dev-lang/julia: update to 1.10.0

Use julia suiteparse as it fails to compile without rbio (not packaged by Gentoo in sci-libs/suiteparse).
gentoo · Dec 30, 2023 · 133c704 · 133c704
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diff --git a/dev-lang/julia/Manifest b/dev-lang/julia/Manifest
@@ -1,4 +1,5 @@
 DIST julia-0b211609.patch 9574 BLAKE2B bf43f143b8873ad1812d95d5866a77f28b5dfeb05f41c9dd8f384109ec8cfab09f78bb7b891d5178d6c445ba58cdfe2bdf0cc4c5bf032910c42d4fd1b89883f7 SHA512 aaeeee2e96773589e4347af4df169ef3d241a4c7a22d28ec356a13062f7d11f043cebce8b79afbebb1fb411ad957d4d14880ae051924cb694b39283ccce1658b
+DIST julia-1.10.0-full.tar.gz 318571431 BLAKE2B 66de48ba107c183c3d431419d8c7910306b99528bb377ace77e74fb3307cbb0ddea1aad615ade7ec448a8817a646aaee90b86ca24ef78d226bdb8432f2287e41 SHA512 9a062de6873d56a93df557715e95b6c120411095c05b5e3137329519499a7d84ec4757bbac152d9732c442c3cd988919e817c8b96d0a38fa1debee7ff5828fd0
 DIST julia-1.8.0-074d761f.patch 2198 BLAKE2B 7d4b147e290defceaad1b5b6d0c2c9a323b47d685bb1865b23c84aa68135c00104e653a5046d276aa540415ee4c95426f1a4538df3ba0ae4c348966a2f2b1742 SHA512 ff1e23746851b1b7a4480df75815abb35ccc8006f622acb5fb3928e20832cf55022c96650590c8dfea9b39185a3284a0d1310dee3f439429c91e00af567b66f1
 DIST julia-1.8.0-0db596e6.patch 15029 BLAKE2B 2d5152436c2a7b0dcd60346c9fe9ea008f7672a68ae038762c5952c6c85173d28b3fd7335282e783cc1f91102e8dd58ae9967caa476ad8f93dd60f8f485fbbe3 SHA512 1f4eb42656bbaed3c85d520875c687f0dd98e9ef0d73f0d3a2b3ac4395020984effc03477c56ab6594cd15e87899923591f6cabeb4e2a43c26725ebe51dbf0be
 DIST julia-1.8.0-190565c2.patch 4166 BLAKE2B f55937098219f2d34044cf8963b5421912c2eeeec0e38f8f2c6a0146412f6c653a9797cc1695a514dff31a628d904f68a2750fd0fd63057f5dd34210ae845e92 SHA512 a1b26fb0e36767e42268e9cf97ff4b8bc792e8c4c00196b335dede91d814c381a34711e8759b175c0fd66dd88e91edef7b467be16854267c66bf653bb361df3a

diff --git a/dev-lang/julia/files/julia-1.10.0-cuda.patch b/dev-lang/julia/files/julia-1.10.0-cuda.patch
@@ -0,0 +1,30 @@
+diff --git a/Makefile b/Makefile
+index 1565014..5e9b4cc 100644
+--- a/Makefile
++++ b/Makefile
+@@ -196,7 +196,7 @@ else ifeq ($(JULIA_BUILD_MODE),debug)
+ JL_PRIVATE_LIBS-0 += libjulia-internal-debug libjulia-codegen-debug
+ endif
+ ifeq ($(USE_GPL_LIBS), 1)
+-JL_PRIVATE_LIBS-$(USE_SYSTEM_LIBSUITESPARSE) += libamd libbtf libcamd libccolamd libcholmod libcholmod_cuda libcolamd libklu libldl librbio libspqr libspqr_cuda libsuitesparseconfig libumfpack
++JL_PRIVATE_LIBS-$(USE_SYSTEM_LIBSUITESPARSE) += libamd libbtf libcamd libccolamd libcholmod libcolamd libklu libldl librbio libspqr libsuitesparseconfig libumfpack
+ endif
+ JL_PRIVATE_LIBS-$(USE_SYSTEM_LIBBLASTRAMPOLINE) += libblastrampoline
+ JL_PRIVATE_LIBS-$(USE_SYSTEM_PCRE) += libpcre2-8
+
+diff --git a/base/Makefile b/base/Makefile
+index ad2bb6a..493302a 100644
+--- a/base/Makefile
++++ b/base/Makefile
+@@ -269,11 +269,9 @@ $(eval $(call symlink_system_library,LIBSUITESPARSE,libamd))
+ $(eval $(call symlink_system_library,LIBSUITESPARSE,libcamd))
+ $(eval $(call symlink_system_library,LIBSUITESPARSE,libccolamd))
+ $(eval $(call symlink_system_library,LIBSUITESPARSE,libcholmod))
+-$(eval $(call symlink_system_library,LIBSUITESPARSE,libcholmod_cuda))
+ $(eval $(call symlink_system_library,LIBSUITESPARSE,libcolamd))
+ $(eval $(call symlink_system_library,LIBSUITESPARSE,libumfpack))
+ $(eval $(call symlink_system_library,LIBSUITESPARSE,libspqr))
+-$(eval $(call symlink_system_library,LIBSUITESPARSE,libspqr_cuda))
+ $(eval $(call symlink_system_library,LIBSUITESPARSE,libsuitesparseconfig))
+ # EXCLUDED LIBRARIES (installed/used, but not vendored for use with dlopen):
+ # libunwind
diff --git a/dev-lang/julia/files/julia-1.10.0-lib.patch b/dev-lang/julia/files/julia-1.10.0-lib.patch
@@ -0,0 +1,35 @@
+diff --git a/stdlib/SuiteSparse_jll/src/SuiteSparse_jll.jl b/stdlib/SuiteSparse_jll/src/SuiteSparse_jll.jl
+index f245759..e5a4502 100644
+--- a/stdlib/SuiteSparse_jll/src/SuiteSparse_jll.jl
++++ b/stdlib/SuiteSparse_jll/src/SuiteSparse_jll.jl
+@@ -67,18 +67,18 @@ elseif Sys.isapple()
+     const libsuitesparseconfig = "@rpath/libsuitesparseconfig.7.dylib"
+     const libumfpack = "@rpath/libumfpack.6.dylib"
+ else
+-    const libamd = "libamd.so.3"
+-    const libbtf = "libbtf.so.2"
+-    const libcamd = "libcamd.so.3"
+-    const libccolamd = "libccolamd.so.3"
+-    const libcholmod = "libcholmod.so.4"
+-    const libcolamd = "libcolamd.so.3"
+-    const libklu = "libklu.so.2"
+-    const libldl = "libldl.so.3"
+-    const librbio = "librbio.so.4"
+-    const libspqr = "libspqr.so.4"
+-    const libsuitesparseconfig = "libsuitesparseconfig.so.7"
+-    const libumfpack = "libumfpack.so.6"
++    const libamd = "libamd.so"
++    const libbtf = "libbtf.so"
++    const libcamd = "libcamd.so"
++    const libccolamd = "libccolamd.so"
++    const libcholmod = "libcholmod.so"
++    const libcolamd = "libcolamd.so"
++    const libklu = "libklu.so"
++    const libldl = "libldl.so"
++    const librbio = "librbio.so"
++    const libspqr = "libspqr.so"
++    const libsuitesparseconfig = "libsuitesparseconfig.so"
++    const libumfpack = "libumfpack.so"
+ end
+
+ function __init__()
diff --git a/dev-lang/julia/files/julia-1.10.0-libgit2.patch b/dev-lang/julia/files/julia-1.10.0-libgit2.patch
@@ -0,0 +1,13 @@
+diff --git a/stdlib/LibGit2_jll/src/LibGit2_jll.jl b/stdlib/LibGit2_jll/src/LibGit2_jll.jl
+index f8e814f..622a0c1 100644
+--- a/stdlib/LibGit2_jll/src/LibGit2_jll.jl
++++ b/stdlib/LibGit2_jll/src/LibGit2_jll.jl
+@@ -23,7 +23,7 @@ if Sys.iswindows()
+ elseif Sys.isapple()
+     const libgit2 = "@rpath/libgit2.1.6.dylib"
+ else
+-    const libgit2 = "libgit2.so.1.6"
++    const libgit2 = "libgit2.so"
+ end
+
+ function __init__()
diff --git a/dev-lang/julia/julia-1.10.0.ebuild b/dev-lang/julia/julia-1.10.0.ebuild
@@ -0,0 +1,203 @@
+
+# Copyright 1999-2023 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+# correct versions for stdlibs are in deps/checksums
+# for everything else, run with network-sandbox and wait for the crash
+
+EAPI=8
+
+MY_LLVM_V=15.0.7
+
+PYTHON_COMPAT=( python3_{9..12} )
+
+inherit check-reqs flag-o-matic optfeature pax-utils python-any-r1 toolchain-funcs
+
+DESCRIPTION="High-performance programming language for technical computing"
+HOMEPAGE="https://julialang.org/
+	https://github.com/JuliaLang/julia/"
+SRC_URI="
+	https://github.com/JuliaLang/julia/releases/download/v${PV}/${P}-full.tar.gz
+"
+
+LICENSE="MIT"
+SLOT="0"
+PROPERTIES="test_network"
+RESTRICT="test"
+
+RDEPEND="
+	>=dev-libs/libutf8proc-2.6.1:0=[-cjk]
+	>=dev-util/patchelf-0.13
+	>=net-libs/mbedtls-2.2
+	>=sci-mathematics/dsfmt-2.2.4
+	>=sys-libs/libunwind-1.1:0=
+	>=virtual/blas-3.6
+	app-arch/p7zip
+	app-misc/ca-certificates
+	dev-libs/gmp:0=
+	dev-libs/libgit2:0
+	dev-libs/mpfr:0=
+	net-misc/curl[http2,ssh]
+	sci-libs/amd:0=
+	sci-libs/arpack:0=
+	sci-libs/btf:0=
+	sci-libs/camd:0=
+	sci-libs/ccolamd:0=
+	sci-libs/cholmod:0=
+	sci-libs/colamd:0=
+	sci-libs/fftw:3.0=[threads]
+	sci-libs/klu:0=
+	sci-libs/ldl:0=
+	sci-libs/openlibm:0=
+	sci-libs/openblas:0=
+	sci-libs/spqr:0=
+	sci-libs/suitesparseconfig:0=
+	sci-libs/umfpack:0=
+	sys-libs/zlib:0=
+	virtual/lapack
+"
+DEPEND="${RDEPEND}"
+BDEPEND="
+	${PYTHON_DEPS}
+	dev-util/cmake
+	virtual/pkgconfig
+"
+
+CHECKREQS_DISK_BUILD="4G"
+PATCHES=(
+	"${FILESDIR}"/julia-1.10.0-cuda.patch
+	"${FILESDIR}"/julia-1.10.0-libgit2.patch
+	"${FILESDIR}"/julia-1.10.0-lib.patch
+	"${FILESDIR}"/julia-1.9.4-string-replace.patch
+	)
+QA_FLAGS_IGNORED+='usr/.*/julia/sys.so'  # Julia sysimage generated by bootstrapping.
+
+pkg_setup() {
+	check-reqs_pkg_setup
+	python-any-r1_pkg_setup
+}
+
+src_unpack() {
+	local -a tounpack=( ${A} )
+	# the main source tree, followed by deps
+	unpack "${tounpack[0]}"
+
+	mkdir -p "${S}/deps/srccache/"
+	local i
+	for i in "${tounpack[@]:1}"; do
+		cp "${DISTDIR}/${i}" "${S}/deps/srccache/${i#julia-}" || die
+	done
+
+	# Extract tarballs for patching.
+	# cd "${S}/deps/srccache/" || die
+	# tar xf llvm-julia-${MY_LLVM_V}-3.tar.gz || die
+}
+
+src_prepare() {
+	default
+
+	# Sledgehammer:
+	# - prevent fetching of bundled stuff in compile and install phase
+	# - respect CFLAGS
+	# - respect EPREFIX and Gentoo specific paths
+
+	sed -i \
+		-e "\|SHIPFLAGS :=|c\\SHIPFLAGS := ${CFLAGS}" \
+		Make.inc || die
+
+	sed -i \
+		-e "s|ar -rcs|$(tc-getAR) -rcs|g" \
+		src/Makefile || die
+
+	# Blank the tarball checksum check script.
+	echo "#!/bin/sh" > deps/tools/jlchecksum || die
+}
+
+src_configure() {
+	# bug #855602
+	filter-lto
+
+	# julia does not play well with the system versions of libuv
+	# Fails to compile with libpcre2 on split-usr, bug #893336
+	# USE_SYSTEM_LIBM=0 implies using external openlibm
+	# Rbio is not available for Gentoo so we usie libsuiteparse locally
+	cat <<-EOF > Make.user
+		LOCALBASE:=${EPREFIX}/usr
+		override prefix:=${EPREFIX}/usr
+		override libdir:=\$(prefix)/$(get_libdir)
+		override CC:=$(tc-getCC)
+		override CXX:=$(tc-getCXX)
+		override AR:=$(tc-getAR)
+
+		BUNDLE_DEBUG_LIBS:=0
+		USE_BINARYBUILDER:=0
+		USE_INTEL_JITEVENTS=0
+		USE_SYSTEM_CSL:=1
+		USE_SYSTEM_LLVM:=0
+		USE_SYSTEM_LIBUNWIND:=1
+		USE_SYSTEM_PCRE:=0
+		USE_SYSTEM_LIBM:=0
+		USE_SYSTEM_OPENLIBM:=1
+		USE_SYSTEM_DSFMT:=1
+		USE_SYSTEM_BLAS:=1
+		USE_SYSTEM_LAPACK:=1
+		USE_SYSTEM_LIBBLASTRAMPOLINE:=0
+		USE_SYSTEM_GMP:=1
+		USE_SYSTEM_MPFR:=1
+		USE_SYSTEM_LIBSUITESPARSE:=0
+		USE_SYSTEM_LIBUV:=0
+		USE_SYSTEM_UTF8PROC:=1
+		USE_SYSTEM_MBEDTLS:=1
+		USE_SYSTEM_LIBSSH2:=1
+		USE_SYSTEM_NGHTTP2:=1
+		USE_SYSTEM_CURL:=1
+		USE_SYSTEM_LIBGIT2:=1
+		USE_SYSTEM_PATCHELF:=1
+		USE_SYSTEM_ZLIB:=1
+		USE_SYSTEM_P7ZIP:=1
+		VERBOSE:=1
+	EOF
+}
+
+src_compile() {
+	# Julia accesses /proc/self/mem on Linux.
+	addpredict /proc/self/mem
+
+	# Julia expects .so files to be in  lib64 during compilation
+	mkdir -p "${S}"/usr/lib
+	ln -s lib "${S}"/usr/lib64
+
+	emake
+	pax-mark m "$(file usr/bin/julia-* | awk -F : '/ELF/ {print $1}')"
+}
+
+src_install() {
+	emake -j1 install DESTDIR="${D}"
+	dodoc CONTRIBUTING.md HISTORY.md NEWS.md README.md THIRDPARTY.md
+
+	local llvmslot=$(ver_cut 1 ${MY_LLVM_V})
+	cp "${S}"/usr/lib/libLLVM-${llvmslot}jl.so "${ED}"/usr/$(get_libdir)/julia/ || die
+	cp "${S}"/usr/lib/libLLVM-${MY_LLVM_V}jl.so "${ED}"/usr/$(get_libdir)/julia/ || die
+
+	mv "${ED}"/usr/etc/julia "${ED}"/etc || die
+	rmdir "${ED}"/usr/etc || die
+	mv "${ED}"/usr/share/doc/julia/html "${ED}"/usr/share/doc/"${PF}" || die
+	rmdir "${ED}"/usr/share/doc/julia || die
+
+	# The appdata directory is deprecated.
+	mv "${ED}"/usr/share/{appdata,metainfo}/ || die
+
+	# Link ca-certificates.crt, bug: https://bugs.gentoo.org/888978
+	dosym -r /etc/ssl/certs/ca-certificates.crt /usr/share/julia/cert.pem
+
+	# Julia always searches for "sys.so" inside "/usr/lib/julia",
+	# bug: https://github.com/JuliaLang/julia/issues/49574
+	if [[ $(get_libdir) == "lib64" ]] ; then
+		insinto /usr/lib/julia
+		doins "${ED}"/usr/$(get_libdir)/julia/sys.so
+	fi
+}
+
+pkg_postinst() {
+	optfeature "Julia Plots" sci-visualization/gr
+}