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freebsd-ports/biology
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Ruslan Makhmatkhanov 9f67b5e7f1 - update to 1.60 
while here:
- convert Makefile header into two-line format
- update COMMENT (indefinite article removed)
- change USE_PYTHON to just -2.7
- remove py-reportlab from BUILD_DEPENDS and kick PYTHON_SITELIBDIR from there
- tab -> space change in pkg-descr:WWW

PR:		171115
Submitted by:	wen
Approved by:	Mauricio Herrera Cuadra <mauricio at arareko dot net> (maintainer)
2012-09-25 08:06:42 +00:00
..
adun - reset MAINTAINER 2012-06-26 05:44:19 +00:00
ariadne
artemis
avida - Update to version 2.12.3 2012-06-17 20:04:32 +00:00
babel Fix build with clang 2012-08-24 10:18:51 +00:00
belvu
biococoa - reset MAINTAINER 2012-06-26 05:44:19 +00:00
biojava Fix typos in COMMENT 2012-07-29 11:17:02 +00:00
blast
blat
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
crux Does not build on powerpc-9: error in pthreads. 2011-11-10 14:30:51 +00:00
dna-qc Deprecated a bunch a ports with nor more public distfiles (thanks ehaupt's 2012-09-20 22:26:26 +00:00
dotter
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
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
fluctuate
garlic Fix typos in COMMENT 2012-07-25 06:32:06 +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
hmmer
iolib - Remove WITH_FBSD10_FIX, is no longer needed 2011-11-09 15:26:04 +00:00
jalview
lagan
lamarc - Update to version 2.1.8 2012-06-17 20:22:32 +00:00
libgenome
libsbml
linux-foldingathome
mafft Mark as broken on sparc64: depends on thread-local storage, which is not 2012-09-08 08:30:39 +00:00
mapm3
migrate
molden Mea culpa, s/Whom/Created by/ 2012-09-23 15:40:58 +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
mummer - Update to 3.23 2012-01-17 00:51:39 +00:00
muscle Fix typos in COMMENT 2012-07-24 07:19:21 +00:00
ncbi-toolkit - remove maintainer tags from pkg-descr 2011-10-22 23:50:23 +00:00
njplot s/X11BASE/LOCALBASE/, or equivalent. 2012-06-24 21:53:38 +00:00
ortep3
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 Fix typos in COMMENT 2012-07-25 06:32:06 +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 to 2.29 2012-06-18 09:30:35 +00:00
p5-Bio-MAGETAB - Update to 1.23 2012-07-19 16:42:55 +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= ${RUN_DEPENDS} and 450 2012-01-21 17:40:15 +00:00
p5-bioperl - Remove SITE_PERL from *_DEPENDS 2012-06-30 05:23:19 +00:00
p5-bioperl-run - Remove SITE_PERL from *_DEPENDS 2012-06-30 14:53:22 +00:00
paml
phd2fasta
phrap
phred
phylip
phyml
platon The vast majority of pkg-descr files had the following format when they 2011-10-24 09:11:38 +00:00
povchem - update png to 1.5.10 2012-06-01 05:26:28 +00:00
primer3 - Respect CC 2012-01-27 17:41:00 +00:00
protomol Switch from libglut to freeglut and retire libglut. Libglut hasn't been 2012-08-04 22:52:02 +00:00
psi88
py-biopython - update to 1.60 2012-09-25 08:06:42 +00:00
pycogent - Convert all remaining instances of BUILD_DEPENDS=${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 Switch from libglut to freeglut and retire libglut. Libglut hasn't been 2012-08-04 22:52:02 +00:00
python-nexus - Update to 0.87 2011-12-23 08:05:00 +00:00
rasmol
recombine
ruby-bio
seaview - update png to 1.5.10 2012-06-01 05:26:28 +00:00
seqan Replace USE_GCC=4.4+ by USE_GCC=4.6+ since GCC 4.4 is on its way out. 2012-07-21 22:20:32 +00:00
seqio
sim4
ssaha
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
treeviewx - update png to 1.5.10 2012-06-01 05:26:28 +00:00
tRNAscan-SE
velvet
wise
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