External Email - Use Caution
Hello Bram,
I just followed the guideline at FTPFileExchange, put them to transfer/incoming.
Files I put are: 001.mgz rawavg.mgz build-stamp.txt recon-all-status.log recon-all.cmd recon-all.env recon-all.error recon-all.local-copy recon-all.log error.log
I tried to create a folder, but of course I don't have permission. If you can open a folder named Batuhan, or something like that, I can put them there. Also, I tried and couldn't put my subject folder directly via Filezilla or the terminal.
Best, Batuhan
On Mon, Nov 26, 2018 at 10:23 PM Diamond, Bram Ryder < BRDIAMOND@mgh.harvard.edu> wrote:
Hi Batuhan,
I'm trying to access the files now. What is the name of the files/directory you uploaded? I'm not sure they transferred.
Thanks,
Bram
*Bram R. Diamond, BSc* Research Technician II Laboratory for Computational Neuroimaging Martinos Center for Biomedical Imaging Massachusetts General Hospital 149 13th Street Charlestown, MA 02129 (p): 617-726-6598
*From:* freesurfer-bounces@nmr.mgh.harvard.edu < freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Batuhan Erkat < o.batuhanerkat@gmail.com> *Sent:* Wednesday, November 21, 2018 12:01:53 PM *To:* freesurfer@nmr.mgh.harvard.edu *Cc:* batuhan.erkat@umram.bilkent.edu.tr; astevens@nmr.mgh.harvard.edu *Subject:* Re: [Freesurfer] Recon-all - mghRead could not read rawavg.mgz
External Email - Use CautionHi Bram,
I uploaded all the files, including my input image and recon-all scripts. As you can see, there are no errors for mri_convert, but there is for mghRead(). If you inspect the 001.mgz and rawavg.mgz files, you'll realize that they are corrupted and probably that's why mghRead fails to read rawavg.mgz.
Can you see the files, did I do the file transmission correctly?
Best, Batuhan
On Wed, Nov 21, 2018 at 7:32 PM Diamond, Bram Ryder < BRDIAMOND@mgh.harvard.edu> wrote:
Hi Batuhan,
Can you please upload the BE2 subject data using our ftp file exchange and let me know the exact command and terminal output when you ran mri_convert?
Info on our ftp file exchange: https://surfer.nmr.mgh.harvard.edu/fswiki/FtpFileExchange
Thanks, Bram
*Bram R. Diamond, BSc* Research Technician II Laboratory for Computational Neuroimaging Martinos Center for Biomedical Imaging Massachusetts General Hospital 149 13th Street Charlestown, MA 02129 (p): 617-726-6598
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MSc Candidate
Neuroscience Graduate Program National Magnetic Resonance Research Center (UMRAM) & Aysel Sabuncu Brain Research Center
Bilkent University Ankara, 06800 Turkey
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