Changes between Initial Version and Version 1 of Ticket #18085, comment 3


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Timestamp:
Jul 25, 2025, 12:20:14 PM (4 months ago)
Author:
Tom Goddard

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  • Ticket #18085, comment 3

    initial v1  
    1 {{{
     1
    22Thank you very much for your input. I'll give this a try.
    33
    … …  
    55
    66Anthony
    7 
    8 
    9 
    10 
    11 
    12 ________________________________
    13 From: ChimeraX <ChimeraX-bugs-admin@cgl.ucsf.edu>
    14 Sent: Thursday, June 26, 2025 5:03 PM
    15 To: goddard@cgl.ucsf.edu <goddard@cgl.ucsf.edu>; Anthony Gizzi <anthony@clasptx.com>
    16 Subject: Re: [ChimeraX] #18085: Boltz subprocess: Access is denied
    17 
    18 #18085: Boltz subprocess: Access is denied
    19 -------------------------------------------+-------------------------
    20           Reporter:  anthony@…             |      Owner:  Tom Goddard
    21               Type:  defect                |     Status:  assigned
    22           Priority:  normal                |  Milestone:
    23          Component:  Structure Prediction  |    Version:
    24         Resolution:                        |   Keywords:
    25         Blocked By:                        |   Blocking:
    26 Notify when closed:                        |   Platform:  all
    27            Project:  ChimeraX              |
    28 -------------------------------------------+-------------------------
    29 Comment (by Tom Goddard):
    30 
    31  This "Access is denied" error from Windows is happening when ChimeraX
    32  tries to run Boltz as a subprocess.  ChimeraX tries to create the Boltz
    33  input file in a new folder it makes ~/Desktop/boltz_<prediction_name>.
    34  Was that folder created?  I see in the log a reference to OneDrive, the
    35  Microsoft cloud desktop which replaces your local ~/Desktop folder.  My
    36  guess is that is the problem.  ChimeraX tries to start Boltz in that newly
    37  created folder ~/Desktop/boltz_<prediction_name> but probably OneDrive has
    38  either hidden the local Desktop or made it unusable and that causes the
    39  "Access is denied".
    40 
    41  If my theory is right you should press the Options button on the ChimeraX
    42  Boltz tool and enter a new Results Directory that is not in ~/Desktop.
    43  Alternatively you could turn off OneDrive so the local ~/Desktop location
    44  works.
    45 
    46 
    47  File "C:\Program Files\ChimeraX 1.10rc202506130232\bin\Lib\subprocess.py",
    48  line 1538, in _execute_child
    49  hp, ht, pid, tid = _winapi.CreateProcess(executable, args,
    50  ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
    51  PermissionError: [WinError 5] Access is denied
    52 --
    53 Ticket URL: <https://nam12.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Ftrac%2FChimeraX%2Fticket%2F18085%23comment%3A2&data=05%7C02%7Canthony%40clasptx.com%7Cdaaddde924ca41c8371b08ddb4f4dba4%7C31d1ddeea3bc47f19a1b8df73db99011%7C0%7C0%7C638865686007535513%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=1lrnGLczE%2B7ku%2BBnKftXt6XsF5apco1vcUgU%2Bjmevqs%3D&reserved=0<https://www.rbvi.ucsf.edu/trac/ChimeraX/ticket/18085#comment:2>>
    54 ChimeraX <https://nam12.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rbvi.ucsf.edu%2Fchimerax%2F&data=05%7C02%7Canthony%40clasptx.com%7Cdaaddde924ca41c8371b08ddb4f4dba4%7C31d1ddeea3bc47f19a1b8df73db99011%7C0%7C0%7C638865686007560016%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=6rmg5Khs80J%2BXg0vl4%2Ff4Af4uycaDmbxC294l5ymnWI%3D&reserved=0<https://www.rbvi.ucsf.edu/chimerax/>>
    55 ChimeraX Issue Tracker
    56 }}}