You’re attempting to build the dev version of freesurfer, in which case you should follow the build instructions on this page - https://surfer.nmr.mgh.harvard.edu/fswiki/BuildGuide. If you’d like to build freesurfer 6, you’ll have to checkout the "stable6" git branch before running setup_configure.

Andrew

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of "Jennewein, Douglas M" <Doug.Jennewein@usd.edu>
Reply-To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Date: Friday, October 5, 2018 at 2:07 PM
To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Error running setup_configure

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We are attempting to build Freesurfer 6 on CentOS 7 x76_64.

After cloning the git repo we see the following when running ./setup_configure

configure.in:3866: the top level

Makefile.am: error: required file './NEWS' not found

Makefile.am: error: required file './AUTHORS' not found

Makefile.am: error: required file './ChangeLog' not found

automake: warning: autoconf input should be named 'configure.ac', not 'configure.in'

Makefile.am:27: error: required directory ./mri_warp_concat does not exist

The folder mri_warp_concat/ does not exist in the cloned directory, and does not appear to exist in the github repo online either.

How can we build Freesurfer 6 from source on CentOS 7?

Thank you

Doug Jennewein