Re: problems installing openmpi_ext

[Francis Poulin]

Hello Alexander,

Sorry that I didn't see that in the fink list.  I installed it like you 
suggested and it worked beautifully.  However, most of the examples I've tried 
failed except for Pi.  I'm beginning to think this might not be the fruitful 
direction I was hoping for.

Thanks again for the help,
Francis



On 2013-08-12, at 8:53 PM, Alexander Hansen <address@hidden>
 wrote:

> On 8/12/13 5:26 AM, Francis Poulin wrote:
>> Hello,
>> 
>> Sorry for the quick send before.  I have looked into the problem and see all 
>> the dependencies are installed and even loaded (probably not necessary).
>> 
>> octave:20> pkg list
>> Package Name  | Version | Installation directory
>> --------------+---------+-----------------------
>>          bim *|   1.1.2 | /Users/fpoulin/octave/bim-1.1.2
>>          fpl *|   1.3.4 | /Users/fpoulin/octave/fpl-1.3.4
>>          msh *|   1.0.8 | /Users/fpoulin/octave/msh-1.0.8
>>     parallel *|   2.0.5 | /Users/fpoulin/octave/parallel-2.0.5
>>      splines *|   1.2.2 | /Users/fpoulin/octave/splines-1.2.2
>> 
>> Now that I try and install openmpi_ext I get the following error
>> 
>> octave:22> pkg install openmpi_ext-1.1.0.tar.gz
>> MPI_Iprobe.cc: In function 'Octave_map put_MPI_Stat(const MPI_Status&)':
>> MPI_Iprobe.cc:38:14: error: 'const struct MPI_Status' has no member named 
>> '_count'
>> make: *** [MPI_Iprobe.oct] Error 1
>> 'make' returned the following error: /opt/local/bin/mkoctfile-3.6.4 
>> -I/sw/include/openmpi/opal/mca/hwloc/hwloc132/hwloc/include -I/sw/include 
>> -I/sw/include/openmpi -L/sw/lib/openmpi -lmpi_cxx -lmpi -lm MPI_Init.cc
>> /opt/local/bin/mkoctfile-3.6.4 
>> -I/sw/include/openmpi/opal/mca/hwloc/hwloc132/hwloc/include -I/sw/include 
>> -I/sw/include/openmpi -L/sw/lib/openmpi -lmpi_cxx -lmpi -lm 
>> MPI_Initialized.cc
>> /opt/local/bin/mkoctfile-3.6.4 
>> -I/sw/include/openmpi/opal/mca/hwloc/hwloc132/hwloc/include -I/sw/include 
>> -I/sw/include/openmpi -L/sw/lib/openmpi -lmpi_cxx -lmpi -lm MPI_Comm_rank.cc
>> /opt/local/bin/mkoctfile-3.6.4 
>> -I/sw/include/openmpi/opal/mca/hwloc/hwloc132/hwloc/include -I/sw/include 
>> -I/sw/include/openmpi -L/sw/lib/openmpi -lmpi_cxx -lmpi -lm MPI_Comm_size.cc
>> /opt/local/bin/mkoctfile-3.6.4 
>> -I/sw/include/openmpi/opal/mca/hwloc/hwloc132/hwloc/include -I/sw/include 
>> -I/sw/include/openmpi -L/sw/lib/openmpi -lmpi_cxx -lmpi -lm MPI_Finalize.cc
>> /opt/local/bin/mkoctfile-3.6.4 
>> -I/sw/include/openmpi/opal/mca/hwloc/hwloc132/hwloc/include -I/sw/include 
>> -I/sw/include/openmpi -L/sw/lib/openmpi -lmpi_cxx -lmpi -lm MPI_Finalized.cc
>> /opt/local/bin/mkoctfile-3.6.4 
>> -I/sw/include/openmpi/opal/mca/hwloc/hwloc132/hwloc/include -I/sw/include 
>> -I/sw/include/openmpi -L/sw/lib/openmpi -lmpi_cxx -lmpi -lm MPI_Send.cc
>> /opt/local/bin/mkoctfile-3.6.4 
>> -I/sw/include/openmpi/opal/mca/hwloc/hwloc132/hwloc/include -I/sw/include 
>> -I/sw/include/openmpi -L/sw/lib/openmpi -lmpi_cxx -lmpi -lm MPI_Recv.cc
>> /opt/local/bin/mkoctfile-3.6.4 
>> -I/sw/include/openmpi/opal/mca/hwloc/hwloc132/hwloc/include -I/sw/include 
>> -I/sw/include/openmpi -L/sw/lib/openmpi -lmpi_cxx -lmpi -lm MPI_Iprobe.cc
>> error: called from 'pkg>configure_make' in file 
>> /opt/local/share/octave/3.6.4/m/pkg/pkg.m near line 1385, column 9
>> error: called from:
>> error:   /opt/local/share/octave/3.6.4/m/pkg/pkg.m at line 827, column 5
>> error:   /opt/local/share/octave/3.6.4/m/pkg/pkg.m at line 383, column 9
>> 
>> I have two versions of octave installed, one through macports and the other 
>> through fink. Maybe there is a conflict somewhere?  If there is an easier 
>> way to install it in my mac that would be great to know.
>> 
>> Cheers, Francis
>> _______________________________________________
> 
> For Fink, you can use "fink install openmpi-ext-oct364"  (assuming that your 
> Fink Octave is 3.6.4).  I can't speak for what you'd do via Macports.
> 
> I recommend installing Octave Forge packages through a package manager if you 
> don't need an SVN/hg version, in any case.  We handle dependencies from 
> outside of Octave, which the "pkg" command by itself can't do (yet), and we 
> can patch builds that don't work for whatever reason:  library API changes, 
> constructions that don't exist on OS X, etc.
> 
> In the case of what you're seeing, it looks like you've got an OpenMPI 
> installed which doesn't know about _count (>=1.5).  Fink's openmpi_ext 
> packaging patches for this very issue.
> -- 
> Alexander Hansen, Ph.D.
> Fink User Liaison
> My package updates: http://finkakh.wordpress.com/