[petsc-users] problem configuring 3.8.3 with intel mpi

[Satish Balay]

In either case --mpi-dir=/opt/intel/compilers_and_libraries_2017.1.132/linux/mpi is the wrong option.

Its a shortcut for --with-cc=/opt/intel/compilers_and_libraries_2017.1.132/linux/mpi/bin/mpicc - which you
don't have.

Since you have mpicc in your path - you can just use:

--with-cc=mpicc [or skip specifying it - and configure will look at your path]

Satish

On Thu, 22 Mar 2018, Klaij, Christiaan wrote:

> Matt,
> 
> The problem must be earlier, because it should be using mpicc for
> the check, not gcc. The mpi.h is found here by the 3.7.5 config:
> 
> Executing: mpicc -E  -I/tmp/petsc-JIF0WC/config.setCompilers -I/tmp/petsc-JIF0WC/config.types -I/tmp/petsc-JIF0WC/config.headers  -I/opt/intel/compilers_and_libraries_2017.1.132/linux/mpi/include -I/opt/intel/compilers_and_libraries_2017.1.132/linux/mpi/intel64/include /tmp/petsc-JIF0WC/config.headers/conftest.c
> stdout:
> # 1 "/tmp/petsc-JIF0WC/config.headers/conftest.c"
> # 1 "/tmp/petsc-JIF0WC/config.headers/confdefs.h" 1
> # 2 "/tmp/petsc-JIF0WC/config.headers/conftest.c" 2
> # 1 "/tmp/petsc-JIF0WC/config.headers/conffix.h" 1
> # 3 "/tmp/petsc-JIF0WC/config.headers/conftest.c" 2
> # 1 "/opt/intel/compilers_and_libraries_2017.1.132/linux/mpi/intel64/include/mpi.h" 1
> 
> Note that the machine and ENV are exactly the same, the only
> change is 3.7.5 versus 3.8.3.
> 
> Chris
> 
> dr. ir. Christiaan Klaij | Senior Researcher | Research & Development
> MARIN | T +31 317 49 33 44 | C.Klaij at marin.nl<mailto:C.Klaij at marin.nl> | www.marin.nl<http://www.marin.nl>
> 
> [LinkedIn]<https://www.linkedin.com/company/marin> [YouTube] <http://www.youtube.com/marinmultimedia>  [Twitter] <https://twitter.com/MARIN_nieuws>  [Facebook] <https://www.facebook.com/marin.wageningen>
> MARIN news: Office tool aNySIM integrated into real-time onboard software<http://www.marin.nl/web/News/News-items/Office-tool-aNySIM-integrated-into-realtime-onboard-software-1.htm>
> 
> ________________________________
> From: Matthew Knepley <knepley at gmail.com>
> Sent: Thursday, March 22, 2018 1:27 PM
> To: Klaij, Christiaan
> Cc: petsc-users at mcs.anl.gov
> Subject: Re: [petsc-users] problem configuring 3.8.3 with intel mpi
> 
> On Thu, Mar 22, 2018 at 8:00 AM, Klaij, Christiaan <C.Klaij at marin.nl<mailto:C.Klaij at marin.nl>> wrote:
> Satish,
> 
> I'm trying to upgrade from 3.7.5 to 3.8.3. The first problem is
> that my intel mpi installation, which works for 3.7.5, fails with
> 3.8.3, see the attached logs. It seems that the mpi compilers are
> not found anymore. Any ideas?
> 
> The header check failed:
> 
>                   Checking include with compiler flags var CPPFLAGS ['/opt/intel/compilers_and_libraries_2017.1.132/linux/mpi/include']
> Executing: gcc -E  -I/tmp/petsc-8GlPlN/config.setCompilers -I/tmp/petsc-8GlPlN/config.types -I/tmp/petsc-8GlPlN/config.headers  -I/opt/intel/compilers_and_libraries_2017.1.132/linux/mpi/include /tmp/petsc-8GlPlN/config.headers/conftest.c
> stdout:
> # 1 "/tmp/petsc-8GlPlN/config.headers/conftest.c"
> # 1 "<built-in>"
> # 1 "<command-line>"
> # 1 "/usr/include/stdc-predef.h" 1 3 4
> # 1 "<command-line>" 2
> # 1 "/tmp/petsc-8GlPlN/config.headers/conftest.c"
> # 1 "/tmp/petsc-8GlPlN/config.headers/confdefs.h" 1
> # 2 "/tmp/petsc-8GlPlN/config.headers/conftest.c" 2
> # 1 "/tmp/petsc-8GlPlN/config.headers/conffix.h" 1
> # 3 "/tmp/petsc-8GlPlN/config.headers/conftest.c" 2
> Possible ERROR while running preprocessor: exit code 256
> stdout:
> # 1 "/tmp/petsc-8GlPlN/config.headers/conftest.c"
> # 1 "<built-in>"
> # 1 "<command-line>"
> # 1 "/usr/include/stdc-predef.h" 1 3 4
> # 1 "<command-line>" 2
> # 1 "/tmp/petsc-8GlPlN/config.headers/conftest.c"
> # 1 "/tmp/petsc-8GlPlN/config.headers/confdefs.h" 1
> # 2 "/tmp/petsc-8GlPlN/config.headers/conftest.c" 2
> # 1 "/tmp/petsc-8GlPlN/config.headers/conffix.h" 1
> # 3 "/tmp/petsc-8GlPlN/config.headers/conftest.c" 2stderr:
> /tmp/petsc-8GlPlN/config.headers/conftest.c:3:17: fatal error: mpi.h: No such file or directory
>  #include <mpi.h>
>                  ^
> compilation terminated.
> Source:
> #include "confdefs.h"
> #include "conffix.h"
> #include <mpi.h>
> Preprocess stderr before filtering:/tmp/petsc-8GlPlN/config.headers/conftest.c:3:17: fatal error: mpi.h: No such file or directory
>  #include <mpi.h>
> 
> Where are the headers?
> 
>   Thanks,
> 
>     Matt
> 
> Chris
> 
> 
> dr. ir. Christiaan Klaij  | Senior Researcher | Research & Development
> MARIN | T +31 317 49 33 44 | mailto:C.Klaij at marin.nl<mailto:C.Klaij at marin.nl> | http://www.marin.nl
> 
> MARIN news: http://www.marin.nl/web/News/News-items/Office-tool-aNySIM-integrated-into-realtime-onboard-software-1.htm
> 
> 
> 
> 
> --
> 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
> 
> https://www.cse.buffalo.edu/~knepley/<http://www.caam.rice.edu/~mk51/>
> 
> 
>