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#14556 assigned defect

ArtiaX session save: Unknown class name 'MarkerSetPlus'

Reported by:	bs17magg@…	Owned by:	Utz Ermel
Priority:	normal	Milestone:
Component:	Third Party	Version:
Keywords:		Cc:	Eric Pettersen
Blocked By:		Blocking:
Notify when closed:		Platform:	all
Project:	ChimeraX

Description

The following bug report has been submitted:
Platform:        macOS-13.6.4-x86_64-i386-64bit
ChimeraX Version: 1.7.1 (2024-01-23 01:58:08 UTC)
Description
Hi, 
I cant seem to save my chimeraX session in which I'm building a figure using the ArtiaX bio tool. This seems to be related to the way ArtiaX is working with ChimeraX, I wonder if there might be a quick fix for this?

Thank you for your help,
Best 
Maddie

Log:
UCSF ChimeraX version: 1.7.1 (2024-01-23)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> artiax start

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

    
    
    set bgColor black
    lighting depthCue false
    camera ortho

  
Opened Position_4_2_9.52Apx.mrc as #1.1.1, grid size 1024,1024,376, pixel
9.52,9.52,9.52, shown at level 0.0431, step 1, values float32  

> artiax tomo #1.1.1 sliceDirection 0,0,1

> artiax view xy

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/1_2_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/3_4_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/5_6_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/7_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/8_10_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/11_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/12_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/13_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/14_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/15_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/16_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/17_18_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/19_20_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/21_22_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/23_24_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/25_27_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/28_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/29_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/30_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/31_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/32_33_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/34_37_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/38_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/39_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/40_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/41_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/42_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/43_45_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/46_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/47_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/48_49_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/50_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/51_53_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/54_55_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/56_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/57_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/58_59_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/60_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/61_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/62_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/63_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/64_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc
> format motl

Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/1_2_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/3_4_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/5_6_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/7_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/8_10_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/11_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/12_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/13_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/14_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/15_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/16_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/17_18_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/19_20_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/21_22_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/23_24_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/25_27_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/28_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/29_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/30_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/31_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/32_33_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/34_37_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/38_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/39_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/40_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/41_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/42_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/43_45_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/46_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/47_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/48_49_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/50_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/51_53_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/54_55_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/56_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/57_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/58_59_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/60_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/61_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/62_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/63_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/64_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc  
---  
note |
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
  
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc
is likely not a motivelist.  

> volume #1.1.1 level -0.1103,0 level 0.002895,0.5462 level 0.11,1

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/1_2_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/3_4_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/5_6_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/7_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/8_10_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/11_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/12_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/13_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/14_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/15_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/16_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/17_18_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/19_20_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/21_22_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/23_24_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/25_27_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/28_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/29_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/30_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/31_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/32_33_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/34_37_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/38_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/39_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/40_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/41_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/42_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/43_45_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/46_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/47_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/48_49_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/50_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/51_53_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/54_55_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/56_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/57_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/58_59_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/60_down.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/61_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/62_unknown.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/63_up.em
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/64_unknown.em
> format motl

Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/1_2_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/3_4_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/5_6_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/7_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/8_10_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/11_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/12_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/13_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/14_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/15_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/16_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/17_18_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/19_20_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/21_22_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/23_24_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/25_27_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/28_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/29_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/30_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/31_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/32_33_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/34_37_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/38_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/39_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/40_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/41_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/42_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/43_45_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/46_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/47_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/48_49_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/50_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/51_53_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/54_55_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/56_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/57_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/58_59_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/60_down.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/61_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/62_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/63_up.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Summary of feedback from opening
/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/64_unknown.em  
---  
notes | 15  
['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0']  
  
Opened Particle list 1_2_up.em with 2 particles.  
Opened Particle list 3_4_down.em with 2 particles.  
Opened Particle list 5_6_unknown.em with 2 particles.  
Opened Particle list 7_up.em with 1 particles.  
Opened Particle list 8_10_down.em with 3 particles.  
Opened Particle list 11_up.em with 1 particles.  
Opened Particle list 12_down.em with 1 particles.  
Opened Particle list 13_up.em with 1 particles.  
Opened Particle list 14_down.em with 1 particles.  
Opened Particle list 15_up.em with 1 particles.  
Opened Particle list 16_down.em with 1 particles.  
Opened Particle list 17_18_up.em with 2 particles.  
Opened Particle list 19_20_down.em with 2 particles.  
Opened Particle list 21_22_unknown.em with 2 particles.  
Opened Particle list 23_24_up.em with 2 particles.  
Opened Particle list 25_27_down.em with 3 particles.  
Opened Particle list 28_unknown.em with 1 particles.  
Opened Particle list 29_down.em with 1 particles.  
Opened Particle list 30_up.em with 1 particles.  
Opened Particle list 31_unknown.em with 1 particles.  
Opened Particle list 32_33_down.em with 2 particles.  
Opened Particle list 34_37_unknown.em with 4 particles.  
Opened Particle list 38_up.em with 1 particles.  
Opened Particle list 39_down.em with 1 particles.  
Opened Particle list 40_up.em with 1 particles.  
Opened Particle list 41_down.em with 1 particles.  
Opened Particle list 42_up.em with 1 particles.  
Opened Particle list 43_45_down.em with 3 particles.  
Opened Particle list 46_unknown.em with 1 particles.  
Opened Particle list 47_down.em with 1 particles.  
Opened Particle list 48_49_unknown.em with 2 particles.  
Opened Particle list 50_down.em with 1 particles.  
Opened Particle list 51_53_up.em with 3 particles.  
Opened Particle list 54_55_down.em with 2 particles.  
Opened Particle list 56_unknown.em with 1 particles.  
Opened Particle list 57_up.em with 1 particles.  
Opened Particle list 58_59_unknown.em with 2 particles.  
Opened Particle list 60_down.em with 1 particles.  
Opened Particle list 61_up.em with 1 particles.  
Opened Particle list 62_unknown.em with 1 particles.  
Opened Particle list 63_up.em with 1 particles.  
Opened Particle list 64_unknown.em with 1 particles.  

> artiax tomo #1.1.1 pixelSize 1.0

> artiax view xy

> artiax tomo #1.1.1 pixelSize 1.0

> artiax view xy

> set bgColor white

> artiax particles #1.2.1 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel
9.52,9.52,9.52, shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.1

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.1.1.1, grid size 24,180,24,
pixel 9.52,9.52,9.52, shown at level 0.0107, step 1, values float32  

> volume #1.2.1.1.1 capFaces false

> artiax show #1.2.1 surfaces

> view orient

> ui tool show "Map Coordinates"

> artiax particles #1.2.1 surfaceLevel 0.01047

> artiax particles #1.2.1 surfaceLevel 0.007

> artiax particles #1.2.1 surfaceLevel 0.00655

> lighting soft

> graphics silhouettes true

> artiax particles #1.2.2 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.2

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.2.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.2.1.1 capFaces false

> artiax show #1.2.2 surfaces

> artiax particles #1.2.2 surfaceLevel 0.01774

> artiax particles #1.2.2 surfaceLevel 0.01751

> artiax particles #1.2.2 surfaceLevel 0.00689

> artiax particles #1.2.2 surfaceLevel 0.00655

> artiax particles #1.2.3 color 88,100,40,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.3

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.3.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.3.1.1 capFaces false

> artiax show #1.2.3 surfaces

> artiax particles #1.2.3 color 62,80,0,100

> artiax particles #1.2.3 surfaceLevel 0.00655

> artiax particles #1.2.3 color 26,40,0,100

> artiax particles #1.2.3 color 100,100,50,100

> artiax particles #1.2.3 color 56,49,0,100

> artiax particles #1.2.3 color 62,80,0,100

> artiax particles #1.2.3 color 50,50,50,100

> artiax particles #1.2.3 color 60,25,0,100

> artiax particles #1.2.3 color 50,50,50,100

> artiax particles #1.2.3 color 0,36,19,100

> artiax particles #1.2.3 color 50,50,50,100

> artiax particles #1.2.4 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.4

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.4.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.4.1.1 capFaces false

> artiax show #1.2.4 surfaces

> artiax particles #1.2.4 surfaceLevel 0.00644

> artiax particles #1.2.4 surfaceLevel 0.00655

> artiax particles #1.2.5 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.5

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.5.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.5.1.1 capFaces false

> artiax show #1.2.5 surfaces

> artiax particles #1.2.5 surfaceLevel 0.00655

> artiax particles #1.2.6 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.6

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.6.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.6.1.1 capFaces false

> artiax show #1.2.6 surfaces

> artiax particles #1.2.6 surfaceLevel 0.00678

> artiax particles #1.2.6 surfaceLevel 0.00655

> hide #!1.2.6 models

> show #!1.2.6 models

> artiax particles #1.2.7 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.7

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.7.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.7.1.1 capFaces false

> artiax show #1.2.7 surfaces

> artiax particles #1.2.7 surfaceLevel 0.00655

> artiax particles #1.2.8 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.8

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.8.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.8.1.1 capFaces false

> artiax show #1.2.8 surfaces

> artiax particles #1.2.8 surfaceLevel 0.01774

[Repeated 1 time(s)]

> artiax particles #1.2.8 surfaceLevel -0.00128

> artiax particles #1.2.8 surfaceLevel 0.00029

> artiax particles #1.2.8 surfaceLevel 0.00129

> artiax particles #1.2.8 surfaceLevel 0.00398

> artiax particles #1.2.8 surfaceLevel 0.00622

> artiax particles #1.2.8 surfaceLevel 0.00722

> artiax particles #1.2.8 surfaceLevel 0.007

> artiax particles #1.2.8 surfaceLevel 0.00666

> artiax particles #1.2.8 surfaceLevel 0.00655

> artiax particles #1.2.9 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.9

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.9.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.9.1.1 capFaces false

> artiax show #1.2.9 surfaces

> artiax particles #1.2.9 surfaceLevel 0.00655

> artiax particles #1.2.10 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.10

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.10.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.10.1.1 capFaces false

> artiax show #1.2.10 surfaces

> artiax particles #1.2.10 surfaceLevel 0.00655

> artiax particles #1.2.11 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.11

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.11.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.11.1.1 capFaces false

> artiax show #1.2.11 surfaces

> artiax particles #1.2.11 surfaceLevel 0.00655

> artiax particles #1.2.12 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.12

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.12.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.12.1.1 capFaces false

> artiax show #1.2.12 surfaces

> artiax particles #1.2.12 surfaceLevel 0.00655

> artiax particles #1.2.13 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.13

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.13.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.13.1.1 capFaces false

> artiax show #1.2.13 surfaces

> artiax particles #1.2.13 surfaceLevel 0.00655

> artiax particles #1.2.14 color 50,50,50,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.14

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.14.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.14.1.1 capFaces false

> artiax show #1.2.14 surfaces

> artiax particles #1.2.14 surfaceLevel 0.00666

[Repeated 1 time(s)]

> artiax particles #1.2.14 surfaceLevel 0.00655

> artiax particles #1.2.15 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.15

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.15.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.15.1.1 capFaces false

> artiax show #1.2.15 surfaces

> artiax particles #1.2.15 surfaceLevel 0.00655

> artiax particles #1.2.16 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.16

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.16.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.16.1.1 capFaces false

> artiax show #1.2.16 surfaces

> artiax particles #1.2.16 surfaceLevel 0.00655

> artiax particles #1.2.17 color 50,50,50,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.17

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.17.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.17.1.1 capFaces false

> artiax show #1.2.17 surfaces

> artiax particles #1.2.17 surfaceLevel 0.00655

> artiax particles #1.2.18 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.18

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.18.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.18.1.1 capFaces false

> artiax show #1.2.18 surfaces

> artiax particles #1.2.18 surfaceLevel 0.00655

> artiax particles #1.2.19 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.19

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.19.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.19.1.1 capFaces false

> artiax show #1.2.19 surfaces

> artiax particles #1.2.19 surfaceLevel 0.00655

> artiax particles #1.2.20 color 50,50,50,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.20

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.20.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.20.1.1 capFaces false

> artiax show #1.2.20 surfaces

> artiax particles #1.2.20 surfaceLevel 0.007

> artiax particles #1.2.20 surfaceLevel 0.00678

> artiax particles #1.2.20 surfaceLevel 0.00666

> artiax particles #1.2.20 surfaceLevel 0.00655

[Repeated 1 time(s)]

> artiax particles #1.2.21 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.21

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.21.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.21.1.1 capFaces false

> artiax show #1.2.21 surfaces

> artiax particles #1.2.21 surfaceLevel 0.00644

> artiax particles #1.2.21 surfaceLevel 0.00678

> artiax particles #1.2.21 surfaceLevel 0.00644

> artiax particles #1.2.21 surfaceLevel 0.00655

> artiax particles #1.2.22 color 50,50,50,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.22

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.22.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.22.1.1 capFaces false

> artiax show #1.2.22 surfaces

> artiax particles #1.2.22 surfaceLevel 0.00655

> artiax particles #1.2.23 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.23

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.23.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.23.1.1 capFaces false

> artiax show #1.2.23 surfaces

> artiax particles #1.2.23 surfaceLevel 0.00655

> artiax particles #1.2.24 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.24

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.24.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.24.1.1 capFaces false

> artiax show #1.2.24 surfaces

> artiax particles #1.2.24 surfaceLevel 0.00644

> artiax particles #1.2.24 surfaceLevel 0.00655

> artiax particles #1.2.25 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.25

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.25.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.25.1.1 capFaces false

> artiax show #1.2.25 surfaces

> artiax particles #1.2.25 surfaceLevel 0.00655

> artiax particles #1.2.26 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.26

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.26.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.26.1.1 capFaces false

> artiax show #1.2.26 surfaces

> artiax particles #1.2.26 surfaceLevel 0.00666

> artiax particles #1.2.26 surfaceLevel 0.00655

> artiax particles #1.2.27 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.27

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.27.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.27.1.1 capFaces false

> artiax show #1.2.27 surfaces

> artiax particles #1.2.27 surfaceLevel 0.00655

> hide #!1.2.25 models

> show #!1.2.25 models

> artiax particles #1.2.28 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.28

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.28.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.28.1.1 capFaces false

> artiax show #1.2.28 surfaces

> artiax particles #1.2.28 surfaceLevel 0.00644

> artiax particles #1.2.28 surfaceLevel 0.00655

> artiax particles #1.2.29 color 50,50,50,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.29

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.29.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.29.1.1 capFaces false

> artiax show #1.2.29 surfaces

> artiax particles #1.2.29 surfaceLevel 0.00655

> artiax particles #1.2.30 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.30

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.30.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.30.1.1 capFaces false

> artiax show #1.2.30 surfaces

> artiax particles #1.2.30 surfaceLevel 0.00655

> artiax particles #1.2.31 color 50,50,50,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.31

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.31.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.31.1.1 capFaces false

> artiax show #1.2.31 surfaces

> artiax particles #1.2.31 surfaceLevel 0.00655

> artiax particles #1.2.32 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.32

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.32.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.32.1.1 capFaces false

> artiax show #1.2.32 surfaces

> artiax particles #1.2.32 surfaceLevel 0.00655

> artiax particles #1.2.33 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.33

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.33.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.33.1.1 capFaces false

> artiax show #1.2.33 surfaces

> artiax particles #1.2.33 surfaceLevel 0.00655

> artiax particles #1.2.34 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.34

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.34.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.34.1.1 capFaces false

> artiax show #1.2.34 surfaces

> artiax particles #1.2.34 surfaceLevel 0.00655

> artiax particles #1.2.35 color 50,50,50,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.35

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.35.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.35.1.1 capFaces false

> artiax show #1.2.35 surfaces

> artiax particles #1.2.35 surfaceLevel 0.00655

> artiax particles #1.2.36 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.36

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.36.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.36.1.1 capFaces false

> artiax show #1.2.36 surfaces

> artiax particles #1.2.36 surfaceLevel 0.00655

> artiax particles #1.2.37 color 50,50,50,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.37

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.37.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.37.1.1 capFaces false

> artiax show #1.2.37 surfaces

> artiax particles #1.2.37 surfaceLevel 0.00655

> artiax particles #1.2.38 color 0,46,86,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.38

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.38.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.38.1.1 capFaces false

> artiax show #1.2.38 surfaces

> artiax particles #1.2.38 surfaceLevel 0.00666

[Repeated 2 time(s)]

> artiax particles #1.2.38 surfaceLevel 0.00655

> artiax particles #1.2.39 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.39

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.39.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.39.1.1 capFaces false

> artiax show #1.2.39 surfaces

> artiax particles #1.2.39 surfaceLevel 0.00655

> artiax particles #1.2.40 color 50,50,50,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.40

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.40.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.40.1.1 capFaces false

> artiax show #1.2.40 surfaces

> artiax particles #1.2.40 surfaceLevel 0.00912

> artiax particles #1.2.40 surfaceLevel 0.00868

> artiax particles #1.2.40 surfaceLevel 0.00655

> artiax particles #1.2.41 color 0,60,56,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.41

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.41.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.41.1.1 capFaces false

> artiax show #1.2.41 surfaces

> artiax particles #1.2.41 surfaceLevel 0.00655

> artiax particles #1.2.42 color 50,50,50,100

> open
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc

/Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/LO_position_0042_AvgVol_5P64.mrc:
invalid cell angles 0,0,0 must be between 0 and 180.  
Opened LO_position_0042_AvgVol_5P64.mrc as #2, grid size 24,180,24, pixel 1,
shown at level 0.0107, step 1, values float32  

> artiax attach #2 toParticleList #1.2.42

Opened LO_position_0042_AvgVol_5P64.mrc as #1.2.42.1.1, grid size 24,180,24,
pixel 1, shown at level 0.0107, step 1, values float32  

> volume #1.2.42.1.1 capFaces false

> artiax show #1.2.42 surfaces

> artiax particles #1.2.42 surfaceLevel 0.00655

> artiax hide markers

> artiax hide axes

> save
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/test.cxs
> includeMaps true

Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 273, in discovery  
self.processed[key] = self.process(obj, parents)  
^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 310, in process  
return copy_state(data, convert=convert)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 232, in copy_state  
return _copy(data)  
^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 230, in _copy  
return convert(data)  
^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 309, in convert  
return add_obj(obj, parents)  
^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 281, in _add_obj  
uid = _UniqueName.from_obj(self.session, obj)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 153, in from_obj  
if obj_cls != bundle_info.get_class(obj_cls.__name__, session.logger):  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/info.py", line 487, in get_class  
return f(class_name)  
^^^^^^^^^^^^^  
File "/Users/bs17magg/Library/Application
Support/ChimeraX/1.7/lib/python/site-packages/chimerax/artiax/__init__.py",
line 37, in get_class  
raise ValueError("Unknown class name '%s'" % class_name)  
ValueError: Unknown class name 'MarkerSetPlus'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 912, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 636, in save  
mgr.discovery(self._state_containers)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 277, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'attribute registration' ->
<chimerax.core.attributes.RegAttrManager object at 0x1069fc5d0> ->
<chimerax.atomic.molobject.Atom object at 0x1a27fdad0> 'M': Unknown class name
'MarkerSetPlus'  
  
ValueError: error processing: 'attribute registration' -> -> 'M': Unknown
class name 'MarkerSetPlus'  
  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 277, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 273, in discovery  
self.processed[key] = self.process(obj, parents)  
^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 310, in process  
return copy_state(data, convert=convert)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 232, in copy_state  
return _copy(data)  
^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 230, in _copy  
return convert(data)  
^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 309, in convert  
return add_obj(obj, parents)  
^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 281, in _add_obj  
uid = _UniqueName.from_obj(self.session, obj)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 153, in from_obj  
if obj_cls != bundle_info.get_class(obj_cls.__name__, session.logger):  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/info.py", line 487, in get_class  
return f(class_name)  
^^^^^^^^^^^^^  
File "/Users/bs17magg/Library/Application
Support/ChimeraX/1.7/lib/python/site-packages/chimerax/artiax/__init__.py",
line 37, in get_class  
raise ValueError("Unknown class name '%s'" % class_name)  
ValueError: Unknown class name 'MarkerSetPlus'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 127, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 138, in show_save_file_dialog  
_dlg.display(session, **kw)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 62, in display  
run(session, cmd)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/run.py", line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2908, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 86, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2908, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 101, in provider_save  
saver_info.save(session, path, **provider_kw)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core_formats/__init__.py", line 95, in save  
return cxs_save(session, path, **kw)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 912, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 636, in save  
mgr.discovery(self._state_containers)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 277, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'attribute registration' ->
<chimerax.core.attributes.RegAttrManager object at 0x1069fc5d0> ->
<chimerax.atomic.molobject.Atom object at 0x1a27fdad0> 'M': Unknown class name
'MarkerSetPlus'  
  
ValueError: error processing: 'attribute registration' -> -> 'M': Unknown
class name 'MarkerSetPlus'  
  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 277, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  

> save
> /Users/bs17magg/Documents/process/NBB_manuscript/euler_angles/LO_0042/Polarity_em_files/test.cxs

Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 273, in discovery  
self.processed[key] = self.process(obj, parents)  
^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 310, in process  
return copy_state(data, convert=convert)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 232, in copy_state  
return _copy(data)  
^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 230, in _copy  
return convert(data)  
^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 309, in convert  
return add_obj(obj, parents)  
^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 281, in _add_obj  
uid = _UniqueName.from_obj(self.session, obj)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 153, in from_obj  
if obj_cls != bundle_info.get_class(obj_cls.__name__, session.logger):  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/info.py", line 487, in get_class  
return f(class_name)  
^^^^^^^^^^^^^  
File "/Users/bs17magg/Library/Application
Support/ChimeraX/1.7/lib/python/site-packages/chimerax/artiax/__init__.py",
line 37, in get_class  
raise ValueError("Unknown class name '%s'" % class_name)  
ValueError: Unknown class name 'MarkerSetPlus'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 912, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 636, in save  
mgr.discovery(self._state_containers)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 277, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'attribute registration' ->
<chimerax.core.attributes.RegAttrManager object at 0x1069fc5d0> ->
<chimerax.atomic.molobject.Atom object at 0x1a27fdad0> 'M': Unknown class name
'MarkerSetPlus'  
  
ValueError: error processing: 'attribute registration' -> -> 'M': Unknown
class name 'MarkerSetPlus'  
  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 277, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 273, in discovery  
self.processed[key] = self.process(obj, parents)  
^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 310, in process  
return copy_state(data, convert=convert)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 232, in copy_state  
return _copy(data)  
^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in <listcomp>  
items = [(_copy(k), _copy(v)) for k, v in data.items()]  
^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 230, in _copy  
return convert(data)  
^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 309, in convert  
return add_obj(obj, parents)  
^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 281, in _add_obj  
uid = _UniqueName.from_obj(self.session, obj)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 153, in from_obj  
if obj_cls != bundle_info.get_class(obj_cls.__name__, session.logger):  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/info.py", line 487, in get_class  
return f(class_name)  
^^^^^^^^^^^^^  
File "/Users/bs17magg/Library/Application
Support/ChimeraX/1.7/lib/python/site-packages/chimerax/artiax/__init__.py",
line 37, in get_class  
raise ValueError("Unknown class name '%s'" % class_name)  
ValueError: Unknown class name 'MarkerSetPlus'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 127, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 138, in show_save_file_dialog  
_dlg.display(session, **kw)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 62, in display  
run(session, cmd)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/run.py", line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2908, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 86, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2908, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 101, in provider_save  
saver_info.save(session, path, **provider_kw)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core_formats/__init__.py", line 95, in save  
return cxs_save(session, path, **kw)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 912, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 636, in save  
mgr.discovery(self._state_containers)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 277, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'attribute registration' ->
<chimerax.core.attributes.RegAttrManager object at 0x1069fc5d0> ->
<chimerax.atomic.molobject.Atom object at 0x1a27fdad0> 'M': Unknown class name
'MarkerSetPlus'  
  
ValueError: error processing: 'attribute registration' -> -> 'M': Unknown
class name 'MarkerSetPlus'  
  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 277, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 INTEL-20.6.4
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 640
OpenGL vendor: Intel Inc.

Python: 3.11.2
Locale: UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Pro
      Model Identifier: MacBookPro14,1
      Processor Name: Dual-Core Intel Core i5
      Processor Speed: 2.3 GHz
      Number of Processors: 1
      Total Number of Cores: 2
      L2 Cache (per Core): 256 KB
      L3 Cache: 4 MB
      Hyper-Threading Technology: Enabled
      Memory: 16 GB
      System Firmware Version: 526.0.0.0.0
      OS Loader Version: 577.140.2~22
      SMC Version (system): 2.43f11

Software:

    System Software Overview:

      System Version: macOS 13.6.4 (22G513)
      Kernel Version: Darwin 22.6.0
      Time since boot: 6 days, 7 minutes

Graphics/Displays:

    Intel Iris Plus Graphics 640:

      Chipset Model: Intel Iris Plus Graphics 640
      Type: GPU
      Bus: Built-In
      VRAM (Dynamic, Max): 1536 MB
      Vendor: Intel
      Device ID: 0x5926
      Revision ID: 0x0006
      Metal Support: Metal 3
      Displays:
        Color LCD:
          Display Type: Built-In Retina LCD
          Resolution: 2560 x 1600 Retina
          Framebuffer Depth: 30-Bit Color (ARGB2101010)
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal
        DELL P2720D:
          Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
          UI Looks like: 2560 x 1440 @ 60.00Hz
          Framebuffer Depth: 30-Bit Color (ARGB2101010)
          Display Serial Number: B8ZZS03     
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Rotation: Supported
          Connection Type: DVI or HDMI
          Adapter Firmware Version: 7.55


Installed Packages:
    alabaster: 0.7.16
    appdirs: 1.4.4
    appnope: 0.1.3
    asttokens: 2.4.1
    Babel: 2.14.0
    backcall: 0.2.0
    beautifulsoup4: 4.11.2
    blockdiag: 3.0.0
    blosc2: 2.0.0
    build: 0.10.0
    certifi: 2022.12.7
    cftime: 1.6.3
    charset-normalizer: 3.3.2
    ChimeraX-AddCharge: 1.5.13
    ChimeraX-AddH: 2.2.5
    ChimeraX-AlignmentAlgorithms: 2.0.1
    ChimeraX-AlignmentHdrs: 3.4.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.12.2
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.1.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-ArtiaX: 0.3
    ChimeraX-Atomic: 1.49.1
    ChimeraX-AtomicLibrary: 12.1.5
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.3.2
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.1.2
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.10.5
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.2
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.3.2
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.2.4
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.5
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.7.1
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2
    ChimeraX-DistMonitor: 1.4
    ChimeraX-DockPrep: 1.1.3
    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: 1.1.1
    ChimeraX-Hbonds: 2.4
    ChimeraX-Help: 1.2.2
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-Label: 1.1.8
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.1.6
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.1.4
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.2
    ChimeraX-MatchMaker: 2.1.2
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.6.1
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.12.1
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.14
    ChimeraX-ModelPanel: 1.4
    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-Neuron: 1.0
    ChimeraX-Nifti: 1.1
    ChimeraX-NRRD: 1.1
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.13.1
    ChimeraX-PDB: 2.7.3
    ChimeraX-PDBBio: 1.0.1
    ChimeraX-PDBLibrary: 1.0.4
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PhenixUI: 1.2.1
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.1
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.2
    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-SelInspector: 1.0
    ChimeraX-SeqView: 2.11
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.2
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.12.4
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1.2
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.2.2
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.33.3
    ChimeraX-uniprot: 2.3
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.3.2
    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: 1.1.3
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.1
    contourpy: 1.2.0
    cxservices: 1.2.2
    cycler: 0.12.1
    Cython: 0.29.33
    debugpy: 1.8.0
    decorator: 5.1.1
    docutils: 0.19
    executing: 2.0.1
    filelock: 3.9.0
    fonttools: 4.47.2
    funcparserlib: 2.0.0a0
    geomdl: 5.3.1
    glfw: 2.6.4
    grako: 3.16.5
    h5py: 3.10.0
    html2text: 2020.1.16
    idna: 3.6
    ihm: 0.38
    imagecodecs: 2023.9.18
    imagesize: 1.4.1
    ipykernel: 6.23.2
    ipython: 8.14.0
    ipython-genutils: 0.2.0
    ipywidgets: 8.1.1
    jedi: 0.18.2
    Jinja2: 3.1.2
    jupyter-client: 8.2.0
    jupyter-core: 5.7.1
    jupyterlab-widgets: 3.0.9
    kiwisolver: 1.4.5
    line-profiler: 4.0.2
    lxml: 4.9.2
    lz4: 4.3.2
    MarkupSafe: 2.1.4
    matplotlib: 3.7.2
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.6.0
    netCDF4: 1.6.2
    networkx: 3.1
    nibabel: 5.0.1
    nptyping: 2.5.0
    numexpr: 2.8.8
    numpy: 1.25.1
    openvr: 1.23.701
    packaging: 21.3
    pandas: 2.2.0
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pexpect: 4.9.0
    pickleshare: 0.7.5
    pillow: 10.2.0
    pip: 23.0
    pkginfo: 1.9.6
    platformdirs: 4.1.0
    prompt-toolkit: 3.0.43
    psutil: 5.9.5
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    py-cpuinfo: 9.0.0
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.16.1
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.2801
    pyparsing: 3.0.9
    pyproject-hooks: 1.0.0
    PyQt6-commercial: 6.3.1
    PyQt6-Qt6: 6.3.2
    PyQt6-sip: 13.4.0
    PyQt6-WebEngine-commercial: 6.3.1
    PyQt6-WebEngine-Qt6: 6.3.2
    python-dateutil: 2.8.2
    pytz: 2023.3.post1
    pyzmq: 25.1.2
    qtconsole: 5.4.3
    QtPy: 2.4.1
    RandomWords: 0.4.0
    requests: 2.31.0
    scipy: 1.11.1
    setuptools: 67.4.0
    setuptools-scm: 7.0.5
    sfftk-rw: 0.7.3
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.5
    sphinx: 6.1.3
    sphinx-autodoc-typehints: 1.22
    sphinxcontrib-applehelp: 1.0.8
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.6
    sphinxcontrib-htmlhelp: 2.0.5
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.7
    sphinxcontrib-serializinghtml: 1.1.10
    stack-data: 0.6.3
    starfile: 0.5.4
    superqt: 0.5.0
    tables: 3.8.0
    tcia-utils: 1.5.1
    tifffile: 2023.7.18
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.4
    traitlets: 5.9.0
    typing-extensions: 4.9.0
    tzdata: 2023.4
    urllib3: 2.1.0
    wcwidth: 0.2.13
    webcolors: 1.12
    wheel: 0.38.4
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.9

Change History (3)

comment:1 by Eric Pettersen, 21 months ago

Cc:	Eric Pettersen added
Component:	Unassigned → Third Party
Owner:	set to Utz Ermel
Platform:	→ all
Project:	→ ChimeraX
Status:	new → assigned
Summary:	ChimeraX bug report submission → ArtiaX session save: Unknown class name 'MarkerSetPlus'

comment:2 by Eric Pettersen, 21 months ago

Hi Maddie,

This is indeed a problem in ArtiaX, which has been reported a few times since the ArtiaX 0.3 release, but no fix yet. Do you know how to program Python? If you do, I could guide you in modifying the ArtiaX code in a way that I *think* will fix the problem (I'm not an ArtiaX programmer).

--Eric

Eric Pettersen
UCSF Computer Graphics Lab

comment:3 by Utz Ermel, 19 months ago

Hi Maddie,

Saving in ChimeraX sessions is now supported starting with ArtiaX version 0.4.1, which I have just released on the toolshed (available for  ChimeraX 1.7.1). Also available here: https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_FrangakisLab_ArtiaX_releases_tag_0.4&d=DwIFaQ&c=euGZstcaTDllvimEN8b7jXrwqOf-v5A_CdpgnVfiiMM&r=CKzZmwKi9_YVvHng-0ezdJFE-0MROfpdFWLsI4CZgtQ&m=3KnDIvTlb_hDrumtKkPdQkA78wj510Op2dGIKO-Fpv1NoTH5POYDmROOXuvnyF9d&s=tnAo0lH29_O-YKC6BK0tHTJfTMI2681BxxdlbFWhosE&e=

Best,
Utz

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