Hi there,

Thank you for directing me to the CMake fswiki. I was able to install the third party packages and execute the command `cmake . -DFS_PACKAGES_DIR="path/to/pkgs"`. 

However, when I run `make -j4` (after adjusting a few bash files in various libraries to find (#include) other libraries) I am met with numerous similarly-worded link error lines under the step "Linking Fortran executable t4imgs_4dfp" with the general schema:

/usr/bin/ld: path/to/fortran-related/filename: relocation R_X86_64_32 against `some.variable.or.file.name` can not be used when making a PIE object; recompile with -fPIC

where path/to/fortran-related/filename is either CMakeFiles/t4imgs_4dfp.dir/some-file.c.o or /usr/lib/gcc/x86_64-linux-gnu/4.8/libgfortran.a(some-function.o)

I tried finding a solution online and found the suggestion to add a global -fPIC flag via export CXXFLAGS="$CXXFLAGS -fPIC" (https://stackoverflow.com/questions/13812185/how-to-recompile-with-fpic). I tried this by starting completely over with a new clone of the freesurfer repo and calling cmake . -DFS_PACKAGES_DIR="path/to/pkgs" and the make still failed at the same point. 

Other suggestions (e.g., to add --enable-shared at ./configure(in that same thread linked above)) suggest adding arguments when configuring, but since this is all part of the make process I'm not sure whether that's possible. 

Any advice? I did not find any similar issues in the archive. 

Thank you very much,

Christian McDaniel