Name: wise2
Version: 2.2.0
Release: 14%{?dist}
Summary: Tools for comparison of biopolymers
Group: Applications/Engineering
## Everything is licensed under a BSD-style license except for
## the HMMer2 libraries and models directory which are GPLv2+
## see LICENSE files for details.
License: BSD and GPLv2+
URL: http://www.ebi.ac.uk/Wise2/
Source0: ftp://ftp.ebi.ac.uk/pub/software/unix/wise2/wise%{version}.tar.gz
Patch0: wise2-build.patch
BuildRoot: %{_tmppath}/%{name}-%{version}-%{release}-root-%(%{__id_u} -n)
%description
Wise2 is a package focused on comparisons of biopolymers, commonly DNA
sequence and protein sequence. A strength of Wise2 is the
comparison of DNA sequence at the level of its protein
translation. This comparison allows the simultaneous prediction of
gene structure with homology based alignment.
%prep
%setup -q -n wise%{version}
## don't run "welcome.csh"
%patch0 -p0
## fix interpreter in examples
sed -i 's#/usr/local/bin/perl#/usr/bin/perl#' docs/gettex.pl
## fix perms
chmod -x test_data/rrm.HMM
## pull out licenses
for i in base dynlibsrc dyc
do
cp src/$i/LICENSE LICENSE.$i
done
cp src/models/GNULICENSE LICENSE.GPL
%build
cd src
## removed "{?_smp_mflags}", does not support parallel build
make CC=gcc CFLAGS="-c $RPM_OPT_FLAGS -D_POSIX_C_SOURCE=200112L" all
%install
rm -rf $RPM_BUILD_ROOT
cd src/bin
%{__mkdir_p} $RPM_BUILD_ROOT%{_bindir}
for i in dba dnal estwise estwisedb genewise genewisedb genomewise psw pswdb
do
%{__install} $i $RPM_BUILD_ROOT/%{_bindir}
done
cd -
# install architecture-independent data and config files
%{__mkdir_p} $RPM_BUILD_ROOT%{_datadir}/wise2
cd wisecfg
%{__install} -pm 644 * $RPM_BUILD_ROOT%{_datadir}/wise2
# install scripts to automatically set the WISECONFIGDIR environment variable
%{__mkdir_p} $RPM_BUILD_ROOT%{_sysconfdir}/profile.d
echo "export WISECONFIGDIR=%{_datadir}/wise2/" > $RPM_BUILD_ROOT%{_sysconfdir}/profile.d/wise2.sh
echo "setenv WISECONFIGDIR %{_datadir}/wise2/" > $RPM_BUILD_ROOT%{_sysconfdir}/profile.d/wise2.csh
%clean
rm -rf $RPM_BUILD_ROOT
%files
%defattr(-,root,root,-)
%doc docs test_data
%doc INSTALL LICENSE README LICENSE.base LICENSE.dynlibsrc LICENSE.dyc LICENSE.GPL
%{_bindir}/*
%{_datadir}/wise2
%config(noreplace) %{_sysconfdir}/profile.d/*
%changelog
* Mon Aug 18 2014 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 2.2.0-14
- Rebuilt for https://fedoraproject.org/wiki/Fedora_21_22_Mass_Rebuild
* Sun Jun 08 2014 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 2.2.0-13
- Rebuilt for https://fedoraproject.org/wiki/Fedora_21_Mass_Rebuild
* Sun Aug 04 2013 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 2.2.0-12
- Rebuilt for https://fedoraproject.org/wiki/Fedora_20_Mass_Rebuild
* Fri Feb 15 2013 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 2.2.0-11
- Rebuilt for https://fedoraproject.org/wiki/Fedora_19_Mass_Rebuild
* Sun Jul 22 2012 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 2.2.0-10
- Rebuilt for https://fedoraproject.org/wiki/Fedora_18_Mass_Rebuild
* Sat Jan 14 2012 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 2.2.0-9
- Rebuilt for https://fedoraproject.org/wiki/Fedora_17_Mass_Rebuild
* Mon Feb 07 2011 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 2.2.0-8
- Rebuilt for https://fedoraproject.org/wiki/Fedora_15_Mass_Rebuild
* Mon Jul 27 2009 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 2.2.0-7
- Rebuilt for https://fedoraproject.org/wiki/Fedora_12_Mass_Rebuild
* Thu Jul 16 2009 Alex Lancaster <alexlan[AT]fedoraproject org> - 2.2.0-6
- Add -D_POSIX_C_SOURCE=200112L to CFLAGS as a workaround to fix FTBFS (#511627)
* Wed Feb 25 2009 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 2.2.0-5
- Rebuilt for https://fedoraproject.org/wiki/Fedora_11_Mass_Rebuild
* Sat Feb 9 2008 Alex Lancaster <alexlan[AT]fedoraproject org> - 2.2.0-4
- rebuilt for GCC 4.3 as requested by Fedora Release Engineering
* Thu Aug 16 2007 Alex Lancaster <alexl@users.sourceforge.net> 2.2.0-3
- Clarify license as BSD and GPLv2+
* Mon Apr 12 2007 Alex Lancaster <alexl@users.sourceforge.net> 2.2.0-2
- Pass $RPM_OPT_FLAGS to compiler as per suggestion from Ralf Corsepius.
* Mon Apr 11 2007 Alex Lancaster <alexl@users.sourceforge.net> 2.2.0-1
- Initial Fedora package.