[pkgsrc/trunk]: pkgsrc/biology/plinkseq Import PLINK/SEQ version 0.08 as biol...

[asau <asau%pkgsrc.org@localhost>]

details:   https://anonhg.NetBSD.org/pkgsrc/rev/2e22904958f8
branches:  trunk
changeset: 610622:2e22904958f8
user:      asau <asau%pkgsrc.org@localhost>
date:      Thu Nov 01 04:06:21 2012 +0000

description:
Import PLINK/SEQ version 0.08 as biology/plinkseq
Packaged by Jason Bacon for pkgsrc-wip.


PLINK/SEQ is an open-source C/C++ library for working with human genetic
variation data. The specific focus is to provide a platform for analytic tool
development for variation data from large-scale resequencing and genotyping
projects, particularly whole-exome and whole-genome studies. It is independent
of (but designed to be complementary to) the existing PLINK package.

diffstat:

 biology/plinkseq/DESCR    |   5 +++++
 biology/plinkseq/Makefile |  25 +++++++++++++++++++++++++
 biology/plinkseq/PLIST    |  11 +++++++++++
 biology/plinkseq/distinfo |   5 +++++
 4 files changed, 46 insertions(+), 0 deletions(-)

diffs (62 lines):

diff -r 4703d2acd877 -r 2e22904958f8 biology/plinkseq/DESCR
--- /dev/null   Thu Jan 01 00:00:00 1970 +0000
+++ b/biology/plinkseq/DESCR    Thu Nov 01 04:06:21 2012 +0000
@@ -0,0 +1,5 @@
+PLINK/SEQ is an open-source C/C++ library for working with human genetic
+variation data. The specific focus is to provide a platform for analytic tool
+development for variation data from large-scale resequencing and genotyping
+projects, particularly whole-exome and whole-genome studies. It is independent
+of (but designed to be complementary to) the existing PLINK package.
diff -r 4703d2acd877 -r 2e22904958f8 biology/plinkseq/Makefile
--- /dev/null   Thu Jan 01 00:00:00 1970 +0000
+++ b/biology/plinkseq/Makefile Thu Nov 01 04:06:21 2012 +0000
@@ -0,0 +1,25 @@
+# $NetBSD: Makefile,v 1.1 2012/11/01 04:06:21 asau Exp $
+
+DISTNAME=      plinkseq-0.08
+CATEGORIES=    biology
+MASTER_SITES=  http://atgu.mgh.harvard.edu/plinkseq/dist/version-0.08/
+
+MAINTAINER=    jwbacon%tds.net@localhost
+HOMEPAGE=      http://atgu.mgh.harvard.edu/plinkseq/
+COMMENT=       C/C++ library for working with human genetic variation data
+LICENSE=       gnu-gpl-v2      # Assuming same as plink.  No info on web.
+
+GNU_CONFIGURE= yes
+USE_LIBTOOL=   yes
+USE_LANGUAGES= c c++
+USE_TOOLS=     bash:run
+REPLACE_BASH=  browser/pbrowse.in index/index.in
+
+.include "../../mk/bsd.prefs.mk"
+
+.if $(OPSYS) != "Linux"
+BUILDLINK_TRANSFORM=   rm:-ldl
+.endif
+
+.include "../../devel/protobuf/buildlink3.mk"
+.include "../../mk/bsd.pkg.mk"
diff -r 4703d2acd877 -r 2e22904958f8 biology/plinkseq/PLIST
--- /dev/null   Thu Jan 01 00:00:00 1970 +0000
+++ b/biology/plinkseq/PLIST    Thu Nov 01 04:06:21 2012 +0000
@@ -0,0 +1,11 @@
+@comment $NetBSD: PLIST,v 1.1 2012/11/01 04:06:21 asau Exp $
+bin/behead
+bin/gcol
+bin/index
+bin/index.cgi
+bin/mongoose
+bin/pbrowse
+bin/pbrowse.cgi
+bin/pseq
+bin/tab2vcf
+lib/libplinkseq.la
diff -r 4703d2acd877 -r 2e22904958f8 biology/plinkseq/distinfo
--- /dev/null   Thu Jan 01 00:00:00 1970 +0000
+++ b/biology/plinkseq/distinfo Thu Nov 01 04:06:21 2012 +0000
@@ -0,0 +1,5 @@
+$NetBSD: distinfo,v 1.1 2012/11/01 04:06:21 asau Exp $
+
+SHA1 (plinkseq-0.08.tar.gz) = 8bff6b32750eee85559dda2c7c3cf9aea423a3d7
+RMD160 (plinkseq-0.08.tar.gz) = bce0966ea5f25d8c1091157561aaf533a98595ec
+Size (plinkseq-0.08.tar.gz) = 2991871 bytes