[petsc-dev] Fwd: [petsc-users] cannot find 'libz.a' when configuring

[Matthew Knepley]

On Thu, Apr 11, 2013 at 9:38 AM, Satish Balay <balay at mcs.anl.gov> wrote:

> On Thu, 11 Apr 2013, Matthew Knepley wrote:
>
> > On Thu, Apr 11, 2013 at 9:17 AM, Satish Balay <balay at mcs.anl.gov> wrote:
> >
> > > On Thu, 11 Apr 2013, Matthew Knepley wrote:
> > >
> > > > On Wed, Apr 10, 2013 at 7:53 PM, Satish Balay <balay at mcs.anl.gov>
> wrote:
> > > >
> > > > > How do we handle these packages with complicated dependencies [they
> > > > > are complicated as petsc dependencies?]
> > > > >
> > > > > In this report hdf5 was built with szip-2.1 and zlib-1.2.7. So how
> > > > > does petsc configure automatically detect this?
> > > > >
> > > > > And I've recently used the following for hdf5/necddf5 on fusion
> [with
> > > > > the extra implicit depenceny of hdf5 on zlib, and netcdf5 on hdf5
> from
> > > > > within configure]
> > > > >
> > > > >     '--with-hdf5-lib=-L/soft/hdf5/1.8.6-parallel/lib -lhdf5_hl
> -lhdf5
> > > > > -lgpfs',
> > > > >
> > > > >     '--with-netcdf-lib=-L/soft/netcdf/4.1.1-parallel/lib -lnetcdff
> > > > > -lnetcdf -L/usr/kerberos/lib64 -lcurl -ldl -lgssapi_krb5 -lkrb5
> > > -lk5crypto
> > > > > -lcom_err -lidn -lssl -lcrypto -lz',
> > > > >
> > > > > Yeah - things work if the user knows the dependencies and the link
> > > > > command for those dependencies - and specify it to petsc configure
> as
> > > > > above. But I'm not sure how to autodetect this.
> > > > >
> > > > > Also currently -lz is handled in package.py with
> > > > > 'self.needsCompression' similar to 'self.needsMath' with the
> detection
> > > > > of -lz in libraires.py:checkCompression() - but one can't specify a
> > > > > --with-zlib-lib option this way. I guess this part can be fixed by
> > > > > migrating it a standalone package z.py. [And somehow handle the
> > > > > optional part of this dependency for hdf5]
> > > >
> > > >
> > > > We already have a mechanism for this. Lots of packages depend on
> > > > other packages. This is just screwed up in the case of libz because
> > > > someone (maybe me) did not want to write an entire package file for
> > > > it, and instead copped out with the needsCompression.
> > >
> > > Currently we handle 'mandatory' dependencies properly - and optional
> > > >depencencies for --download-pakcage somewhat - but not for
> > > --with-package-dir
> > >
> > > For hdf5 - handling just zlib.py is not sufficient. Do we add szip.py,
> > > zlib.py, gpfs.py [and perhaps more] for hdf5? And somehow use these as
> > > optionaly when testing for user provided --with-hdf5? Which package
> > > currently implements this usage [to check for this optionaly
> > > dependency - and give the correct error]?
> > >
> > > i.e In this case - when the user specified --with-hdf5-dir option. We
> > > had to print an error.:
> > >  * please provide --with-zlib-dir and --with-szip-dir options.
> > > [For a different user - with the same usage - there would be no error]
> > >
> > > For netcdf above one would have kerbros.py, curl.py and perhaps more?
> >
> >
> > We have had this same discussion a million times, and we always
> eventually
> > get to the same answer and forget. Do we need our own error message for
> > petsc-dev?
> >
> > We cannot possibly guess everything that can go wrong. What we need is a
> > system
> > where the user can specify what he actually wants and we check it. So,
> zlib
> > and
> > everything else are optional dependencies for hdf5. If something is not
> > specified, it
> > fails, and the user goes back and specifies the right thing.
>
> Sure - but specify how? specify everything with
> --with-hdf5-lib,--with-hdf5-include options?
>
> Or somehow he knows that he has to specify
> --with-zlib-include/-with-zlib-lib options?
>

This. It would be nice if HDF5 would tell us about its dependencies, but if
it does not, then
the user has to, and this is our system (packages).

   Matt


> This thread started becasue one expected --with-hdf5-dir to be
> sufficient - and its not.  current workarround [becuase of
> self.needsCompression] is to specify zlib with LIBS otpions - and all
> other dependencies with --with-hdf5-lib. It works - but if were were
> satisfactory - this whole thread on petsc-dev wouldn't arise.
>
> Satish
>



-- 
What most experimenters take for granted before they begin their
experiments is infinitely more interesting than any results to which their
experiments lead.
-- Norbert Wiener
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