Opened 12 months ago

Closed 10 months ago

#16518 closed defect (fixed)

Session save: '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file)

Reported by: chimerax-bug-report@… Owned by: Zach Pearson
Priority: high Milestone: 1.10
Component: Build System Version:
Keywords: Cc: chimera-programmers
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description 

The following bug report has been submitted:
Platform:        macOS-15.1.1-arm64-arm-64bit-Mach-O
ChimeraX Version: 1.10.dev202412210559 (2024-12-21 05:59:26 UTC)
Description
Replace this text with list of actions that caused this problem to occur

Log:
Startup Messages  
---  
warning | QCoreApplication::postEvent: Unexpected null receiver  
notes | available bundle cache has not been initialized yet  
/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/map/volume.py:3894: SyntaxWarning: invalid escape sequence
'\\*'  
'''  
  
UCSF ChimeraX version: 1.10.dev202412210559 (2024-12-21)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> ui tool show AlphaFold

> open
> /Users/eunsookpark/Downloads/ChimeraX/AlphaFold/prediction_7/best_model.pdb
> format pdb

Chain information for best_model.pdb #1  
---  
Chain | Description  
A | No description available  
B | No description available  
  
Computing secondary structure  

> close

/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/grako/codegen/objectmodel.py:20: SyntaxWarning: invalid escape
sequence '\d'  
NODE_NAME_PATTERN = '(?!\d)\w+(' + BASE_CLASS_TOKEN + '(?!\d)\w+)*'  
[Repeated 1 time(s)]

> alphafold predict
> MTSTQNLGNSLMRVFSKEATRKYYLDLFKRADFTANLPKLAKKGGPDRLNDALKKLRKAGISEEKFAELKGAAAKYADDWYRIYGKLDPIRA,MAASLQFTATPLNQLQFHSKALPKHAAKWGTIRCSAASPTKSYNITLLPGDGIGPEVISVAKNALQLVASLEGFNIGFKEMHVGGAALDAVGVPLPDETLNSAKKSDAILLGAIGGYKWDNNERHLRPEMALLHLRGALKVFANLRPATVLPQLVDASTLKKEIAEGVDLMVVRELTGGIYFGEPRGINTSENGQEIGFNTEVYAAYEIERIARIAFETARKRRGKLCSVDKANVLEASMLWRKKVTTLASEYPDVELSHMYVDNAAMQLVRNPKQFDTILTNNIFGDILSDEASMITGSIGMLPSASLGETGPGLFEPIHGSAPDIAGQDKANPLATVLSAAMLLKYGLGEEKAAQRIEAAVLDTLNRGFRTGDIHSAGHKLVGCKKMGEEVLKSIDSKTPAAV

Please cite ColabFold: Making protein folding accessible to all. Nature
Methods (2022) if you use these predictions.  
Running AlphaFold prediction  

> color /B light blue

[Repeated 3 time(s)]Running AlphaFold prediction  
AlphaFold prediction finished  
Results in /Users/eunsookpark/Downloads/ChimeraX/AlphaFold/prediction_10  

> open
> /Users/eunsookpark/Downloads/ChimeraX/AlphaFold/prediction_10/best_model.pdb

Chain information for best_model.pdb #1  
---  
Chain | Description  
A | No description available  
B | No description available  
  
Computing secondary structure  
Collection has bfactors  

> alphafold predict
> MTSTQNLGNSLMRVFSKEATRKYYLDLFKRADFTANLPKLAKKGGPDRLNDALKKLRKAGISEEKFAELKGAAAKYADDWYRIYGKLDPIRA,MGGGYWRRSSSLVVLAIVLFGCLSALSIATEEANKLGTVIGIDLGTTYSCVGVYKNGHVEIIANDQGNRITPSWVGFTDGERLIGEAAKNQAAVNPERTIFDVKRLIGRKFEDKEVQRDMKLVPYKIVNKDGKPYIQVKIKDGEVKVFSPEEISAMILIKMKETAEAFLGKKIKDAVVTVPAYFNDAQRQATKDAGVIAGLNVARIINEPTAAAIAYGLDKKGGEKNILVFDLGGGTFDVSVLTIDNGVFEVLSTNGDTHLGGEDFDQRIMEYFIKLIKKKHGKDISKDNRALGKLRREAERAKRALSSQHQVRVEIESLFDGTDFSEPLTRARFEELNNDLFRKTMGPVKKAMDDAGLEKNQIDEIVLVGGSTRIPKVQQLLKDYFEGKEPNKGVNPDEAVAYGAAVQGGILSGEGGDETKDILLLDVAPLTLGIETVGGVMTKLIPRNTVIPTKKSQVFTTYQDQQTTVTISVYEGERSLTKDCRLLGNFDLTGIPPAPRGTPQIEVTFEVDANGILNVKAEDKGTGKSEKITITNDKGRLSQEEIERMVREAEEFAEEDKKVKDRIDARNGLETYVYNMKNQINDKDKLADKLESDEKEKIDTAVKEALEWLDDNQSAEKEDYEEKLKEVEAICNPIITAVYQRSGGAPSGSSAEEEDGHDEL

Running AlphaFold prediction  

> set bgColor white

> save "/Users/eunsookpark/The Park lab Dropbox/The Park lab/Results from lab
> members/Eunsook Park/protein structure modeling/AvrVnt1
> interactors/Nb01g01788.cxs"

Traceback (most recent call last):  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/tool.py", line 170, in callback  
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)  
~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/toolshed/info.py", line 397, in run_provider  
return api._api_caller.run_provider(api, session, name, mgr, **kw)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/toolshed/__init__.py", line 1419, in run_provider  
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/__init__.py", line 37, in run_provider  
providers.run_provider(session, name)  
~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/providers.py", line 56, in run_provider  
what(session)  
~~~~^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/providers.py", line 38, in _file_save  
show_save_file_dialog(session)  
~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/dialog.py", line 138, in show_save_file_dialog  
_dlg.display(session, **kw)  
~~~~~~~~~~~~^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/dialog.py", line 62, in display  
run(session, cmd)  
~~~^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/run.py", line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/cmd.py", line 86, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/cmd.py", line 101, in provider_save  
saver_info.save(session, path, **provider_kw)  
~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core_formats/__init__.py", line 95, in save  
return cxs_save(session, path, **kw)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/session.py", line 1047, in save  
output = open_func(path)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/session.py", line 1040, in lz4_open  
import lz4.frame  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/__init__.py", line 14, in <module>  
from ._version import ( # noqa: F401  
...<2 lines>...  
)  
ImportError:
dlopen(/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so, 0x0002): Library not loaded:
/opt/homebrew/opt/lz4/lib/liblz4.1.dylib  
Referenced from: <A1808AE5-8C2B-3541-B310-F7454554B07B>
/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so  
Reason: tried: '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file),
'/System/Volumes/Preboot/Cryptexes/OS/opt/homebrew/opt/lz4/lib/liblz4.1.dylib'
(no such file), '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file)  
  
ImportError:
dlopen(/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so, 0x0002): Library not loaded:
/opt/homebrew/opt/lz4/lib/liblz4.1.dylib  
Referenced from:
/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so  
Reason: tried: '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file),
'/System/Volumes/Preboot/Cryptexes/OS/opt/homebrew/opt/lz4/lib/liblz4.1.dylib'
(no such file), '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file)  
  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/__init__.py", line 14, in  
from ._version import ( # noqa: F401  
...<2 lines>...  
)  
  
See log for complete Python traceback.  
  

> save "/Users/eunsookpark/The Park lab Dropbox/The Park lab/Results from lab
> members/Eunsook Park/protein structure modeling/AvrVnt1
> interactors/Nb01g01788.cxs"

Traceback (most recent call last):  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/tool.py", line 170, in callback  
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)  
~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/toolshed/info.py", line 397, in run_provider  
return api._api_caller.run_provider(api, session, name, mgr, **kw)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/toolshed/__init__.py", line 1419, in run_provider  
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/__init__.py", line 37, in run_provider  
providers.run_provider(session, name)  
~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/providers.py", line 56, in run_provider  
what(session)  
~~~~^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/providers.py", line 38, in _file_save  
show_save_file_dialog(session)  
~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/dialog.py", line 138, in show_save_file_dialog  
_dlg.display(session, **kw)  
~~~~~~~~~~~~^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/dialog.py", line 62, in display  
run(session, cmd)  
~~~^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/run.py", line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/cmd.py", line 86, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/cmd.py", line 101, in provider_save  
saver_info.save(session, path, **provider_kw)  
~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core_formats/__init__.py", line 95, in save  
return cxs_save(session, path, **kw)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/session.py", line 1047, in save  
output = open_func(path)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/session.py", line 1040, in lz4_open  
import lz4.frame  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/__init__.py", line 14, in <module>  
from ._version import ( # noqa: F401  
...<2 lines>...  
)  
ImportError:
dlopen(/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so, 0x0002): Library not loaded:
/opt/homebrew/opt/lz4/lib/liblz4.1.dylib  
Referenced from: <A1808AE5-8C2B-3541-B310-F7454554B07B>
/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so  
Reason: tried: '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file),
'/System/Volumes/Preboot/Cryptexes/OS/opt/homebrew/opt/lz4/lib/liblz4.1.dylib'
(no such file), '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file)  
  
ImportError:
dlopen(/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so, 0x0002): Library not loaded:
/opt/homebrew/opt/lz4/lib/liblz4.1.dylib  
Referenced from:
/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so  
Reason: tried: '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file),
'/System/Volumes/Preboot/Cryptexes/OS/opt/homebrew/opt/lz4/lib/liblz4.1.dylib'
(no such file), '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file)  
  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/__init__.py", line 14, in  
from ._version import ( # noqa: F401  
...<2 lines>...  
)  
  
See log for complete Python traceback.  
  

> save "/Users/eunsookpark/The Park lab Dropbox/The Park lab/Results from lab
> members/Eunsook Park/protein structure modeling/AvrVnt1
> interactors/Nb1g01788.cxs"

Traceback (most recent call last):  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/tool.py", line 170, in callback  
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)  
~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/toolshed/info.py", line 397, in run_provider  
return api._api_caller.run_provider(api, session, name, mgr, **kw)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/toolshed/__init__.py", line 1419, in run_provider  
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/__init__.py", line 37, in run_provider  
providers.run_provider(session, name)  
~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/providers.py", line 56, in run_provider  
what(session)  
~~~~^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/providers.py", line 38, in _file_save  
show_save_file_dialog(session)  
~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/dialog.py", line 138, in show_save_file_dialog  
_dlg.display(session, **kw)  
~~~~~~~~~~~~^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/dialog.py", line 62, in display  
run(session, cmd)  
~~~^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/run.py", line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/cmd.py", line 86, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/cmd.py", line 101, in provider_save  
saver_info.save(session, path, **provider_kw)  
~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core_formats/__init__.py", line 95, in save  
return cxs_save(session, path, **kw)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/session.py", line 1047, in save  
output = open_func(path)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/session.py", line 1040, in lz4_open  
import lz4.frame  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/__init__.py", line 14, in <module>  
from ._version import ( # noqa: F401  
...<2 lines>...  
)  
ImportError:
dlopen(/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so, 0x0002): Library not loaded:
/opt/homebrew/opt/lz4/lib/liblz4.1.dylib  
Referenced from: <A1808AE5-8C2B-3541-B310-F7454554B07B>
/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so  
Reason: tried: '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file),
'/System/Volumes/Preboot/Cryptexes/OS/opt/homebrew/opt/lz4/lib/liblz4.1.dylib'
(no such file), '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file)  
  
ImportError:
dlopen(/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so, 0x0002): Library not loaded:
/opt/homebrew/opt/lz4/lib/liblz4.1.dylib  
Referenced from:
/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so  
Reason: tried: '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file),
'/System/Volumes/Preboot/Cryptexes/OS/opt/homebrew/opt/lz4/lib/liblz4.1.dylib'
(no such file), '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file)  
  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/__init__.py", line 14, in  
from ._version import ( # noqa: F401  
...<2 lines>...  
)  
  
See log for complete Python traceback.  
  

> save "/Users/eunsookpark/Desktop/AvrVnt1 interactor/Nb01g01788.cxs"

Traceback (most recent call last):  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/tool.py", line 170, in callback  
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)  
~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/toolshed/info.py", line 397, in run_provider  
return api._api_caller.run_provider(api, session, name, mgr, **kw)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/toolshed/__init__.py", line 1419, in run_provider  
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/__init__.py", line 37, in run_provider  
providers.run_provider(session, name)  
~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/providers.py", line 56, in run_provider  
what(session)  
~~~~^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/toolbar/providers.py", line 38, in _file_save  
show_save_file_dialog(session)  
~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/dialog.py", line 138, in show_save_file_dialog  
_dlg.display(session, **kw)  
~~~~~~~~~~~~^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/dialog.py", line 62, in display  
run(session, cmd)  
~~~^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/run.py", line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/cmd.py", line 86, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/commands/cli.py", line 3213, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/save_command/cmd.py", line 101, in provider_save  
saver_info.save(session, path, **provider_kw)  
~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core_formats/__init__.py", line 95, in save  
return cxs_save(session, path, **kw)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/session.py", line 1047, in save  
output = open_func(path)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/chimerax/core/session.py", line 1040, in lz4_open  
import lz4.frame  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/__init__.py", line 14, in <module>  
from ._version import ( # noqa: F401  
...<2 lines>...  
)  
ImportError:
dlopen(/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so, 0x0002): Library not loaded:
/opt/homebrew/opt/lz4/lib/liblz4.1.dylib  
Referenced from: <A1808AE5-8C2B-3541-B310-F7454554B07B>
/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so  
Reason: tried: '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file),
'/System/Volumes/Preboot/Cryptexes/OS/opt/homebrew/opt/lz4/lib/liblz4.1.dylib'
(no such file), '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file)  
  
ImportError:
dlopen(/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so, 0x0002): Library not loaded:
/opt/homebrew/opt/lz4/lib/liblz4.1.dylib  
Referenced from:
/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/_version.cpython-313-darwin.so  
Reason: tried: '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file),
'/System/Volumes/Preboot/Cryptexes/OS/opt/homebrew/opt/lz4/lib/liblz4.1.dylib'
(no such file), '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file)  
  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.13/lib/python3.13/site-
packages/lz4/__init__.py", line 14, in  
from ._version import ( # noqa: F401  
...<2 lines>...  
)  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 Metal - 89.3
OpenGL renderer: Apple M3 Max
OpenGL vendor: Apple

Python: 3.13.1
Locale: UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Pro
      Model Identifier: Mac15,9
      Model Number: Z1CM000M9LL/A
      Chip: Apple M3 Max
      Total Number of Cores: 16 (12 performance and 4 efficiency)
      Memory: 128 GB
      System Firmware Version: 11881.41.5
      OS Loader Version: 11881.41.5

Software:

    System Software Overview:

      System Version: macOS 15.1.1 (24B91)
      Kernel Version: Darwin 24.1.0
      Time since boot: 18 days, 9 hours, 22 minutes

Graphics/Displays:

    Apple M3 Max:

      Chipset Model: Apple M3 Max
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 40
      Vendor: Apple (0x106b)
      Metal Support: Metal 3
      Displays:
        Color LCD:
          Display Type: Built-in Liquid Retina XDR Display
          Resolution: 3456 x 2234 Retina
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal


Installed Packages:
    alabaster: 1.0.0
    anyio: 4.7.0
    appdirs: 1.4.4
    appnope: 0.1.4
    asttokens: 3.0.0
    auditwheel: 6.1.0
    babel: 2.16.0
    beautifulsoup4: 4.12.3
    blockdiag: 3.0.0
    blosc2: 3.0.0
    build: 1.2.1
    certifi: 2024.12.14
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.0
    ChimeraX-AddCharge: 1.5.18
    ChimeraX-AddH: 2.2.6
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.5
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.16.2
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.59
    ChimeraX-AtomicLibrary: 14.1.11
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 3.0.0
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.2
    ChimeraX-BuildStructure: 2.13.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.4.0
    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: 2.3
    ChimeraX-ColorActions: 1.0.5
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.8
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.10.dev202412210559
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.4
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2.7
    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: 1.4.1
    ChimeraX-Hbonds: 2.5
    ChimeraX-Help: 1.3
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.3
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-KVFinder: 1.5.1
    ChimeraX-Label: 1.1.14
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.3
    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: 2.1.6
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.7.2
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.14.2
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.18
    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-MutationScores: 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: 1.14
    ChimeraX-OrthoPick: 1.0.1
    ChimeraX-PDB: 2.7.7
    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: 1.1.2
    ChimeraX-ProfileGrids: 1.0
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.2
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.3.1
    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: 3.5.7
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.15
    ChimeraX-Shape: 1.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.2.0
    ChimeraX-ShowSequences: 1.0.3
    ChimeraX-SideView: 1.0.1
    ChimeraX-SimilarStructures: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.19.1
    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: 2.5.1
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.2.3
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.42.2
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.4.4
    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
    contourpy: 1.3.1
    coverage: 7.6.9
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.0.10
    debugpy: 1.8.11
    decorator: 5.1.1
    docutils: 0.21.2
    executing: 2.1.0
    filelock: 3.15.4
    fonttools: 4.55.3
    funcparserlib: 2.0.0a0
    glfw: 2.8.0
    grako: 3.16.5
    h11: 0.14.0
    h5py: 3.12.1
    html2text: 2024.2.26
    httpcore: 1.0.7
    httpx: 0.28.1
    idna: 3.10
    ihm: 1.3
    imagecodecs: 2024.9.22
    imagesize: 1.4.1
    iniconfig: 2.0.0
    ipykernel: 6.29.5
    ipython: 8.26.0
    ipywidgets: 8.1.5
    jedi: 0.19.1
    Jinja2: 3.1.4
    jupyter_client: 8.6.2
    jupyter_core: 5.7.2
    jupyterlab_widgets: 3.0.13
    kiwisolver: 1.4.7
    line_profiler: 4.1.3
    lxml: 5.3.0
    lz4: 4.3.3
    MarkupSafe: 3.0.2
    matplotlib: 3.9.2
    matplotlib-inline: 0.1.7
    msgpack: 1.0.8
    ndindex: 1.9.2
    nest-asyncio: 1.6.0
    netCDF4: 1.7.2
    networkx: 3.3
    nibabel: 5.2.0
    numexpr: 2.10.2
    numpy: 2.2.0
    OpenMM: 8.2.0
    openvr: 1.26.701
    packaging: 23.2
    ParmEd: 4.2.2
    parso: 0.8.4
    pep517: 0.13.1
    pexpect: 4.9.0
    pillow: 10.4.0
    pip: 24.2
    pkginfo: 1.11.1
    platformdirs: 4.3.6
    pluggy: 1.5.0
    prompt_toolkit: 3.0.48
    psutil: 6.0.0
    ptyprocess: 0.7.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    pyelftools: 0.31
    Pygments: 2.18.0
    pynmrstar: 3.3.4
    pynrrd: 1.1.1
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.3401
    pyparsing: 3.2.0
    pyproject_hooks: 1.2.0
    PyQt6-commercial: 6.7.1
    PyQt6-Qt6: 6.7.3
    PyQt6-WebEngine-commercial: 6.7.0
    PyQt6-WebEngine-Qt6: 6.7.3
    PyQt6-WebEngineSubwheel-Qt6: 6.7.3
    PyQt6_sip: 13.8.0
    pytest: 8.3.4
    pytest-cov: 6.0.0
    python-dateutil: 2.9.0.post0
    pytz: 2024.2
    pyzmq: 26.2.0
    qtconsole: 5.5.2
    QtPy: 2.4.2
    qtshim: 1.1
    RandomWords: 0.4.0
    requests: 2.32.3
    scipy: 1.14.1
    setuptools: 72.1.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    sniffio: 1.3.1
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.6
    Sphinx: 8.0.2
    sphinx-autodoc-typehints: 2.2.3
    sphinxcontrib-applehelp: 2.0.0
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 2.0.0
    sphinxcontrib-htmlhelp: 2.1.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 2.0.0
    sphinxcontrib-serializinghtml: 2.0.0
    stack-data: 0.6.3
    superqt: 0.6.3
    tables: 3.10.1
    tcia_utils: 1.5.1
    tifffile: 2024.7.24
    tinyarray: 1.2.4
    tornado: 6.4.2
    traitlets: 5.14.3
    typing_extensions: 4.12.2
    tzdata: 2024.2
    urllib3: 2.2.3
    wcwidth: 0.2.13
    webcolors: 24.6.0
    wheel: 0.43.0
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.13

Change History (2)

comment:1 by Eric Pettersen, 12 months ago

Cc: chimera-programmers added
Component: Unassigned → Build System
Milestone: → 1.10
Owner: set to Zach Pearson
Platform: → all
Priority: normal → high
Project: → ChimeraX
Status: new → assigned
Summary: ChimeraX bug report submission → Session save: '/opt/homebrew/opt/lz4/lib/liblz4.1.dylib' (no such file)

comment:2 by Zach Pearson, 10 months ago

Resolution: → fixed
Status: assigned → closed

This was caused by using a hand-rolled lz4 wheel before a Mac ARM wheel was available. New releases of lz4 have a Mac ARM wheel. I've updated the version we use to one of those releases, so this ticket is moot.

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