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Ying-Chieh Liao 545bf7ae46 add treepuzzle 5.1 
Maximum likelihood phylogeny reconstruction using quartets

PR:		45241
Submitted by:	Jan Lentfer <lentferj@neslonek.bio.tu-darmstadt.de>
2002-11-20 08:54:10 +00:00
..
artemis Initial import of artemis 4.0 2001-12-22 14:39:40 +00:00
avida Make biology/avida building on -current again 2002-11-03 23:40:02 +00:00
babel o Rollback PORTCOMMENT modifications while this feature's implementation 2002-11-10 16:48:51 +00:00
biojava Unbreak this port: 2002-06-16 01:08:49 +00:00
chemeq upgrade to V110-1 2002-04-21 13:33:29 +00:00
clustalw - Add a new patch 2002-03-27 14:01:57 +00:00
coalesce Add coalesce 1.50, a program to fit population models. 2001-08-06 14:41:58 +00:00
crimap Add crimap 2.4, a tool for the creation of multilocus linkage maps. 2002-03-27 14:42:56 +00:00
deft PERL -> REINPLACE 2002-11-04 05:46:38 +00:00
distribfold Update CATEGORIES as per ports/44331. 2002-10-21 10:59:11 +00:00
dna-qc PERL -> REINPLACE 2002-11-04 05:46:38 +00:00
emboss - Unbreak fetching of distfiles. (Needs update as soon as freeze is over.) 2002-09-27 08:58:19 +00:00
fasta Replace erroneous usage of INSTALL_MAN with INSTALL_DATA. 2001-07-03 09:08:26 +00:00
fasta3 Prefer <limits.h> over <values.h> as the latter has been removed from 2002-08-23 03:36:33 +00:00
fastdnaml Add NOPORTDOCS support to pkg-plist 2001-07-08 18:15:34 +00:00
flip PERL -> REINPLACE 2002-11-04 05:46:38 +00:00
fluctuate Add fluctuate 1.30, a program to fit population models. 2001-08-06 14:45:39 +00:00
gaussian98 Remove USE_NEWGCC, which is no longer supported or required. 2002-08-31 02:38:29 +00:00
genpak o Rollback PORTCOMMENT modifications while this feature's implementation 2002-11-10 16:48:51 +00:00
gff2ps PERL -> REINPLACE 2002-11-04 01:56:21 +00:00
gperiodic Deploy USE_GNOMENG infrastructure 2002-08-30 12:59:40 +00:00
grappa - Update to version 1.0.3 2001-08-29 11:53:29 +00:00
hmmer - Add patch that will, for -CURRENT only, change: -pthread -> -lc_r 2002-07-11 10:52:14 +00:00
kinemage Update to version 5.79. 2000-12-11 03:10:04 +00:00
L-Breeder Fix dependency on wxgtk 2002-10-19 09:50:53 +00:00
lamarc Add lamarc 2001.08.06, 2001-08-07 08:17:58 +00:00
libgenome Fix PORTCOMMENTs that were killing INDEX builds. 2002-11-07 03:10:58 +00:00
migrate - Update to version 1.2.4 2001-08-22 14:43:45 +00:00
molden Note distribution term. 2002-05-27 06:25:53 +00:00
mopac Add NOPORTDOCS support to pkg-plist 2001-07-08 18:15:34 +00:00
nab PERL -> REINPLACE 2002-11-04 01:56:21 +00:00
ncbi-toolkit add forgotten "USE_REINPLACE=yes" 2002-09-21 14:56:18 +00:00
nclever Add nclever 4.0, a character-based version of NCBI's Entrez program. 2001-09-26 09:22:02 +00:00
ortep3 File missing in pkg-plist 2000-10-30 15:36:57 +00:00
p5-AcePerl CC, CXX, CFLAGS, PTHREAD_CFLAGS and PTHREAD_LIBS may contain `/' in 2002-10-10 12:59:36 +00:00
p5-bioperl - Update to version 0.7.2, somewhat overdue. :-) 2002-01-25 11:46:09 +00:00
p5-bioperl-devel - Add NO_LATEST_LINK, which should've been there in the first place. :-( 2001-09-20 15:11:14 +00:00
paml - Update to version 3.1 2001-08-29 12:00:08 +00:00
phylip Update to version 3.6.a3. 2002-08-13 16:07:45 +00:00
pkg
platon add USE_XLIB 2001-07-30 21:05:54 +00:00
povchem PERL -> REINPLACE 2002-11-04 02:35:01 +00:00
primer3 Updated to fix problems as stated in PR ports/42915 2002-11-07 13:45:17 +00:00
psi88 update WWW and master site 2001-10-22 06:36:14 +00:00
py-biopython Use $PYNUMERIC in the dependencies. 2002-07-15 11:37:35 +00:00
pymol 1. add a missing dependency on png and unbreak. 2002-11-19 23:01:49 +00:00
rasmol o Rollback PORTCOMMENT modifications while this feature's implementation 2002-11-10 16:48:51 +00:00
recombine Add recombine 1.40, a program to fit population models across sites. 2001-08-06 14:49:53 +00:00
ruby-bio Use RUBY_MOD*. 2002-10-06 21:08:30 +00:00
seaview Update WWW 2002-11-07 23:13:11 +00:00
seqio Remove a redundant trailing space. 2001-10-21 07:55:45 +00:00
sim4 Update to sim4-2002.03.03 to unbreak build. 2002-05-04 21:45:10 +00:00
spdbv Swiss-PdbViewer is an application that provides a user friendly interface 2002-04-02 16:18:53 +00:00
t_coffee Add t_coffee 1.37, a multiple DNA or protein sequence alignment package. 2002-01-25 14:58:16 +00:00
tinker Upgrade tinker to the latest revision 2002-01-19 15:15:16 +00:00
treepuzzle add treepuzzle 5.1 2002-11-20 08:54:10 +00:00
treeviewx Chase new name of wxgtk shared library. 2002-09-09 14:21:08 +00:00
tRNAscan-SE Port needs perl to build. 2002-11-04 01:47:57 +00:00
wise Modify replace RE to match syntax of sed now ("\)" -> ")" 2002-11-05 01:44:12 +00:00
xdrawchem Use ${ECHO_CMD} instead of ${ECHO} where you mean the echo command; 2002-01-29 09:39:59 +00:00
xmolwt Deploy USE_GNOMENG infrastructure 2002-08-30 12:59:40 +00:00
Makefile add treepuzzle 5.1 2002-11-20 08:54:10 +00:00