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freebsd-ports/biology
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Wen Heping 22c4a3da76 - Update to 0.18 
- Adopt

Feature safe:	yes
2010-03-03 13:44:19 +00:00
..
adun Chase math/gsl update, 2009-12-01 20:33:45 +00:00
ariadne
artemis
avida For ports maintained by ports@FreeBSD.org, remove names and/or 2009-12-21 02:19:12 +00:00
babel
belvu
biococoa - add LICENSE: 2009-01-16 16:01:05 +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 to jpeg-8 2010-02-05 11:46:55 +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 For ports maintained by ports@FreeBSD.org, remove names and/or 2009-12-21 02:19:12 +00:00
dotter - broken checksum mismatch 2009-11-19 12:43:06 +00:00
embassy - update to jpeg-8 2010-02-05 11:46:55 +00:00
emboss - update to jpeg-8 2010-02-05 11:46:55 +00:00
fasta For ports maintained by ports@FreeBSD.org, remove names and/or 2009-12-21 02:19:12 +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 jpeg-8 2010-02-05 11:46:55 +00:00
gff2ps
gmap Update CONFIGURE_ARGS for how we pass CONFIGURE_TARGET to configure script. 2008-08-21 06:18:49 +00:00
gperiodic - update to jpeg-8 2010-02-05 11:46:55 +00:00
grappa
hmmer - Update download locations, update WWW 2009-02-01 08:17:14 +00:00
iolib Io_lib is a library of file reading and writing code to provide a 2009-08-28 23:34:20 +00:00
jalview
kinemage
L-Breeder - update to jpeg-8 2010-02-05 11:46:55 +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 - Reset more ports I don't use anymore 2010-02-10 21:47:48 +00:00
libgenome -Repocopy devel/libtool15 -> libtool22 and libltdl15 -> libltdl22. 2009-08-02 19:36:34 +00:00
libsbml - Mark MAKE_JOBS_UNSAFE 2009-11-20 22:53:09 +00:00
linux-foldingathome
lsysexp - update to jpeg-8 2010-02-05 11:46:55 +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 to 3.1.2 2010-02-10 09:47:48 +00:00
molden Bump PORTREVISION for everything that sets USE_FORTRAN=yes which now 2009-09-13 00:08:01 +00:00
mopac - Update to 7.1.11 2009-12-22 11:25:15 +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 my mail address to FreeBSD 2009-11-27 22:52:30 +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 - update to jpeg-8 2010-02-05 11:46:55 +00:00
p5-Bio-Das-Lite p5-Bio-Das-Lite is an implementation of a client for the DAS protocol (XML 2010-03-01 09:16:25 +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 2.00 2010-02-10 06:10:33 +00:00
p5-Bio-MAGETAB - Update to 0.99 2010-02-03 08:25:35 +00:00
p5-Bio-NEXUS Bio::NEXUS package provides an object-oriented, Perl-based 2009-08-22 20:39:51 +00:00
p5-Bio-Phylo - Update to 0.18 2010-03-03 13:44:19 +00:00
p5-Bio-SCF - Update to 1.03 2010-01-09 01:21:21 +00:00
p5-bioperl - update to jpeg-8 2010-02-05 11:46:55 +00:00
p5-bioperl-run - update to jpeg-8 2010-02-05 11:46:55 +00:00
paml - Update to 4.3 2009-08-13 17:00:04 +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 jpeg-8 2010-02-05 11:46:55 +00:00
primer3 - Update to 1.1.4 2009-12-18 02:55:57 +00:00
protomol - update to jpeg-8 2010-02-05 11:46:55 +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 1.53 2010-01-06 00:29:25 +00:00
pycogent - Update to 1.4 2009-12-17 06:51:53 +00:00
pyfasta - Update to 0.3.7 2009-12-24 03:14:34 +00:00
pymol - update to jpeg-8 2010-02-05 11:46:55 +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
seaview - update to jpeg-8 2010-02-05 11:46:55 +00:00
seqio For ports maintained by ports@FreeBSD.org, remove names and/or 2009-12-21 02:19:12 +00:00
sim4
ssaha
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 jpeg-8 2010-02-05 11:46:55 +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 jpeg-8 2010-02-05 11:46:55 +00:00
xmolwt
Makefile p5-Bio-Das-Lite is an implementation of a client for the DAS protocol (XML 2010-03-01 09:16:25 +00:00