# the upstream name is io_lib, but it was deemed too generic, and
# staden-io_lib will be more recognizable for users
Name: staden-io_lib
Version: 1.12.4
Release: 24%{?dist}
Summary: General purpose library to handle gene sequencing machine trace files
License: MIT
URL: http://staden.sourceforge.net
Source0: http://downloads.sourceforge.net/staden/io_lib-%{version}.tar.gz
Patch: staden-libs-config.patch
BuildRequires: make
BuildRequires: gcc
BuildRequires: curl-devel zlib-devel
%description
The Staden I/O library provides a general purpose interface for reading and
writing trace files and other bioinformatics experiment files. The programmer
simply calls, for example, the read_reading function to create a "Read" C
structure with the data loaded into memory. It has been compiled and tested
on a variety of Unix systems, MacOS X and MS Windows.
%package devel
Summary: Development files for %{name}
Requires: %{name} = %{version}-%{release}
%description devel
The %{name}-devel package contains libraries and header files for
developing applications that use %{name}.
%prep
%autosetup -n io_lib-%{version} -p1
# libread is too generic. Make up something more specific.
# Also fix config script name to include the "staden-" part.
mv io_lib-config.in staden-io_lib-config.in
sed -i 's/libread/libstaden-read/g' io_lib/Makefile.in progs/Makefile.in
sed -i 's/lread/lstaden-read/' staden-io_lib-config.in
sed -i 's/io_lib-config/staden-io_lib-config/g' configure Makefile.in
%build
%configure --disable-static
# make sure /lib64 /usr/lib64 are known to libtool to avoid rpath issues
sed -i 's+\(search_path_spec=\"\)+\1/lib64 /usr/lib64 +' libtool
%make_build
%install
%make_install
find %{buildroot} -name '*.la' -delete
%ldconfig_scriptlets
%global so_version 1
%files
%doc README COPYRIGHT CHANGES docs/
%{_libdir}/*.so.%{so_version}
%{_libdir}/*.so.%{so_version}.*
%{_bindir}/append_sff
%{_bindir}/convert_trace
%{_bindir}/extract_fastq
%{_bindir}/extract_qual
%{_bindir}/extract_seq
%{_bindir}/get_comment
%{_bindir}/hash_extract
%{_bindir}/hash_list
%{_bindir}/hash_sff
%{_bindir}/hash_tar
%{_bindir}/index_tar
%{_bindir}/makeSCF
%{_bindir}/scf_dump
%{_bindir}/scf_info
%{_bindir}/scf_update
%{_bindir}/srf2fasta
%{_bindir}/srf2fastq
%{_bindir}/srf_dump_all
%{_bindir}/srf_extract_hash
%{_bindir}/srf_extract_linear
%{_bindir}/srf_filter
%{_bindir}/srf_index_hash
%{_bindir}/srf_info
%{_bindir}/srf_list
%{_bindir}/trace_dump
%{_bindir}/ztr_dump
%{_mandir}/man1/*
%files devel
%doc
%{_mandir}/man3/*
%{_mandir}/man4/*
%{_includedir}/io_lib/
%{_libdir}/*.so
%{_bindir}/staden-io_lib-config
%changelog
* Sat Jul 23 2022 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-24
- Rebuilt for https://fedoraproject.org/wiki/Fedora_37_Mass_Rebuild
* Wed Feb 9 2022 Zbigniew Jędrzejewski-Szmek <zbyszek@in.waw.pl> - 1.12.4-23
- Drop link flags from config helper (avoids issues with
https://fedoraproject.org/wiki/Changes/Package_information_on_ELF_objects)
* Sat Jan 22 2022 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-22
- Rebuilt for https://fedoraproject.org/wiki/Fedora_36_Mass_Rebuild
* Fri Jul 23 2021 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-21
- Rebuilt for https://fedoraproject.org/wiki/Fedora_35_Mass_Rebuild
* Wed Jan 27 2021 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-20
- Rebuilt for https://fedoraproject.org/wiki/Fedora_34_Mass_Rebuild
* Wed Jul 29 2020 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-19
- Rebuilt for https://fedoraproject.org/wiki/Fedora_33_Mass_Rebuild
* Fri Jan 31 2020 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-18
- Rebuilt for https://fedoraproject.org/wiki/Fedora_32_Mass_Rebuild
* Sat Jul 27 2019 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-17
- Rebuilt for https://fedoraproject.org/wiki/Fedora_31_Mass_Rebuild
* Sun Feb 03 2019 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-16
- Rebuilt for https://fedoraproject.org/wiki/Fedora_30_Mass_Rebuild
* Sat Jul 14 2018 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-15
- Rebuilt for https://fedoraproject.org/wiki/Fedora_29_Mass_Rebuild
* Fri Feb 09 2018 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-14
- Rebuilt for https://fedoraproject.org/wiki/Fedora_28_Mass_Rebuild
* Thu Aug 03 2017 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-13
- Rebuilt for https://fedoraproject.org/wiki/Fedora_27_Binutils_Mass_Rebuild
* Thu Jul 27 2017 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-12
- Rebuilt for https://fedoraproject.org/wiki/Fedora_27_Mass_Rebuild
* Sat Feb 11 2017 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-11
- Rebuilt for https://fedoraproject.org/wiki/Fedora_26_Mass_Rebuild
* Fri Feb 05 2016 Fedora Release Engineering <releng@fedoraproject.org> - 1.12.4-10
- Rebuilt for https://fedoraproject.org/wiki/Fedora_24_Mass_Rebuild
* Fri Jun 19 2015 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.12.4-9
- Rebuilt for https://fedoraproject.org/wiki/Fedora_23_Mass_Rebuild
* Mon Aug 18 2014 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.12.4-8
- Rebuilt for https://fedoraproject.org/wiki/Fedora_21_22_Mass_Rebuild
* Sun Jun 08 2014 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.12.4-7
- Rebuilt for https://fedoraproject.org/wiki/Fedora_21_Mass_Rebuild
* Sun Aug 04 2013 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.12.4-6
- Rebuilt for https://fedoraproject.org/wiki/Fedora_20_Mass_Rebuild
* Fri Feb 15 2013 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.12.4-5
- Rebuilt for https://fedoraproject.org/wiki/Fedora_19_Mass_Rebuild
* Sat Jul 21 2012 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.12.4-4
- Rebuilt for https://fedoraproject.org/wiki/Fedora_18_Mass_Rebuild
* Sat Jan 14 2012 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.12.4-3
- Rebuilt for https://fedoraproject.org/wiki/Fedora_17_Mass_Rebuild
* Wed Feb 09 2011 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.12.4-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_15_Mass_Rebuild
* Tue Jul 20 2010 Christian Iseli <Christian.Iseli@licr.org> 1.12.4-1
- new upstream 1.12.4
- the library is now dynamic, so remove traces of static setup
- fix rpath issues
- re-phrase a bit the descrition to quieten rpmlint warnings
* Sun Jul 26 2009 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.11.2.1-4
- Rebuilt for https://fedoraproject.org/wiki/Fedora_12_Mass_Rebuild
* Wed Feb 25 2009 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.11.2.1-3
- Rebuilt for https://fedoraproject.org/wiki/Fedora_11_Mass_Rebuild
* Thu Jun 12 2008 Christian Iseli <Christian.Iseli@licr.org> 1.11.2.1-2
- Avoid calling configure twice
* Wed Jun 11 2008 Christian Iseli <Christian.Iseli@licr.org> 1.11.2.1-1
- initial Fedora release
* Fri Jun 6 2008 Christian Iseli <Christian.Iseli@licr.org> 1.11.2.1-0
- new upstream 1.11.2.1
- change libread into libstaden-read
- change io_lib-config into staden-io_lib-config
* Tue Apr 29 2008 Christian Iseli <Christian.Iseli@licr.org> 1.11.0-0
- Initial RPM.