commit: c7f45dbb5043e60a8b4c0a091fcb0465ffbbef50 Author: David Seifert <soap <AT> gentoo <DOT> org> AuthorDate: Wed Mar 8 18:46:35 2017 +0000 Commit: David Seifert <soap <AT> gentoo <DOT> org> CommitDate: Wed Mar 8 18:47:18 2017 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=c7f45dbb
sci-biology/elph: Modernise to EAPI 6 Package-Manager: Portage-2.3.4, Repoman-2.3.2 sci-biology/elph/elph-1.0.1-r1.ebuild | 31 ++++++++++++ .../elph/files/elph-1.0.1-fix-build-system.patch | 55 ++++++++++++++++++++++ 2 files changed, 86 insertions(+) diff --git a/sci-biology/elph/elph-1.0.1-r1.ebuild b/sci-biology/elph/elph-1.0.1-r1.ebuild new file mode 100644 index 00000000000..c166dd93e41 --- /dev/null +++ b/sci-biology/elph/elph-1.0.1-r1.ebuild @@ -0,0 +1,31 @@ +# Copyright 1999-2017 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 + +EAPI=6 + +inherit toolchain-funcs + +DESCRIPTION="Estimated Locations of Pattern Hits - Motif finder program" +LICENSE="Artistic" +HOMEPAGE="http://cbcb.umd.edu/software/ELPH/"; +SRC_URI="ftp://ftp.cbcb.umd.edu/pub/software/elph/ELPH-${PV}.tar.gz"; + +SLOT="0" +IUSE="" +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~ppc-macos" + +S=${WORKDIR}/${PN^^}/sources + +PATCHES=( "${FILESDIR}/${PN}-1.0.1-fix-build-system.patch" ) + +src_configure() { + tc-export CC CXX +} + +src_install() { + dobin elph + + cd "${WORKDIR}"/ELPH || die + dodoc VERSION + newdoc Readme.ELPH README +} diff --git a/sci-biology/elph/files/elph-1.0.1-fix-build-system.patch b/sci-biology/elph/files/elph-1.0.1-fix-build-system.patch new file mode 100644 index 00000000000..9afbb68666d --- /dev/null +++ b/sci-biology/elph/files/elph-1.0.1-fix-build-system.patch @@ -0,0 +1,55 @@ +Make build system respect user variables + +--- a/Makefile ++++ b/Makefile +@@ -1,42 +1,26 @@ +-CLASSDIR := . +- +-# Directories to search for header files +-SEARCHDIRS := -I- -I${CLASSDIR} +- +- +-SYSTYPE := $(shell uname) +- +-# C compiler +- +-CC := g++ +-CFLAGS = -Wall ${SEARCHDIRS} -fno-exceptions -fno-rtti -D_REENTRANT -g ++my_CPPFLAGS = -D_REENTRANT -I. + + %.o : %.c +- ${CC} ${CFLAGS} -c $< -o $@ ++ $(CC) -Wall $(CFLAGS) $(my_CPPFLAGS) $(CPPFLAGS) -c $< -o $@ + + %.o : %.cc +- ${CC} ${CFLAGS} -c $< -o $@ ++ $(CXX) -Wall $(CXXFLAGS) $(my_CPPFLAGS) $(CPPFLAGS) -c $< -o $@ + + %.o : %.C +- ${CC} ${CFLAGS} -c $< -o $@ ++ $(CXX) -Wall $(CXXFLAGS) $(my_CPPFLAGS) $(CPPFLAGS) -c $< -o $@ + + %.o : %.cpp +- ${CC} ${CFLAGS} -c $< -o $@ ++ $(CXX) -Wall $(CXXFLAGS) $(my_CPPFLAGS) $(CPPFLAGS) -c $< -o $@ + + %.o : %.cxx +- ${CC} ${CFLAGS} -c $< -o $@ ++ $(CXX) -Wall $(CXXFLAGS) $(my_CPPFLAGS) $(CPPFLAGS) -c $< -o $@ + + # C/C++ linker +- +-LINKER := g++ +-LDFLAGS = +-LOADLIBES := +- + .PHONY : all + all: elph + +-elph: ./elph.o ${CLASSDIR}/motif.o ${CLASSDIR}/GBase.o ${CLASSDIR}/GString.o ${CLASSDIR}/GArgs.o +- ${LINKER} ${LDFLAGS} -o $@ ${filter-out %.a %.so, $^} ${LOADLIBES} ++elph: elph.o motif.o GBase.o GString.o GArgs.o ++ $(CXX) $(LDFLAGS) $(CXXFLAGS) -o $@ $^ + + # target for removing all object files +
