[Pkg-octave-devel] Bug#601511: Reminder: switch to serial HDF5 library post-Squeeze
For future reference, I attach the mail exchange between Francesco and
me. Some of it happened by private mail.
Thomas
>From francesco@lovergine.com Mon Oct 18 23:03:12 2010
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Date: Mon, 18 Oct 2010 23:03:00 +0200
From: "Francesco P. Lovergine" <frankie@debian.org>
To: Thomas Weber <tweber@debian.org>
Subject: Re: [DebianGIS-dev] How to use libhdf5-serial-dev and -mpi/-lam
friends correctly?
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On Sun, Oct 03, 2010 at 11:40:41AM +0200, Thomas Weber wrote:
> Hi,
>
> [Please CC me, I'm not subscribed].
>
> I'm currently faced with #598227,
> http://bugs.debian.org/598227
> which concerns the way Octave uses hdf5 and its header files (or rather,
> how hdf5 includes mpi.h). Please read the bug report for information,
> it's presented there far better than I could formulate it.
>
> Background information:
> The preferred way to build binary 'extensions' or 'plugins' for Octave
> is using the mkoctfile shell script. I'm not aware of any software in
> Debian that does not use mkoctfile for building such extension.
>
> Now, I could fix the above bug by hacking mkoctfile, but somehow this
> looks like the wrong solution to me. If I include hdf.h, do I really
> have to care about mpi which may or may not be used?
>
> So, are there better solutions than adding /usr/include/mpi/ to
> mkoctfile's include flags?
>
I see no reasons why mpi.h has to be included but for the case you
are using one of the -mpi flavors. In that case you should depend
on libhdf5-mpi-dev. I don't undestand why you are trying to use
both -serial and -parallel flavors.
--
Francesco P. Lovergine
>From francesco@lovergine.com Tue Oct 19 09:52:25 2010
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Date: Tue, 19 Oct 2010 09:52:38 +0200
From: "Francesco P. Lovergine" <frankie@debian.org>
To: Thomas Weber <tweber@debian.org>
Cc: "Francesco P. Lovergine" <frankie@debian.org>
Subject: Re: [DebianGIS-dev] How to use libhdf5-serial-dev and -mpi/-lam
friends correctly?
Message-ID: <20101019075238.GA2368@blegrez.ba.issia.cnr.it>
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On Mon, Oct 18, 2010 at 11:17:46PM +0200, Thomas Weber wrote:
> > I see no reasons why mpi.h has to be included but for the case you
> > are using one of the -mpi flavors. In that case you should depend
> > on libhdf5-mpi-dev. I don't undestand why you are trying to use
> > both -serial and -parallel flavors.
>
> Both -serial and parallel flavors are used due to users' demand:
> http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=231114
> It has been like this for at least 6 years (I don't use any of the hdf5
> features of Octave).
> It used to work all the time without problems; or maybe there were
> problems all the time and nobody noticed, who knows.
>
I think this is due to the present version of hdf5. As said in the
related bug report, currently HDF5 upstream simply does not support
correctly (at least IMHO) parallel and serial flavor and Debian
never did that. So the only way to do that is providing an embedded
serial/parallel.
> Anyway, I don't mind dropping the parallel hdf5 support if that's the
> easiest way forward. Do you see another way?
>
Honestly not, but for pushing HDF5 team - already done - about things like
that. Unfortunately this is a quite cornet case: most projects use
serial xor parallel flavors. As explained, diverging from upstream
would be out of question: it would require patching for ever
both hdf5 and all reverse dependencies (at least for parallel support).
--
Francesco P. Lovergine
>From francesco@lovergine.com Wed Oct 27 09:29:40 2010
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From: "Francesco P. Lovergine" <frankie@debian.org>
To: Thomas Weber <tweber@debian.org>
Cc: "Francesco P. Lovergine" <frankie@debian.org>
Subject: Re: [DebianGIS-dev] How to use libhdf5-serial-dev and -mpi/-lam
friends correctly?
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On Tue, Oct 26, 2010 at 11:11:42PM +0200, Thomas Weber wrote:
> Hi Francesco,
>
> you sent your mails only to me. Do you mind if I put them into the BTS
> for future reference?
>
> Thanks
> Thomas
Yes, do that please.
--
Francesco P. Lovergine
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Date: Sun, 3 Oct 2010 11:40:41 +0200
From: Thomas Weber <tweber@debian.org>
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Cc: Debian Octave Group <pkg-octave-devel@lists.alioth.debian.org>
Subject: [Pkg-octave-devel] How to use libhdf5-serial-dev and -mpi/-lam
friends correctly?
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Hi,
[Please CC me, I'm not subscribed].
I'm currently faced with #598227,
http://bugs.debian.org/598227
which concerns the way Octave uses hdf5 and its header files (or rather,
how hdf5 includes mpi.h). Please read the bug report for information,
it's presented there far better than I could formulate it.
Background information:
The preferred way to build binary 'extensions' or 'plugins' for Octave
is using the mkoctfile shell script. I'm not aware of any software in
Debian that does not use mkoctfile for building such extension.
Now, I could fix the above bug by hacking mkoctfile, but somehow this
looks like the wrong solution to me. If I include hdf.h, do I really
have to care about mpi which may or may not be used?
So, are there better solutions than adding /usr/include/mpi/ to
mkoctfile's include flags?
Thanks
Thomas
_______________________________________________
Pkg-octave-devel mailing list
Pkg-octave-devel@lists.alioth.debian.org
http://lists.alioth.debian.org/mailman/listinfo/pkg-octave-devel
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Date: Mon, 18 Oct 2010 21:33:31 +0200
From: Thomas Weber <tweber@debian.org>
To: pkg-grass-devel@lists.alioth.debian.org,
Debian Octave Group <pkg-octave-devel@lists.alioth.debian.org>
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Subject: Re: [Pkg-octave-devel] How to use libhdf5-serial-dev and -mpi/-lam
friends correctly?
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On Sun, Oct 03, 2010 at 11:40:41AM +0200, Thomas Weber wrote:
> Hi,
> So, are there better solutions than adding /usr/include/mpi/ to
> mkoctfile's include flags?
Ping.
Thomas
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>From tweber@debian.org Mon Oct 18 23:17:46 2010
Date: Mon, 18 Oct 2010 23:17:46 +0200
From: Thomas Weber <tweber@debian.org>
To: "Francesco P. Lovergine" <frankie@debian.org>
Subject: Re: [DebianGIS-dev] How to use libhdf5-serial-dev and -mpi/-lam
friends correctly?
Message-ID: <20101018211746.GA2472@atlan>
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On Mon, Oct 18, 2010 at 11:03:00PM +0200, Francesco P. Lovergine wrote:
> On Sun, Oct 03, 2010 at 11:40:41AM +0200, Thomas Weber wrote:
> > Hi,
> >
> > [Please CC me, I'm not subscribed].
> >
> > I'm currently faced with #598227,
> > http://bugs.debian.org/598227
> > which concerns the way Octave uses hdf5 and its header files (or rather,
> > how hdf5 includes mpi.h). Please read the bug report for information,
> > it's presented there far better than I could formulate it.
> >
> > Background information:
> > The preferred way to build binary 'extensions' or 'plugins' for Octave
> > is using the mkoctfile shell script. I'm not aware of any software in
> > Debian that does not use mkoctfile for building such extension.
> >
> > Now, I could fix the above bug by hacking mkoctfile, but somehow this
> > looks like the wrong solution to me. If I include hdf.h, do I really
> > have to care about mpi which may or may not be used?
> >
> > So, are there better solutions than adding /usr/include/mpi/ to
> > mkoctfile's include flags?
> >
>
>
> I see no reasons why mpi.h has to be included but for the case you
> are using one of the -mpi flavors. In that case you should depend
> on libhdf5-mpi-dev. I don't undestand why you are trying to use
> both -serial and -parallel flavors.
Both -serial and parallel flavors are used due to users' demand:
http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=231114
It has been like this for at least 6 years (I don't use any of the hdf5
features of Octave).
It used to work all the time without problems; or maybe there were
problems all the time and nobody noticed, who knows.
Anyway, I don't mind dropping the parallel hdf5 support if that's the
easiest way forward. Do you see another way?
Thomas
>From tweber@debian.org Tue Oct 26 23:11:42 2010
Date: Tue, 26 Oct 2010 23:11:42 +0200
From: Thomas Weber <tweber@debian.org>
To: "Francesco P. Lovergine" <frankie@debian.org>
Subject: Re: [DebianGIS-dev] How to use libhdf5-serial-dev and -mpi/-lam
friends correctly?
Message-ID: <20101026211142.GA21365@atlan>
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Hi Francesco,
you sent your mails only to me. Do you mind if I put them into the BTS
for future reference?
Thanks
Thomas
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