Opened 4 years ago

Closed 4 years ago

Last modified 4 years ago

#5651 closed defect (can't reproduce)

Crash saving session including alphafold prediction

Reported by: chimerax-bug-report@… Owned by: pett
Priority: normal Milestone:
Component: Sessions Version:
Keywords: Cc: Tom Goddard
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description 

The following bug report has been submitted:
Platform:        Windows-10-10.0.18363
ChimeraX Version: 1.3rc202111192158 (2021-11-19 21:58:21 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Windows fatal exception: code 0x8001010e

Thread 0x00002ea4 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 576 in _handle_results
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00001de4 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 528 in _handle_tasks
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x000043c0 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\connection.py", line 816 in _exhaustive_wait
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\connection.py", line 884 in wait
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 499 in _wait_for_updates
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 519 in _handle_workers
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x000003cc (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00003090 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x000005c4 (most recent call first):
  File "C:\Program FiWindows fatal exception: lcode 0xe8001010es

\ChimerWindows fatal exception: acode 0xX8001010e 

1.3Windows fatal exception: rcode 0xc8001010e2

0211Windows fatal exception: 1code 0x18001010e9

215Windows fatal exception: 8code 0x\8001010eb

in\lWindows fatal exception: icode 0xb8001010e\

muWindows fatal exception: lcode 0xt8001010ei

procWindows fatal exception: ecode 0xs8001010es

ingWindows fatal exception: \code 0xp8001010eo

olWindows fatal exception: .code 0xp8001010ey

", line Windows fatal exception: 114code 0x in 8001010ew

orker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005868 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005894 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005898 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.Windows fatal exception: pcode 0xy8001010e"

, line 114 in woWindows fatal exception: rcode 0xk8001010ee

r
  File Windows fatal exception: "code 0xC8001010e:

\Program FWindows fatal exception: icode 0xl8001010ee

s\CWindows fatal exception: hcode 0xi8001010em

erWindows fatal exception: acode 0xX8001010e 

1.Windows fatal exception: 3code 0xr8001010ec

20Windows fatal exception: 2code 0x18001010e1

11Windows fatal exception: 9code 0x28001010e1

58Windows fatal exception: \code 0xb8001010ei

n\Windows fatal exception: lcode 0xi8001010eb

\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threWindows fatal exception: acode 0xd8001010ei

ng.Windows fatal exception: pcode 0xy8001010e"

, line 973Windows fatal exception:  in code 0x_8001010eb

ootWindows fatal exception: scode 0xt8001010er

apWindows fatal exception: _code 0xi8001010en

neWindows fatal exception: rcode 0x
8001010e  File 

"CWindows fatal exception: :code 0x\8001010eP

roWindows fatal exception: gcode 0xr8001010ea

m Windows fatal exception: Fcode 0xi8001010el

esWindows fatal exception: \code 0xC8001010eh

imWindows fatal exception: ecode 0xr8001010ea

X 1.3rc20Windows fatal exception: 2code 0x18001010e1

11Windows fatal exception: 9code 0x28001010e1

58Windows fatal exception: \code 0xb8001010ei

n\Windows fatal exception: lcode 0xi8001010eb

\tWindows fatal exception: hcode 0xr8001010ee

adWindows fatal exception: icode 0xn8001010eg

.pWindows fatal exception: ycode 0x"8001010e, line 

930 in Windows fatal exception: _code 0xbWindows fatal exception: ocode 0xo8001010et

st8001010er

Windows fatal exception: acode 0xWindows fatal exception: pcode 0x8001010e



8001010eThread 0x

Windows fatal exception: Windows fatal exception: 00005848code 0x (most recent call first):
code 0x  File 8001010e8001010e"



C:Windows fatal exception: \code 0xP8001010er

ograWindows fatal exception: mcode 0x 8001010eF

ileWindows fatal exception: scode 0x\8001010eC

hiWindows fatal exception: mcode 0xe8001010er

aXWindows fatal exception:  code 0x18001010e.

3rWindows fatal exception: ccode 0x28001010e0

21Windows fatal exception: 1code 0x18001010e1

92Windows fatal exception: 1code 0x58001010e8

\bWindows fatal exception: icode 0xn8001010e\

lib\multiprocessiWindows fatal exception: ncode 0xg8001010e\

pooWindows fatal exception: lcode 0x.8001010ep

y"Windows fatal exception: , line code 0x1148001010e in 

Windows fatal exception: Windows fatal exception: code 0xcode 0xw8001010eo

8001010er

kWindows fatal exception: ecode 0xWindows fatal exception: 8001010ecode 0x

8001010er


  File Windows fatal exception: "code 0xC8001010e:

\Windows fatal exception: Pcode 0xr8001010eWindows fatal exception: 

code 0x8001010eoWindows fatal exception: 

code 0xg8001010eWindows fatal exception: r

code 0xa8001010emWindows fatal exception: 

code 0x Windows fatal exception: 8001010eF

ilWindows fatal exception: code 0xcode 0xe8001010es

8001010e\

Windows fatal exception: Ccode 0xhWindows fatal exception: i8001010ecode 0xm8001010ee

r

Windows fatal exception: aXcode 0xWindows fatal exception: 8001010e 

1code 0x.8001010e3

rcWindows fatal exception: 2code 0x08001010e2

11Windows fatal exception: 1code 0x18001010e9

21Windows fatal exception: 5code 0x88001010e\

bin\lib\threading.py", line 910 in run
  File "C:\Program FWindows fatal exception: icode 0xl8001010ee

s\CWindows fatal exception: hcode 0ximer8001010ea

X 1.3Windows fatal exception: code 0x8001010e

rcWindows fatal exception: 2code 0x08001010e2

11Windows fatal exception: 1code 0x18001010e9

21Windows fatal exception: 5code 0x88001010e

\bin\Windows fatal exception: code 0x8001010eli

b\threWindows fatal exception: acode 0xd8001010ei

ng.pyWindows fatal exception: "code 0x, line 8001010e973

 in _Windows fatal exception: bcode 0xo8001010eo

tsWindows fatal exception: tcode 0xr8001010ea

p_inner
  File "C:\Program FiWindows fatal exception: lcode 0xe8001010es

\ChiWindows fatal exception: mcode 0xe8001010er

aX Windows fatal exception: 1code 0x.8001010e3

rcWindows fatal exception: 2code 0x08001010e2

11Windows fatal exception: 1code 0x18001010e9

21Windows fatal exception: 5code 0x88001010e\

biWindows fatal exception: ncode 0x\8001010el

ibWindows fatal exception: \code 0xt8001010eh

reWindows fatal exception: acode 0xd8001010ei

ngWindows fatal exception: .code 0xp8001010ey

", line Windows fatal exception: 930code 0x in 8001010e_

bootstrap

Thread 0x00005890 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc2021111921Windows fatal exception: 5code 0x88001010eWindows fatal exception: 

code 0x\8001010ebWindows fatal exception: i

code 0xn8001010eWindows fatal exception: 

\code 0xWindows fatal exception: 8001010ecode 0x

8001010e

lWindows fatal exception: Windows fatal exception: code 0xicode 0xb8001010e\8001010e



tWindows fatal exception: Windows fatal exception: hcode 0xcode 0x8001010e8001010e



rWindows fatal exception: eWindows fatal exception: code 0xa8001010ecode 0x

8001010ed

iWindows fatal exception: Windows fatal exception: code 0xncode 0x8001010e8001010e

g

Windows fatal exception: .Windows fatal exception: code 0xp8001010ey

", line Windows fatal exception: 910code 0x in 8001010er

ucode 0xWindows fatal exception: 8001010ecode 0x

8001010enWindows fatal exception: 
code 0x  File 

8001010e"

Windows fatal exception: CWindows fatal exception: code 0xcode 0x:8001010e8001010e



\Windows fatal exception: Windows fatal exception: code 0xcode 0x8001010e8001010eP

r

ogram Files\ChimeWindows fatal exception: rcode 0xa8001010eX

 1Windows fatal exception: .code 0x38001010er

c2Windows fatal exception: 0code 0x28001010e1

11Windows fatal exception: 1code 0x98001010e2

15Windows fatal exception: 8code 0x\8001010eb

inWindows fatal exception: \code 0xl8001010ei

b\Windows fatal exception: tcode 0xh8001010er

eaWindows fatal exception: dcode 0xi8001010en

g.pWindows fatal exception: ycode 0x"8001010e, line 

973 in Windows fatal exception: _code 0xb8001010eo

otWindows fatal exception: scode 0xt8001010er

ap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00002cf0 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\site-packages\chimerax\ui\gui.py", line 301 in eWindows fatal exception: vcode 0xe8001010en

t_loWindows fatal exception: ocode 0xp8001010e


  File "CWindows fatal exception: :code 0x\8001010eP

rogWindows fatal exception: rcode 0xa8001010em

 FiWindows fatal exception: lcode 0xe8001010es

\ChWindows fatal exception: icode 0xm8001010ee

raWindows fatal exception: Xcode 0x 8001010e1

.3Windows fatal exception: rcode 0xc8001010e2

02Windows fatal exception: 1code 0x18001010e1

19Windows fatal exception: 2code 0x18001010e5

8\Windows fatal exception: bcode 0xi8001010en

\lib\site-packages\ChimeraXWindows fatal exception: _code 0xm8001010ea

in.Windows fatal exception: pcode 0xy8001010e"

Windows fatal exception: code 0x8001010e

, line 867Windows fatal exception:  in code 0xi8001010en

itWindows fatal exception: 
code 0x  File 8001010e"

C:\Windows fatal exception: Pcode 0xr8001010eo

grWindows fatal exception: acode 0xm8001010e 

FilWindows fatal exception: ecode 0xs8001010e\

ChiWindows fatal exception: mcode 0xe8001010er

aX Windows fatal exception: 1code 0x.8001010e

Windows fatal exception: code 0x8001010e

3rc202111192158\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bWindows fatal exception: icode 0xn8001010e\

lib\Windows fatal exception: rcode 0xu8001010en

py.Windows fatal exception: pcode 0xy8001010e"

, line 87 in Windows fatal exception: _code 0xr8001010eu

n_Windows fatal exception: ccode 0xo8001010ed

eWindows fatal exception: 
Windows fatal exception: code 0x  File code 0x8001010e"

C8001010e:Windows fatal exception: 

code 0x\Windows fatal exception: Pcode 0xr8001010eo

gr8001010eaWindows fatal exception: mcode 0x

8001010e 

Windows fatal exception: Fcode 0xWindows fatal exception: icode 0xl8001010e8001010ee

s

Windows fatal exception: \code 0xC8001010eWindows fatal exception: 

hcode 0xiWindows fatal exception: mcode 0xe8001010er

a8001010eWindows fatal exception: X

 code 0x18001010e.

Windows fatal exception: 3code 0xr8001010ec

2021Windows fatal exception: 1code 0x18001010e1

921Windows fatal exception: 5code 0x88001010e\

biWindows fatal exception: ncode 0x\8001010el

iWindows fatal exception: bWindows fatal exception: code 0x\code 0x8001010e8001010e



rWindows fatal exception: Windows fatal exception: code 0xu8001010ecode 0x

8001010e

npWindows fatal exception: ycode 0x.8001010ep

y", line Windows fatal exception: 197code 0x in 8001010e_

runWindows fatal exception: _code 0xm8001010eo

dulWindows fatal exception: ecode 0x_8001010ea

s_mWindows fatal exception: acode 0xi8001010en


Windows fatal exception: code 0x8001010eWindows fatal exception: 

code 0xThread 0x8001010e00002ea4

 (most recent call first):
  File Windows fatal exception: "code 0xC8001010e:

\PWindows fatal exception: rcode 0xo8001010eg

raWindows fatal exception: mcode 0x 8001010eF

Windows fatal exception: Windows fatal exception: code 0xicode 0xl8001010ee

s8001010e\Windows fatal exception: C

hcode 0xi8001010eWindows fatal exception: m

ecode 0xrWindows fatal exception: 8001010eacode 0x

8001010eX

Windows fatal exception:  Windows fatal exception: 1code 0xcode 0x.8001010e3

rcWindows fatal exception: 2code 0x8001010e8001010e0

2

1Windows fatal exception: 1code 0xWindows fatal exception: 8001010e1

code 0x18001010e9

21Windows fatal exception: 5code 0x88001010e\

biWindows fatal exception: ncode 0x\8001010el

ibWindows fatal exception: \code 0xm8001010eu

ltiWindows fatal exception: pcode 0xr8001010eo

cesWindows fatal exception: sWindows fatal exception: icode 0xn8001010eg

code 0xWindows fatal exception: 8001010ecode 0x\

p8001010eo

Windows fatal exception: oWindows fatal exception: code 0xlcode 0x.8001010e8001010e



pyWindows fatal exception: "code 0x, line 8001010e576

 in _hWindows fatal exception: acode 0xn8001010ed

leWindows fatal exception: _code 0xr8001010ee

suWindows fatal exception: lcode 0xt8001010es


  File Windows fatal exception: "code 0xC8001010e:

\PWindows fatal exception: rcode 0xo8001010eg

ramWindows fatal exception:  code 0xWindows fatal exception: 8001010ecode 0x

8001010e

Windows fatal exception: code 0xWindows fatal exception: 8001010ecode 0x

8001010eFWindows fatal exception: 

code 0xiWindows fatal exception: 8001010ecode 0xl

8001010ee

s\CWindows fatal exception: hcode 0xi8001010em

erWindows fatal exception: acode 0xX8001010e 

1.Windows fatal exception: 3code 0xr8001010ec

20Windows fatal exception: 2code 0x18001010e1

11Windows fatal exception: 9code 0x28001010e1

58Windows fatal exception: \code 0xb8001010ei

nWindows fatal exception: \code 0xl8001010ei

b\Windows fatal exception: tcode 0xh8001010er

eading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00001de4 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 528 in _handle_tasks
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x000043c0 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\connection.py", line 816 in _exhaustive_wait
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\connection.py", line 884 in wait
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 499 in _wait_for_updates
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 519 in _handle_workers
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x000003cc (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00003090 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x000005c4 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005868 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005894 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005898 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005848 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005890 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00002cf0 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\site-packages\chimerax\ui\gui.py", line 301 in event_loop
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\runpy.py", line 87 in _run_code
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e

Thread 0x00002ea4 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 576 in _handle_results
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00001de4 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 528 in _handle_tasks
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x000043c0 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\connection.py", line 816 in _exhaustive_wait
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\connection.py", line 884 in wait
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 499 in _wait_for_updates
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 519 in _handle_workers
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x000003cc (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00003090 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x000005c4 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005868 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005894 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005898 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005848 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00005890 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\multiprocessing\pool.py", line 114 in worker
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 910 in run
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 973 in _bootstrap_inner
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\threading.py", line 930 in _bootstrap

Thread 0x00002cf0 (most recent call first):
  File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\site-packages\chimerax\surface\cap.py", line 28 in update_clip_caps
Windows fatal exception: access violation

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

===== Log before crash start =====
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.3rc202111192158 (2021-11-19)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> help help:quickstart

> help

> open "A:/Work/BioI/Interplay of MLO and exocyst/WP3_Testing direct or
> indirect interactions between MLOs and
> EXO70s/MLO6CT/AtMLO6CT_1f156.result/AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb"

Chain information for AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb #1  
---  
Chain | Description  
A | No description available  
  

> help_style

Unknown command: help_style  

> help style

> show atoms

> lighting soft

> lighting full

> lighting simple

> set bgColor white

> set bgColor black

> show atoms

> hide atoms

> style ball

Changed 1179 atom styles  

> style ball

Changed 1179 atom styles  

> style stick

Changed 1179 atom styles  

> nucleotides atoms

> style nucleic stick

Changed 0 atom styles  

> nucleotides fill

> style nucleic stick

Changed 0 atom styles  

> show surfaces

> hide surfaces

> show cartoons

> hide cartoons

> show cartoons

> select /A

1179 atoms, 1211 bonds, 148 residues, 1 model selected  

> log metadata #1

No models had metadata

> log chains #1

Chain information for AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb #1  
---  
Chain | Description  
A | No description available  
  
Alignment identifier is 1/A  

> ~select #1

1 model selected  

> select /A:15

5 atoms, 4 bonds, 1 residue, 1 model selected  

> select /A:15-16

12 atoms, 11 bonds, 2 residues, 1 model selected  

> select /A:72-103

256 atoms, 264 bonds, 32 residues, 1 model selected  

> select /A:72-101

238 atoms, 245 bonds, 30 residues, 1 model selected  

> select /A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:1-68

534 atoms, 549 bonds, 68 residues, 1 model selected  

> select /A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:1-37

293 atoms, 299 bonds, 37 residues, 1 model selected  

> select /A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:1-41

325 atoms, 333 bonds, 41 residues, 1 model selected  

> select /A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:1-21

165 atoms, 168 bonds, 21 residues, 1 model selected  

> select /A:1-21

165 atoms, 168 bonds, 21 residues, 1 model selected  

> select /A:1-21

165 atoms, 168 bonds, 21 residues, 1 model selected  

> select /A:1-21,34-38

200 atoms, 202 bonds, 26 residues, 1 model selected  

> select /A:12-31,54-57

199 atoms, 204 bonds, 24 residues, 1 model selected  

> select /A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:1-34

272 atoms, 278 bonds, 34 residues, 1 model selected  

> select /A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:1-30

240 atoms, 245 bonds, 30 residues, 1 model selected  

> select /A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:1-31

250 atoms, 256 bonds, 31 residues, 1 model selected  

> select /A:54

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:54-57

33 atoms, 34 bonds, 4 residues, 1 model selected  

> select /A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:1-31

250 atoms, 256 bonds, 31 residues, 1 model selected  

> select /A:12-31,54-57

199 atoms, 204 bonds, 24 residues, 1 model selected  

> select /A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:1-31

250 atoms, 256 bonds, 31 residues, 1 model selected  

> select /A:54

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select /A:54-57

33 atoms, 34 bonds, 4 residues, 1 model selected  

> select /A:55-56

18 atoms, 18 bonds, 2 residues, 1 model selected  

> select /A:55-58

34 atoms, 34 bonds, 4 residues, 1 model selected  

> select /A:56-57

18 atoms, 18 bonds, 2 residues, 1 model selected  

> select /A:55-57

26 atoms, 26 bonds, 3 residues, 1 model selected  

> select #1

1179 atoms, 1211 bonds, 148 residues, 1 model selected  

> ~select #1

1 model selected  

> mlp

Map values for surface "AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES
surface": minimum -26.9, mean -5.406, maximum 22.99  
To also show corresponding color key, enter the above mlp command and add key
true  

> mlp

Map values for surface "AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES
surface": minimum -26.9, mean -5.406, maximum 22.99  
To also show corresponding color key, enter the above mlp command and add key
true  

> ~hbonds

> hbonds reveal true

36 hydrogen bonds found  

> hbonds reveal true

36 hydrogen bonds found  

> ~hbonds

> color byhetero

> help style

> hide surfaces

> hide cartoons

> hide atoms

> mlp

Map values for surface "AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES
surface": minimum -26.9, mean -5.406, maximum 22.99  
To also show corresponding color key, enter the above mlp command and add key
true  

> volume hide

No volumes specified  

> volume style surface

No volumes specified  

> hide surfaces

> show cartoons

> mlp

Map values for surface "AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES
surface": minimum -26.9, mean -5.406, maximum 22.99  

> open "A:/Work/BioI/Interplay of MLO and exocyst/WP3_Testing direct or
> indirect interactions between MLOs and
> EXO70s/Interaction_domains/CT/Alpha_fold_2/AtMLO1_CT_072b1.result/AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb"

Chain information for AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb #2  
---  
Chain | Description  
A | No description available  
  

> select #2

646 atoms, 656 bonds, 91 residues, 1 model selected  

> ui mousemode right "move picked models"

> view matrix models #2,1,0,0,-36.313,0,1,0,-16.585,0,0,1,-32.139

> view matrix models #2,1,0,0,-53.262,0,1,0,-0.28491,0,0,1,-39.968

> ~select #2

Nothing selected  

> select #1

1179 atoms, 1211 bonds, 148 residues, 1 model selected  

> ~select #1

1 model selected  

> hide surfaces

> mlp

Map values for surface "AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES
surface": minimum -26.9, mean -5.406, maximum 22.99  
Map values for surface "AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb_A SES
surface": minimum -26.89, mean -6.411, maximum 22.03  
To also show corresponding color key, enter the above mlp command and add key
true  

> view matrix models #2,1,0,0,-62.457,0,1,0,-0.090391,0,0,1,-46.796

> hide surfaces

> coulombic

Using Amber 20 recommended default charges and atom types for standard
residues  
Coulombic values for AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES surface
#1.1: minimum, -16.74, mean 0.36, maximum 14.81  
Coulombic values for AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb_A SES
surface #2.1: minimum, -13.73, mean 0.11, maximum 12.74  
To also show corresponding color key, enter the above coulombic command and
add key true  

> transparency 80,s

Missing or invalid "percent" argument: Expected a number  

> transparency 50

> select #2

646 atoms, 656 bonds, 91 residues, 1 model selected  

> view matrix models #2,1,0,0,-53.207,0,1,0,2.8095,0,0,1,-44.207

> ui mousemode right "rotate selected models"

> view matrix models
> #2,-0.99012,-0.039279,-0.1346,-70.53,-0.12943,0.62516,0.76969,-1.7123,0.053911,0.77951,-0.62406,-36.639

> view matrix models
> #2,0.34464,-0.3463,0.87253,-63.116,0.92861,-0.010414,-0.37092,15.201,0.13753,0.93807,0.31798,-41.177

> view matrix models
> #2,0.51711,-0.2669,0.81324,-61.387,0.80809,0.46542,-0.36109,13.122,-0.28212,0.84389,0.45635,-45.546

> view matrix models
> #2,0.58138,-0.44659,0.68012,-59.746,0.74669,0.62489,-0.22796,11.546,-0.3232,0.64037,0.69676,-46.795

> select #1

1179 atoms, 1211 bonds, 148 residues, 1 model selected  

> view matrix models
> #1,0.095916,-0.66688,-0.73896,-4.6089,0.094454,0.74513,-0.66019,-6.185,0.9909,-0.0064756,0.13446,-10.096

> view matrix models
> #1,0.83908,-0.26982,-0.47239,-3.9061,0.015419,0.87978,-0.47512,-4.0133,0.5438,0.39138,0.74237,-2.4316

> view matrix models
> #1,0.34498,-0.88737,-0.30589,-3.1953,-0.55866,-0.456,0.69279,1.6202,-0.75425,-0.068115,-0.65305,-9.6065

> view matrix models
> #1,-0.7783,0.61581,-0.12262,8.0951,0.042006,0.24591,0.96838,4.0868,0.62649,0.74854,-0.21726,-8.4369

> select #2

646 atoms, 656 bonds, 91 residues, 1 model selected  

> view matrix models
> #2,0.63102,-0.63443,0.44644,-57.689,0.73663,0.6705,-0.088353,10.626,-0.24328,0.38461,0.89044,-46.593

> ui mousemode right translate

> set bgColor white

> set bgColor black

> ~select #2

1 model selected  

> select #2

646 atoms, 656 bonds, 91 residues, 1 model selected  
Alignment identifier is 2/A  

> select #2/A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #2/A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #2/A:12

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #2/A:12-34

180 atoms, 181 bonds, 23 residues, 1 model selected  

> hide #1.1 models

> show #1.1 models

> hide #!1 models

> show #!1 models

> select #1/A:12

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #1/A:12-31

166 atoms, 170 bonds, 20 residues, 1 model selected  

> color sel bychain

> hide sel surfaces

> show sel surfaces

> color sel bypolymer

> select #1/A:7

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1/A:3-7

39 atoms, 39 bonds, 5 residues, 1 model selected  

> select #1/A:40

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1/A:40-104

518 atoms, 535 bonds, 65 residues, 1 model selected  

> select #1/A:1-2

12 atoms, 11 bonds, 2 residues, 1 model selected  

> select #1/A:1

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1

1179 atoms, 1211 bonds, 148 residues, 1 model selected  

> ~select #1

1 model selected  

> hide surfaces

> show surfaces

> mlp

Map values for surface "AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES
surface": minimum -26.69, mean -5.409, maximum 23.36  
Map values for surface "AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb_A SES
surface": minimum -26.58, mean -6.411, maximum 22.17  
To also show corresponding color key, enter the above mlp command and add key
true  

> coulombic

Coulombic values for AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES surface
#1.1: minimum, -16.74, mean 0.36, maximum 14.81  
Coulombic values for AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb_A SES
surface #2.1: minimum, -13.73, mean 0.11, maximum 12.74  
To also show corresponding color key, enter the above coulombic command and
add key true  

> transparency 80

> transparency 50

> view

> lighting full

> lighting soft

> lighting simple

> ui tool show "Side View"

> view

> view orient

> set bgColor white

> lighting full

> graphics silhouettes true

> lighting flat

> lighting shadows true intensity 0.5

> graphics silhouettes false

> lighting shadows false

> lighting flat

> lighting full

> lighting simple

> lighting soft

> lighting full

> surface style solid

> surface style dot

> surface style mesh

> surface style solid

> color cyan

> hide surfaces

> show surfaces

> coulombic

Coulombic values for AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES surface
#1.1: minimum, -16.74, mean 0.36, maximum 14.81  
Coulombic values for AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb_A SES
surface #2.1: minimum, -13.73, mean 0.11, maximum 12.74  
To also show corresponding color key, enter the above coulombic command and
add key true  

> coulombic

Coulombic values for AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES surface
#1.1: minimum, -16.74, mean 0.36, maximum 14.81  
Coulombic values for AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb_A SES
surface #2.1: minimum, -13.73, mean 0.11, maximum 12.74  
To also show corresponding color key, enter the above coulombic command and
add key true  

> transparency 50

> help style

> color byelement

> ui tool show "Color Actions"

> color forest green target c

> coulombic

Coulombic values for AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES surface
#1.1: minimum, -16.74, mean 0.36, maximum 14.81  
Coulombic values for AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb_A SES
surface #2.1: minimum, -13.73, mean 0.11, maximum 12.74  
To also show corresponding color key, enter the above coulombic command and
add key true  

> transparency 50

> color byhetero

> color byelement

> color bynucleotide

> color bychain

> color bypolymer

> color #ffff7fff

> color #00aaffff

> color ghost white target c

> coulombic

Coulombic values for AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES surface
#1.1: minimum, -16.74, mean 0.36, maximum 14.81  
Coulombic values for AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb_A SES
surface #2.1: minimum, -13.73, mean 0.11, maximum 12.74  
To also show corresponding color key, enter the above coulombic command and
add key true  

> transparency 50

> color maroon target c

> color #55aaffff

> hide surfaces

> color #52a0ffff

> color #5993ffff

> color #5c90ffff

> color #6287ffff

> color #6771ffff

> color #7967ffff

> color #a667ffff

> color #cc65ffff

> color #e562ffff

> color #e561ffff

> color #e45effff

> color #e45cffff

> color #e35affff

> coulombic

Coulombic values for AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES surface
#1.1: minimum, -16.74, mean 0.36, maximum 14.81  
Coulombic values for AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb_A SES
surface #2.1: minimum, -13.73, mean 0.11, maximum 12.74  
To also show corresponding color key, enter the above coulombic command and
add key true  

> transparency 50

> transparency 70

> toolshed show

> view

> mlp

Map values for surface "AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES
surface": minimum -26.69, mean -5.409, maximum 23.36  
Map values for surface "AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb_A SES
surface": minimum -26.58, mean -6.411, maximum 22.17  
To also show corresponding color key, enter the above mlp command and add key
true  

> coulombic

Coulombic values for AtMLO6CT_1f156_unrelaxed_model_2_rank_1.pdb_A SES surface
#1.1: minimum, -16.74, mean 0.36, maximum 14.81  
Coulombic values for AtMLO1_CT_072b1_unrelaxed_model_1_rank_1.pdb_A SES
surface #2.1: minimum, -13.73, mean 0.11, maximum 12.74  
To also show corresponding color key, enter the above coulombic command and
add key true  

> transparency 80

> ui tool show AlphaFold

> movie record

> turn y 2 180

> wait 180

> movie encode "C:\Users\Jan Hübbers\Desktop\movie1.mp4"

Movie saved to \C:Users\\...\Desktop\movie1.mp4  
  

> export

Unknown command: export  

> save unknown.obj

> save unknown.obj #3

> save filename [ format obj ]

Cannot determine format for 'filename'  

> save unk [ format obj ]

Cannot determine format for 'unk'  

> save unk.obj [ format obj ]

Expected a models specifier or a keyword  

> save unk.obj [ format obj ]

Expected a models specifier or a keyword  

> save unk.obj [ format obj ][ models # ]

Expected a models specifier or a keyword  

> save unk.obj [ format obj ][ models #1 ]

Expected a models specifier or a keyword  

> open "A:/Work/BioI/Interplay of MLO and exocyst/WP3_Testing direct or
> indirect interactions between MLOs and
> EXO70s/Interaction_domains/CT/Alpha_fold_2/AtMLO2_CT_0d55b.result/AtMLO2_CT_0d55b_unrelaxed_model_1_rank_1.pdb"

Chain information for AtMLO2_CT_0d55b_unrelaxed_model_1_rank_1.pdb #3  
---  
Chain | Description  
A | No description available  
  

> ui mousemode right "translate selected models"

> select #3

1078 atoms, 1116 bonds, 135 residues, 1 model selected  

> view matrix models #3,1,0,0,-33.126,0,1,0,-19.981,0,0,1,-34.358

> view orient

> view matrix models #3,1,0,0,-31.873,0,1,0,-46.666,0,0,1,-34.358

> ui mousemode right "rotate selected models"

> view matrix models
> #3,-0.2596,0.92619,-0.27346,-40.832,-0.49314,0.11632,0.86214,-51.834,0.83031,0.35866,0.42655,-27.16

> ui mousemode right "translate selected models"

> view matrix models
> #3,-0.2596,0.92619,-0.27346,62.114,-0.49314,0.11632,0.86214,-7.5822,0.83031,0.35866,0.42655,16.35

> ui mousemode right "rotate selected models"

> view matrix models
> #3,-0.21877,-0.82475,-0.52146,38.971,0.72821,0.21772,-0.64986,-10.814,0.6495,-0.5219,0.55296,5.4633

> ui mousemode right "translate selected models"

> view matrix models
> #3,-0.21877,-0.82475,-0.52146,71.92,0.72821,0.21772,-0.64986,1.597,0.6495,-0.5219,0.55296,19.678

> view matrix models
> #3,-0.21877,-0.82475,-0.52146,-48.708,0.72821,0.21772,-0.64986,-57.476,0.6495,-0.5219,0.55296,-30.118

> view matrix models
> #3,-0.21877,-0.82475,-0.52146,-47.329,0.72821,0.21772,-0.64986,-50.77,0.6495,-0.5219,0.55296,-30.541

> view matrix models
> #3,-0.21877,-0.82475,-0.52146,-48.563,0.72821,0.21772,-0.64986,-55.71,0.6495,-0.5219,0.55296,-28.988

> ui mousemode right "rotate selected models"

> view matrix models
> #3,-0.20983,0.97466,0.077545,-19.567,0.45235,0.16709,-0.87605,-62.826,-0.8668,-0.14875,-0.47595,-57.679

> ui mousemode right "translate selected models"

> view matrix models
> #3,-0.20983,0.97466,0.077545,71.13,0.45235,0.16709,-0.87605,-35.767,-0.8668,-0.14875,-0.47595,-28.289

Alignment identifier is 3/A  

> ~select #3

Nothing selected  

> select #3/A:12

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #3/A:12-31

167 atoms, 171 bonds, 20 residues, 1 model selected  

> select #3/A:54

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select #3/A:54-57

33 atoms, 34 bonds, 4 residues, 1 model selected  

> close session


===== Log before crash end =====

Log:
UCSF ChimeraX version: 1.3rc202111192158 (2021-11-19)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "A:/Work/BioI/Interplay of MLO and exocyst/WP3_Testing direct or
> indirect interactions between MLOs and
> EXO70s/Interaction_domains/CT/Alpha_fold_2/AtMLO2_CT_0d55b.result/AtMLO2_CT_0d55b_unrelaxed_model_1_rank_1.pdb"

Chain information for AtMLO2_CT_0d55b_unrelaxed_model_1_rank_1.pdb #1  
---  
Chain | Description  
A | No description available  
  




OpenGL version: 3.3.0 NVIDIA 465.89
OpenGL renderer: NVIDIA GeForce MX250/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: LENOVO
Model: 81NF
OS: Microsoft Windows 10 Education (Build 18363)
Memory: 21,264,003,072
MaxProcessMemory: 137,438,953,344
CPU: 8 Intel(R) Core(TM) i5-10210U CPU @ 1.60GHz
OSLanguage: de-DE
Locale: ('de_DE', '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: 2.0.7
    ChimeraX-AddCharge: 1.2
    ChimeraX-AddH: 2.1.10
    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: 1.30.2
    ChimeraX-AtomicLibrary: 4.1.5
    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
    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-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: 1.3rc202111192158
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.1
    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-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: 2.7.3
    numpy: 1.21.2
    openvr: 1.16.801
    packaging: 21.3
    ParmEd: 3.2.0
    parso: 0.8.2
    pickleshare: 0.7.5
    Pillow: 8.3.2
    pip: 21.2.4
    pkginfo: 1.7.1
    prompt-toolkit: 3.0.22
    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: 1.11.2
    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 (3)

comment:1 by pett, 4 years ago

Cc: Tom Goddard added
Component: Unassigned → Sessions
Owner: set to pett
Platform: → all
Project: → ChimeraX
Status: new → accepted
Summary: ChimeraX bug report submission → Crash saving session including alphafold prediction

comment:2 by pett, 4 years ago

Resolution: → can't reproduce
Status: accepted → closed

comment:3 by Tom Goddard, 4 years ago

The last logged command was closing a session. Not sure why ticket summary says it was a crash saving a session.

Appears that the access violation was in computing clip caps. But that does not make much sense given the last logged line was closing a session.

Thread 0x00002cf0 (most recent call first):

File "C:\Program Files\ChimeraX 1.3rc202111192158\bin\lib\site-packages\chimerax\surface\cap.py", line 28 in update_clip_caps

Windows fatal exception: access violation

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