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ncbi-blast.spec
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File ncbi-blast.spec of Package ncbi-blast+
# # spec file for package ncbi-blast # # Copyright (c) 2022 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-blast+ Version: 2.13.0 Release: 0 Summary: NCBI BLAST finds regions of similarity between biological sequences License: SUSE-Public-Domain Group: Productivity/Scientific/Other URL: https://www.ncbi.nlm.nih.gov/books/NBK131777 Source: ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/%{version}/ncbi-blast-%{version}+-src.tar.gz # PATCH-FIX-UPSTREAM ncbi-blast-no-return-from-non-void.patch badshah400@gmail.com -- Fix non-void functions not returning any value; fixes build for openSUSE >= 1550 Patch0: ncbi-blast-no-return-from-non-void.patch BuildRequires: Xalan-c-devel BuildRequires: cereal-devel BuildRequires: fdupes BuildRequires: file-devel BuildRequires: freetds-devel BuildRequires: freetype2-devel BuildRequires: gcc-c++ BuildRequires: giflib-devel BuildRequires: gmp-devel BuildRequires: googlemock-devel BuildRequires: hdf5-devel BuildRequires: leveldb-devel BuildRequires: libboost_chrono-devel BuildRequires: libboost_filesystem-devel BuildRequires: libboost_iostreams-devel BuildRequires: libboost_program_options-devel BuildRequires: libboost_regex-devel BuildRequires: libboost_serialization-devel BuildRequires: libboost_system-devel BuildRequires: libboost_test-devel BuildRequires: libboost_thread-devel BuildRequires: libbz2-devel >= 1.0.5 BuildRequires: libgcrypt-devel BuildRequires: libicu-devel BuildRequires: libmimetic-devel BuildRequires: libnsl-devel BuildRequires: libxslt-tools BuildRequires: lmdb-devel BuildRequires: mbedtls-devel BuildRequires: mysql-devel BuildRequires: pkgconfig(expat) BuildRequires: pkgconfig(ftgl) BuildRequires: pkgconfig(gl) BuildRequires: pkgconfig(hiredis) BuildRequires: pkgconfig(krb5) BuildRequires: pkgconfig(libcurl) BuildRequires: pkgconfig(libdw) BuildRequires: pkgconfig(libexslt) BuildRequires: pkgconfig(libgsasl) BuildRequires: pkgconfig(libjpeg) BuildRequires: pkgconfig(libnghttp2) BuildRequires: pkgconfig(libpcre) BuildRequires: pkgconfig(libpng12) BuildRequires: pkgconfig(libssh2) BuildRequires: pkgconfig(libssl) BuildRequires: pkgconfig(libtiff-4) BuildRequires: pkgconfig(libuv) BuildRequires: pkgconfig(libxml-2.0) BuildRequires: pkgconfig(libxslt) BuildRequires: pkgconfig(libzstd) BuildRequires: pkgconfig(lzo2) BuildRequires: pkgconfig(muparser) BuildRequires: pkgconfig(protobuf) BuildRequires: pkgconfig(rdkafka) BuildRequires: pkgconfig(sqlite3) BuildRequires: pkgconfig(xerces-c) BuildRequires: pkgconfig(xext) BuildRequires: pkgconfig(xmu) BuildRequires: pkgconfig(xpm) BuildRequires: pkgconfig(xt) BuildRequires: python3-devel BuildRequires: sablot-devel BuildRequires: wxWidgets-devel >= 3.1 BuildRequires: zlib-devel # The following are not found/enabled even when installed #BuildRequires: FastCGI-devel #BuildRequires: backward-cpp-devel #BuildRequires: lapacke-devel #BuildRequires: influxdb-devel #BuildRequires: ncbi-devel Requires: perl Requires: perl(Archive::Tar) Requires: perl(Digest::MD5) Requires: perl(File::Temp) Requires: perl(File::stat) Requires: perl(Getopt::Long) Requires: perl(List::MoreUtils) Requires: perl(Net::FTP) Requires: perl(Pod::Usage) Requires: perl(constant) Requires: perl(strict) Requires: perl(warnings) Requires(post): update-alternatives Requires(postun): update-alternatives # Narrowing on 32bit archs ExcludeArch: %{ix86} %{arm} %{ppc} %description The NCBI Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families. %package devel Summary: NCBI BLAST finds regions of similarity between biological sequences Group: Development/Libraries/C and C++ %description devel The NCBI Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families. %prep %autosetup -p1 -n ncbi-blast-%{version}+-src/c++ %build export CXXFLAGS="%{optflags} -fpermissive" ./configure \ --prefix=%{_prefix} \ --without-static \ --with-dll \ --without-sse42 \ --with-3psw \ --with-mbedtls \ %{nil} %make_build %install make prefix=%{buildroot}%{_prefix} libdir=%{buildroot}%{_libdir} install mv %{buildroot}%{_bindir}/rpsblast %{buildroot}%{_bindir}/rpsblast-blast+ rm %{buildroot}%{_libdir}/*.a find %{buildroot} \( -iname .gitignore -o -iname .cvsignore\* \) -print -delete find %{buildroot}%{_includedir} -type f -perm /333 -exec chmod -wx '{}' \+ find %{buildroot}%{_libdir} -type f -iname \*.so -exec chmod +x '{}' \+ sed -i -e '1 s@env python3@python3@' -e '1 s@env perl@perl@' %{buildroot}%{_bindir}/* # create a dummy target for /etc/alternatives/rpsblast mkdir -p %{buildroot}%{_sysconfdir}/alternatives ln -s -f %{_sysconfdir}/alternatives/rpsblast %{buildroot}%{_bindir}/rpsblast %fdupes %{buildroot}/%{_includedir} %fdupes %{buildroot}/%{_libdir} %post update-alternatives --install \ %{_bindir}/rpsblast rpsblast %{_bindir}/rpsblast-blast+ 20 %postun if [ ! -f %{_bindir}/rpsblast-blast+ ] ; then update-alternatives --remove rpsblast %{_bindir}/rpsblast-blast+ fi %files %{_bindir}/* %ghost %{_sysconfdir}/alternatives/rpsblast %files devel %{_libdir}/*.so %{_includedir}/ncbi-tools++ %changelog
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