Thanks J, I think I will install Ubuntu entirely first, because I just tried to install FFTW now, and managed only to get to make install, then I got permission denied messages, so even though I thought I was the admin, I am seemingly not.
On Fri, Dec 24, 2010 at 2:44 PM, Justin A. Lemkul <jalem...@vt.edu> wrote: > Quoting Sergio Manzetti <sergio.manze...@vestforsk.no>: > > > Thanks Justin, here is it the copy-out: > > > > ser...@sergio-laptop:~/Desktop/gromacs-4.5.3$ ./configure > > checking build system type... i686-pc-linux-gnu > > checking host system type... i686-pc-linux-gnu > > 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 cc... cc > > checking for C compiler default output file name... a.out > > checking whether the C compiler works... yes > > checking whether we are cross compiling... no > > checking for suffix of executables... > > checking for suffix of object files... o > > checking whether we are using the GNU C compiler... yes > > checking whether cc accepts -g... yes > > checking for cc option to accept ISO C89... none needed > > checking for style of include used by make... GNU > > checking dependency style of cc... gcc3 > > checking dependency style of cc... gcc3 > > checking how to run the C preprocessor... cc -E > > checking for grep that handles long lines and -e... /bin/grep > > checking for egrep... /bin/grep -E > > checking whether ln -s works... yes > > checking whether cc accepts -O3... yes > > checking whether cc accepts -msse2... yes > > checking whether cc accepts -funroll-all-loops... yes > > checking whether cc accepts -std=gnu99... yes > > checking whether cc accepts -fexcess-precision=fast... no > > checking whether cc accepts -O3 -fomit-frame-pointer -finline-functions > > -Wall -Wno-unused -msse2 -funroll-all-loops -std=gnu99... yes > > 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 for unistd.h... (cached) yes > > checking sys/time.h usability... yes > > checking sys/time.h presence... yes > > checking for sys/time.h... yes > > checking sched.h usability... yes > > checking sched.h presence... yes > > checking for sched.h... yes > > checking for sysconf... 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... yes > > checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE > > checking if more special flags are required for pthreads... no > > checking for cc_r... cc > > checking if atomic operations are supported... yes > > checking whether byte ordering is bigendian... no > > checking that size_t can hold pointers... yes > > checking for SIGUSR1... yes > > checking for pipes... yes > > checking floating-point format... IEEE754 (little-endian byte and word > > order) > > 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 ld used by cc ... /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... pass_all > > checking dlfcn.h usability... yes > > checking dlfcn.h presence... yes > > checking for dlfcn.h... yes > > checking for g++... no > > checking for c++... no > > checking for gpp... no > > checking for aCC... no > > checking for CC... no > > checking for cxx... no > > checking for cc++... no > > checking for cl.exe... no > > checking for FCC... no > > checking for KCC... no > > checking for RCC... no > > checking for xlC_r... no > > checking for xlC... no > > checking whether we are using the GNU C++ compiler... no > > checking whether g++ accepts -g... no > > checking dependency style of g++... none > > checking the maximum length of command line arguments... 32768 > > checking command to parse /usr/bin/nm -B output from cc object... failed > > checking for objdir... .libs > > checking for ar... ar > > checking for ranlib... ranlib > > checking for strip... strip > > checking if cc supports -fno-rtti -fno-exceptions... no > > checking for cc option to produce PIC... -fPIC > > checking if cc PIC flag -fPIC works... yes > > checking if cc static flag -static works... yes > > checking if cc supports -c -o file.o... yes > > checking whether the cc linker (/usr/bin/ld) supports shared > libraries... > > yes > > checking dynamic linker characteristics... GNU/Linux ld.so > > checking how to hardcode library paths into programs... immediate > > checking whether stripping libraries is possible... yes > > checking for shl_load... no > > checking for shl_load in -ldld... no > > checking for dlopen... no > > checking for dlopen in -ldl... yes > > checking whether a program can dlopen itself... yes > > checking whether a statically linked program can dlopen itself... no > > checking if libtool supports shared libraries... yes > > checking whether to build shared libraries... no > > checking whether to build static libraries... yes > > configure: creating libtool > > appending configuration tag "CXX" to libtool > > appending configuration tag "F77" to libtool > > checking for special C compiler options needed for large files... no > > checking for _FILE_OFFSET_BITS value needed for large files... 64 > > checking for _LARGEFILE_SOURCE value needed for large files... no > > checking for sqrt in -lm... yes > > checking for fftw3.h... configure: error: Cannot find the default > external > > Here's an error... > > > FFT library (fftw3). > > Other alternatives are 'fftw2', or 'mkl' for Intel MKL. > > You are STRONGLY recommended to use one of these - fftw is free. > > > > Use CPPFLAGS and LDFLAGS if the library is installed in a > > non-standard location. (see FAQ at http://www.gromacs.org) > > ...and the possible solution. Custom installation options are discussed in > the > installation instructions. If you have FFTW installed, you'll have to > specify > header and library locations with CPPFLAGS and LDFLAGS, respectively. If > you > didn't install FFTW, start over and read about the prerequisites before > trying > to configure again. > > -Justin > > > > > If you dont care about performance you can also specify 'fftpack' > > to use a slower set of FFTs built into Gromacs. > > (Just install FFTW3 unless you really know what you are doing). > > > > ser...@sergio-laptop:~/Desktop/gromacs-4.5.3$ make > > make: *** No targets specified and no makefile found. Stop. > > > > > ======================================== > > Justin A. Lemkul > Ph.D. Candidate > ICTAS Doctoral Scholar > MILES-IGERT Trainee > Department of Biochemistry > Virginia Tech > Blacksburg, VA > jalemkul[at]vt.edu | (540) 231-9080 > http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin > > ======================================== > -- > gmx-users mailing list gmx-users@gromacs.org > http://lists.gromacs.org/mailman/listinfo/gmx-users > Please search the archive at > http://www.gromacs.org/Support/Mailing_Lists/Search before posting! > Please don't post (un)subscribe requests to the list. Use the > www interface or send it to gmx-users-requ...@gromacs.org. > Can't post? Read http://www.gromacs.org/Support/Mailing_Lists >
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