From c3d31016ae90cc1175b6cacd4397d5829870399d Mon Sep 17 00:00:00 2001
From: Kamel Ibn Aziz Derouiche <kamel.derouiche@gmail.com>
Date: Mon, 2 Dec 2013 09:59:25 +0000
Subject: [PATCH] UPGRADE Makefile

---
 py-mdanalysis/Makefile | 19 ++++++++-----------
 py-mdanalysis/PLIST    | 12 +++++++++++-
 py-mdanalysis/distinfo |  8 ++++----
 3 files changed, 23 insertions(+), 16 deletions(-)

diff --git a/py-mdanalysis/Makefile b/py-mdanalysis/Makefile
index f9d6813ae6..e71272e9b2 100644
--- a/py-mdanalysis/Makefile
+++ b/py-mdanalysis/Makefile
@@ -1,23 +1,20 @@
-# $NetBSD: Makefile,v 1.7 2013/02/24 18:08:09 asau Exp $
-#
+# $NetBSD: Makefile,v 1.8 2013/12/02 09:59:25 jihbed Exp $
 
-DISTNAME=	MDAnalysis-0.7.6
-PKGNAME=	${PYPKGPREFIX}-mdanalysis-0.7.6
+DISTNAME=	MDAnalysis-0.7.7
+PKGNAME=	${PYPKGPREFIX}-mdanalysis-0.7.7
 CATEGORIES=	biology
 MASTER_SITES=	http://mdanalysis.googlecode.com/files/
 
 MAINTAINER=	jihbed.research@gmail.com
 HOMEPAGE=	http://code.google.com/p/mdanalysis/
-COMMENT=Library to analyze and manipulate molecular dynamics trajectories
+COMMENT=   Library to analyze and manipulate molecular dynamics trajectories
 LICENSE=	gnu-gpl-v2
 
-DEPENDS+=	${PYPKGPREFIX}-scipy>=0.7.2:../../math/py-scipy
-DEPENDS+=	${PYPKGPREFIX}-biopython>=1.53:../../wip/biopython
-
 USE_LANGUAGES=	c c++
-#PYTHON_VERSIONS_INCLUDE_3X=yes	# biopython doesn't support it yet
 
-.include "../../devel/py-cython/buildlink3.mk"
-.include "../../math/py-numpy/buildlink3.mk"
+PYTHON_VERSIONS_INCLUDE_3X=yes	# biopython doesn't support it yet
+
 .include "../../lang/python/egg.mk"
+.include "../../math/py-numpy/buildlink3.mk"
+DEPENDS+=	${PYPKGPREFIX}-biopython>=1.63:../../wip/biopython
 .include "../../mk/bsd.pkg.mk"
diff --git a/py-mdanalysis/PLIST b/py-mdanalysis/PLIST
index fbfb21e5b1..6bfc7b9db5 100644
--- a/py-mdanalysis/PLIST
+++ b/py-mdanalysis/PLIST
@@ -1,4 +1,4 @@
-@comment $NetBSD: PLIST,v 1.1 2012/09/03 22:59:11 jihbed Exp $
+@comment $NetBSD: PLIST,v 1.2 2013/12/02 09:59:25 jihbed Exp $
 ${PYSITELIB}/${EGG_INFODIR}/PKG-INFO
 ${PYSITELIB}/${EGG_INFODIR}/SOURCES.txt
 ${PYSITELIB}/${EGG_INFODIR}/dependency_links.txt
@@ -45,12 +45,18 @@ ${PYSITELIB}/MDAnalysis/analysis/hbonds.pyo
 ${PYSITELIB}/MDAnalysis/analysis/helanal.py
 ${PYSITELIB}/MDAnalysis/analysis/helanal.pyc
 ${PYSITELIB}/MDAnalysis/analysis/helanal.pyo
+${PYSITELIB}/MDAnalysis/analysis/hole.py
+${PYSITELIB}/MDAnalysis/analysis/hole.pyc
+${PYSITELIB}/MDAnalysis/analysis/hole.pyo
 ${PYSITELIB}/MDAnalysis/analysis/leaflet.py
 ${PYSITELIB}/MDAnalysis/analysis/leaflet.pyc
 ${PYSITELIB}/MDAnalysis/analysis/leaflet.pyo
 ${PYSITELIB}/MDAnalysis/analysis/nuclinfo.py
 ${PYSITELIB}/MDAnalysis/analysis/nuclinfo.pyc
 ${PYSITELIB}/MDAnalysis/analysis/nuclinfo.pyo
+${PYSITELIB}/MDAnalysis/analysis/rms.py
+${PYSITELIB}/MDAnalysis/analysis/rms.pyc
+${PYSITELIB}/MDAnalysis/analysis/rms.pyo
 ${PYSITELIB}/MDAnalysis/builder/__init__.py
 ${PYSITELIB}/MDAnalysis/builder/__init__.pyc
 ${PYSITELIB}/MDAnalysis/builder/__init__.pyo
@@ -143,6 +149,10 @@ ${PYSITELIB}/MDAnalysis/core/distances.so
 ${PYSITELIB}/MDAnalysis/core/log.py
 ${PYSITELIB}/MDAnalysis/core/log.pyc
 ${PYSITELIB}/MDAnalysis/core/log.pyo
+${PYSITELIB}/MDAnalysis/core/parallel/__init__.py
+${PYSITELIB}/MDAnalysis/core/parallel/__init__.pyc
+${PYSITELIB}/MDAnalysis/core/parallel/__init__.pyo
+${PYSITELIB}/MDAnalysis/core/parallel/distances.so
 ${PYSITELIB}/MDAnalysis/core/qcprot.so
 ${PYSITELIB}/MDAnalysis/core/transformations.py
 ${PYSITELIB}/MDAnalysis/core/transformations.pyc
diff --git a/py-mdanalysis/distinfo b/py-mdanalysis/distinfo
index b6181c82d4..a49df94bb1 100644
--- a/py-mdanalysis/distinfo
+++ b/py-mdanalysis/distinfo
@@ -1,5 +1,5 @@
-$NetBSD: distinfo,v 1.1 2012/09/03 22:59:11 jihbed Exp $
+$NetBSD: distinfo,v 1.2 2013/12/02 09:59:25 jihbed Exp $
 
-SHA1 (MDAnalysis-0.7.6.tar.gz) = 2dc9c89175cdec01ffd4ebe6cc5c489a948b15fc
-RMD160 (MDAnalysis-0.7.6.tar.gz) = e6591baa2e556f065585ca10accabcf96b09bac3
-Size (MDAnalysis-0.7.6.tar.gz) = 3096061 bytes
+SHA1 (MDAnalysis-0.7.7.tar.gz) = 6af3529c2cf3d3eea5787b43f6147664d96b7d2b
+RMD160 (MDAnalysis-0.7.7.tar.gz) = 288ff4083efbd9c45ea15b566172da9c4cae5b29
+Size (MDAnalysis-0.7.7.tar.gz) = 3262287 bytes