Hello all, Thanks for the comments! Sorry for not being more precise. I installed FSL from the neurodebian repo, and all the normal stuff works fine. The good folks at FMRIB have sent me some experimental analysis tools that require setup and compiling. I could not get them to compile using the files and instructions they sent. The readme essentially says to untar the folder (which contains a makefile, dependencies, etc), run
$ . setup.sh , then run $ make It seems that my installation is lacking "a compatible devel package", which has the default make, config, and include files that the setup scripts were expecting. I've been told that I have two options: 1. Uninstall neurodebian FSL and try to build the source FSL myself 2. Download the source version of FSL, then customize those config files to match the neurodebian libraries and executables My questions would more precisely have been stated as: 1. Does neurodebian already have the FSL devel package? If so, how can I install it? 2. If not, is there documentation on editing source FSL config files to work with neurodebian? I've attached the makefile, in case that will be of any help. Running: $ sudo apt-get build-dep fsl throws this dependency error: <The following packages have unmet dependencies: libgd2-noxpm-dev : Depends: libgd2-noxpm (= 2.0.36~rc1~dfsg-6ubuntu2) but it is not going to be installed E: Build-dependencies for fsl could not be satisfied.> Thanks again for your help, Dillon Dillon Niederhut Doctoral Candidate University of California, Berkeley Department of Anthropology 232 Kroeber Hall Berkeley, CA 94720 deniederhut.strikingly.com On Thu, Jun 19, 2014 at 5:51 AM, Yaroslav Halchenko <[email protected]> wrote: > > On Thu, 19 Jun 2014, Yury V. Zaytsev wrote: > > > On Wed, 2014-06-18 at 10:17 -0700, Dillon Niederhut wrote: > > > > Is there a devel package for Debian around somewhere that I missed? If > > > not, would anyone be willing to provide some advice to a Linux novice > > > about the sorts of configuration changes I'll need to make around > > > executables and libraries in the source FSL make and setup files? > > > I didn't quite understand your problem, but it seems to me that you are > > trying to build FSL from source, having previously installed it from > > NeuroDebian in form of binary packages. This didn't work, because > > apparently you don't have all the dependencies installed. > > > Is this summary correct? > > > If yes, then you could use apt-get to automatically install packages > > that are needed to build FSL (this is how NeuroDebian FSL is built): > > > apt-get build-dep fsl > > and > > apt-get source fsl > > to obtain all the sources you could then build using e.g. > dpkg-buildpackage > > Note #1, that for those two commands you need to uncomment deb-src lines in > your neurodebian /etc/apt/ file and run apt-get update first. > > Note #2, fslview is packaged separately > > -- > Yaroslav O. Halchenko, Ph.D. > http://neuro.debian.net http://www.pymvpa.org http://www.fail2ban.org > Research Scientist, Psychological and Brain Sciences Dept. > Dartmouth College, 419 Moore Hall, Hinman Box 6207, Hanover, NH 03755 > Phone: +1 (603) 646-9834 Fax: +1 (603) 646-1419 > WWW: http://www.linkedin.com/in/yarik > > _______________________________________________ > Neurodebian-users mailing list > [email protected] > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/neurodebian-users >
Makefile (copy)
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