gentoo resync : 08.06.2019

3 files changed, 133 insertions, 0 deletions

diff --git a/sci-physics/Manifest.gz b/sci-physics/Manifest.gz
index 7104da8a9c58..60747aca9f6f 100644
--- a/sci-physics/Manifest.gz
+++ b/sci-physics/Manifest.gz
diff --git a/sci-physics/lammps/Manifest b/sci-physics/lammps/Manifest
index 807c33260af8..f97fbb952194 100644
--- a/sci-physics/lammps/Manifest
+++ b/sci-physics/lammps/Manifest
@@ -31,8 +31,10 @@ DIST lammps-patch_17Jan2018.tar.gz 91721592 BLAKE2B d606a5fd699f3e7aaa777065532f
 DIST lammps-patch_1Sep2017.tar.gz 88751184 BLAKE2B 013ba612c67767c0e11b64f0b726a81c534ceb763ac9eba9a94ef9e02166278c28cb5937162b83f783b80fef6471b0e265e45245cc5594eaa2b27ec2d5f972cf SHA512 01b56484d6e9d03c0cdc2f8100f571d6e0a354b08bda7f22176744f2724e566443514e7d8abb0571d4207709155441644d4c6dbcf17ee2a8dc4f10cb6c3e8ac1
 DIST lammps-patch_22Aug2018.tar.gz 108761265 BLAKE2B fc509ccd8f5fda9fea9cf7f54b888df235b5d499a0aa3eee24bba81d35c95355cfc72ebb60f32a4adb879c0ab176659ebe634f9bbaeefd54ffc0d02329054f9f SHA512 bb1c11ef9c287b101b9f3483d6b90e55dc69a048529e5076f6f7d46e54802d0d75efc899865d462f9dd76937089e1080a126c1dc4bbb2648eda91cb38ba142b0
 DIST lammps-patch_22Feb2018.tar.gz 91869050 BLAKE2B 09d364b489d4402145b879ca40b290a4e33f39b6e5e4183bcccb09001002cb742917c8792f942a8b64bd992cde5c0f8dcd8b76506048f1392d33d1192aa4551d SHA512 8d4ac0f9cdcf4caa10bfb48129eec21cf31f7ce881b4cbd803c20fb638f7e55a1e645d314e172fe70eab473a4976c7f482e8c059e0c4e82527eb9438437ae146
+DIST lammps-patch_5Jun2019.tar.gz 106437193 BLAKE2B ce2a89f58fcdc29fbfc6d5e8769e36402569e93182a19835a0482b228ae9f568c1b56d2fc5eb3dac8e94a1289b430279d88c15284e07b5f62049aaf86cca29d3 SHA512 d72a5de3068a902cd8a825c97cd071331d5e3c16429531809178c43930b363f6549bd6802b552c2667e8882f7f21c90bd815072deb5ac19c8687060c796e58b4
 DIST lammps-patch_8Mar2018.tar.gz 91878683 BLAKE2B a4cf307769b1ac27c9cbe781a70f307d5275d2ccd4f6f77a2a21f00413ffa0af499577207afd23afd95ef6126071e8b779f6c52d50ff7117afb63161613c9f5b SHA512 57885d12e9e0ea9a6735cc2f7a2a8a9314dacbe9eaf5a46cb6d20fd7e2d0e8b0ebb3e24731eb750861973efe4d3cf0cf5a739cc9d51407f26bf3d556243c186f
 DIST lammps-testing-7869c75cac38cb8a3d2ef7747ea12ec5812f5151.tar.gz 54374284 BLAKE2B a223ef3926540660ce28fd2673667840002f6bfbbd5565deb9fb01b994085eb4d6cd24807fab49117a1b328f151d1511b7aa4d2fcdd443d20927112b83d029f0 SHA512 c996f7109d6467ae8e6a8c187485afb7c55b6dcf2b2e7003a8edd271e7f7dfe275079fbb0d680455628c8fd2eb87640284e8a92ffe095fcb398133be587af57a
+DIST lammps-testing-827be7af84ca100d394ea1cf6d3bc49f6a8eef92.tar.gz 55706643 BLAKE2B 7f2753759e1048ee9af58f1b210fe42972cc40b6df3ab5495f66bcfd10f4818f6e2c4e27f759d6ca302024531849286c4709a869984bea3d385cb44412d4d668 SHA512 bfffb0501b7b254dfc2cfcd12945b14766c1addf680d1140a78116b97a2a70795244f3a5a439aaf69ae014e35c454a48e028ca8aa65179e5da5039d6f1676e02
 EBUILD lammps-20150210.ebuild 4831 BLAKE2B e862ddf3286d197376d70d2ddef7aba08c073c956a37e509ce5d2f61fd2aea72ab2bfc152ea2204db021f97996f77fe2592b4894664b47ddbd50eae80d876e6b SHA512 6ce0071a1ed3dbbb485dc3e5c1119f07617b9df623f13527f20f7a4b549dda4cfae7821dd647aa7350439b92d3dfc325d5e1665a8689143a9118d04660860565
 EBUILD lammps-20150515-r1.ebuild 6707 BLAKE2B 375a4a799a78fe600a93216d121cc8b0d51f47a951849786aff5b79b513e1caed7a158a3dc8bc482a5cf5dc41759c3ef58c43a05043ac255fb91f44415de5beb SHA512 aec834eea20e7b01f65c681fc8ec8ca3a2abd20c5b8e11330c5e1d5d2d4937ab06d82e44ffea3a7d24625c32afb7d1cdb863717112b7a7f8d665c53247a175ac
 EBUILD lammps-20150515.ebuild 6702 BLAKE2B b77b70ee9b5107bf9b433dcb8e8e5c7ac63a61d30aadf2dce8ad8588183a4a23f0ca64344e3dc311cea72629805ce00c07450c3afa034f11561f52a72c0e4129 SHA512 ea07038da0dee00e368c369857945d2edad0b818dfb83d4f44870a2706a2e494303e7b035e7e7e4e02430d2e935af584a01c1035492033ff989a3dc82cd38e9f
@@ -62,4 +64,5 @@ EBUILD lammps-20180308.ebuild 3034 BLAKE2B 1950c39f027ee36630f9056c98ab906a3b6ca
 EBUILD lammps-20180316.ebuild 3032 BLAKE2B 9c80274bc382b2e452c2602fc55ea301f1aac101b2688df94b90dc90bc1f363f267d9a57dd4141358b82287e0e234d224cab2c2bfe167810a6b5dd3b6cdd32cf SHA512 9fd6d7e96f05293326b78318f75eec1258794fed46519e5a8b8c23fb463cee4aeaf705245c55b0f827a29b759b1c6b3358b74b74663370b2f97fa1fa7cf92a93
 EBUILD lammps-20180822.ebuild 2819 BLAKE2B 23a9705f501d52f66de07b515b7f9d07941e6de4922ec455e47717f8acdce80e380547ae349cda148784cab8b8ad7618ea9f4b20d609e1788785ed4274445e61 SHA512 add248b255f5f4ca5e9d1d4c4f5249adb993f27a9f1809ca54e88031949852605dfc2fe1fbf61d58c2dadd682f569ae7a3c805ba98e6e98dbcaac2c4b6647541
 EBUILD lammps-20181212.ebuild 2960 BLAKE2B 17ab7803c6a54970f5450a3ce179573b00788fa41965684ecb961ef6cf11eb37c3c8b491bc88e80e22b562270fb92e96b7286f0ae734e15db7ee27dd35ffc6e1 SHA512 5840cf760d7127fb3948b9c24db525cdb87a153b58b5ef84b964a37022b463bccd494005490b9f9f5ddd08badad54e256ccce7d1a87c7358a73f5d2c55b7eb99
+EBUILD lammps-20190605.ebuild 2960 BLAKE2B 9012bc3ce270efd1f55be4695bcc893be449cf8e3b157e334b7cbb62b3266cb14c673e0496056cc5479169f8fc48c008be779bd1c473a2054f8b92837af277d4 SHA512 33339843c613cea5b572902ab73299e6717be4b3f5ffca139d30b365575d9edf877ee59f04fa9020ad0df69058547692c310bba1d6fd70574ddc4664f2aeea8e
 MISC metadata.xml 1338 BLAKE2B 553629a0b3221db88a37cd6b0bfa806da9265caf2df038736211351a87ac34af5a98f0e7f3e34246d814a378cd64b1ed82d69f4c26e18c3a7700441f8be6fa2d SHA512 b3556e8444b4cb42d1fa80cc8735e11e07cd2928af67104d4518b874e167d5755840c3585e3ffefa88057f84d711cafe0a60405323b4ad6a9546c19d4a5d94bd
diff --git a/sci-physics/lammps/lammps-20190605.ebuild b/sci-physics/lammps/lammps-20190605.ebuild
new file mode 100644
index 000000000000..81ec8546eee7
--- /dev/null
+++ b/sci-physics/lammps/lammps-20190605.ebuild
@@ -0,0 +1,130 @@
+# Copyright 1999-2019 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+PYTHON_COMPAT=( python{2_7,3_5,3_6} )
+
+inherit cmake-utils fortran-2 python-r1
+
+convert_month() {
+	local months=( "" Jan Feb Mar Apr May Jun Jul Aug Sep Oct Nov Dec )
+	echo ${months[${1#0}]}
+}
+
+MY_PV="patch_$((10#${PV:6:2}))$(convert_month ${PV:4:2})${PV:0:4}"
+MY_P="${PN}-${MY_PV}"
+
+DESCRIPTION="Large-scale Atomic/Molecular Massively Parallel Simulator"
+HOMEPAGE="https://lammps.sandia.gov/"
+TCOMMIT=827be7af84ca100d394ea1cf6d3bc49f6a8eef92
+SRC_URI="https://github.com/lammps/lammps/archive/${MY_PV}.tar.gz -> ${MY_P}.tar.gz
+	test? ( https://github.com/lammps/lammps-testing/archive/${TCOMMIT}.tar.gz -> ${PN}-testing-${TCOMMIT}.tar.gz )"
+
+LICENSE="GPL-2"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE="cuda examples gzip lammps-memalign mpi netcdf python test"
+
+DEPEND="
+	app-arch/gzip
+	media-libs/libpng:0
+	sys-libs/zlib
+	mpi? (
+		virtual/mpi
+		sci-libs/hdf5[mpi]
+	)
+	python? ( ${PYTHON_DEPS} )
+	sci-libs/voro++
+	virtual/blas
+	virtual/lapack
+	sci-libs/fftw:3.0
+	netcdf? ( sci-libs/netcdf )
+	cuda? ( >=dev-util/nvidia-cuda-toolkit-4.2.9-r1 )
+	dev-cpp/eigen:3
+	"
+RDEPEND="${DEPEND}"
+
+REQUIRED_USE="python? ( ${PYTHON_REQUIRED_USE} )"
+
+S="${WORKDIR}/${MY_P}/cmake"
+
+src_configure() {
+	local mycmakeargs=(
+		-DCMAKE_INSTALL_SYSCONFDIR="${EPREFIX}/etc"
+		-DBUILD_SHARED_LIBS=ON
+		-DBUILD_MPI=$(usex mpi)
+		-DBUILD_LIB=ON
+		-DPKG_GPU=$(usex cuda)
+		-DGPU_API=CUDA
+		-DENABLE_TESTING=$(usex test)
+		-DLAMMPS_TESTING_SOURCE_DIR=$(echo "${WORKDIR}"/lammps-testing-*)
+		-DPKG_ASPHERE=ON
+		-DPKG_BODY=ON
+		-DPKG_CLASS2=ON
+		-DPKG_COLLOID=ON
+		-DPKG_COMPRESS=ON
+		-DPKG_CORESHELL=ON
+		-DPKG_DIPOLE=ON
+		-DPKG_GRANULAR=ON
+		-DPKG_KSPACE=ON
+		-DFFT=FFTW3
+		-DPKG_MANYBODY=ON
+		-DPKG_MC=ON
+		-DPKG_MEAM=ON
+		-DPKG_MISC=ON
+		-DPKG_MOLECULE=ON
+		-DPKG_PERI=ON
+		-DPKG_QEQ=ON
+		-DPKG_REAX=ON
+		-DPKG_REPLICA=ON
+		-DPKG_RIGID=ON
+		-DPKG_SHOCK=ON
+		-DPKG_SNAP=ON
+		-DPKG_SRD=ON
+		-DPKG_PYTHON=ON
+		-DPKG_MPIIO=$(usex mpi)
+		-DPKG_VORONOI=ON
+		-DPKG_USER-ATC=ON
+		-DPKG_USER-AWPMD=ON
+		-DPKG_USER-CGDNA=ON
+		-DPKG_USER-CGSDK=ON
+		-DPKG_USER-COLVARS=ON
+		-DPKG_USER-DIFFRACTION=ON
+		-DPKG_USER-DPD=ON
+		-DPKG_USER-DRUDE=ON
+		-DPKG_USER-EFF=ON
+		-DPKG_USER-FEP=ON
+		-DPKG_USER-H5MD=$(usex mpi)
+		-DPKG_USER-LB=$(usex mpi)
+		-DPKG_USER-MANIFOLD=ON
+		-DPKG_USER-MEAMC=ON
+		-DPKG_USER-MGPT=ON
+		-DPKG_USER-MISC=ON
+		-DPKG_USER-MOLFILE=ON
+		-DPKG_USER-NETCDF=$(usex netcdf)
+		-DPKG_USER-PHONON=ON
+		-DPKG_USER-QTB=ON
+		-DPKG_USER-REAXC=ON
+		-DPKG_USER-SMD=ON
+		-DPKG_USER-SMTBQ=ON
+		-DPKG_USER-SPH=ON
+		-DPKG_USER-TALLY=ON
+	)
+	cmake-utils_src_configure
+}
+
+src_install() {
+	cmake-utils_src_install
+
+	# Install python script.
+	use python && python_foreach_impl python_domodule "${S}"/../python/lammps.py
+
+	if use examples; then
+		for d in examples bench; do
+			local LAMMPS_EXAMPLES="/usr/share/${PN}/${d}"
+			insinto "${LAMMPS_EXAMPLES}"
+			doins -r "${S}"/../${d}/*
+		done
+	fi
+}