MemoryError open mmCIF

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.19044
ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
You can double click a model's Name or ID in the model panel to edit those
fields  
Updating list of available bundles failed: [SSL: CERTIFICATE_VERIFY_FAILED]
certificate verify failed: Hostname mismatch, certificate is not valid for
'cxtoolshed.rbvi.ucsf.edu'. (_ssl.c:1129)  
UCSF ChimeraX version: 1.6.1 (2023-05-09)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> help help:quickstart

> ui tool show "Build Structure"

> build start peptide "custom built" G -57.0,-47.0 rotLib Dunbrack

> set bgColor white

> ui mousemode right pivot

> ui mousemode right rotate

[Repeated 1 time(s)]

> ui mousemode right select

[Repeated 1 time(s)]

> select /A:1@OXT

1 atom, 1 residue, 1 model selected  

> select /A:1@O

1 atom, 1 residue, 1 model selected  

> select /A:1@OXT

1 atom, 1 residue, 1 model selected  

> style sel sphere

Changed 1 atom style  

> style sel ball

Changed 1 atom style  

> style sel stick

Changed 1 atom style  

> style sel ball

Changed 1 atom style  

> style sel sphere

Changed 1 atom style  

> style sel stick

Changed 1 atom style  

> style sel ball

Changed 1 atom style  

> style sel sphere

Changed 1 atom style  

> style sel ball

Changed 1 atom style  
Drag select of 5 atoms, 4 bonds  
[Repeated 1 time(s)]

> select clear

> style sphere

Changed 5 atom styles  

> style ball

Changed 5 atom styles  

> style stick

Changed 5 atom styles  

> style sphere

Changed 5 atom styles  

> style ball

Changed 5 atom styles  

> style sphere

Changed 5 atom styles  

> style ball

Changed 5 atom styles  

> lighting simple

> lighting soft

> lighting full

> lighting soft

> lighting simple

> lighting full

> lighting soft

> lighting simple

> lighting full

> lighting soft

> lighting full

> lighting simple

> style stick

Changed 5 atom styles  

> style ball

Changed 5 atom styles  

> ui mousemode right select

> select /A:1@O

1 atom, 1 residue, 1 model selected  

> select /A:1@O

1 atom, 1 residue, 1 model selected  

> select /A:1@O

1 atom, 1 residue, 1 model selected  

> select add /A:1@OXT

2 atoms, 1 residue, 1 model selected  

> hide sel atoms

> show sel atoms

> hide sel atoms

> show sel atoms

> hide sel atoms

> show sel atoms

> hide sel atoms

> show sel cartoons

[Repeated 1 time(s)]

> hide sel cartoons

> hide sel atoms

> show sel atoms

> hide sel atoms

> show sel atoms

> hide sel atoms

> show sel atoms

> hide sel atoms

> save C:\Users\ptjuser\Desktop\image1.png supersample 3

> show sel surfaces

> hide sel surfaces

[Repeated 1 time(s)]

> show sel surfaces

> style sel sphere

Changed 2 atom styles  

> style sel sphere

Changed 2 atom styles  

> show sel surfaces

> style sel sphere

Changed 2 atom styles  

> style sel ball

Changed 2 atom styles  

> nucleotides sel atoms

> style nucleic & sel stick

Changed 0 atom styles  

> style sel stick

Changed 2 atom styles  

> show sel surfaces

> show sel cartoons

> style sel stick

Changed 2 atom styles  

> show sel surfaces

> hide sel surfaces

> show sel atoms

> hide sel atoms

> show sel surfaces

> transparency (#!1 & sel) 50

[Repeated 1 time(s)]

> transparency (#!1 & sel) 70

> transparency (#!1 & sel) 80

> transparency (#!1 & sel) 60

> transparency (#!1 & sel) 90

> transparency (#!1 & sel) 100

> transparency (#!1 & sel) 70

> set bgColor black

> set bgColor transparent

> show sel atoms

> style sel ball

Changed 2 atom styles  

> color (#!1 & sel) cyan

> transparency (#!1 & sel) 50

> transparency (#!1 & sel) 60

> transparency (#!1 & sel) 50

> color (#!1 & sel) purple

> surface style solid

[Repeated 1 time(s)]

> transparency (#!1 & sel) 50

> surface style dot

> surface style mesh

> surface style dot

> color (#!1 & sel) light sea green

> color (#!1 & sel) cornflower blue

> select

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

> surface (#!1 & sel)

> color (#!1 & sel) cyan

> color (#!1 & sel) cornflower blue

> transparency (#!1 & sel) 70

> surface style dot

> transparency (#!1 & sel) 50

> surface style solid

> transparency (#!1 & sel) 40

> transparency (#!1 & sel) 50

> save C:\Users\ptjuser\Desktop\image2.png supersample 3

> save C:\Users\ptjuser\Desktop\image3.png supersample 3

> save C:\Users\ptjuser\Desktop\image4.png supersample 3

> save C:\Users\ptjuser\Desktop\image5.png supersample 3

> save C:\Users\ptjuser\Desktop\image6.png supersample 3

> save C:\Users\ptjuser\Desktop\image7.png supersample 3

> movie record

> turn y 2 180

> wait 180

> movie encode C:\Users\ptjuser\Desktop\movie1.mp4

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

> surface style dot

> save C:\Users\ptjuser\Desktop\image2.png supersample 3

> movie record

> turn y 2 180

> wait 180

> movie encode C:\Users\ptjuser\Desktop\movie1.mp4

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

> close session

> ui tool show "Selection Inspector"

> ui tool show "Build Structure"

> build start peptide "custom built" P -57.0,-47.0 rotLib Dunbrack

> build start peptide "custom built" N -57.0,-47.0 rotLib Dunbrack

> close session

> ui tool show "Build Structure"

> build start peptide "custom built" N -57.0,-47.0 rotLib Dunbrack

> select /A:1@N

1 atom, 1 residue, 1 model selected  

> style sel ball

Changed 1 atom style  

> ui mousemode right pivot

> ui mousemode right select

[Repeated 1 time(s)]

> style sel ball

Changed 1 atom style  

> style sel ball

Changed 1 atom style  

> ui mousemode right select

> select clear

> style ball

Changed 9 atom styles  

> set bgColor white

> set bgColor #ffffff00

> style ball

Changed 9 atom styles  

> lighting full

> lighting soft

> lighting simple

> set bgColor gray

> set bgColor #80808000

> graphics silhouettes true

> lighting shadows true

> lighting shadows false

> lighting flat

> lighting full

> lighting soft

> lighting simple

No Surface models open  

> select clear

> set bgColor black

> set bgColor transparent

> transparency 50

> surface

> surface style dot

> color hot pink

> color cyan

> surface style mesh

> color hot pink

> lighting soft

> lighting full

> undo

[Repeated 3 time(s)]

> surface style dot

> set bgColor white

> set bgColor #ffffff00

> set bgColor gray

> set bgColor #80808000

> set bgColor black

> set bgColor transparent

> color cornflower blue

> surface style mesh

> transparency 30

> undo

[Repeated 2 time(s)]

> color cyan

> transparency 20

> surface style mesh

> transparency 0

> transparency 80

> transparency 60

> style ball

Changed 9 atom styles  

> style sphere

Changed 9 atom styles  

> style ball

Changed 9 atom styles  

> hide atoms

> show atoms

> lighting simple

> lighting full

> lighting soft

> lighting simple

> set bgColor white

> set bgColor #ffffff00

> set bgColor black

> set bgColor transparent

> set bgColor gray

> set bgColor #80808000

> set bgColor black

> set bgColor transparent

> color byelement

> color byhetero

> color #ffaaffff

> color #aaaaffff

> color #a99effff

> color #ac9dffff

> color #ab9cffff

> color #a899ffff

> color #a798ffff

> color #a797ffff

> color #a595ffff

> color #a494ffff

> color #a393ffff

> color #a292ffff

> color #a190ffff

> color #9d90ffff

> color #988fffff

> color #968effff

> color #8e8effff

> color #8e90ffff

> color #8e99ffff

> color #8e9fffff

> color #8ca1ffff

> color #8ca5ffff

> color #8ca7ffff

> color #8cabffff

> color #8cafffff

> color #8cb0ffff

> color #8cb8ffff

> color #8cc0ffff

> color #8cc4ffff

> color #8cc9ffff

> color #8ccdffff

> color #8cd3ffff

> color #8cd7ffff

> color #8cddffff

> color #8be0ffff

> color #8ae4ffff

> color #89e3ffff

> color #87e3ffff

> color #86e3ffff

> color #85e3ffff

> color #83e2ffff

> color #82e2ffff

> color #80e1ffff

> color #7ee1ffff

> color #7ce0ffff

> color #7be7ffff

> color #79e9ffff

> color #79edffff

> color #78f4ffff

> color #77f4ffff

> color #77e6ffff

> color #77d4ffff

> color #77c9ffff

> ui mousemode right select

[Repeated 1 time(s)]

> surface hidePatches

> select /A:1@ND2

1 atom, 1 residue, 1 model selected  

> select add /A:1@OD1

2 atoms, 1 residue, 2 models selected  

> select add /A:1@CG

3 atoms, 1 residue, 2 models selected  

> select add /A:1@CB

4 atoms, 1 residue, 2 models selected  

> select add /A:1@CA

5 atoms, 1 residue, 2 models selected  

> select add /A:1@N

6 atoms, 1 residue, 2 models selected  

> select add /A:1@OXT

7 atoms, 1 residue, 2 models selected  

> select add /A:1@C

8 atoms, 1 residue, 2 models selected  

> select add /A:1@O

9 atoms, 1 residue, 2 models selected  

> color (#!1 & sel) #aaaaffff

> color (#!1 & sel) #ffaaffff

> color (#!1 & sel) #55ffffff

> color (#!1 & sel) #aaffffff

> color (#!1 & sel) #a0ffe3ff

> color (#!1 & sel) #9effe2ff

> color (#!1 & sel) #9dffe2ff

> color (#!1 & sel) #9cffe1ff

> color (#!1 & sel) #9bffe1ff

> color (#!1 & sel) #98ffe0ff

> color (#!1 & sel) #97ffdcff

> color (#!1 & sel) #95ffd8ff

> color (#!1 & sel) #95ffd3ff

> color (#!1 & sel) #95ffcfff

> color (#!1 & sel) #97ffd0ff

> color (#!1 & sel) #98ffcfff

> color (#!1 & sel) #99ffcfff

> color (#!1 & sel) #9bffcdff

> color (#!1 & sel) #9cffceff

> color (#!1 & sel) #9dffcbff

> color (#!1 & sel) #9effcbff

> color (#!1 & sel) #9effd3ff

> color (#!1 & sel) #9dffe3ff

> color (#!1 & sel) #99fff0ff

> color (#!1 & sel) #98fff8ff

> color (#!1 & sel) #97fffcff

> color (#!1 & sel) #95ffffff

> color (#!1 & sel) #94fdffff

> color (#!1 & sel) #93f6ffff

> color (#!1 & sel) #92f4ffff

> color (#!1 & sel) #90f0ffff

> surface style dot

> surface (#!1 & sel)

> transparency (#!1 & sel) 60

> surface style dot

> color (#!1 & sel) byhetero

> color (#!1 & sel) black

> color (#!1 & sel) byhetero

> color (#!1 & sel) byelement

> color (#!1 & sel) #ff55ffff

> color (#!1 & sel) #55aaffff

> color (#!1 & sel) #ffff00ff

> color (#!1 & sel) #55ffffff

> color (#!1 & sel) #ff55ffff

> color (#!1 & sel) #ffaaffff

> color (#!1 & sel) #aaaaffff

> color (#!1 & sel) #5555ffff

> color (#!1 & sel) #55aaffff

> color (#!1 & sel) #538fffff

> color (#!1 & sel) #5389ffff

> color (#!1 & sel) #5093ffff

> color (#!1 & sel) #4f9effff

> color (#!1 & sel) #4ea9ffff

> color (#!1 & sel) #4bbaffff

> color (#!1 & sel) #4bc0ffff

> color (#!1 & sel) byelement

> surface style mesh

> transparency (#!1 & sel) 80

> transparency (#!1 & sel) 50

> transparency (#!1 & sel) 100

> undo

[Repeated 3 time(s)]

> color (#!1 & sel) byhetero

> surface style dot

> color (#!1 & sel) cornflower blue

> color (#!1 & sel) byelement

> surface style mesh

> color (#!1 & sel) #43c3ffff

> color (#!1 & sel) #45c4ffff

> color (#!1 & sel) #45c7ffff

> color (#!1 & sel) #45d7ffff

> color (#!1 & sel) #43d6ffff

> color (#!1 & sel) #43e0ffff

> color (#!1 & sel) #42e6ffff

> color (#!1 & sel) #41e6ffff

> color (#!1 & sel) #40ecffff

> color (#!1 & sel) #3eefffff

> color (#!1 & sel) #3df5ffff

> color (#!1 & sel) #3dfcffff

> color (#!1 & sel) #3dffffff

> color (#!1 & sel) #3dfff2ff

> color (#!1 & sel) #3effefff

> color (#!1 & sel) #40ffefff

> color (#!1 & sel) #42ffefff

> color (#!1 & sel) #45fff0ff

> color (#!1 & sel) #49fff0ff

> color (#!1 & sel) #49fff3ff

> color (#!1 & sel) #4afff9ff

> color (#!1 & sel) #4affffff

> color (#!1 & sel) #4af0ffff

> color (#!1 & sel) #49e1ffff

> color (#!1 & sel) #47ddffff

> color (#!1 & sel) #46d7ffff

> color (#!1 & sel) #45d4ffff

> color (#!1 & sel) #43d3ffff

> color (#!1 & sel) #42cdffff

> color (#!1 & sel) #41ccffff

> surface style mesh

> transparency (#!1 & sel) 50

> surface style solid

> transparency (#!1 & sel) 70

> transparency (#!1 & sel) 90

> color (#!1 & sel) byelement

> surface style dot

> color (#!1 & sel) hot pink

> color (#!1 & sel) cyan

> color (#!1 & sel) byhetero

> color (#!1 & sel) white

> color (#!1 & sel) byhetero

> surface style mesh

> surface style dot

> surface style solid

> transparency (#!1 & sel) 90

> surface style dot

> surface style mesh

> select clear

> set bgColor black

> set bgColor white

> set bgColor #ffffff00

> set bgColor black

> set bgColor transparent

> lighting soft

> transparency 50

> transparency 70

> color cornflower blue

> undo

> surface style dot

> transparency 50

> transparency 20

> transparency 10

> transparency 0

> surface style solid

> surface style mesh

> surface style dot

> save C:\Users\ptjuser\Desktop\image3.png supersample 3

Drag select of custom built_A SES surface, 196 of 2238 triangles  

> select /A:1@N

1 atom, 1 residue, 1 model selected  

> color (#!1 & sel) cornflower blue

> select /A:1@O

1 atom, 1 residue, 1 model selected  

> select /A:1@CG

1 atom, 1 residue, 1 model selected  

> select clear

> close session

> open 1rqs

Summary of feedback from opening 1rqs fetched from pdb  
---  
note | Fetching compressed mmCIF 1rqs from
http://files.rcsb.org/download/1rqs.cif  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\cmd_line\tool.py", line 319, in execute  
cmd.run(cmd_text)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 119, in cmd_open  
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 154, in provider_open  
models, status = collated_open(session, database_name, ident,  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 464, in collated_open  
return remember_data_format()  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 435, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\mmcif\\__init__.py", line 97, in fetch  
return fetcher(session, ident, ignore_cache=ignore_cache, **kw)  
File "src\mmcif.pyx", line 418, in chimerax.mmcif.mmcif.fetch_mmcif  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\manager.py", line 198, in open_data  
return provider_open(self.session, [path], _return_status=True,  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 194, in provider_open  
models, status = collated_open(session, None, [data], data_format,
_add_models,  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 465, in collated_open  
return remember_data_format()  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 435, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\mmcif\\__init__.py", line 43, in open  
return mmcif.open_mmcif(session, data, file_name, **kw)  
File "src\mmcif.pyx", line 88, in chimerax.mmcif.mmcif.open_mmcif  
MemoryError: not enough memory  
  
MemoryError: not enough memory  
  
File "src\mmcif.pyx", line 88, in chimerax.mmcif.mmcif.open_mmcif  
  
See log for complete Python traceback.  
  

> open 1rqf

Summary of feedback from opening 1rqf fetched from pdb  
---  
note | Fetching compressed mmCIF 1rqf from
http://files.rcsb.org/download/1rqf.cif  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\cmd_line\tool.py", line 319, in execute  
cmd.run(cmd_text)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 119, in cmd_open  
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 154, in provider_open  
models, status = collated_open(session, database_name, ident,  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 464, in collated_open  
return remember_data_format()  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 435, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\mmcif\\__init__.py", line 97, in fetch  
return fetcher(session, ident, ignore_cache=ignore_cache, **kw)  
File "src\mmcif.pyx", line 418, in chimerax.mmcif.mmcif.fetch_mmcif  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\manager.py", line 198, in open_data  
return provider_open(self.session, [path], _return_status=True,  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 194, in provider_open  
models, status = collated_open(session, None, [data], data_format,
_add_models,  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 465, in collated_open  
return remember_data_format()  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 435, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\mmcif\\__init__.py", line 43, in open  
return mmcif.open_mmcif(session, data, file_name, **kw)  
File "src\mmcif.pyx", line 88, in chimerax.mmcif.mmcif.open_mmcif  
MemoryError: not enough memory  
  
MemoryError: not enough memory  
  
File "src\mmcif.pyx", line 88, in chimerax.mmcif.mmcif.open_mmcif  
  
See log for complete Python traceback.  
  

> open 1rqf

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\cmd_line\tool.py", line 319, in execute  
cmd.run(cmd_text)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 119, in cmd_open  
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 154, in provider_open  
models, status = collated_open(session, database_name, ident,  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 464, in collated_open  
return remember_data_format()  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 435, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\mmcif\\__init__.py", line 97, in fetch  
return fetcher(session, ident, ignore_cache=ignore_cache, **kw)  
File "src\mmcif.pyx", line 418, in chimerax.mmcif.mmcif.fetch_mmcif  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\manager.py", line 198, in open_data  
return provider_open(self.session, [path], _return_status=True,  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 194, in provider_open  
models, status = collated_open(session, None, [data], data_format,
_add_models,  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 465, in collated_open  
return remember_data_format()  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\open_command\cmd.py", line 435, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\mmcif\\__init__.py", line 43, in open  
return mmcif.open_mmcif(session, data, file_name, **kw)  
File "src\mmcif.pyx", line 88, in chimerax.mmcif.mmcif.open_mmcif  
MemoryError: not enough memory  
  
MemoryError: not enough memory  
  
File "src\mmcif.pyx", line 88, in chimerax.mmcif.mmcif.open_mmcif  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 359.23
OpenGL renderer: GeForce GT 620/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.9.11
Locale: en_US.cp1252
Qt version: PyQt6 6.4.2, Qt 6.4.2
Qt runtime version: 6.4.3
Qt platform: windows

Manufacturer: Acer
Model: Veriton X2630G
OS: Microsoft Windows 10 Pro (Build 19044)
Memory: 4,233,707,520
MaxProcessMemory: 137,438,953,344
CPU: 4 Intel(R) Core(TM) i5-4440 CPU @ 3.10GHz
OSLanguage: en-US

Installed Packages:
    alabaster: 0.7.13
    appdirs: 1.4.4
    asttokens: 2.2.1
    Babel: 2.12.1
    backcall: 0.2.0
    beautifulsoup4: 4.11.2
    blockdiag: 3.0.0
    build: 0.10.0
    certifi: 2023.5.7
    cftime: 1.6.2
    charset-normalizer: 3.1.0
    ChimeraX-AddCharge: 1.5.9.1
    ChimeraX-AddH: 2.2.5
    ChimeraX-AlignmentAlgorithms: 2.0.1
    ChimeraX-AlignmentHdrs: 3.3.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.9.3
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.3
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.43.10
    ChimeraX-AtomicLibrary: 10.0.6
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.3.2
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.1.2
    ChimeraX-BondRot: 2.0.1
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.8
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.2
    ChimeraX-ChangeChains: 1.0.2
    ChimeraX-CheckWaters: 1.3.1
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.2.4
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.3
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.6.1
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.4.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2
    ChimeraX-DistMonitor: 1.4
    ChimeraX-DockPrep: 1.1.1
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.3
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1.1
    ChimeraX-Hbonds: 2.4
    ChimeraX-Help: 1.2.1
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-Label: 1.1.7
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.5
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.2
    ChimeraX-Map: 1.1.4
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.2
    ChimeraX-MatchMaker: 2.0.12
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.12
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.9
    ChimeraX-ModelPanel: 1.3.7
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.0
    ChimeraX-NRRD: 1.0
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.10.1
    ChimeraX-PDB: 2.7.2
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.1
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 3.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.1
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.8.3
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.1
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.10.3
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1.2
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.2.1
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.1
    ChimeraX-Topography: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.28.4
    ChimeraX-uniprot: 2.2.2
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.2
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.2
    ChimeraX-WebServices: 1.1.1
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.1.3
    comtypes: 1.1.14
    contourpy: 1.0.7
    cxservices: 1.2.2
    cycler: 0.11.0
    Cython: 0.29.33
    debugpy: 1.6.7
    decorator: 5.1.1
    docutils: 0.19
    executing: 1.2.0
    filelock: 3.9.0
    fonttools: 4.39.3
    funcparserlib: 1.0.1
    grako: 3.16.5
    h5py: 3.8.0
    html2text: 2020.1.16
    idna: 3.4
    ihm: 0.35
    imagecodecs: 2022.9.26
    imagesize: 1.4.1
    importlib-metadata: 6.6.0
    ipykernel: 6.21.1
    ipython: 8.10.0
    ipython-genutils: 0.2.0
    ipywidgets: 8.0.6
    jedi: 0.18.2
    Jinja2: 3.1.2
    jupyter-client: 8.0.2
    jupyter-core: 5.3.0
    jupyterlab-widgets: 3.0.7
    kiwisolver: 1.4.4
    line-profiler: 4.0.2
    lxml: 4.9.2
    lz4: 4.3.2
    MarkupSafe: 2.1.2
    matplotlib: 3.6.3
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.5.6
    netCDF4: 1.6.2
    networkx: 2.8.8
    nibabel: 5.0.1
    nptyping: 2.5.0
    numexpr: 2.8.4
    numpy: 1.23.5
    openvr: 1.23.701
    packaging: 23.1
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pickleshare: 0.7.5
    Pillow: 9.3.0
    pip: 23.0
    pkginfo: 1.9.6
    platformdirs: 3.5.0
    prompt-toolkit: 3.0.38
    psutil: 5.9.4
    pure-eval: 0.2.2
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.14.0
    pynrrd: 1.0.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.9
    pyproject-hooks: 1.0.0
    PyQt6-commercial: 6.4.2
    PyQt6-Qt6: 6.4.3
    PyQt6-sip: 13.4.1
    PyQt6-WebEngine-commercial: 6.4.0
    PyQt6-WebEngine-Qt6: 6.4.3
    python-dateutil: 2.8.2
    pytz: 2023.3
    pywin32: 305
    pyzmq: 25.0.2
    qtconsole: 5.4.0
    QtPy: 2.3.1
    RandomWords: 0.4.0
    requests: 2.28.2
    scipy: 1.9.3
    setuptools: 67.4.0
    sfftk-rw: 0.7.3
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.4.1
    sphinx: 6.1.3
    sphinx-autodoc-typehints: 1.22
    sphinxcontrib-applehelp: 1.0.4
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.2
    sphinxcontrib-htmlhelp: 2.0.1
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.3
    sphinxcontrib-serializinghtml: 1.1.5
    stack-data: 0.6.2
    tables: 3.7.0
    tcia-utils: 1.2.0
    tifffile: 2022.10.10
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.3.1
    traitlets: 5.9.0
    typing-extensions: 4.5.0
    tzdata: 2023.3
    urllib3: 1.26.15
    wcwidth: 0.2.6
    webcolors: 1.12
    wheel: 0.38.4
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.7
    WMI: 1.5.1
    zipp: 3.15.0