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== INSTALL file for FreeSurfer distribution ==
Send questions/comments to firstname.lastname@example.org.
FreeSurfer is copyright (c) CorTechs, 1999. All rights reserved.
FreeSurfer is being distributed with executables for
Linux/Intel, Darwin/Mac OS X, and SunOS. This is an alpha release and
has not been extensively tested. The software is offered "as is"
without any guarantees and should not be used for clinical
applications. See license.freesurfer for additional restrictions. See
docs/license.afni for restrictions on and citations for the use of the
AFNI software package and how to cite it. See docs/license.minc for
restrictions on and citations for the use of the MINC software
Note: These instructions are for installing a new distribution of
FreeSurfer. If you want to update an existing FreeSurfer distribution,
you should download the snapshot update version from:
Instructions for updating an existing installation are at FreeSurferUpdate.
== To use FreeSurfer ==
See $FREESURFER_HOME/docs/Free``Surfer``Manual.pdf to get started.
See also http://surfer.nmr.mgh.harvard.edu/docs/
See also `recon-all -help`
== Mac OS X Notes ==
1. You may need to use the OS X minc 1.2 available from the MNI website. There are bugs in it, but MNI has promised a fix soon.
2. You should use fink to install the additional libraries that FreeSurfer needs, such as `libtiff` and `libdl`. You can get fink from:
Once you've installed `fink`, there are two packages you'll need to install:
= FTP File Exchange =
Use `ftp surfer.nmr.mgh.harvard.edu`. Login as `anonymous` and password as `"email-address"`.
Connected to surfer.nmr.mgh.harvard.edu (184.108.40.206).
220 surfer.nmr.mgh.harvard.edu FTP server (Version wu-2.6.2-11.73.1) ready.
Name (surfer.nmr.mgh.harvard.edu:tosa): anonymous
331 Guest login ok, send your complete e-mail address as password.
230 Guest login ok, access restrictions apply.
Remote system type is UNIX.
Using binary mode to transfer files.
If you are getting files, then
ftp> cd transfer/outgoing
If you are putting files, then
ftp> cd transfer/incoming
Then go to a particular directory.
For those inside NMR center, go to `/space/outgoing` and put files in its subdirectory. You can get user transfered files from `/space/incoming`. It takes 5 minutes or so to actually see the files there after the transfer.