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freebsd-ports/biology
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Sylvio Cesar Teixeira 4e26180092 - Update to version 2.1.8 
Remove file:
files/patch-Makefile.in
files/patch-configure
files/patch-src__control__defaults.h
pkg-plist

PR:		ports/168994
Submitted by:	KATO Tsuguru <tkato432@yahoo.com>
2012-06-17 20:22:32 +00:00
..
adun - fix build with gcc46 2012-02-07 05:36:27 +00:00
ariadne - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
artemis Now that the Java 1.3 and Java 1.4 ports are deprecated and will expire soon, 2011-07-21 05:03:02 +00:00
avida - Update to version 2.12.3 2012-06-17 20:04:32 +00:00
babel - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
belvu - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
biococoa - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
biojava - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
blast - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
blat - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
boinc-simap - Adjust BOINC_* variables to be consistent with new system in boinc-client 2012-05-16 13:46:30 +00:00
chemeq Remove WWW entries from unmaintained ports that return 404 or where the domain 2011-08-02 20:58:23 +00:00
clustalw Remove USE_GNOME=gnometarget from ports. It has been a empty keyword since 2011-08-11 19:20:17 +00:00
consed - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
crux Does not build on powerpc-9: error in pthreads. 2011-11-10 14:30:51 +00:00
dna-qc - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
dotter - Updated WWW: to a working link 2011-04-22 18:59:11 +00:00
embassy - update png to 1.5.10 2012-06-01 05:26:28 +00:00
emboss - update png to 1.5.10 2012-06-01 05:26:28 +00:00
fasta - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
fasta3 - remove maintainer tags from pkg-descr 2011-10-22 23:50:23 +00:00
fastdnaml - Fix MASTER_SITES and WWW: line 2011-08-26 00:24:48 +00:00
finchtv - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
fluctuate - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
garlic Update to 1.6. Web site has been moved. 2011-05-11 05:55:27 +00:00
genpak - update png to 1.5.10 2012-06-01 05:26:28 +00:00
gff2ps - Update MASTER_SITES and WWW: line 2012-02-19 23:24:52 +00:00
gmap
gperiodic - update png to 1.5.10 2012-06-01 05:26:28 +00:00
grappa Update to GNU make 3.82 after numerous -exp runs. 2011-04-11 19:54:35 +00:00
hmmer - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
iolib - Remove WITH_FBSD10_FIX, is no longer needed 2011-11-09 15:26:04 +00:00
jalview Now that the Java 1.3 and Java 1.4 ports are deprecated and will expire soon, 2011-07-21 05:03:02 +00:00
lagan - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
lamarc - Update to version 2.1.8 2012-06-17 20:22:32 +00:00
libgenome - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
libsbml - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
linux-foldingathome - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
mafft - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
mapm3 - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
migrate - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
molden The vast majority of pkg-descr files had the following format when they 2011-10-24 09:11:38 +00:00
mopac - Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS) 2011-09-23 22:26:39 +00:00
mrbayes - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
mummer - Update to 3.23 2012-01-17 00:51:39 +00:00
muscle - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
ncbi-toolkit - remove maintainer tags from pkg-descr 2011-10-22 23:50:23 +00:00
njplot Bump PORTREVISION after open-mofit update 2011-05-02 12:44:53 +00:00
ortep3 - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
p5-AcePerl - Convert all remaining instances of BUILD_DEPENDS=${RUN_DEPENDS} or 2012-06-10 18:42:48 +00:00
p5-Bio-ASN1-EntrezGene - remove maintainer tags from pkg-descr 2011-10-22 23:50:23 +00:00
p5-Bio-Das - Convert all remaining instances of BUILD_DEPENDS=${RUN_DEPENDS} or 2012-06-10 18:42:48 +00:00
p5-Bio-Das-Lite - Fix missing DEPENDS to silence build warnings 2011-09-24 20:45:23 +00:00
p5-Bio-GFF3 - Update to 1.3 2012-04-26 10:37:09 +00:00
p5-Bio-Glite At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450 2012-01-21 17:40:15 +00:00
p5-Bio-Graphics - update png to 1.5.10 2012-06-01 05:26:28 +00:00
p5-Bio-MAGETAB - Update to 1.22 2012-02-09 03:28:51 +00:00
p5-Bio-NEXUS - Update to 0.78 2012-02-11 02:04:41 +00:00
p5-Bio-Phylo - Update to 0.50 2012-06-12 18:55:28 +00:00
p5-Bio-SCF At the moment 1385 ports use BUILD_DEPENDS= ${RUN_DEPENDS} and 450 2012-01-21 17:40:15 +00:00
p5-bioperl - update png to 1.5.10 2012-06-01 05:26:28 +00:00
p5-bioperl-run - update png to 1.5.10 2012-06-01 05:26:28 +00:00
paml - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
phd2fasta - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
phrap - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
phred - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
phylip - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
phyml - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
platon The vast majority of pkg-descr files had the following format when they 2011-10-24 09:11:38 +00:00
povchem - update png to 1.5.10 2012-06-01 05:26:28 +00:00
primer3 - Respect CC 2012-01-27 17:41:00 +00:00
protomol - update png to 1.5.10 2012-06-01 05:26:28 +00:00
psi88 - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
py-biopython - Update to 1.59 2012-03-06 06:40:50 +00:00
pycogent - Convert all remaining instances of BUILD_DEPENDS=${RUN_DEPENDS} or 2012-06-10 18:42:48 +00:00
pyfasta - Update to 0.4.5 2012-02-23 13:43:25 +00:00
pymol - update png to 1.5.10 2012-06-01 05:26:28 +00:00
python-nexus - Update to 0.87 2011-12-23 08:05:00 +00:00
rasmol - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
recombine - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
ruby-bio - Fix pkg-plist, got the wrong version before 2010-12-30 23:08:47 +00:00
seaview - update png to 1.5.10 2012-06-01 05:26:28 +00:00
seqan - Fix maintainer email 2012-06-07 13:04:53 +00:00
seqio - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
sim4 - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
ssaha - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
t_coffee - Convert all remaining instances of BUILD_DEPENDS=${RUN_DEPENDS} or 2012-06-10 18:42:48 +00:00
tinker - ${FFLAGS} might contain commas 2011-10-10 20:17:22 +00:00
treepuzzle - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
treeviewx - update png to 1.5.10 2012-06-01 05:26:28 +00:00
tRNAscan-SE - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
velvet Update to 1.1.04 2011-06-09 16:33:21 +00:00
wise - Get Rid MD5 support 2011-03-19 12:38:54 +00:00
xdrawchem - update png to 1.5.10 2012-06-01 05:26:28 +00:00
xmolwt The vast majority of pkg-descr files had the following format when they 2011-10-24 09:11:38 +00:00
Makefile SeqAn is an open source C++ library of efficient algorithms 2012-06-06 17:51:33 +00:00