Hi everybody. Could anyone help me please?

I've downloaded FreeSurfer source code to compile and install on Ubuntu 12.04, but I've got an error when try to run the configure file.

The log is below:

root@ubuntu:~/freesurfer-source/freesurfer# ./configure --prefix=/root/freesurfer-inst --enable-static
configure: Setting System...
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking target system type... x86_64-unknown-linux-gnu
checking AMD Open64 compiler directories... Open64 directory is not supplied
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking how to create a ustar tar archive... gnutar
checking for g++... g++
checking whether the C++ compiler works... yes
checking for C++ compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking for style of include used by make... GNU
checking dependency style of g++... gcc3
checking for gawk... (cached) gawk
checking for gcc... gcc
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking dependency style of gcc... gcc3
checking how to run the C preprocessor... gcc -E
checking whether ln -s works... yes
checking whether make sets $(MAKE)... (cached) yes
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for /usr/bin/ld option to reload object files... -r
checking for BSD-compatible nm... /usr/bin/nm -B
checking how to recognise dependent libraries... file_magic ELF [0-9][0-9]*-bit [LM]SB (shared object|dynamic lib )
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking dlfcn.h usability... yes
checking dlfcn.h presence... yes
checking for dlfcn.h... yes
checking how to run the C++ preprocessor... g++ -E
checking for g77... no
checking for xlf... no
checking for f77... no
checking for frt... no
checking for pgf77... no
checking for cf77... no
checking for fort77... no
checking for fl32... no
checking for af77... no
checking for xlf90... no
checking for f90... no
checking for pgf90... no
checking for pghpf... no
checking for epcf90... no
checking for gfortran... gfortran
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran accepts -g... yes
checking the maximum length of command line arguments... 32768
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for objdir... .libs
checking for ar... ar
checking for ranlib... ranlib
checking for strip... strip
checking for file... /usr/bin/file
checking if gcc static flag  works... yes
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC
checking if gcc PIC flag -fPIC works... yes
checking if gcc supports -c -o file.o... yes
checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking dynamic linker characteristics... GNU/Linux ld.so
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
configure: creating libtool
appending configuration tag "CXX" to libtool
checking for ld used by g++... /usr/bin/ld -m elf_x86_64
checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... no
checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC
checking if g++ PIC flag -fPIC works... yes
checking if g++ supports -c -o file.o... yes
checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking dynamic linker characteristics... GNU/Linux ld.so
appending configuration tag "F77" to libtool
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for gfortran option to produce PIC... -fPIC
checking if gfortran PIC flag -fPIC works... yes
checking if gfortran supports -c -o file.o... yes
checking whether the gfortran linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking dynamic linker characteristics... GNU/Linux ld.so
checking whether we are using the GNU Fortran 77 compiler... (cached) yes
checking whether gfortran accepts -g... (cached) yes
checking for dirent.h that defines DIR... yes
checking for library containing opendir... none required
checking for ANSI C header files... (cached) yes
checking for sys/wait.h that is POSIX.1 compatible... yes
checking arpa/inet.h usability... yes
checking arpa/inet.h presence... yes
checking for arpa/inet.h... yes
checking fcntl.h usability... yes
checking fcntl.h presence... yes
checking for fcntl.h... yes
checking float.h usability... yes
checking float.h presence... yes
checking for float.h... yes
checking limits.h usability... yes
checking limits.h presence... yes
checking for limits.h... yes
checking locale.h usability... yes
checking locale.h presence... yes
checking for locale.h... yes
checking malloc.h usability... yes
checking malloc.h presence... yes
checking for malloc.h... yes
checking for memory.h... (cached) yes
checking netdb.h usability... yes
checking netdb.h presence... yes
checking for netdb.h... yes
checking netinet/in.h usability... yes
checking netinet/in.h presence... yes
checking for netinet/in.h... yes
checking stddef.h usability... yes
checking stddef.h presence... yes
checking for stddef.h... yes
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking for strings.h... (cached) yes
checking sys/file.h usability... yes
checking sys/file.h presence... yes
checking for sys/file.h... yes
checking sys/ioctl.h usability... yes
checking sys/ioctl.h presence... yes
checking for sys/ioctl.h... yes
checking sys/param.h usability... yes
checking sys/param.h presence... yes
checking for sys/param.h... yes
checking sys/socket.h usability... yes
checking sys/socket.h presence... yes
checking for sys/socket.h... yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking sys/timeb.h usability... yes
checking sys/timeb.h presence... yes
checking for sys/timeb.h... yes
checking for unistd.h... (cached) yes
checking values.h usability... yes
checking values.h presence... yes
checking for values.h... yes
checking wctype.h usability... yes
checking wctype.h presence... yes
checking for wctype.h... yes
checking for sys/types.h... (cached) yes
checking for stdint.h... (cached) yes
checking for an ANSI C-conforming const... yes
checking for inline... inline
checking for mode_t... yes
checking for off_t... yes
checking for size_t... yes
checking whether time.h and sys/time.h may both be included... yes
checking whether struct tm is in sys/time.h or time.h... time.h
checking for ptrdiff_t... yes
checking whether closedir returns void... no
checking for error_at_line... yes
checking whether lstat correctly handles trailing slash... yes
checking whether lstat accepts an empty string... no
checking whether lstat correctly handles trailing slash... (cached) yes
checking for stdlib.h... (cached) yes
checking for unistd.h... (cached) yes
checking for sys/param.h... (cached) yes
checking for getpagesize... yes
checking for working mmap... yes
checking sys/select.h usability... yes
checking sys/select.h presence... yes
checking for sys/select.h... yes
checking for sys/socket.h... (cached) yes
checking types of arguments for select... int,fd_set *,struct timeval *
checking return type of signal handlers... void
checking whether stat accepts an empty string... no
checking for working strtod... yes
checking for vprintf... yes
checking for _doprnt... no
checking for working volatile... yes
checking for pid_t... yes
checking vfork.h usability... no
checking vfork.h presence... no
checking for vfork.h... no
checking for fork... yes
checking for vfork... yes
checking for working fork... yes
checking for working vfork... (cached) yes
checking for working memcmp... yes
checking for stdbool.h that conforms to C99... yes
checking for _Bool... yes
checking for pid_t... (cached) yes
checking for bzero... yes
checking for calloc... yes
checking for dup2... yes
checking for floor... no
checking for ftime... yes
checking for getdelim... yes
checking for getenv... yes
checking for getcwd... yes
checking for getpagesize... (cached) yes
checking for gettimeofday... yes
checking for isascii... yes
checking for memmove... yes
checking for memset... yes
checking for mkdir... yes
checking for munmap... yes
checking for pow... no
checking for putenv... yes
checking for rint... no
checking for select... yes
checking for setenv... yes
checking for sqrt... no
checking for strcasecmp... yes
checking for strchr... yes
checking for strcspn... yes
checking for strdup... yes
checking for strerror... yes
checking for strncasecmp... yes
checking for strrchr... yes
checking for strspn... yes
checking for strstr... yes
checking for strtol... yes
checking for uname... yes
checking for /bin/tcsh... yes
checking for zcat... 1
checking for gzip... 1
checking for latex... no
checking for xxd... xxd
checking for xmllint... no
checking whether byte ordering is bigendian... no
byte order is  1234
configure: Setting OS from target...
configure: OS is Linux
checking for _gfortran_compare_string in -lgfortran... yes
checking for /cl.h... no
checking for cuInit in -lcuda -L/lib... no
checking for nvcc... /bin/nvcc
configure: Setting CPU optimization...
configure: CPUTYPE is x86_64
checking CPU optimization...... -m64
checking whether gcc accepts -m64... yes
checking for the pthreads library -lpthreads... no
checking whether pthreads work without any flags... no
checking whether pthreads work with -Kthread... no
checking whether pthreads work with -kthread... no
checking for the pthreads library -llthread... no
checking whether pthreads work with -pthread... no
checking whether pthreads work with -pthreads... no
checking whether pthreads work with -mthreads... no
checking for the pthreads library -lpthread... no
checking whether pthreads work with --thread-safe... no
checking whether pthreads work with -mt... no
checking for pthread-config... no
checking for X... libraries , headers
configure: x_includes set to /usr/X11R6/include  If not correct specify using --x-includes=
configure: x_libraries set to   If not correct specify using --x-libraries=
configure: Checking for directory specification of 3rd-party libraries...
checking MNI directory... MNI directory is not supplied
checking NIfTI directory... NIfTI directory is not supplied
checking VXL directory... VXL directory is not supplied
checking FLTK directory... FLTK directory is not supplied
checking PETSc directory... PETSc directory is not supplied
checking MPI directory... MPI directory is not supplied
checking BOOST directory... BOOST directory is not supplied
checking ANN Approximate Nearest Neighbors directory... ANN directory is not supplied
checking Tcl/Tk config... Not building Tcl/Tk apps.
checking for tixwish... no
checking for tixwish8.1.8.3... no
checking for tixwish8.1.8.4... no
checking BLT directory... BLT directory is not supplied
checking XawPlus directory... XawPlus directory is not supplied
checking Tiff directory... Tiff directory is not supplied
checking Jpeg directory... Jpeg directory is not supplied
checking Expat directory... Expat directory is not supplied
checking for qmake... no
checking for qmake-qt4... no
checking for qmake-qt3... no
configure: WARNING: Cannot find qmake in your PATH. Try using --with-qt. Disabling Qt apps
checking CppUnit directory... CppUnit directory is not supplied
checking VTK config... checking Cocoa VTK config... checking KWWidgets config... Not building KWWidgets apps.
checking wxWidgets config... Not building wxWidgets apps.
checking GTS config... Not building GTS apps.
checking ITK directory... Not building ITK apps.
configure: Getting OpenGL info...
checking GL directory... OpenGL directory is not supplied
checking windows.h usability... no
checking windows.h presence... no
checking for windows.h... no
checking for OpenGL library... no
GL not found
checking for OpenGL Utility library... no
GLu found:
Setting GLU_CFLAGS=''
and GLU_LIBS=''
Performing an off-site installation.
configure: Making sure that all libraries can be compiled...
checking for floor in -lm... no
checking for gzopen in -lz... yes
checking for crypt in -lcrypt... yes
checking for nccreate in -lnetcdf... yes
checking for miopen in -lminc... no
configure: error: FATAL: minc lib not found.   Set LDFLAGS or --with-mni-dir.

The following libs are installed:

root@ubuntu:~/freesurfer-source/freesurfer# dpkg -l | grep minc
ii  libminc-dev                      2.1.00-2                            MNI medical image format development environment
ii  libminc2-1                       2.1.00-2                            MNI medical image format library
ii  minc-tools                       2.1.00-2                            MNI medical image format tools


I've Googled this issue, but cannot find any useful tip to solve my problem.


Thank you for the help.