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#19456 closed defect (duplicate)

MemoryError saving session including maps

Reported by:	wangyue1@…	Owned by:	Tom Goddard
Priority:	normal	Milestone:
Component:	Sessions	Version:
Keywords:		Cc:	Greg Couch
Blocked By:		Blocking:
Notify when closed:		Platform:	all
Project:	ChimeraX

Description

The following bug report has been submitted:
Platform:        Windows-10-10.0.26100
ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC)
Description
MemoryError

File "msgpack\\_packer.pyx", line 304, in msgpack._cmsgpack.Packer.pack

See log for complete Python traceback.

Log:
Startup Messages  
---  
warning | Registration file 'C:\\\Users\\\Admin\\\AppData\\\Local\\\UCSF\\\ChimeraX\\\registration' has expired  
  
UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "F:/wangruolan_project/zhanghuanhuan/paper writing/to
> NC/revision/20251125/cryosparc_P145_J65_007_volume_map_sharp_1-youwei-20230829.mrc"

Opened cryosparc_P145_J65_007_volume_map_sharp_1-youwei-20230829.mrc as #1,
grid size 320,320,320, pixel 0.824, shown at level 0.184, step 2, values
float32  

> open "F:/wangruolan_project/zhanghuanhuan/paper writing/to
> NC/revision/20251125/cryosparc_P145_J65_007_volume_map_half_A_and_cryosparc_P145_J65_007_volume_map_half_B_local_resolution.ccp4"

Opened
cryosparc_P145_J65_007_volume_map_half_A_and_cryosparc_P145_J65_007_volume_map_half_B_local_resolution.ccp4
as #2, grid size 320,320,320, pixel 0.824, shown at level 8.44, step 2, values
float32  

> volume #1 step 1

> volume #2 step 1

> ui tool show "Surface Color"

> color sample #1.1 map #2 palette #ff0000:#ffffff:#0000ff

Map values for surface "surface": minimum 2.402, mean 3.427, maximum 9.305  

> color sample #1.1 map #2 palette
> #ff0000:#ffffff:#0000ff:#808080:#808080:#808080:#808080:#808080

Map values for surface "surface": minimum 2.402, mean 3.427, maximum 9.305  

> set bgColor white

> lighting soft

> color sample #1.1 map #2 palette
> 2.4,#5500ff:2.6,#5555ff:2.8,#55aaff:3,#ffffff:3.2,#ffaa7f:3.4,#ff557f:3.6,#ff007f:3.8,#ff0000

Map values for surface "surface": minimum 2.402, mean 3.427, maximum 9.305  

> volume #1 level 0.2407

> surface dust #1 size 8.24

[Repeated 1 time(s)]

> volume #1 level 0.2856

> volume #1 level 0.4092

> color sample #1.1 map #2 palette
> 2.2,#5500ff:2.4,#5555ff:2.6,#55aaff:2.8,#ffffff:3,#ffaa7f:3.2,#ff557f:3.4,#ff007f:3.6,#ff0000

Map values for surface "surface": minimum 2.402, mean 2.587, maximum 5.995  

> volume #1 level 0.4429

> volume #1 level 0.4541

> volume #1 level 0.3755

> volume #1 level 0.3642

> volume #1 level 0.38

> volume #1 level 0.3912

> volume #1 level 0.34

> volume #1 level 0.4

> volume #1 level 0.39

> key #5500ff:2.2 #5555ff:2.4 #55aaff:2.6 white:2.8 #ffaa7f:3.0 #ff557f:3.2
> #ff007f:3.4 red:3.6 showTool true

> ui mousemode right "color key"

> key pos 0.893805,0.152615 size 0.0300885,0.580576

> ui mousemode right translate

> save "F:/wangruolan_project/zhanghuanhuan/paper writing/to NC/revision/map
> situation of local/difilikefalin-local.cxs"

> save "F:/wangruolan_project/zhanghuanhuan/paper writing/to NC/revision/map
> situation of local/difilikefalin-local.png" width 1130 height 937
> supersample 4 transparentBackground true

> ui tool show "Side View"

> open "F:/wangruolan_project/zhanghuanhuan/paper writing/to
> NC/figshare_30121027/KOR-difelikefalin-20240723.pdb"

Chain information for KOR-difelikefalin-20240723.pdb #4  
---  
Chain | Description  
B | No description available  
C | No description available  
D | No description available  
E | No description available  
R | No description available  
  

> show cartoons

> style stick

Changed 9067 atom styles  

> select clear

[Repeated 1 time(s)]

> select /R:401@C20

1 atom, 1 residue, 1 model selected  

> select up

2 atoms, 1 bond, 1 residue, 1 model selected  

> select up

49 atoms, 51 bonds, 1 residue, 1 model selected  

> volume zone #1 nearAtoms sel range 2.5 newMap false

> select ~sel & ##selected

9018 atoms, 9205 bonds, 2 pseudobonds, 1142 residues, 2 models selected  

> hide sel cartoons

> hide sel atoms

> select clear

> volume #1 level 0.3788

> transparency #1.1 50

> transparency #1.1 0

> hide #!4 models

> show #!4 models

> hide #!4 models

> volume #1 level 0.39

> color sample #1.1 map #2 palette
> 2.2,#5500ff:2.4,#5555ff:2.6,#55aaff:2.8,#ffffff:3,#ffaa7f:3.2,#ff557f:3.4,#ff007f:3.6,#ff0000

Map values for surface "surface": minimum 2.402, mean 2.615, maximum 6.037  

> show #!4 models

> select /R:401@C13

1 atom, 1 residue, 1 model selected  

> select up

49 atoms, 51 bonds, 1 residue, 1 model selected  

> volume zone #1 nearAtoms sel range 3 newMap false

> ui tool show "Surface Zone"

> surface zone #1 nearAtoms #4 distance 3.23

> surface zone #1 nearAtoms sel distance 3.23

> surface zone #1 nearAtoms sel distance 2.73

> surface zone #1 nearAtoms sel distance 2.65

> hide #!4 models

> transparency #1.1 50

> show #!4 models

> color sel hot pink

> color sel byhetero

> transparency #1.1 0

> ui tool show "Map Eraser"

> volume erase #1 center 137.25,160.1,152.77 radius 1.8089

Opened cryosparc_P145_J65_007_volume_map_sharp_1-youwei-20230829.mrc copy as
#6, grid size 320,320,320, pixel 0.824, shown at step 1, values float32  

> surface zone #1 nearAtoms sel distance 2.65

> surface zone #6 nearAtoms sel distance 4.94

> color sample #6.1 map #2 palette
> 2.2,#5500ff:2.4,#5555ff:2.6,#55aaff:2.8,#ffffff:3,#ffaa7f:3.2,#ff557f:3.4,#ff007f:3.6,#ff0000

Map values for surface "surface": minimum 2.402, mean 2.615, maximum 6.037  

> surface zone #6 nearAtoms sel distance 2.97

> surface zone #6 nearAtoms sel distance 2.65

> volume erase #6 center 135.53,153.78,154.35 radius 1.7139

> volume erase #6 center 132.11,152.79,147.21 radius 1.7139

> volume erase #6 center 131.91,153.41,143.55 radius 1.7139

> volume erase #6 center 136.79,158.42,152.33 radius 1.7139

> transparency #6.1 50

> transparency #6.1 0

> hide #!6 models

> show #!6 models

> hide #!4 models

> show #5 models

> hide #5 models

> hide #!6 models

> show #!6 models

> show #!4 models

> hide #!4 models

> save "F:/wangruolan_project/zhanghuanhuan/paper writing/to NC/revision/map
> situation of local/difilikefalin-1.png" width 1130 height 937 supersample 4
> transparentBackground true

> surface dust #6 size 8.24

> surface zone #6 nearAtoms sel distance 2.65

> save "F:/wangruolan_project/zhanghuanhuan/paper writing/to NC/revision/map
> situation of local/difilikefalin-1l.cxs" includeMaps true

Traceback (most recent call last):  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 922, in save  
session.save(output, version=version, include_maps=include_maps)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 651, in save  
fserialize(stream, data)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\serialize.py", line 76, in msgpack_serialize  
stream.write(packer.pack(obj))  
^^^^^^^^^^^^^^^^  
File "msgpack\\\\_packer.pyx", line 294, in msgpack._cmsgpack.Packer.pack  
File "msgpack\\\\_packer.pyx", line 300, in msgpack._cmsgpack.Packer.pack  
File "msgpack\\\\_packer.pyx", line 297, in msgpack._cmsgpack.Packer.pack  
File "msgpack\\\\_packer.pyx", line 231, in msgpack._cmsgpack.Packer._pack  
MemoryError  
  
MemoryError  
  
File "msgpack\\\\_packer.pyx", line 231, in msgpack._cmsgpack.Packer._pack  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\dialog.py", line 127, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\dialog.py", line 138, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\dialog.py", line 62, in display  
run(session, cmd)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\commands\run.py", line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\cmd.py", line 86, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\cmd.py", line 101, in provider_save  
saver_info.save(session, path, **provider_kw)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core_formats\\__init__.py", line 95, in save  
return cxs_save(session, path, **kw)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 922, in save  
session.save(output, version=version, include_maps=include_maps)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 651, in save  
fserialize(stream, data)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\serialize.py", line 76, in msgpack_serialize  
stream.write(packer.pack(obj))  
^^^^^^^^^^^^^^^^  
File "msgpack\\\\_packer.pyx", line 294, in msgpack._cmsgpack.Packer.pack  
File "msgpack\\\\_packer.pyx", line 300, in msgpack._cmsgpack.Packer.pack  
File "msgpack\\\\_packer.pyx", line 297, in msgpack._cmsgpack.Packer.pack  
File "msgpack\\\\_packer.pyx", line 231, in msgpack._cmsgpack.Packer._pack  
MemoryError  
  
MemoryError  
  
File "msgpack\\\\_packer.pyx", line 231, in msgpack._cmsgpack.Packer._pack  
  
See log for complete Python traceback.  
  

> save "F:/wangruolan_project/zhanghuanhuan/paper writing/to NC/revision/map
> situation of local/difilikefalin-1.cxs" includeMaps true

Traceback (most recent call last):  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 922, in save  
session.save(output, version=version, include_maps=include_maps)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 651, in save  
fserialize(stream, data)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\serialize.py", line 76, in msgpack_serialize  
stream.write(packer.pack(obj))  
^^^^^^^^^^^^^^^^  
File "msgpack\\\\_packer.pyx", line 294, in msgpack._cmsgpack.Packer.pack  
File "msgpack\\\\_packer.pyx", line 304, in msgpack._cmsgpack.Packer.pack  
MemoryError  
  
MemoryError  
  
File "msgpack\\\\_packer.pyx", line 304, in msgpack._cmsgpack.Packer.pack  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\dialog.py", line 127, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\dialog.py", line 138, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\dialog.py", line 62, in display  
run(session, cmd)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\commands\run.py", line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\cmd.py", line 86, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\cmd.py", line 101, in provider_save  
saver_info.save(session, path, **provider_kw)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core_formats\\__init__.py", line 95, in save  
return cxs_save(session, path, **kw)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 922, in save  
session.save(output, version=version, include_maps=include_maps)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 651, in save  
fserialize(stream, data)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\serialize.py", line 76, in msgpack_serialize  
stream.write(packer.pack(obj))  
^^^^^^^^^^^^^^^^  
File "msgpack\\\\_packer.pyx", line 294, in msgpack._cmsgpack.Packer.pack  
File "msgpack\\\\_packer.pyx", line 304, in msgpack._cmsgpack.Packer.pack  
MemoryError  
  
MemoryError  
  
File "msgpack\\\\_packer.pyx", line 304, in msgpack._cmsgpack.Packer.pack  
  
See log for complete Python traceback.  
  

> save "F:/wangruolan_project/zhanghuanhuan/paper writing/to NC/revision/map
> situation of local/difilikefalin1.cxs"

Traceback (most recent call last):  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 922, in save  
session.save(output, version=version, include_maps=include_maps)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 651, in save  
fserialize(stream, data)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\serialize.py", line 76, in msgpack_serialize  
stream.write(packer.pack(obj))  
^^^^^^^^^^^^^^^^  
File "msgpack\\\\_packer.pyx", line 294, in msgpack._cmsgpack.Packer.pack  
File "msgpack\\\\_packer.pyx", line 304, in msgpack._cmsgpack.Packer.pack  
MemoryError  
  
MemoryError  
  
File "msgpack\\\\_packer.pyx", line 304, in msgpack._cmsgpack.Packer.pack  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\dialog.py", line 127, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\dialog.py", line 138, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\dialog.py", line 62, in display  
run(session, cmd)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\commands\run.py", line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\cmd.py", line 86, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\save_command\cmd.py", line 101, in provider_save  
saver_info.save(session, path, **provider_kw)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core_formats\\__init__.py", line 95, in save  
return cxs_save(session, path, **kw)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 922, in save  
session.save(output, version=version, include_maps=include_maps)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\session.py", line 651, in save  
fserialize(stream, data)  
File "E:\chimeraX1.8\ChimeraX 1.8\bin\Lib\site-
packages\chimerax\core\serialize.py", line 76, in msgpack_serialize  
stream.write(packer.pack(obj))  
^^^^^^^^^^^^^^^^  
File "msgpack\\\\_packer.pyx", line 294, in msgpack._cmsgpack.Packer.pack  
File "msgpack\\\\_packer.pyx", line 304, in msgpack._cmsgpack.Packer.pack  
MemoryError  
  
MemoryError  
  
File "msgpack\\\\_packer.pyx", line 304, in msgpack._cmsgpack.Packer.pack  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 560.94
OpenGL renderer: NVIDIA GeForce GTX 1650 SUPER/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.11.4
Locale: zh_CN.cp936
Qt version: PyQt6 6.6.1, Qt 6.6.1
Qt runtime version: 6.6.3
Qt platform: windows

Manufacturer: IPASON
Model:  
OS: Microsoft Windows 11 家庭中文版 (Build 26100)
Memory: 25,720,573,952
MaxProcessMemory: 137,438,953,344
CPU: 6 AMD Ryzen 5 3500X 6-Core Processor             
OSLanguage: zh-CN

Installed Packages:
    alabaster: 0.7.16
    appdirs: 1.4.4
    asttokens: 2.4.1
    Babel: 2.15.0
    beautifulsoup4: 4.12.3
    blockdiag: 3.0.0
    blosc2: 2.0.0
    build: 1.2.1
    certifi: 2024.6.2
    cftime: 1.6.4
    charset-normalizer: 3.3.2
    ChimeraX-AddCharge: 1.5.17
    ChimeraX-AddH: 2.2.6
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.5
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.12.7
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.1.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.57.1
    ChimeraX-AtomicLibrary: 14.0.6
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.4.6
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.12.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2.7
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.4
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.4
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.2.4
    ChimeraX-Clipper: 0.23.1
    ChimeraX-ColorActions: 1.0.5
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.6
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.8
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.3
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2.4
    ChimeraX-DiffPlot: 1.0
    ChimeraX-DistMonitor: 1.4.2
    ChimeraX-DockPrep: 1.1.3
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.3
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1.1
    ChimeraX-Hbonds: 2.4
    ChimeraX-Help: 1.2.2
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ISOLDE: 1.8
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-Label: 1.1.10
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.1.6
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.2
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.2
    ChimeraX-MatchMaker: 2.1.3
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.7.1
    ChimeraX-MedicalToolbar: 1.0.3
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.14.1
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.17
    ChimeraX-ModelPanel: 1.5
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0.3
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.2
    ChimeraX-NMRSTAR: 1.0.2
    ChimeraX-NRRD: 1.2
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.13.5
    ChimeraX-PDB: 2.7.5
    ChimeraX-PDBBio: 1.0.1
    ChimeraX-PDBLibrary: 1.0.4
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1.1
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.4.1
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.2
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 4.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.2
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-Segmentations: 3.0.15
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.11.2
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.3
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.16.5
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.2.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.5
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.39.1
    ChimeraX-uniprot: 2.3
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.4.3
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-vrml: 1.0
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.2
    ChimeraX-WebServices: 1.1.4
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.2
    comtypes: 1.4.1
    contourpy: 1.2.1
    cxservices: 1.2.2
    cycler: 0.12.1
    Cython: 3.0.10
    debugpy: 1.8.1
    decorator: 5.1.1
    docutils: 0.20.1
    executing: 2.0.1
    filelock: 3.13.4
    fonttools: 4.53.0
    funcparserlib: 2.0.0a0
    glfw: 2.7.0
    grako: 3.16.5
    h5py: 3.11.0
    html2text: 2024.2.26
    idna: 3.7
    ihm: 1.0
    imagecodecs: 2024.1.1
    imagesize: 1.4.1
    ipykernel: 6.29.2
    ipython: 8.21.0
    ipywidgets: 8.1.3
    jedi: 0.19.1
    jinja2: 3.1.4
    jupyter-client: 8.6.0
    jupyter-core: 5.7.2
    jupyterlab-widgets: 3.0.11
    kiwisolver: 1.4.5
    line-profiler: 4.1.2
    lxml: 5.2.1
    lz4: 4.3.3
    MarkupSafe: 2.1.5
    matplotlib: 3.8.4
    matplotlib-inline: 0.1.7
    msgpack: 1.0.8
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.3
    nibabel: 5.2.0
    nptyping: 2.5.0
    numexpr: 2.10.0
    numpy: 1.26.4
    openvr: 1.26.701
    packaging: 24.1
    ParmEd: 4.2.2
    parso: 0.8.4
    pep517: 0.13.1
    pillow: 10.3.0
    pip: 24.0
    pkginfo: 1.10.0
    platformdirs: 4.2.2
    prompt-toolkit: 3.0.47
    psutil: 5.9.8
    pure-eval: 0.2.2
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    pygments: 2.17.2
    pynmrstar: 3.3.4
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.3401
    pyparsing: 3.1.2
    pyproject-hooks: 1.1.0
    PyQt6-commercial: 6.6.1
    PyQt6-Qt6: 6.6.3
    PyQt6-sip: 13.6.0
    PyQt6-WebEngine-commercial: 6.6.0
    PyQt6-WebEngine-Qt6: 6.6.3
    python-dateutil: 2.9.0.post0
    pytz: 2024.1
    pywin32: 306
    pyzmq: 26.0.3
    qtconsole: 5.5.1
    QtPy: 2.4.1
    RandomWords: 0.4.0
    requests: 2.31.0
    scipy: 1.13.0
    setuptools: 69.5.1
    sfftk-rw: 0.8.1
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.5
    sphinx: 7.2.6
    sphinx-autodoc-typehints: 2.0.1
    sphinxcontrib-applehelp: 1.0.8
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.6
    sphinxcontrib-htmlhelp: 2.0.5
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.7
    sphinxcontrib-serializinghtml: 1.1.10
    stack-data: 0.6.3
    superqt: 0.6.3
    tables: 3.8.0
    tcia-utils: 1.5.1
    tifffile: 2024.1.30
    tinyarray: 1.2.4
    tornado: 6.4.1
    traitlets: 5.14.2
    typing-extensions: 4.12.2
    tzdata: 2024.1
    urllib3: 2.2.1
    wcwidth: 0.2.13
    webcolors: 1.13
    wheel: 0.43.0
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.11
    WMI: 1.5.1

Change History (2)

comment:1 by Eric Pettersen, 10 hours ago

Cc:	Greg Couch added
Component:	Unassigned → Sessions
Owner:	set to Tom Goddard
Platform:	→ all
Project:	→ ChimeraX
Status:	new → assigned
Summary:	ChimeraX bug report submission → MemoryError saving session including maps

Reported by Yue Wang

comment:2 by Eric Pettersen, 10 hours ago

Resolution:	→ duplicate
Status:	assigned → closed

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