summaryrefslogtreecommitdiff
blob: f57281175844d9885e3da42389d66a73952da8d6 (plain)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
# Copyright 1999-2023 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2

EAPI=8

PYTHON_COMPAT=( python3_{9..11} 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 debug +examples 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[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 )
	fftw? ( mpi )
	hdf5? ( mpi )
	hypre? ( mpi !superlu )
	mumps? ( mpi scotch )
	scotch? ( mpi )
	superlu? ( !hypre )
"
PATCHES=(
	"${FILESDIR}/${PN}-3.7.0-disable-rpath.patch"
	"${FILESDIR}"/${PN}-3.16.0-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 myopt

	use debug && myopt="debug" || myopt="opt"

	# environmental variables expected by petsc during build

	export PETSC_DIR="${S}"
	export PETSC_ARCH="linux-gnu-c-${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)/petscdir/" \
		--with-blas-lapack-lib="$($(tc-getPKG_CONFIG) --libs blas lapack)" \
		--with-cmake:BOOL=1 \
		--with-gnu-compilers \
		--with-imagemagick=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) \
		$(petsc_with mumps mumps /usr/include [-lcmumps,-ldmumps,-lsmumps,-lzmumps,-lmumps_common,-lpord]) \
		$(use fortran && echo "$(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 X x) \
		$(use_with X x11)
}

src_install() {
	emake DESTDIR="${ED}" install

	#
	# Clean up the mess:
	#

	# put all include directories under a proper subdirectory
	mkdir "${ED}"/usr/include || die "mkdir failed (include)"
	mv "${ED}"/usr/{$(get_libdir)/petscdir/include,include/petsc} || die "mv failed (include)"

	# put libraries and pkconfig file into proper place
	mv "${ED}"/usr/$(get_libdir)/petscdir/lib/{libpetsc*,pkgconfig} \
		"${ED}/usr/$(get_libdir)" || die "mv failed (lib)"

	# move share to proper location
	mv "${ED}"/usr/{$(get_libdir)/petscdir/share,share} || die "mv failed (share)"

	# fix pc files:
	sed -i \
		-e 's#include$#include/petsc#' \
		-e "s#lib\$#$(get_libdir)#" \
		-e "s#^prefix=.*petscdir\$#prefix=${EPREFIX}/usr#" \
		"${ED}"/usr/$(get_libdir)/pkgconfig/*.pc || die "sed failed (pkgconfig)"

	# recreate a "valid" petscdir:
	for i in "${ED}"/usr/$(get_libdir)/*; do
		[ $(basename $i) = petscdir ] && continue
		ln -s "${EPREFIX}/usr/$(get_libdir)/$(basename $i)" \
			"${ED}/usr/$(get_libdir)/petscdir/lib/$(basename $i)" || die "ln failed (petscdir)"
	done
	ln -s "${EPREFIX}"/usr/include/petsc/ \
		"${ED}/usr/$(get_libdir)/petscdir/include" || die "ln failed (petscdir)"
	mkdir "${ED}/usr/$(get_libdir)/petscdir/share" || die "mkdir fialed (petscdir)"
	ln -s "${EPREFIX}"/usr/share/petsc/ \
		"${ED}/usr/$(get_libdir)/petscdir/share/petsc" || die "ln failed (petscdir)"

	# automatically symlink petsc matlab modules:
	mkdir -p "${ED}"/usr/share/octave/site/m/
	ln -s "${EPREFIX}"/usr/share/petsc/matlab "${ED}"/usr/share/octave/site/m/petsc || die "ln failed (matlab)"

	if use examples; then
		mkdir -p "${ED}"/usr/share/doc/${PF} || die "mkdir failed (examples)"
		mv "${ED}"/usr/share/petsc/examples "${ED}"/usr/share/doc/${PF} || die "mv failed (examples)"
		ln -s "${EPREFIX}"/usr/share/doc/${PF}/examples "${ED}"/usr/share/petsc/examples || die "ln failed (examples)"
		docompress -x /usr/share/doc/${PF}/examples
	else
		rm -r "${ED}"/usr/share/petsc/examples || die "rm failed (examples)"
	fi

	# add PETSC_DIR to environmental variables
	cat >> 99petsc <<- EOF
		PETSC_DIR=${EPREFIX}/usr/$(get_libdir)/petscdir
	EOF
	doenvd 99petsc
}