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.
This commit is contained in:
minskim 2004-12-01 04:01:09 +00:00
parent cff4149cea
commit 15e9128d89
2 changed files with 8 additions and 7 deletions

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@ -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

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@ -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