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gnu: petsc-openmpi: Configure with support for hdf5 data format. 

* gnu/packages/maths.scm (petsc-openmpi)[inputs]: Add
hdf5-parallel-openmpi.
[arguments]: Add '--with-hdf5-include' and '--with-hdf5-lib'
flags.  Add 'set-test-environment' phase.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
This commit is contained in:
Paul Garlick 2018-09-03 11:57:38 +01:00 committed by Ludovic Courtès
parent b50658fe8a
commit 71ca16b58d
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1 changed files with 17 additions and 2 deletions
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19
gnu/packages/maths.scm
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@ -15,7 +15,7 @@
;;; Copyright © 2016, 2017, 2018 Ludovic Courtès <ludo@gnu.org>
;;; Copyright © 2016 Leo Famulari <leo@famulari.name>
;;; Copyright © 2016, 2017 Thomas Danckaert <post@thomasdanckaert.be>
;;; Copyright © 2017 Paul Garlick <pgarlick@tourbillion-technology.com>
;;; Copyright © 2017, 2018 Paul Garlick <pgarlick@tourbillion-technology.com>
;;; Copyright © 2017 Nils Gillmann <ng0@n0.is>
;;; Copyright © 2017 Ben Woodcroft <donttrustben@gmail.com>
;;; Copyright © 2017 Theodoros Foradis <theodoros@foradis.org>
@ -1685,6 +1685,7 @@ scientific applications modeled by partial differential equations.")
(name "petsc-openmpi")
(inputs
`(("openmpi" ,openmpi)
("hdf5" ,hdf5-parallel-openmpi)
,@(package-inputs petsc)))
(arguments
(substitute-keyword-arguments (package-arguments petsc)
@ -1692,7 +1693,21 @@ scientific applications modeled by partial differential equations.")
``("--with-mpiexec=mpirun"
,(string-append "--with-mpi-dir="
(assoc-ref %build-inputs "openmpi"))
,@(delete "--with-mpi=0" ,cf)))))
,(string-append "--with-hdf5-include="
(assoc-ref %build-inputs "hdf5") "/include")
,(string-append "--with-hdf5-lib="
(assoc-ref %build-inputs "hdf5") "/lib/libhdf5.a")
,@(delete "--with-mpi=0" ,cf)))
((#:phases phases)
`(modify-phases ,phases
(add-before 'check 'set-test-environment
(lambda _
;; By default, running the test suite would fail because 'ssh'
;; could not be found in $PATH. Define this variable to
;; placate Open MPI without adding a dependency on OpenSSH (the
;; agent isn't used anyway.)
(setenv "OMPI_MCA_plm_rsh_agent" (which "cat"))
#t))))))
(synopsis "Library to solve PDEs (with MPI support)")))
(define-public petsc-complex-openmpi