diff --git a/.gitignore b/.gitignore deleted file mode 100644 index ba20b1d..0000000 --- a/.gitignore +++ /dev/null @@ -1 +0,0 @@ -wise2.2.0.tar.gz diff --git a/dead.package b/dead.package new file mode 100644 index 0000000..995362e --- /dev/null +++ b/dead.package @@ -0,0 +1 @@ +Orphaned by upstream; no longer needed in Fedora diff --git a/sources b/sources deleted file mode 100644 index 8d1f2c3..0000000 --- a/sources +++ /dev/null @@ -1 +0,0 @@ -0584240f77885e37528e99e64535ab60 wise2.2.0.tar.gz diff --git a/wise2-build.patch b/wise2-build.patch deleted file mode 100644 index 1965c5b..0000000 --- a/wise2-build.patch +++ /dev/null @@ -1,10 +0,0 @@ ---- src/makefile.orig 2007-04-11 07:52:41.000000000 -0700 -+++ src/makefile 2007-04-11 07:53:04.000000000 -0700 -@@ -89,7 +89,6 @@ - bin : - mkdir bin - mv models/pswdb models/psw models/genewisedb models/estwisedb models/estwise models/genewise models/dba models/dnal models/genomewise ./bin -- csh welcome.csh - - libs : - (cd base ; make CC="$(CC)" CFLAGS="$(CFLAGS)" libwisebase.a ) diff --git a/wise2.spec b/wise2.spec deleted file mode 100644 index a92472e..0000000 --- a/wise2.spec +++ /dev/null @@ -1,118 +0,0 @@ -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 - 2.2.0-14 -- Rebuilt for https://fedoraproject.org/wiki/Fedora_21_22_Mass_Rebuild - -* Sun Jun 08 2014 Fedora Release Engineering - 2.2.0-13 -- Rebuilt for https://fedoraproject.org/wiki/Fedora_21_Mass_Rebuild - -* Sun Aug 04 2013 Fedora Release Engineering - 2.2.0-12 -- Rebuilt for https://fedoraproject.org/wiki/Fedora_20_Mass_Rebuild - -* Fri Feb 15 2013 Fedora Release Engineering - 2.2.0-11 -- Rebuilt for https://fedoraproject.org/wiki/Fedora_19_Mass_Rebuild - -* Sun Jul 22 2012 Fedora Release Engineering - 2.2.0-10 -- Rebuilt for https://fedoraproject.org/wiki/Fedora_18_Mass_Rebuild - -* Sat Jan 14 2012 Fedora Release Engineering - 2.2.0-9 -- Rebuilt for https://fedoraproject.org/wiki/Fedora_17_Mass_Rebuild - -* Mon Feb 07 2011 Fedora Release Engineering - 2.2.0-8 -- Rebuilt for https://fedoraproject.org/wiki/Fedora_15_Mass_Rebuild - -* Mon Jul 27 2009 Fedora Release Engineering - 2.2.0-7 -- Rebuilt for https://fedoraproject.org/wiki/Fedora_12_Mass_Rebuild - -* Thu Jul 16 2009 Alex Lancaster - 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 - 2.2.0-5 -- Rebuilt for https://fedoraproject.org/wiki/Fedora_11_Mass_Rebuild - -* Sat Feb 9 2008 Alex Lancaster - 2.2.0-4 -- rebuilt for GCC 4.3 as requested by Fedora Release Engineering - -* Thu Aug 16 2007 Alex Lancaster 2.2.0-3 -- Clarify license as BSD and GPLv2+ - -* Mon Apr 12 2007 Alex Lancaster 2.2.0-2 -- Pass $RPM_OPT_FLAGS to compiler as per suggestion from Ralf Corsepius. - -* Mon Apr 11 2007 Alex Lancaster 2.2.0-1 -- Initial Fedora package.