New subject: Issue with running recon-all

24 May 2023


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Hello
No, I can not load  /arc/project/3T/fsaverage/surf/lh.sphere.reg in freeview. I am encountering the "readFloat: fread failed" error.
Also I cant attach the log file because I encounter with this response:
Your email Is being held until the list moderator can review it for approval.
The reason it is being held:
    Message body is too big: 22531815 bytes with a limit of 10000 KB
Regards
Hengameh
________________________________
From: hmarzban@student.ubc.ca
Sent: Tuesday, May 23, 2023 2:07:10 PM
To: Freesurfer support list
Subject: Re: Issue with running recon-all
Sure. I have attached it.
No, I can not load  /arc/project/3T/fsaverage/surf/lh.sphere.reg in freeview. I am encountering the "readFloat: fread failed" error.
Regards
Hengameh
________________________________
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Fischl, Bruce R.,PHD BFISCHL@mgh.harvard.edu
Sent: Tuesday, May 23, 2023 1:49:41 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] Issue with running recon-all
[CAUTION: Non-UBC Email]
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Hmm, can you send us the recon-all.log file? Can you load  /arc/project/3T/fsaverage/surf/lh.sphere.reg in freeview? Maybe it was corrupted at some point?
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of hmarzban@student.ubc.ca
Sent: Tuesday, May 23, 2023 4:48 PM
To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Issue with running recon-all
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Hello Bruce,
Thank you for your response. I have verified the available disk space, and it appears that I have sufficient space. I am currently using freesurfer-darwin-macOS-dev.pkg, which was developed in March 2023.
It seems that the issue lies in the inability to generate just the BA.stats files, including rh.BA_exvivo.stats, rh.BA_exvivo.thresh.stats, and others.
Do you have any additional suggestions or recommendations?
Thank you once again for your assistance.
Best regards,
Hengameh
________________________________
From: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Fischl, Bruce R.,PHD <BFISCHL@mgh.harvard.edumailto:BFISCHL@mgh.harvard.edu>
Sent: Monday, May 15, 2023 10:21:58 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] Issue with running recon-all
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Hi Hengameh
By far the most common reason for this is running out of disk space.
Cheers
Bruce
From: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of hmarzban@student.ubc.camailto:hmarzban@student.ubc.ca
Sent: Monday, May 15, 2023 1:02 PM
To: freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] Issue with running recon-all
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Dear developers,
I am writing to report an issue I encountered while running recon-all on some subjects. Specifically, I received an error message stating "error: freadFloat: fread failed" for several of the subjects.
Starting surface-based mapping
Reading source registration
/arc/project/3T/fsaverage/surf/lh.sphere.reg
error: freadFloat: fread failed
error: freadFloat: fread failed
...
I am wondering if any of you have experienced this issue before, and if so, I would greatly appreciate any recommendations on how to proceed with resolving it.
Thank you for your help.
Hengameh