(address . guix-patches@gnu.org)(name . Paul Garlick)(address . pgarlick@tourbillion-technology.com)
1535972258-5183-1-git-send-email-pgarlick@tourbillion-technology.com
* 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.
---
gnu/packages/maths.scm | 19 +++++++++++++++++--
1 file changed, 17 insertions(+), 2 deletions(-)
Toggle diff (46 lines)
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 377e47b..465bf92 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -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>
@@ -1690,6 +1690,7 @@ 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)
@@ -1697,7 +1698,21 @@ 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
--
1.8.3.1