gentoo auto-resync : 25:04:2024 - 23:59:45

10 files changed, 162 insertions, 61 deletions

diff --git a/sci-libs/Manifest.gz b/sci-libs/Manifest.gz
index 52c438903b32..5c28771b493c 100644
--- a/sci-libs/Manifest.gz
+++ b/sci-libs/Manifest.gz
diff --git a/sci-libs/armadillo/Manifest b/sci-libs/armadillo/Manifest
index d38aed5dac36..7d989ab99dba 100644
--- a/sci-libs/armadillo/Manifest
+++ b/sci-libs/armadillo/Manifest
@@ -1,4 +1,6 @@
 AUX armadillo-12.0.1-extratests.patch 743 BLAKE2B bd8bf0a2fd9ec52875804b92a86f2fe8a24e92008208071cd65bd78eb6fe92aac7add687be9455f276f8fd84f50208e2b6846f8c40cd521dd18e623284af94dd SHA512 de804fc620454ba41b859b4cc90583f25e82670f4f9c49dab27ac803529e024293e6254824eadafeb0b9c13a90696b9717aea338a672101c123e1f88493da113
 DIST armadillo-12.4.0.tar.xz 6803968 BLAKE2B ca45b2284b5a31c745b2ad924235af24f855039cc81c3300c83e5e932ee4cda233731b53623303c1c739feae9b007f8f6309c09debe79923e3876e8145015152 SHA512 a9f8cd19384eed787787b9e189901a1800e6e1dd06917f4f13e8a215c83f317de3e5b0ae8625783f88d9a7b0ab25f5c7784ccf0493c08a9ee3ea7fdfbbe36195
+DIST armadillo-12.8.2.tar.xz 6996368 BLAKE2B 63876486dcd72359b243a2ae217de751a9033c7f3e6c8599ba195b52fb493dbc4b6ec7f804916d40cef0c726d3ad42752a5cfb6fd3919935cbdf20e59488e474 SHA512 33bfe6f1fae2ef18ec3286742264dedd67730e47b5187568cb2fbe951286a5a8534a4b577894cc44415887241a46afb25b3fcf2b249ef15f9b71045e98fd0132
 EBUILD armadillo-12.4.0-r1.ebuild 3281 BLAKE2B f3e0ea58d8a43e14bc7dc77d803e4736f311892010facd17b60071545f2c69bf31a496cf71945c348861943f6dcea409a22e9407b19a50c78d7dd16442c17677 SHA512 aba6256ffcd15eecb0b0348b6b64171fca4b73dfb8f04d07391a857bc60eca6c50b7288d88c026f30a7e5a3b22cf9db117dd216cfd8576289745dde39adf3155
+EBUILD armadillo-12.8.2.ebuild 3283 BLAKE2B 494c4a5a98b753e352a3918a5206e55f60f30ea6526f555477680d58299f026c516b8b2419a1c9cd5271f57efb5182da077d626810a6f432bb03c44dd208b82e SHA512 12a224448ba19ca4441246d293652d1d39e1685805c60c61c5db2cc738e74f8be205c3f755e629219fa5a753ac3fddcd28e5f058bde1767198c00e181c984a79
 MISC metadata.xml 1456 BLAKE2B 52019d7f250025250936fe57ef43e3f1d999eb3eb88949606f6c14e33b99615d3cf33e1073215b805259f2118f571052d40558ee60bddff524475b721b040a37 SHA512 be4692d066e500becba90262b74f17dc97d3c32248bf91aee1ffe2321a0611968855e8806da51f61b5f7e1e32efb541895b29630a302f756ea338aa62cf819c0
diff --git a/sci-libs/armadillo/armadillo-12.8.2.ebuild b/sci-libs/armadillo/armadillo-12.8.2.ebuild
new file mode 100644
index 000000000000..28e8f7b4adc3
--- /dev/null
+++ b/sci-libs/armadillo/armadillo-12.8.2.ebuild
@@ -0,0 +1,136 @@
+# Copyright 1999-2024 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+inherit cmake toolchain-funcs multilib
+
+DESCRIPTION="Streamlined C++ linear algebra library"
+HOMEPAGE="https://arma.sourceforge.net"
+SRC_URI="mirror://sourceforge/arma/${P}.tar.xz"
+
+LICENSE="Apache-2.0"
+SLOT="0/12"
+KEYWORDS="~amd64 ~arm ~ppc64 ~riscv ~x86 ~amd64-linux ~x86-linux"
+IUSE="arpack blas doc examples lapack mkl superlu test"
+RESTRICT="!test? ( test )"
+REQUIRED_USE="test? ( arpack lapack superlu )"
+
+#	atlas? ( sci-libs/atlas[lapack] )
+RDEPEND="
+	dev-libs/boost
+	arpack? ( sci-libs/arpack )
+	blas? ( virtual/blas )
+	lapack? ( virtual/lapack )
+	mkl? ( sci-libs/mkl )
+	superlu? ( >=sci-libs/superlu-5.2 )
+"
+DEPEND="${RDEPEND}
+	arpack? ( virtual/pkgconfig )
+	blas? ( virtual/pkgconfig )
+	lapack? ( virtual/pkgconfig )
+"
+
+PATCHES=(
+	"${FILESDIR}/${PN}-12.0.1-extratests.patch"
+)
+
+src_prepare() {
+	# avoid the automagic cmake macros...
+	sed -i -e 's/^ *include(ARMA_Find/# No automagic include(ARMA_Find/g' CMakeLists.txt || die
+
+	# ... except for mkl, since without a license it's hard to figure out what to do there
+	if use mkl; then
+		sed -i -e 's/^# No automagic include(ARMA_FindMKL)/include(ARMA_FindMKL)/g' CMakeLists.txt || die
+	fi
+
+	cmake_src_prepare
+}
+
+src_configure() {
+	local mycmakeargs=(
+		-DINSTALL_LIB_DIR="${EPREFIX}/usr/$(get_libdir)"
+	)
+	if use arpack; then
+		mycmakeargs+=(
+			-DARPACK_FOUND=ON
+			-DARPACK_LIBRARY="$($(tc-getPKG_CONFIG) --libs arpack)"
+		)
+	else
+		mycmakeargs+=(
+			-DARPACK_FOUND=OFF
+		)
+	fi
+#	if use atlas; then
+#		local c=atlas-cblas l=atlas-clapack
+#		$(tc-getPKG_CONFIG) --exists ${c}-threads && c+=-threads
+#		$(tc-getPKG_CONFIG) --exists ${l}-threads && l+=-threads
+#		mycmakeargs+=(
+#			-DCBLAS_FOUND=ON
+#			-DCBLAS_INCLUDE_DIR="$($(tc-getPKG_CONFIG) --cflags-only-I ${c} | sed 's/-I//')"
+#			-DCBLAS_LIBRARIES="$($(tc-getPKG_CONFIG) --libs ${c})"
+#			-DCLAPACK_FOUND=ON
+#			-DCLAPACK_INCLUDE_DIR="$($(tc-getPKG_CONFIG) --cflags-only-I ${l} | sed 's/-I//')"
+#			-DCLAPACK_LIBRARIES="$($(tc-getPKG_CONFIG) --libs ${l})"
+#		)
+#	fi
+	if use blas; then
+		mycmakeargs+=(
+			-DBLAS_FOUND=ON
+			-DBLAS_LIBRARIES="$($(tc-getPKG_CONFIG) --libs blas)"
+		)
+	else
+		mycmakeargs+=(
+			-DBLAS_FOUND=OFF
+		)
+	fi
+	if use lapack; then
+		mycmakeargs+=(
+			-DLAPACK_FOUND=ON
+			-DLAPACK_LIBRARIES="$($(tc-getPKG_CONFIG) --libs lapack)"
+		)
+	else
+		mycmakeargs+=(
+			-DLAPACK_FOUND=OFF
+		)
+	fi
+	if use superlu; then
+		mycmakeargs+=(
+			-DSuperLU_FOUND=ON
+			-DSuperLU_LIBRARY="$($(tc-getPKG_CONFIG) --libs superlu)"
+			-DSuperLU_INCLUDE_DIR="$($(tc-getPKG_CONFIG) --cflags-only-I superlu | awk '{print $1}' | sed 's/-I//')"
+		)
+	else
+		mycmakeargs+=(
+			-DSuperLU_FOUND=OFF
+		)
+	fi
+
+	cmake_src_configure
+}
+
+src_test() {
+	cmake_src_test || die
+
+	pushd tests2 > /dev/null
+	emake \
+		CXX="$(tc-getCXX)" \
+		CXX_FLAGS="-I../include ${CXXFLAGS} -DARMA_USE_BLAS -DARMA_USE_LAPACK" \
+		LIB_FLAGS="-L.. -larmadillo $($(tc-getPKG_CONFIG) --libs blas lapack)"
+	LD_LIBRARY_PATH="..:${LD_LIBRARY_PATH}" ./main || die
+	emake clean
+	popd > /dev/null
+}
+
+src_install() {
+	cmake_src_install
+
+	dodoc README.md
+	use doc && dodoc *pdf *html
+
+	if use examples; then
+		docinto examples
+		dodoc -r examples/*
+		docompress -x /usr/share/doc/${PF}/examples
+	fi
+}
diff --git a/sci-libs/beagle/Manifest b/sci-libs/beagle/Manifest
index 27793dfc8585..cece6b28ecc2 100644
--- a/sci-libs/beagle/Manifest
+++ b/sci-libs/beagle/Manifest
@@ -2,5 +2,5 @@ AUX beagle-3.0.3-fix-c++14.patch 1087 BLAKE2B 80c087c98cd5e39331bc078902c3bc1ff4
 AUX beagle-3.0.3-gcc43.patch 3096 BLAKE2B d7c34018389306ce1689f62bbb746def1dca82f39a23398b01ce6c4ed9c33e976b96fe55e33a81850d6032fb09932ba2f9554e06c51ef7ecd64f87aab20eea96 SHA512 3611b41ea82030b192cf36cfa9636a72e874e69b60f69dcbe0745b21c98e8d89e09f52f902b6d4e174a5a64e05b14352227610b4780f917d29122ef03270e702
 AUX beagle-3.0.3-gcc47.patch 447 BLAKE2B 6158075defe88efb7161c6270c66cbc1b2b8576df2b157f2a0a8b9b26cde42d92d596a6ec2bd89a34365112b4571f04efb2e6abc1674b03bb0747c7533768c28 SHA512 693db5621625c8c3323a7f252041f5c2c2eb2609901f326891b782dbcc369f0bf531a2eda40ba08bddb824224e3863ee01917ad56cc99117b2a27aa63599b6d3
 DIST beagle-3.0.3.tar.gz 5002994 BLAKE2B f23c3178a52333aef0d1ba71d3a9ae240a805f016c9f619f59d76f818d9a647505af608aab2e0eb19efba6c6a3ed9d14455e03cfaa38df2b324689ba8139b849 SHA512 2f8f027f3f24d0fd287e27a80fe5b24e18550144add06fb8157dd03f734f5ce212f62889720c81fd33246fa7086e9b913802ec0c5155df5bd801c36888b346cb
-EBUILD beagle-3.0.3-r1.ebuild 1082 BLAKE2B d1e51a38e0f4badfbe01d722fa7d9b30c1078c46058239031a1c4ab781776943ea951e1a419149b2c8f4c419afcb22321ff25c79d466af514d9950eb4a87901c SHA512 5e3437e54420889af62c0e6e38130f6690f5a1fc94ad9e1a1ba8c6b875fd6dd98f641c9916de5104d05b9f7827116693e9371869657d96fffa52ed3ba0dda90d
+EBUILD beagle-3.0.3-r2.ebuild 1150 BLAKE2B 9fdd0d0a6cb14b2b28d613d57d91010703be52886fd40712df3710243c2760ee687547b9581ee4d44a336a4b34a4fb2f39368ff023e376edd88d6a3b14b8ea82 SHA512 786aff2a3b3f90f010bd6641f3bd57896186a37aa5375c795f6aee1e58846552b881b264528a82f7088d93e2e153a7b24f3f2c6ea4414b6f753877de6e299feb
 MISC metadata.xml 676 BLAKE2B 1a1fc3f468bc74ca6a0eb1e1ed022a06866600b3821f514ccbcbd46bd13c56e017cba805f9f9f31367f5441acb56a0232426a20385018613381fa56a8b8e2eeb SHA512 d9882071e3845620498a52b5459e3a8ef51496602984be77b3e31844a3f9de4d3c17c3c5577a4a8b5ad7d3051f2b9c1fb73b089f8a24d162486bfcc970f216a0
diff --git a/sci-libs/beagle/beagle-3.0.3-r1.ebuild b/sci-libs/beagle/beagle-3.0.3-r2.ebuild
index 1061e0012dc8..72dde6ac1f03 100644
--- a/sci-libs/beagle/beagle-3.0.3-r1.ebuild
+++ b/sci-libs/beagle/beagle-3.0.3-r2.ebuild
@@ -1,23 +1,20 @@
 # Copyright 1999-2024 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=6
+EAPI=8
 
 DESCRIPTION="Open BEAGLE, a versatile EC/GA/GP framework"
-SRC_URI="mirror://sourceforge/beagle/${P}.tar.gz"
 HOMEPAGE="https://chgagne.github.io/beagle/"
+SRC_URI="mirror://sourceforge/beagle/${P}.tar.gz"
 
-SLOT="0"
 LICENSE="LGPL-2.1"
+SLOT="0"
 KEYWORDS="~amd64 ~x86"
 IUSE="doc examples static-libs"
 
-RDEPEND="
-	sys-libs/zlib
-	!app-misc/beagle
-	!dev-libs/libbeagle"
-DEPEND="${RDEPEND}
-	doc? ( app-text/doxygen )"
+RDEPEND="sys-libs/zlib"
+DEPEND="${RDEPEND}"
+BDEPEND="doc? ( app-text/doxygen )"
 
 PATCHES=(
 	"${FILESDIR}/${PN}-3.0.3-gcc43.patch"
@@ -27,8 +24,10 @@ PATCHES=(
 
 src_prepare() {
 	default
-	sed -e "s:@LIBS@:@LIBS@ -lpthread:" \
-		-i PACC/Threading/Makefile.in || die
+	sed -e "s:@LIBS@:& -lpthread:" -i PACC/Threading/Makefile.in || die
+
+	# fix build with C++17, bug #898274
+	sed -e "s/register //" -i PACC/Util/{MTRand.hpp,Tokenizer.cpp} || die
 }
 
 src_configure() {
diff --git a/sci-libs/libtifiles2/Manifest b/sci-libs/libtifiles2/Manifest
index acfcb8f20182..de777285bbd8 100644
--- a/sci-libs/libtifiles2/Manifest
+++ b/sci-libs/libtifiles2/Manifest
@@ -1,3 +1,3 @@
 DIST libtifiles2-1.1.7.tar.bz2 122454 BLAKE2B 1ae51ccde4a5a9127b015b6fa5ad4d446e56b473330a3d220c6a6b7cb333161e9e9d80cae7ac8985beb0e844ce21ffdc4713847d69986b6d7f5506a5a6b1545f SHA512 e2ef4de0ce8c78f0da4098ec618a7194f9b94a028f9cb54a0ea1c29c00028d7cf144a067d8aaf8010ad094378b6426d05621d530cfbfa05f793f6c1ed41fcaef
-EBUILD libtifiles2-1.1.7.ebuild 902 BLAKE2B 3abac43d194cb3d05af02c4e65ab75293278e54b532ffaaefdcf590924327811a0d13bbe70b001d17dfae86588df6a146b381b3ec6729ab1e75c380efcc2c786 SHA512 023447c2ab16041bb8c638c17c26ae2ee504869b2d5bcc1a5e5b4b7538bcd8c7484ac79ff5da3495e4f752720479e93558a2659886e9d4b290905d7e75168326
+EBUILD libtifiles2-1.1.7-r1.ebuild 919 BLAKE2B 3397706b36932065dc15b0bf9555e2756e160d0f9fd44a31b47766518203da78d76d683d4f4c347cd55fadc2ce11edd72b9fa5813e664aa91b6a8f3493499c4b SHA512 e4c4dabc240a2c8af09da15eda876a91a96658e0f37aeef24320805c48f85f09c97bd24534c42487206b6b77883e9dff27304e995c51c7eaed9a2d95de6343c3
 MISC metadata.xml 693 BLAKE2B 2f77b1c291935df19bdc81fbcca20ba012baa066562eaf7eea6324b7e9efdbedd7242c2324d6f10548292919332c4a22b5b87adb8b564c17e6b8ed7a3eb13c61 SHA512 5ac18b6354306651638e2e6aa225ae0eb61255fae8a559de62765082293cfde23c1e409cdc042a2d49ca2f0bc9293f3f360f7205a887445fe373b9b64cbfdcc9
diff --git a/sci-libs/libtifiles2/libtifiles2-1.1.7.ebuild b/sci-libs/libtifiles2/libtifiles2-1.1.7-r1.ebuild
index 158a6d79c8b8..546127055cd2 100644
--- a/sci-libs/libtifiles2/libtifiles2-1.1.7.ebuild
+++ b/sci-libs/libtifiles2/libtifiles2-1.1.7-r1.ebuild
@@ -1,7 +1,7 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2024 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
-EAPI=6
+EAPI=8
 
 inherit autotools
 
@@ -15,15 +15,17 @@ KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux"
 IUSE="doc nls static-libs"
 
 RDEPEND="
-	app-arch/libarchive
+	app-arch/libarchive:=
 	dev-libs/glib:2
 	>=sci-libs/libticables2-1.3.3
 	>=sci-libs/libticonv-1.1.3
-	nls? ( virtual/libintl )"
-
-DEPEND="${RDEPEND}
+	nls? ( virtual/libintl )
+"
+DEPEND="${RDEPEND}"
+BDEPEND="
 	virtual/pkgconfig
-	nls? ( sys-devel/gettext )"
+	nls? ( sys-devel/gettext )
+"
 
 DOCS=( AUTHORS LOGO NEWS README ChangeLog docs/api.txt )
 
@@ -39,7 +41,7 @@ src_configure() {
 }
 
 src_install() {
-	use doc && HTML_DOCS=( docs/html/. )
+	use doc && local HTML_DOCS=( docs/html/. )
 	default
 	find "${D}" -name '*.la' -delete || die
 }
diff --git a/sci-libs/transformers/Manifest b/sci-libs/transformers/Manifest
index 98f83819c246..c35899b4e8f2 100644
--- a/sci-libs/transformers/Manifest
+++ b/sci-libs/transformers/Manifest
@@ -1,5 +1,3 @@
-DIST transformers-4.34.1.gh.tar.gz 14985064 BLAKE2B 7bccc5c924d26c69a6d185265bdbb70fddd57f325d6cf586dd0fcf0f84890dabd653eb1e528668d5605c22349e5314344b6f0052b9a3fc35018d4ca9ca89f6cf SHA512 ed1703e63597f94a0782c1e74287735b306d0722437fb860f8badc7ae88c25f7bcdaacb381435643aba776ba5886fe1a676cc33f5d07d647711298bb797067dd
-DIST transformers-4.35.2.gh.tar.gz 15700171 BLAKE2B 4a22810aa0fc4b0fc032bc1392669eb254c93a23a9b71d997be16cb3da3ef35c66117e58d30f28882b484c5cddf33e41910196d443aba04003146ea00703cee2 SHA512 1ba232f48cfb572a9576b32cfc47c1941137aed08c18759c86f60e58424b6733484e85e73ad214bde2d020ddaa269ed0496dddd945d68f2bfa520017d8f94447
-EBUILD transformers-4.34.1-r1.ebuild 989 BLAKE2B b8b257c2c17f0e29f95f142e452fc0c21301d9fbd59a7ac511cf4dca1889fc1bc031c747449a3f1c377421063c0ac841e890cf243451a04843f72d96bb186339 SHA512 18e8269466c5e4977b0dd49ad1502f779c74fedb991ba8a1fa181fe3ed67f26a2c80a1f06e77227dec22009360eeaa9b525222c96038f932d4c223d28ac0b93f
-EBUILD transformers-4.35.2.ebuild 990 BLAKE2B 55aadd1156c493a99312d89ac94493c4f1f6b33fb6bef37d3bfea30c68b4ea2a8cb2676d31398616f3e04ff3bc6d1eceae8d3ad333688b2e47a2a8a74235d830 SHA512 a562740c3cc5e5f9030d97caee388969f88b562358e40f10c9c0ecfeafaf9028b88fe5a7f31e11d519c96f710ad2aab214e32c25ab9e3e0bfd475895352c3c02
+DIST transformers-4.36.2.gh.tar.gz 16379041 BLAKE2B 3cd8dd9949e97971cf116e79327782a59a98df58ffeebafd4cf37009e805f8c332dd9739f1c6f5f627db0c7cc7a286329727740a6b5d701b05d0dc5201ce985d SHA512 e2f07f49f7ad0141dbb1ad594e7e1e0ab91c0b199d7f63e8396f4d6b58dbcf8f9004b9e809ad641950a9616d7755f0cd21fa332f47cbb9606a346a0184baa7b5
+EBUILD transformers-4.36.2.ebuild 990 BLAKE2B 55aadd1156c493a99312d89ac94493c4f1f6b33fb6bef37d3bfea30c68b4ea2a8cb2676d31398616f3e04ff3bc6d1eceae8d3ad333688b2e47a2a8a74235d830 SHA512 a562740c3cc5e5f9030d97caee388969f88b562358e40f10c9c0ecfeafaf9028b88fe5a7f31e11d519c96f710ad2aab214e32c25ab9e3e0bfd475895352c3c02
 MISC metadata.xml 387 BLAKE2B 3f22d78a1aa32d40204f0c028a564cae5950a3294a7f0ed13c171683a63d2e62892a3740834735a5165745bb477538ac75826fd0c495883bacb32fe22d124621 SHA512 f800c33c27db9b23289e0086f82a80c593b7eeca00cec7bd9c3619e4f074878302c9110117d1a4ddaf789c53a58c4b274d46f4bcea9b8eec477b4fcf8e317a29
diff --git a/sci-libs/transformers/transformers-4.34.1-r1.ebuild b/sci-libs/transformers/transformers-4.34.1-r1.ebuild
deleted file mode 100644
index 482c1835adb8..000000000000
--- a/sci-libs/transformers/transformers-4.34.1-r1.ebuild
+++ /dev/null
@@ -1,36 +0,0 @@
-# Copyright 2023-2024 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=8
-
-DISTUTILS_USE_PEP517=setuptools
-PYTHON_COMPAT=( python3_{9..12} )
-inherit distutils-r1
-
-DESCRIPTION="State-of-the-art Machine Learning for JAX, PyTorch and TensorFlow"
-HOMEPAGE="
-	https://pypi.org/project/transformers/
-	https://huggingface.co/
-"
-SRC_URI="https://github.com/huggingface/${PN}/archive/refs/tags/v${PV}.tar.gz
-	-> ${P}.gh.tar.gz"
-
-LICENSE="Apache-2.0"
-SLOT="0"
-KEYWORDS="~amd64"
-RESTRICT="test" # Need some modules, not yet packaged
-
-RDEPEND="
-	dev-python/filelock[${PYTHON_USEDEP}]
-	sci-libs/huggingface_hub[${PYTHON_USEDEP}]
-	dev-python/numpy[${PYTHON_USEDEP}]
-	dev-python/packaging[${PYTHON_USEDEP}]
-	dev-python/pyyaml[${PYTHON_USEDEP}]
-	dev-python/regex[${PYTHON_USEDEP}]
-	dev-python/requests[${PYTHON_USEDEP}]
-	sci-libs/safetensors[${PYTHON_USEDEP}]
-	sci-libs/tokenizers[${PYTHON_USEDEP}]
-	dev-python/tqdm[${PYTHON_USEDEP}]
-"
-
-distutils_enable_tests pytest
diff --git a/sci-libs/transformers/transformers-4.35.2.ebuild b/sci-libs/transformers/transformers-4.36.2.ebuild
index d115e34a5797..d115e34a5797 100644
--- a/sci-libs/transformers/transformers-4.35.2.ebuild
+++ b/sci-libs/transformers/transformers-4.36.2.ebuild