107 lines
3.2 KiB
RPMSpec
107 lines
3.2 KiB
RPMSpec
Name: htslib
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Version: 1.19
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Release: 1
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Summary: C library for high-throughput sequencing data formats
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License: MIT and BSD
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URL: http://www.htslib.org
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Source0: https://github.com/samtools/htslib/releases/download/%{version}/htslib-%{version}.tar.bz2
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BuildRequires: gcc make curl-devel zlib zlib-devel bzip2-devel xz-devel libxcrypt-devel openssl-devel
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BuildRequires: autoconf automake libtool
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%description
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HTSlib is an implementation of a unified C library for accessing common file
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formats, such as SAM, CRAM and VCF, used for high-throughput sequencing data,
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and is the core library used by samtools and bcftools. HTSlib only depends on
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zlib. It is known to be compatible with gcc, g++ and clang.
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HTSlib implements a generalized BAM index, with file extension .csi (
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coordinate-sorted index). The HTSlib file reader first looks for the new index
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and then for the old if the new index is absent.
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%package devel
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Summary: libs for htslib package
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Requires: %{name} = %{version}-%{release}
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%description devel
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The %{name}-devel package contains libraries and header files for
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developing applications that use %{name}.
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%package tools
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Summary: Additional htslib-based tools
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Requires: %{name} = %{version}-%{release}
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%description tools
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Includes the popular tabix indexer, which indexes both .tbi and .csi formats,
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the htsfile identifier tool, and the bgzip compression utility.
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%prep
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%setup -q -n %{name}-%{version}
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%build
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%configure --prefix=%{_prefix} \
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--libdir=%{_libdir} \
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--enable-plugins \
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--enable-libcurl
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%make_build
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# As we don't install libhts.a, the .private keywords are irrelevant.
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sed -i -E '/^(Libs|Requires)\.private:/d' htslib.pc.tmp
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%install
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%make_install
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# The dynamic libraries should have execution permissions, otherwise it cannot be referenced by other packages
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find %{buildroot}/%{_libdir} -iname "*.so.*" -exec chmod +x {} \;
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rm -rf %{buildroot}/%{_libdir}/libhts.a
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%files
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%license LICENSE
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%doc README NEWS README.large_positions.md
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%{_libdir}/libhts.so.*
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%dir %{_libexecdir}/%{name}
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%{_libexecdir}/%{name}/hfile_gcs.so
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%{_libexecdir}/%{name}/hfile_libcurl.so
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%{_libexecdir}/%{name}/hfile_s3.so
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%{_libexecdir}/%{name}/hfile_s3_write.so
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%{_mandir}/man5/faidx.5*
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%{_mandir}/man5/sam.5*
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%{_mandir}/man5/vcf.5*
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%{_mandir}/man7/htslib-s3-plugin.7*
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%files devel
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%dir %{_includedir}/%{name}
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%{_includedir}/%{name}/*
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%{_libdir}/libhts.so
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%{_libdir}/pkgconfig/htslib.pc
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%files tools
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%{_bindir}/bgzip
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%{_bindir}/htsfile
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%{_bindir}/tabix
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%{_bindir}/annot-tsv
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%{_mandir}/man1/annot-tsv.1*
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%{_mandir}/man1/bgzip.1*
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%{_mandir}/man1/htsfile.1*
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%{_mandir}/man1/tabix.1*
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%changelog
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* Fri Jan 5 2024 luojun <luojun.oerv@isrc.iscas.ac.cn> - 1.19-1
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- Update to 1.19
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* Wed May 24 2023 guoyizhang <kuoi@bioarchlinux.org> - 1.17-1
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- Update to 1.17
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* Wed Feb 09 2022 herengui <herengui@uniontech.com> - 1.11-1
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- update to 1.11, new version fixed CVE-2020-36403
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* Wed Jan 12 2022 Chen Chen <chen_aka_jan@163.com> - 1.10.2-4
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- fix config.guess and config.sub path error
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* Wed Jun 16 2021 zhao yang <yangzhao1@kylinos.cn> - 1.10.2-3
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- Add htslib-tools package
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* Fri Mar 26 2021 herengui <herengui@uniontech.com> - 1.10.2-2
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- Add compilation parameters, update package lists
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* Sun Mar 29 2020 Wei Xiong <myeuler@163.com> - 1.10.2-1
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- Package init
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