commit: bceaf1c4863043585716dd8c293bd9047b49a9cb Author: Alessandro Barbieri <lssndrbarbieri <AT> gmail <DOT> com> AuthorDate: Mon Nov 8 16:57:36 2021 +0000 Commit: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org> CommitDate: Tue Jan 4 15:16:58 2022 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=bceaf1c4
sci-mathematics/petsc: EAPI 8 Closes: https://bugs.gentoo.org/820899 Package-Manager: Portage-3.0.28, Repoman-3.0.3 Signed-off-by: Alessandro Barbieri <lssndrbarbieri <AT> gmail.com> Closes: https://github.com/gentoo/gentoo/pull/22866 Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> gentoo.org> sci-mathematics/petsc/metadata.xml | 7 +- sci-mathematics/petsc/petsc-3.15.0-r1.ebuild | 194 +++++++++++++++++++++++++++ 2 files changed, 198 insertions(+), 3 deletions(-) diff --git a/sci-mathematics/petsc/metadata.xml b/sci-mathematics/petsc/metadata.xml index 0e7b7486eb3a..f6072e8edac1 100644 --- a/sci-mathematics/petsc/metadata.xml +++ b/sci-mathematics/petsc/metadata.xml @@ -12,12 +12,13 @@ <use> <flag name="afterimage">Use Afterstep image library (media-libs/libafterimage)</flag> <flag name="boost">Use boost (dev-libs/boost)</flag> - <flag name="hypre">Use HYPRE (sci-mathematics/hypre) and for preconditioning</flag> <flag name="complex-scalars">Make scalars complex</flag> + <flag name="hypre">Use HYPRE (sci-mathematics/hypre) and for preconditioning</flag> + <flag name="int64">Use 64 bit indexes</flag> <flag name="metis">Add support for metis (<pkg>sci-libs/parmetis</pkg>)</flag> - <flag name="sparse">Use suitesparse (sci-libs/suitesparse) including cholmod (sci-libs/cholmod) for sparse factorization</flag> - <flag name="superlu">Use superlu (sci-libs/superlu) for preconditioning</flag> <flag name="mumps">Add support for mumps (<pkg>sci-libs/mumps</pkg>)</flag> <flag name="scotch">Add support for scotch (<pkg>sci-libs/scotch</pkg>)</flag> + <flag name="sparse">Use suitesparse (sci-libs/suitesparse) including cholmod (sci-libs/cholmod) for sparse factorization</flag> + <flag name="superlu">Use superlu (sci-libs/superlu) for preconditioning</flag> </use> </pkgmetadata> diff --git a/sci-mathematics/petsc/petsc-3.15.0-r1.ebuild b/sci-mathematics/petsc/petsc-3.15.0-r1.ebuild new file mode 100644 index 000000000000..5da94f15ff16 --- /dev/null +++ b/sci-mathematics/petsc/petsc-3.15.0-r1.ebuild @@ -0,0 +1,194 @@ +# Copyright 1999-2021 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_{8..10} pypy3 ) + +inherit flag-o-matic fortran-2 python-any-r1 toolchain-funcs + +DESCRIPTION="Portable, Extensible Toolkit for Scientific Computation" +HOMEPAGE="https://www.mcs.anl.gov/petsc"; +SRC_URI="http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/${P}.tar.gz"; + +LICENSE="BSD-2" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="afterimage boost complex-scalars cxx debug fftw +fortran hdf5 hypre int64 mpi metis mumps scotch superlu threads X" + +# readd sparse when suitesparse-5.6.0 is in tree +# sparse? ( >=sci-libs/suitesparse-5.6.0 >=sci-libs/cholmod-1.7.0 ) +# $(use_with sparse suitesparse) \ +RDEPEND=" + virtual/blas + virtual/lapack + + afterimage? ( media-libs/libafterimage ) + boost? ( dev-libs/boost ) + fftw? ( sci-libs/fftw:3.0[mpi?] ) + hdf5? ( sci-libs/hdf5[mpi?] ) + hypre? ( >=sci-libs/hypre-2.18.0[int64?,mpi?] ) + metis? ( >=sci-libs/parmetis-4 ) + mpi? ( virtual/mpi[cxx?,fortran?] ) + mumps? ( sci-libs/mumps[mpi?] sci-libs/scalapack ) + scotch? ( sci-libs/scotch[int64?,mpi?] ) + superlu? ( >=sci-libs/superlu-5 ) + X? ( x11-libs/libX11 ) +" +DEPEND=" + ${RDEPEND} + ${PYTHON_DEPS} +" +BDEPEND=" + dev-util/cmake + sys-apps/which + virtual/pkgconfig +" + +# hypre and superlu curretly exclude each other due to missing linking to hypre +# if both are enabled +REQUIRED_USE=" + afterimage? ( X ) + complex-scalars? ( !hypre !superlu ) + hdf5? ( mpi ) + hypre? ( cxx mpi !superlu ) + mumps? ( mpi scotch ) + scotch? ( mpi ) + superlu? ( !hypre ) +" +PATCHES=( + "${FILESDIR}/${PN}-3.7.0-disable-rpath.patch" + "${FILESDIR}/${PN}-3.13.0-fix_sandbox_violation.patch" +) + +# petsc uses --with-blah=1 and --with-blah=0 to en/disable options +petsc_enable() { + use "$1" && echo "--with-${2:-$1}=1" || echo "--with-${2:-$1}=0" +} +# add external library: +# petsc_with use_flag libname libdir +# petsc_with use_flag libname include linking_libs +petsc_with() { + local myuse p=${2:-${1}} + if use ${1}; then + myuse="--with-${p}=1" + if [[ $# -ge 4 ]]; then + myuse="${myuse} --with-${p}-include=${EPREFIX}${3}" + shift 3 + myuse="${myuse} --with-${p}-lib=$@" + else + myuse="${myuse} --with-${p}-dir=${EPREFIX}${3:-/usr}" + fi + else + myuse="--with-${p}=0" + fi + echo ${myuse} +} + +# select between configure options depending on use flag +petsc_select() { + use "$1" && echo "--with-$2=$3" || echo "--with-$2=$4" +} + +src_configure() { + # bug 548498 + # PETSc runs mpi processes during configure that result in a sandbox + # violation by trying to open /proc/mtrr rw. This is not easy to + # mitigate because it happens in libpciaccess.so called by libhwloc.so, + # which is used by libmpi.so. + addpredict /proc/mtrr + # if mpi is built with knem support it needs /dev/knem too + addpredict /dev/knem + + # configureMPITypes with openmpi-2* insists on accessing the scaling + # governor rw. + addpredict /sys/devices/system/cpu/ + + # bug 771711 + # configureMPIEXEC and configureMPITypes access /dev/nvidiactl + addpredict /dev/nvidiactl + + # bug 810841 + addpredict /dev/kfd + + local mylang + local myopt + + use cxx && mylang="cxx" || mylang="c" + use debug && myopt="debug" || myopt="opt" + + # environmental variables expected by petsc during build + + export PETSC_DIR="${S}" + export PETSC_ARCH="linux-gnu-${mylang}-${myopt}" + + if use debug; then + strip-flags + filter-flags -O* + fi + + tc-export AR RANLIB + + # C Support on CXX builds is enabled if possible i.e. when not using + # complex scalars (no complex type for both available at the same time) + + econf \ + scrollOutput=1 \ + AR="${AR}" \ + CFLAGS="${CFLAGS} -fPIC" \ + CPPFLAGS="${CPPFLAGS}" \ + CXXFLAGS="${CXXFLAGS} -fPIC" \ + CXXOPTFLAGS="${CXXFLAGS} -fPIC" \ + FCFLAGS="${FCFLAGS} -fPIC" \ + FFLAGS="${FFLAGS} -fPIC" \ + LDFLAGS="${LDFLAGS}" \ + MAKEFLAGS="${MAKEFLAGS}" \ + RANLIB="${RANLIB}" \ + --prefix="${EPREFIX}/usr/$(get_libdir)/petsc" \ + --with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs blas lapack)" \ + --with-clanguage="${mylang}" \ + --with-cmake:BOOL=1 \ + --with-gnu-compilers \ + --with-imagemagick=0 \ + --with-matlab=0 \ + --with-petsc-arch="${PETSC_ARCH}" \ + --with-precision=double \ + --with-python=0 \ + --with-shared-libraries \ + --with-single-library \ + --with-windows-graphics=0 \ + $(petsc_enable debug debugging) \ + $(petsc_enable fortran) \ + $(petsc_enable mpi) \ + $(petsc_enable mpi mpi-compilers) \ + $(petsc_enable threads pthread) \ + $(petsc_select complex-scalars scalar-type complex real) \ + $(petsc_select mpi cc mpicc $(tc-getCC)) \ + $(petsc_select mpi cxx mpicxx $(tc-getCXX)) \ + $(petsc_with afterimage afterimage /usr/include/libAfterImage -lAfterImage) \ + $(petsc_with hypre hypre /usr/include/hypre -lHYPRE) \ + $(petsc_with superlu superlu /usr/include/superlu -lsuperlu) \ + $(petsc_with scotch ptscotch /usr/include/scotch [-lptesmumps,-lptscotch,-lptscotcherr,-lscotch,-lscotcherr]) \ + $(petsc_with mumps scalapack /usr/include/scalapack -lscalapack) \ + $(use cxx && ! use complex-scalars && echo "--with-c-support=1") \ + $(use fortran && echo "$(petsc_select mpi fc mpif77 $(tc-getF77))") \ + $(use int64 && echo "--with-index-size=64") \ + $(use_with boost) \ + $(use_with fftw) \ + $(use_with hdf5) \ + $(use_with mumps mumps /usr/include [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \ + $(use_with X x) \ + $(use_with X x11) +} + +src_install() { + emake DESTDIR="${ED}" install + + # add PETSC_DIR to environmental variables + cat >> 99petsc <<- EOF + PETSC_DIR=${EPREFIX}/usr/$(get_libdir)/petsc + LDPATH=${EPREFIX}/usr/$(get_libdir)/petsc/lib + EOF + doenvd 99petsc +}
