Re: octave install

[Tatsuro MATSUOKA]

--- On Wed, 2014/4/9, Tatsuro MATSUOKA <address@hidden> wrote:

> --- On Wed, 2014/4/9, address@hidden <address@hidden> wrote:
> 
> > On Wednesday, April 09, 2014 03:10 PM, Tatsuro MATSUOKA wrote:
> > > --- On Wed, 2014/4/9, address@hidden wrote:
> > >
> > >> On Wednesday, April 09, 2014 10:56 AM, Tatsuro MATSUOKA wrote:
> > >>> --- On Wed, 2014/4/9, Fausto Arinos de A. Barbuto  wrote:
> > >>>>
> > >>>>
> > >>>> On Tuesday, April 8, 2014 6:48:17 PM, Tatsuro MATSUOKA  wrote:
> > >>>>
> > >>>> --- On Wed, 2014/4/9, Fausto Arinos de A. Barbuto wrote:
> > >>>>>> Hi, Tatsuro.  Thanks for your reply.
> > >>>>>>
> > >>>>>> Unfortunately, I didn't keep a build log neither did I save the error
> > >>>>>> messages that were displayed onto the xterm.  But I will definitely
> > >>>>>> save a log and will post it here should I ever decide to try 
> > >>>>>> installing
> > >>>>>> 3.8 on my computer again.
> > >>>>>>
> > >>>>>> For the time being, a question stands: why should gmsh be removed 
> > >>>>>> from
> > >>>>>> the system upon the installation of Octave 3.8's dependencies?  I 
> > >>>>>> fail
> > >>>>>> to understand why.
> > >>>>>
> > >>>>> I have not used gmsh. If I can find time, I will try to install gmsh 
> > >>>>> and build octave-3.8.1 and see what will happen.
> > >>>>>
> > >>>>
> > >>>>
> > >>>> You may have other stuff uninstalled.  Watch out.
> > >>>>
> > >>>> Fausto
> > >>>>
> > >>>
> > >>> I installed the gmsh using the synaptic packge manager and built 
> > >>> octave-3.8.1.
> > >>> I could build it without any errors.
> > >>>
> > >>> make check results:
> > >>>
> > >>> Summary:
> > >>>
> > >>>      PASS     11537
> > >>>      FAIL         0
> > >>>      XFAIL        7
> > >>>      SKIPPED      2
> > >>>
> > >>> I noticed that a few octave depency libraries (e.g hd5) were replaced 
> > >>> in installing the gmsh.
> > >>
> > >> Is your self-compiled octave built against libhdf5-openmpi or
> > >> libhdf5-serial? They conflict with one another. The former was pulled in
> > >> by gmsh, along the chain of dependencies.
> > >>
> > >> Regards,
> > >> ST
> > >> --
> > >
> > >> Is your self-compiled octave built against libhdf5-openmpi or
> > >> libhdf5-serial?
> > >
> > > libhdf5-openmpi
> > >
> > > The synaptic package manager uninstalled libhdf5-serial and installed 
> > > libhdf5-openmpi at installing gmsh.
> > 
> > The reason I ask is, for me (ubuntu 12.10 quantal, hdf5 1.8.8-9 and 
> > libraries pulled in by apt-get), "configure" does *not* pick up hdf5.h 
> > from libhdf5-openmpi-dev. (It does pick up hdf5.h from libhdf5-dev which 
> > is from the serial version.)
> > 
> > My octave_config_info shows
> >          HDF5 = 0
> >          HDF5_18 = 0
> >          HDF5_H = 0
> > 
> > Can you check that for me in your built? Or you have specified 
> > something in the configure options to pick it up?
> > 
> > Regards,
> > ST
> 
> Sorry my build was lack of libhdf5*-dev so that hdf5 was disabled.  I will 
> check libhdf5openmpi-dev and check the configure behavior.
> 
> Regards
> 
> Tatsuro
> Sorry my build was lack of lighdf
>  

I checked config.log

configure:15393: gcc -c -g -O2 -pthread    conftest.c >&5
In file included from /usr/include/hdf5.h:24:0,
                 from conftest.c:90:
/usr/include/H5public.h:57:20: fatal error: mpi.h: No such file or directory
compilation terminated.
configure:15393: $? = 1

The lack of mpi.h from openmpi is the origin of misdectioning 
libhdf5openmpi-dev.

According to the synaptic package manager, openmpi on Ubuntu 12.04 LTS does not 
have dev package.  The version of openmpi bundled with gmsh is 1.4.3.  I have 
build openmpi-1.4.3 from source and installed to /usr/local.

The configure of octave-3.8.1 successfully detected hdf5.
Now I am executing "make".

After "make" finished I will report the results.

Regards
Tatsuro