Open MPI logo

Open MPI User's Mailing List Archives

  |   Home   |   Support   |   FAQ   |   all Open MPI User's mailing list

Subject: Re: [OMPI users] openmpi configuration error?
From: Ben Lash (bl10_at_[hidden])
Date: 2014-05-21 14:36:53


Yep, there is is.

[bl10_at_login2 USlogsminus10]$ module show netcdf/4.1.3
-------------------------------------------------------------------
/opt/apps/modulefiles/netcdf/4.1.3:

module load openmpi/1.4.4-intel
prepend-path PATH
/opt/apps/netcdf/4.1.3/bin:/opt/apps/netcdf/4.1.3/deps/hdf5/1.8.7/bin
prepend-path LD_LIBRARY_PATH
/opt/apps/netcdf/4.1.3/lib:/opt/apps/netcdf/4.1.3/deps/hdf5/1.8.7/lib:/opt/apps/netcdf/4.1.3/deps/szip/2.1/lib
prepend-path MANPATH /opt/apps/netcdf/4.1.3/share/man
-------------------------------------------------------------------

On Wed, May 21, 2014 at 1:34 PM, Douglas L Reeder <dlr1_at_[hidden]>wrote:

> Ben,
>
> The netcdf/4.1.3 module maybe loading the openmpi/1.4.4 module. Can you do
> module show the netcdf module file to to see if there is a module load
> openmpi command.
>
> Doug Reeder
>
> On May 21, 2014, at 12:23 PM, Ben Lash <bl10_at_[hidden]> wrote:
>
> I just wanted to follow up for anyone else who got a similar problem -
> module load netcdf/4.1.3 *also* loaded openmpi/1.4.4. Don't ask me why.
> My code doesn't seem to fail as gracefully but otherwise works now. Thanks.
>
>
> On Sat, May 17, 2014 at 6:02 AM, Jeff Squyres (jsquyres) <
> jsquyres_at_[hidden]> wrote:
>
>> Ditto -- Lmod looks pretty cool. Thanks for the heads up.
>>
>>
>> On May 16, 2014, at 6:23 PM, Douglas L Reeder <dlr1_at_[hidden]>
>> wrote:
>>
>> > Maxime,
>> >
>> > I was unaware of Lmod. Thanks for bringing it to my attention.
>> >
>> > Doug
>> > On May 16, 2014, at 4:07 PM, Maxime Boissonneault <
>> maxime.boissonneault_at_[hidden]> wrote:
>> >
>> >> Instead of using the outdated and not maintained Module environment,
>> why not use Lmod : https://www.tacc.utexas.edu/tacc-projects/lmod
>> >>
>> >> It is a drop-in replacement for Module environment that supports all
>> of their features and much, much more, such as :
>> >> - module hierarchies
>> >> - module properties and color highlighting (we use it to higlight
>> bioinformatic modules or tools for example)
>> >> - module caching (very useful for a parallel filesystem with tons of
>> modules)
>> >> - path priorities (useful to make sure personal modules take
>> precendence over system modules)
>> >> - export module tree to json
>> >>
>> >> It works like a charm, understand both TCL and Lua modules and is
>> actively developped and debugged. There are litteraly new features every
>> month or so. If it does not do what you want, odds are that the developper
>> will add it shortly (I've had it happen).
>> >>
>> >> Maxime
>> >>
>> >> Le 2014-05-16 17:58, Douglas L Reeder a écrit :
>> >>> Ben,
>> >>>
>> >>> You might want to use module (source forge) to manage paths to
>> different mpi implementations. It is fairly easy to set up and very robust
>> for this type of problem. You would remove contentious application paths
>> from you standard PATH and then use module to switch them in and out as
>> needed.
>> >>>
>> >>> Doug Reeder
>> >>> On May 16, 2014, at 3:39 PM, Ben Lash <bl10_at_[hidden]> wrote:
>> >>>
>> >>>> My cluster has just upgraded to a new version of MPI, and I'm using
>> an old one. It seems that I'm having trouble compiling due to the compiler
>> wrapper file moving (full error here: http://pastebin.com/EmwRvCd9)
>> >>>> "Cannot open configuration file
>> /opt/apps/openmpi/1.4.4-intel/share/openmpi/mpif90-wrapper-data.txt"
>> >>>>
>> >>>> I've found the file on the cluster at
>> /opt/apps/openmpi/retired/1.4.4-intel/share/openmpi/mpif90-wrapper-data.txt
>> >>>> How do I tell the old mpi wrapper where this file is?
>> >>>> I've already corrected one link to mpich ->
>> /opt/apps/openmpi/retired/1.4.4-intel/, which is in the software I'm trying
>> to recompile's lib folder (/home/bl10/CMAQv5.0.1/lib/x86_64/ifort). Thanks
>> for any ideas. I also tried changing $pkgdatadir based on what I read here:
>> >>>>
>> http://www.open-mpi.org/faq/?category=mpi-apps#default-wrapper-compiler-flags
>> >>>>
>> >>>> Thanks.
>> >>>>
>> >>>> --Ben L
>> >>>> _______________________________________________
>> >>>> users mailing list
>> >>>> users_at_[hidden]
>> >>>> http://www.open-mpi.org/mailman/listinfo.cgi/users
>> >>>
>> >>>
>> >>>
>> >>> _______________________________________________
>> >>> users mailing list
>> >>>
>> >>> users_at_[hidden]
>> >>> http://www.open-mpi.org/mailman/listinfo.cgi/users
>> >>
>> >>
>> >> --
>> >> ---------------------------------
>> >> Maxime Boissonneault
>> >> Analyste de calcul - Calcul Québec, Université Laval
>> >> Ph. D. en physique
>> >>
>> >> _______________________________________________
>> >> users mailing list
>> >> users_at_[hidden]
>> >> http://www.open-mpi.org/mailman/listinfo.cgi/users
>> >
>> > _______________________________________________
>> > users mailing list
>> > users_at_[hidden]
>> > http://www.open-mpi.org/mailman/listinfo.cgi/users
>>
>>
>> --
>> Jeff Squyres
>> jsquyres_at_[hidden]
>> For corporate legal information go to:
>> http://www.cisco.com/web/about/doing_business/legal/cri/
>>
>> _______________________________________________
>> users mailing list
>> users_at_[hidden]
>> http://www.open-mpi.org/mailman/listinfo.cgi/users
>>
>>
>
>
> --
> --Ben L
> _______________________________________________
> users mailing list
> users_at_[hidden]
> http://www.open-mpi.org/mailman/listinfo.cgi/users
>
>
>
> _______________________________________________
> users mailing list
> users_at_[hidden]
> http://www.open-mpi.org/mailman/listinfo.cgi/users
>

-- 
--Ben L