From b6e766edf99d3d0c180728ed5049dae69cffe53d Mon Sep 17 00:00:00 2001
From: minskim <minskim>
Date: Wed, 1 Dec 2004 04:01:09 +0000
Subject: Update hmmer to 2.3.2.  Patch provided by David Price in PR
 pkg/28483. While here, enable pkgviews installation.

Changes:
-:- hmmsearch intermittently failed on Swissprot searches, on some
    platforms (reports on AMD/Linux; Mac OS/X). (#h25)
-:- hmmpfam memory allocation strategy did not guarantee RAMLIMIT,
    and could explode to very large allocations when searching
    with large sequences. (#h26)
-:- technical improvements in handing dsq's (digitized sequences);
    "bug" has no visible effects, except when compiling on
    different platforms. (#h27)
-:- typo fix in P7Forward() recursion; typo may have had minor
    effect on calculated scores. (#h28)
-:- hmmalign now includes --outformat and --oneline option for
    specifying different output alignment formats than the default
    Stockholm.
---
 biology/hmmer/Makefile | 9 +++++----
 biology/hmmer/distinfo | 6 +++---
 2 files changed, 8 insertions(+), 7 deletions(-)

(limited to 'biology')

diff --git a/biology/hmmer/Makefile b/biology/hmmer/Makefile
index 0205a9f3e31..04536081268 100644
--- a/biology/hmmer/Makefile
+++ b/biology/hmmer/Makefile
@@ -1,15 +1,16 @@
-# $NetBSD: Makefile,v 1.5 2004/08/16 02:47:49 ben Exp $
+# $NetBSD: Makefile,v 1.6 2004/12/01 04:01:09 minskim Exp $
 #
 
-DISTNAME=		hmmer-2.3.1
+DISTNAME=		hmmer-2.3.2
 CATEGORIES=		biology
-MASTER_SITES=		ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/2.3.1/
+MASTER_SITES=		ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/2.3.2/
 
 MAINTAINER=		hdp@cs.nmsu.edu
 HOMEPAGE=		http://hmmer.wustl.edu/
 COMMENT=		Implementation of profile HMM software for protein sequence analysis
 
-WRKSRC=			${WRKDIR}/hmmer-2.3.1
+PKG_INSTALLATION_TYPES=	overwrite pkgviews
+
 USE_BUILDLINK3=		yes
 GNU_CONFIGURE=		yes
 
diff --git a/biology/hmmer/distinfo b/biology/hmmer/distinfo
index 0ea4ec8505f..7b0f7f43c6b 100644
--- a/biology/hmmer/distinfo
+++ b/biology/hmmer/distinfo
@@ -1,5 +1,5 @@
-$NetBSD: distinfo,v 1.3 2004/08/23 14:37:04 ben Exp $
+$NetBSD: distinfo,v 1.4 2004/12/01 04:01:09 minskim Exp $
 
-SHA1 (hmmer-2.3.1.tar.gz) = bf6a3ec56c24332d7e66d6ce8865de1d72dce01f
-Size (hmmer-2.3.1.tar.gz) = 1023122 bytes
+SHA1 (hmmer-2.3.2.tar.gz) = aa34cb97cbc43ff3bd92dd111ba5677298fe2d40
+Size (hmmer-2.3.2.tar.gz) = 1024933 bytes
 SHA1 (patch-aa) = e443df78be8036bb8e58567ae9e9f734f8b6ae99
-- 
cgit v1.2.3