forked from pool/htscodecs
Atri Bhattacharya
f85a2cd77e
- Update to 1.3.0:
* The primary change in this release is a new SIMD enabled
rANS codec.
There is a 32-way unrolled rANS implementation. This is accessed
using the existing rans 4x16 API with the RANS_ORDER_X32 bit set.
* Improved memory allocation via a new htscodecs_tls_alloc function.
* Some external functions have been renamed, with the old ones
still existing in a deprecated fashion.
* Improved test framework with an "entropy" tool that iterates
over all entropy encoders.
* Reworked fuzzing infrastructure.
* Small speed improvements to various rANS encoders and decoders.
* Substantial memory reduction to the name tokeniser (tok3).
* Fixed undefined behaviour in our use of _builtin_clz().
* Fixed a few redundant #includes.
* Work around strict aliasing bugs, uncovered with gcc -O2.
* Fixed an issue with encoding data blocks close to 2GB in size.
* Fix encode error with large blocks using RANS_ORDER_STRIPE.
- Add fix_ix86_build.patch
OBS-URL: https://build.opensuse.org/request/show/1002208
OBS-URL: https://build.opensuse.org/package/show/science/htscodecs?expand=0&rev=3
89 lines
3.0 KiB
RPMSpec
89 lines
3.0 KiB
RPMSpec
#
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# spec file for package htscodecs
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#
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# Copyright (c) 2022 SUSE LLC
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#
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# All modifications and additions to the file contributed by third parties
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# remain the property of their copyright owners, unless otherwise agreed
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# upon. The license for this file, and modifications and additions to the
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# file, is the same license as for the pristine package itself (unless the
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# license for the pristine package is not an Open Source License, in which
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# case the license is the MIT License). An "Open Source License" is a
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# license that conforms to the Open Source Definition (Version 1.9)
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# published by the Open Source Initiative.
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# Please submit bugfixes or comments via https://bugs.opensuse.org/
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#
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%define sonum 2
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Name: htscodecs
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Version: 1.3.0
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Release: 0
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Summary: C library for custom compression for CRAM and other formats
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License: MIT
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Group: Productivity/Scientific/Other
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URL: https://github.com/samtools/htscodecs
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Source0: https://github.com/samtools/htscodecs/releases/download/v%{version}/htscodecs-%{version}.tar.gz
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Source100: baselibs.conf
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# PATCH-FIX-UPSTREAM
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Patch0: https://github.com/samtools/htscodecs/commit/843d4f63b1c64905881b4648916a4d027baa1a1c.patch#/fix_ix86_build.patch
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BuildRequires: autoconf
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BuildRequires: gcc-c++
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BuildRequires: pkgconfig
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BuildRequires: pkgconfig(bzip2)
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BuildRequires: pkgconfig(zlib)
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%description
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htscodecs provides an API to access CRAM codecs used for "EXTERNAL" block types.
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These consist of two variants of the rANS codec (8-bit and 16-bit renormalisation,
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with run-length encoding and bit-packing also supported in the latter),
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a dynamic arithmetic coder, and custom codecs for name/ID compression
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and quality score compression derived from fqzcomp.
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%package -n lib%{name}%{sonum}
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Summary: C library for custom compression for CRAM and other formats
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Group: System/Libraries
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%description -n lib%{name}%{sonum}
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htscodecs provides an API to access CRAM codecs used for "EXTERNAL" block types.
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These consist of two variants of the rANS codec (8-bit and 16-bit renormalisation,
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with run-length encoding and bit-packing also supported in the latter),
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a dynamic arithmetic coder, and custom codecs for name/ID compression
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and quality score compression derived from fqzcomp.
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%package devel
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Summary: Header files and libraries for compiling against %{name}
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Group: Development/Libraries/C and C++
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Requires: lib%{name}%{sonum} = %{version}
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%description devel
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Header files and libraries of the samtools project for compiling against %{name}.
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%prep
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%autosetup -p1
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%build
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# Rebuild configure script after Patch0
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autoconf
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%configure --disable-static
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%make_build
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%install
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%make_install
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rm %{buildroot}%{_libdir}/lib%{name}.la
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%post -n lib%{name}%{sonum} -p /sbin/ldconfig
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%postun -n lib%{name}%{sonum} -p /sbin/ldconfig
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%files -n lib%{name}%{sonum}
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%license LICENSE.md
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%{_libdir}/lib%{name}.so.*
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%files devel
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%doc README.md NEWS.md
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%{_includedir}/htscodecs
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%{_libdir}/lib%{name}.so
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%changelog
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