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Opened 3 years ago
Closed 3 years ago
#7002 closed defect (can't reproduce)
GL.glActiveTexture(): access violation
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Graphics | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Windows-10-10.0.22000
ChimeraX Version: 1.4.dev202203190100 (2022-03-19 01:00:21 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Windows fatal exception: code 0x8001010e
Thread 0x0000285c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 576 in _handle_results
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChWindows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010e
Windows fatal exception: code 0x8001010eimeraX
1.4.dev202203190Windows fatal exception: 1code 0x08001010e
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
0\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002d28 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 528 in _handle_tasks
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000020c4 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\connection.py", line 816 in _exhaustive_wait
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\connection.py", line 884 in wait
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 499 in _wait_for_updates
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 519 in _handle_workers
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threaWindows fatal exception: dcode 0xi8001010en
g.py", line 973 in _bWindows fatal exception: ocode 0xo8001010et
strapWindows fatal exception: _code 0xi8001010en
ner
File Windows fatal exception: "code 0xC8001010e:\
ProgrWindows fatal exception: acode 0xm8001010e
FileWindows fatal exception: scode 0x\8001010eC
himeraX 1Windows fatal exception: .code 0x48001010e.
devWindows fatal exception: 2code 0x08001010e2
20Windows fatal exception: 3code 0x18001010e9
01Windows fatal exception: 0code 0x08001010e\
biWindows fatal exception: ncode 0x\8001010el
ib\threading.py", line 930 in _bootstrap
Thread 0x00000dc0 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002250 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004ff4 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004008 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x0000202c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000041f4 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004438 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000045fc (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00003600 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00000a3c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x0000383c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.devWindows fatal exception: 2code 0x08001010e2
203190100\Windows fatal exception: bcode 0xi8001010en
\lib\Windows fatal exception: tcode 0xh8001010er
eadingWindows fatal exception: .code 0xp8001010ey
", line 910 in rWindows fatal exception: ucode 0xn8001010e
File "C:\Windows fatal exception: Pcode 0xr8001010eo
gramWindows fatal exception: code 0x8001010eF
ilesWindows fatal exception: \code 0xC8001010eh
imerWindows fatal exception: acode 0xX8001010e
1.4.Windows fatal exception: dcode 0xe8001010ev
2022Windows fatal exception: 0code 0x38001010e1
90100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002768 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004f90 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000041b8 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002f20 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002cd0 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program FilesWindows fatal exception: \code 0xC8001010ehimer
aX 1.4.Windows fatal exception: dcode 0xe8001010ev
202Windows fatal exception: 2code 0x08001010e3
19Windows fatal exception: 0code 0x18001010e0
0\Windows fatal exception: bcode 0xi8001010en
\lWindows fatal exception: icode 0xb8001010e\
thWindows fatal exception: rcode 0xe8001010ea
diWindows fatal exception: ncode 0xg8001010e.
py"Windows fatal exception: , line code 0x9108001010e in
ruWindows fatal exception: ncode 0x
8001010e File
"CWindows fatal exception: :code 0x\8001010eP
rogram Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00000810 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002814 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00003f6c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004fec (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000042bc (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialogWindows fatal exception:
code 0x File 8001010e"
C:\PrograWindows fatal exception: mcode 0x 8001010eFiles\Chi
meraX 1.4.Windows fatal exception: dcode 0xe8001010ev
202Windows fatal exception: 2code 0x08001010e3
190Windows fatal exception: 1code 0x08001010e0
\bWindows fatal exception: icode 0xn8001010e\
liWindows fatal exception: bcode 0x\8001010es
iWindows fatal exception: tcode 0xe8001010e-
paWindows fatal exception: ccode 0xk8001010ea
geWindows fatal exception: scode 0x\8001010ec
hiWindows fatal exception: mcode 0xe8001010er
ax\open_command\dialog.py", line 107 in
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\site-packages\chimerax\ui\gui.py", line 318 in event_loop
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\site-packages\ChimeraX_main.py", line 1018 in
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\runpy.py", line 87 in _run_code
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e
Thread 0x0000285c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 576 in _handle_results
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002d28 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 528 in _handle_tasks
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000020c4 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\connection.py", line 816 in _exhaustive_wait
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\connection.py", line 884 in wait
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 499 in _wait_for_updates
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 519 in _handle_workers
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00000dc0 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002250 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev20220Windows fatal exception: 3code 0x18001010e9
0100\bin\Windows fatal exception: lcode 0xi8001010eb
\multiprocessing\pool.py", line 114 in worker
File "C:\Program FilWindows fatal exception: ecode 0xs8001010e\
ChimeraX 1Windows fatal exception: .code 0x48001010e.
dev20Windows fatal exception: 2code 0x28001010e0
3190Windows fatal exception: 1code 0x08001010e0
\bin\lib\Windows fatal exception: tcode 0xh8001010er
eadWindows fatal exception: icode 0xn8001010eg
.pWindows fatal exception: ycode 0x"8001010e, line
910 in Windows fatal exception: rcode 0xu8001010en
File Windows fatal exception: "code 0xC8001010e:
\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004ff4 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004008 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930Windows fatal exception: in code 0x_8001010eb
ootstrapWindows fatal exception:
code 0x
8001010eThread 0x
0000202c (most recent call first):
File "CWindows fatal exception: :code 0x\8001010eP
rograWindows fatal exception: mcode 0x 8001010eF
ilesWindows fatal exception: \code 0xC8001010eh
imerWindows fatal exception: acode 0xX8001010e
1.4.Windows fatal exception: dcode 0xe8001010ev
2022Windows fatal exception: 0code 0x38001010e1
9010Windows fatal exception: 0code 0x\8001010eb
in\lWindows fatal exception: icode 0xb8001010e\
multWindows fatal exception: icode 0xp8001010er
ocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000041f4 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004438 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\Windows fatal exception: lcode 0xi8001010eb
\multWindows fatal exception: icode 0xp8001010er
ocWindows fatal exception: ecode 0xs8001010es
ingWindows fatal exception: \code 0xp8001010eo
ol.Windows fatal exception: pcode 0xy8001010e"
, line 114Windows fatal exception: in code 0xw8001010eo
rkWindows fatal exception: ecode 0xr8001010e
File "Windows fatal exception: Ccode 0x:8001010e\
PrWindows fatal exception: ocode 0xg8001010er
amWindows fatal exception: code 0xF8001010ei
lesWindows fatal exception: \code 0xC8001010eh
imeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000045fc (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00003600 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00000a3c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Windows fatal exception:
code 0xThread 0x8001010e0000383c
(most recent call first):
File "C:\ProgWindows fatal exception: rcode 0xa8001010em
FileWindows fatal exception: scode 0x\8001010eC
himeWindows fatal exception: rcode 0xa8001010eX
1.4Windows fatal exception: .code 0xd8001010ee
v202Windows fatal exception: 2code 0x08001010e3
1901Windows fatal exception: 0code 0x08001010e\b
in\lWindows fatal exception: icode 0xb8001010e\
multWindows fatal exception: icode 0xp8001010er
ocesWindows fatal exception: scode 0xi8001010en
g\poWindows fatal exception: ocode 0xl8001010e.
py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002768 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004f90 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000041b8 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002f20 (most recent call first):
File "C:\Program Files\ChimeraX 1.4Windows fatal exception: .code 0xde8001010ev
202203190Windows fatal exception: 1code 0x08001010e0
\bin\lWindows fatal exception: icode 0xb8001010e\
multiWindows fatal exception: pcode 0xr8001010eo
cessWindows fatal exception: icode 0xn8001010eg
\pooWindows fatal exception: lcode 0x.8001010ep
y", line 114Windows fatal exception: in code 0xw8001010eo
rker
Windows fatal exception: File code 0x"8001010eC
:\PrWindows fatal exception: ocode 0xg8001010er
am FWindows fatal exception: code 0xi8001010el
es\ChimerWindows fatal exception: acode 0xX8001010e
1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002cd0 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00000810 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\thrWindows fatal exception: ecode 0xa8001010ed
ing.py", line 910 in run
File Windows fatal exception: "code 0xC8001010e:\Program
FileWindows fatal exception: scode 0x\8001010eC
himerWindows fatal exception: acode 0xX8001010e 1
.4.dWindows fatal exception: ecode 0xv8001010e2
0220Windows fatal exception: 3code 0x18001010e901
00\bWindows fatal exception: icode 0xn8001010e\
lib\threadWindows fatal exception: icode 0xn8001010eg
.py"Windows fatal exception: , line code 0x9738001010e in
_booWindows fatal exception: tcode 0xs8001010et
rap_Windows fatal exception: icode 0xn8001010en
er
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002814 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00003f6c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004fec (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bWindows fatal exception: ocode 0xo8001010et
strap_Windows fatal exception: icode 0xn8001010en
er
Windows fatal exception: File code 0x"8001010eC
:\Windows fatal exception: Pcode 0xr8001010eo
grWindows fatal exception: acode 0xm8001010e
FiWindows fatal exception: lcode 0xe8001010es
\CWindows fatal exception: hcode 0xi8001010em
erWindows fatal exception: acode 0xX8001010e
1.Windows fatal exception: 4code 0x.8001010ed
evWindows fatal exception: 2code 0x08001010e2
20Windows fatal exception: 3code 0x18001010e9
0100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000042bc (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\site-packages\chimerax\ui\gui.py", line 318 in event_loop
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\site-packages\ChimeraX_main.py", line 1018 in
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\runpy.py", line 87 in _run_code
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e
Thread 0x0000285c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 576 in _handle_results
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002d28 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 528 in _handle_tasks
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000020c4 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\connection.py", line 816 in _exhaustive_wait
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\connection.py", line 884 in wait
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 499 in _wait_for_updates
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 519 in _handle_workers
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00000dc0 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002250 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Windows fatal exception: Fcode 0xi8001010el
es\ChWindows fatal exception: icode 0xm8001010ee
raXWindows fatal exception: code 0x18001010e.
4.Windows fatal exception: dcode 0xe8001010ev
20Windows fatal exception: 2code 0x28001010e0
31Windows fatal exception: 9code 0x08001010e1
00Windows 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
910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004ff4 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "Windows fatal exception: Ccode 0x:8001010e\
PrograWindows fatal exception: mcode 0x 8001010eF
ilesWindows fatal exception: \code 0xC8001010eh
imWindows fatal exception: ecode 0xr8001010ea
X Windows fatal exception: 1code 0x.8001010e4
.dWindows fatal exception: ecode 0xv8001010e20
22Windows fatal exception: 0code 0x38001010e1
90Windows fatal exception: 1code 0x08001010e0
\bWindows fatal exception: icode 0xn8001010e\
liWindows fatal exception: bcode 0x\8001010et
hrWindows fatal exception: ecode 0xa8001010ed
ing.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4Windows fatal exception: .code 0x8001010ed
ev202Windows fatal exception: 2code 0x08001010e3
190Windows fatal exception: 1code 0x08001010e0
\bWindows fatal exception: icode 0xn8001010e\
liWindows fatal exception: bcode 0x\8001010et
hrWindows fatal exception: ecode 0xa8001010ed
inWindows fatal exception: gcode 0x.8001010ep
y"Windows fatal exception: , line code 0x9738001010e in
_bWindows fatal exception: ocode 0xo8001010et
stWindows fatal exception: rcode 0xa8001010ep
_iWindows fatal exception: ncode 0xn8001010ee
r
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004008 (most recent call first):
File "C:\Program Files\ChimeraX 1.Windows fatal exception: 4code 0x.8001010ed
ev202Windows fatal exception: 2code 0x08001010e3
190Windows fatal exception: 1code 0x08001010e0
\bWindows fatal exception: icode 0xn8001010e\
liWindows fatal exception: bcode 0x\8001010em
ulWindows fatal exception: tcode 0xi8001010ep
roWindows fatal exception: ccode 0xe8001010es
siWindows fatal exception: ncode 0xg8001010e\
poWindows fatal exception: ocode 0xl8001010e.
pyWindows fatal exception: "code 0x, line 8001010e114
in wWindows fatal exception: ocode 0xr8001010e
ker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x0000202c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000041f4 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004438 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000045fc (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00003600 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00000a3c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x0000383c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002768 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004f90 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000041b8 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002f20 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002cd0 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00000810 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00002814 (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00003f6c (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x00004fec (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 910 in run
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 973 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\threading.py", line 930 in _bootstrap
Thread 0x000042bc (most recent call first):
File "C:\Program Files\ChimeraX 1.4.dev202203190100\bin\lib\site-packages\chimerax\graphics\opengl.py", line 3037 in bind_texture
Windows fatal exception: access violation
===== Log before crash start =====
> hide #7.1 models
> hide #7.2 models
> hide #7.3 models
> hide #7.4 models
> hide #7.5 models
> hide #7.6 models
> hide #7.7 models
> hide #7.8 models
> hide #7.9 models
> hide #7.10 models
> hide #7.11 models
> hide #7.12 models
> hide #7.13 models
> hide #7.14 models
> save D:/nextcloud/cryoEM/8th_Mosquito/Figures/movies/movie2.cxs
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.4.dev202203190100 (2022-03-19)
© 2016-2022 Regents of the University of California. All rights reserved.
> open D:\\\nextcloud\\\cryoEM\\\8th_Mosquito\\\Figures\\\movies\\\movie2.cxs
Opened post_run4_1sharpen_flip.mrc as #2, grid size 300,300,300, pixel 1.36,
shown at level 0.02, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.031, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.038, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.032, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 1 as #6.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Log from Tue May 31 09:35:31 2022UCSF ChimeraX version: 1.4.dev202203190100
(2022-03-19)
© 2016-2022 Regents of the University of California. All rights reserved.
> open D:\\\nextcloud\\\cryoEM\\\8th_Mosquito\\\Figures\\\movies\\\movie2.cxs
Opened post_run4_1sharpen_flip.mrc as #2, grid size 300,300,300, pixel 1.36,
shown at level 0.02, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.031, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.038, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.032, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 1 as #6.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Log from Tue May 31 09:31:12 2022UCSF ChimeraX version: 1.4.dev202203190100
(2022-03-19)
© 2016-2022 Regents of the University of California. All rights reserved.
> open D:\\\nextcloud\\\cryoEM\\\8th_Mosquito\\\Figures\\\movies\\\movie1.cxs
Opened post_run4_1sharpen_flip.mrc as #2, grid size 300,300,300, pixel 1.36,
shown at level 0.02, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.031, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.038, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.032, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 1 as #6.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Log from Mon May 30 19:34:22 2022UCSF ChimeraX version: 1.4.dev202203190100
(2022-03-19)
© 2016-2022 Regents of the University of California. All rights reserved.
> open D:\\\nextcloud\\\cryoEM\\\8th_Mosquito\\\Figures\\\movies\\\movie.cxs
Opened post_run4_1sharpen_flip.mrc as #2, grid size 300,300,300, pixel 1.36,
shown at level 0.02, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.031, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.038, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.032, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 1 as #6.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Log from Mon May 30 19:02:14 2022UCSF ChimeraX version: 1.4.dev202203190100
(2022-03-19)
© 2016-2022 Regents of the University of California. All rights reserved.
> open
> D:\\\nextcloud\\\cryoEM\\\8th_Mosquito\\\Figures\\\Fig1\\\bak\\\fig1.7.cxs
Opened post_run4_1sharpen_flip.mrc as #2, grid size 300,300,300, pixel 1.36,
shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.038, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 3 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 6 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 7 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Log from Sun Feb 13 07:25:20 2022UCSF ChimeraX version: 1.3.dev202110231141
(2021-10-23)
© 2016-2021 Regents of the University of California. All rights reserved.
> open
> F:\\\3rd_Nextcloud\\\cryoEM\\\8th_Mosquito\\\Figures\\\Fig1\\\bak\\\fig1.5.cxs
Opened post_run4_1sharpen_flip.mrc as #2, grid size 300,300,300, pixel 1.36,
shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.038, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 3 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 6 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 7 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Log from Tue Oct 19 10:47:53 2021UCSF ChimeraX version: 1.2.5 (2021-05-24)
© 2016-2021 Regents of the University of California. All rights reserved.
> open F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\bak\fig1.4.cxs format
> session
Opened post_run4_1sharpen_flip.mrc as #2, grid size 300,300,300, pixel 1.36,
shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.038, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 3 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 6 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 7 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Log from Sun Oct 17 13:14:34 2021UCSF ChimeraX version: 1.2.5 (2021-05-24)
© 2016-2021 Regents of the University of California. All rights reserved.
> open F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/fig1.1.cxs
Opened post_run3_1sharpen_flip.mrc as #2, grid size 300,300,300, pixel 1.36,
shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.038, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 3 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 6 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 7 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Log from Tue Oct 12 12:58:19 2021UCSF ChimeraX version: 1.2.5 (2021-05-24)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open F:\1st_Data\3rd_DDR\DDR3\figure2\raw\surface_DDR2-1.cxs
opened ChimeraX session
> close session
> open F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/all-coot-2.pdb
Chain information for all-coot-2.pdb #1
---
Chain | Description
A | No description available
> open
> F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/post_run3_1sharpen_flip.mrc
Opened post_run3_1sharpen_flip.mrc as #2, grid size 300,300,300, pixel 1.36,
shown at level 0.0112, step 2, values float32
> volume #2 level 0.03
> volume #2 step 1
> hide #!1 models
> lighting full
> show #!1 models
> hide #!2 models
> show #!2 models
> volume #2 level 0.035
> volume #2 level 0.05
> volume #2 level 0.045
> volume #2 level 0.04
> hide #!2 models
> show #!2 models
> volume #2 level 0.02578
> volume #2 level 0.03412
> lighting soft
> lighting full
> lighting soft
> lighting simple
> set bgColor black
> set bgColor white
> lighting soft
> ui tool show "Volume Viewer"
> preset "overall look" publication
Preset expands to these ChimeraX commands:
set bg white
graphics silhouettes t
> preset "overall look" interactive
Preset expands to these ChimeraX commands:
~set bg
graphics silhouettes f
> preset "molecular surfaces" "atomic coloring (transparent)"
Changed 0 atom styles
Preset expands to these ChimeraX commands:
style (protein|nucleic|solvent) & @@draw_mode=0 stick
surface
color fromatoms targ s trans 70
> preset "molecular surfaces" "chain id coloring (opaque)"
Changed 0 atom styles
Preset expands to these ChimeraX commands:
style (protein|nucleic|solvent) & @@draw_mode=0 stick
surface
color bychain targ s trans 0
> preset "initial styles" "original look"
Preset implemented in Python; no expansion to individual ChimeraX commands
available.
> hide #!2 models
> preset cartoons/nucleotides ribbons/slabs
Changed 0 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
nucleotides tube/slab shape box
> preset cartoons/nucleotides cylinders/stubs
Changed 0 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
> preset cartoons/nucleotides licorice/ovals
Changed 0 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 default arrows f x round width 1 thick 1
cartoon style nucleic x round width 1.6 thick 1.6
nucleotides tube/slab shape ellipsoid
> preset cartoons/nucleotides ribbons/slabs
Changed 0 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
nucleotides tube/slab shape box
> set bgColor white
> set bgColor black
> lighting soft
> lighting full
> lighting soft
> show #!2 models
> set bgColor white
> hide #!1 models
> show #!1 models
> ui tool show "Hide Dust"
> surface dust #2 size 8.16
> surface undust #2
> surface dust #2 size 8.16
> surface undust #2
> surface dust #2 size 8.16
> surface undust #2
> surface dust #2 size 3
> surface dust #2 size 2
> surface dust #2 size 2
> surface dust #2 size 3
> surface dust #2 size 10
> surface dust #2 size 3
> volume #2 level 0.03167
> volume #2 level 0.03
> volume #2 level 0.032
> volume #2 level 0.04
> surface dust #2 size 2.9
> surface dust #2 size 2.8
> surface dust #2 size 2.7
> surface dust #2 size 2.6
> surface dust #2 size 2.5
> surface dust #2 size 2.4
> surface dust #2 size 2.3
> surface dust #2 size 2.2
> surface dust #2 size 2.1
> surface dust #2 size 2
> surface dust #2 size 1.9
> surface dust #2 size 1.8
> surface dust #2 size 1.7
> surface dust #2 size 1.6
> surface dust #2 size 1.5
> surface dust #2 size 1.4
> surface dust #2 size 1.36
> surface dust #2 size 2
> hide #!1 models
> hide #!2 models
> show #!1 models
> show #!2 models
> hide #!2 models
> lighting soft
> lighting full
> ui tool show "Command Line Interface"
> color rainbow
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> rainbow
> select #: 2773
Expected an objects specifier or a keyword
> select #1/:2773
Expected an objects specifier or a keyword
> select #1/A:2773-end
622 atoms, 643 bonds, 1 pseudobond, 80 residues, 2 models selected
> color purple #1/A:2773-end
Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword
> color #1/A:2773-end purple
> color #1/A:2733-end purple
> color #1/A:1-342 blue
> color #1/A:2223-2306 orange
> color #1/A:2223-2306 cyan
> color #1/A:2224-2304 cyan
> color #1/A:2224-2304 orange
> color #1/A:2224-2304 red
> color #1/A:2224-2304 green
> color #1/A:704-1217 yellow
> color #1/A:704-1220 yellow
> color #1/A:703-1220 yellow
> select clear
> color #1/A:1575-1716 red
> color #1/A:1344-1496 pink
> color #1/A:1344-1496 cornflower blue
> color #1/A:1344-1496 steel blue
> color #1/A: steel blue
> color #1/A steel blue
> color #1/A dodger blue
> color #1/A:1-342 coral
> color #1/A:1-342 orange
> lighting full
> lighting full
> lighting soft
> lighting full
> lighting simple
> set bgColor black
> set bgColor white
> lighting full
> color #1/A:2224-2304 hot pink
> color #1/A:2224-2304 brown
> color #1/A:2224-2304 hot pink
> color #1/A:2224-2304 khaki
> color #1/A:2224-2304 hot pink
> select clear
> color #1/A:1344-1496 khaki
> color #1/A:1344-1496 medium purple
> color #1/A:1344-1496 khaki
> color #1/A:1575-1716 medium purple
> color #1/A:2733-end red
> color #1/A:703-1220 cyan
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> color #1/A dodger blue
> color #1/A 1-348 orange #1/A 703-1219 cyan
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> color #1/A 1-348 orange; color #1/A 703-1219 cyan
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> color #1/A 1-348 orange; color #1/A 703-1219 cyan
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> color #1/A 1-348 orange color #1/A 703-1219 cyan
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> color #1/A 1-348 orange
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> color #1/A 1-348 orange
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> color #1/A:703-1220 cyan
> color #1/A dodger blue
> color #1/A: 1-348 orange 703-1219 cyan
Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword
> color #1/A: 1-348 orange #1/A: 703-1219 cyan
Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword
> color #1/A: 1-348 orange
> color #1/A: 703-1219 cyan
> color #1/A dodger blue
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2733-end red
> color #1/A dodger blue
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1344-1496 khaki
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1344-1494 khaki
> color #1/A dodger blue
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1344-1494 khaki
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 khaki
> color #1/A dodger blue
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 khaki
> select clear
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 khaki
> color #1/A:1575-1716 medium purple
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 khaki
> color #1/A:1574-1716 medium purple
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 khaki
> color #1/A:1575-1715 medium purple
> color #1/A dodger blue
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 khaki
> color #1/A:1575-1715 medium purple
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 chartreuse
> color #1/A:1575-1715 medium purple
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 sea green
> color #1/A:1575-1715 medium purple
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 light green
> color #1/A:1575-1715 medium purple
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 #90e050
> color #1/A:1575-1715 medium purple
> show #!2 models
> ui tool show "Color Zone"
> color zone #2 near #1 distance 3
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> color zone #2 near #1 distance 2
> color zone #2 near #1 distance 2.1
> color zone #2 near #1 distance 2.2
> color zone #2 near #1 distance 2.3
> color zone #2 near #1 distance 2.4
> color zone #2 near #1 distance 2.5
> color zone #2 near #1 distance 2.6
> color zone #2 near #1 distance 2.7
> color zone #2 near #1 distance 2.6
> color zone #2 near #1 distance 2.5
> color zone #2 near #1 distance 2.4
> color zone #2 near #1 distance 2.5
> surface dust #2 size 2
> surface undust #2
> surface undust #2
> surface dust #2 size 1.36
> surface undust #2
> color single #2
> color zone #2 near #1 distance 2.5
> hide #!2 models
> show #!2 models
> color zone #2 near #1 distance 2.6
> color zone #2 near #1 distance 2.7
> color zone #2 near #1 distance 2.8
> color zone #2 near #1 distance 2.9
> color zone #2 near #1 distance 3
> color single #2
> color zone #2 near #1 distance 3
> color zone #2 near #1 distance 2
> color zone #2 near #1 distance 2.5
> volume #2 level 0.045
> volume #2 level 0.035
> volume #2 level 0.03
> volume splitbyzone #2
Opened post_run3_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 3 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 6 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 7 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
> hide #!1 models
> show #!1 models
> hide #!1 models
> hide #!3 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3 models
> show #!3 models
> hide #!3.1 models
> volume #3 level 0.04
> volume #3 level 0.035
> hide #!3 models
> show #!3 models
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> volume #3 level 0.04
> surface undust #2
> surface dust #2 size 1.36
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> surface undust size 2
Missing or invalid "surfaces" argument: invalid surfaces specifier
> surface undust #3 size 2
Expected fewer arguments
> surface undust #3
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> surface undust #3.3
> surface dust #3.3 size 3
> show #!1 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> hide #!1 models
> show #!1 models
> show #!3 models
> hide #!1 models
> surface undust #3.3
> surface dust #3
> surface dust #3 size 3
> surface dust #3 size 1
> surface dust #3 size 2
> surface undust
Missing or invalid "surfaces" argument: empty atom specifier
> surface undust #3
> surface dust #3.3 size 2
> volume #3.8 level 0.02518
> volume #3.8 level 0.03
> close #3#3.1-8
> show #!2 models
> show #!1 models
> hide #!1 models
> volume #2 level 0.02
> color zone #2 near #1 distance 2
> volume splitbyzone #2
Opened post_run3_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 3 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 6 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 7 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
> hide #!3 models
> show #!3 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> volume #3 level 0.03
> volume #3 level 0.035
> volume #3.8 level 0.025
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3 models
> show #!3 models
> volume #3 level 0.04
> hide #!3.1 models
> show #!3.1 models
> hide #!3 models
> show #!3 models
> hide #!3.2 models
> hide #!3.3 models
> hide #!3.5 models
> hide #!3.4 models
> hide #!3.6 models
> hide #!3.7 models
> hide #!3.8 models
> show #!2 models
> volume #2 level 0.04
> hide #!2 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> show #!3.2 models
> show #!3.3 models
> hide #!3.3 models
> show #!3.3 models
> show #!3.4 models
> show #!3.5 models
> show #!3.6 models
> show #!3.7 models
> show #!3.8 models
> volume #3.8 level 0.02553
> close #3#3.1-8
> show #!2 models
> volume #2 level 0.03
> color single #2
> color zone #2 near #1 distance 2
> color single #2
> color zone #2 near #1 distance 2
> surface undust #2
> surface dust #2 size 1.36
> surface dust #2 size 3
> volume splitbyzone #2
Opened post_run3_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 3 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 6 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
Opened post_run3_1sharpen_flip.mrc 7 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.03, step 1, values float32
> hide #!3.1 models
> volume #3.3 level 0.04
> volume #3.3 level 0.035
> surface dust #3.3 size 5
> volume #3.4 level 0.035
> surface dust #3.4 size 2
> surface dust #3.4 size 3
> volume #3.3 level 0.04
> volume #3.3 level 0.035
> volume #3.3 level 0.04
> volume #3.4 level 0.04
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> volume #3.4 level 0.035
> volume #3.4 level 0.05
> volume #3.4 level 0.04
> volume #3.4 level 0.035
> volume #3.4 level 0.04
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> volume #3.3 level 0.036
> volume #3.3 level 0.035
> show #!1 models
> hide #!1 models
> volume #3.4 level 0.035
> volume #3 level 0.035
> volume #3.6 level 0.04
> volume #3.6 level 0.05
> volume #3.6 level 0.035
> surface dust #3.5 size 3
> surface undust #3.5
> surface dust #3.6 size 3
> surface undust #3.6
> surface dust #3.6 size 3
> surface dust #3.6 size 5
> volume #3 level 0.035
> show #!1 models
> hide #!1 models
> surface dust #3.5 size 5
> surface dust #3.7 size 8.16
> surface dust #3.2 size 5
> volume #3.8 level 0.02328
> volume #3.8 level 0.02018
> volume #3.8 level 0.02
> surface dust #3.8 size 3
> volume #3.8 level 0.025
> surface dust #3.8 size 5
> surface dust #3.8 size 5
> surface dust #3.8 size 2
> surface dust #3.8 size 2
> surface dust #3.8 size 2
> surface dust #3.8 size 2
> lighting soft
> show #!3.1 models
> surface dust #3.1 size 2
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> volume #3.8 level 0.03
> surface dust #3.8 size 2
> surface dust #3.8 size 2.1
> surface dust #3.8 size 2.2
> surface dust #3.8 size 2.3
> surface dust #3.8 size 2.4
> surface dust #3.8 size 2.5
> surface dust #3.8 size 2.6
> surface dust #3.8 size 2.7
> surface dust #3.8 size 2.8
> surface dust #3.8 size 2.9
> surface dust #3.8 size 3
> surface undust #3.8
> surface dust #3.8 size 3
> reset
Unknown command: reset
> rotate y 90
Unknown command: rotate y 90
> turn y 90
> turn y 90
> turn y 90
> turn y 90
> turn y -90
> turn y -90
> color #1/A: 1-348 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 #90e050
> color #1/A:1575-1715 medium purple
> show #!1 models
> hide #!3 models
> show #!3 models
> hide #!1 models
> turn y 90
> turn y 90
> lighting full
> lighting soft
> volume #3.3 level 0.04
> volume #3.3 level 0.035
> volume #3.3 level 0.04
> volume #3.3 level 0.035
> volume #3.3 level 0.04
> turn y -90
> turn y -90
> turn y 90
> turn y 90
> volume #3.3 level 0.038
> volume #3.3 level 0.035
> volume #3.3 level 0.038
> hide #!3 models
> show #!1 models
> lighting full
> lighting soft
> hide #!1 models
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> save F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/fig1.1.cxs
——— End of log from Tue Oct 12 12:58:19 2021 ———
opened ChimeraX session
> view name front
> open F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/all-coot-20.pdb
Summary of feedback from opening
F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/all-coot-20.pdb
---
warnings | Start residue of secondary structure not found: HELIX 12 12 PHE A
1301 GLN A 1315 1 15
Start residue of secondary structure not found: SHEET 1 D 2 ALA A 124 ALA A
127 0
Start residue of secondary structure not found: SHEET 2 D 2 ALA A 129 ALA A
132 -1 N ALA A 131 O ALA A 125
Start residue of secondary structure not found: SHEET 1 E 3 ALA A 181 ALA A
184 0
Start residue of secondary structure not found: SHEET 2 E 3 ALA A 191 ALA A
194 -1 N ALA A 193 O ALA A 182
Chain information for all-coot-20.pdb #4
---
Chain | Description
A | No description available
> open
> F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/post_run4_1sharpen_flip.mrc
Opened post_run4_1sharpen_flip.mrc as #5, grid size 300,300,300, pixel 1.36,
shown at level 0.0104, step 2, values float32
> hide #!3 models
> ui tool show "Model Panel"
> ui tool show "Volume Viewer"
> volume #5 level 0.02622
> volume #5 level 0.03
> volume #5 step 1
> color #4/A dodger blue
> color #4/A: 1-348 orange
> color #4/A: 704-1219 cyan
> color #4/A: 2734-end red
> color #4/A: 2225-2304 hot pink
> color #4/A: 1345-1494 #90e050
> color #4/A:1575-1715 medium purple
> hide #!5 models
> show #!5 models
> lighting soft
> lighting full
> lighting soft
> lighting simple
> lighting soft
> hide #!5 models
> lighting simple
> lighting soft
> lighting full
> lighting soft
> lighting simple
> lighting simple
> lighting soft
> lighting simple
> lighting full
> view front
> view name front
> color #4/A dodger blue
> color #4/A: 1-344 orange
> color #4/A: 704-1219 cyan
> color #4/A: 2734-end red
> color #4/A: 2225-2304 hot pink
> color #4/A: 1345-1494 #90e050
> color #4/A:1575-1715 medium purple
> view
> view front
> view front
> close #2
> close #3.1
> close #3.2
> close #3.3
> close #3.4
> close #3.5
> close #3.6
> close #3.7
> close #3.8
> close #1
> close #3
> show #!5 models
> hide #!4 models
> ui tool show "Surface Zone"
> ui tool show "Color Zone"
> color zone #5 near #4 distance 3
> volume #5 level 0.035
> volume #5 level 0.02
> volume #5 level 0.025
> color zone #5 near #4 distance 2
> color zone #5 near #4 distance 2
> view front
> color zone #5 near #4 distance 2.5
> color zone #5 near #4 distance 2.5
> view front
> color zone #5 near #4 distance 3
> color zone #5 near #4 distance 3
> view front
> color single #5
> color zone #5 near #4 distance 3
> volume splitbyzone #5
Opened post_run4_1sharpen_flip.mrc 0 as #1.1, grid size 300,300,300, pixel
1.36, shown at level 0.025, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #1.2, grid size 300,300,300, pixel
1.36, shown at level 0.025, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 2 as #1.3, grid size 300,300,300, pixel
1.36, shown at level 0.025, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 3 as #1.4, grid size 300,300,300, pixel
1.36, shown at level 0.025, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 4 as #1.5, grid size 300,300,300, pixel
1.36, shown at level 0.025, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 5 as #1.6, grid size 300,300,300, pixel
1.36, shown at level 0.025, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 6 as #1.7, grid size 300,300,300, pixel
1.36, shown at level 0.025, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 7 as #1.8, grid size 300,300,300, pixel
1.36, shown at level 0.025, step 1, values float32
> volume #5 level 0.035
> volume #1 level 0.035
> hide #!1.1 models
> show #!1.1 models
> hide #!1.1 models
> show #!1.1 models
> hide #!1.1 models
> show #!1.1 models
> hide #!1.1 models
> show #!1.1 models
> ui tool show "Hide Dust"
> surface dust #5 size 8.16
> hide #!1 models
> show #!5 models
> surface dust #5 size 2
> surface undust #5
> surface dust #5 size 2
> show #!1 models
> hide #!1 models
> hide #!5 models
> show #!5 models
> show #!1 models
> hide #!1 models
> hide #!5 models
> show #!1 models
> hide #!1 models
> show #!1 models
> surface undust #5
> surface dust #1 size 3
> hide #!1.1 models
> volume #1.3 level 0.038
> volume #1.8 level 0.03
> surface dust #1 size 3
> volume #1.8 level 0.02109
> hide #!1.8 models
> show #!5 models
> color single #5
> color zone #5 near #4 distance 3
> volume #1.8 level 0.03074
> hide #!5 models
> volume #1.8 level 0.04225
> surface undust #1.8
> surface dust #1.8 size 3
> surface undust #1.8
> volume #1.8 level 0.03482
> surface dust #1.8 size 3
> show #!4 models
> volume #1.8 level 0.01961
> volume #1.8 level 0.0159
> volume #1.8 level 0.005876
> volume #1.8 level 0.01
> show #!5 models
> color single #5
> volume #5 level 0.03124
> volume #5 level 0.01
> volume #5 level 0.02235
> volume #5 level 0.02
> color zone #5 near #4 distance 3
> volume #5 level 0.01
> close #1#1.1-8
> surface dust #5 size 3
> surface dust #5 size 3
> color single #5
> color zone #5 near #4 distance 3
> volume splitbyzone #5
Opened post_run4_1sharpen_flip.mrc 0 as #1.1, grid size 300,300,300, pixel
1.36, shown at level 0.01, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #1.2, grid size 300,300,300, pixel
1.36, shown at level 0.01, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 2 as #1.3, grid size 300,300,300, pixel
1.36, shown at level 0.01, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 3 as #1.4, grid size 300,300,300, pixel
1.36, shown at level 0.01, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 4 as #1.5, grid size 300,300,300, pixel
1.36, shown at level 0.01, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 5 as #1.6, grid size 300,300,300, pixel
1.36, shown at level 0.01, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 6 as #1.7, grid size 300,300,300, pixel
1.36, shown at level 0.01, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 7 as #1.8, grid size 300,300,300, pixel
1.36, shown at level 0.01, step 1, values float32
> hide #!1.1 models
> volume #1 level 0.035
> surface dust #1 size 3
> volume #1.3 level 0.038
> volume #1.8 level 0.03
> volume #1.8 level 0.03668
> surface undust #1.8
> volume #1.8 level 0.02629
> volume #1.8 level 0.01701
> surface dust #1.8 size 3
> volume #1.8 level 0.02406
> hide #!1.8 models
> show #!1.8 models
> hide #!4 models
> volume #1.8 level 0.03
> surface dust #1.8 size 3
> surface dust #1.8 size 3.1
> surface dust #1.8 size 3.2
> surface dust #1.8 size 3.3
> surface dust #1.8 size 3.4
> surface dust #1.8 size 3.5
> surface dust #1.8 size 3.6
> surface dust #1.8 size 3.7
> surface dust #1.8 size 3.8
> surface dust #1.8 size 3.9
> surface dust #1.8 size 4
> surface dust #1.8 size 4.1
> surface dust #1.8 size 4.2
> surface dust #1.8 size 5
> surface dust #1.8 size 5
> volume #1.8 level 0.03
> surface dust #1.8 size 10
> volume #1.8 level 0.03371
> show #!4 models
> hide #!1.8 models
> show #!1.8 models
> hide #!4 models
> volume #1.8 level 0.035
> view front
> view front
> lighting full
> lighting soft
> lighting simple
> lighting soft
> lighting full
> lighting soft
> volume #1.8 level 0.04
> volume #1.8 level 0.033
> surface dust #1.8 size 5
> surface dust #1.8 size 5
> view front
> close #1,4#1.1-8
> open F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/all-coot-20.pdb
Summary of feedback from opening
F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/all-coot-20.pdb
---
warnings | Start residue of secondary structure not found: HELIX 12 12 PHE A
1301 GLN A 1315 1 15
Start residue of secondary structure not found: SHEET 1 D 2 ALA A 124 ALA A
127 0
Start residue of secondary structure not found: SHEET 2 D 2 ALA A 129 ALA A
132 -1 N ALA A 131 O ALA A 125
Start residue of secondary structure not found: SHEET 1 E 3 ALA A 181 ALA A
184 0
Start residue of secondary structure not found: SHEET 2 E 3 ALA A 191 ALA A
194 -1 N ALA A 193 O ALA A 182
Chain information for all-coot-20.pdb #1
---
Chain | Description
A | No description available
> color #4/A dodger blue
> color #1/A dodger blue
> color #1/A: 1-344 orange
> color #1/A: 704-1219 cyan
> color #1/A: 2734-end red
> color #1/A: 2225-2304 hot pink
> color #1/A: 1345-1494 #90e050
> color #1/A:1575-1715 medium purple
> close #5
> open
> F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/post_run4_1sharpen_flip.mrc
Opened post_run4_1sharpen_flip.mrc as #2, grid size 300,300,300, pixel 1.36,
shown at level 0.0104, step 2, values float32
> view front
> volume #1 level 0.035
No volumes specified
> volume #2 level 0.035
> show #!2 models
> volume #2 step 1
No atoms selected for color zoning
> color single #2
> color zone #2 near #1 distance 2
> volume splitbyzone #2
Opened post_run4_1sharpen_flip.mrc 0 as #3.1, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #3.2, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 2 as #3.3, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 3 as #3.4, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 4 as #3.5, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 5 as #3.6, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 6 as #3.7, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 7 as #3.8, grid size 300,300,300, pixel
1.36, shown at level 0.035, step 1, values float32
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> show #!3.1 models
> hide #!3.1 models
> surface dust #2 size 3
> surface dust #2 size 2
> surface dust #3 size 2
> surface dust #3 size 3
> surface dust #3 size 2
> surface dust #3 size 3
> hide #!3.3 models
> show #!3.3 models
> volume #3.3 level 0.04
> surface dust #3 size 3
> volume #3 level 0.036
> volume #3 level 0.038
> volume #3 level 0.035
> volume #3.3 level 0.04
> volume #3.8 level 0.032
> volume #3.8 level 0.03
> surface dust #3.8 size 5
> surface dust #3.8 size 5
> volume #3 level 0.035
> surface dust #3.8 size 5
> surface undust #3.8
> surface undust #3.8
> surface undust #3.8
> surface dust #3.8 size 5
> surface dust #3.8 size 5
> volume #3 level 0.035
> volume #3.3 level 0.04
> volume #3.8 level 0.03
> hide #!1 models
> surface undust #3.8
> surface dust #3.8 size 5
> view front
> volume #3 level 0.036
> volume #3.8 level 0.03
> volume #3.3 level 0.04
> surface dust #3 size 5
> view front
> surface dust #3 size 3
> surface dust #4 size
Missing "size" keyword's argument
> surface dust #3 size 4
> surface dust #3 size 3
> surface dust #3 size 5
> front
Unknown command: front
> view front
> volume #2 level 0.036
> save F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/fig1.4.cxs
> volume #3.3 level 0.038
> view front
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\B1.png width 3600
> height 2200
> turn y -90
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\B2.png width 3600
> height 2200
> turn y -90
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\B3.png width 3600
> height 2200
> hide #!3 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!1 models
> turn y -90
> turn y -90
> lighting simple
> lighting full
> lighting simple
> lighting full
> lighting simple
> lighting soft
> lighting simple
> lighting full
> lighting simple
> lighting full
> preset "overall look" publication
Preset expands to these ChimeraX commands:
set bg white
graphics silhouettes t
> lighting full
> lighting soft
> lighting simple
> lighting full
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\B1-1.png width 3600
> height 2200
> lighting full
> lighting simple
> lighting full
> set bgColor white
> lighting simple
> lighting full
> lighting simple
> lighting full
> lighting simple
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\B1-2.png width 3600
> height 2200
> save F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/fig1.4.cxs
——— End of log from Sun Oct 17 13:14:34 2021 ———
opened ChimeraX session
> preset cartoons/nucleotides licorice/ovals
Changed 0 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 default arrows f x round width 1 thick 1
cartoon style nucleic x round width 1.6 thick 1.6
nucleotides tube/slab shape ellipsoid
> preset cartoons/nucleotides cylinders/stubs
Changed 0 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
> lighting full
> lighting soft
> lighting simple
> lighting soft
> lighting full
> lighting soft
> lighting simple
> lighting soft
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\B1_3.png width 3600
> height 2200
> lighting full
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\B1_4.png width 3600
> height 2200
> preset "overall look" publication
Preset expands to these ChimeraX commands:
set bg white
graphics silhouettes t
> lighting soft
> lighting full
> lighting simple
> lighting simple
> lighting simple
> lighting soft
> lighting full
> lighting soft
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\B1_3.png width 3600
> height 2200
> save F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/fig1.5.cxs
——— End of log from Tue Oct 19 10:47:53 2021 ———
opened ChimeraX session
> open F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/model/all-coot-23.pdb
Summary of feedback from opening
F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/model/all-coot-23.pdb
---
warnings | Start residue of secondary structure not found: HELIX 12 12 PHE A
1301 GLN A 1315 1 15
Start residue of secondary structure not found: SHEET 1 D 2 ALA A 124 ALA A
127 0
Start residue of secondary structure not found: SHEET 2 D 2 ALA A 129 ALA A
132 -1 N ALA A 131 O ALA A 125
Start residue of secondary structure not found: SHEET 1 E 3 ALA A 181 ALA A
184 0
Start residue of secondary structure not found: SHEET 2 E 3 ALA A 191 ALA A
194 -1 N ALA A 193 O ALA A 182
Chain information for all-coot-23.pdb #4
---
Chain | Description
A | No description available
> dssp #4 energyCutoff -0.5
> color #4/A dodger blue
> color #4/A: 1-344 orange
> color #4/A: 704-1219 cyan
> color #4/A: 2734-end red
> color #4/A: 2225-2304 hot pink
> color #4/A: 1345-1494 #90e050
> color #4/A:1575-1715 medium purple
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!1 models
> preset cartoons/nucleotides cylinders/stubs
Changed 0 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
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> 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
> dssp #4 energyCutoff -0.15
> dssp #4 energyCutoff -0.2
> dssp #4 energyCutoff -0.4
> show #!1 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!1 models
> dssp #4 energyCutoff -0.5
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\Fig1-4.png width 4000
> height 800
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\B1-3.png width 3600
> height 2200
> lighting full
> lighting soft
> lighting simple
> lighting soft
> lighting full
> preset "overall look" publication
Preset expands to these ChimeraX commands:
set bg white
graphics silhouettes t
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\B1-4.png width 3600
> height 2200
> view name new11
> color #4/A dodger blue
> color #4/A: 1-344 orange
> color #4/A: 704-1219 cyan
> color #4/A: 2734-end red
> color #4/A: 2225-2304,2326-2465 hot pink
> color #4/A: 1345-1494 #90e050
> color #4/A:1575-1715 medium purple
> view new11
> save F:\3rd_Nextcloud\cryoEM\8th_Mosquito\Figures\Fig1\B1-4.png width 3600
> height 2200
> dssp #4 energyCutoff -0.5
> dssp #4 energyCutoff -3
> dssp #4 energyCutoff -2
> dssp #4 energyCutoff -1.5
> dssp #4 energyCutoff -1
> dssp #4 energyCutoff -0.5
> save F:/3rd_Nextcloud/cryoEM/8th_Mosquito/Figures/Fig1/bak/fig1.7.cxs
——— End of log from Sun Feb 13 07:25:20 2022 ———
opened ChimeraX session
> open D:/nextcloud/cryoEM/8th_Mosquito/Figures/model/all-
> coot-36_real_space_refined_016.pdb
Chain information for all-coot-36_real_space_refined_016.pdb #5
---
Chain | Description
A | No description available
> hide #!4-5 atoms
> close #4
> rename #5 id #4
> dssp #4 energyCutoff -0.6 minHelixLen 3 minStrandLen 3
> color #4/A dodger blue
> color #4/A: 1-344 orange
> color #4/A: 705-1215 cyan
> color #4/A: 1345-1494 #90e050
> color #4/A:1575-1715 medium purple
> color #4/A: 2225-2304,2326-2465 hot pink
> color #4/A: 2734-end red
> view front
> hide #!4 atoms
> select #4:4001-4002
28 atoms, 29 bonds, 2 residues, 1 model selected
> show sel atoms
> select #4/A:4001-4002
28 atoms, 29 bonds, 2 residues, 1 model selected
> show sel atoms
[Repeated 4 time(s)]
> select #4/A:4001-4102
28 atoms, 29 bonds, 2 residues, 1 model selected
> select clear
> undo
[Repeated 6 time(s)]
> select #4:4001,5002
28 atoms, 28 bonds, 2 residues, 1 model selected
> select #4:4001-4002,5001-5002
56 atoms, 58 bonds, 4 residues, 1 model selected
> hide sel atoms
> select clear
> hide #!4 atoms
[Repeated 4 time(s)]
> select #4:4001-4002,5001-5002
56 atoms, 58 bonds, 4 residues, 1 model selected
> show sel atoms
> undo
[Repeated 9 time(s)]
> select #4:4001-4002,5001-5002,59,1149
72 atoms, 74 bonds, 6 residues, 1 model selected
> hide sel atoms
> show sel atoms
> color #4:4001-4002 orange
> color #4:5001-5002 cyan
> color #4:4001-4002 gold
> color #4:5001-5002 cyan
> select clear
> color #4:4001-4002 orange
> color #4:5001-5002 cyan
> select #4:4001-4002,5001-5002,59,1149
72 atoms, 74 bonds, 6 residues, 1 model selected
> color sel byhetero
> select clear
> 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 #!4 atoms
> hide #!4 atoms
> view front
> cartoon style protein xsection oval width 3 thickness 1.5
> cartoon style protein xsection oval width 2 thickness 1.5
> cartoon style protein xsection oval width 3 thickness 1.5
> cartoon style protein xsection oval width 3 thickness 1
> cartoon style protein xsection oval width 3 thickness 0.5
> cartoon style protein xsection oval width 3 thickness 0.8
> cartoon style protein xsection oval width 3 thickness 1
> cartoon style protein xsection oval width 3 thickness 0.7
> lighting soft
> lighting full
> lighting soft
> lighting simple
> lighting soft
> lighting gentle
> lighting soft
> cartoon style protein xsection oval width 4 thickness 0.7
> cartoon style protein xsection oval width 3.5 thickness 0.7
> cartoon style protein xsection oval width 3.5 thickness 0.8
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!3 models
> hide #!3 models
> show #!4 models
> hide #!4 models
> show #!3 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!3.7 models
> show #!3.7 models
> hide #!3.7 models
> show #!3.7 models
> hide #!3.7 models
> show #!3.7 models
> show #!2 models
> hide #!2 models
> hide #!3 models
> show #!2 models
> ui tool show "Color Zone"
No atoms selected for color zoning
> select #4/A: 2225-2304,2326-2465
1685 atoms, 1718 bonds, 220 residues, 1 model selected
> color zone #2 near sel distance 8.16
> color single #2
[Repeated 1 time(s)]
> color zone #2 near sel distance 3
> volume #3.1 level 0.02722
> volume #3.1 level 0.031
> volume #2 level 0.03
> volume #2 level 0.02
> color single #2
> color zone #2 near sel distance 3
> volume splitbyzone #2
Opened post_run4_1sharpen_flip.mrc 0 as #5.1, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #5.2, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
> close #5.1
> volume #5.2 level 0.03
> ui tool show "Hide Dust"
> surface dust #5.2 size 8.16
> surface undust #5.2
> surface dust #5.2 size 3
> surface undust #5.2
> surface dust #5.2 size 3
> hide #!5 models
> show #!5 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> volume #5.2 level 0.035
> surface dust #5.2 size 2.9
> surface dust #5.2 size 2.8
> surface dust #5.2 size 2.7
> surface dust #5.2 size 2.6
> surface dust #5.2 size 2.62
> surface dust #5.2 size 2.64
> surface dust #5.2 size 1.36
> surface dust #5.2 size 1.37
> surface dust #5.2 size 1.38
> surface dust #5.2 size 1.39
> surface dust #5.2 size 2
[Repeated 1 time(s)]
> select #4/A: 2225-2304,2326-2465
1685 atoms, 1718 bonds, 220 residues, 1 model selected
> volume #5.2 level 0.02441
> surface dust #5.2 size 2
> surface dust #5.2 size 3
> surface undust #5.2
> surface dust #5.2 size 3
> show #!4 models
> hide #!5.2 models
> show #!5.2 models
> hide #!5.2 models
> show #!5.2 models
> hide #!4 models
> surface dust #5.2 size 3.1
> surface dust #5.2 size 3.2
> surface dust #5.2 size 3.3
> surface dust #5.2 size 3.4
> surface dust #5.2 size 3.5
> surface dust #5.2 size 3.6
> surface dust #5.2 size 3.7
> surface dust #5.2 size 3.8
> surface dust #5.2 size 3.9
> surface dust #5.2 size 4
> surface dust #5.2 size 4.1
> surface dust #5.2 size 4.2
> surface dust #5.2 size 4.3
> surface dust #5.2 size 4.4
> surface dust #5.2 size 4.5
> surface dust #5.2 size 4.6
> surface dust #5.2 size 4.7
> surface dust #5.2 size 4.8
> surface dust #5.2 size 4.9
> surface dust #5.2 size 5
> volume #5.2 level 0.025
> show #!3 models
> volume #5.2 level 0.027
> volume #5.2 level 0.03
> volume #5.2 level 0.028
> volume #5.2 level 0.03
> close #3.7
> rename #5.2 id #3.7
> close #5
> select #4/A: 2734-end
1599 atoms, 1644 bonds, 4 pseudobonds, 203 residues, 2 models selected
> ui tool show "Color Zone"
> hide #!3 models
> show #!4 models
> show #!2 models
> color single #2
> color zone #2 near sel distance 3
> color single #2
> select #4/A: 2734-end
1599 atoms, 1644 bonds, 4 pseudobonds, 203 residues, 2 models selected
> color zone #2 near sel distance 3
> color single #2
> select clear
[Repeated 1 time(s)]
> select #4/A: 2734-3900
1543 atoms, 1586 bonds, 4 pseudobonds, 199 residues, 2 models selected
> color zone #2 near sel distance 3
> volume splitbyzone #2
Opened post_run4_1sharpen_flip.mrc 0 as #5.1, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #5.2, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
> close #5.1
> volume #5.2 level 0.03
> ui tool show "Hide Dust"
> surface dust #5.2 size 5
> hide #!4 models
> surface dust #5.2 size 3
> surface undust #5.2
> surface dust #5.2 size 3
> show #!4 models
> select clear
> front
Unknown command: front
> view front
> hide #!4 models
> close #3.8
> rename #5.2 id #3.8
> close #5
> show #!3 models
> show #!3.8 models
> volume #3.8 level 0.032
> volume #3.8 level 0.03
> volume #3.8 level 0.032
> surface dust #3.8 size 5
> surface undust #3.8
> surface dust #3.8 size 5
> volume #3.8 level 0.03
> surface undust #3.8
> surface dust #3.8 size 5
> surface dust #3.8 size 8
[Repeated 1 time(s)]
> volume #3.8 level 0.032
> surface dust #3.8 size 5
[Repeated 1 time(s)]
> rename #5.2 id #3.8
> volume #3.8 level 0.035
> volume #3.8 level 0.032
> volume #3.8 level 0.03
> volume #3.8 level 0.032
> surface dust #3.8 size 4.9
> surface dust #3.8 size 4.8
> surface dust #3.8 size 4.7
> surface dust #3.8 size 4.6
> surface dust #3.8 size 4.5
> surface dust #3.8 size 4.4
> surface dust #3.8 size 4.3
> surface dust #3.8 size 4.2
> surface dust #3.8 size 4.1
> surface dust #3.8 size 4
> surface dust #3.8 size 3.9
> surface dust #3.8 size 3.8
> surface dust #3.8 size 3.7
> surface dust #3.8 size 3.6
> surface dust #3.8 size 3.5
> surface dust #3.8 size 3.4
> surface dust #3.8 size 3.3
> surface dust #3.8 size 3.2
> surface dust #3.8 size 3.1
> surface dust #3.8 size 3
> surface dust #3.8 size 2.9
> surface dust #3.8 size 2.8
> surface dust #3.8 size 2.7
> surface dust #3.8 size 2.6
> surface dust #3.8 size 2.5
> surface dust #3.8 size 2.4
> surface dust #3.8 size 2.3
> surface dust #3.8 size 2.2
> surface dust #3.8 size 2.1
> surface dust #3.8 size 2
> surface undust #3.8
> surface dust #3.8 size 2
> surface dust #3.8 size 3
[Repeated 1 time(s)]
> rename #5.2 id #3.8
> surface dust #3.8 size 5
> show #!4 models
> hide #!4 models
> show #!4 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> color #4/A: 705-1215 cyan
> ui tool show "Color Zone"
> show #!2 models
> hide #!3 models
> color single #3.2
[Repeated 3 time(s)]
> color single #2
No atoms selected for color zoning
> select #4/A: 705-1215
4158 atoms, 4237 bonds, 511 residues, 1 model selected
> color single #2
> color zone #2 near sel distance 3
> volume splitbyzone #2
Opened post_run4_1sharpen_flip.mrc 0 as #5.1, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #5.2, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
> close #5.1
> volume #5.2 level 0.036
> select clear
> hide #!4 models
> ui tool show "Hide Dust"
> surface dust #5.2 size 3
> surface undust #5.2
> surface dust #5.2 size 3
> surface dust #5.2 size 2
> surface dust #5.2 size 3
> surface dust #5.2 size 5
> surface dust #5.2 size 3
> close #3.4
> rename #5.2 id #3.4
> close #5
> show #!4 models
> hide #!4 models
> show #!3 models
> volume #3.4 level 0.035
> volume #3.4 level 0.03
> volume #3.4 level 0.032
> volume #3.4 level 0.035
> ui tool show "Hide Dust"
> surface dust #3.2 size 1.36
> surface dust #3.4 size 2
> surface undust #3.4
> surface dust #3.4 size 2
> surface dust #3.4 size 2.5
> surface dust #3.4 size 3
> volume #3.4 level 0.032
> surface dust #3.4 size 5
> volume #3.4 level 0.035
> surface undust #3.4
> surface dust #3.4 size 5
> view front
> ui tool show "Hide Dust"
> surface dust #3.2 size 3
> surface dust #3.2 size 5
> view front
[Repeated 1 time(s)]
> turn y 2 180
[Repeated 9 time(s)]
> volume #3.8 level 0.035
> turn y 2 180
> turn y 180
> volume #3.8 level 0.03
> volume #3.8 level 0.032
> view front
> turn y 180
[Repeated 1 time(s)]
> windowsize 1000 1000
QWindowsWindow::setGeometry: Unable to set geometry 2366x1796+11+45 (frame:
2388x1852+0+0) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2366x1410+11+45 (frame: 2388x1466+0+0) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> windowsize 1000 1000
QWindowsWindow::setGeometry: Unable to set geometry 2366x1796+0+35 (frame:
2388x1852-11-10) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2366x1410+0+35 (frame: 2388x1466-11-10) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> windowsize 800, 800
Expected an integer >= 1 or a keyword
> windowsize 800 800
QWindowsWindow::setGeometry: Unable to set geometry 2066x1496+0+35 (frame:
2088x1552-11-10) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2066x1410+0+35 (frame: 2088x1466-11-10) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> windowsize 1280 1000
QWindowsWindow::setGeometry: Unable to set geometry 2786x1796+0+35 (frame:
2808x1852-11-10) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2560x1334+0+34 (frame: 2582x1390-11-11) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> windowsize 1200 800
QWindowsWindow::setGeometry: Unable to set geometry 2666x1496+0+35 (frame:
2688x1552-11-10) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2560x1334+0+34 (frame: 2582x1390-11-11) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> windowsize 800 1200
QWindowsWindow::setGeometry: Unable to set geometry 2066x2096+0+35 (frame:
2088x2152-11-10) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2066x1410+0+35 (frame: 2088x1466-11-10) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> windowsize 1200 600
QWindowsWindow::setGeometry: Unable to set geometry 2666x1196+0+35 (frame:
2688x1252-11-10) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2564x1196+0+35 (frame: 2586x1252-11-10) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> windowsize 1600 800
QWindowsWindow::setGeometry: Unable to set geometry 3266x1496+0+35 (frame:
3288x1552-11-10) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2560x1334+0+34 (frame: 2582x1390-11-11) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> windowsize 1600 800
QWindowsWindow::setGeometry: Unable to set geometry 3266x1496+0+35 (frame:
3288x1552-11-10) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2560x1334+0+34 (frame: 2582x1390-11-11) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> windowsize 1600 800
QWindowsWindow::setGeometry: Unable to set geometry 3266x1496+0+35 (frame:
3288x1552-11-10) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2560x1334+0+34 (frame: 2582x1390-11-11) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> windowsize 1200 700
QWindowsWindow::setGeometry: Unable to set geometry 2666x1346+0+35 (frame:
2688x1402-11-10) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2560x1334+0+34 (frame: 2582x1390-11-11) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> windowsize 1200 700
QWindowsWindow::setGeometry: Unable to set geometry 2666x1346+0+35 (frame:
2688x1402-11-10) on QWidgetWindow/"MainWindowClassWindow" on "\\\\.\DISPLAY1".
Resulting geometry: 2560x1334+0+34 (frame: 2582x1390-11-11) margins: 11, 45,
11, 11 minimum size: 426x372 MINMAXINFO maxSize=0,0 maxpos=0,0
mintrack=661,614 maxtrack=0,0)
> view front
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> view name front1
> windowsize 1200 1200
> view front
> show #!4 models
> hide #!4 models
> view name front1
> 2dlabels text A3G-CD1 color #00dfdf size 40 xpos 0.062 ypos 0.108
> 2dlabels text A3G-CD2 color #00aaff size 40 xpos 0.027 ypos 0.306
> 2dlabels text Vif color #ff69b4 size 40 xpos 0.681 ypos 0.475
> 2dlabels text CBF-β color #e2e200 size 40 xpos 0.770 ypos 0.069
> 2dlabels text "RNA Chain A" color #00ff00 size 40 xpos 0.091 ypos 0.631
> 2dlabels text "RNA Chain B" color #ff0000 size 40 xpos 0.071 ypos 0.546
> 2dlabels text A3G-CD1 color #00dfdf size 40 xpos 0.696 ypos 0.490
> 2dlabels text A3G-CD2 color #00aaff size 40 xpos 0.798 ypos 0.082
> 2dlabels text Vif color #ff69b4 size 40 xpos 0.326 ypos 0.498
> 2dlabels text CBF-β color #e2e200 size 40 xpos 0.120 ypos 0.042
> 2dlabels text "RNA Chain A" color #00ff00 size 40 xpos 0.207 ypos 0.739
> 2dlabels text "RNA Chain B" color #ff0000 size 40 xpos 0.202 ypos 0.637
> 2dlabels text A3G-CD1 color #00dfdf size 40 xpos 0.754 ypos 0.443
> 2dlabels text A3G-CD2 color #00aaff size 40 xpos 0.784 ypos 0.365
> 2dlabels text Vif color #ff69b4 size 40 xpos 0.190 ypos 0.413
> 2dlabels text "3' overhang RNA" color #ff0000 size 40 xpos 0.362 ypos 0.498
> close #5
> windowsize 1200 1200
> 2dlabels text Rhs/YD-repeats color dodger blue size 40 xpos 0.062 ypos 0.108
> 2dlabels text "β-propeller 1" color orange size 40 xpos 0.027 ypos 0.306
> 2dlabels text "β-propeller 2" color cyan size 40 xpos 0.681 ypos 0.475
> 2dlabels text CBM color #90e050 size 40 xpos 0.770 ypos 0.069
> 2dlabels text lectin-CRD color medium purple size 40 xpos 0.091 ypos 0.631
> 2dlabels text "wedge domain" color hot pink size 40 xpos 0.071 ypos 0.546
> 2dlabels text pTM color red size 40 xpos 0.696 ypos 0.490
> ui mousemode right "move label"
> 2dlabels #6.1 xpos 0.629 ypos 0.300
> 2dlabels #6.3 xpos 0.529 ypos 0.137
> 2dlabels #6.4 xpos 0.715 ypos 0.430
> 2dlabels #6.7 xpos 0.208 ypos 0.148
> 2dlabels #6.2 xpos 0.580 ypos 0.862
> 2dlabels #6.5 xpos 0.698 ypos 0.589
> 2dlabels #6.6 xpos 0.087 ypos 0.866
> 2dlabels #6.7 xpos 0.232 ypos 0.158
> 2dlabels #6.5 xpos 0.678 ypos 0.600
> 2dlabels #6.4 xpos 0.713 ypos 0.426
> 2dlabels #6.1 xpos 0.630 ypos 0.302
> 2dlabels #6.2 xpos 0.576 ypos 0.863
> 2dlabels #6.3 xpos 0.534 ypos 0.142
> 2dlabels #6.3 xpos 0.542 ypos 0.138
> 2dlabels #6.4 xpos 0.712 ypos 0.427
> 2dlabels #6.5 xpos 0.683 ypos 0.597
> 2dlabels #6.6 xpos 0.080 ypos 0.866
> 2dlabels #6.6 xpos 0.084 ypos 0.866
> 2dlabels #6.7 xpos 0.235 ypos 0.158
> close #6
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.630 ypos 0.302
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.576 ypos 0.863
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.542 ypos 0.138
> 2dlabels text CBM color #90e050 size 36 xpos 0.712 ypos 0.427
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.683 ypos 0.597
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.084 ypos 0.866
> 2dlabels text pTM color red size 36 xpos 0.235 ypos 0.158
> ui mousemode right "move label"
> 2dlabels #7.6 xpos 0.080 ypos 0.853
> 2dlabels #7.2 xpos 0.576 ypos 0.870
> 2dlabels #7.5 xpos 0.686 ypos 0.605
> 2dlabels #7.4 xpos 0.715 ypos 0.430
> 2dlabels #7.1 xpos 0.633 ypos 0.305
> 2dlabels #7.3 xpos 0.542 ypos 0.139
> 2dlabels #7.7 xpos 0.242 ypos 0.150
> close #7
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.633 ypos 0.305
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.576 ypos 0.870
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.542 ypos 0.139
> 2dlabels text CBM color #90e050 size 36 xpos 0.715 ypos 0.430
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.686 ypos 0.605
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.080 ypos 0.853
> 2dlabels text pTM color red size 36 xpos 0.242 ypos 0.150
> close #8
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.633 ypos 0.305
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.576 ypos 0.870
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.542 ypos 0.139
> 2dlabels text CBM color #90e050 size 36 xpos 0.715 ypos 0.430
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.686 ypos 0.605
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.080 ypos 0.853
> 2dlabels text pTM color red size 36 xpos 0.242 ypos 0.150
> close #9
> save D:/nextcloud/cryoEM/8th_Mosquito/Figures/movies/movie.cxs
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.633 ypos 0.305
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.576 ypos 0.870
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.542 ypos 0.139
> 2dlabels text CBM color #90e050 size 36 xpos 0.715 ypos 0.430
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.686 ypos 0.605
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.080 ypos 0.853
> 2dlabels text pTM color red size 36 xpos 0.242 ypos 0.150
> hide #10
> view name front1
> save D:/nextcloud/cryoEM/8th_Mosquito/Figures/movies/movie.cxs
> turn y 2 180
> show #11.1-7
> show #10.1-7
> hide #!3 models
> show #!4 models
> hide #10.1-7
> turn y 2 90
> show #10.1-7
> 2dlabels #10.2 xpos 0.617 ypos 0.871
> 2dlabels #10.6 xpos 0.686 ypos 0.821
> 2dlabels #10.2 xpos 0.600 ypos 0.916
> 2dlabels #10.2 xpos 0.605 ypos 0.921
> 2dlabels #10.6 xpos 0.691 ypos 0.831
> 2dlabels #10.5 xpos 0.099 ypos 0.570
> 2dlabels #10.4 xpos 0.162 ypos 0.459
> 2dlabels #10.1 xpos 0.612 ypos 0.394
> 2dlabels #10.3 xpos 0.683 ypos 0.317
> 2dlabels #10.1 xpos 0.608 ypos 0.397
> 2dlabels #10.7 xpos 0.689 ypos 0.155
> 2dlabels #10.3 xpos 0.670 ypos 0.322
> 2dlabels #10.1 xpos 0.615 ypos 0.400
> 2dlabels #10.7 xpos 0.690 ypos 0.161
> 2dlabels #10.6 xpos 0.689 ypos 0.828
> 2dlabels #10.4 xpos 0.157 ypos 0.458
> 2dlabels #10.1 xpos 0.615 ypos 0.400
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.615 ypos 0.400
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.605 ypos 0.921
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.670 ypos 0.322
> 2dlabels text CBM color #90e050 size 36 xpos 0.157 ypos 0.458
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.099 ypos 0.570
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.689 ypos 0.828
> 2dlabels text pTM color red size 36 xpos 0.690 ypos 0.161
> close #10.1-7
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.633 ypos 0.305
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.576 ypos 0.870
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.542 ypos 0.139
> 2dlabels text CBM color #90e050 size 36 xpos 0.715 ypos 0.430
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.686 ypos 0.605
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.080 ypos 0.853
> 2dlabels text pTM color red size 36 xpos 0.242 ypos 0.150
> hide #10.1 models
> hide #10.2 models
> hide #10.3 models
> hide #10.4 models
> hide #10.5 models
> hide #10.6 models
> hide #10.7 models
> hide #10.8-14
> view name front2
> show #!3 models
> hide #!4 models
> show #!2 models
> hide #!2 models
> hide #!10 models
> show #!10 models
> hide #!3 models
> show #!3 models
> show #!4 models
> hide #!4 models
> show #!4 models
> show #!2 models
> hide #!2 models
> close #10
> hide #!3 models
> select #4:1574-1581,1619-1626,1663-1670,1673-1678,1681-1687,1709-1716
370 atoms, 374 bonds, 45 residues, 1 model selected
> select #4:1575-1581,1619-1626,1663-1670,1673-1678,1681-1687,1709-1715
353 atoms, 357 bonds, 43 residues, 1 model selected
> open D:/nextcloud/cryoEM/8th_Mosquito/Figures/model/all-
> coot-36_real_space_refined_016.pdb
Chain information for all-coot-36_real_space_refined_016.pdb #11
---
Chain | Description
A | No description available
> rename #11 id #5
> select #5:1575-1581,1619-1626,1663-1670,1673-1678,1681-1687,1709-1715
353 atoms, 357 bonds, 43 residues, 1 model selected
> select ~sel
68237 atoms, 69716 bonds, 15 pseudobonds, 8566 residues, 25 models selected
> select ~sel
353 atoms, 357 bonds, 43 residues, 1 model selected
> ~select #5
Nothing selected
> ~select #5:1575-1581,1619-1626,1663-1670,1673-1678,1681-1687,1709-1715
Nothing selected
> select #5:1575-1581,1619-1626,1663-1670,1673-1678,1681-1687,1709-1715
353 atoms, 357 bonds, 43 residues, 1 model selected
> ~select #5:1575-1581,1619-1626,1663-1670,1673-1678,1681-1687,1709-1715
Nothing selected
> select #5:1575-1581,1619-1626,1663-1670,1673-1678,1681-1687,1709-1715
353 atoms, 357 bonds, 43 residues, 1 model selected
> select ~sel
68237 atoms, 69716 bonds, 15 pseudobonds, 8566 residues, 25 models selected
> select subtract #4
44839 atoms, 45805 bonds, 11 pseudobonds, 5630 residues, 23 models selected
> select subtract #3
44839 atoms, 45805 bonds, 11 pseudobonds, 5630 residues, 6 models selected
> select subtract #2
44839 atoms, 45805 bonds, 11 pseudobonds, 5630 residues, 4 models selected
> select subtract #1
23045 atoms, 23542 bonds, 4 pseudobonds, 2893 residues, 2 models selected
> hide #!4 models
> select #5:1575-1581,1619-1626,1663-1670,1673-1678,1681-1687,1709-1715
353 atoms, 357 bonds, 43 residues, 1 model selected
> select ~sel
68237 atoms, 69716 bonds, 15 pseudobonds, 8566 residues, 25 models selected
> select subtract #4
44839 atoms, 45805 bonds, 11 pseudobonds, 5630 residues, 23 models selected
> select subtract #3
44839 atoms, 45805 bonds, 11 pseudobonds, 5630 residues, 6 models selected
> select subtract #2
44839 atoms, 45805 bonds, 11 pseudobonds, 5630 residues, 4 models selected
> select subtract #1
23045 atoms, 23542 bonds, 4 pseudobonds, 2893 residues, 2 models selected
> delete atoms (#!5 & sel)
> delete bonds (#!5 & sel)
> hide #5.1 models
> close #5.1
> select add #5
353 atoms, 357 bonds, 43 residues, 1 model selected
> show sel atoms
> hide sel cartoons
> select subtract #5
Nothing selected
> select add #5
353 atoms, 357 bonds, 43 residues, 1 model selected
> color #5:1575-1581,1619-1626,1663-1670,1673-1678,1681-1687,1709-1715 medium
> purple
> select clear
> ui tool show "Color Zone"
> color zone #2 near #5 distance 1.36
> color zone #2 near #5 distance 3
> show #!2 models
> hide #!2 models
> color single #2
> color zone #2 near #5 distance 3
> volume splitbyzone #2
Opened post_run4_1sharpen_flip.mrc 0 as #6.1, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 as #6.2, grid size 300,300,300, pixel
1.36, shown at level 0.02, step 1, values float32
> close #6.1
> hide #5 models
> show #5 models
> volume #6.2 level 0.03
> volume #6.2 level 0.036
> ui tool show "Hide Dust"
> surface dust #6.2 size 5
> select add #6.2
2 models selected
> select subtract #6.2
Nothing selected
> select add #5
353 atoms, 357 bonds, 43 residues, 1 model selected
> color sel byhetero
> select add #6.2
353 atoms, 357 bonds, 43 residues, 3 models selected
> select subtract #5
2 models selected
> transparency #6.2.1 90
> select clear
> ui tool show "Color Zone"
> color single #6.2
> color #5:1575-1581,1619-1626,1663-1670,1673-1678,1681-1687,1709-1715 medium
> purple
> volume #6.2 color #dbdbdb19
> color zone #6.2 near #5 distance 2
> volume splitbyzone #6.2
Opened post_run4_1sharpen_flip.mrc 1 0 as #7.1, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
Opened post_run4_1sharpen_flip.mrc 1 1 as #7.2, grid size 300,300,300, pixel
1.36, shown at level 0.036, step 1, values float32
> close #7.1
> select add #7.2
2 models selected
> transparency #7.2.1 90
> select subtract #7.2
Nothing selected
> select add #5
353 atoms, 357 bonds, 43 residues, 1 model selected
> color sel byhetero
> select clear
> ui tool show "Hide Dust"
> surface dust #7.2 size 8.16
> close #6.2
> close #6
> rename #7 id #6
> show #!4 models
> hide #!6 models
> hide #!6.2 models
> hide #5 models
> show #5 models
> show #!6 models
> hide #!4 models
> hide #!6 models
> show #!6 models
> hide #5 models
> show #5 models
> hide #!6 models
> show #!6 models
> show #!6.2 models
> show #!4 models
> hide #5 models
> hide #!4 models
> show #5 models
> view name front3
> turn y 2 90
> turn x 2 90
[Repeated 1 time(s)]
> turn y 2 90
> show #!4 models
> hide #!4 models
> hide #5 models
> hide #!6 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.633 ypos 0.305
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.576 ypos 0.870
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.542 ypos 0.139
> 2dlabels text CBM color #90e050 size 36 xpos 0.715 ypos 0.430
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.686 ypos 0.605
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.080 ypos 0.853
> 2dlabels text pTM color red size 36 xpos 0.242 ypos 0.150
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.615 ypos 0.400
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.605 ypos 0.921
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.670 ypos 0.322
> 2dlabels text CBM color #90e050 size 36 xpos 0.157 ypos 0.458
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.099 ypos 0.570
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.689 ypos 0.828
> 2dlabels text pTM color red size 36 xpos 0.690 ypos 0.161
> close #7
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.633 ypos 0.305
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.576 ypos 0.870
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.542 ypos 0.139
> 2dlabels text CBM color #90e050 size 36 xpos 0.715 ypos 0.430
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.686 ypos 0.605
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.080 ypos 0.853
> 2dlabels text pTM color red size 36 xpos 0.242 ypos 0.150
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.615 ypos 0.400
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.605 ypos 0.921
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.670 ypos 0.322
> 2dlabels text CBM color #90e050 size 36 xpos 0.157 ypos 0.458
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.099 ypos 0.570
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.689 ypos 0.828
> 2dlabels text pTM color red size 36 xpos 0.690 ypos 0.161
> close #8
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.633 ypos 0.305
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.576 ypos 0.870
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.542 ypos 0.139
> 2dlabels text CBM color #90e050 size 36 xpos 0.715 ypos 0.430
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.686 ypos 0.605
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.080 ypos 0.853
> 2dlabels text pTM color red size 36 xpos 0.242 ypos 0.150
> 2dlabels text Rhs/YD-repeats color dodger blue size 36 xpos 0.615 ypos 0.400
> 2dlabels text "β-propeller 1" color orange size 36 xpos 0.605 ypos 0.921
> 2dlabels text "β-propeller 2" color cyan size 36 xpos 0.670 ypos 0.322
> 2dlabels text CBM color #90e050 size 36 xpos 0.157 ypos 0.458
> 2dlabels text lectin-CRD color medium purple size 36 xpos 0.099 ypos 0.570
> 2dlabels text "wedge domain" color hot pink size 36 xpos 0.689 ypos 0.828
> 2dlabels text pTM color red size 36 xpos 0.690 ypos 0.161
> rename #9 id 7
> hide #!7 models
> show #5 models
> hide #5 models
> show #!4 models
> hide #!4 models
> show #5 models
> show #!6 models
> 2dlabels text lectin-CRD color medium purple size 30 xpos 0.664 ypos 0.525
> show #!7 models
> hide #7.15 models
> show #7.15 models
> hide #7.15 models
> show #7.15 models
> hide #!7 models
> select add #7.15
1 model selected
> show #!7 models
> 2dlabels #7.15 xpos 0.299 ypos 0.080
> close #7.15
> 2dlabels text lectin-CRD color medium purple size 30 xpos 0.299 ypos 0.080
> close #7.15
> 2dlabels text "lectin-CRD β-sheet" color medium purple size 30 xpos 0.299
> ypos 0.080
> close #7.15
> 2dlabels text "lectin-CRD β-sheet" color medium purple size 36 xpos 0.299
> ypos 0.080
> 2dlabels #7.15 xpos 0.326 ypos 0.052
> turn y 2 90
> turn x 2 90
> close #7.15
> view front3
> hide #!7 models
> hide #!6 models
> hide #5 models
> show #!4 models
> hide #!4 models
> show #!1 models
> hide #!1 models
> close #1
> show #!3 models
> hide #!3 models
> show #!3 models
> view front1
> save D:/nextcloud/cryoEM/8th_Mosquito/Figures/movies/movie.cxs
> save D:/nextcloud/cryoEM/8th_Mosquito/Figures/movies/movie.cxs includeMaps
> true
——— End of log from Mon May 30 19:02:14 2022 ———
opened ChimeraX session
> view front1
> turn y 2 180
> wait 190
> show #7.1-7
> hide #!7 models
> show #!7.1-7
> hide #7.1 models
> show #7.1 models
> hide #!7 models
> show #7.1-7.7
> hide #7.1 models
> show #7.1 models
> hide #!7 models
> show #7.1-7.7
> show #7.1-7.7 models
> show #7.1 #7.2 #7.3 #7.4 #7.5 #7.6 #7.7
> hide #!7 models
> show #7.1
> hide #7.2 models
> hide #7.3 models
> hide #7.14 models
> hide #7.13 models
> hide #7.12 models
> hide #7.11 models
> hide #7.10 models
> hide #7.9 models
> hide #7.8 models
> hide #7.7 models
> hide #7.6 models
> hide #7.5 models
> hide #7.4 models
> hide #7.1 models
> hide #!7 models
> show #7.1-7
> hide #!7 models
> show #7.8-14
> hide #7.1 models
> hide #!7 models
> show #!7 models
> show #7.1 models
> hide #7.1 models
> hide #7.2 models
> hide #7.3 models
> hide #7.4 models
> hide #7.5 models
> hide #7.6 models
> hide #7.7 models
> hide #7.8 models
> hide #7.14 models
> hide #7.13 models
> hide #7.12 models
> hide #7.11 models
> hide #7.9 models
> hide #7.10 models
> hide #!7 models
> show #7.1-7
> hide #7.1 models
> hide #7.2 models
> hide #7.3 models
> hide #7.4 models
> hide #7.5 models
> hide #7.6 models
> hide #7.7 models
> show #7.8-14
> hide #7.14 models
> hide #7.13 models
> hide #7.12 models
> hide #7.11 models
> hide #7.10 models
> hide #7.9 models
> hide #7.8 models
> 2dlabels text "lectin-CRD β-sheet" color medium purple size 36 xpos 0.299
> ypos 0.080
> close #7.15
> hide #!7 models
> view front1
> windowsize 1200 1200
> save D:/nextcloud/cryoEM/8th_Mosquito/Figures/movies/movie.cxs
——— End of log from Mon May 30 19:34:22 2022 ———
opened ChimeraX session
> hide #!3 models
> show #!4 models
> windowsize 1200 1200
> view front 3
> view front 2
> view front 1
> view front3
> windowsize 1200 1200
> view front 3
> view front3
> ui tool show "Side View"
> ui mousemode right clip
[Repeated 1 time(s)]
> view
> view front3
> clip near 0.5
> clip near 0.3
> clip near 0.2
> view front3
> clip near 0.2
> view front3
> clip near
Missing "near" keyword's argument
> clip near 5
> view front3
> ui mousemode right clip
[Repeated 1 time(s)]
> view front3
> view back 0
Expected an objects specifier or a view name or a keyword
> clip back 0.5
> view front3
> clip back 0.3
> clip back 0.`
Invalid "back" argument: Expected 'off' or a number
> clip back 0.1
> clip back 0.01
> clip back 0.9
> clip back 5
> view front3
> view name front4
> view front3
> view front4 50
> view front3
> show #!3.1 models
> hide #!4 models
> view front1
> hide #!3.1 models
> save D:/nextcloud/cryoEM/8th_Mosquito/Figures/movies/movie2.cxs
——— End of log from Tue May 31 09:31:12 2022 ———
opened ChimeraX session
> hide #7.1 models
> hide #7.2 models
> hide #7.3 models
> hide #7.4 models
> hide #7.5 models
> hide #7.6 models
> hide #7.7 models
> hide #7.8 models
> hide #7.9 models
> hide #7.10 models
> hide #7.11 models
> hide #7.12 models
> hide #7.13 models
> hide #7.14 models
> save D:/nextcloud/cryoEM/8th_Mosquito/Figures/movies/movie2.cxs
——— End of log from Tue May 31 09:35:31 2022 ———
opened ChimeraX session
OpenGL version: 3.3.0 NVIDIA 512.95
OpenGL renderer: NVIDIA GeForce RTX 3070 Ti Laptop GPU/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Locale: en_US.cp1252
Qt version: PyQt6 6.2.3, Qt 6.2.3
Qt platform: windows
Manufacturer: Dell Inc.
Model: Dell G15 Special Edition 5521
OS: Microsoft Windows 11 Pro (Build 22000)
Memory: 16,849,293,312
MaxProcessMemory: 137,438,953,344
CPU: 20 12th Gen Intel(R) Core(TM) i7-12700H
OSLanguage: en-US
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 3.0.0
certifi: 2021.10.8
cftime: 1.6.0
charset-normalizer: 2.0.12
ChimeraX-AddCharge: 1.2.3
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2.1
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.36.2
ChimeraX-AtomicLibrary: 6.1.1
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.1
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-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.1
ChimeraX-CommandLine: 1.2.2
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.4.dev202203190100
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-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: 1.1.5
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: 2.0.6
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.7
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.5.5
ChimeraX-ModelPanel: 1.3.2
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: 1.8
ChimeraX-PDB: 2.6.6
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1
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: 2.5
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: 1.8
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.0.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2.1
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.16.3
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.1.2
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: 0.29.26
debugpy: 1.5.1
decorator: 5.1.1
docutils: 0.17.1
entrypoints: 0.4
filelock: 3.4.2
fonttools: 4.31.1
funcparserlib: 1.0.0a0
grako: 3.16.5
h5py: 3.6.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.27
imagecodecs: 2021.11.20
imagesize: 1.3.0
ipykernel: 6.6.1
ipython: 7.31.1
ipython-genutils: 0.2.0
jedi: 0.18.1
Jinja2: 3.0.3
jupyter-client: 7.1.0
jupyter-core: 4.9.2
kiwisolver: 1.4.0
line-profiler: 3.4.0
lxml: 4.7.1
lz4: 3.1.10
MarkupSafe: 2.1.1
matplotlib: 3.5.1
matplotlib-inline: 0.1.3
msgpack: 1.0.3
nest-asyncio: 1.5.4
netCDF4: 1.5.8
networkx: 2.6.3
numexpr: 2.8.1
numpy: 1.22.1
openvr: 1.16.802
packaging: 21.3
ParmEd: 3.4.3
parso: 0.8.3
pickleshare: 0.7.5
Pillow: 9.0.1
pip: 21.3.1
pkginfo: 1.8.2
prompt-toolkit: 3.0.28
psutil: 5.9.0
pycollada: 0.7.2
pydicom: 2.2.2
Pygments: 2.11.2
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.7
PyQt6-commercial: 6.2.3
PyQt6-sip: 13.2.0
PyQt6-WebEngine-commercial: 6.2.1
python-dateutil: 2.8.2
pytz: 2022.1
pywin32: 303
pyzmq: 22.3.0
qtconsole: 5.2.2
QtPy: 2.0.1
RandomWords: 0.3.0
requests: 2.27.1
scipy: 1.7.3
setuptools: 59.8.0
sfftk-rw: 0.7.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.3.2
sphinx-autodoc-typehints: 1.15.2
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 3.0.0
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-community: 1.0.0
tables: 3.7.0
tifffile: 2021.11.2
tinyarray: 1.2.4
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.9
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.1
wheel-filename: 1.3.0
WMI: 1.5.1
Change History (2)
comment:1 by , 3 years ago
| Component: | Unassigned → Graphics |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → GL.glActiveTexture(): access violation |
comment:2 by , 3 years ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | assigned → closed |
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Looks like a graphics driver crash in bind_texture() on RTX 3070 Ti on Windows 11.