biology/plink: Whole genome association analysis toolset

Reversed removal, commit r471892 2018/06/07
Upgraded to 1.90 beta 6.17

PR:             ports/243733
Submitted by:   mzaki@e-mail.ne.jp

1 files changed, 57 insertions, 0 deletions

diff --git a/biology/plink/Makefile b/biology/plink/Makefile
new file mode 100644
index 000000000000..e8c5ee1d5c5b
--- /dev/null
+++ b/biology/plink/Makefile
@@ -0,0 +1,57 @@
+# $FreeBSD$
+
+PORTNAME=		plink
+DISTVERSIONPREFIX=	v
+DISTVERSION=		1.90b6.17
+CATEGORIES=		biology
+
+MAINTAINER=	mzaki@e-mail.ne.jp
+COMMENT=	Whole genome association analysis toolset
+
+LICENSE=	GPLv3
+LICENSE_FILE=	${WRKSRC}/LICENSE
+
+NOT_FOR_ARCHS=		aarch64 mips64 powerpc64 sparc64
+NOT_FOR_ARCHS_REASON=	64bit code requires SSE2 instructions
+
+USES=		gmake fortran
+
+USE_GITHUB=	yes
+GH_ACCOUNT=	chrchang
+GH_PROJECT=	plink-ng
+GH_TAGNAME=	79b2df8c
+
+WRKSRC_SUBDIR=	1.9
+MAKEFILE=	Makefile.std
+MAKE_ARGS=	ZLIB=-lz BLASFLAGS="${BLASLIB} ${LAPACKLIB}"
+CFLAGS+=	-DDYNAMIC_ZLIB -I${LOCALBASE}/include
+LDFLAGS+=	-lthr
+INSTALL_TARGET=	install-strip
+
+OPTIONS_DEFINE=		EXAMPLES
+OPTIONS_SINGLE=		BLAS
+OPTIONS_SINGLE_BLAS=	NETLIB OPENBLAS
+OPTIONS_DEFAULT=	OPENBLAS
+
+BLAS_DESC=	BLAS/LAPACK implementation
+
+OPENBLAS_USES=	blaslapack:openblas
+
+NETLIB_DESC=		Netlib's reference
+NETLIB_USES=		blaslapack:netlib
+NETLIB_LIB_DEPENDS=	libcblas.so:math/cblas
+NETLIB_LDFLAGS=		-lcblas
+
+EXAMPLES=	toy.map toy.ped
+
+post-build:
+	(cd ${WRKSRC}; ${CC} ${CFLAGS} prettify.c -o prettify)
+
+post-install:
+	${INSTALL_PROGRAM} ${WRKSRC}/prettify ${STAGEDIR}${PREFIX}/bin
+
+post-install-EXAMPLES-on:
+	@${MKDIR} ${STAGEDIR}${EXAMPLESDIR}
+	${INSTALL_DATA} ${EXAMPLES:S,^,${WRKSRC}/,} ${STAGEDIR}${EXAMPLESDIR}
+
+.include <bsd.port.mk>