Commit graph

11 commits

Author SHA1 Message Date
rillig
b71a1d488b Fixed pkglint warnings. The warnings are mostly quoting issues, for
example MAKE_ENV+=FOO=${BAR} is changed to MAKE_ENV+=FOO=${BAR:Q}. Some
other changes are outlined in

    http://mail-index.netbsd.org/tech-pkg/2005/12/02/0034.html
2005-12-05 20:49:47 +00:00
rillig
f795c2e475 Removed trailing white-space. 2005-05-23 08:26:03 +00:00
tv
f816d81489 Remove USE_BUILDLINK3 and NO_BUILDLINK; these are no longer used. 2005-04-11 21:44:48 +00:00
agc
6fa3382159 Add RMD160 digests in addition to the SHA1 ones. 2005-02-22 21:28:55 +00:00
minskim
15e9128d89 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.
2004-12-01 04:01:09 +00:00
ben
5c410f3331 Remove unnecessary -p following MKDIR commands. 2004-08-23 14:37:04 +00:00
ben
3a9380afa6 Make hmmer honor $MKDIR for cross-platform install.
Addresses pr#26650 from Georg Schwarz.
2004-08-16 02:47:49 +00:00
snj
7b4bd4a804 Convert to buildlink3 and correct a spelling error in DESCR. 2004-04-11 04:06:09 +00:00
agc
dc52048e01 Move WRKSRC definition away from the first paragraph in a Makefile. 2004-01-20 12:07:06 +00:00
wiz
5bdb77d9bb Add trailing slash to HOMEPAGE to placate pkglint. 2003-09-26 05:21:04 +00:00
jschauma
20bf40599b Initial import of hmmer, one of the many packages provided by
brook at biology dot nmsu dot edu and his team at NMSU.

HMMER is an implementation of profile HMM methods for sensitive database
searches using multiple sequence alignments as queries. HMMER takes
multiple sequence alignement as input and builds statistical model
called "Hidden Markov Model" which can be used as a query into a
sequence database to find and/or align additional homologues of the
sequence family.
2003-09-26 03:52:47 +00:00