![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 3 years ago
Closed 3 years ago
#6991 closed defect (fixed)
self._positions is None after model ID changed and closed
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | Version: | |
| Keywords: | Cc: | pett | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description (last modified by )
The following bug report has been submitted:
Platform: Windows-10-10.0.19044
ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/RESCmovie/tile-3.cxs
Log from Mon May 30 20:15:08 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/RESCmovie/tile.cxs
Log from Mon May 30 20:03:06 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/RESCmovie/rescb-17.cxs
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 zone as #6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 zone as #7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-C_new.mrc 1 as #10.2, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 2 as #10.3, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 3 as #10.4, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 4 as #10.5, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 5 as #10.6, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 6 as #10.7, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 7 as #10.8, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 8 as #10.9, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 9 as #10.10, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 1 zone as #11, grid size 256,256,256, pixel 1.06, shown
at level 0.00908, step 1, values float32
Opened RESC-C_new.mrc 4 zone as #15, grid size 256,256,256, pixel 1.06, shown
at level 0.0424, step 1, values float32
Opened RESC-C_new.mrc 6 zone as #17, grid size 256,256,256, pixel 1.06, shown
at level 0.0352, step 1, values float32
Opened RESC-C_new.mrc 8 zone as #19, grid size 256,256,256, pixel 1.06, shown
at level 0.0345, step 1, values float32
Log from Mon May 30 19:09:45 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/RESCmovie/rescb-16.cxs
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0134, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0123, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 zone as #6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 zone as #7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-C_new.mrc 1 as #10.2, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 2 as #10.3, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 3 as #10.4, grid size 256,256,256, pixel 1.06, shown at
level 0.0289, step 1, values float32
Opened RESC-C_new.mrc 4 as #10.5, grid size 256,256,256, pixel 1.06, shown at
level 0.0424, step 1, values float32
Opened RESC-C_new.mrc 5 as #10.6, grid size 256,256,256, pixel 1.06, shown at
level 0.0274, step 1, values float32
Opened RESC-C_new.mrc 6 as #10.7, grid size 256,256,256, pixel 1.06, shown at
level 0.0352, step 1, values float32
Opened RESC-C_new.mrc 7 as #10.8, grid size 256,256,256, pixel 1.06, shown at
level 0.0152, step 1, values float32
Opened RESC-C_new.mrc 8 as #10.9, grid size 256,256,256, pixel 1.06, shown at
level 0.0345, step 1, values float32
Opened RESC-C_new.mrc 9 as #10.10, grid size 256,256,256, pixel 1.06, shown at
level 0.0311, step 1, values float32
Opened RESC-C_new.mrc 1 zone as #11, grid size 256,256,256, pixel 1.06, shown
at level 0.00908, step 1, values float32
Opened RESC-C_new.mrc 4 zone as #15, grid size 256,256,256, pixel 1.06, shown
at level 0.0424, step 1, values float32
Opened RESC-C_new.mrc 6 zone as #17, grid size 256,256,256, pixel 1.06, shown
at level 0.0352, step 1, values float32
Opened RESC-C_new.mrc 8 zone as #19, grid size 256,256,256, pixel 1.06, shown
at level 0.0345, step 1, values float32
Log from Mon May 30 16:11:44 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/RESCmovie/rescb-15.cxs
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0134, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0123, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 zone as #6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 zone as #7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-C_new.mrc 1 as #10.2, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 2 as #10.3, grid size 256,256,256, pixel 1.06, shown at
step 1, values float32
Opened RESC-C_new.mrc 3 as #10.4, grid size 256,256,256, pixel 1.06, shown at
level 0.0289, step 1, values float32
Opened RESC-C_new.mrc 4 as #10.5, grid size 256,256,256, pixel 1.06, shown at
level 0.0424, step 1, values float32
Opened RESC-C_new.mrc 5 as #10.6, grid size 256,256,256, pixel 1.06, shown at
level 0.0274, step 1, values float32
Opened RESC-C_new.mrc 6 as #10.7, grid size 256,256,256, pixel 1.06, shown at
level 0.0352, step 1, values float32
Opened RESC-C_new.mrc 7 as #10.8, grid size 256,256,256, pixel 1.06, shown at
level 0.0152, step 1, values float32
Opened RESC-C_new.mrc 8 as #10.9, grid size 256,256,256, pixel 1.06, shown at
level 0.0345, step 1, values float32
Opened RESC-C_new.mrc 9 as #10.10, grid size 256,256,256, pixel 1.06, shown at
level 0.0311, step 1, values float32
Log from Mon May 30 15:07:39 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/RESCmovie/rescb-14.cxs
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 zone as #6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 zone as #7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Log from Sat May 28 22:30:27 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:\Users\jason431\Desktop\RESCmovie\rescb-10.cxs format session
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 zone as #6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 zone as #7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Log from Sat May 28 20:28:25 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/RESCmovie/rescb-7.cxs
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0134, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0123, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0124, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0256, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0225, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at level 0.03, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0274, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0291, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0342, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 zone as #6, grid size 256,256,256, pixel 1.06,
shown at level 0.0164, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 zone as #7, grid size 256,256,256, pixel 1.06,
shown at level 0.0138, step 1, values float32
Log from Sat May 28 19:36:53 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/RESCmovie/rescb-6.cxs
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0134, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0123, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0124, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0256, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0225, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at level 0.03, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0274, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0291, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0342, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 zone as #6, grid size 256,256,256, pixel 1.06,
shown at level 0.0164, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 zone as #7, grid size 256,256,256, pixel 1.06,
shown at level 0.0138, step 1, values float32
Log from Sat May 28 19:30:35 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/RESCmovie/rescb-5.cxs
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0134, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0123, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0124, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0256, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0225, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at level 0.03, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0274, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0291, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0342, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 zone as #6, grid size 256,256,256, pixel 1.06,
shown at level 0.0164, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 zone as #7, grid size 256,256,256, pixel 1.06,
shown at level 0.0138, step 1, values float32
Log from Sat May 28 19:03:27 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/RESCmovie/rescb-2.cxs
Opened RESC-B0_3.4A_0910.mrc as #1.1, grid size 256,256,256, pixel 1.06, shown
at level 0.0142, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc as #1.2, grid size 256,256,256, pixel 1.06, shown
at level 0.0171, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc as #1.3, grid size 256,256,256, pixel 1.06, shown
at level 0.0243, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 0 as #3.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0148, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 3 as #3.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 4 as #3.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 5 as #3.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 6 as #3.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 as #3.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0163, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 8 as #3.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 9 as #3.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0128, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 0 as #4.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 1 as #4.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0183, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 2 as #4.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0178, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 3 as #4.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 4 as #4.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0209, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 6 as #4.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0235, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 as #4.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0195, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 8 as #4.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 9 as #4.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 10 as #4.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 0 as #5.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 1 as #5.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0255, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 2 as #5.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0268, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0341, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0361, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 5 as #5.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0315, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0279, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 7 as #5.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0232, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0322, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0336, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 10 as #5.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 zone as #6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
Log from Sat May 28 18:44:29 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/RESCmovie/rescb.cxs
Opened RESC-B0_3.4A_0910.mrc as #1.1, grid size 256,256,256, pixel 1.06, shown
at level 0.0142, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc as #1.2, grid size 256,256,256, pixel 1.06, shown
at level 0.0171, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc as #1.3, grid size 256,256,256, pixel 1.06, shown
at level 0.0243, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 0 as #3.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0148, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 3 as #3.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 4 as #3.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 5 as #3.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 6 as #3.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 as #3.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0163, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 8 as #3.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 9 as #3.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0128, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 0 as #4.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 1 as #4.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0183, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 2 as #4.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0178, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 3 as #4.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 4 as #4.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0319, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 6 as #4.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0235, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 as #4.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0195, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 8 as #4.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 9 as #4.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 10 as #4.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 0 as #5.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 1 as #5.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0255, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 2 as #5.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0268, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0341, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0361, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 5 as #5.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0315, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0279, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 7 as #5.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0232, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0322, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0336, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 10 as #5.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Log from Sat May 28 18:29:42 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
> open C:/Users/jason431/Desktop/resc-fig1/rescb.cxs
Opened RESC-B0_3.4A_0910.mrc as #1.1, grid size 256,256,256, pixel 1.06, shown
at level 0.0142, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc as #1.2, grid size 256,256,256, pixel 1.06, shown
at level 0.0171, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc as #1.3, grid size 256,256,256, pixel 1.06, shown
at level 0.0243, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 0 as #3.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0148, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 3 as #3.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 4 as #3.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 5 as #3.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 6 as #3.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 as #3.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0163, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 8 as #3.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 9 as #3.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0128, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 0 as #4.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 1 as #4.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0183, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 2 as #4.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0178, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 3 as #4.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 4 as #4.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0319, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 6 as #4.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0235, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 as #4.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0195, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 8 as #4.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 9 as #4.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 10 as #4.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 0 as #5.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 1 as #5.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0255, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 2 as #5.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0268, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0341, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0361, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 5 as #5.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0315, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0279, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 7 as #5.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0232, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0322, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0336, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 10 as #5.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Log from Mon May 9 14:52:49 2022UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open C:/Users/jason431/Downloads/drive-download-20220509T213532Z-001.zip
Unrecognized file suffix '.zip'
> open C:/Users/jason431/Downloads/drive-
> download-20220509T213532Z-001/RESC-B0_3.4A_0910.mrc
> C:/Users/jason431/Downloads/drive-
> download-20220509T213532Z-001/RESC-B1_3.4A_0910.mrc
> C:/Users/jason431/Downloads/drive-
> download-20220509T213532Z-001/RESC-B2_3.4A_0910.mrc
Opened RESC-B0_3.4A_0910.mrc as #1.1, grid size 256,256,256, pixel 1.06, shown
at level 0.0142, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc as #1.2, grid size 256,256,256, pixel 1.06, shown
at level 0.0171, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc as #1.3, grid size 256,256,256, pixel 1.06, shown
at level 0.0243, step 1, values float32
> surface dust #1.1 size 10.6
> surface dust #1.2 size 10.6
> surface dust #1.3 size 10.6
> hide #!1.2 models
> hide #!1.3 models
> hide #!1.1 models
> show #!1.2 models
> hide #!1.2 models
> show #!1.3 models
> open C:/Users/jason431/Downloads/RESCs-B_RNA-coot-7-chimerax.pdb
Chain information for RESCs-B_RNA-coot-7-chimerax.pdb #2
---
Chain | Description
0 | No description available
12 | No description available
4 | No description available
5 | No description available
6 | No description available
7 | No description available
8 | No description available
9 | No description available
g | No description available
m | No description available
> hide atoms
> show cartoons
> dssp
> hide #!1.3 models
> set bgColor white
> select /0
3220 atoms, 3268 bonds, 2 pseudobonds, 406 residues, 2 models selected
> color (#!2 & sel) #8bc163ff
> color #2/7 #3C3B3D
> color #2/8 #AD93E6
> color #2/9 #7DB1B1
> color #2/2 #EC87C0
> color #2/12 #EC87C0
> color #2/4 #F6BA59
> color #2/m #ff00ff
> color #2/g #ff0000
> select clear
> show #!1.3 models
> show #!1.2 models
> show #!1.1 models
> ui tool show "Surface Color"
> ui tool show "Color Zone"
> hide #!1.2 models
> hide #!1.3 models
> color zone #1.1 near #2 distance 20
> hide #!1.1 models
> color #2/5 #FC6E51
> color #2/6 #5D9CEC
> show #!1.1 models
> color zone #1.1 near #2 distance 20
> volume splitbyzone #1.1
Opened RESC-B0_3.4A_0910.mrc 0 as #3.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 1 as #3.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 2 as #3.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 3 as #3.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 4 as #3.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 5 as #3.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 6 as #3.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 7 as #3.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 8 as #3.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 9 as #3.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
Opened RESC-B0_3.4A_0910.mrc 10 as #3.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0142, step 1, values float32
> color zone #1.2 near #2 distance 20
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!1.2 models
> volume splitbyzone #1.2
Opened RESC-B1_3.4A_0910.mrc 0 as #4.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 1 as #4.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 2 as #4.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 3 as #4.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 4 as #4.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 5 as #4.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 6 as #4.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 7 as #4.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 8 as #4.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 9 as #4.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
Opened RESC-B1_3.4A_0910.mrc 10 as #4.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0171, step 1, values float32
> hide #!2 models
> show #!1.3 models
> show #!2 models
> hide #!4 models
> hide #!2 models
> show #!2 models
> color zone #1.3 near #2 distance 20
> volume splitbyzone #1.3
Opened RESC-B2_3.4A_0910.mrc 0 as #5.1, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 1 as #5.2, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 2 as #5.3, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 3 as #5.4, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 4 as #5.5, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 5 as #5.6, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 6 as #5.7, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 7 as #5.8, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 8 as #5.9, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 9 as #5.10, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
Opened RESC-B2_3.4A_0910.mrc 10 as #5.11, grid size 256,256,256, pixel 1.06,
shown at level 0.0243, step 1, values float32
> surface dust #5.1 size 10.6
> surface dust #5.2 size 10.6
> surface dust #5.3 size 10.6
> surface dust #5.4 size 10.6
> surface dust #5.5 size 10.6
> surface dust #5.6 size 10.6
> surface dust #5.7 size 10.6
> surface dust #5.8 size 10.6
> surface dust #5.9 size 10.6
> surface dust #5.10 size 10.6
> surface dust #5.11 size 10.6
> surface dust #5.1 size 10.6
> surface dust #5.2 size 10.6
> surface dust #5.3 size 10.6
> surface dust #5.4 size 10.6
> surface dust #5.5 size 10.6
> surface dust #5.6 size 10.6
> surface dust #5.7 size 10.6
> surface dust #5.8 size 10.6
> surface dust #5.9 size 10.6
> surface dust #5.10 size 10.6
> surface dust #5.11 size 10.6
> show #!4 models
> show #!3 models
> surface dust #3.1 size 10.6
> surface dust #3.2 size 10.6
> surface dust #3.3 size 10.6
> surface dust #3.4 size 10.6
> surface dust #3.5 size 10.6
> surface dust #3.6 size 10.6
> surface dust #3.7 size 10.6
> surface dust #3.8 size 10.6
> surface dust #3.9 size 10.6
> surface dust #3.10 size 10.6
> surface dust #3.11 size 10.6
> surface dust #4.1 size 10.6
> surface dust #4.2 size 10.6
> surface dust #4.3 size 10.6
> surface dust #4.4 size 10.6
> surface dust #4.5 size 10.6
> surface dust #4.6 size 10.6
> surface dust #4.7 size 10.6
> surface dust #4.8 size 10.6
> surface dust #4.9 size 10.6
> surface dust #4.10 size 10.6
> surface dust #4.11 size 10.6
> surface dust #5.1 size 10.6
> surface dust #5.2 size 10.6
> surface dust #5.3 size 10.6
> surface dust #5.4 size 10.6
> surface dust #5.5 size 10.6
> surface dust #5.6 size 10.6
> surface dust #5.7 size 10.6
> surface dust #5.8 size 10.6
> surface dust #5.9 size 10.6
> surface dust #5.10 size 10.6
> surface dust #5.11 size 10.6
> hide #!5 models
> hide #!4 models
> hide #!3 models
> show #!5 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!5 models
> hide #!3.1 models
> hide #!3.2 models
> show #!3.2 models
> hide #!3 models
> show #!3.1 models
> hide #!3.1 models
> hide #!3.2 models
> hide #!3.3 models
> hide #!3.4 models
> hide #!3.5 models
> hide #!3-5#!3.1-11#!4.1-11#!5.1-11 target m
> show #!5.1 models
> hide #!5.1 models
> show #!5.2 models
> volume #5.2 level 0.02427
> surface dust #5.2 size 10.6
> volume #5.2 level 0.0255
> show #!4.2 models
> volume #4.2 level 0.01522
> volume #4.2 level 0.01832
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> show #!5.3 models
> volume #5.3 level 0.02682
> hide #!2 models
> volume #4.3 level 0.01617
> volume #3.3 level 0.01334
> volume #3.3 level 0.01312
> volume #3.3 level 0.01505
> volume #3.3 level 0.01446
> volume #4.3 level 0.018
> show #!2 models
> volume #4.3 level 0.01777
> show #!5.4 models
> volume #5.4 level 0.03412
> hide #!2 models
> show #!2 models
> hide #!2 models
> volume #5.5 level 0.0361
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> volume #5.6 level 0.03243
> show #!2 models
> volume #5.6 level 0.03152
> volume #4.6 level 0.01785
> volume #4.6 level 0.01836
> volume #4.6 level 0.01862
> volume #4.6 level 0.01888
> volume #4.6 level 0.02016
> volume #4.6 level 0.02144
> volume #4.6 level 0.02169
> volume #4.6 level 0.02272
> volume #4.6 level 0.02349
> volume #4.6 level 0.024
> volume #4.6 level 0.02426
> volume #4.6 level 0.02477
> volume #4.6 level 0.02503
> volume #4.6 level 0.02579
> volume #4.6 level 0.02605
> volume #4.6 level 0.02682
> volume #4.6 level 0.02708
> volume #4.6 level 0.02759
> volume #4.6 level 0.02784
> volume #4.6 level 0.0281
> volume #4.6 level 0.02836
> volume #4.6 level 0.02913
> volume #4.6 level 0.03066
> volume #4.6 level 0.03092
> volume #4.6 level 0.03169
> volume #4.6 level 0.03195
> volume #4.6 level 0.03246
> volume #4.6 level 0.03476
> volume #4.6 level 0.03502
> volume #4.6 level 0.03553
> volume #4.6 level 0.03579
> volume #4.6 level 0.03605
> volume #4.6 level 0.0363
> volume #4.6 level 0.03656
> volume #4.6 level 0.03681
> volume #4.6 level 0.03861
> volume #4.6 level 0.03886
> volume #4.6 level 0.04015
> volume #4.6 level 0.04091
> volume #4.6 level 0.04143
> volume #4.6 level 0.04194
> volume #4.6 level 0.0422
> volume #4.6 level 0.04168
> volume #4.6 level 0.03963
> volume #4.6 level 0.03938
> volume #4.6 level 0.03912
> volume #4.6 level 0.03861
> volume #4.6 level 0.03758
> volume #4.6 level 0.03733
> volume #4.6 level 0.03707
> volume #4.6 level 0.03681
> volume #4.6 level 0.0363
> volume #4.6 level 0.03605
> volume #4.6 level 0.03579
> volume #4.6 level 0.03553
> volume #4.6 level 0.03528
> volume #4.6 level 0.03502
> volume #4.6 level 0.03476
> volume #4.6 level 0.03425
> volume #4.6 level 0.034
> volume #4.6 level 0.03271
> volume #4.6 level 0.03246
> volume #4.6 level 0.0322
> volume #4.6 level 0.03195
> volume #4.6 level 0.03169
> volume #4.6 level 0.03143
> volume #4.6 level 0.03118
> volume #4.6 level 0.03143
> volume #4.6 level 0.03195
> volume #4.6 level 0.0322
> volume #4.6 level 0.03246
> volume #4.6 level 0.03271
> volume #4.6 level 0.03297
> volume #4.6 level 0.03271
> volume #4.6 level 0.03246
> volume #4.6 level 0.0322
> volume #4.6 level 0.03169
> volume #4.6 level 0.03118
> volume #4.6 level 0.03092
> volume #4.6 level 0.03066
> volume #4.6 level 0.03118
> volume #4.6 level 0.03143
> volume #4.6 level 0.03169
> volume #4.6 level 0.03195
> volume #4.6 level 0.03169
> volume #4.6 level 0.03143
> volume #4.6 level 0.03169
> volume #4.6 level 0.03195
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> volume #5.7 level 0.03215
> show #!2 models
> volume #5.7 level 0.02791
> show #!4.7 models
> hide #!5.7 models
> volume #4.7 level 0.0235
> show #!5.8 models
> volume #5.8 level 0.03086
> volume #5.8 level 0.02318
> volume #4.8 level 0.01945
> volume #3.8 level 0.01447
> show #!3 models
> volume #3.8 level 0.01633
> volume #5.9 level 0.03224
> hide #!2 models
> show #!5.10 models
> hide #!4.3 models
> show #!3.3 models
> volume #3.3 level 0.01483
> volume #5.10 level 0.03364
> show #!2 models
> volume #5.10 level 0.03364
> show #!5.11 models
> volume #5.11 level 0.02427
> volume #3.11 level 0.01277
> save C:/Users/jason431/Desktop/resc-fig1/rescb.cxs includeMaps true
——— End of log from Mon May 9 14:52:49 2022 ———
opened ChimeraX session
> preset cartoons/nucleotides cylinders/stubs
Changed 27042 atom styles
Preset expands to these ChimeraX commands:
show nucleic
hide protein|solvent|H
surf hide
style (protein|nucleic|solvent) & @@draw_mode=0 stick
cartoon
cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
cartoon style ~(nucleic|strand) x round
cartoon style (nucleic|strand) x rect
cartoon style protein modeh tube rad 2 sides 24 thick 0.6
cartoon style nucleic x round width 1.6 thick 1.6
nucleotides stubs
> struts #2
Created 15833 struts for #2, max length 7, max loop length 30
> hide #6 models
> hide #!3 models
> hide #!4 models
> hide #!5 models
> show atoms
> hide atoms
> select clear
> lighting soft
[Repeated 2 time(s)]
> size #2 pseudobondRadius 0.5
Changed 15839 pseudobond radii
> size #2 pseudobondRadius 0.25
Changed 15839 pseudobond radii
> select clear
> select /6:404
11 atoms, 11 bonds, 7 pseudobonds, 1 residue, 2 models selected
> select /g:55
22 atoms, 24 bonds, 1 residue, 1 model selected
> select up
391 atoms, 435 bonds, 21 residues, 1 model selected
> cartoon style nucleic xsection oval width 1.6 thickness 1.6
> select clear
> cartoon style nucleic #2 slab
Expected a keyword
> cartoon style nucleic #2 tube
Expected a keyword
> nucleotides #2 tube/slab
> select clear
> select /g:56
20 atoms, 21 bonds, 1 residue, 1 model selected
> select add /m:23
40 atoms, 42 bonds, 2 residues, 1 model selected
> select up
1059 atoms, 1187 bonds, 52 residues, 1 model selected
> show sel atoms
> select up
27042 atoms, 27661 bonds, 3350 residues, 1 model selected
> select down
1059 atoms, 1187 bonds, 52 residues, 1 model selected
> select clear
> nucleotides #2 tube/slab
> nucleotides #2 tube/slab shape ellipsoid
> select clear
> save C:/Users/jason431/Desktop/RESCmovie/rescb.cxs includeMaps true
——— End of log from Sat May 28 18:29:42 2022 ———
opened ChimeraX session
> hide atoms
> struts #2
Another pseudobond group is already named 'struts RESCs-B_RNA-
coot-7-chimerax.pdb'
> close #6-7
> struts #2
Created 16503 struts for #2, max length 7, max loop length 30
> close #6
> show atoms
> hide atoms
> cartoon style nucleic thickness 1.6
> cartoon style nucleic thickness 1
> cartoon style nucleic width 2
> cartoon style nucleic width 3
> cartoon style nucleic thickness 1.5
[Repeated 1 time(s)]
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting shadows true
> lighting shadows false
> lighting shadows true
> lighting soft
[Repeated 4 time(s)]
> graphics silhouettes true
> graphics silhouettes false
> hide #!1 models
> show #!3 models
> hide #!2 models
> show #!5 models
> show #!4 models
> hide #!4 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!3.2 models
> show #!5.7 models
> hide #!4.7 models
> show #!4.7 models
> hide #!4.7 models
> show #!4.7 models
> hide #!4.7 models
> show #!4.7 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!2 models
> hide #!3 models
> hide #!4.6 models
> hide #!4.7 models
> hide #!4.2 models
> show #!5.6 models
> hide #!2 models
> show #!2 models
> hide #!5.6 models
> show #!4.6 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> volume #4.6 level 0.02094
> surface dust #4.6 size 10.6
> surface dust #5.4 size 10.6
> surface dust #5.5 size 10.6
> surface dust #5.7 size 10.6
> surface dust #5.9 size 10.6
> surface dust #5.10 size 10.6
> show #!2 models
> show #!3 models
> show #!5.8 models
> hide #!5.8 models
> show #!5.8 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> hide #!5.8 models
> show #!4.8 models
> show #!2 models
> select /9:153
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #2/9:0-153
1174 atoms, 1196 bonds, 153 residues, 1 model selected
> ui tool show "Surface Zone"
> select #2/9:0-160
1225 atoms, 1248 bonds, 160 residues, 1 model selected
> select #2/9:0-170
1302 atoms, 1326 bonds, 170 residues, 1 model selected
> select #2/9:150-2000170
5510 atoms, 5599 bonds, 709 residues, 1 model selected
> surface zone #4.8 nearAtoms #2 distance 5
> surface zone #4.8 nearAtoms sel distance 5
[Repeated 1 time(s)]
> volume zone #4.8 nearAtomns #2/9:150-2000170 range 5 newMap True
Expected a keyword
> volume zone #4.8 nearAtoms #2/9:150-2000170 range 5 newMap true
Opened RESC-B1_3.4A_0910.mrc 7 zone as #6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
> select clear
> volume zone #3.8 nearAtoms #2/9:0-170 range 5 newMap true
Opened RESC-B0_3.4A_0910.mrc 7 zone as #7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
> rename #6.1 id #6.8.1
> rename #7.1 id #6.8.2
> close #7
An error occurred in drawing the scene. Redrawing graphics is now stopped to
avoid a continuous stream of error messages. To restart graphics use the
command "graphics restart" after changing the settings that caused the error.
object of type 'NoneType' has no len()
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\updateloop.py", line 73, in draw_new_frame
view.draw(check_for_changes = False)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 165, in draw
self._draw_scene(camera, drawings)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 189, in _draw_scene
highlight_drawings, on_top_drawings) = self._drawings_by_pass(mdraw)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 260, in _drawings_by_pass
d.drawings_for_each_pass(pass_drawings)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 743, in drawings_for_each_pass
d.drawings_for_each_pass(pass_drawings)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 743, in drawings_for_each_pass
d.drawings_for_each_pass(pass_drawings)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 743, in drawings_for_each_pass
d.drawings_for_each_pass(pass_drawings)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 721, in drawings_for_each_pass
if not self.display:
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
TypeError: object of type 'NoneType' has no len()
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 290, in mouse_drag
self._rotate(axis, angle)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 368, in _rotate
self.view.rotate(saxis, angle, self.models())
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 998, in rotate
center = self.center_of_rotation
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 679, in _get_cofr
cofr = self._compute_center_of_rotation()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 706, in _compute_center_of_rotation
p = self._front_center_cofr()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 765, in _front_center_cofr
b = self.drawing_bounds(allow_drawing_changes = False)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 623, in drawing_bounds
dm.cached_drawing_bounds = b = self.drawing.bounds()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 949, in <listcomp>
if d.display and not d.skip_bounds]
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\updateloop.py", line 140, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 493, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 628, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 738, in pause
p = self.view.picked_object(x, y)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 798, in picked_object
xyz1, xyz2 = self.clip_plane_points(win_x, win_y)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 956, in clip_plane_points
near, far = self.near_far_distances(c, view_num, include_clipping = False)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 916, in near_far_distances
near, far = self._near_far_bounds(cp, vd)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 929, in _near_far_bounds
b = self.drawing_bounds(allow_drawing_changes = False)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 623, in drawing_bounds
dm.cached_drawing_bounds = b = self.drawing.bounds()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 949, in <listcomp>
if d.display and not d.skip_bounds]
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
See log for complete Python traceback.
> close #6
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\updateloop.py", line 140, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 493, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 628, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 738, in pause
p = self.view.picked_object(x, y)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 798, in picked_object
xyz1, xyz2 = self.clip_plane_points(win_x, win_y)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 956, in clip_plane_points
near, far = self.near_far_distances(c, view_num, include_clipping = False)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 916, in near_far_distances
near, far = self._near_far_bounds(cp, vd)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 929, in _near_far_bounds
b = self.drawing_bounds(allow_drawing_changes = False)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 623, in drawing_bounds
dm.cached_drawing_bounds = b = self.drawing.bounds()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 949, in <listcomp>
if d.display and not d.skip_bounds]
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 638, in <lambda>
gw.mouseMoveEvent = lambda e, s=self: s._dispatch_mouse_event(e, "mouse_drag")
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 537, in
_dispatch_mouse_event
f(MouseEvent(event, modifiers=modifiers))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 290, in mouse_drag
self._rotate(axis, angle)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 368, in _rotate
self.view.rotate(saxis, angle, self.models())
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 998, in rotate
center = self.center_of_rotation
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 679, in _get_cofr
cofr = self._compute_center_of_rotation()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 706, in _compute_center_of_rotation
p = self._front_center_cofr()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 765, in _front_center_cofr
b = self.drawing_bounds(allow_drawing_changes = False)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 623, in drawing_bounds
dm.cached_drawing_bounds = b = self.drawing.bounds()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 949, in <listcomp>
if d.display and not d.skip_bounds]
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
See log for complete Python traceback.
> close #6
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\updateloop.py", line 140, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 493, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 628, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 738, in pause
p = self.view.picked_object(x, y)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 798, in picked_object
xyz1, xyz2 = self.clip_plane_points(win_x, win_y)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 956, in clip_plane_points
near, far = self.near_far_distances(c, view_num, include_clipping = False)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 916, in near_far_distances
near, far = self._near_far_bounds(cp, vd)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 929, in _near_far_bounds
b = self.drawing_bounds(allow_drawing_changes = False)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 623, in drawing_bounds
dm.cached_drawing_bounds = b = self.drawing.bounds()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 949, in <listcomp>
if d.display and not d.skip_bounds]
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\updateloop.py", line 140, in _redraw_timer_callback
self.session.ui.mouse_modes.mouse_pause_tracking()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 493, in
mouse_pause_tracking
self._mouse_pause()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\mousemodes.py", line 628, in _mouse_pause
m.pause(self._mouse_pause_position)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\mouse_modes\std_modes.py", line 738, in pause
p = self.view.picked_object(x, y)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 798, in picked_object
xyz1, xyz2 = self.clip_plane_points(win_x, win_y)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 956, in clip_plane_points
near, far = self.near_far_distances(c, view_num, include_clipping = False)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 916, in near_far_distances
near, far = self._near_far_bounds(cp, vd)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 929, in _near_far_bounds
b = self.drawing_bounds(allow_drawing_changes = False)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\view.py", line 623, in drawing_bounds
dm.cached_drawing_bounds = b = self.drawing.bounds()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in <listcomp>
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 948, in bounds
dbounds = [d.bounds() for d in self.child_drawings()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 949, in <listcomp>
if d.display and not d.skip_bounds]
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
TypeError: object of type 'NoneType' has no len()
TypeError: object of type 'NoneType' has no len()
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\graphics\drawing.py", line 365, in get_display
return self._any_displayed_positions and len(self._positions) > 0
See log for complete Python traceback.
> save C:/Users/jason431/Desktop/RESCmovie/rescb-2.cxs includeMaps true
——— End of log from Sat May 28 18:44:29 2022 ———
opened ChimeraX session
> hide #!3 models
> hide #!4 models
> hide #!5 models
> hide #!6 models
> show #!6 models
> close #6
> show #!5 models
> show #!4 models
> hide #!4 models
> show #!4 models
> show #!3 models
> hide #!3 models
> show #!3 models
> volume zone #4.8 nearAtoms #2/9:150-2000170 range 5 newMap true
Opened RESC-B1_3.4A_0910.mrc 7 zone as #6, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
> volume zone #3.8 nearAtoms #2/9:0-170 range 5 newMap true
Opened RESC-B0_3.4A_0910.mrc 7 zone as #7, grid size 256,256,256, pixel 1.06,
shown at step 1, values float32
> show #!5.11 models
> hide #!5.11 models
> show #!4.11 models
> hide #!2 models
> show #!2 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> hide #!4.11 models
> show #!4.11 models
> hide #!4.11 models
> show #!3.11 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> save C:/Users/jason431/Desktop/RESCmovie/rescb-3.cxs includeMaps true
> close #3.1
> close #3.4-10
> close #4.1-5
> close #4.7-11
> color #6 #7db1b1 models transparency 0
> color #7 #7db1b1 models transparency 0
> close #5.1-3
> close #5.6
> close #5.8
> close #5.11
> close #1
> hide #!3.2 models
> hide #!3.3 models
> hide #!3.11 models
> hide #!4.6 models
> hide #!5 models
> hide #!5.4 models
> hide #!5.5 models
> hide #!5.7 models
> hide #!5.9 models
> hide #!5.10 models
> hide #!6 models
> hide #!7 models
> show #!3.2 models
> volume #3.2 level 0.01576
> volume #3.2 level 0.0134
> show #!2 models
> hide #!3 models
> show #!3.3 models
> hide #!3 models
> show #!3 models
> hide #!2 models
> volume #3.3 level 0.01228
> show #!2 models
> hide #!2 models
> show #!3.11 models
> show #!2 models
> volume #3.11 level 0.01233
> select clear
> surface dust #3.2 size 10.6
> surface dust #3.3 size 10.6
> surface dust #3.11 size 10.6
> volume #3.11 level 0.01246
> surface dust #3.2 size 10.6
> surface dust #3.3 size 10.6
> surface dust #3.11 size 10.6
> surface dust #3.2 size 10.6
> surface dust #3.3 size 10.6
> surface dust #3.11 size 10.6
> surface dust #3.11 size 20
> surface dust #3.11 size 15
> surface dust #3.11 size 12
> surface dust #3.11 size 13
> surface dust #3.11 size 14
> surface dust #3.11 size 15
> select clear
> volume #3.11 level 0.01227
> volume #3.11 level 0.01233
> surface dust #3.11 size 16
> select clear
[Repeated 1 time(s)]
> show #!4.6 models
> hide #!2 models
> volume #4.6 level 0.02556
> show #!2 models
> volume #5.4 level 0.03782
> show #!5 models
> volume #5.4 level 0.02249
> surface dust #3.2 size 10.6
> surface dust #3.3 size 10.6
> surface dust #3.11 size 10.6
> surface dust #4.6 size 10.6
> surface dust #5.4 size 10.6
> volume #5.4 level 0.02725
> hide #!2 models
> volume #5.4 level 0.01826
> volume #5.4 level 0.03095
> show #!2 models
> hide #!2 models
> show #!5.5 models
> volume #5.5 level 0.03252
> volume #5.7 level 0.02739
> volume #5.9 level 0.02908
> volume #5.10 level 0.03422
> surface dust #3.2 size 10.6
> surface dust #3.3 size 10.6
> surface dust #3.11 size 10.6
> surface dust #4.6 size 10.6
> surface dust #5.4 size 10.6
> surface dust #5.5 size 10.6
> surface dust #5.7 size 10.6
> surface dust #5.9 size 10.6
> surface dust #5.10 size 10.6
> surface dust #6 size 10.6
> select clear
> surface dust #3.2 size 10.6
> surface dust #3.3 size 10.6
> surface dust #3.11 size 10.6
> surface dust #4.6 size 10.6
> surface dust #5.4 size 10.6
> surface dust #5.5 size 10.6
> surface dust #5.7 size 10.6
> surface dust #5.9 size 10.6
> surface dust #5.10 size 10.6
> surface dust #6 size 10.6
> volume #6 level 0.02123
> show #!2 models
> volume #7 level 0.01663
> volume #7 level 0.01231
> volume #7 level 0.01346
> select clear
> surface dust #3.2 size 10.6
> surface dust #3.3 size 10.6
> surface dust #3.11 size 10.6
> surface dust #4.6 size 10.6
> surface dust #5.4 size 10.6
> surface dust #5.5 size 10.6
> surface dust #5.7 size 10.6
> surface dust #5.9 size 10.6
> surface dust #5.10 size 10.6
> surface dust #6 size 10.6
> surface dust #7 size 10.6
> volume #7 level 0.01301
> select clear
> hide #!2 models
> show #!2 models
> hide #!2 models
> volume #6 level 0.0164
> select clear
> hide #!5.4 models
> show #!5.4 models
> volume #5.4 level 0.0246
> volume #7 level 0.01377
> save C:/Users/jason431/Desktop/RESCmovie/rescb-4.cxs includeMaps true
> view orient
[Repeated 1 time(s)]
> view turn x 90
Expected an objects specifier or a view name or a keyword
> turn x 90
> turn x 90 coordinateSystem #2 center #2
> turn y 90 coordinateSystem #2 center #2
> turn y -90 coordinateSystem #2 center #2
> turn z 90 coordinateSystem #2 center #2
[Repeated 2 time(s)]
> view name one
> turn y 2 180
> ui tool show "Side View"
> turn y 90
[Repeated 3 time(s)]
> view name one
> volume #3.11 level 0.0124
> surface dust #3.2 size 10.6
> surface dust #3.3 size 10.6
> surface dust #3.11 size 10.6
> surface dust #4.6 size 10.6
> surface dust #5.4 size 10.6
> surface dust #5.5 size 10.6
> surface dust #5.7 size 10.6
> surface dust #5.9 size 10.6
> surface dust #5.10 size 10.6
> surface dust #6 size 10.6
> surface dust #7 size 10.6
> surface dust #5.4 size 12
> surface dust #5.4 size 13
> surface dust #5.4 size 20
> surface dust #5.4 size 30
> surface dust #5.4 size 20
> volume #5.4 level 0.02249
> surface dust #5.4 size 40
> surface dust #5.4 size 100
> surface dust #5.4 size 50
> select clear
> volume #5.5 level 0.033
> volume #5.5 level 0.032
> volume #5.5 level 0.031
> volume #5.5 level 0.03
> view one
> turn y 2 180
> save C:/Users/jason431/Desktop/RESCmovie/rescb-5.cxs includeMaps true
——— End of log from Sat May 28 19:03:27 2022 ———
opened ChimeraX session
> open C:/Users/jason431/Desktop/RESCBs-B_RNA-coot-7-chimerax.pdb
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb #1
---
Chain | Description
0 | No description available
12 | No description available
4 | No description available
5 | No description available
6 | No description available
7 | No description available
8 | No description available
9 | No description available
g | No description available
m | No description available
> hide #!1 atoms
> show #!1 cartoons
> color #1 black transparency 0
> dssp
> hide #!3 models
> hide #!4 models
> hide #!5 models
> hide #!6 models
> hide #!7 models
> split #1 chains
Split RESCBs-B_RNA-coot-7-chimerax.pdb (#1) into 10 models
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 0 #1.1
---
Chain | Description
0 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 12 #1.2
---
Chain | Description
12 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 4 #1.3
---
Chain | Description
4 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 5 #1.4
---
Chain | Description
5 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 6 #1.5
---
Chain | Description
6 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 7 #1.6
---
Chain | Description
7 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 8 #1.7
---
Chain | Description
8 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 9 #1.8
---
Chain | Description
9 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb g #1.9
---
Chain | Description
g | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb m #1.10
---
Chain | Description
m | No description available
> hide #1.9 models
> show #1.9 models
> tile #1.1-8
8 models tiled
> close #1.9#1.10
> combine #1.1-1.8 close true modelId #1
No structures specified
> combine #1.1-8 close true modelId #1
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\cmd_line\tool.py", line 297, in execute
cmd.run(cmd_text)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2856, in run
result = ci.function(session, **kw_args)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\cmd.py", line 64, in combine_cmd
session.models.add([combination])
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 654, in add
p = self._parent_for_added_model(model, parent, root_model = root_model)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 721, in _parent_for_added_model
raise ValueError('Tried to add model %s with the same id as another model %s'
ValueError: Tried to add model combination #1 with the same id as another
model RESCBs-B_RNA-coot-7-chimerax.pdb #1
ValueError: Tried to add model combination #1 with the same id as another
model RESCBs-B_RNA-coot-7-chimerax.pdb #1
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\models.py", line 721, in _parent_for_added_model
raise ValueError('Tried to add model %s with the same id as another model %s'
See log for complete Python traceback.
> close #1
> open C:/Users/jason431/Desktop/RESCBs-B_RNA-coot-7-chimerax.pdb
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb #1
---
Chain | Description
0 | No description available
12 | No description available
4 | No description available
5 | No description available
6 | No description available
7 | No description available
8 | No description available
9 | No description available
g | No description available
m | No description available
> split #1 chains
Split RESCBs-B_RNA-coot-7-chimerax.pdb (#1) into 10 models
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 0 #1.1
---
Chain | Description
0 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 12 #1.2
---
Chain | Description
12 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 4 #1.3
---
Chain | Description
4 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 5 #1.4
---
Chain | Description
5 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 6 #1.5
---
Chain | Description
6 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 7 #1.6
---
Chain | Description
7 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 8 #1.7
---
Chain | Description
8 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 9 #1.8
---
Chain | Description
9 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb g #1.9
---
Chain | Description
g | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb m #1.10
---
Chain | Description
m | No description available
> tile #1.1-8
8 models tiled
> combine #1.1-8 close true modelId #8
> close #1
> hide #!8 atoms
> show #!8 cartoons
> dssp
> save C:/Users/jason431/Desktop/RESCmovie/rescb-6.cxs includeMaps true
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
——— End of log from Sat May 28 19:30:35 2022 ———
opened ChimeraX session
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> close #8
> open C:/Users/jason431/Desktop/RESCBs-B_RNA-coot-7-chimerax.pdb
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb #1
---
Chain | Description
0 | No description available
12 | No description available
4 | No description available
5 | No description available
6 | No description available
7 | No description available
8 | No description available
9 | No description available
g | No description available
m | No description available
> split #1 chains
Split RESCBs-B_RNA-coot-7-chimerax.pdb (#1) into 10 models
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 0 #1.1
---
Chain | Description
0 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 12 #1.2
---
Chain | Description
12 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 4 #1.3
---
Chain | Description
4 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 5 #1.4
---
Chain | Description
5 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 6 #1.5
---
Chain | Description
6 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 7 #1.6
---
Chain | Description
7 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 8 #1.7
---
Chain | Description
8 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb 9 #1.8
---
Chain | Description
9 | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb g #1.9
---
Chain | Description
g | No description available
Chain information for RESCBs-B_RNA-coot-7-chimerax.pdb m #1.10
---
Chain | Description
m | No description available
> tile #1.1-8
8 models tiled
> select #1
27042 atoms, 27661 bonds, 6 pseudobonds, 3350 residues, 15 models selected
> ~select #1
Nothing selected
> combine #1.1-1.10 close true modelId #8
No structures specified
> combine #1.1-10 close true modelId #8
> close #1
> show #!2 models
> move y -10 models #2
[Repeated 5 time(s)]
> move x 10 models #2
[Repeated 9 time(s)]
> view one
> move y -10 models #2
[Repeated 5 time(s)]
> view one
> hide #!8 models
> save C:/Users/jason431/Desktop/RESCmovie/rescb-7.cxs includeMaps true
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
——— End of log from Sat May 28 19:36:53 2022 ———
opened ChimeraX session
> show #!8 models
> move y -10 models #2
[Repeated 5 time(s)]
> move x 10 models #2
[Repeated 10 time(s)]
> view name two
> hide atoms
> show cartoons
> dssp
> morph #2,8 frames 20 same true
Computed 21 frame morph #1
> coordset #1 1,21
> close #1
> show #!2 models
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> undo
> hide #!8 models
> view one
> show #!8 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> view two
> select #2/0/4-9/12
25983 atoms, 26474 bonds, 5 pseudobonds, 3298 residues, 2 models selected
> select #2/4-9
19640 atoms, 20028 bonds, 1 pseudobond, 2499 residues, 2 models selected
> transparency #2/4-9 50 target r
> transparency #2/4-9 0 target r
> select clear
> save C:/Users/jason431/Desktop/RESCmovie/rescb-8.cxs includeMaps true
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
> open C:\Users\jason431/Desktop/RESCmovie/movie.cxc
> movie record
> view one
> turn y 2 180
> wait
> crossfade 25
> show #2 models
> hide #3-7 models
> wait
wait requires a frame count argument unless motion is in progress
> turn y 1 180
> wait
> crossfade 25
> transparency #2/4-9 50 target r
> turn y 1 180
> wait
> fly 10 one two
> set independent
Expected a keyword
> movie stop
> transparency #2/4-9 0 target r
> show #!8 models
> hide #!8 models
> morph #2,8 frames 20 same true play false
Computed 21 frame morph #1
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!2 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> cartoon style protein modeHelix tube radius 2 sides 24
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> view one
> hide #!1 models
> save C:/Users/jason431/Desktop/RESCmovie/rescb-9.cxs includeMaps true
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
> open C:\Users\jason431/Desktop/RESCmovie/movie.cxc
> movie record
> view one
> turn y 2 180 center #2 coordinateSystem #2
> wait
> crossfade 25
> show #2 models
> hide #3-7 models
> wait
wait requires a frame count argument unless motion is in progress
> turn y 1 180 center #2 coordinateSystem #2
> wait
> crossfade 25
> transparency #2/4-9 50 target r
> turn y 1 180 center #2 coordinateSystem #2
> wait
> transparency #2/4-9 0 target r
> fly 10 one two
> hide #2 models
> show #1 models
> hide #1/g models
> hide #2/m models
> coordset #1
> wait
> turn y 2 180 center #2/4 coordinateSystem #2 models #2/4
> turn y 2 180 center #2/6 coordinateSystem #2 models #2/6
> wait
> movie encode C:\Users\jason431/Desktop/RESCmovie/movie.mp4
Movie saved to C:\Users\jason431/Desktop/RESCmovie/movie.mp4
executed movie.cxc
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!2 models
> hide #!2 models
> show #!2 models
> view one
> turn y 2 180 center #2
> open C:\Users\jason431/Desktop/RESCmovie/movie.cxc
> movie record
> view one
> turn y 2 180 center #2
> wait
> crossfade 25
> show #2 models
> hide #3-7 models
> wait
wait requires a frame count argument unless motion is in progress
> turn y 1 180 center #2
> wait
> crossfade 25
> transparency #2/4-9 50 target r
> turn y 1 180 center #2
> wait
> transparency #2/4-9 0 target r
> fly 10 one two
> hide #2 models
> show #1 models
> hide #1/g models
> hide #2/m models
> coordset #1
> wait
> turn y 2 180 center #2/4 models #2/4
> turn y 2 180 center #2/6 models #2/6
> wait
> movie encode C:\Users\jason431/Desktop/RESCmovie/movie.mp4
Movie saved to C:\Users\jason431/Desktop/RESCmovie/movie.mp4
executed movie.cxc
> show #!2 models
> view one
> view name one
> turn y 2 180 center #2
> hide #2 models
> show #3-7 models
> select clear
> turn y 2 180 center #2
> transparency #2/4-9 50 target r
> fly 10 one two
> show #!1 models
> show #!8 models
> hide #!8 models
> show #!8 models
> move x 10 #1,8
Expected an integer >= 1 or a keyword
> move #1,8 x 10
Missing or invalid "axis" argument: Axis argument requires 2 atoms, got 54084
atoms
> move x 10 models #1,8
> move x -10 models #1,8
[Repeated 10 time(s)]
> move y 10 models #1,8
[Repeated 6 time(s)]
> view name two
> hide #!8 models
> hide #!3 models
> hide #!4 models
> hide #!5 models
> hide #!6 models
> hide #!7 models
> hide #!1 models
> show #!2 models
> transparency #2/4-9 0 target r
> open C:\Users\jason431/Desktop/RESCmovie/movie.cxc
> movie record
> view one
> turn y 2 180 center #2
> wait
> crossfade 25
> hide #2 models
> show #3-7 models
> wait
wait requires a frame count argument unless motion is in progress
> turn y 2 180 center #2
> wait 180
> crossfade 25
> transparency #2/4-9 50 target r
> wait
wait requires a frame count argument unless motion is in progress
> transparency #2/4-9 0 target r
> fly 10 one two
> hide #3-7 models
> show #1 models
> hide #1/g models
> hide #2/m models
> wait
> coordset #1
> wait
wait requires a frame count argument unless motion is in progress
> turn y 2 180 center #2/4 models #2/4
> turn y 2 180 center #2/6 models #2/6
> wait
> movie encode C:\Users\jason431/Desktop/RESCmovie/movie.mp4
Movie saved to C:\Users\jason431/Desktop/RESCmovie/movie.mp4
executed movie.cxc
> fly 10 one two
fly: Nothing displayed to calculate center of rotation
> show #1 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> show #!8 models
> hide #!8 models
> show #!8 models
> view two
> view one
> view two
> hide #!1 models
> show #!1 models
> view one
> move y 10 models #1,8
[Repeated 6 time(s)]
> move x -10 models #1,8
[Repeated 10 time(s)]
> view name two
> hide #!1 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> hide #!8 models
> show #1 models
> hide #1/g models
> show #1 models
> hide #1/g
> select #1/g
391 atoms, 435 bonds, 21 residues, 1 model selected
> hide #1/g ribbons
> select clear
> show #!2 models
> hide #!2 models
> show #!2 models
> show #!8 models
> view two
> move x -10 models #1,8
> move x 10 models #1,8
[Repeated 2 time(s)]
> move y -10 models #1,8
> move x -10 models #1,8
> view name two
> view one
> view two
> view one
> view two
> view name one
> struts #1
Created 16674 struts for #1, max length 7, max loop length 30
> close #9
> hide atoms
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!1 models
> hide #!1 models
> show #!1 models
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> size #2 pseudobondRadius 0.25
Changed 6 pseudobond radii
> cartoon style nucleic thickness 1.5
> cartoon style nucleic width 3
> select clear
> hide #!1 models
> show #!1 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!8 models
> hide #!1 models
> show #!1 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> hide #!2 models
> show #!2 models
> show #!1 models
> hide #!2 models
> hide #2/m ribbons
> show #2/m ribbons
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> hide #1/m ribbons
> open C:\Users\jason431/Desktop/RESCmovie/movie.cxc
> movie record
> view one
> hide ribbons
> show #3-7 models
> turn y 4 180 center #2
> wait 360
> crossfade 10
> show #2 models
> hide #3-7 models
> wait 180
> crossfade 10
> transparency #2/4-9 50 target r
> wait
wait requires a frame count argument unless motion is in progress
> crossfade 10
> transparency #2/4-9 0 target r
> fly 10 one two
fly: Nothing displayed to calculate center of rotation
> hide #!1 models
> show #!1 models
> hide #!2 models
> show #!2 models
> show #!1-2 cartoons
> hide #!2 models
> show #!2 models
> hide #!1 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> show #!1 models
> hide #!1 models
> hide #!2 models
> show #!1 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> view one
> zoom -2 frames 10
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\cmd_line\tool.py", line 297, in execute
cmd.run(cmd_text)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2856, in run
result = ci.function(session, **kw_args)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\std_commands\zoom.py", line 46, in zoom
ff = math.pow(factor, 1/frames)
ValueError: math domain error
ValueError: math domain error
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\std_commands\zoom.py", line 46, in zoom
ff = math.pow(factor, 1/frames)
See log for complete Python traceback.
> zoom -2
> save C:/Users/jason431/Desktop/RESCmovie/rescb-10.cxs includeMaps true
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
——— End of log from Sat May 28 20:28:25 2022 ———
opened ChimeraX session
> show #!1-2 cartoons
> view
> view one
> zoom -2
> view one
> zoom 2
> zoom -1
> view one
> zoom -0.1
[had to delete a bunch of stuff to make the ticket fit]
> show #10 models
> hide #9 models
> show #9 models
> hide #8 models
> show #8 models
> hide #!7 models
> show #!7 models
> hide #6 models
> show #6 models
> hide #5 models
> show #5 models
> select up
27042 atoms, 27661 bonds, 3350 residues, 10 models selected
> select up
27042 atoms, 27661 bonds, 3350 residues, 11 models selected
> select clear
> morph #3/4#4.3/4 frames 20 play false
Computed 21 frame morph #20
> show #!3.4 models
> close #20
> morph #1/4#4.3/4 frames 20 play false
Computed 21 frame morph #20
> hide #!3.4 models
> morph #1/0#4.1/10 frames 20 play false
Computed 21 frame morph #21
> struts #5
Created 1350 struts for #5, max length 7, max loop length 30
> close #22
> coordset #5 1
> coordset #5 10
> coordset #5 21
> select clear
> struts #6-21
Created 26803 struts for #6-21, max length 7, max loop length 30
> close #22
> save C:/Users/jason431/Desktop/RESCmovie/tile-4.cxs includeMaps true
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
> save C:/Users/jason431/Desktop/RESCmovie/tile-5.cxs includeMaps true
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "begin save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
Traceback (most recent call last):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\triggerset.py", line 134, in invoke
return self._func(self._name, data)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\structure.py", line 79, in <lambda>
lambda *args, qual=ses_func: self._ses_call(qual)))
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\atomic\molobject.py", line 1885, in _ses_call
f(self._c_pointer)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 61, in _getattr_
return base.__getattr__(self, attr_name, look_in_class=base)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 57, in _getattr_
return look_in_class._attr_registration.get_attr(attr_name)
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
AttributeError: 'Structure' object has no attribute '_c_pointer'
Error processing trigger "end save session":
AttributeError: 'Structure' object has no attribute '_c_pointer'
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core\attributes.py", line 85, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None
See log for complete Python traceback.
OpenGL version: 3.3.0 NVIDIA 441.12
OpenGL renderer: Quadro M4000/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: Hewlett-Packard
Model: HP Z440 Workstation
OS: Microsoft Windows 10 Pro (Build 19044)
Memory: 17,092,194,304
MaxProcessMemory: 137,438,953,344
CPU: 8 Intel(R) Xeon(R) CPU E5-1630 v4 @ 3.70GHz
OSLanguage: en-US
Locale: ('en_US', 'cp1252')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2021.10.8
cftime: 1.5.1.1
charset-normalizer: 2.0.9
ChimeraX-AddCharge: 1.2.2
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.2.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.31
ChimeraX-AtomicLibrary: 4.2
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.0
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.6.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.2
ChimeraX-Clipper: 0.17.0
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5
ChimeraX-CommandLine: 1.1.5
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.3
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.5
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ISOLDE: 1.3
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.4
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.4
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.4
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.2.6
ChimeraX-ModelPanel: 1.2.1
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.7
ChimeraX-PDB: 2.6.5
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.4.6
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.6.1
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.13.7
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0.1
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
comtypes: 1.1.10
cxservices: 1.1
cycler: 0.11.0
Cython: 0.29.24
decorator: 5.1.0
docutils: 0.17.1
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 3.6.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.21
imagecodecs: 2021.4.28
imagesize: 1.3.0
ipykernel: 5.5.5
ipython: 7.23.1
ipython-genutils: 0.2.0
jedi: 0.18.0
Jinja2: 3.0.1
jupyter-client: 6.1.12
jupyter-core: 4.9.1
kiwisolver: 1.3.2
lxml: 4.6.3
lz4: 3.1.3
MarkupSafe: 2.0.1
matplotlib: 3.4.3
matplotlib-inline: 0.1.3
msgpack: 1.0.2
netCDF4: 1.5.7
networkx: 2.6.3
numexpr: 2.8.0
numpy: 1.21.2
openvr: 1.16.801
packaging: 21.3
ParmEd: 3.2.0
parso: 0.8.3
pickleshare: 0.7.5
Pillow: 8.3.2
pip: 21.2.4
pkginfo: 1.7.1
prompt-toolkit: 3.0.23
psutil: 5.8.0
pycollada: 0.7.1
pydicom: 2.1.2
Pygments: 2.10.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.6
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.2
pytz: 2021.3
pywin32: 228
pyzmq: 22.3.0
qtconsole: 5.1.1
QtPy: 1.11.3
RandomWords: 0.3.0
requests: 2.26.0
scipy: 1.7.1
setuptools: 57.5.0
sfftk-rw: 0.7.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.2.0
sphinx-autodoc-typehints: 1.12.0
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-jurko: 0.6
tables: 3.6.1
tifffile: 2021.4.8
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.7
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.0
wheel-filename: 1.3.0
WMI: 1.5.1
Change History (4)
comment:1 by , 3 years ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Core |
| Description: | modified (diff) |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → self._positions is None after model ID changed and closed |
comment:2 by , 3 years ago
The user did something really twisted. The created a volume (with volume zone command) changed the id of the child surface model of the volume so it was no longer under the volume model, then closed the volume model. I tried this and sure enough get the error he got which is related to a closed model not being properly removed from the open model list. I am not entirely surprised since the volume model expects to manage its child surfaces and probably expects those surfaces to be child models. When I closed the parent volume the surface model also disappeared from model panel. But when I open a new model I get the same kind of error reported here. Need to investigate more to see how cleanup on close fails.
comment:3 by , 3 years ago
The problem is the Volume calls self.remove_drawings(surfaces) but the surface is not a child of the Volume. The Drawing.remove_drawings() code does not verify that the drawings are actually children and clears the parent of the surface but the surface is never removed from the root drawing (view.drawing) and then gives rise to this error when view.drawing_bounds() is called.
Probably the Drawing.remove_drawings() code should verify the drawings are children and their parent is correct and raise an error otherwise to catch this problem early.
But the root of the problem is the Volume assumes the surface models are its children. Could probably fix that, but I bet the same error happens elsewhere where models create children that they aren't expecting to have moved to be non-children.
comment:4 by , 3 years ago
| Resolution: | → fixed |
|---|---|
| Status: | assigned → closed |
Fixed.
Made volume code that closes volume surfaces do it correctly even if surfaces are no longer child models of the volume.
Also added argument validation code in Drawing.remove_drawings() so this error can be caught earlier if other code makes the same mistake.
Note:
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...and then a whole bunch of other errors