Hi Alex,
That command just downloads the fs_install_mcr script into your freesurfer
directory. These are two separate steps. Once downloaded, you can run
fs_install_mcr R2012b
as you would normally.
best
Andrew
From: <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of "Lab of Autism and
Developmental Neuroscience, Lab of Autism and Developmental Neuroscience"
<l...@email.gwu.edu>
Reply-To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Date: Sunday, May 10, 2020 at 4:58 PM
To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Downloading Matlab runtime - ubuntu
External Email - Use Caution
Thank you Tim!
Also I was wondering, how should I specify the version (i.e. R2012b) of matlab
in the code - "cd $FREESURFER_HOME/bin && curl
https://raw.githubusercontent.com/freesurfer/freesurfer/dev/scripts/fs_install_mcr
-o fs_install_mcr && chmod +x fs_install_mcr" ?
All the best,
Alex
On Sun, May 10, 2020 at 5:42 AM Tim Schäfer
<ts...@rcmd.org<mailto:ts%2...@rcmd.org>> wrote:
External Email - Use Caution
You do not have write permission to $FREESURFER_HOME, which is
/usr/local/freesurfer/ in your case, it seems. There are 2 options:
1) run the command again but put 'sudo ' in front. This should give you
permission to write to that location.
2) install FreeSurfer into your user directory, where you have write access.
I would recommend option 1) if you have sudo access, especially if several
users should be able to use the FreeSurfer installation.
Best,
Tim
> On May 10, 2020 at 8:02 AM "Lab of Autism and Developmental Neuroscience, Lab
> of Autism and Developmental Neuroscience"
> <l...@email.gwu.edu<mailto:l...@email.gwu.edu>> wrote:
>
>
> External Email - Use Caution
>
> Dear Freesurfer experts,
>
> I'm trying to download runtime for ubuntu using the instructions on the
> website and I'm struggling to resolve this error (seen below). Any ideas on
> how to fix this? Thank you and hope everyone is safe!
>
> cd $FREESURFER_HOME/bin && curl
> https://raw.githubusercontent.com/freesurfer/freesurfer/dev/scripts/fs_install_mcr
> -o
> fs_install_mcr && chmod +x fs_install_mcr
> % Total % Received % Xferd Average Speed Time Time Time
> Current
> Dload Upload Total Spent Left
> Speed
> 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:--
> 0Warning: Failed to create the file fs_install_mcr: Permission denied
> 68 1988 68 1371 0 0 4436 0 --:--:-- --:--:-- --:--:--
> 4422
> curl: (23) Failed writing body (0 != 1371)
> alex@ubu19:/usr/local/freesurfer/bin$ fs_install_mcr R2012b
> % Total % Received % Xferd Average Speed Time Time Time
> Current
> Dload Upload Total Spent Left
> Speed
> 100 177 100 177 0 0 77 0 0:00:02 0:00:02 --:--:--
> 77
> Archive: installer.zip
> End-of-central-directory signature not found. Either this file is not
> a zipfile, or it constitutes one disk of a multi-part archive. In the
> latter case the central directory and zipfile comment will be found on
> the last disk(s) of this archive.
> unzip: cannot find zipfile directory in one of installer.zip or
> installer.zip.zip, and cannot find installer.zip.ZIP, period.
>
> Thank you,
> Alex Job Said
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu>
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--
Tim Schäfer
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