Entire package time :-( On Apr 11, 2013, at 7:02 AM, Matthew Knepley <[email protected]> wrote:

On Wed, Apr 10, 2013 at 7:53 PM, Satish Balay <[email protected]> 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.

Matt

Satish

On Wed, 10 Apr 2013, Barry Smith wrote:

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Shouldn't this be fixed by now in PETSc-dev?

Begin forwarded message:

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From: Satish Balay <[email protected]> Subject: Re: [petsc-users] cannot find 'libz.a' when configuring Date: April 10, 2013 5:21:38 PM CDT To: PETSc users list <[email protected]> Reply-To: PETSc users list <[email protected]>

try using configure option LIBS="-L/opt/zlib-1.2.7/lib -lz'

Satish

On Wed, 10 Apr 2013, Seungbum Koo wrote:

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Hi. I tried to add hdf5 when configuring. HDF5-1.8.9 is currently installed with szip-2.1 and zlib-1.2.7.

It stops with message

******************************************************************************* UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for details): ------------------------------------------------------------------------------- Compression library [libz.a or equivalent] not found *******************************************************************************

What I don't understand is that 'libz.a' file exists in '/opt/zlib-1.2.7/lib'. What should I do?

Seungbum

-- 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