File ncbi-vdb.spec of Package ncbi-vdb

#
# spec file for package ncbi-vdb
#
# Copyright (c) 2023 SUSE LLC
#
# All modifications and additions to the file contributed by third parties
# remain the property of their copyright owners, unless otherwise agreed
# upon. The license for this file, and modifications and additions to the
# file, is the same license as for the pristine package itself (unless the
# license for the pristine package is not an Open Source License, in which
# case the license is the MIT License). An "Open Source License" is a
# license that conforms to the Open Source Definition (Version 1.9)
# published by the Open Source Initiative.

# Please submit bugfixes or comments via https://bugs.opensuse.org/
#


Name:           ncbi-vdb
Version:        3.0.2
Release:        0
Summary:        VDB database engine for SRA
License:        SUSE-Public-Domain
Group:          Productivity/Scientific/Other
URL:            https://github.com/ncbi/ncbi-vdb
Source:         https://github.com/ncbi/ncbi-vdb/archive/refs/tags/%{version}.tar.gz#/ncbi-vdb-%{version}.tar.gz
BuildRequires:  chrpath
BuildRequires:  cmake
BuildRequires:  fdupes
BuildRequires:  file-devel
BuildRequires:  gcc-c++
BuildRequires:  hdf5-devel
BuildRequires:  libbz2-devel
BuildRequires:  libxml2-devel
BuildRequires:  libzstd-devel
BuildRequires:  mbedtls-devel
ExclusiveArch:  x86_64 aarch64 %{arm}

%description
The (US) National Center for Biotechnology Information (NCBI)'s
Virtual/Vertical Database (VDB) is a highly compressed column-oriented
data warehousing technology developed initially to address the needs
of the Sequence Read Archive (SRA).

%package devel
Summary:        Development files for ncbi-vdb
Group:          Development/Languages/C and C++
Requires:       libbz2-devel
Requires:       libncbi-vdb = %{version}
Requires:       libxml2-devel
Requires:       libzstd-devel
Requires:       mbedtls-devel

%description devel
Header files for ncbi-vdb development.

%package -n libncbi-vdb
Summary:        NCBI vdb shared libraries
Group:          System/Libraries

%description -n libncbi-vdb
Header files for ncbi-vdb development.

%prep
%autosetup -p1
# Unvendor system libraries
sed -i -e '/add_subdirectory(ext).*/ d' -e 's/ ext / /' libs/CMakeLists.txt test/CMakeLists.txt
sed -i -e '/mbed.*/ d' -e '/bz2/ d' -e '/zstd/ d' -e '/\bz\b/ d' libs/ncbi-vdb/CMakeLists.txt
sed -i -e 's/;dl;/;dl;bz2;zstd;z;mbedtls;mbedcrypto;mbedx509;/' libs/ncbi-vdb/CMakeLists.posix.txt
sed -i -e '/COMMON_LIBS_/ s/ncbi-.*vdb/\0-shared/' test/CMakeLists.txt
sed -i -e 's/vdb_mbed/mbed/g' -e 's/vdb_ ## func_name/func_name/' libs/{krypto,kns,cloud}/*.c
sed -i -e '/#include/ s@ext/@@' libs/*/*.c
rm -Rf libs/ext
rm -Rf interfaces/ext
# Disable installation of static libraries
find . -iname \*CMakeLists\*.txt -print -exec sed -i '/ExportStatic/ s/ true / false /' '{}' \+
# Fixup arm64/aarch64 confusion
cp -R interfaces/cc/gcc/arm64 interfaces/cc/gcc/aarch64

%build
export CFLAGS="-DH5_USE_18_API %{optflags}"
%cmake \
  -DINST_BINDIR=%{_bindir} \
  -DINST_LIBDIR=%{_libdir} \
  -DINST_INCDIR=%{_includedir}/ncbi-vdb/interfaces \
  -DLIBS_ONLY:BOOL=ON \
  %{nil}
%cmake_build

%install
%cmake_install
rm -Rf %{buildroot}/%{_includedir}/ncbi-vdb/interfaces/os/sun
rm -Rf %{buildroot}/%{_includedir}/ncbi-vdb/interfaces/cc/vc++
rm -Rf %{buildroot}/%{_includedir}/ncbi-vdb/interfaces/cc/cc
%fdupes %{buildroot}/%{_includedir}
chrpath --delete %{buildroot}/%{_libdir}/lib*.so.*

%post -n libncbi-vdb -p /sbin/ldconfig
%postun -n libncbi-vdb -p /sbin/ldconfig

%files -n libncbi-vdb
%{_libdir}/*.so.*

%files devel
%{_libdir}/*.so
%{_includedir}/ncbi-vdb
%license LICENSE
%doc README.md CHANGES.md

%changelog