p3dfft installation: help needed
Created originally on Bitbucket by avmo (Ashwin Vishnu)
Here is the log from running the present bash script install_p3dfft.sh
with FFTW 3.3.7 and by using the git repo CyrilleBonamy/p3dfft.
build/Makefile.am:2: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS')
sample/C/Makefile.am:2: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS')
sample/FORTRAN/Makefile.am:2: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS')
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking how to print strings... printf
checking for gcc... mpicc
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 mpicc accepts -g... yes
checking for mpicc option to accept ISO C89... none needed
checking whether mpicc understands -c and -o together... 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 fgrep... /bin/grep -F
checking for ld used by mpicc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking for gawk... gawk
checking command to parse /usr/bin/nm -B output from mpicc object... ok
checking for sysroot... no
checking for a working dd... /bin/dd
checking how to truncate binary pipes... /bin/dd bs=4096 count=1
checking for mt... mt
checking if mt is a manifest tool... no
checking how to run the C preprocessor... mpicc -E
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 dlfcn.h... yes
checking for objdir... .libs
checking if mpicc supports -fno-rtti -fno-exceptions... no
checking for mpicc option to produce PIC... -fPIC -DPIC
checking if mpicc PIC flag -fPIC -DPIC works... yes
checking if mpicc static flag -static works... no
checking if mpicc supports -c -o file.o... yes
checking if mpicc supports -c -o file.o... (cached) yes
checking whether the mpicc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
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 if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
/home/mech/avmo/src/fluidmeta3/fluidfft/doc/install/p3dfft-2.7.6/missing: Unknown `--is-lightweight' option
Try `/home/mech/avmo/src/fluidmeta3/fluidfft/doc/install/p3dfft-2.7.6/missing --help' for more information
configure: WARNING: 'missing' script is too old or missing
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking whether to use IBM compiler... no
checking whether to use Intel compiler... no
checking whether to use PGI compiler... no
checking whether to use Cray compiler... no
checking whether to use GNU compiler... no
checking whether to use OpenMPI... no
checking whether to use OpenMP library... no
checking whether to enable single precision... no
checking whether to enable 1D decomposition... no
checking whether to enable estimation... no
checking whether to enable the measure algorithm... yes
checking whehter to enable the patient algorithm... no
checking whether to enable C convention for processor dimensions... no
checking whether to use MPI_Alltoall instead of MPI_Alltotallv... no
checking whether to enable stride-1 data structures... no
checking whether to override default value of NBL_X... no
checking whether to override the default value of NBL_Y1... no
checking whether to override the default value of NBL_Y2... no
checking whether to override the default value of NBL_Z... no
checking whether to use FFTW library... yes
checking whether to use ESSL library... no
checking FFTW directory... /scratch/avmo/.local/
checking ESSL directory... none
checking for mpif90... mpif90
checking whether we are using the GNU Fortran compiler... yes
checking whether mpif90 accepts -g... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for mpif90 option to produce PIC... -fPIC
checking if mpif90 PIC flag -fPIC works... yes
checking if mpif90 static flag -static works... no
checking if mpif90 supports -c -o file.o... yes
checking if mpif90 supports -c -o file.o... (cached) yes
checking whether the mpif90 linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for mpicc... mpicc
checking for ranlib... (cached) ranlib
checking whether make sets $(MAKE)... (cached) yes
checking for ANSI C header files... (cached) yes
checking for stdlib.h... (cached) yes
checking for stdlib.h... (cached) yes
checking for GNU libc compatible malloc... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating build/Makefile
config.status: creating sample/Makefile
config.status: creating sample/C/Makefile
config.status: creating sample/FORTRAN/Makefile
config.status: creating config.h
config.status: executing libtool commands
configure: configure script complete!
(CDPATH="${ZSH_VERSION+.}:" && cd . && autoheader)
rm -f stamp-h1
touch config.h.in
cd . && /bin/bash ./config.status config.h
config.status: creating config.h
config.status: config.h is unchanged
make all-recursive
make[1]: Entering directory '/scratch/avmo/src/fluidmeta3/fluidfft/doc/install/p3dfft-2.7.6'
Making all in build
make[2]: Entering directory '/scratch/avmo/src/fluidmeta3/fluidfft/doc/install/p3dfft-2.7.6/build'
/bin/bash ../libtool --tag=FC --mode=compile mpif90 -DHAVE_CONFIG_H -I. -I.. -I/scratch/avmo/.local//include -DMEASURE -DFFTW -g -O2 -c -o fft_spec.lo fft_spec.F90
libtool: Version mismatch error. This is libtool 2.4.2 Debian-2.4.2-1.11, but the
libtool: definition of this LT_INIT comes from libtool 2.4.6.
libtool: You should recreate aclocal.m4 with macros from libtool 2.4.2 Debian-2.4.2-1.11
libtool: and run autoconf again.
Makefile:419: recipe for target 'fft_spec.lo' failed
make[2]: *** [fft_spec.lo] Error 63
make[2]: Leaving directory '/scratch/avmo/src/fluidmeta3/fluidfft/doc/install/p3dfft-2.7.6/build'
Makefile:464: recipe for target 'all-recursive' failed
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory '/scratch/avmo/src/fluidmeta3/fluidfft/doc/install/p3dfft-2.7.6'
Makefile:375: recipe for target 'all' failed
make: *** [all] Error 2
Making install in build
make[1]: Entering directory '/scratch/avmo/src/fluidmeta3/fluidfft/doc/install/p3dfft-2.7.6/build'
/bin/bash ../libtool --tag=FC --mode=compile mpif90 -DHAVE_CONFIG_H -I. -I.. -I/scratch/avmo/.local//include -DMEASURE -DFFTW -g -O2 -c -o fft_spec.lo fft_spec.F90
libtool: Version mismatch error. This is libtool 2.4.2 Debian-2.4.2-1.11, but the
libtool: definition of this LT_INIT comes from libtool 2.4.6.
libtool: You should recreate aclocal.m4 with macros from libtool 2.4.2 Debian-2.4.2-1.11
libtool: and run autoconf again.
Makefile:419: recipe for target 'fft_spec.lo' failed
make[1]: *** [fft_spec.lo] Error 63
make[1]: Leaving directory '/scratch/avmo/src/fluidmeta3/fluidfft/doc/install/p3dfft-2.7.6/build'
Makefile:464: recipe for target 'install-recursive' failed
make: *** [install-recursive] Error 1