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6cc7f9196c
freebsd-ports/biology
History
Martin Matuska ddcc0de921 Change dependency on old p5-Compress-Zlib, p5-IO-Compress-Base, 
p5-IO-Compress-Zlib and p5-IO-Compress-Bzip2 modules to p5-IO-Compress.
Explicitly depend on p5-IO-Compress only if PERL_LEVEL < 500903
Bump PORTREVISION
2010-09-21 07:56:43 +00:00
..
adun LICENSE GPLv2 2010-06-05 19:53:32 +00:00
ariadne
artemis Bump portrevision due to upgrade of devel/gettext. 2008-06-06 13:08:29 +00:00
avida Also broken on sparc64 (and, by implication, ia64). 2010-09-17 09:17:05 +00:00
babel Mark various ports as broken or ignore on powerpc. 2010-04-01 05:16:19 +00:00
belvu
biococoa LICENSE LGPL21 2010-06-05 06:14:28 +00:00
biojava - Update to 1.7 2009-05-01 09:33:42 +00:00
blast - SUB_FILES += pkg-message 2010-01-09 23:51:26 +00:00
blat - Remove USE_GCC where it can be satisfied with base compiler on following 2008-07-25 14:34:52 +00:00
boinc-simap - Update the libmap instructions for amd64/8 2010-07-29 08:30:24 +00:00
chemeq
clustalw - Fix fetch error 2009-12-27 03:05:03 +00:00
consed Welcome to the new linux ports infrastructure which allows using 2009-03-19 17:28:51 +00:00
crimap - actually remove old patch 2010-01-17 00:16:34 +00:00
crux Update to Crux 1.2.0. 2009-09-19 17:58:13 +00:00
distribfold
dna-qc BROKEN should not be quoted. 2010-06-13 08:40:06 +00:00
dotter - Removed BROKEN because file fetches and checksums correctly 2010-04-28 22:37:11 +00:00
embassy - Update to 6.2.0 2010-04-07 01:21:36 +00:00
emboss - Update to 6.2.0 2010-04-07 01:21:36 +00:00
fasta Mark various ports as broken or ignore on powerpc. 2010-04-01 05:16:19 +00:00
fasta3 Update to 35.4.9 2009-08-23 15:47:37 +00:00
fastdnaml
finchtv
fluctuate For ports maintained by ports@FreeBSD.org, remove names and/or 2009-12-21 02:19:12 +00:00
garlic
genpak - update to 1.4.1 2010-03-28 06:47:48 +00:00
gff2ps Bump portrevision due to upgrade of devel/gettext. 2008-06-06 13:08:29 +00:00
gmap Update CONFIGURE_ARGS for how we pass CONFIGURE_TARGET to configure script. 2008-08-21 06:18:49 +00:00
gperiodic Bounce PORTREVISION for gettext-related ports. Have fun, ya'll. 2010-05-31 02:01:56 +00:00
grappa
hmmer - Update download locations, update WWW 2009-02-01 08:17:14 +00:00
iolib Fix typo in maintainer mail address 2010-08-02 16:06:38 +00:00
jalview Bump portrevision due to upgrade of devel/gettext. 2008-06-06 13:08:29 +00:00
kinemage
L-Breeder - update to 1.4.1 2010-03-28 06:47:48 +00:00
lagan - Remove duplicates from MAKE_ENV after inclusion of CC and CXX in default MAKE_ENV 2008-07-25 09:08:42 +00:00
lamarc - Update to 2.1.5 2010-08-04 06:30:07 +00:00
libgenome -Repocopy devel/libtool15 -> libtool22 and libltdl15 -> libltdl22. 2009-08-02 19:36:34 +00:00
libsbml - Update to 4.1.0 2010-09-16 03:31:29 +00:00
linux-foldingathome
lsysexp - update to 1.4.1 2010-03-28 06:47:48 +00:00
mafft - Update download locations, update WWW 2009-02-04 03:31:00 +00:00
mapm3 - Mark MAKE_JOBS_UNSAFE 2009-11-20 22:53:09 +00:00
migrate - Update MAINTAINER to submitters new mail address 2010-09-04 15:32:58 +00:00
molden Bump PORTREVISION for everything that sets USE_FORTRAN=yes which now 2009-09-13 00:08:01 +00:00
mopac Autotools update. Read ports/UPDATING 20100915 for details. 2010-09-15 18:35:24 +00:00
mrbayes Fix LIB_DEPENDS on devel/readline: its sh lib version was bumped recently from 2009-05-12 11:28:17 +00:00
mummer - Update to 3.22 2010-03-21 17:18:20 +00:00
muscle
ncbi-toolkit - use $SUB_FILES to dynamically adjust pkg-message 2010-01-31 03:42:20 +00:00
njplot Convert most of remaining ports that depend on xorg-libraries to 2009-06-09 15:33:28 +00:00
ortep3 For ports maintained by ports@FreeBSD.org, remove names and/or 2009-12-21 02:19:12 +00:00
p5-AcePerl - Remove unneeded dependencies which is in perl-5.8.9 dist 2010-01-29 14:52:21 +00:00
p5-Bio-ASN1-EntrezGene
p5-Bio-Das Change dependency on old p5-Compress-Zlib, p5-IO-Compress-Base, 2010-09-21 07:56:43 +00:00
p5-Bio-Das-Lite - Update to 2.04 2010-06-22 03:28:49 +00:00
p5-Bio-Glite - Remove unneeded dependencies which is in perl-5.8.9 dist 2010-01-29 14:52:21 +00:00
p5-Bio-Graphics - Update to 2.11 2010-06-30 07:41:06 +00:00
p5-Bio-MAGETAB - Update to 1.13 2010-09-07 07:00:17 +00:00
p5-Bio-NEXUS - Update to 0.75 2010-09-07 07:15:24 +00:00
p5-Bio-Phylo - update to 1.4.1 2010-03-28 06:47:48 +00:00
p5-Bio-SCF - Update to 1.03 2010-01-09 01:21:21 +00:00
p5-bioperl - update to 1.4.1 2010-03-28 06:47:48 +00:00
p5-bioperl-run - update to 1.4.1 2010-03-28 06:47:48 +00:00
paml - Update to 4.4c 2010-09-08 00:16:45 +00:00
phd2fasta
phrap
phred
phylip For ports maintained by ports@FreeBSD.org, remove names and/or 2009-12-21 02:19:12 +00:00
phyml PhyML is a software that estimates maximum likelihood phylogenies from 2009-07-21 01:10:13 +00:00
platon Bump PORTREVISION for everything that sets USE_FORTRAN=yes which now 2009-09-13 00:08:01 +00:00
povchem - update to 1.4.1 2010-03-28 06:47:48 +00:00
primer3 - Update to 1.1.4 2009-12-18 02:55:57 +00:00
protomol - update to 1.4.1 2010-03-28 06:47:48 +00:00
psi88 Bump PORTREVISION for everything that sets USE_FORTRAN=yes which now 2009-09-13 00:08:01 +00:00
py-biopython - Update to 1.54 2010-07-02 02:57:19 +00:00
pycogent - Update to 1.4.1 2010-06-01 06:57:30 +00:00
pyfasta - Update USE_PYTHON in Makefile to reflect upstream Python 2010-08-18 14:09:34 +00:00
pymol Update to 1.3r1.3913. 2010-09-16 21:48:04 +00:00
python-nexus - Update to 0.7 2010-02-24 01:30:46 +00:00
rasmol Convert most of remaining ports that depend on xorg-libraries to 2009-06-09 15:33:28 +00:00
recombine For ports maintained by ports@FreeBSD.org, remove names and/or 2009-12-21 02:19:12 +00:00
ruby-bio - Update to 1.4.0 2010-06-08 00:18:54 +00:00
seaview - update to 1.4.1 2010-03-28 06:47:48 +00:00
seqio For ports maintained by ports@FreeBSD.org, remove names and/or 2009-12-21 02:19:12 +00:00
sim4
ssaha - Fix plist files installation. 2008-06-21 02:46:21 +00:00
t_coffee - Respect PORTDOCS/PORTEXAMPLES 2008-09-09 13:43:15 +00:00
tinker Bump PORTREVISION for everything that sets USE_FORTRAN=yes which now 2009-09-13 00:08:01 +00:00
treepuzzle Update CONFIGURE_ARGS for how we pass CONFIGURE_TARGET to configure script. 2008-08-21 06:18:49 +00:00
treeviewx - update to 1.4.1 2010-03-28 06:47:48 +00:00
tRNAscan-SE
velvet Velvet is a de novo genomic assembler specially designed for short read 2009-11-07 01:23:59 +00:00
wise - SBU_FILES += pkg-message 2010-01-08 01:30:20 +00:00
xdrawchem - update to 1.4.1 2010-03-28 06:47:48 +00:00
xmolwt Bump portrevision due to upgrade of devel/gettext. 2008-06-06 13:08:29 +00:00
Makefile p5-Bio-Das-Lite is an implementation of a client for the DAS protocol (XML 2010-03-01 09:16:25 +00:00