[petsc-dev] install petsc on windows 10 with mpi
Mohammad S Dodaran
mdodar1 at lsu.edu
Mon Feb 6 23:25:11 CST 2017
As i stated in my previous email.
" i tried to make with and without intel-mpi ENV . in both cases the error had been changed." And the error didnt have any thing to do with intel_mpi ENV. Do you still want me to remove the intel_ mpi env and send you the log file?
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________________________________
From: Satish Balay <balay at mcs.anl.gov>
Sent: Monday, February 6, 2017 11:15:19 PM
To: petsc-dev
Cc: Mohammad S Dodaran
Subject: Re: [petsc-dev] install petsc on windows 10 with mpi
never mind.
>>>>>>>>>>>>>>
#line 2416 "c:\\program files (x86)\\intelswtools\\compilers_and_libraries_2017.1.143\\windows\\mpi\\intel64\\include\\mpi.h"^M
^M
#line 2418 "c:\\program files (x86)\\intelswtools\\compilers_and_libraries_2017.1.143\\windows\\mpi\\intel64\\include\\mpi.h"^M
^M
#line 4 "C:\\cygwin64\\tmp\\PE5639~1\\CONFIG~1.MPI\\conftest.c"^M
int mpich_ver = 30200300;
Defined "HAVE_MPICH_NUMVERSION" to "30200300"
Checking for functions [MPI_Alltoallw] in library ['/cygdrive/c/PROGRA~2/MICROS~4/MPI/Lib/x64/msmpi.lib', '/cygdrive/c/PROGRA~2/MICROS~4/MPI/Lib/x64/ms\
mpifec.lib'] []
Pushing language C
<<<<<<<<<<
Its still picking up mpi.h from intel MPI
>>>>>>>>>>>>
INCLUDE=C:\Program Files (x86)\IntelSWTools\compilers_and_libraries_2017.1.143\windows\compiler\include;C:\Program Files (x86)\IntelSWTools\compilers_and_libraries_2017.1.143\windows\compiler\include\intel64;C:\Program Files (x86)\Microsoft Visual Studio 12.0\VC\INCLUDE;C:\Program Files (x86)\Microsoft Visual Studio 12.0\VC\ATLMFC\INCLUDE;C:\Program Files (x86)\Windows Kits\8.1\include\shared;C:\Program Files (x86)\Windows Kits\8.1\include\um;C:\Program Files (x86)\Windows Kits\8.1\include\winrt;C:\Program Files (x86)\IntelSWTools\compilers_and_libraries_2017.1.143\windows\mpi\intel64\bin\..\..\intel64\include;C:\Program Files (x86)\IntelSWTools\compilers_and_libraries_2017.1.143\windows\ipp\include;C:\Program Files (x86)\IntelSWTools\compilers_and_libraries_2017.1.143\windows\mkl\include;C:\Program Files (x86)\IntelSWTools\compilers_and_libraries_2017.1.143\windows\tbb\bin\..\include;C:\Program Files (x86)\IntelSWTools\compilers_and_libraries_2017.1.143\windows\daal\include;C:\Program Files (x86)\IntelSWTools\itac_2017\include;C:\Program Files (x86)\IntelSWTools\compilers_and_libraries_2017.1.143\windows\mpi\intel64\bin\..\..\intel64\include;
<<<<<<<<<<<
The env has "C:\Program Files (x86)\IntelSWTools\compilers_and_libraries_2017.1.143\windows\mpi\intel64\bin\..\..\intel64\include" from where mpi.h is getting picked up.
If you can't remove it perhaps you can try using it instead of MSMPI
Satish
On Mon, 6 Feb 2017, Satish Balay wrote:
> can you also send make.log?
>
> Satish
>
> On Mon, 6 Feb 2017, Mohammad S Dodaran wrote:
>
> > i was trying to repair my parallel_studio_xe_2017. then i configure it once again and then i tried to make with and without intel-mpi ENV . in both cases the error had been changed. i have attached the configure.log
> >
> > ________________________________
> > From: Satish Balay <balay at mcs.anl.gov>
> > Sent: Monday, February 6, 2017 10:10:43 PM
> > To: Mohammad S Dodaran
> > Cc: petsc-dev
> > Subject: Re: [petsc-dev] install petsc on windows 10 with mpi
> >
> > Them Intel-MPI was not removed. You can resend configure.log to confirm..
> >
> > Satish
> >
> > On Mon, 6 Feb 2017, Mohammad S Dodaran wrote:
> >
> > > I removed the INTEL-MPI from the environmental variables and I still have the same problem. When I configure it looks like it accepts the mpi_include and mpi_lib but when I want to build , it says the configure was with mpi but in build it appears to compile is using a non-mpich.
> > >
> > > Mohammad
> > >
> > > ________________________________
> > > From: Satish Balay <balay at mcs.anl.gov>
> > > Sent: Monday, February 6, 2017 6:13:04 PM
> > > To: Mohammad S Dodaran
> > > Cc: petsc-dev
> > > Subject: Re: [petsc-dev] install petsc on windows 10 with mpi
> > >
> > > 1. configure.log is a cygwin simlink - so native mail app is unable to
> > > attach correctly. The actual file is in
> > > PETSC_DIR/PETSC_ARCH/lib/petsc/conf
> > >
> > > 2. Suggest doing the build without fftw and hdf5 packages [once the
> > > basic build succeeds - you can look at adding these pacakges.]
> > >
> > > 3. remove INTEL-MPI from your env - before running configure. [you
> > > might be able to use intel-mpi instead of ms-mpi - but we don't have
> > > any experience with it]
> > >
> > > Satish
> > >
> > > On Mon, 6 Feb 2017, Mohammad S Dodaran wrote:
> > >
> > > > now I'm trying to configure petsc 3.7
> > > > i used the format you showd in your previous email for the directories of fftw and hdf5 as below
> > > >
> > > > --with-fftw-dir=/cygdrive/c/cygwin64/home/fftw --with-hdf5-dir=/cygdrive/c/cygwin64/home/hdf5
> > > >
> > > > the result is the following
> > > >
> > > > TESTING: alternateConfigureLibrary from config.packages.glut(config/BuildSystem/config/package.py:742) TESTING: alternateConfigureLibrary from config.packages.giflib(config/BuildSystem/config/package.py:742) TESTING: alternateConfigureLibrary from config.packages.scientificpython(config/BuildSystem/config/package.py:742) TESTING: alternateConfigureLibrary from config.packages.fiat(config/BuildSystem/config/package.py:742) TESTING: configureLibrary from config.packages.fftw(config/BuildSystem/config/package.py:679) *******************************************************************************
> > > > UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for details):
> > > > -------------------------------------------------------------------------------
> > > > --with-fftw-dir=/cygdrive/c/cygwin64/home/fftw did not work
> > > > *******************************************************************************
> > > >
> > > > i also attached the configure.log
> > > >
> > > >
> > > > ________________________________
> > > > From: Satish Balay <balay at mcs.anl.gov>
> > > > Sent: Monday, February 6, 2017 4:28:09 PM
> > > > To: Mohammad S Dodaran
> > > > Cc: Matthew Knepley; petsc-dev
> > > > Subject: Re: [petsc-dev] install petsc on windows 10 with mpi
> > > >
> > > > >>>>
> > > >
> > > > Configure Options: --configModules=PETSc.Configure --optionsModule=config.compilerOptions --with-cc="win32fe cl" --with-fc="win32fe ifort" --with-cxx="win32fe cl" --with-mpi-include="[/cygdrive/c/PROGRA~2/MICROS~4/MPI/Include,/cygdrive/c/PROGRA~2/MICROS~4/MPI/Include/x64]" --with-mpi-lib="[/cygdrive/c/PROGRA~2/MICROS~4/MPI/Lib/x64/msmpi.lib,/cygdrive/c/PROGRA~2/MICROS~4/MPI/Lib/x64/msmpifec.lib]" --with-fftw-dir="[/cygdrive/c/cygwin64/home/fftw]" --with-hdf5-dir="[/cygdrive/c/cygwin64/home/hdf5]" --download-fblaslapack=1 --with-c2html=0 --with-debugging=0 --with-ssl=0 --with-x=0 PETSC_ARCH= PETSC_DIR=/home/petsc-3.6.4
> > > > <<<<
> > > >
> > > > > 'PETSC_ARCH='
> > > >
> > > > Can you rerun with a non-empty PETSC_ARCH string - or let configure choost default..
> > > >
> > > > > --with-fftw-dir="[/cygdrive/c/cygwin64/home/fftw]" --with-hdf5-dir="[/cygdrive/c/cygwin64/home/hdf5]"
> > > >
> > > > I don't think I've built these packages with MS compilers
> > > > before. Somehow they are not picked up anyway. For one - the format
> > > > here should be the following [but I don't know if that will make
> > > > configure check for them]:
> > > >
> > > > --with-fftw-dir=/cygdrive/c/cygwin64/home/fftw --with-hdf5-dir=/cygdrive/c/cygwin64/home/hdf5
> > > >
> > > > > PETSC_DIR=/home/petsc-3.6.4
> > > >
> > > > Also - please use latest petsc-3.7 release.
> > > >
> > > > > C:\cygwin64\home\PETSC-~1.4\include\petscsys.h(122) : fatal error C1189: #error : "PETSc was configured with MPICH but
> > > > > now appears to be compiling using a non-MPICH mpi.h"
> > > >
> > > > Hm - configure is picking up Intel-MPI from your 'INCLUDE' env
> > > > variable - but not 'make' - not sure whats hapenning - but I think its
> > > > best to start a clean build with petsc-3.7 [unless you need 3.6 for a
> > > > specific need]
> > > >
> > > > Satish
> > > >
> > > > On Mon, 6 Feb 2017, Mohammad S Dodaran wrote:
> > > >
> > > > > hello
> > > > >
> > > > >
> > > > > i configured petsc and i was trying to make then this error appeared
> > > > >
> > > > >
> > > > > Using mpiexec: mpiexec
> > > > > ==========================================
> > > > > Building PETSc using GNU Make with 4 build threads
> > > > > ==========================================
> > > > > make[2]: Entering directory '/home/petsc-3.6.4'
> > > > > /usr/bin/python ./config/gmakegen.py --petsc-arch=../petsc-3.6.4
> > > > > Use "/usr/bin/make V=1" to see the verbose compile lines.
> > > > > CC ../petsc-3.6.4/obj/src/sys/info/verboseinfo.o
> > > > > CC ../petsc-3.6.4/obj/src/sys/info/ftn-auto/verboseinfof.o
> > > > > CC ../petsc-3.6.4/obj/src/sys/info/ftn-custom/zverboseinfof.o
> > > > > CC ../petsc-3.6.4/obj/src/sys/ftn-custom/zsys.o
> > > > > verboseinfo.c
> > > > > C:\cygwin64\home\PETSC-~1.4\include\petscsys.h(122) : fatal error C1189: #error : "PETSc was configured with MPICH but
> > > > > now appears to be compiling using a non-MPICH mpi.h"
> > > > > make[2]: *** [gmakefile:161: ../petsc-3.6.4/obj/src/sys/info/verboseinfo.o] Error 2
> > > > > make[2]: *** Waiting for unfinished jobs....
> > > > > verboseinfof.c
> > > > > C:\cygwin64\home\PETSC-~1.4\include\petscsys.h(122) : fatal error C1189: #error : "PETSc was configured with MPICH but
> > > > > now appears to be compiling using a non-MPICH mpi.h"
> > > > > make[2]: *** [gmakefile:161: ../petsc-3.6.4/obj/src/sys/info/ftn-auto/verboseinfof.o] Error 2
> > > > > zverboseinfof.c
> > > > > C:\cygwin64\home\PETSC-~1.4\include\petscsys.h(122) : fatal error C1189: #error : "PETSc was configured with MPICH but
> > > > > now appears to be compiling using a non-MPICH mpi.h"
> > > > > make[2]: *** [gmakefile:161: ../petsc-3.6.4/obj/src/sys/info/ftn-custom/zverboseinfof.o] Error 2
> > > > > zsys.c
> > > > > C:\cygwin64\home\PETSC-~1.4\include\petscsys.h(122) : fatal error C1189: #error : "PETSc was configured with MPICH but
> > > > > now appears to be compiling using a non-MPICH mpi.h"
> > > > > make[2]: *** [gmakefile:161: ../petsc-3.6.4/obj/src/sys/ftn-custom/zsys.o] Error 2
> > > > > make[2]: Leaving directory '/home/petsc-3.6.4'
> > > > > make[1]: *** [/home/petsc-3.6.4/lib/petsc/conf/rules:107: gnumake] Error 2
> > > > > make[1]: Leaving directory '/home/petsc-3.6.4'
> > > > > **************************ERROR*************************************
> > > > > Error during compile, check ../petsc-3.6.4/lib/petsc/conf/make.log
> > > > > Send it and ../petsc-3.6.4/lib/petsc/conf/configure.log to petsc-maint at mcs.anl.gov
> > > > > ********************************************************************
> > > > > make: *** [makefile:30: all] Error 1
> > > > >
> > > > > i have also attached the configure.log and make.log
> > > > >
> > > > > regards
> > > > > Mohammad
> > > > >
> > > > >
> > > > >
> > > > > ________________________________
> > > > > From: Matthew Knepley <knepley at gmail.com>
> > > > > Sent: Monday, February 6, 2017 8:07:41 AM
> > > > > To: Mohammad S Dodaran
> > > > > Cc: petsc-dev
> > > > > Subject: Re: [petsc-dev] install petsc on windows 10 with mpi
> > > > >
> > > > > On Sun, Feb 5, 2017 at 11:26 PM, Mohammad S Dodaran <mdodar1 at lsu.edu<mailto:mdodar1 at lsu.edu>> wrote:
> > > > >
> > > > > Satish,
> > > > >
> > > > > Thanks for your quick response. as you see I can ls to the directory:
> > > > >
> > > > > ls /cygdrive/c/Program\ Files\ \(x86\)/Microsoft\ SDKs/MPI/Include/
> > > > >
> > > > > Yes, but as Satish said, there are spaces in the path above. We do not allow spaces in the path.
> > > > > You cannot give a path to configure with spaces.
> > > > >
> > > > > You can remove the spaces using the cygpath command that Satish showed. Please use that command.
> > > > > Remove the spaces from this path and give the spaceless path to configure.
> > > > >
> > > > > Thanks,
> > > > >
> > > > > Matt
> > > > >
> > > > > mpi.f90 mpi.h mpif.h mpio.h mspms.h pmidbg.h x64/ x86/
> > > > >
> > > > >
> > > > >
> > > > > but I do not know why still it has the same problem. and my configure file looks strange.
> > > > >
> > > > > Best,
> > > > >
> > > > > Mohammad
> > > > >
> > > > > ________________________________
> > > > > From: Satish Balay <balay at mcs.anl.gov<mailto:balay at mcs.anl.gov>>
> > > > > Sent: Sunday, February 5, 2017 10:58:35 PM
> > > > > To: Mohammad S Dodaran
> > > > > Cc: petsc-dev at mcs.anl.gov<mailto:petsc-dev at mcs.anl.gov>
> > > > > Subject: Re: [petsc-dev] install petsc on windows 10 with mpi
> > > > >
> > > > > Try to figureout path without spaces.
> > > > >
> > > > > cygpath -u `cygpath -s -m PATH`
> > > > >
> > > > > Make sure you can do "ls" on this path.
> > > > >
> > > > > And use it with petsc configure.
> > > > >
> > > > > balay at ps4 ~
> > > > > $ cygpath -u `cygpath -s -m /cygdrive/c/Program\ Files\ \(x86\)/Microsoft\ SDKs/MPI/Include`
> > > > > /cygdrive/c/PROGRA~2/MICROS~2/MPI/Include
> > > > >
> > > > > balay at ps4 ~
> > > > > $ ls /cygdrive/c/PROGRA~2/MICROS~2/MPI/Include
> > > > > mpi.f90 mpi.h mpif.h mpio.h mspms.h pmidbg.h x64 x86
> > > > >
> > > > > balay at ps4 ~
> > > > > $
> > > > >
> > > > > For ex: - I use:
> > > > >
> > > > > >>>>>>>>
> > > > > $ cat config/examples/arch-mswin-intel.py
> > > > > #!/usr/bin/python
> > > > > if __name__ == '__main__':
> > > > > import sys
> > > > > import os
> > > > > sys.path.insert(0, os.path.abspath('config'))
> > > > > import configure
> > > > > configure_options = [
> > > > > '--download-fblaslapack=1',
> > > > > '--with-cc=win32fe icl',
> > > > > '--with-cxx=win32fe icl',
> > > > > '--with-fc=win32fe ifort',
> > > > > '--with-mpi-include=[/cygdrive/c/PROGRA~2/MICROS~2/MPI/Include/,/cygdrive/c/PROGRA~2/MICROS~2/MPI/Include/x64]',
> > > > > '--with-mpi-lib=[/cygdrive/c/PROGRA~2/MICROS~2/MPI/lib/x64/msmpifec.lib,/cygdrive/c/PROGRA~2/MICROS~2/MPI/lib/x64/msmpi.lib]',
> > > > > '--with-mpiexec=/cygdrive/c/PROGRA~1/MICROS~2/Bin/mpiexec',
> > > > > '--with-shared-libraries=0',
> > > > > 'DATAFILESPATH=c:/cygwin64/home/petsc/datafiles',
> > > > > ]
> > > > > configure.petsc_configure(configure_options)
> > > > >
> > > > > <<<<<<<<<<<
> > > > >
> > > > > if you still have issues - send us configure.log for the failure.
> > > > >
> > > > > Satish
> > > > >
> > > > > On Sun, 5 Feb 2017, Mohammad S Dodaran wrote:
> > > > >
> > > > > > Dear Petsc developers,
> > > > > >
> > > > > > I am trying to install Petsc on windows 10 but I have a problem. I installed MS-MPI v8<http://go.microsoft.com/FWLink/p/?LinkID=389556> separately and in the configure options I use
> > > > > >
> > > > > > --with-mpi-include="/cygdrive/c/Program\ Files\ \(x86\)/Microsoft\ SDKs/MPI/Include" --with-mpi-lib="/cygdrive/c/Program\ Files\ \(x86\)/Microsoft\ SDKs/MPI/Lib/x64/msmpi.lib"
> > > > > >
> > > > > >
> > > > > > But it gives error which says:
> > > > > >
> > > > > > ***************************************************************
> > > > > > ERROR in COMMAND LINE ARGUMENT to ./configure
> > > > > > -------------------------------------------------------------------------------
> > > > > > Invalid directory: [/cygdrive/c/Program\ Files\ \(x86\)/Microsoft\ SDKs/MPI/Include for key with-mpi-include
> > > > > >
> > > > > >
> > > > > > How should I solve it?
> > > > > >
> > > > > > Mohammad
> > > > > >
> > > > >
> > > > >
> > > > >
> > > > >
> > > > > --
> > > > > What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead.
> > > > > -- Norbert Wiener
> > > > >
> > > >
> > > >
> > >
> > >
> >
> >
>
>
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