gentoo resync : 24.03.2019

3 files changed, 363 insertions, 0 deletions

diff --git a/sci-physics/root/Manifest b/sci-physics/root/Manifest
index 19c4753bf425..704f0661bb12 100644
--- a/sci-physics/root/Manifest
+++ b/sci-physics/root/Manifest
@@ -4,11 +4,13 @@ AUX root-6.12.04-no-opengl.patch 763 BLAKE2B 7f93aac3941dd5906768cd07c87a421137d
 AUX root-6.12.04-z3.patch 1155 BLAKE2B 31d099bb260a030d88fcfbe0c9c5a7953738619b216da4140e087b29fead0bfd05bd22aa75da99521689decfb54caa23e0b50a9be9c34fe2fd75596b99b13092 SHA512 ca82ed6f3a0eb9e0ae13a0c354eab0a7c9c18e93ef444418f5786decdd8600184a6c2d5deb6d54d1a852076988645a0fbd215459cd15f5569f54606d74ee3e18
 AUX root-6.12.06_cling-runtime-sysroot.patch 989 BLAKE2B 8202cc8f2bf72cc25642d0a03ba26c3969069b291a6a22188879dbedbf0c3c496149f79f671d0eb51d81d0ee36565660d136b4741f5d018c2b05325ff08381f0 SHA512 c96dee9843da1051c54bd6870ef0a04714944ffe1f86800c9a51b8eb8ef84107d3315d3a708dcc0b651248af4bec362c7f31695514505045aeda9c793d40dc58
 AUX root-6.14.06-oracle.patch 666 BLAKE2B 8ca54fa3d6d836805a88f3ff713e34c1d5db8ffabe4eab7d213d4e0d6a3750cbe0bc8fd14e40ff98f3a4a225b641ebfc6abcf0d34034f90718b0567935bb0209 SHA512 095678f4b3e277cf9b3cd64e0811e20d9c486f2ed524792e55b087441e652ea7b9ee9c2358319ae2be6e4b35828873669d5b9c89f61d68aaa76db62abc4c5a46
+AUX root-6.16.00-disable-header-search.patch 1670 BLAKE2B cc9fda55bc867585432d9acb7dcde6cefa022226c84034bd5c4ba6e286d083ac330ac16ae0f119b5aaf3763cc93ada8c6592096333f55b6ff374ccdd09592e33 SHA512 99e8998c18e70ea9e352abf9839252319e3d8a53bac3a0f777d81e48b88bfd235a6e8386eceb1b50e1202b53088a82cbe6e1576e9137e0e5db59da7cb1761bae
 DIST root_v6.12.06.source.tar.gz 162284452 BLAKE2B 944b5e899677bab40842d7ec969ff08cfa470e63be9a02b948a49ae088e8da72ce433a5071d9196bfd98f71e6861b1bda285354012620eee6c61cffcee71a0c8 SHA512 3d44749ccfc3d40a2f516ae53ef40fb244ed785eee0dbc18ff822bbb811a15b943039d30282ef5358a283d485e62531880c877ec77a86089503b06d6f37e42e1
 DIST root_v6.14.08.source.tar.gz 162474562 BLAKE2B f8bfdabb4d91bbdfbab0b17626fff1f8aa265292996d857025cbd1543306f3ec540a1afb080788bfc7149ea835932b59d7c54dcd802354e31294ba2e5e9d2366 SHA512 827e39efbf3c69429a0a256127ca9f87550d9084c34c715bddccbf87a8c111c367b9a0ac6882aac747c9b48f4a3effb3747b4df567429910c93ee64dfe35df5b
 DIST root_v6.16.00.source.tar.gz 164836293 BLAKE2B 9d8f02631bdc1fa1775cbdaf50dd1feacd9b3c86b81d679ba6f0ca3c5787cd1d22ef7c33358b608361a01ad4f0aff3e8c749649d24773a35c52ce87f808d08f5 SHA512 17e5b9815973773e30ff83c2f4028e9e93691c1ecb824c162c8b3e02d1f6666fb8e0b72a5d0652a90032af146d92d271cbffcd634fb6fe6a63bdf46d672789bf
 EBUILD root-6.12.06-r9.ebuild 7754 BLAKE2B 312e1b90cffa62547d03ea7274b5812df3a690539a03464c89c681c9589b3895a075bc83fe056a7507f5afd25b3744200ad0b90cb617debb59bffd3a280efcf8 SHA512 3016c0308adf200ab1b4a06752bb40d04df4de63bbe846b0afb89c1555af7779677711a4e78ce6ee90c6d27e4c471ab3c46bd46812b46b6f40c0d6ba024cfe11
 EBUILD root-6.14.08-r2.ebuild 8018 BLAKE2B 3553813ada68f33a841265dfdf5c81c1243e06cc9881739d600d2c7ae35c99fe56b882f11e8a23680b77e5b39d9465b2d7bdf5c84ba0daf5fddcc672980d2dd4 SHA512 437ae540021e46f02fba66a816c860180da6b7fd30d780697b67e81492faf239932219c0799acea367e164ccb4e32fcf781c3f071ad340bb5fd1791b82478d22
+EBUILD root-6.16.00-r1.ebuild 8104 BLAKE2B b6669f9dec7cdb59eba38a282a3d9e4c9fe55e10e8c3782cc593b6e925d1d9a5c0b6872000a8f0587356c111b5a2fa9bbbda7b2f12a83e67449b4d9d8fe7ca83 SHA512 ca85f4a383d2fe8abd68bc9d3ec606ef5d7d8bb47216ad3a5272185370a8497c9b1f3668a9135900fa64b7c7897b4b12c0d4d910001667047aa564f6089e9e17
 EBUILD root-6.16.00.ebuild 8047 BLAKE2B ee28bae5ee066baa9ab753927ca9e30331955238e22bc3cce402a1a2dfd29ee29579dc504128467e2b5aae2cefe30e0fdc359b760caf388618f5d3fd201c2a38 SHA512 4e6aef4125629df5e1a3a2cf8b394155fe63fc0c6afd94155329fd443cfaad392aacd6eea903f489dbb16be2b1925a6a9a011e11a478e182f728eff3b74e5608
 EBUILD root-9999.ebuild 8307 BLAKE2B 1932ca3501767e729fab5658681c75d75ea7b839fda2f43777f5ff76d9cfbdd589793378cda3119f5e1457d48ffe42d116d628ccc36148c270b67e56af407068 SHA512 b6ee00de46d9ced77e54182b750810bd7548de48ce8aa63f4a898b5df7604fe06685cfc7015b2a61556ae1c8284f93ccd5492559285ef232b14881ac9c461aa5
 MISC metadata.xml 3079 BLAKE2B a67a71c5dcde9c3d05420b7edefeee32a8e623e10d03f75169a02044377106641ed6dc96c65aa71f42c94c4b29777c0267e9163870cbb392e1dc7715b8ccc542 SHA512 24bb9b7d0d0263f363639f4861a071bfb7f1bdd5e15ec4b166c44114b25343edb008f7ac896dd899cbcdd068abd762aa84924a6e50384ee214de28beb08cfd2a
diff --git a/sci-physics/root/files/root-6.16.00-disable-header-search.patch b/sci-physics/root/files/root-6.16.00-disable-header-search.patch
new file mode 100644
index 000000000000..06748eb64312
--- /dev/null
+++ b/sci-physics/root/files/root-6.16.00-disable-header-search.patch
@@ -0,0 +1,38 @@
+From: Benda Xu <heroxbd@gentoo.org>
+Date: 2019-03-23
+Subject: Remove header expansion logic from module cmake helper.
+
+Description: ROOT module cmake helper by default expands header inclusion to
+absolute path.  In Gentoo, that will capture PORTAGE_TMPDIR resulting in various
+runtime bugs. By removing this convolved logic, headers are untouched and become
+more predictible for rootcling at runtime.
+
+Typical bug it solves:
+
+  Error in cling::AutoloadingVisitor::InsertIntoAutoloadingState:
+    Missing FileEntry for /var/tmp/portage/sci-physics/JSAP-479/work/JSAP-479/DataType/JPSimOutput.hh
+    requested to autoload type JPSimTruthTree_t
+  Error in cling::AutoloadingVisitor::InsertIntoAutoloadingState:
+    Missing FileEntry for /var/tmp/portage/sci-physics/JSAP-479/work/JSAP-479/DataType/JPSimOutput.hh
+    requested to autoload type JPSimTriggerInfoTree_t
+
+Forwarded: No need. Gentoo specific.
+
+--- a/cmake/modules/RootNewMacros.cmake	2019-01-23 16:23:37.000000000 +0800
++++ b/cmake/modules/RootNewMacros.cmake	2019-02-25 00:18:04.000000000 +0800
+@@ -250,14 +250,7 @@ function(ROOT_GENERATE_DICTIONARY dictio
+       list(APPEND headerfiles ${fp})
+       list(APPEND _list_of_header_dependencies ${fp})
+     else()
+-      find_file(headerFile ${fp} HINTS ${localinclude} ${incdirs} NO_DEFAULT_PATH)
+-      find_file(headerFile ${fp} NO_SYSTEM_ENVIRONMENT_PATH)
+-      if(headerFile)
+-        list(APPEND headerfiles ${headerFile})
+-        list(APPEND _list_of_header_dependencies ${headerFile})
+-      else()
+-        list(APPEND headerfiles ${fp})
+-      endif()
++      list(APPEND headerfiles ${fp})
+       unset(headerFile CACHE)
+     endif()
+   endforeach()
diff --git a/sci-physics/root/root-6.16.00-r1.ebuild b/sci-physics/root/root-6.16.00-r1.ebuild
new file mode 100644
index 000000000000..b6b7b6b7a011
--- /dev/null
+++ b/sci-physics/root/root-6.16.00-r1.ebuild
@@ -0,0 +1,323 @@
+# Copyright 1999-2019 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+CMAKE_BUILD_TYPE=Release
+# ninja does not work due to fortran
+CMAKE_MAKEFILE_GENERATOR=emake
+FORTRAN_NEEDED="fortran"
+PYTHON_COMPAT=( python2_7 python3_{4,5,6,7} )
+
+inherit cmake-utils cuda eapi7-ver elisp-common eutils fortran-2 \
+	llvm prefix python-single-r1 toolchain-funcs
+
+DESCRIPTION="C++ data analysis framework and interpreter from CERN"
+HOMEPAGE="https://root.cern"
+SRC_URI="https://root.cern/download/${PN}_v${PV}.source.tar.gz"
+
+IUSE="+X aqua +asimage +c++11 c++14 c++17 cuda +davix emacs +examples
+	fits fftw fortran +gdml graphviz +gsl http jemalloc kerberos ldap
+	libcxx memstat +minuit mysql odbc +opengl oracle postgres prefix
+	pythia6 pythia8 +python qt5 R +roofit root7 shadow sqlite +ssl
+	table +tbb test +threads +tiff +tmva +unuran vc xinetd +xml xrootd
+	zeroconf"
+
+SLOT="$(ver_cut 1-2)/$(ver_cut 3)"
+LICENSE="LGPL-2.1 freedist MSttfEULA LGPL-3 libpng UoI-NCSA"
+KEYWORDS="~amd64 ~x86"
+
+REQUIRED_USE="
+	^^ ( c++11 c++14 c++17 )
+	cuda? ( tmva !c++17 )
+	!X? ( !asimage !opengl !qt5 !tiff )
+	davix? ( ssl xml )
+	python? ( ${PYTHON_REQUIRED_USE} )
+	qt5? ( root7 )
+	root7? ( || ( c++14 c++17 ) )
+	tmva? ( gsl )
+"
+
+CDEPEND="
+	app-arch/lz4
+	app-arch/xz-utils
+	fortran? ( dev-lang/cfortran )
+	dev-libs/libpcre:3
+	dev-libs/xxhash
+	media-fonts/dejavu
+	media-libs/freetype:2
+	media-libs/libpng:0=
+	sys-devel/llvm:5=
+	sys-libs/ncurses:=
+	sys-libs/zlib
+	X? (
+		x11-libs/libX11:0
+		x11-libs/libXext:0
+		x11-libs/libXft:0
+		x11-libs/libXpm:0
+		opengl? (
+			media-libs/ftgl:0=
+			media-libs/glew:0=
+			virtual/opengl
+			virtual/glu
+			x11-libs/gl2ps:0=
+		)
+		qt5? (
+			dev-qt/qtcore:5
+			dev-qt/qtgui:5
+			dev-qt/qtwebengine:5[widgets]
+		)
+	)
+	asimage? ( || (
+		media-libs/libafterimage[gif,jpeg,png,tiff?]
+		>=x11-wm/afterstep-2.2.11[gif,jpeg,png,tiff?]
+	) )
+	zeroconf? ( net-dns/avahi[mdnsresponder-compat] )
+	cuda? ( >=dev-util/nvidia-cuda-toolkit-9.0 )
+	davix? ( net-libs/davix )
+	emacs? ( virtual/emacs )
+	fftw? ( sci-libs/fftw:3.0= )
+	fits? ( sci-libs/cfitsio:0= )
+	graphviz? ( media-gfx/graphviz )
+	gsl? ( sci-libs/gsl:= )
+	http? ( dev-libs/fcgi:0= )
+	jemalloc? ( dev-libs/jemalloc )
+	kerberos? ( virtual/krb5 )
+	ldap? ( net-nds/openldap:0= )
+	libcxx? ( sys-libs/libcxx )
+	unuran? ( sci-mathematics/unuran:0= )
+	minuit? ( !sci-libs/minuit )
+	mysql? ( dev-db/mysql-connector-c )
+	odbc? ( || ( dev-db/libiodbc dev-db/unixODBC ) )
+	oracle? ( dev-db/oracle-instantclient-basic )
+	postgres? ( dev-db/postgresql:= )
+	pythia6? ( sci-physics/pythia:6 )
+	pythia8? ( sci-physics/pythia:8 )
+	python? ( ${PYTHON_DEPS} )
+	R? ( dev-lang/R )
+	shadow? ( virtual/shadow )
+	sqlite? ( dev-db/sqlite:3 )
+	ssl? ( dev-libs/openssl:0= )
+	tbb? ( >=dev-cpp/tbb-2018 )
+	tmva? ( dev-python/numpy[${PYTHON_USEDEP}] )
+	vc? ( dev-libs/vc:= )
+	xml? ( dev-libs/libxml2:2= )
+	xrootd? ( net-libs/xrootd:0= )
+"
+
+DEPEND="${CDEPEND}
+	virtual/pkgconfig"
+
+RDEPEND="${CDEPEND}
+	xinetd? ( sys-apps/xinetd )"
+
+PATCHES=(
+	"${FILESDIR}"/${PN}-6.12.06_cling-runtime-sysroot.patch
+	"${FILESDIR}"/${PN}-6.16.00-disable-header-search.patch
+)
+
+pkg_setup() {
+	LLVM_MAX_SLOT=5 llvm_pkg_setup
+
+	use fortran && fortran-2_pkg_setup
+	use python && python-single-r1_pkg_setup
+
+	elog "There are extra options on packages not available in Gentoo."
+	elog "You can use the environment variable EXTRA_ECONF to enable"
+	elog "these packages. For example, for Vdt you would set:"
+	elog "EXTRA_ECONF=\"-Dbuiltin_vdt=ON -Dvdt=ON\""
+}
+
+src_prepare() {
+	cmake-utils_src_prepare
+
+	sed -i "/CLING_BUILD_PLUGINS/d" interpreter/CMakeLists.txt || die
+
+	# CSS should use local images
+	sed -i -e 's,http://.*/,,' etc/html/ROOT.css || die "html sed failed"
+
+	hprefixify core/clingutils/CMakeLists.txt
+}
+
+# Note: ROOT uses bundled clang because it is patched and API-incompatible
+#       with vanilla clang. The patches enable the C++ interpreter to work.
+#       Since ROOT installs many files into /etc (>100MB in total) that don't
+#       really belong there, we install it into another directory to avoid
+#       making /etc too big.
+
+src_configure() {
+	local mycmakeargs=(
+		-DCMAKE_C_FLAGS="${CFLAGS}"
+		-DCMAKE_CXX_FLAGS="${CXXFLAGS}"
+		-DPYTHON_EXECUTABLE="${PYTHON}"
+		-DLLVM_CONFIG="$(type -P "${CHOST}-llvm-config")"
+		-DCMAKE_INSTALL_PREFIX="${EPREFIX%/}/usr/lib/${PN}/$(ver_cut 1-2)"
+		-DCMAKE_INSTALL_MANDIR="${EPREFIX%/}/usr/lib/${PN}/$(ver_cut 1-2)/share/man"
+		-DCMAKE_INSTALL_LIBDIR="lib"
+		-DDEFAULT_SYSROOT="${EPREFIX}"
+		-DCLING_BUILD_PLUGINS=OFF
+		-Dexplicitlink=ON
+		-Dexceptions=ON
+		-Dfail-on-missing=ON
+		-Dgnuinstall=OFF
+		-Dshared=ON
+		-Dsoversion=ON
+		-Dbuiltin_llvm=OFF
+		-Dbuiltin_clang=ON
+		-Dbuiltin_afterimage=OFF
+		-Dbuiltin_cfitsio=OFF
+		-Dbuiltin_davix=OFF
+		-Dbuiltin_fftw3=OFF
+		-Dbuiltin_freetype=OFF
+		-Dbuiltin_ftgl=OFF
+		-Dbuiltin_gl2ps=OFF
+		-Dbuiltin_glew=OFF
+		-Dbuiltin_gsl=OFF
+		-Dbuiltin_lz4=OFF
+		-Dbuiltin_lzma=OFF
+		-Dbuiltin_openssl=OFF
+		-Dbuiltin_pcre=OFF
+		-Dbuiltin_tbb=OFF
+		-Dbuiltin_unuran=OFF
+		-Dbuiltin_vc=OFF
+		-Dbuiltin_vdt=OFF
+		-Dbuiltin_veccore=OFF
+		-Dbuiltin_xrootd=OFF
+		-Dbuiltin_xxhash=OFF
+		-Dbuiltin_zlib=OFF
+		-Dx11=$(usex X)
+		-Dxft=$(usex X)
+		-Dafdsmgrd=OFF
+		-Dafs=OFF # not implemented
+		-Dalien=OFF
+		-Dasimage=$(usex asimage)
+		-Dastiff=$(usex tiff)
+		-Dbonjour=$(usex zeroconf)
+		-Dlibcxx=$(usex libcxx)
+		-Dccache=OFF # use ccache via portage
+		-Dcastor=OFF
+		-Dchirp=OFF
+		-Dclad=OFF
+		-Dcling=ON # cling=OFF is broken
+		-Dcocoa=$(usex aqua)
+		-Dcuda=$(usex cuda)
+		-Dcxx11=$(usex c++11)
+		-Dcxx14=$(usex c++14)
+		-Dcxx17=$(usex c++17)
+		-Dcxxmodules=OFF # requires clang, unstable
+		-Ddavix=$(usex davix)
+		-Ddcache=OFF
+		-Dfftw3=$(usex fftw)
+		-Dfitsio=$(usex fits)
+		-Dfortran=$(usex fortran)
+		-Dftgl=$(usex opengl)
+		-Dgdml=$(usex gdml)
+		-Dgenvector=ON # genvector=OFF ignored
+		-Dgeocad=OFF
+		-Dgfal=OFF
+		-Dgl2ps=$(usex opengl)
+		-Dglite=OFF # not implemented
+		-Dglobus=OFF
+		-Dgminimal=OFF
+		-Dgsl_shared=$(usex gsl)
+		-Dgviz=$(usex graphviz)
+		-Dhdfs=OFF
+		-Dhttp=$(usex http)
+		-Dimt=$(usex tbb)
+		-Djemalloc=$(usex jemalloc)
+		-Dkrb5=$(usex kerberos)
+		-Dldap=$(usex ldap)
+		-Dmathmore=$(usex gsl)
+		-Dmemstat=$(usex memstat)
+		-Dminimal=OFF
+		-Dminuit2=$(usex minuit)
+		-Dminuit=$(usex minuit)
+		-Dmonalisa=OFF
+		-Dmysql=$(usex mysql)
+		-Dodbc=$(usex odbc)
+		-Dopengl=$(usex opengl)
+		-Doracle=$(usex oracle)
+		-Dpch=ON # pch=OFF is broken
+		-Dpgsql=$(usex postgres)
+		-Dpythia6=$(usex pythia6)
+		-Dpythia8=$(usex pythia8)
+		-Dpython=$(usex python)
+		-Dqt5web=$(usex qt5)
+		-Dqtgsi=OFF
+		-Dqt=OFF
+		-Drfio=OFF
+		-Droofit=$(usex roofit)
+		-Droot7=$(usex root7)
+		-Drootbench=OFF
+		-Droottest=OFF
+		-Drpath=OFF
+		-Druby=OFF # deprecated and broken
+		-Druntime_cxxmodules=OFF # does not work yet
+		-Dr=$(usex R)
+		-Dsapdb=OFF # not implemented
+		-Dshadowpw=$(usex shadow)
+		-Dsqlite=$(usex sqlite)
+		-Dsrp=OFF # not implemented
+		-Dssl=$(usex ssl)
+		-Dtable=$(usex table)
+		-Dtcmalloc=OFF
+		-Dtesting=$(usex test)
+		-Dthread=$(usex threads)
+		-Dtmva=$(usex tmva)
+		-Dtmva-cpu=$(usex tmva)
+		-Dtmva-gpu=$(usex cuda)
+		-Dunuran=$(usex unuran)
+		-Dvc=$(usex vc)
+		-Dvdt=OFF
+		-Dveccore=OFF
+		-Dxml=$(usex xml)
+		-Dxrootd=$(usex xrootd)
+		${EXTRA_ECONF}
+	)
+
+	cmake-utils_src_configure
+}
+
+src_compile() {
+	# needed for hsimple.root
+	addwrite /dev/random
+	cmake-utils_src_compile
+}
+
+src_install() {
+	cmake-utils_src_install
+
+	ROOTSYS=${EPREFIX%/}/usr/lib/${PN}/$(ver_cut 1-2)
+	ROOTENV=$((9999 - $(ver_cut 2)))${PN}-$(ver_cut 1-2)
+
+	cat > ${ROOTENV} <<- EOF || die
+	MANPATH="${ROOTSYS}/share/man"
+	PATH="${ROOTSYS}/bin"
+	ROOTPATH="${ROOTSYS}/bin"
+	LDPATH="${ROOTSYS}/lib"
+	EOF
+
+	if use python; then
+		echo "PYTHONPATH=\"${ROOTSYS}/lib\"" >> ${ROOTENV} || die
+	fi
+
+	doenvd ${ROOTENV}
+
+	if use emacs; then
+		elisp-install ${PN}-$(ver_cut 1-2) "${BUILD_DIR}"/root-help.el
+	fi
+
+	pushd "${D}/${ROOTSYS}" > /dev/null
+
+	rm -r test emacs bin/*.{csh,sh,fish} || die
+
+	if ! use examples; then
+		rm -r tutorials || die
+	fi
+
+	# create versioned symlinks for binaries
+	cd bin;
+	for exe in *; do
+		dosym "${exe}" "/usr/lib/${PN}/$(ver_cut 1-2)/bin/${exe}-$(ver_cut 1-2)"
+	done
+}