boltz predict: FileNotFoundError

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.26100
ChimeraX Version: 1.10.1 (2025-07-24 20:15:27 UTC)
Description
Replace this text with list of actions that caused this problem to occur

Log:
UCSF ChimeraX version: 1.10.1 (2025-07-24)  
© 2016-2025 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> ui tool show Boltz

> boltz predict protein RRGYWYWRR

Running Boltz prediction of protein with 9 residues on gpu  
Using multiple sequence alignment server https://api.colabfold.com  
Traceback (most recent call last):  
File "D:\ChimeraX 1.10.1\bin\Lib\site-packages\chimerax\boltz\boltz_gui.py",
line 511, in _predict  
self._run_prediction(options = ' '.join(options))  
File "D:\ChimeraX 1.10.1\bin\Lib\site-packages\chimerax\boltz\boltz_gui.py",
line 528, in _run_prediction  
br = run(self.session, cmd)  
^^^^^^^^^^^^^^^^^^^^^^  
File "D:\ChimeraX 1.10.1\bin\Lib\site-packages\chimerax\core\commands\run.py",
line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "D:\ChimeraX 1.10.1\bin\Lib\site-packages\chimerax\core\commands\cli.py",
line 3221, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "D:\ChimeraX 1.10.1\bin\Lib\site-packages\chimerax\boltz\predict.py",
line 63, in boltz_predict  
br.start(results_directory)  
File "D:\ChimeraX 1.10.1\bin\Lib\site-packages\chimerax\boltz\predict.py",
line 217, in start  
self._run_boltz_local()  
File "D:\ChimeraX 1.10.1\bin\Lib\site-packages\chimerax\boltz\predict.py",
line 373, in _run_boltz_local  
p = Popen(command, cwd = self._results_directory,  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "D:\ChimeraX 1.10.1\bin\Lib\subprocess.py", line 1026, in __init__  
self._execute_child(args, executable, preexec_fn, close_fds,  
File "D:\ChimeraX 1.10.1\bin\Lib\subprocess.py", line 1538, in _execute_child  
hp, ht, pid, tid = _winapi.CreateProcess(executable, args,  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
FileNotFoundError: [WinError 2] 系统找不到指定的文件。  
  
FileNotFoundError: [WinError 2] 系统找不到指定的文件。  
  
File "D:\ChimeraX 1.10.1\bin\Lib\subprocess.py", line 1538, in _execute_child  
hp, ht, pid, tid = _winapi.CreateProcess(executable, args,  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 472.19
OpenGL renderer: NVIDIA GeForce RTX 2060/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.11.4
Locale: zh_CN.cp936
Qt version: PyQt6 6.8.1, Qt 6.8.2
Qt runtime version: 6.8.2
Qt platform: windows

Manufacturer: LENOVO
Model: 82GR
OS: Microsoft Windows 11 家庭中文版 (Build 26100)
Memory: 16,505,966,592
MaxProcessMemory: 137,438,953,344
CPU: 16 AMD Ryzen 7 4800H with Radeon Graphics         
OSLanguage: zh-CN

Installed Packages:
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    appdirs: 1.4.4
    asttokens: 3.0.0
    babel: 2.17.0
    beautifulsoup4: 4.13.3
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    ChimeraX-AddCharge: 1.5.19
    ChimeraX-AddH: 2.2.7
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.6.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.20.2
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    ChimeraX-Boltz: 1.0
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[Tom Goddard]

Appears that ChimeraX tried to start a boltz subprocess but the boltz executable was missing. ChimeraX checks if the boltz installation directory exists and gives an error message saying you have to install it. But it doesn't check if the executable is present. My guess is the installation failed. The directory exists but not the executable. The solution would be to delete the directory and reinstall. I think the reported error is rare because the installation would have failed and given an error so the user would know there was a problem before they tried to run a prediction.

I could add a check for the executable and explain that the installation probably failed and to delete the boltz directory. I'll wait to see if anyone else reports this.

[Tom Goddard]

Another possibility is that the user specified an existing directory for the boltz installation location and that directory does not actually contain boltz.