OK. I will try that. Thanks for the suggestion.
Regards,
Mahmood
On Mon, Sep 12, 2016 at 11:35 PM, Dave Love wrote:
> Gilles Gouaillardet writes:
>
> > Mahmood,
> >
> > mpi_siesta is a siesta library, not an Open MPI library.
> >
> > fwiw, you might want to try again from scratch with
> > MP
Gilles Gouaillardet writes:
> Mahmood,
>
> mpi_siesta is a siesta library, not an Open MPI library.
>
> fwiw, you might want to try again from scratch with
> MPI_INTERFACE=libmpi_f90.a
> DEFS_MPI=-DMPI
> in your arch.make
>
> i do not think libmpi_f90.a is related to an OpenMPI library.
libmpi_f
It might be easier to not list the MPI library that Open MPI is using -- we
have changed the name of this library over time (as you have noticed). The
"mpifort" wrapper compiler will always pick up the right library name for you.
> On Sep 12, 2016, at 1:44 PM, Mahmood Naderan wrote:
>
> >i d
>i do not think libmpi_f90.a is related to an OpenMPI library.
Thing is that, libmpi_f90.a is part of 1.6.5 and siesta use that. However,
1.8.8 has no such file. Instead it has some other names and you said before
that mpifort (the wrapper) will automatically use the necessary libraries.
Please s
Mahmood,
mpi_siesta is a siesta library, not an Open MPI library.
fwiw, you might want to try again from scratch with
MPI_INTERFACE=libmpi_f90.a
DEFS_MPI=-DMPI
in your arch.make
i do not think libmpi_f90.a is related to an OpenMPI library.
if you need some more support, please refer to the sies
Hi,
Trying to build a source code with newer versions of OpenMPI, I still have
some problems that weren't exist in previous versions.
In 1.6.5, I wrote something in a arch.make file which is used by Makefile
FC=/export/apps/siesta/openmpi-1.6.5/bin/mpif90
MPI_INTERFACE=libmpi_f90.a
MPI_INCLUDE=.
OK. Running "module unload rocks-openmpi" and putting that in ~/.bashrc
will remove /opt/openmpi/lib from LD_LIBRARY_PATH.
Thanks Gilles for your help.
Regards,
Mahmood
On Mon, Sep 12, 2016 at 1:25 PM, Mahmood Naderan
wrote:
> It seems that it is part of rocks-openmpi. I will find out how to
It seems that it is part of rocks-openmpi. I will find out how to remove it
and will come back.
Regards,
Mahmood
On Mon, Sep 12, 2016 at 1:06 PM, Gilles Gouaillardet
wrote:
> Mahmood,
>
> you need to manually remove /opt/openmpi/lib from your LD_LIBRARY_PATH
> (or have your sysadmin do it if
Mahmood,
you need to manually remove /opt/openmpi/lib from your LD_LIBRARY_PATH
(or have your sysadmin do it if this is somehow done automatically)
the point of configuring with --enable-mpirun-prefix-by-default is you
do *not* need
to add /export/apps/siesta/openmpi-1.8.8/lib in your LD_LIBRA
Is the following output OK?
...
Making install in util
make[2]: Entering directory `/export/apps/siesta/openmpi-1.8.8/test/util'
make[3]: Entering directory `/export/apps/siesta/openmpi-1.8.8/test/util'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-da
Mahmood,
I was suggesting you (re)configure (i assume you did it) the Open MPI
1.8.8 installed in /export/apps/siesta/openmpi-1.8.8 with
--enable-mpirun-prefix-by-default
Cheers,
Gilles
On 9/12/2016 4:51 PM, Mahmood Naderan wrote:
> --enable-mpirun-prefix-by-default
What is that? Does t
Basically, it means libs with be linked with
-Wl,-rpath,/export/apps/siesta/openmpi-1.8.8/lib
so if you run a.out with an empty $LD_LIBRARY_PATH, then it will look
for the MPI libraries in
/export/apps/siesta/openmpi-1.8.8/lib
Cheers,
Gilles
On 9/12/2016 4:50 PM, Mahmood Naderan wrote:
> --enable-mpirun-prefix-by-default
What is that? Does that mean "configure 1.8.8 with the default one
installed on the system"? Then that is not good I think because
# /opt/openmpi/bin/ompi_info
Package: Open MPI root@centos-6-3.localdomain Distribution
O
> --enable-mpirun-prefix-by-default
What is that? Does that mean "configure 1.8.8 with the default one
installed on the system"? Then that is not good I think because
Regards,
Mahmood
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That sounds good to me !
just to make it crystal clear ...
assuming you configure'd your Open MPI 1.8.8 with
--enable-mpirun-prefix-by-default
(and if you did not, i do encourage you to do so), then all you need is
to remove
/opt/openmpi/lib from your LD_LIBRARY_PATH
(e.g. you do *not* ha
>(i'd like to make sure you are not using IntelMPI libmpi.so.1 with Open
MPI libmpi_mpifh.so.2, that can happen if Intel MPI >appears first in your
LD_LIBRARY_PATH)
# echo $LD_LIBRARY_PATH
/opt/gridengine/lib/linux-x64:/opt/openmpi/lib
# ls /opt/openmpi/lib
libmpi.a libompitrace.a
Hi,
this is the relevant part of your config.log
configure:1594: checking whether the Fortran compiler works
configure:1600: ./a.out
./a.out: symbol lookup error:
/export/apps/siesta/openmpi-1.8.8/lib/libmpi_mpifh.so.2: undefined
symbol: mpi_fortran_weights_empty
configure:1603: $? = 127
c
Hi,
Following the suggestion by Gilles Gouaillardet (
https://mail-archive.com/users@lists.open-mpi.org/msg29688.html), I ran a
configure command for a program like this
# ../Src/configure FC=/export/apps/siesta/openmpi-1.8.8/bin/mpifort
--with-blas=libopenblas.a --with-lapack=liblapack.a
--with-
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