[mpich-discuss] mpif.h
Gustavo Correa
gus at ldeo.columbia.edu
Sun Sep 14 20:58:02 CDT 2014
On Sep 14, 2014, at 9:16 PM, Kenneth Raffenetti wrote:
> Based on the comments in the Makefile, it looks like you need to set USE_MPI and USE_MPIF90 to "on" and set FORT to "gfortran".
>
> Ken
>
Agreed.
Also, besides Ken's suggestion, note also these comments in the makefile:
# This makefile is designed to work only with GNU Make version 3.80 or :::
# higher. It can be used in any architecture provided that there is a :::
# machine/compiler rules file in the "Compilers" subdirectory. You :::
# may need to modify the rules file to specify the correct path for :::
# the NetCDF and ARPACK libraries. The ARPACK library is only used in :::
# the Generalized Stability Theory analysis and Laczos algorithm. :::
You may need to look for a Linux/gfortran directory/file (or similar).
There may be additional items that you may need to edit there.
I would guess one would be the path to your mpif90,
maybe the INCLUDE macro mentioned in your original email,
and if you're using input/output files in NetCDF format, the location of your NetCDF library.
Anyway, these are mostly guesses, not knowing anything about this model (which seems
to be moslty based on ROMS.)
I hope it helps,
Gus Correa
> On 09/14/2014 02:35 PM, fereshteh komijani wrote:
>> thanks for your reply
>> in attach there is COAWST make file,
>> i become so appreciate if you help me
>> cheers
>> fereshte
>>
>> On Sun, Sep 14, 2014 at 1:40 AM, Gustavo Correa <gus at ldeo.columbia.edu
>> <mailto:gus at ldeo.columbia.edu>> wrote:
>>
>> Hi Fereshteh
>>
>> <guess>
>> The model probably comes with a Makefile,
>> or a configuration script, where you can choose
>> the compiler (which presumably you chose as F77 or FC=mpif90, which
>> is a good choice,
>> not gfortran, which is not so good a choice).
>> It may also have a INCLUDE variable where you can add the
>> location of your mpif.h file.
>> Something like this:
>>
>> INCLUDE= [whatever is already there]
>> -I/home/fkomijani/program_install/mpich-3.0.4/include
>>
>>
>> Normally mpif90 is able to locate the mpif.h include file and all
>> needed mpi libraries as well,
>> which is a big advantage over the barebones compiler (gfortran), as
>> Ken and Junchao said.
>> However, I've seen makefiles and build scripts that go a long way to
>> strip off or override that capability,
>> by redefining the compiler to be the one underlying the mpif90
>> wrapper (i.e go back to
>> gfortran in your case), which is not a very good idea but happens.
>>
>> It is hard to tell exactly what is going on not knowing the
>> Makefile, configure script,
>> or the model code.
>> Unfortunately the COAWST model is not readily available to download
>> and check, requires the developer permission.
>> If you post the Makefile or configure script things may become a
>> little clearer.
>>
>> </guess>
>>
>> My two cents,
>> Gus Correa
>>
>> On Sep 13, 2014, at 10:23 AM, fereshteh komijani wrote:
>>
>> > After compiling my model (coawst) it gives me following
>> > error :
>> >
>> > mod_parallel.f90:17: Error: Can't open included file
>> > 'mpif.h'
>> >
>> > coaws's developer tell me :
>> >
>> > *check your environment and see if the location of
>> > mpif.h is in your
>> > INCLUDE list*.
>> >
>> > But I don't know what is its mean? Where and how I can
>> > do that? Does
>> > environment mean .bashrc?
>>
>> On Sep 13, 2014, at 10:23 AM, fereshteh komijani wrote:
>>
>> > thanks so much for your attention
>> > i will check in again
>> > cheers
>> > fereshte
>> >
>> > On Sat, Sep 13, 2014 at 6:30 PM, Junchao Zhang
>> <jczhang at mcs.anl.gov <mailto:jczhang at mcs.anl.gov>> wrote:
>> > As you can see, hello.f90 contains
>> > include 'mpif.h'
>> > and mpif90 found it and correctly compiled the code.
>> >
>> > So, mpich installation is correct. You need to double check your
>> code and compilation commands.
>> >
>> > --Junchao Zhang
>> >
>> > On Sat, Sep 13, 2014 at 8:41 AM, fereshteh komijani
>> <fereshtehkomijani at gmail.com <mailto:fereshtehkomijani at gmail.com>>
>> wrote:
>> > i have created hello.F90 and after compiling, it gives
>> >
>> > fkomijani at fk1:~/program_install/COAWST$ mpif90 -v -o hello hello.F90
>> > mpif90 for MPICH version 3.0.4
>> > Driving: gfortran -v -o hello hello.F90
>> -I/home/fkomijani/program_install/mpich-3.0.4/include
>> -I/home/fkomijani/program_install/mpich-3.0.4/include
>> -L/home/fkomijani/program_install/mpich-3.0.4/lib -lmpichf90 -lmpich
>> -lopa -lmpl -lrt -lpthread -l gfortran -l m -shared-libgcc
>> > Using built-in specs.
>> > COLLECT_GCC=gfortran
>> > COLLECT_LTO_WRAPPER=/usr/lib/gcc/i686-linux-gnu/4.6/lto-wrapper
>> > Target: i686-linux-gnu
>> > Configured with: ../src/configure -v
>> --with-pkgversion='Ubuntu/Linaro 4.6.3-1ubuntu5'
>> --with-bugurl=file:///usr/share/doc/gcc-4.6/README.Bugs
>> --enable-languages=c,c++,fortran,objc,obj-c++ --prefix=/usr
>> --program-suffix=-4.6 --enable-shared --enable-linker-build-id
>> --with-system-zlib --libexecdir=/usr/lib --without-included-gettext
>> --enable-threads=posix --with-gxx-include-dir=/usr/include/c++/4.6
>> --libdir=/usr/lib --enable-nls --with-sysroot=/ --enable-clocale=gnu
>> --enable-libstdcxx-debug --enable-libstdcxx-time=yes
>> --enable-gnu-unique-object --enable-plugin --enable-objc-gc
>> --enable-targets=all --disable-werror --with-arch-32=i686
>> --with-tune=generic --enable-checking=release --build=i686-linux-gnu
>> --host=i686-linux-gnu --target=i686-linux-gnu
>> > Thread model: posix
>> > gcc version 4.6.3 (Ubuntu/Linaro 4.6.3-1ubuntu5)
>> > COLLECT_GCC_OPTIONS='-v' '-o' 'hello' '-I'
>> '/home/fkomijani/program_install/mpich-3.0.4/include' '-I'
>> '/home/fkomijani/program_install/mpich-3.0.4/include'
>> '-L/home/fkomijani/program_install/mpich-3.0.4/lib' '-shared-libgcc'
>> '-mtune=generic' '-march=i686'
>> > /usr/lib/gcc/i686-linux-gnu/4.6/f951 hello.F90
>> -cpp=/tmp/ccgJjtSb.f90 -quiet -v -I
>> /home/fkomijani/program_install/mpich-3.0.4/include -I
>> /home/fkomijani/program_install/mpich-3.0.4/include -imultilib .
>> -imultiarch i386-linux-gnu hello.F90 -quiet -dumpbase hello.F90
>> -mtune=generic -march=i686 -auxbase hello -version
>> -fintrinsic-modules-path /usr/lib/gcc/i686-linux-gnu/4.6/finclude -o
>> /tmp/ccV5Pu7p.s
>> > GNU Fortran (Ubuntu/Linaro 4.6.3-1ubuntu5) version 4.6.3
>> (i686-linux-gnu)
>> > compiled by GNU C version 4.6.3, GMP version 5.0.2, MPFR
>> version 3.1.0-p3, MPC version 0.9
>> > GGC heuristics: --param ggc-min-expand=100 --param
>> ggc-min-heapsize=131072
>> > ignoring nonexistent directory "/usr/local/include/i386-linux-gnu"
>> > ignoring nonexistent directory
>> "/usr/lib/gcc/i686-linux-gnu/4.6/../../../../i686-linux-gnu/include"
>> > ignoring duplicate directory
>> "/home/fkomijani/program_install/mpich-3.0.4/include"
>> > #include "..." search starts here:
>> > #include <...> search starts here:
>> > /home/fkomijani/program_install/mpich-3.0.4/include
>> > /usr/lib/gcc/i686-linux-gnu/4.6/finclude
>> > /usr/lib/gcc/i686-linux-gnu/4.6/include
>> > /usr/local/include
>> > /usr/lib/gcc/i686-linux-gnu/4.6/include-fixed
>> > /usr/include/i386-linux-gnu
>> > /usr/include
>> > End of search list.
>> > GNU Fortran (Ubuntu/Linaro 4.6.3-1ubuntu5) version 4.6.3
>> (i686-linux-gnu)
>> > compiled by GNU C version 4.6.3, GMP version 5.0.2, MPFR
>> version 3.1.0-p3, MPC version 0.9
>> > GGC heuristics: --param ggc-min-expand=100 --param
>> ggc-min-heapsize=131072
>> > COLLECT_GCC_OPTIONS='-v' '-o' 'hello' '-I'
>> '/home/fkomijani/program_install/mpich-3.0.4/include' '-I'
>> '/home/fkomijani/program_install/mpich-3.0.4/include'
>> '-L/home/fkomijani/program_install/mpich-3.0.4/lib' '-shared-libgcc'
>> '-mtune=generic' '-march=i686'
>> > as --32 -o /tmp/ccPO4WoE.o /tmp/ccV5Pu7p.s
>> > Reading specs from /usr/lib/gcc/i686-linux-gnu/4.6/libgfortran.spec
>> > rename spec lib to liborig
>> > COLLECT_GCC_OPTIONS='-v' '-o' 'hello' '-I'
>> '/home/fkomijani/program_install/mpich-3.0.4/include' '-I'
>> '/home/fkomijani/program_install/mpich-3.0.4/include'
>> '-L/home/fkomijani/program_install/mpich-3.0.4/lib' '-shared-libgcc'
>> '-mtune=generic' '-march=i686'
>> >
>> COMPILER_PATH=/usr/lib/gcc/i686-linux-gnu/4.6/:/usr/lib/gcc/i686-linux-gnu/4.6/:/usr/lib/gcc/i686-linux-gnu/:/usr/lib/gcc/i686-linux-gnu/4.6/:/usr/lib/gcc/i686-linux-gnu/
>> >
>> LIBRARY_PATH=/usr/lib/gcc/i686-linux-gnu/4.6/:/usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/:/usr/lib/gcc/i686-linux-gnu/4.6/../../../../lib/:/lib/i386-linux-gnu/:/lib/../lib/:/usr/lib/i386-linux-gnu/:/usr/lib/../lib/:/usr/lib/gcc/i686-linux-gnu/4.6/../../../:/lib/:/usr/lib/
>> > COLLECT_GCC_OPTIONS='-v' '-o' 'hello' '-I'
>> '/home/fkomijani/program_install/mpich-3.0.4/include' '-I'
>> '/home/fkomijani/program_install/mpich-3.0.4/include'
>> '-L/home/fkomijani/program_install/mpich-3.0.4/lib' '-shared-libgcc'
>> '-mtune=generic' '-march=i686'
>> > /usr/lib/gcc/i686-linux-gnu/4.6/collect2 --sysroot=/ --build-id
>> --no-add-needed --as-needed --eh-frame-hdr -m elf_i386
>> --hash-style=gnu -dynamic-linker /lib/ld-linux.so.2 -z relro -o
>> hello /usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/crt1.o
>> /usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/crti.o
>> /usr/lib/gcc/i686-linux-gnu/4.6/crtbegin.o
>> -L/home/fkomijani/program_install/mpich-3.0.4/lib
>> -L/usr/lib/gcc/i686-linux-gnu/4.6
>> -L/usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu
>> -L/usr/lib/gcc/i686-linux-gnu/4.6/../../../../lib
>> -L/lib/i386-linux-gnu -L/lib/../lib -L/usr/lib/i386-linux-gnu
>> -L/usr/lib/../lib -L/usr/lib/gcc/i686-linux-gnu/4.6/../../..
>> /tmp/ccPO4WoE.o -lmpichf90 -lmpich -lopa -lmpl -lrt -lpthread
>> -lgfortran -lm -lgcc_s -lgcc -lquadmath -lm -lgcc_s -lgcc -lc
>> -lgcc_s -lgcc /usr/lib/gcc/i686-linux-gnu/4.6/crtend.o
>> /usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/crtn.o
>> >
>> >
>> > On Sat, Sep 13, 2014 at 5:28 PM, Junchao Zhang
>> <jczhang at mcs.anl.gov <mailto:jczhang at mcs.anl.gov>> wrote:
>> > "gfortran: error: hello.F90: No such file or directory"
>> > You need to create hello.F90 as I said in the previous email.
>> >
>> > "mpif90 -v -o hello hello.F90 ./coawst.bash"
>> > Also, do not add ./coawst.bash
>> >
>> >
>> >
>> > --Junchao Zhang
>> >
>> > On Sat, Sep 13, 2014 at 7:15 AM, fereshteh komijani
>> <fereshtehkomijani at gmail.com <mailto:fereshtehkomijani at gmail.com>>
>> wrote:
>> >
>> > fkomijani at fk1:~/program_install/COAWST$ mpif90 -v -o hello
>> hello.F90 ./coawst.bash
>> > mpif90 for MPICH version 3.0.4
>> > Driving: gfortran -v -o hello hello.F90 ./coawst.bash
>> -I/home/fkomijani/program_install/mpich-3.0.4/include
>> -I/home/fkomijani/program_install/mpich-3.0.4/include
>> -L/home/fkomijani/program_install/mpich-3.0.4/lib -lmpichf90 -lmpich
>> -lopa -lmpl -lrt -lpthread -l gfortran -l m -shared-libgcc
>> > gfortran: error: hello.F90: No such file or directory
>> > Using built-in specs.
>> > COLLECT_GCC=gfortran
>> > COLLECT_LTO_WRAPPER=/usr/lib/gcc/i686-linux-gnu/4.6/lto-wrapper
>> > Target: i686-linux-gnu
>> > Configured with: ../src/configure -v
>> --with-pkgversion='Ubuntu/Linaro 4.6.3-1ubuntu5'
>> --with-bugurl=file:///usr/share/doc/gcc-4.6/README.Bugs
>> --enable-languages=c,c++,fortran,objc,obj-c++ --prefix=/usr
>> --program-suffix=-4.6 --enable-shared --enable-linker-build-id
>> --with-system-zlib --libexecdir=/usr/lib --without-included-gettext
>> --enable-threads=posix --with-gxx-include-dir=/usr/include/c++/4.6
>> --libdir=/usr/lib --enable-nls --with-sysroot=/ --enable-clocale=gnu
>> --enable-libstdcxx-debug --enable-libstdcxx-time=yes
>> --enable-gnu-unique-object --enable-plugin --enable-objc-gc
>> --enable-targets=all --disable-werror --with-arch-32=i686
>> --with-tune=generic --enable-checking=release --build=i686-linux-gnu
>> --host=i686-linux-gnu --target=i686-linux-gnu
>> > Thread model: posix
>> > gcc version 4.6.3 (Ubuntu/Linaro 4.6.3-1ubuntu5)
>> >
>> >
>> > On Sat, Sep 13, 2014 at 4:33 PM, Junchao Zhang
>> <jczhang at mcs.anl.gov <mailto:jczhang at mcs.anl.gov>> wrote:
>> > That is strange.
>> > Could you compile the following program with "mpif90 -v -o hello
>> hello.F90" and paste the output?
>> >
>> > ! hello.F90
>> > program main
>> > implicit none
>> > include 'mpif.h'
>> > integer :: ierr
>> >
>> > call MPI_Init(ierr)
>> > call MPI_Finalize(ierr)
>> > end program
>> >
>> >
>> > --Junchao Zhang
>> >
>> > On Sat, Sep 13, 2014 at 6:24 AM, fereshteh komijani
>> <fereshtehkomijani at gmail.com <mailto:fereshtehkomijani at gmail.com>>
>> wrote:
>> > sorry that is my fault, it is mpif.h
>> >
>> > it seems that COAWST model is searching it, in -I/user/include
>> directory not in
>> > /home/fkomijani/program_install/mpich-3.0.4/include.
>> > so how can i set mentined directory in system environment?
>> >
>> > On Sat, Sep 13, 2014 at 3:45 PM, Junchao Zhang
>> <jczhang at mcs.anl.gov <mailto:jczhang at mcs.anl.gov>> wrote:
>> > The file name should be mpif.h, but not mpih.f.
>> >
>> > On Sep 13, 2014 1:45 AM, "fereshteh komijani"
>> <fereshtehkomijani at gmail.com <mailto:fereshtehkomijani at gmail.com>>
>> wrote:
>> > yes, /home/fkomijani/program_install/mpich-3.0.4/include contains
>> mpih.f
>> >
>> > On Sat, Sep 13, 2014 at 11:07 AM, Kenneth Raffenetti
>> <raffenet at mcs.anl.gov <mailto:raffenet at mcs.anl.gov>> wrote:
>> > If you 'ls /home/fkomijani/program_install/mpich-3.0.4/include'
>> does it contain an mpif.h file? If not, your MPICH installation
>> might be bad.
>> >
>> > On 09/13/2014 03:24 PM, fereshteh komijani wrote:
>> > gfortran -I/home/fkomijani/program_install/mpich-3.0.4/include
>> > -I/home/fkomijani/program_install/mpich-3.0.4/include
>> > -L/home/fkomijani/program_install/mpich-3.0.4/lib -lmpichf90 -lmpich
>> > -lopa -lmpl -lrt -lpthread
>> >
>> >
>> > On Sat, Sep 13, 2014 at 10:52 AM, Kenneth Raffenetti
>> > <raffenet at mcs.anl.gov <mailto:raffenet at mcs.anl.gov>
>> <mailto:raffenet at mcs.anl.gov <mailto:raffenet at mcs.anl.gov>>> wrote:
>> >
>> > What is the output from 'mpif90 -show'?
>> >
>> > On 09/13/2014 03:19 PM, fereshteh komijani wrote:
>> >
>> > dear Kenneth Raffenetti
>> > i am using mpif90 compiler.
>> > if it is, why i have got that error?
>> >
>> > On Sat, Sep 13, 2014 at 10:47 AM, Kenneth Raffenetti
>> > <raffenet at mcs.anl.gov <mailto:raffenet at mcs.anl.gov>
>> <mailto:raffenet at mcs.anl.gov <mailto:raffenet at mcs.anl.gov>>
>> > <mailto:raffenet at mcs.anl.gov
>> <mailto:raffenet at mcs.anl.gov> <mailto:raffenet at mcs.anl.gov
>> <mailto:raffenet at mcs.anl.gov>>>> wrote:
>> >
>> > Are you using the mpif77 or mpif90 compiler wrappers to
>> > build your
>> > program? They will automatically add the location of
>> mpif.h
>> > to your
>> > include path.
>> >
>> > On 09/13/2014 02:56 PM, fereshteh komijani wrote:
>> >
>> > Dear friends
>> >
>> > recently I have installed mpich 3.0.4 in my system
>> > (Ubuntu).
>> >
>> > After compiling my model (coawst) it gives me
>> following
>> > error :
>> >
>> > mod_parallel.f90:17: Error: Can't open included file
>> > 'mpif.h'
>> >
>> > coaws's developer tell me :
>> >
>> > *check your environment and see if the location of
>> > mpif.h is in your
>> > INCLUDE list*.
>> >
>> > But I don't know what is its mean? Where and how
>> I can
>> > do that? Does
>> > environment mean .bashrc?
>> >
>> > many thanks for any reply
>> >
>> > fereshteh
>> >
>> >
>> >
>> > --
>> > ***Angel***
>> > *__*
>> >
>> >
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