mirror of
https://gitlab.univ-nantes.fr/glicid-public/guix-glicid.git
synced 2025-04-29 21:58:36 +02:00
Merge branch 'GM_dealii' into 'main'
Gm dealii See merge request glicid-public/guix-glicid!423
This commit is contained in:
commit
d97ae3d7ca
1 changed files with 193 additions and 2 deletions
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@ -10,8 +10,112 @@
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#:use-module (gnu packages compression)
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#:use-module (guix build-system cmake)
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#:use-module ((guix licenses) #:prefix license:)
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#:use-module (glicid utils))
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#:use-module (glicid utils)
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#:use-module (ice-9 regex)
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#:use-module (ice-9 match)
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#:use-module (guix gexp)
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#:use-module ((guix build utils) #:select (alist-replace))
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#:use-module (guix build-system ant)
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#:use-module (guix build-system copy)
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#:use-module (guix build-system dune)
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#:use-module (guix build-system glib-or-gtk)
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#:use-module (guix build-system gnu)
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#:use-module (guix build-system meson)
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#:use-module (guix build-system ocaml)
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#:use-module (guix build-system perl)
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#:use-module (guix build-system pyproject)
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#:use-module (guix build-system python)
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#:use-module (guix build-system ruby)
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#:use-module (gnu packages algebra)
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#:use-module (gnu packages audio)
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#:use-module (gnu packages autotools)
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#:use-module (gnu packages backup)
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#:use-module (gnu packages base)
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#:use-module (gnu packages bash)
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#:use-module (gnu packages bison)
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#:use-module (gnu packages boost)
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#:use-module (gnu packages calendar)
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#:use-module (gnu packages check)
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#:use-module (gnu packages cmake)
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#:use-module (gnu packages coq)
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#:use-module (gnu packages curl)
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#:use-module (gnu packages cyrus-sasl)
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#:use-module (gnu packages cpp)
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#:use-module (gnu packages datamash)
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#:use-module (gnu packages dbm)
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#:use-module (gnu packages documentation)
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#:use-module (gnu packages elf)
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#:use-module (gnu packages emacs)
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#:use-module (gnu packages file)
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#:use-module (gnu packages flex)
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#:use-module (gnu packages fltk)
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#:use-module (gnu packages fontutils)
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#:use-module (gnu packages freedesktop)
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#:use-module (gnu packages gettext)
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#:use-module (gnu packages gcc)
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#:use-module (gnu packages gd)
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#:use-module (gnu packages ghostscript)
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#:use-module (gnu packages glib)
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#:use-module (gnu packages gperf)
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#:use-module (gnu packages graphviz)
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#:use-module (gnu packages groff)
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#:use-module (gnu packages gtk)
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#:use-module (gnu packages icu4c)
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#:use-module (gnu packages image)
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#:use-module (gnu packages image-processing)
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#:use-module (gnu packages java)
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#:use-module (gnu packages less)
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#:use-module (gnu packages lisp)
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#:use-module (gnu packages linux)
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#:use-module (gnu packages llvm)
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#:use-module (gnu packages logging)
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#:use-module (gnu packages lua)
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#:use-module (gnu packages gnome)
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#:use-module (gnu packages guile)
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#:use-module (gnu packages xorg)
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#:use-module (gnu packages gl)
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#:use-module (gnu packages imagemagick)
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#:use-module (gnu packages m4)
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#:use-module (gnu packages mpi)
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#:use-module (gnu packages multiprecision)
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#:use-module (gnu packages ncurses)
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#:use-module (gnu packages netpbm)
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#:use-module (gnu packages ocaml)
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#:use-module (gnu packages onc-rpc)
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#:use-module (gnu packages parallel)
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#:use-module (gnu packages pcre)
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#:use-module (gnu packages popt)
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#:use-module (gnu packages perl)
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#:use-module (gnu packages prolog)
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#:use-module (gnu packages pkg-config)
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#:use-module (gnu packages pulseaudio)
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#:use-module (gnu packages python)
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#:use-module (gnu packages python-build)
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#:use-module (gnu packages python-science)
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#:use-module (gnu packages python-web)
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#:use-module (gnu packages python-xyz)
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#:use-module (gnu packages qt)
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#:use-module (gnu packages readline)
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#:use-module (gnu packages ruby)
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#:use-module (gnu packages tbb)
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#:use-module (gnu packages scheme)
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#:use-module (gnu packages serialization)
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#:use-module (gnu packages shells)
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#:use-module (gnu packages simulation)
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#:use-module (gnu packages sphinx)
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#:use-module (gnu packages sqlite)
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#:use-module (gnu packages swig)
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#:use-module (gnu packages tcl)
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#:use-module (gnu packages texinfo)
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#:use-module (gnu packages tex)
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#:use-module (gnu packages time)
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#:use-module (gnu packages tls)
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#:use-module (gnu packages version-control)
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#:use-module (gnu packages wxwidgets)
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#:use-module (gnu packages xdisorg)
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#:use-module (gnu packages xml)
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#:use-module (srfi srfi-1)
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#:use-module (srfi srfi-26))
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(define-public scalapack-upstream
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(package
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(inherit gnu:scalapack)
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@ -103,3 +207,90 @@
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(license license:bsd-3))
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)
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(define-public glicid-dealii
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(package
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(inherit gnu:dealii)
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(version "9.6.0")
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(name "glicid-dealii")
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(arguments
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(list #:build-type "Release" ; Only Debug, Release or DebugRelease.
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;; The tests take too long and must be explicitly enabled with
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;; "make setup_tests".
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;; See https://www.dealii.org/developer/developers/testsuite.html.
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;; (They can also be run for an already installed deal.II.)
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#:tests? #f
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#:configure-flags
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#~(let ((doc (string-append #$output:doc "/share/doc/"
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#$name "-" #$version)))
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(list "-DDEAL_II_COMPONENT_DOCUMENTATION=OFF"
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(string-append "-DCMAKE_CXX_FLAGS='-march=znver3'")
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(string-append "-DDEAL_II_DOCREADME_RELDIR=" doc)
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(string-append "-DDEAL_II_DOCHTML_RELDIR=" doc "/html")
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;; Don't compile the examples because the source and
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;; CMakeLists.txt are installed anyway, allowing users to
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;; do so for themselves.
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"-DDEAL_II_COMPILE_EXAMPLES=OFF"
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(string-append "-DDEAL_II_EXAMPLES_RELDIR=" doc
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"/examples")))
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#:phases
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#~(modify-phases %standard-phases
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;; Without unsetting CPATH, the build fails with the following
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;; error (similar to <https://bugs.gnu.org/30756>):
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;;
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;; /gnu/store/…-gcc-11.3.0/include/c++/math.h:30:16: fatal error: math.h: No such file or directory
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;; 30 | # include_next <math.h>
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;; | ^~~~~~~~
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;;
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;; Why does unsetting CPATH magically fix the error?
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;; TODO: Properly fix this issue.
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(add-after 'set-paths 'unset-cpath
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(lambda _
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(unsetenv "CPATH")))
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(add-after 'install 'remove-build-logs
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;; These build logs leak the name of the build directory by
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;; storing the values of CMAKE_SOURCE_DIR and
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;; CMAKE_BINARY_DIR.
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(lambda _
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(let ((doc (string-append #$output:doc "/share/doc/"
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#$name "-" #$version)))
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(for-each delete-file
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(map (lambda (f) (string-append doc "/" f))
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'("detailed.log" "summary.log")))))))))
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))
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(define trilinos-for-dealii-openmpi
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(@@ (gnu packages maths) trilinos-for-dealii-openmpi))
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(define-public glicid-dealii-openmpi
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(package
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(inherit glicid-dealii)
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(name "glicid-dealii-openmpi")
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(inputs
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(modify-inputs (package-inputs glicid-dealii)
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(delete "arpack")
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(prepend gnu:arpack-ng-openmpi
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gnu:metis
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gnu:scalapack)))
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(propagated-inputs
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(modify-inputs (package-propagated-inputs glicid-dealii)
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(delete "hdf5" "kokkos" "sundials")
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(prepend gnu:hdf5-parallel-openmpi
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gnu:openmpi
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gnu:p4est-openmpi
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gnu:petsc-openmpi
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gnu:slepc-openmpi
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gnu:sundials-openmpi
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gnu:trilinos-for-dealii-openmpi)))
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(arguments
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(substitute-keyword-arguments (package-arguments gnu:glicid-dealii)
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((#:configure-flags flags)
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#~(cons "-DDEAL_II_WITH_MPI=ON" #$flags))
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((#:phases phases #~%standard-phases)
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#~(modify-phases #$phases
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;; The build failure fixed by this phase does not manifest when
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;; Kokkos is included via Trilinos.
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(delete 'unset-cpath)))))
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(synopsis "Finite element library (with MPI support)")))
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