Arvind,

Hi.  On what platform are you running?  Linux? 

Did you follow the special installation instructions, involving making the symbolic links?  Lastly, are the tools in your path?

If you are feeling brave, an alternative to installing the binaries is to compile the MNI package from source on your platform, and install those binaries.  Instructions to do this are here:

ftp://surfer.nmr.mgh.harvard.edu/pub/dist/mni.srcbuild.README

and the gzip file is here:

ftp://surfer.nmr.mgh.harvard.edu/pub/dist/mni.srcbuild.tar.gz


Nick



On Fri, 2005-06-10 at 12:20 -0500, Arvind Gururajan wrote: 
Hi,

I downloaded the entire MNI package. Although I see all these MNI files, I
still get the same error, file not found. Any clues why this might be? 


Thanks,

Arvind Gururajan
 
On 9 Jun 2005, Bruce Fischl wrote:
> just download and install the whole MNI package. Much easier than trying 
> to install various pieces....
> 
> On Thu, 9 Jun 2005, Arvind Gururajan wrote:
> 
> > Hello,
> >
> > I am very new to Freesurfer. Could anybody please tell me which
specific
> > MNI tool, I need to install?
> >
> >
> >>
> >> I tried the following command.
> >>
> >> ./recon-all -smooth1 ZM
> >> ########################################
> >> program versions used
> >> $Id: recon-all-nmr,v 1.37 2004/01/06 22:21:48 tosa Exp $
> >> $Id: mri_motion_correct2,v 1.7 2004/01/16 20:25:10 tosa Exp $fire
> >> mri_convert --version
> >> $
> >> strings: rawtominc:: No such file or directory
> >> strings: Command: No such file or directory
> >> strings: not: No such file or directory
> >> strings: found.: No such file or directory
> >> strings: minctracc:: No such file or directory
> >> strings: Command: No such file or directory
> >> strings: not: No such file or directory
> >> strings: found.: No such file or directory
> >> strings: mincresample:: No such file or directory
> >> strings: Command: No such file or directory
> >> strings: not: No such file or directory
> >> strings: found.: No such file or directory
> >> strings: mincaverage:: No such file or directory
> >> strings: Command: No such file or directory
> >> strings: not: No such file or directory
> >> strings: found.: No such file or directory
> >> $Id: talairach2,v 1.5 2003/08/28 21:45:48 tosa Exp $
> >> mri_convert --version
> >> $
> >> strings: mritotal:: No such file or directory
> >> strings: Command: No such file or directory
> >> strings: not: No such file or directory
> >> strings: found.: No such file or directory
> >> strings: nu_correct:: No such file or directory
> >> strings: Command: No such file or directory
> >> strings: not: No such file or directory
> >> strings: found.: No such file or directory
> >> $
> >> $
> >> $
> >> $
> >> $
> >> $
> >> $
> >> $
> >> $
> >> $
> >> $
> >> $
> >> $
> >> $
> >> $
> >> $
> >> #######################################
> >> ERROR: Flag ZM unrecognized.
> >> -smooth1 ZM
> >>
> >>
> >> The folder ZM has only one orig file in the surf directory. There are
no
> >> raw data(.COR files). Please let me know your feedback.
> >>
> >> Sincerely,
> >>
> >> Arvind Gururajan
> >
> > _______________________________________________
> > Freesurfer mailing list
> > Freesurfer@nmr.mgh.harvard.edu
> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
> >
> _______________________________________________
> Freesurfer mailing list
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> 


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