aports/community/hdf5/APKBUILD

# Contributor: Isaac Dunham <ibid.ag@gmail.com>
# Maintainer: Holger Jaekel <holger.jaekel@gmx.de>
#
# HDF5 depends on zlib and provides a C interface by default.
# Optionally, it can be built with szip (which has limitations on
# commercial use and thus is non-free), MPI, and C++ and Fortran bindings.
# C++ and Fortran bindings may not be thread-safe:
# building either and passing --enable-threadsafe is unsupported.
# Additionally, the 'high-level' bindings are incompatible with threadsafe
# builds, due to inadequate locking.

pkgname=hdf5
_basepkgver=1.14.4
_suffixpkgver=2
pkgver=$_basepkgver.$_suffixpkgver
pkgrel=0
pkgdesc="HDF5 is a data model, library, and file format for storing and managing data"
url="https://www.hdfgroup.org/solutions/hdf5/"
arch="all"
license="custom"
depends_dev="zlib-dev"
makedepends="cmake $depends_dev gfortran libaec-dev perl"
checkdepends="diffutils"
subpackages="$pkgname-tools $pkgname-fortran $pkgname-cpp $pkgname-hl $pkgname-hl-fortran:hl_fortran $pkgname-hl-cpp:hl_cpp $pkgname-static $pkgname-doc $pkgname-dev"
source="https://github.com/HDFGroup/hdf5/releases/download/hdf5_$pkgver/hdf5-$_basepkgver-$_suffixpkgver.tar.gz
	10-version.patch"
builddir=$srcdir/$pkgname-$_basepkgver-$_suffixpkgver

# Optional dependency java-jdk is not available on riscv64 and loongarch64
# Tests fail on s390x and x86
_with_java=""
_enable_java=""
case "$CARCH" in
	riscv64 | s390x | x86 | loongarch64) ;;
	*)
		makedepends="$makedepends openjdk8"
		subpackages="$subpackages java-$pkgname:java"
		_with_java="-DHDF5_BUILD_JAVA=ON -DJAVA_HOME=/usr/lib/jvm/default-jvm"
		_enable_java="--enable-java"
		;;
esac

# secfixes:
#   1.12.2-r0:
#     - CVE-2018-17432
#   1.12.1-r0:
#     - CVE-2018-11206
#     - CVE-2018-13869
#     - CVE-2018-13870
#     - CVE-2018-14033
#     - CVE-2018-14460
#     - CVE-2018-17435
#     - CVE-2019-9151
#     - CVE-2020-10811

prepare() {
	default_prepare

	# Don't mess with build flags
	sed -e '/-Werror/d' -i configure
}

build() {
	if [ "$CBUILD" != "$CHOST" ]; then
		CMAKE_CROSSOPTS="-DCMAKE_SYSTEM_NAME=Linux -DCMAKE_HOST_SYSTEM_NAME=Linux"
	fi
	export PATH=/usr/lib/jvm/default-jvm/bin:$PATH

	# Crazy workaround: run CMake to generate pkg-config file
	# 2nd workaround: cmake creates the file pac_Cconftest.out in the current
	# directory, but checks if it is successfully created in the build dir.
	# So the current directory must be build.
	mkdir build && cd build
	cmake \
		-DCMAKE_INSTALL_PREFIX=/usr \
		-DBUILD_SHARED_LIBS=True \
		-DCMAKE_BUILD_TYPE=None \
		-DCMAKE_CXX_FLAGS="$CXXFLAGS" \
		-DCMAKE_C_FLAGS="$CFLAGS" \
		-DHDF5_BUILD_HL_LIB=ON \
		-DHDF5_BUILD_CPP_LIB=ON \
		-DHDF5_BUILD_FORTRAN=ON \
		$_with_java \
		-DHDF5_ENABLE_Z_LIB_SUPPORT=ON \
		-DHDF5_ENABLE_SZIP_SUPPORT=ON \
		-DHDF5_ENABLE_SZIP_ENCODING=ON \
		-DUSE_LIBAEC=ON \
		-DDEFAULT_API_VERSION=v18 \
		$CMAKE_CROSSOPTS ..
	cd $builddir

	# But don’t build with it, it’s quite broken
	./configure \
		--prefix=/usr \
		--docdir=/usr/share/doc/hdf5/ \
		--with-examplesdir='/usr/share/doc/hdf5/examples' \
		--enable-static \
		--disable-sharedlib-rpath \
		--enable-build-mode=production \
		--enable-hl \
		--enable-cxx \
		--enable-fortran \
		$_enable_java \
		--with-pic \
		--with-zlib \
		--with-szlib \
		--with-default-api-version=v18
	make
}

check() {
	# Without this, checks are failing with messages like
	# "error while loading shared libraries: libhdf5.so.101: cannot open shared object file: No such file or directory"
	export LD_LIBRARY_PATH="$srcdir"/$pkgname-${pkgver/_/-}/src/.libs/
	export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"$builddir/c++/src/.libs/"
	export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"$builddir/fortran/src/.libs/"
	export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"$builddir/hl/src/.libs/"
	export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"$builddir/hl/c++/src/.libs/"
	export LD_LIBRARY_PATH="$LD_LIBRARY_PATH":"$builddir/hl/fortran/src/.libs/"
	make check
}

package() {
	make DESTDIR="$pkgdir" install
	install -Dm0644 COPYING "$pkgdir"/usr/share/licenses/"$pkgname"/COPYING

	# Install pkg-config files from CMake tree
	install -Dm644 build/CMakeFiles/hdf5*.pc -t "$pkgdir"/usr/lib/pkgconfig/
}

tools() {
	pkgdesc="Runtime tools for HDF5 library"
	amove usr/bin/*
}

fortran() {
	pkgdesc="Fortran runtime files for serial platforms for HDF5 library"
	amove usr/lib/libhdf5_fortran.so.*
}

cpp() {
	pkgdesc="C++ runtime files for serial platforms for HDF5 library"
	amove usr/lib/libhdf5_cpp.so.*
}

hl() {
	pkgdesc="High Level C API runtime files for serial platforms for HDF5 library"
	amove usr/lib/libhdf5_hl.so.*
}

hl_fortran() {
	pkgdesc="High Level Fortran runtime files for serial platforms for HDF5 library"
	amove usr/lib/libhdf5hl_fortran.so.*
}

hl_cpp() {
	pkgdesc="High Level C++ runtime files for serial platforms for HDF5 library"
	amove usr/lib/libhdf5_hl_cpp.so.*
}

java() {
	pkgdesc="Java bindings for HDF5 library"
	mkdir -p "$subpkgdir"/usr/share/java/
	mkdir -p "$subpkgdir"/usr/lib/jni/
	mv "$pkgdir"/usr/lib/jarhdf5-$_basepkgver.jar "$subpkgdir"/usr/share/java/
	ln -s jarhdf5-$_basepkgver.jar "$subpkgdir"/usr/share/java/jarhdf5.jar
	mv "$pkgdir"/usr/lib/libhdf5_java.so "$subpkgdir"/usr/lib/jni/
}

dev() {
	default_dev
	amove usr/lib/libhdf5.settings
}

sha512sums="
f1714b7999468d580b7cae2e575d3d7f31cea2fb81bfa4e37abd248d7223476b2351d1714197ace04eee970b451cf1f6971f5a291fd7426398737b8d7eb26924  hdf5-1.14.4-2.tar.gz
4648fea26aebc3fe34befd99ce58adbef5f22bac96cda68f1154bb09b8a2d5bca07023e884615235741767927cf051340544df6a35e33b2d09cfd5e7c5540389  10-version.patch
"