Dear PLUG members,
The Dr. Tracy Lab at Thomas Jefferson University/Jefferson
Medical College (in Center City, Philadelphia) is looking to hire a Linux
specialist for a few hours to help compile and run a neuroimaging program
called Brainscape 4dfp. We are trying to compile the program in both
Ubuntu 8.04 and Red Hat Linux v4.2 but ran into some problems and need
assistance in troubleshooting. In particular, we are getting errors
trying to run the ‘make’ function and ‘makefiles’.
If interested, please read the compilation instructions
at the bottom of this e-mail. If you feel that you can help, contact Quan
at (215) 955-8992 between the hours of 9:30am-5pm. We can send you the
source files if you would like to try to compile the program on your own
Compensation is negotiable. The Tracy Lab is
College Building, Rm. 518
1025 Walnut Street (cross-streets are Walnut Street and
Philadelphia, PA 19107
Make instructions follow.
Three key environmental variables must be set for correct
compilation and operation:
NILSRC directory in which
the executables will be compiled
RELEASE directory where
executables will reside
REFDIR directory that will
contain (4dfp format) atlas representative target images. $REFDIR is ~600 MB
and has to be downloaded (see below).
It is recommended that the linux .login (startup file) be
modified to set the above three environmental variables. The login
procedure should also be modified to include $RELEASE in environmental
variables PATH. The system administrator performing the nil-tools install
should be a member of group ‘program’.
sure environmental variable $NILSRC is properly set.
Put nil-tools.tar in $NILSRC
cd into $NILSRC and untar
sure environmental variable $RELEASE is properly set. Run
make_nil-tools.csh. This will take a couple of minutes. Check for
errors. You may ignore warnings about time stamps and potentially
incomplete makes. When make_nil-tools.csh is done, all compiled executables
should be in $RELEASE.
4dfp_scripts.tar into $RELEASE. cd into $RELEASE and untar
refdir.tar off the web at ftp://imaging.wustl.edu/pub/raichlab/4dfp_tools/
Make sure environmental variable $REFDIR is
$REFDIR should be at least 1 GB.
Put refdir.tar in $REFDIR and untar.
Run link_711 (script to set up links in
$REFDIR that identify atlas representative image masks).