 region 0,0,80,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,184

> volume #9 region 0,0,72,512,512,256

> volume #11 region 0,0,72,512,512,256

> volume #13 region 0,0,72,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> volume #9 region 0,0,64,512,512,256

> volume #11 region 0,0,64,512,512,256

> volume #13 region 0,0,64,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,200

> volume #9 region 0,0,56,512,512,256

> volume #11 region 0,0,56,512,512,256

> volume #13 region 0,0,56,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,208

> volume #9 region 0,0,48,512,512,256

> volume #11 region 0,0,48,512,512,256

> volume #13 region 0,0,48,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,216

> volume #9 region 0,0,40,512,512,256

> volume #11 region 0,0,40,512,512,256

> volume #13 region 0,0,40,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,224

> volume #9 region 0,0,32,512,512,256

> volume #11 region 0,0,32,512,512,256

> volume #13 region 0,0,32,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,232

> volume #9 region 0,0,24,512,512,256

> volume #11 region 0,0,24,512,512,256

> volume #13 region 0,0,24,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,240

> volume #9 region 0,0,16,512,512,256

> volume #11 region 0,0,16,512,512,256

> volume #13 region 0,0,16,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,248

> volume #9 region 0,0,8,512,512,256

> volume #11 region 0,0,8,512,512,256

> volume #13 region 0,0,8,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,256

> volume #9 region 0,0,0,512,512,256

> volume #11 region 0,0,0,512,512,256

> volume #13 region 0,0,0,512,512,256

> wait 2

> volume #16 hide

> movie encode output Animation_full_fingerscrossed.mp4

Movie saved to Animation_full_fingerscrossed.mp4  
  

> movie record supersample 2 size 1280,720

> volume #9 style surface region 0,0,256,512,512,256

> volume #9 step 1,1,1

> volume #11 style surface region 0,0,256,512,512,256

> volume #11 step 1,1,1

> volume #12 style surface region 0,0,256,512,512,256

> volume #12 step 1,1,1

> volume #13 style surface region 0,0,256,512,512,256

> volume #13 step 1,1,1

> volume #16 orthoplanes xyz positionPlanes 0,0,0

> volume #16 step 1,1,1

> view

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,8

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,16

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,24

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,32

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,40

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,48

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,56

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,64

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,72

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,80

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,88

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,96

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,104

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,112

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,120

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,128

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,136

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,144

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,152

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,160

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,168

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,176

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,184

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,200

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,208

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,216

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,224

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,232

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,240

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,248

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,256

> wait 2

> wait 30

> volume #9 show

> volume #11 show

> volume #12 show

> volume #13 show

> volume #16 orthoplanes xyz positionPlanes 0,0,8

> volume #9 region 0,0,248,512,512,256

> volume #11 region 0,0,248,512,512,256

> volume #12 region 0,0,248,512,512,256

> volume #13 region 0,0,248,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,16

> volume #9 region 0,0,240,512,512,256

> volume #11 region 0,0,240,512,512,256

> volume #12 region 0,0,240,512,512,256

> volume #13 region 0,0,240,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,24

> volume #9 region 0,0,232,512,512,256

> volume #11 region 0,0,232,512,512,256

> volume #12 region 0,0,232,512,512,256

> volume #13 region 0,0,232,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,32

> volume #9 region 0,0,224,512,512,256

> volume #11 region 0,0,224,512,512,256

> volume #12 region 0,0,224,512,512,256

> volume #13 region 0,0,224,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,40

> volume #9 region 0,0,216,512,512,256

> volume #11 region 0,0,216,512,512,256

> volume #12 region 0,0,216,512,512,256

> volume #13 region 0,0,216,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,48

> volume #9 region 0,0,208,512,512,256

> volume #11 region 0,0,208,512,512,256

> volume #12 region 0,0,208,512,512,256

> volume #13 region 0,0,208,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,56

> volume #9 region 0,0,200,512,512,256

> volume #11 region 0,0,200,512,512,256

> volume #12 region 0,0,200,512,512,256

> volume #13 region 0,0,200,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,64

> volume #9 region 0,0,192,512,512,256

> volume #11 region 0,0,192,512,512,256

> volume #12 region 0,0,192,512,512,256

> volume #13 region 0,0,192,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,72

> volume #9 region 0,0,184,512,512,256

> volume #11 region 0,0,184,512,512,256

> volume #12 region 0,0,184,512,512,256 # volume #12 stops here

Expected a keyword  

> volume #13 region 0,0,184,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,80

> volume #9 region 0,0,176,512,512,256

> volume #11 region 0,0,176,512,512,256

> volume #13 region 0,0,176,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,88

> volume #9 region 0,0,168,512,512,256

> volume #11 region 0,0,168,512,512,256

> volume #13 region 0,0,168,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,96

> volume #9 region 0,0,160,512,512,256

> volume #11 region 0,0,160,512,512,256

> volume #13 region 0,0,160,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,104

> volume #9 region 0,0,152,512,512,256

> volume #11 region 0,0,152,512,512,256

> volume #13 region 0,0,152,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,112

> volume #9 region 0,0,144,512,512,256

> volume #11 region 0,0,144,512,512,256

> volume #13 region 0,0,144,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,120

> volume #9 region 0,0,136,512,512,256

> volume #11 region 0,0,136,512,512,256

> volume #13 region 0,0,136,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,128

> volume #9 region 0,0,128,512,512,256

> volume #11 region 0,0,128,512,512,256

> volume #13 region 0,0,128,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,136

> volume #9 region 0,0,120,512,512,256

> volume #11 region 0,0,120,512,512,256

> volume #13 region 0,0,120,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,144

> volume #9 region 0,0,112,512,512,256

> volume #11 region 0,0,112,512,512,256

> volume #13 region 0,0,112,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,152

> volume #9 region 0,0,104,512,512,256

> volume #11 region 0,0,104,512,512,256

> volume #13 region 0,0,104,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,160

> volume #9 region 0,0,96,512,512,256

> volume #11 region 0,0,96,512,512,256

> volume #13 region 0,0,96,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,168

> volume #9 region 0,0,88,512,512,256

> volume #11 region 0,0,88,512,512,256

> volume #13 region 0,0,88,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,176

> volume #9 region 0,0,80,512,512,256

> volume #11 region 0,0,80,512,512,256

> volume #13 region 0,0,80,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,184

> volume #9 region 0,0,72,512,512,256

> volume #11 region 0,0,72,512,512,256

> volume #13 region 0,0,72,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> volume #9 region 0,0,64,512,512,256

> volume #11 region 0,0,64,512,512,256

> volume #13 region 0,0,64,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,200

> volume #9 region 0,0,56,512,512,256

> volume #11 region 0,0,56,512,512,256

> volume #13 region 0,0,56,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,208

> volume #9 region 0,0,48,512,512,256

> volume #11 region 0,0,48,512,512,256

> volume #13 region 0,0,48,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,216

> volume #9 region 0,0,40,512,512,256

> volume #11 region 0,0,40,512,512,256

> volume #13 region 0,0,40,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,224

> volume #9 region 0,0,32,512,512,256

> volume #11 region 0,0,32,512,512,256

> volume #13 region 0,0,32,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,232

> volume #9 region 0,0,24,512,512,256

> volume #11 region 0,0,24,512,512,256

> volume #13 region 0,0,24,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,240

> volume #9 region 0,0,16,512,512,256

> volume #11 region 0,0,16,512,512,256

> volume #13 region 0,0,16,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,248

> volume #9 region 0,0,8,512,512,256

> volume #11 region 0,0,8,512,512,256

> volume #13 region 0,0,8,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,256

> volume #9 region 0,0,0,512,512,256

> volume #11 region 0,0,0,512,512,256

> volume #13 region 0,0,0,512,512,256

> wait 2

> volume #16 hide

> movie encode output Animation_full_fingerscrossed.mp4

Movie saved to Animation_full_fingerscrossed.mp4  
  

> show #!16 models

> hide #!9 models

> hide #!11 models

> hide #!12 models

> hide #!13 models

> movie record supersample 2 size 1280,720

> volume #9 style surface region 0,0,256,512,512,256

> volume #9 step 1,1,1

> volume #11 style surface region 0,0,256,512,512,256

> volume #11 step 1,1,1

> volume #12 style surface region 0,0,256,512,512,256

> volume #12 step 1,1,1

> volume #13 style surface region 0,0,256,512,512,256

> volume #13 step 1,1,1

> volume #16 orthoplanes xyz positionPlanes 0,0,0

> volume #16 step 1,1,1

> view

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,8

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,16

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,24

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,32

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,40

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,48

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,56

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,64

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,72

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,80

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,88

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,96

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,104

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,112

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,120

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,128

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,136

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,144

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,152

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,160

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,168

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,176

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,184

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,200

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,208

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,216

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,224

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,232

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,240

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,248

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,256

> wait 2

> wait 30

> volume #9 show

> volume #11 show

> volume #12 show

> volume #13 show

> volume #16 orthoplanes xyz positionPlanes 0,0,8

> volume #9 region 0,0,248,512,512,256

> volume #11 region 0,0,248,512,512,256

> volume #12 region 0,0,248,512,512,256

> volume #13 region 0,0,248,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,16

> volume #9 region 0,0,240,512,512,256

> volume #11 region 0,0,240,512,512,256

> volume #12 region 0,0,240,512,512,256

> volume #13 region 0,0,240,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,24

> volume #9 region 0,0,232,512,512,256

> volume #11 region 0,0,232,512,512,256

> volume #12 region 0,0,232,512,512,256

> volume #13 region 0,0,232,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,32

> volume #9 region 0,0,224,512,512,256

> volume #11 region 0,0,224,512,512,256

> volume #12 region 0,0,224,512,512,256

> volume #13 region 0,0,224,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,40

> volume #9 region 0,0,216,512,512,256

> volume #11 region 0,0,216,512,512,256

> volume #12 region 0,0,216,512,512,256

> volume #13 region 0,0,216,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,48

> volume #9 region 0,0,208,512,512,256

> volume #11 region 0,0,208,512,512,256

> volume #12 region 0,0,208,512,512,256

> volume #13 region 0,0,208,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,56

> volume #9 region 0,0,200,512,512,256

> volume #11 region 0,0,200,512,512,256

> volume #12 region 0,0,200,512,512,256

> volume #13 region 0,0,200,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,64

> volume #9 region 0,0,192,512,512,256

> volume #11 region 0,0,192,512,512,256

> volume #12 region 0,0,192,512,512,256

> volume #13 region 0,0,192,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,72

> volume #9 region 0,0,184,512,512,256

> volume #11 region 0,0,184,512,512,256

> volume #12 region 0,0,184,512,512,256 # volume #12 stops here

Expected a keyword  

> volume #13 region 0,0,184,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,80

> volume #9 region 0,0,176,512,512,256

> volume #11 region 0,0,176,512,512,256

> volume #13 region 0,0,176,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,88

> volume #9 region 0,0,168,512,512,256

> volume #11 region 0,0,168,512,512,256

> volume #13 region 0,0,168,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,96

> volume #9 region 0,0,160,512,512,256

> volume #11 region 0,0,160,512,512,256

> volume #13 region 0,0,160,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,104

> volume #9 region 0,0,152,512,512,256

> volume #11 region 0,0,152,512,512,256

> volume #13 region 0,0,152,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,112

> volume #9 region 0,0,144,512,512,256

> volume #11 region 0,0,144,512,512,256

> volume #13 region 0,0,144,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,120

> volume #9 region 0,0,136,512,512,256

> volume #11 region 0,0,136,512,512,256

> volume #13 region 0,0,136,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,128

> volume #9 region 0,0,128,512,512,256

> volume #11 region 0,0,128,512,512,256

> volume #13 region 0,0,128,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,136

> volume #9 region 0,0,120,512,512,256

> volume #11 region 0,0,120,512,512,256

> volume #13 region 0,0,120,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,144

> volume #9 region 0,0,112,512,512,256

> volume #11 region 0,0,112,512,512,256

> volume #13 region 0,0,112,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,152

> volume #9 region 0,0,104,512,512,256

> volume #11 region 0,0,104,512,512,256

> volume #13 region 0,0,104,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,160

> volume #9 region 0,0,96,512,512,256

> volume #11 region 0,0,96,512,512,256

> volume #13 region 0,0,96,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,168

> volume #9 region 0,0,88,512,512,256

> volume #11 region 0,0,88,512,512,256

> volume #13 region 0,0,88,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,176

> volume #9 region 0,0,80,512,512,256

> volume #11 region 0,0,80,512,512,256

> volume #13 region 0,0,80,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,184

> volume #9 region 0,0,72,512,512,256

> volume #11 region 0,0,72,512,512,256

> volume #13 region 0,0,72,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> volume #9 region 0,0,64,512,512,256

> volume #11 region 0,0,64,512,512,256

> volume #13 region 0,0,64,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,200

> volume #9 region 0,0,56,512,512,256

> volume #11 region 0,0,56,512,512,256

> volume #13 region 0,0,56,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,208

> volume #9 region 0,0,48,512,512,256

> volume #11 region 0,0,48,512,512,256

> volume #13 region 0,0,48,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,216

> volume #9 region 0,0,40,512,512,256

> volume #11 region 0,0,40,512,512,256

> volume #13 region 0,0,40,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,224

> volume #9 region 0,0,32,512,512,256

> volume #11 region 0,0,32,512,512,256

> volume #13 region 0,0,32,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,232

> volume #9 region 0,0,24,512,512,256

> volume #11 region 0,0,24,512,512,256

> volume #13 region 0,0,24,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,240

> volume #9 region 0,0,16,512,512,256

> volume #11 region 0,0,16,512,512,256

> volume #13 region 0,0,16,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,248

> volume #9 region 0,0,8,512,512,256

> volume #11 region 0,0,8,512,512,256

> volume #13 region 0,0,8,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,256

> volume #9 region 0,0,0,512,512,256

> volume #11 region 0,0,0,512,512,256

> volume #13 region 0,0,0,512,512,256

> wait 2

> volume #16 hide

> movie encode output Animation_full_fingerscrossed.mp4

Movie saved to Animation_full_fingerscrossed.mp4  
  

> movie record supersample 2 size 1280,720

> volume #9 hide

> volume #11 hide

> volume #12 hide

> volume #13 hide

> volume #16 show

> volume #16 orthoplanes xyz positionPlanes 0,0,0

> volume #16 step 1,1,1

> view

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,8

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,16

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,24

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,32

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,40

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,48

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,56

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,64

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,72

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,80

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,88

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,96

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,104

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,112

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,120

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,128

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,136

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,144

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,152

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,160

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,168

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,176

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,184

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,200

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,208

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,216

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,224

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,232

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,240

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,248

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,256

> wait 2

> wait 30

> volume #9 show

> volume #11 show

> volume #12 show

> volume #13 show

> volume #16 orthoplanes xyz positionPlanes 0,0,8

> volume #9 region 0,0,248,512,512,256

> volume #11 region 0,0,248,512,512,256

> volume #12 region 0,0,248,512,512,256

> volume #13 region 0,0,248,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,16

> volume #9 region 0,0,240,512,512,256

> volume #11 region 0,0,240,512,512,256

> volume #12 region 0,0,240,512,512,256

> volume #13 region 0,0,240,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,24

> volume #9 region 0,0,232,512,512,256

> volume #11 region 0,0,232,512,512,256

> volume #12 region 0,0,232,512,512,256

> volume #13 region 0,0,232,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,32

> volume #9 region 0,0,224,512,512,256

> volume #11 region 0,0,224,512,512,256

> volume #12 region 0,0,224,512,512,256

> volume #13 region 0,0,224,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,40

> volume #9 region 0,0,216,512,512,256

> volume #11 region 0,0,216,512,512,256

> volume #12 region 0,0,216,512,512,256

> volume #13 region 0,0,216,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,48

> volume #9 region 0,0,208,512,512,256

> volume #11 region 0,0,208,512,512,256

> volume #12 region 0,0,208,512,512,256

> volume #13 region 0,0,208,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,56

> volume #9 region 0,0,200,512,512,256

> volume #11 region 0,0,200,512,512,256

> volume #12 region 0,0,200,512,512,256

> volume #13 region 0,0,200,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,64

> volume #9 region 0,0,192,512,512,256

> volume #11 region 0,0,192,512,512,256

> volume #12 region 0,0,192,512,512,256

> volume #13 region 0,0,192,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,72

> volume #9 region 0,0,184,512,512,256

> volume #11 region 0,0,184,512,512,256

> volume #12 region 0,0,184,512,512,256 # volume #12 stops here

Expected a keyword  

> volume #13 region 0,0,184,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,80

> volume #9 region 0,0,176,512,512,256

> volume #11 region 0,0,176,512,512,256

> volume #13 region 0,0,176,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,88

> volume #9 region 0,0,168,512,512,256

> volume #11 region 0,0,168,512,512,256

> volume #13 region 0,0,168,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,96

> volume #9 region 0,0,160,512,512,256

> volume #11 region 0,0,160,512,512,256

> volume #13 region 0,0,160,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,104

> volume #9 region 0,0,152,512,512,256

> volume #11 region 0,0,152,512,512,256

> volume #13 region 0,0,152,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,112

> volume #9 region 0,0,144,512,512,256

> volume #11 region 0,0,144,512,512,256

> volume #13 region 0,0,144,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,120

> volume #9 region 0,0,136,512,512,256

> volume #11 region 0,0,136,512,512,256

> volume #13 region 0,0,136,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,128

> volume #9 region 0,0,128,512,512,256

> volume #11 region 0,0,128,512,512,256

> volume #13 region 0,0,128,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,136

> volume #9 region 0,0,120,512,512,256

> volume #11 region 0,0,120,512,512,256

> volume #13 region 0,0,120,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,144

> volume #9 region 0,0,112,512,512,256

> volume #11 region 0,0,112,512,512,256

> volume #13 region 0,0,112,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,152

> volume #9 region 0,0,104,512,512,256

> volume #11 region 0,0,104,512,512,256

> volume #13 region 0,0,104,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,160

> volume #9 region 0,0,96,512,512,256

> volume #11 region 0,0,96,512,512,256

> volume #13 region 0,0,96,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,168

> volume #9 region 0,0,88,512,512,256

> volume #11 region 0,0,88,512,512,256

> volume #13 region 0,0,88,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,176

> volume #9 region 0,0,80,512,512,256

> volume #11 region 0,0,80,512,512,256

> volume #13 region 0,0,80,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,184

> volume #9 region 0,0,72,512,512,256

> volume #11 region 0,0,72,512,512,256

> volume #13 region 0,0,72,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> volume #9 region 0,0,64,512,512,256

> volume #11 region 0,0,64,512,512,256

> volume #13 region 0,0,64,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,200

> volume #9 region 0,0,56,512,512,256

> volume #11 region 0,0,56,512,512,256

> volume #13 region 0,0,56,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,208

> volume #9 region 0,0,48,512,512,256

> volume #11 region 0,0,48,512,512,256

> volume #13 region 0,0,48,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,216

> volume #9 region 0,0,40,512,512,256

> volume #11 region 0,0,40,512,512,256

> volume #13 region 0,0,40,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,224

> volume #9 region 0,0,32,512,512,256

> volume #11 region 0,0,32,512,512,256

> volume #13 region 0,0,32,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,232

> volume #9 region 0,0,24,512,512,256

> volume #11 region 0,0,24,512,512,256

> volume #13 region 0,0,24,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,240

> volume #9 region 0,0,16,512,512,256

> volume #11 region 0,0,16,512,512,256

> volume #13 region 0,0,16,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,248

> volume #9 region 0,0,8,512,512,256

> volume #11 region 0,0,8,512,512,256

> volume #13 region 0,0,8,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,256

> volume #9 region 0,0,0,512,512,256

> volume #11 region 0,0,0,512,512,256

> volume #13 region 0,0,0,512,512,256

> wait 2

> volume #16 hide

> movie encode output Animation_full_fingerscrossed.mp4

Movie saved to Animation_full_fingerscrossed.mp4  
  

> movie record supersample 2 size 1280,720

> volume #9 hide

> volume #11 hide

> volume #12 hide

> volume #13 hide

> volume #16 show

> volume #16 orthoplanes xyz positionPlanes 0,0,0

> volume #16 step 1,1,1

> view

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,8

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,16

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,24

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,32

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,40

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,48

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,56

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,64

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,72

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,80

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,88

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,96

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,104

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,112

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,120

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,128

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,136

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,144

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,152

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,160

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,168

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,176

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,184

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,200

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,208

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,216

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,224

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,232

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,240

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,248

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,256

> wait 2

> wait 30

> volume #9 show

> volume #11 show

> volume #12 show

> volume #13 show

> volume #16 orthoplanes xyz positionPlanes 0,0,248

> volume #9 region 0,0,248,512,512,256

> volume #11 region 0,0,248,512,512,256

> volume #12 region 0,0,248,512,512,256

> volume #13 region 0,0,248,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,240

> volume #9 region 0,0,240,512,512,256

> volume #11 region 0,0,240,512,512,256

> volume #12 region 0,0,240,512,512,256

> volume #13 region 0,0,240,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,232

> volume #9 region 0,0,232,512,512,256

> volume #11 region 0,0,232,512,512,256

> volume #12 region 0,0,232,512,512,256

> volume #13 region 0,0,232,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,224

> volume #9 region 0,0,224,512,512,256

> volume #11 region 0,0,224,512,512,256

> volume #12 region 0,0,224,512,512,256

> volume #13 region 0,0,224,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,216

> volume #9 region 0,0,216,512,512,256

> volume #11 region 0,0,216,512,512,256

> volume #12 region 0,0,216,512,512,256

> volume #13 region 0,0,216,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,208

> volume #9 region 0,0,208,512,512,256

> volume #11 region 0,0,208,512,512,256

> volume #12 region 0,0,208,512,512,256

> volume #13 region 0,0,208,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,200

> volume #9 region 0,0,200,512,512,256

> volume #11 region 0,0,200,512,512,256

> volume #12 region 0,0,200,512,512,256

> volume #13 region 0,0,200,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,192

> volume #9 region 0,0,192,512,512,256

> volume #11 region 0,0,192,512,512,256

> volume #12 region 0,0,192,512,512,256

> volume #13 region 0,0,192,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,184

> volume #9 region 0,0,184,512,512,256

> volume #11 region 0,0,184,512,512,256

> volume #12 region 0,0,184,512,512,256 # stops here

Expected a keyword  

> volume #13 region 0,0,184,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,176

> volume #9 region 0,0,176,512,512,256

> volume #11 region 0,0,176,512,512,256

> volume #13 region 0,0,176,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,168

> volume #9 region 0,0,168,512,512,256

> volume #11 region 0,0,168,512,512,256

> volume #13 region 0,0,168,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,160

> volume #9 region 0,0,160,512,512,256

> volume #11 region 0,0,160,512,512,256

> volume #13 region 0,0,160,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,152

> volume #9 region 0,0,152,512,512,256

> volume #11 region 0,0,152,512,512,256

> volume #13 region 0,0,152,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,144

> volume #9 region 0,0,144,512,512,256

> volume #11 region 0,0,144,512,512,256

> volume #13 region 0,0,144,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,136

> volume #9 region 0,0,136,512,512,256

> volume #11 region 0,0,136,512,512,256

> volume #13 region 0,0,136,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,128

> volume #9 region 0,0,128,512,512,256

> volume #11 region 0,0,128,512,512,256

> volume #13 region 0,0,128,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,120

> volume #9 region 0,0,120,512,512,256

> volume #11 region 0,0,120,512,512,256

> volume #13 region 0,0,120,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,112

> volume #9 region 0,0,112,512,512,256

> volume #11 region 0,0,112,512,512,256

> volume #13 region 0,0,112,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,104

> volume #9 region 0,0,104,512,512,256

> volume #11 region 0,0,104,512,512,256

> volume #13 region 0,0,104,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,96

> volume #9 region 0,0,96,512,512,256

> volume #11 region 0,0,96,512,512,256

> volume #13 region 0,0,96,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,88

> volume #9 region 0,0,88,512,512,256

> volume #11 region 0,0,88,512,512,256

> volume #13 region 0,0,88,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,80

> volume #9 region 0,0,80,512,512,256

> volume #11 region 0,0,80,512,512,256

> volume #13 region 0,0,80,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,72

> volume #9 region 0,0,72,512,512,256

> volume #11 region 0,0,72,512,512,256

> volume #13 region 0,0,72,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,64

> volume #9 region 0,0,64,512,512,256

> volume #11 region 0,0,64,512,512,256

> volume #13 region 0,0,64,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,56

> volume #9 region 0,0,56,512,512,256

> volume #11 region 0,0,56,512,512,256

> volume #13 region 0,0,56,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,48

> volume #9 region 0,0,48,512,512,256

> volume #11 region 0,0,48,512,512,256

> volume #13 region 0,0,48,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,40

> volume #9 region 0,0,40,512,512,256

> volume #11 region 0,0,40,512,512,256

> volume #13 region 0,0,40,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,32

> volume #9 region 0,0,32,512,512,256

> volume #11 region 0,0,32,512,512,256

> volume #13 region 0,0,32,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,24

> volume #9 region 0,0,24,512,512,256

> volume #11 region 0,0,24,512,512,256

> volume #13 region 0,0,24,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,16

> volume #9 region 0,0,16,512,512,256

> volume #11 region 0,0,16,512,512,256

> volume #13 region 0,0,16,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,8

> volume #9 region 0,0,8,512,512,256

> volume #11 region 0,0,8,512,512,256

> volume #13 region 0,0,8,512,512,256

> wait 2

> volume #16 orthoplanes xyz positionPlanes 0,0,0

> volume #9 region 0,0,0,512,512,256

> volume #11 region 0,0,0,512,512,256

> volume #13 region 0,0,0,512,512,256

> wait 2

> volume #16 hide

> movie encode output Animation_full_fingerscrossed.mp4

Movie saved to Animation_full_fingerscrossed.mp4  
  

> movie record supersample 2 size 1280,720

> volume #9 hide

> volume #11 hide

[deleted to fit within ticket limits]


> open /Users/tatjana.taubitz/Desktop/test.star

Summary of feedback from opening /Users/tatjana.taubitz/Desktop/test.star  
---  
notes | Information is missing, opening input window  
Using sizes: X: 512, Y: 512, Z: 256  
Using pixelsize: 12.479999542236328  
  

> artiax clip off

Opened Particle list test.star with 557 particles.  

> artiax particles #15.2.2 axesSize 9.65404412

> artiax particles #15.2.2 radius 3.03970588

> select clear

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 114

> ui mousemode right "mark plane"

> marker #15.2.1.3 position 339.4,4902,1416 color #f0a3ff radius 12.48

> artiax tomo #15.1.2 slice 144

> marker #15.2.1.3 position 1379,4356,1791 color #f0a3ff radius 12.48

> undo

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 558 instances, 1 atoms  

> ui mousemode right "rotate picked particle"

> artiax flip y

[Repeated 1 time(s)]

> artiax flip x

[Repeated 1 time(s)]

> artiax flip z

[Repeated 1 time(s)]

> ui mousemode right select

> select /M:204@M

1 atom, 1 residue, 1 model selected  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  
[Repeated 1 time(s)]

> artiax particles #15.2.1 radius 4.50955882

> artiax particles #15.2.1 axesSize 15.53345588

> ui mousemode right select

Drag select of axes, 2 of 556 instances, 2 atoms  
Drag select of axes, 1 of 554 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 554 instances, 1 atoms  

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> ui mousemode right select

Drag select of axes, 1 of 553 instances, 1 atoms  

> artiax flip x

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 553 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 553 instances, 1 atoms  

> select clear

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

[Repeated 1 time(s)]

> select #15.2.1.2

1 model selected  
Drag select of axes, 2 of 553 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> undo

Undo failed, probably because structures have been modified.  

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "translate picked particle"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> save /Users/tatjana.taubitz/Desktop/particles_clean_1.star partlist #15.2.1
> voldim 512.000,512.000,256.000 voxelsize 12.480 prefix tomo suffix None
> tomonumber 9999 prior false

Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using pixelsize: 12.48  

> open /Users/tatjana.taubitz/Desktop/job59_run_class001.mrc

Opened job59_run_class001.mrc as #17, grid size 98,98,98, pixel 6.24, shown at
level 0.00258, step 1, values float32  

> hide #!17 models

> artiax attach #17 toParticleList #15.2.1

Opened job59_run_class001.mrc as #15.2.1.1.1, grid size 98,98,98, pixel 6.24,
shown at level 0.00258, step 1, values float32  

> volume #15.2.1.1.1 capFaces false

> artiax particles #15.2.1 surfaceLevel 0.00298782

> artiax particles #15.2.1 surfaceLevel 0.00393509

[Repeated 2 time(s)]

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> artiax particles #15.2.1 surfaceLevel 0.00393509

Deleting 434 particles  

> artiax particles #15.2.1 surfaceLevel 0.00393509

> undo

Undo failed, probably because structures have been modified.  

> undo

> hide #!15.2.1 models

> open /Users/tatjana.taubitz/Desktop/particles_clean_1.star format star

Summary of feedback from opening
/Users/tatjana.taubitz/Desktop/particles_clean_1.star  
---  
notes | Processed as relion  
Processed as relion  
Processed as relion5  
Using sizes: X: 512, Y: 512, Z: 256  
Using pixelsize: 12.479999542236328  
  

> artiax clip off

Opened Particle list particles_clean_1.star with 552 particles.  

> artiax particles #15.2.2 axesSize 0.83492647

> artiax particles #15.2.2 radius 7.44926471

> artiax particles #15.2.2 axesSize 0.1

> artiax particles #15.2.2 radius 2.30477941

> artiax particles #15.2.2 axesSize 11.12389706

> artiax particles #15.2.2 color 94,64,100,100

> artiax particles #15.2.2 radius 3.03970588

> artiax particles #15.2.2 axesSize 15.53345588

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 17 of 552 instances, 17 atoms  
[Repeated 1 time(s)]Drag select of axes, 4 of 552 instances, 4 atoms  
[Repeated 1 time(s)]Drag select of axes, 3 of 552 instances, 4 atoms  
Drag select of axes, 4 of 552 instances, 4 atoms  
Drag select of axes, 5 of 552 instances, 5 atoms  
Drag select of axes, 3 of 552 instances, 3 atoms  

> select #15.1.2

3 models selected  

> artiax attach #4 toParticleList #15.2.2

Opened 22t7ribosomes.mrc as #15.2.2.1.1, grid size 512,512,256, pixel 1, shown
at level 255, step 2, values uint8  

> volume #15.2.2.1.1 capFaces false

> artiax particles #15.2.2 surfaceLevel 110.625

> artiax particles #15.2.2 surfaceLevel 158.4375

> open /Users/tatjana.taubitz/Desktop/particles_clean_1.star format star

Summary of feedback from opening
/Users/tatjana.taubitz/Desktop/particles_clean_1.star  
---  
notes | Processed as relion  
Processed as relion  
Processed as relion5  
Using sizes: X: 512, Y: 512, Z: 256  
Using pixelsize: 12.479999542236328  
  

> artiax clip off

Opened Particle list particles_clean_1.star with 552 particles.  

> artiax particles #15.2.2 color 94,64,100,100

> artiax particles #15.2.2 radius 14.06360294

> artiax particles #15.2.2 axesSize 28.02720588

> artiax particles #15.2.2 radius 3.77463235

> select clear

[Repeated 1 time(s)]

> ui mousemode right rotate

[Repeated 1 time(s)]

> ui mousemode right select

> select #15.2.2.3/M:204@M

1 atom, 1 residue, 1 model selected  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> select #15.2.2.3/M:201@M

1 atom, 1 residue, 1 model selected  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> select #15.1.2

3 models selected  
Drag select of axes, 1 of 552 instances, 2 atoms  

> select #15.1.2

3 models selected  
Drag select of axes, 1 of 552 instances, 1 atoms  

> select #15.1.2

3 models selected  

> select clear

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

[Repeated 1 time(s)]Drag select of axes, 1 of 552 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right select

> select clear

Drag select of 1 atoms  

> ui mousemode right rotate

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

> select clear

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> save /Users/tatjana.taubitz/Desktop/particles_clean_2.star partlist #15.2.2
> voldim 512.000,512.000,256.000 voxelsize 12.480 prefix tomo suffix None
> tomonumber 9999 prior false

Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using pixelsize: 12.48  

> open /Users/tatjana.taubitz/Desktop/job59_run_class001.mrc

Opened job59_run_class001.mrc as #4, grid size 98,98,98, pixel 6.24, shown at
level 0.00258, step 1, values float32  

> open /Users/tatjana.taubitz/Desktop/job59_run_class001.mrc

Opened job59_run_class001.mrc as #17, grid size 98,98,98, pixel 6.24, shown at
level 0.00258, step 1, values float32  

> hide #!17 models

> hide #!4 models

> artiax attach #17 toParticleList #15.2.2

Opened job59_run_class001.mrc as #15.2.2.1.1, grid size 98,98,98, pixel 6.24,
shown at level 0.00258, step 1, values float32  

> volume #15.2.2.1.1 capFaces false

> artiax particles #15.2.2 surfaceLevel 0.00259504

> ui mousemode right select

> select #15.1.2

3 models selected  

> artiax particles #15.2.2 surfaceLevel 0.00393509

> ui mousemode right select

Drag select of axes, 34 of 552 instances, surfaces, 26 of 552 instances, 34
atoms  
Deleting 435 particles  

> artiax particles #15.2.2 surfaceLevel 0.00393509

> artiax particles #15.2.2 surfaceLevel 0.00222537

> open /Users/tatjana.taubitz/Desktop/particles_clean_2.star format star

Summary of feedback from opening
/Users/tatjana.taubitz/Desktop/particles_clean_2.star  
---  
notes | Processed as relion  
Processed as relion  
Processed as relion5  
Using sizes: X: 512, Y: 512, Z: 256  
Using pixelsize: 12.479999542236328  
  

> artiax clip off

Opened Particle list particles_clean_2.star with 552 particles.  

> artiax particles #15.2.3 axesSize 43.46066176

> artiax particles #15.2.3 radius 8.18419118

> artiax particles #15.2.3 color 94,64,100,100

> artiax particles #15.2.3 axesSize 34.64154412

> select clear

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 552 instances, 1 atoms  

> artiax particles #15.2.3 radius 2.30477941

> select clear

> ui mousemode right select

Drag select of axes, 1 of 551 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 551 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 551 instances, 1 atoms  

> artiax flip y

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  
[Repeated 1 time(s)]Please select either ...or ....  

> save /Users/tatjana.taubitz/Desktop/particles_clean_1.star partlist #15.2.1
> voldim 512.000,512.000,256.000 voxelsize 12.480 prefix tomo suffix None
> tomonumber 9999 prior false

Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using pixelsize: 12.48  

> select clear

> ui mousemode right rotate

[Repeated 1 time(s)]

> artiax tomo #15.1.2 slice 0

> ui mousemode right select

Drag select of 2 atoms  

> ui mousemode right select

[Repeated 1 time(s)]Drag select of axes, 1 of 547 instances, 1 atoms  
Drag select of 1 atoms  
[Repeated 1 time(s)]Drag select of axes, 1 of 546 instances, 1 atoms  

> artiax flip x

> ui mousemode right select

Drag select of 1 atoms  
[Repeated 2 time(s)]

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 543 instances, 1 atoms  
Drag select of 1 atoms  

> select clear

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 541 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 541 instances, 3 atoms  
Drag select of axes, 1 of 538 instances, 1 atoms  
Drag select of axes, 1 of 537 instances, 1 atoms  
Drag select of axes, 2 of 536 instances, 1 atoms  
Drag select of axes, 1 of 534 instances, 2 atoms  
Drag select of 1 atoms  
Drag select of axes, 2 of 531 instances, 1 atoms  

> select #15.1.2

3 models selected  
Drag select of axes, 2 of 531 instances, 1 atoms  

> select #15.1.2

3 models selected  

> select clear

Drag select of axes, 1 of 531 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

[Repeated 1 time(s)]

> select #15.1.2

3 models selected  

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 2 of 531 instances, 1 atoms  
Drag select of axes, 1 of 529 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right rotate

> ui mousemode right select

Drag select of 1 atoms  
[Repeated 3 time(s)]

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  
[Repeated 1 time(s)]

> select #15.1.2

3 models selected  
Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 524 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 2 atoms  

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 195

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 176

> artiax tomo #15.1.2 slice 0

> ui mousemode right select

Drag select of axes, 4 of 522 instances, 4 atoms  
Drag select of axes, 1 of 518 instances, 2 atoms  
Drag select of 1 atoms  
Drag select of 2 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> artiax flip x

[Repeated 1 time(s)]

> artiax flip y

[Repeated 1 time(s)]

> artiax flip z

> ui mousemode right "translate selected particles"

> artiax flip z

[Repeated 1 time(s)]

> artiax flip y

[Repeated 2 time(s)]

> artiax flip x

> artiax flip z

[Repeated 1 time(s)]

> artiax flip y

> artiax flip x

[Repeated 3 time(s)]

> artiax flip y

[Repeated 1 time(s)]

> artiax flip z

[Repeated 1 time(s)]

> artiax flip y

[Repeated 1 time(s)]

> artiax flip x

[Repeated 1 time(s)]

> ui mousemode right select

Drag select of axes, 1 of 514 instances, 1 atoms  

> ui mousemode right select

Drag select of axes, 1 of 512 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> save /Users/tatjana.taubitz/Desktop/particles_clean_1.star partlist #15.2.1
> voldim 512.000,512.000,256.000 voxelsize 12.480 prefix tomo suffix None
> tomonumber 9999 prior false

Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using pixelsize: 12.48  

> ui mousemode right select

Drag select of 1 atoms  

> artiax flip x

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 2 of 512 instances, 1 atoms  

> select #15.1.2

3 models selected  
Drag select of axes, 2 of 512 instances, 1 atoms  
[Repeated 1 time(s)]

> select #15.1.2

3 models selected  
Drag select of axes, 1 of 512 instances, 1 atoms  

> select #15.1.2

3 models selected  

> select clear

Drag select of 1 atoms  
Drag select of axes, 1 of 511 instances  
Drag select of axes, 1 of 510 instances, 1 atoms  
Drag select of axes, 1 of 508 instances, 1 atoms  
Drag select of axes, 1 of 507 instances, 1 atoms  

> select #15.1.2

3 models selected  
Drag select of 1 atoms  
[Repeated 1 time(s)]

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 506 instances, 1 atoms  

> artiax flip x

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 3 of 506 instances, 1 atoms  
Drag select of 1 atoms  
[Repeated 1 time(s)]

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> select clear

Drag select of axes, 1 of 501 instances, 1 atoms  

> select #15.1.2

3 models selected  
Drag select of axes, 1 of 501 instances, 1 atoms  
Drag select of 1 atoms  

> artiax flip x

> select clear

[Repeated 1 time(s)]

> ui mousemode right select

> select #15.1.2

3 models selected  

> select #15.1.2

3 models selected  
Drag select of axes, 1 of 499 instances, 1 atoms  

> select #15.1.2

3 models selected  
Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  
[Repeated 2 time(s)]

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> artiax flip x

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 497 instances, 1 atoms  

> select #15.1.2

3 models selected  
Drag select of axes, 1 of 497 instances, 1 atoms  

> select #15.1.2

3 models selected  
Drag select of 1 atoms  
[Repeated 3 time(s)]

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 5 of 493 instances, 3 atoms  
Drag select of 1 atoms  
[Repeated 2 time(s)]Drag select of 2 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> select clear

Drag select of 1 atoms  

> ui mousemode right select

Drag select of axes, 1 of 484 instances, 1 atoms  
Drag select of 1 atoms  
Drag select of axes, 2 of 481 instances, 1 atoms  
Drag select of 1 atoms  
[Repeated 2 time(s)]

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of 1 atoms  
Drag select of axes, 7 of 476 instances, 6 atoms  

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 468 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of 1 atoms  
[Repeated 1 time(s)]

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> save /Users/tatjana.taubitz/Desktop/particles_clean_1.star partlist #15.2.1
> voldim 512.000,512.000,256.000 voxelsize 12.480 prefix tomo suffix None
> tomonumber 9999 prior false

Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using pixelsize: 12.48  

> save /Users/tatjana.taubitz/Desktop/22_7withTubuliPicks.cxs

> ui mousemode right select

Drag select of 1 atoms  

> select clear

Drag select of axes, 1 of 466 instances, 2 atoms  

> select #15.1.2

3 models selected  

> select clear

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 465 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 465 instances, 1 atoms  

> ui mousemode right "translate selected particles"

[Repeated 1 time(s)]

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> select clear

Drag select of axes, 1 of 465 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 465 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> artiax particles #15.2.3 axesSize 11.12389706

> ui mousemode right select

Drag select of axes, 1 of 465 instances, 1 atoms  

> artiax flip x

Drag select of 1 atoms  

> artiax flip x

> ui mousemode right select

Drag select of axes, 1 of 465 instances, 1 atoms  

> artiax flip x

Drag select of axes, 1 of 465 instances, 1 atoms  

> artiax flip x

> artiax tomo #15.1.2 slice 75

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 100

> ui mousemode right "mark plane"

> marker #15.2.3.3 position 1687,5432,1242 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 95

> marker #15.2.3.3 position 1696,5440,1179 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 90

> marker #15.2.3.3 position 1709,5431,1117 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 88

> marker #15.2.3.3 position 1711,5433,1092 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 110

> marker #15.2.3.3 position 1675,5435,1367 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 118

> marker #15.2.3.3 position 1671,5430,1466 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 133

> marker #15.2.3.3 position 1659,5439,1654 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 121

> marker #15.2.3.3 position 1663,5441,1504 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 118

> marker #15.2.3.3 position 1667,5440,1466 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 148

> artiax tomo #15.1.2 slice 0

> ui mousemode right select

Drag select of axes, 3 of 474 instances, 3 atoms  

> artiax tomo #15.1.2 slice 154

> artiax tomo #15.1.2 slice 0

> ui mousemode right rotate

> ui mousemode right select

> select clear

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 471 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "mark point"

> marker #15.2.3.3 position 3824,5419,2600 color #f0a3ff radius 8.184

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 471 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 471 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 471 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> save /Users/tatjana.taubitz/Desktop/22_7withTubuliPicks.cxs

> ui mousemode right select

Drag select of axes, 1 of 471 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 471 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 471 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 471 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 471 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> save /Users/tatjana.taubitz/Desktop/22_7withTubuliPicks.cxs includeMaps true

> artiax tomo #15.1.2 slice 60

> artiax tomo #15.1.2 slice 0

> ui mousemode right rotate

[Repeated 1 time(s)]

> artiax tomo #15.1.2 slice 0

> ui mousemode right select

Drag select of axes, 18 of 471 instances, 19 atoms  
Drag select of axes, 3 of 452 instances, 3 atoms  
Drag select of axes, 4 of 449 instances, 4 atoms  
Drag select of axes, 1 of 445 instances, 2 atoms  
Drag select of axes, 7 of 443 instances, 9 atoms  

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 2 of 434 instances, 1 atoms  

> select clear

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 2 of 432 instances, 2 atoms  

> artiax tomo #15.1.2 slice 0

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 2 of 430 instances, 2 atoms  

> ui mousemode right rotate

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> artiax flip x

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 3 of 428 instances, 3 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 2 of 428 instances, 2 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> artiax tomo #15.1.2 slice 80

> artiax tomo #15.1.2 slice 0

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> artiax flip x

> select clear

Drag select of axes, 1 of 428 instances, 1 atoms  

> artiax flip x

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 1 atoms  

> artiax flip x

> ui mousemode right select

Drag select of axes, 1 of 428 instances, 2 atoms  
Drag select of axes, 1 of 426 instances, 1 atoms  

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 2 of 425 instances, 1 atoms  

> select #15.1.2

3 models selected  
Drag select of axes, 1 of 425 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 2 atoms  

> select #15.1.2

3 models selected  
Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> select #15.1.2

3 models selected  
Drag select of 2 atoms  

> select #15.1.2

3 models selected  
Drag select of 2 atoms  

> select #15.1.2

3 models selected  

> select clear

Drag select of axes, 1 of 425 instances  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 3 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right rotate

[Repeated 1 time(s)]

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 1 atoms  

> ui mousemode right "translate selected particles"

[Repeated 1 time(s)]

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 1 atoms  
Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 2 of 424 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> select clear

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 2 of 424 instances, 1 atoms  

> select #15.1.2

3 models selected  
Drag select of axes, 1 of 424 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 424 instances, 1 atoms  

> select #15.1.2

3 models selected  
Drag select of axes, 1 of 424 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> save /Users/tatjana.taubitz/Desktop/22_7withTubuliPicks.cxs

> save /Users/tatjana.taubitz/Desktop/particles_clean_1.star partlist #15.2.1
> voldim 512.000,512.000,256.000 voxelsize 12.480 prefix tomo suffix None
> tomonumber 9999 prior false

Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using pixelsize: 12.48  

> artiax tomo #15.1.2 slice 70

> artiax tomo #15.1.2 slice 92

> artiax tomo #15.1.2 slice 107

> artiax tomo #15.1.2 slice 109

> ui mousemode right "mark plane"

> ui mousemode right "mark maximum"

> ui mousemode right "mark plane"

> marker #15.2.3.3 position 1676,5431,1354 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 105

> marker #15.2.3.3 position 1694,5441,1304 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 97

> marker #15.2.3.3 position 1698,5429,1204 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 114

> marker #15.2.3.3 position 1682,5450,1416 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 123

> marker #15.2.3.3 position 1665,5454,1529 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 129

> marker #15.2.3.3 position 1674,5453,1604 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 89

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 430 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 430 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 430 instances  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 430 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> artiax tomo #15.1.2 slice 104

> ui mousemode right select

Drag select of axes, 2 of 430 instances, 2 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

[Repeated 1 time(s)]

> ui mousemode right select

Drag select of axes, 2 of 430 instances, 2 atoms  

> ui mousemode right "translate selected particles"

> artiax tomo #15.1.2 slice 0

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 3 of 430 instances, 3 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 430 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 430 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 3 of 430 instances, 3 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 430 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 430 instances, 3 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 430 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 429 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 429 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 429 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 429 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 429 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 429 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 429 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 429 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 429 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> save /Users/tatjana.taubitz/Desktop/22_7withTubuliPicks.cxs includeMaps true

> open help:user/artiax_index.html

Opened help:user/artiax_index.html  

> artiax tomo #15.1.2 slice 74

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 146

> artiax tomo #15.1.2 slice 148

> ui mousemode right "mark plane"

> marker #15.2.3.3 position 1567,4984,1841 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 151

> marker #15.2.3.3 position 1536,4967,1878 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 159

> marker #15.2.3.3 position 1468,4962,1978 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 155

> marker #15.2.3.3 position 1514,4967,1928 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 0

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 146

> ui mousemode right "mark plane"

> marker #15.2.3.3 position 1573,4968,1816 color #f0a3ff radius 8.184

> marker #15.2.3.3 position 1621,4908,1816 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 33

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 434 instances, 1 atoms  

> artiax tomo #15.1.2 slice 85

> artiax tomo #15.1.2 slice 152

> ui mousemode right "mark surface"

> marker #15.2.3.3 position 1369,5108,1591 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 0

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 3 of 433 instances, 3 atoms  

> select clear

> ui mousemode right translate

> ui mousemode right rotate

> artiax tomo #15.1.2 contrastCenter -1.85428755

> artiax tomo #15.1.2 contrastCenter -1.55439545

> artiax tomo #15.1.2 slice 93

> artiax tomo #15.1.2 contrastCenter -0.17489179

> artiax tomo #15.1.2 slice 140

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 4 of 430 instances, 5 atoms  

> artiax tomo #15.1.2 slice 133

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 425 instances, 1 atoms  

> artiax tomo #15.1.2 slice 117

> artiax tomo #15.1.2 slice 116

> ui mousemode right "mark plane"

> marker #15.2.3.3 position 2231,5125,1441 color #f0a3ff radius 8.184

> ui mousemode right select

[Repeated 1 time(s)]Drag select of axes, 2 of 425 instances, 2 atoms  
Drag select of axes, 1 of 423 instances, 2 atoms  
Drag select of axes, 1 of 421 instances, 1 atoms  

> ui mousemode right select

Drag select of 1 atoms  

> artiax flip x

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> select #15.1.2

3 models selected  
Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 420 instances, 1 atoms  

> artiax flip x

> ui mousemode right "translate selected particles"

> ui mousemode right select

> select clear

Drag select of 1 atoms  

> artiax flip x

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  
Drag select of axes, 1 of 419 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 419 instances, 1 atoms  

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> select #15.1.2

3 models selected  

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 2 of 418 instances, 2 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> artiax flip x

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 136

[Repeated 1 time(s)]

> artiax tomo #15.1.2 slice 140

> ui mousemode right "translate selected particles"

> artiax tomo #15.1.2 slice 127

> artiax tomo #15.1.2 slice 140

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 141

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> select clear

Drag select of axes, 1 of 418 instances  
Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> artiax tomo #15.1.2 slice 118

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 2 of 418 instances, 2 atoms  

> ui mousemode right "translate selected particles"

> artiax tomo #15.1.2 slice 0

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> artiax tomo #15.1.2 slice 113

> ui mousemode right rotate

> ui mousemode right "mark plane"

> marker #15.2.3.3 position 2237,5132,1404 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 115

> marker #15.2.3.3 position 2239,5132,1429 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 0

> ui mousemode right rotate

> ui mousemode right translate

> ui mousemode right rotate

> ui mousemode right select

> select clear

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 420 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 420 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 420 instances, 2 atoms  

> select #15.1.2

3 models selected  
Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 420 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 420 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 420 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right pivot

[Repeated 1 time(s)]

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 420 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "rotate picked particle"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 0

> save /Users/tatjana.taubitz/Desktop/22_7withTubuliPicks.cxs includeMaps true

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 0

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> ui mousemode right select

Drag select of axes, 5 of 420 instances, 5 atoms  
Drag select of 1 atoms  
Drag select of axes, 1 of 414 instances, 1 atoms  

> ui mousemode right select

Drag select of axes, 1 of 413 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 413 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 413 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 413 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 413 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 413 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 413 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 413 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 413 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> show #!11 models

> hide #!11 models

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> artiax tomo #15.1.2 slice 110

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 142

> artiax tomo #15.1.2 slice 138

> artiax tomo #15.1.2 slice 0

> ui mousemode right select

Drag select of axes, 8 of 413 instances, 8 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 2 of 405 instances, 2 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 2 of 405 instances, 2 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> select clear

> ui mousemode right rotate

> show #!11 models

> hide #!11 models

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 9 of 405 instances, 9 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 405 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> show #!11 models

> ui mousemode right "mark point"

> marker #15.2.3.3 position 3365,4936,-164.7 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 69

> artiax tomo #15.1.2 slice 112

> hide #!11 models

> artiax tomo #15.1.2 slice 111

> ui mousemode right "mark plane"

> marker #15.2.3.3 position 2714,4783,1379 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 113

> marker #15.2.3.3 position 2715,4800,1404 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 117

> marker #15.2.3.3 position 2715,4820,1454 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 126

> artiax tomo #15.1.2 slice 0

> show #!11 models

> hide #!11 models

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> show #!11 models

> hide #!11 models

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> show #!11 models

> hide #!11 models

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> artiax tomo #15.1.2 slice 3

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 63

> artiax tomo #15.1.2 slice 0

> show #!11 models

> color #11 #e4938c4f models

> color #11 #e4938c5f models

> color #11 #e4938c57 models

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 11 22t7microtubuli.mrc gaussian copy
, 1 atoms  

> hide #!11 models

Drag select of axes, 1 of 408 instances, 1 atoms  

> show #!11 models

> ui mousemode right "translate selected particles"

> hide #!11 models

> artiax tomo #15.1.2 slice 52

> ui mousemode right translate

> ui mousemode right select

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 140

> artiax tomo #15.1.2 slice 0

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 408 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> show #!11 models

> hide #!11 models

> save /Users/tatjana.taubitz/Desktop/22_7withTubuliPicks.cxs includeMaps true

> save /Users/tatjana.taubitz/Desktop/particles_clean_1.star partlist #15.2.1
> voldim 512.000,512.000,256.000 voxelsize 12.480 prefix tomo suffix None
> tomonumber 9999 prior false

Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using pixelsize: 12.48  

> artiax tomo #15.1.2 slice 143

> ui mousemode right "mark plane"

> artiax tomo #15.1.2 slice 147

> marker #15.2.3.3 position 1562,4961,1828 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 151

> marker #15.2.3.3 position 1521,4943,1878 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 155

> marker #15.2.3.3 position 1445,4944,1928 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 160

> marker #15.2.3.3 position 1415,4939,1991 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 73

> artiax tomo #15.1.2 slice 0

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

> show #!11 models

> hide #!11 models

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 412 instances  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right select

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 412 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 2 of 412 instances, 2 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> show #!11 models

> show #!10 models

> hide #!10 models

> show #!10 models

> hide #!10 models

> show #!8 models

> hide #!8 models

> show #!9 models

> hide #!9 models

> show #!10 models

> hide #!10 models

> show #!12 models

> hide #!12 models

> show #!13 models

Drag select of 11 22t7microtubuli.mrc gaussian copy , 13 22t7membranes.mrc
gaussian copy  

> ui mousemode right rotate

> hide #!13 models

> select subtract #13

2 models selected  

> hide #!11 models

> show #!11 models

> hide #!11 models

> artiax tomo #15.1.2 slice 121

> artiax tomo #15.1.2 slice 124

> ui mousemode right "mark plane"

> marker #15.2.3.3 position 212.8,4875,1541 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 120

> marker #15.2.3.3 position 243.5,4888,1491 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 118

> marker #15.2.3.3 position 265.8,4894,1466 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 132

> marker #15.2.3.3 position 153.4,4859,1641 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 0

> ui mousemode right rotate

[Repeated 1 time(s)]

> ui mousemode right select

Drag select of axes, 3 of 416 instances, 3 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 416 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 416 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 416 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 416 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 416 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 416 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> show #!11 models

> hide #!11 models

> show #!11 models

> ui mousemode right rotate

> hide #!11 models

> ui mousemode right select

Drag select of axes, 13 of 416 instances, 14 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 416 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 416 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right select

> select clear

Drag select of axes, 2 of 415 instances, 2 atoms  

> select #15.1.2

3 models selected  
Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 415 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 415 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> ui mousemode right "rotate selected particles"

> ui mousemode right select

> select clear

Drag select of axes, 1 of 415 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 415 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 415 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> save /Users/tatjana.taubitz/Desktop/22_7withTubuliPicks.cxs includeMaps true

> show #!11 models

> hide #!11 models

> artiax tomo #15.1.2 slice 86

> show #!11 models

> artiax tomo #15.1.2 slice 71

> artiax tomo #15.1.2 slice 72

> ui mousemode right "mark plane"

> marker #15.2.3.3 position 1799,5095,892.3 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 74

> marker #15.2.3.3 position 1821,5096,917.3 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 79

> marker #15.2.3.3 position 1846,5095,979.7 color #f0a3ff radius 8.184

> hide #!11 models

> artiax tomo #15.1.2 slice 81

> artiax tomo #15.1.2 slice 0

> show #!11 models

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 11 22t7microtubuli.mrc gaussian copy
, 1 atoms  

> hide #!11 models

> select #15.1.2

3 models selected  
Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> show #!11 models

> hide #!11 models

> show #!11 models

> ui mousemode right select

> hide #!11 models

> select clear

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> select #15.2.3.3/M:431@M

1 atom, 1 residue, 1 model selected  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> select clear

Drag select of axes, 1 of 418 instances  
Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> show #!11 models

> hide #!11 models

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

[Repeated 1 time(s)]Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 418 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> select clear

> select #15.2.3.3/M:514@M

1 atom, 1 residue, 1 model selected  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 417 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 417 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 417 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 417 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 417 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 417 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 417 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 417 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 417 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> show #!11 models

> hide #!11 models

> artiax tomo #15.1.2 slice 245

> ui mousemode right rotate

> artiax tomo #15.1.2 slice 224

> ui mousemode right "mark plane"

> marker #15.2.3.3 position 4768,5974,2789 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 242

> marker #15.2.3.3 position 4833,6004,3014 color #f0a3ff radius 8.184

> artiax tomo #15.1.2 slice 255

> artiax tomo #15.1.2 slice 0

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 419 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> show #!11 models

> ui mousemode right rotate

> hide #!11 models

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 419 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 419 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right rotate

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 419 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 419 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 419 instances, 1 atoms  

> ui mousemode right "rotate selected particles"

> show #!11 models

> ui mousemode right rotate

> hide #!11 models

> ui mousemode right select

Drag select of axes, 1 of 419 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

Drag select of axes, 1 of 419 instances, 1 atoms  

> ui mousemode right "translate selected particles"

> ui mousemode right select

> ui mousemode right rotate

> save /Users/tatjana.taubitz/Desktop/22_7withTubuliPicks.cxs includeMaps true

> save /Users/tatjana.taubitz/Desktop/22_7withTubuliPicks_manClean.cxs
> includeMaps true

Please select either ...or ....  

> save /Users/tatjana.taubitz/Desktop/particles_manClean.star partlist #15.2.1
> voldim 512.000,512.000,256.000 voxelsize 12.480 prefix tomo suffix None
> tomonumber 9999 prior false

Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using sizes: X: 512.0, Y: 512.0, Z: 256.0  
Using pixelsize: 12.48  

> save
> /Users/tatjana.taubitz/Desktop/22_7withTubuliPicks_manClean_GEomodels.cxs

> artiax fit line

Select at least two points  

> artiax fit line

Select at least two points  

> ui mousemode right rotate

> ui mousemode right select

Drag select of axes, 57 of 419 instances, 57 atoms  
Drag select of axes, 22 of 419 instances, 22 atoms  
Drag select of axes, 93 of 419 instances, 93 atoms  

> artiax fit line

Created a Curved line through 93 particles.  

> artiax clip off

> ui mousemode right rotate

> undo

> ui mousemode right select

> select clear

Drag select of 1 atoms  

> select clear

Drag select of 1 atoms  

> ui mousemode right select

Drag select of axes, 1 of 419 instances, 1 atoms  
[Repeated 2 time(s)]

> artiax fit line

Created a Curved line through 2 particles.  

> artiax clip off

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> artiax clip off

> artiax gen on surface #15.3.1 poisson 100 radius 40.0 exactNum true

> hide #!15.2.2 models

> show #!15.2.2 models

> artiax particles #15.2.2 axesSize 63.30367647

> artiax particles #15.2.2 radius 8.91911765

> artiax particles #15.2.2 axesSize 10.38897059

> artiax attach #4 toParticleList #15.2.2

Opened job59_run_class001.mrc as #15.2.2.1.1, grid size 98,98,98, pixel 6.24,
shown at level 0.00258, step 1, values float32  

> volume #15.2.2.1.1 capFaces false

> artiax particles #15.2.2 surfaceLevel 0.00393509

> artiax particles #15.2.2 axesSize 44.19558824

Traceback (most recent call last):  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/CurvedLineOptions.py", line 467, in
_spacing_toggled  
self.line.create_spheres()  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/CurvedLine.py", line 203, in
create_spheres  
theta = math.acos(np.dot(n, x_axes)) * 180 / math.pi  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
ValueError: math domain error  
  
ValueError: math domain error  
  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/CurvedLine.py", line 203, in
create_spheres  
theta = math.acos(np.dot(n, x_axes)) * 180 / math.pi  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/CurvedLineOptions.py", line 489, in
spacing_value_changed  
self.line.create_spheres()  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/CurvedLine.py", line 203, in
create_spheres  
theta = math.acos(np.dot(n, x_axes)) * 180 / math.pi  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
ValueError: math domain error  
  
ValueError: math domain error  
  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/CurvedLine.py", line 203, in
create_spheres  
theta = math.acos(np.dot(n, x_axes)) * 180 / math.pi  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/CurvedLineOptions.py", line 489, in
spacing_value_changed  
self.line.create_spheres()  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/CurvedLine.py", line 203, in
create_spheres  
theta = math.acos(np.dot(n, x_axes)) * 180 / math.pi  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
ValueError: math domain error  
  
ValueError: math domain error  
  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/CurvedLine.py", line 203, in
create_spheres  
theta = math.acos(np.dot(n, x_axes)) * 180 / math.pi  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/CurvedLineOptions.py", line 489, in
spacing_value_changed  
self.line.create_spheres()  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/CurvedLine.py", line 203, in
create_spheres  
theta = math.acos(np.dot(n, x_axes)) * 180 / math.pi  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
ValueError: math domain error  
  
Error in sys.excepthook:  
Traceback (most recent call last):  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/CurvedLineOptions.py", line 489, in
spacing_value_changed  
self.line.create_spheres()  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/CurvedLine.py", line 203, in
create_spheres  
theta = math.acos(np.dot(n, x_axes)) * 180 / math.pi  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
ValueError: math domain error  
  
The above exception was the direct cause of the following exception:  
  
Traceback (most recent call last):  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/LabelEditRangeSlider.py", line 188, in
_edit_changed  
self._emit_value_changed()  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/LabelEditRangeSlider.py", line 205, in
_emit_value_changed  
self.valueChanged.emit(self._value)  
SystemError: <method 'emit' of 'PyQt6.QtCore.pyqtBoundSignal' objects>
returned a result with an exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QPaintEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
SystemError: <class 'PyQt6.QtGui.QExposeEvent'> returned a result with an
exception set  
  
The above exception was the direct cause of the following exception:  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 334, in ehook  
self.session.ui.thread_safe(  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 438, in thread_safe  
func(*args, **kw)  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 516, in report_exception  
self.bug(err_msg.replace("\n", "<br>"), is_html=True)  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 394, in bug  
self._log(  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/logger.py", line 572, in _log  
if log.log(*args):  
^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 358, in log  
self.session.ui.thread_safe(f)  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/gui.py", line 438, in thread_safe  
func(*args, **kw)  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 357, in <lambda>  
f = lambda self=self, msg=dlg_msg: self.show_error_message(msg, bug=bug)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/log/tool.py", line 278, in show_error_message  
ed.showMessage(msg)  
SystemError: <built-in method showMessage of BiggerErrorDialog object at
0x157f204c0> returned a result with an exception set  
  
Original exception was:  
Traceback (most recent call last):  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/CurvedLineOptions.py", line 489, in
spacing_value_changed  
self.line.create_spheres()  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/CurvedLine.py", line 203, in
create_spheres  
theta = math.acos(np.dot(n, x_axes)) * 180 / math.pi  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
ValueError: math domain error  
Traceback (most recent call last):  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/CurvedLineOptions.py", line 498, in
_create_particles  
self.line.create_particle_list()  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/PopulatedModel.py", line 99, in
create_particle_list  
pixsize = pl.origin_pixelsize  
^^^^^^^^^^^^^^^^^^^  
AttributeError: 'NoneType' object has no attribute 'origin_pixelsize'  
  
AttributeError: 'NoneType' object has no attribute 'origin_pixelsize'  
  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/PopulatedModel.py", line 99, in
create_particle_list  
pixsize = pl.origin_pixelsize  
^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/CurvedLineOptions.py", line 498, in
_create_particles  
self.line.create_particle_list()  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/PopulatedModel.py", line 99, in
create_particle_list  
pixsize = pl.origin_pixelsize  
^^^^^^^^^^^^^^^^^^^  
AttributeError: 'NoneType' object has no attribute 'origin_pixelsize'  
  
AttributeError: 'NoneType' object has no attribute 'origin_pixelsize'  
  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/PopulatedModel.py", line 99, in
create_particle_list  
pixsize = pl.origin_pixelsize  
^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/CurvedLineOptions.py", line 470, in
_spacing_toggled  
self.line.remove_spheres()  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/PopulatedModel.py", line 88, in
remove_spheres  
self.collection_model.delete_places(self.indices)  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 199, in
delete_places  
self._displayed_child_positions = self.displayed_child_positions[mask]  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/particle/SurfaceCollectionModel.py", line 199, in
delete_places  
self._displayed_child_positions = self.displayed_child_positions[mask]  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/widgets/CurvedLineOptions.py", line 498, in
_create_particles  
self.line.create_particle_list()  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/PopulatedModel.py", line 99, in
create_particle_list  
pixsize = pl.origin_pixelsize  
^^^^^^^^^^^^^^^^^^^  
AttributeError: 'NoneType' object has no attribute 'origin_pixelsize'  
  
AttributeError: 'NoneType' object has no attribute 'origin_pixelsize'  
  
File "/Users/tatjana.taubitz/Library/Application
Support/ChimeraX/1.9/lib/python/site-
packages/chimerax/artiax/geometricmodel/PopulatedModel.py", line 99, in
create_particle_list  
pixsize = pl.origin_pixelsize  
^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 Metal - 88.1
OpenGL renderer: Apple M2 Max
OpenGL vendor: Apple

Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: Mac Studio
      Model Identifier: Mac14,13
      Model Number: Z17Z000J8D/A
      Chip: Apple M2 Max
      Total Number of Cores: 12 (8 performance and 4 efficiency)
      Memory: 64 GB
      System Firmware Version: 10151.121.1
      OS Loader Version: 10151.121.1

Software:

    System Software Overview:

      System Version: macOS 14.5 (23F79)
      Kernel Version: Darwin 23.5.0
      Time since boot: 1 day, 3 hours, 19 minutes

Graphics/Displays:

    Apple M2 Max:

      Chipset Model: Apple M2 Max
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 30
      Vendor: Apple (0x106b)
      Metal Support: Metal 3
      Displays:
        EV2795:
          Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
          UI Looks like: 2560 x 1440 @ 60.00Hz
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Rotation: Supported


Installed Packages:
    alabaster: 1.0.0
    annotated-types: 0.7.0
    anyio: 4.7.0
    appdirs: 1.4.4
    appnope: 0.1.4
    asttokens: 3.0.0
    auditwheel: 6.1.0
    babel: 2.16.0
    beautifulsoup4: 4.12.3
    blockdiag: 3.0.0
    blosc2: 3.0.0
    build: 1.2.1
    certifi: 2023.11.17
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.0
    ChimeraX-AddCharge: 1.5.18
    ChimeraX-AddH: 2.2.6
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.5
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.16.1
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-ArtiaX: 0.6.0
    ChimeraX-Atomic: 1.58.8
    ChimeraX-AtomicLibrary: 14.1.11
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 3.0.0
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.13.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.4.0
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.4
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.4
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.3
    ChimeraX-ColorActions: 1.0.5
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.6
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.9
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.4
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2.6
    ChimeraX-DistMonitor: 1.4.2
    ChimeraX-DockPrep: 1.1.3
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.3
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.4.1
    ChimeraX-Hbonds: 2.5
    ChimeraX-Help: 1.3
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.3
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-KVFinder: 1.2.1
    ChimeraX-Label: 1.1.14
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.3
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.2
    ChimeraX-MatchMaker: 2.1.6
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.7.2
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.14.2
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.18
    ChimeraX-ModelPanel: 1.5
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0.3
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-MutationScores: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.2
    ChimeraX-NMRSTAR: 1.0.2
    ChimeraX-NRRD: 1.2
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.14
    ChimeraX-OrthoPick: 1.0.1
    ChimeraX-PDB: 2.7.6
    ChimeraX-PDBBio: 1.0.1
    ChimeraX-PDBLibrary: 1.0.4
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1.2
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.2
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.3.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 4.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.2
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-Segmentations: 3.5.6
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.14
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.2.0
    ChimeraX-ShowSequences: 1.0.3
    ChimeraX-SideView: 1.0.1
    ChimeraX-SimilarStructures: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.18.1
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.2.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.5
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.2.3
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.41
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.4.4
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-vrml: 1.0
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.2
    ChimeraX-WebServices: 1.1.4
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.2
    contourpy: 1.3.1
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.0.10
    debugpy: 1.8.9
    decorator: 5.1.1
    docutils: 0.21.2
    executing: 2.1.0
    filelock: 3.15.4
    fonttools: 4.55.3
    funcparserlib: 2.0.0a0
    geomdl: 5.4.0
    glfw: 2.8.0
    grako: 3.16.5
    h11: 0.14.0
    h5py: 3.12.1
    html2text: 2024.2.26
    httpcore: 1.0.7
    httpx: 0.28.1
    idna: 3.10
    ihm: 1.3
    imagecodecs: 2024.6.1
    imagesize: 1.4.1
    ipykernel: 6.29.5
    ipython: 8.26.0
    ipywidgets: 8.1.5
    jedi: 0.19.1
    Jinja2: 3.1.4
    jupyter_client: 8.6.2
    jupyter_core: 5.7.2
    jupyterlab_widgets: 3.0.13
    kiwisolver: 1.4.7
    line_profiler: 4.1.3
    lxml: 5.2.2
    lz4: 4.3.3
    MarkupSafe: 3.0.2
    matplotlib: 3.9.2
    matplotlib-inline: 0.1.7
    msgpack: 1.0.8
    ndindex: 1.9.2
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.3
    nibabel: 5.2.0
    nptyping: 2.5.0
    numexpr: 2.10.2
    numpy: 1.26.4
    openvr: 1.26.701
    packaging: 23.2
    pandas: 2.3.1
    ParmEd: 4.2.2
    parso: 0.8.4
    pep517: 0.13.1
    pexpect: 4.9.0
    pillow: 10.4.0
    pip: 24.2
    pkginfo: 1.11.1
    platformdirs: 4.3.6
    prompt_toolkit: 3.0.48
    psutil: 6.0.0
    ptyprocess: 0.7.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pyarrow: 20.0.0
    pycollada: 0.8
    pydantic: 2.11.7
    pydantic_core: 2.33.2
    pydicom: 2.4.4
    pyelftools: 0.31
    Pygments: 2.18.0
    pynmrstar: 3.3.4
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.3401
    pyparsing: 3.2.0
    pyproject_hooks: 1.2.0
    PyQt6-commercial: 6.7.1
    PyQt6-Qt6: 6.7.3
    PyQt6-WebEngine-commercial: 6.7.0
    PyQt6-WebEngine-Qt6: 6.7.3
    PyQt6-WebEngineSubwheel-Qt6: 6.7.3
    PyQt6_sip: 13.8.0
    python-dateutil: 2.9.0.post0
    pytz: 2024.2
    pyzmq: 26.2.0
    qtconsole: 5.5.2
    QtPy: 2.4.2
    qtshim: 1.0
    RandomWords: 0.4.0
    requests: 2.32.3
    scipy: 1.14.0
    setuptools: 72.1.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    sniffio: 1.3.1
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.6
    Sphinx: 8.0.2
    sphinx-autodoc-typehints: 2.2.3
    sphinxcontrib-applehelp: 2.0.0
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 2.0.0
    sphinxcontrib-htmlhelp: 2.1.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 2.0.0
    sphinxcontrib-serializinghtml: 2.0.0
    stack-data: 0.6.3
    starfile: 0.5.13
    superqt: 0.6.3
    tables: 3.10.1
    tcia_utils: 1.5.1
    tifffile: 2024.7.24
    tinyarray: 1.2.4
    tornado: 6.4.2
    traitlets: 5.14.3
    typing-inspection: 0.4.1
    typing_extensions: 4.12.2
    tzdata: 2024.2
    urllib3: 2.2.3
    wcwidth: 0.2.13
    webcolors: 24.6.0
    wheel: 0.43.0
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.13

Change History (1)

comment:1 by Eric Pettersen, 3 months ago

Component:	Unassigned → Third Party
Description:	modified (diff)
Owner:	set to Utz Ermel
Platform:	→ all
Project:	→ ChimeraX
Status:	new → assigned
Summary:	ChimeraX bug report submission → ArtiaX: math domain error

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