plink: New 1.9 beta

[Jason Bacon <bacon4000%gmail.com@localhost>]

Module Name:	pkgsrc-wip
Committed By:	Jason Bacon <bacon4000%gmail.com@localhost>
Pushed By:	outpaddling
Date:		Mon Aug 28 18:16:49 2017 -0500
Changeset:	b64aadc1fe4b66efd86dbec35091a10e280a8f46

Modified Files:
	Makefile
Added Files:
	plink/DESCR
	plink/Makefile
	plink/PLIST
	plink/distinfo

Log Message:
plink: New 1.9 beta

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=b64aadc1fe4b66efd86dbec35091a10e280a8f46

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

diffstat:
 Makefile       |  1 +
 plink/DESCR    |  3 +++
 plink/Makefile | 61 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
 plink/PLIST    |  1 +
 plink/distinfo |  6 ++++++
 5 files changed, 72 insertions(+)

diffs:
diff --git a/Makefile b/Makefile
index e582e29113..5da80f9690 100644
--- a/Makefile
+++ b/Makefile
@@ -2702,6 +2702,7 @@ SUBDIR+=	plasma-workspace
 SUBDIR+=	plasma-workspace-wallpapers
 SUBDIR+=	plasti
 SUBDIR+=	plconfig
+SUBDIR+=	plink
 SUBDIR+=	plod
 SUBDIR+=	plover-git
 SUBDIR+=	plover-wxgtk
diff --git a/plink/DESCR b/plink/DESCR
new file mode 100644
index 0000000000..8e4e62b399
--- /dev/null
+++ b/plink/DESCR
@@ -0,0 +1,3 @@
+PLINK is a free, open-source whole genome association analysis toolset,
+designed to perform a range of basic, large-scale analyses in a
+computationally efficient manner.
diff --git a/plink/Makefile b/plink/Makefile
new file mode 100644
index 0000000000..30e536d2d1
--- /dev/null
+++ b/plink/Makefile
@@ -0,0 +1,61 @@
+# $NetBSD$
+#
+###########################################################
+#                  Generated by fbsd2pkg                  #
+#              Mon Aug 28 18:05:44 CDT 2017               #
+###########################################################
+
+###########################################################
+# Unconverted and partially converted FreeBSD port syntax:
+
+# LIB_DEPENDS=	liblapack.so:math/lapack \
+#		libcblas.so:math/cblas \
+#		libopenblas.so:math/openblas
+# Need to compile C files with C++ compiler, which clang complains about
+#USE_GCC=	yes
+
+DISTNAME=	plink-${PORTVERSION}
+CATEGORIES=	wip
+MASTER_SITES=	${MASTER_SITE_GITHUB:=chrchang/}
+GITHUB_PROJECT=	plink-ng
+GITHUB_TAG=	cbcf442c176036138419b14d6b46a3d57e8325d4
+
+MAINTAINER=	bacon4000%gmail.com@localhost
+HOMEPAGE=	http://pngu.mgh.harvard.edu/~purcell/plink/
+COMMENT=	Whole genome association analysis toolset
+LICENSE=	gnu-gpl-v2
+
+# Test and change if necessary.
+# MAKE_JOBS_SAFE=	no
+
+# We need Fortran LDFLAGS to link with Lapack.
+USE_LANGUAGES=	c c++ fortran
+USE_TOOLS+=	gmake
+
+WRKSRC=		${WRKDIR}/plink-ng-${GITHUB_TAG}/1.9
+
+CFLAGS+=	-DDYNAMIC_ZLIB -I${PREFIX}/include
+
+CXXFLAGS+=	-DDYNAMIC_ZLIB -I${PREFIX}/include
+MAKE_FLAGS+=	ZLIB=-lz BLASFLAGS="-L${PREFIX}/lib -llapack -lcblas -lopenblas"
+INSTALL_TARGET=	install-strip
+
+PORTVERSION=	1.90b4
+DATADIR=	${PREFIX}/share/plink
+DOCSDIR=	${PREFIX}/share/doc/plink
+EXAMPLESDIR=	${PREFIX}/share/examples/plink
+
+INSTALLATION_DIRS=	bin
+
+post-patch:
+	${CP} ${WRKSRC}/Makefile.std ${WRKSRC}/Makefile
+
+# Override install target and install as plink1 to allow coexistence with
+# plink 1.07
+do-install:
+	${INSTALL_PROGRAM} ${WRKSRC}/plink ${DESTDIR}${PREFIX}/bin/plink19
+
+.include "../../math/blas/buildlink3.mk"
+.include "../../math/lapack/buildlink3.mk"
+.include "../../devel/zlib/buildlink3.mk"
+.include "../../mk/bsd.pkg.mk"
diff --git a/plink/PLIST b/plink/PLIST
new file mode 100644
index 0000000000..48d96a5493
--- /dev/null
+++ b/plink/PLIST
@@ -0,0 +1 @@
+@comment $NetBSD$
diff --git a/plink/distinfo b/plink/distinfo
new file mode 100644
index 0000000000..aa726a73db
--- /dev/null
+++ b/plink/distinfo
@@ -0,0 +1,6 @@
+$NetBSD$
+
+SHA1 (plink-1.90b4-cbcf442c176036138419b14d6b46a3d57e8325d4.tar.gz) = 7c38fd96bb14c59822167b0ddcbc62d73e4339a9
+RMD160 (plink-1.90b4-cbcf442c176036138419b14d6b46a3d57e8325d4.tar.gz) = 7f458f9eceedf24d781dd5862419ef9d295e9a03
+SHA512 (plink-1.90b4-cbcf442c176036138419b14d6b46a3d57e8325d4.tar.gz) = e79413130a8f7abd2d2d9472e7d7e7ec7e4722f449860c5d0d0cfd50b3f068ff3ad19c46a141463d5ae2b3e4d1c80b4dc637f952db269e47e3740fc42095d227
+Size (plink-1.90b4-cbcf442c176036138419b14d6b46a3d57e8325d4.tar.gz) = 2275983 bytes