Re: [Freesurfer] MRISalloc error during automatic reconstruction

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Hi Bruce,

I created a link with the Martinos File Drop System, because ftp upload did not work. It's probably the best idea to send the links to your personal mail address?

Best Julia

-----Ursprüngliche Nachricht----- Von: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] Im Auftrag von Bruce Fischl Gesendet: Montag, 18. Februar 2019 15:52 An: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Betreff: Re: [Freesurfer] MRISalloc error during automatic reconstruction

Hi Julia

why don't you tar and gzip the subject directory and put it on our ftp site so we can take a look

cheers Bruce On Mon, 18 Feb 2019, Julia Ströhlein wrote:

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Hi Bruce, thanks for the advice. I ran the subject again with 4.5G, but it ended with the same error. It only happens with this subject, the stream worked fine for all the other subjects. However, I tried running the subject with my Macbook, and it also ended with an error (see the recon-all.log attached). I think it has something to do with the MRI of the subject. Do you have any ideas? Thanks for any help. Best, Julia

-----Ursprüngliche Nachricht----- Von: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] Im Auftrag von Bruce Fischl Gesendet: Mittwoch, 13. Februar 2019 15:58 An: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Betreff: Re: [Freesurfer] MRISalloc error during automatic reconstruction

Hi Julia

I think you only have about 1.5G free memory at the beinning of running recon-all, which is not enough for this subject. It looks like some other process is using another 2G, which might be enough if you can free it up. In general though you probably want a machine with more ram

cheers Bruce

On Wed, 13 Feb 2019, Julia Ströhlein wrote:

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Hi, of course.

Julia

-----Ursprüngliche Nachricht----- Von: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] Im Auftrag von Bruce Fischl Gesendet: Dienstag, 12. Februar 2019 16:12 An: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Betreff: Re: [Freesurfer] MRISalloc error during automatic reconstruction

Hi Julia

can you send us the recon-all.log file?

cheers Bruce On Tue, 12 Feb 2019, Julia Ströhlein wrote:

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Dear experts,

while running one of my subjects, I got this error:

MRISalloc(732595, 480): could not allocate vertices

Cannot allocate memory

Linux xubuntu-VirtualBox 3.2.0-23-generic #36-Ubuntu SMP Tue Apr 10

20:41:14 UTC 2012 i686 i686 i386 GNU/Linux

recon-all -s P_04 exited with ERRORS at Mon Feb  4 16:40:03 EST 2019

Do you know what went wrong and how I can fix this?

Best regards,

Julia

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