| .. |
|
ariadne
|
Stage support
|
2013-11-12 21:54:36 +00:00 |
|
artemis
|
|
|
|
avida
|
- Fix build with clang
|
2013-11-27 16:07:51 +00:00 |
|
babel
|
|
|
|
biococoa
|
|
|
|
biojava
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
blast
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
blat
|
Add stage support
|
2013-11-12 22:02:02 +00:00 |
|
boinc-simap
|
The hmmer binary was renamed upstream to indicate that it is now an
|
2013-12-29 10:41:50 +00:00 |
|
chemeq
|
|
|
|
clustalw
|
- Fix build with clang/libc++.
|
2013-12-20 15:29:07 +00:00 |
|
consed
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
crux
|
In preparation for making libtool generate libraries with a sane name, fix all
|
2013-12-11 14:43:51 +00:00 |
|
embassy
|
In preparation for making libtool generate libraries with a sane name, fix all
|
2013-12-11 14:43:51 +00:00 |
|
emboss
|
In preparation for making libtool generate libraries with a sane name, fix all
|
2013-12-11 14:43:51 +00:00 |
|
fasta
|
|
|
|
fasta3
|
Mark as broken: Invalid checksum, seems like the software was rerolled
|
2014-01-03 19:46:05 +00:00 |
|
fastdnaml
|
|
|
|
finchtv
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
fluctuate
|
|
|
|
garlic
|
|
|
|
genpak
|
Respect PORT_OPTIONS:MDOCS
|
2013-12-09 01:28:41 +00:00 |
|
gff2ps
|
|
|
|
gmap
|
Support stage
|
2013-12-10 17:21:46 +00:00 |
|
gperiodic
|
|
|
|
grappa
|
- Respect CC/CFLAGS
|
2013-12-20 13:27:13 +00:00 |
|
hmmer
|
Stage support
|
2013-12-30 18:08:14 +00:00 |
|
iolib
|
In preparation for making libtool generate libraries with a sane name, fix all
|
2013-12-11 14:43:51 +00:00 |
|
jalview
|
|
|
|
lagan
|
- Fix build
|
2013-11-27 13:16:47 +00:00 |
|
lamarc
|
- rename AL2 to APACHE20 in Mk/bsd.licenses.db.mk
|
2013-12-30 20:55:18 +00:00 |
|
libgenome
|
|
|
|
libsbml
|
In preparation for making libtool generate libraries with a sane name, fix all
|
2013-12-11 14:43:51 +00:00 |
|
linux-foldingathome
|
|
|
|
mafft
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
mapm3
|
|
|
|
migrate
|
|
|
|
molden
|
- USES=fortran gmake.
|
2013-12-29 14:30:20 +00:00 |
|
mopac
|
In preparation for making libtool generate libraries with a sane name, fix all
|
2013-12-11 14:43:51 +00:00 |
|
mrbayes
|
Support stage
|
2013-12-10 17:54:12 +00:00 |
|
mummer
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
muscle
|
|
|
|
ncbi-toolkit
|
|
|
|
njplot
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
ortep3
|
USES=fortran, fix LDFLAGS, staging.
|
2013-12-17 21:24:17 +00:00 |
|
p5-AcePerl
|
|
|
|
p5-Bio-ASN1-EntrezGene
|
- add stage support
|
2014-01-06 09:57:19 +00:00 |
|
p5-Bio-Das
|
- support stage
|
2014-01-05 12:07:20 +00:00 |
|
p5-Bio-Das-Lite
|
|
|
|
p5-Bio-GFF3
|
|
|
|
p5-Bio-Glite
|
- support stage
|
2014-01-05 12:07:20 +00:00 |
|
p5-Bio-Graphics
|
|
|
|
p5-Bio-MAGETAB
|
- Update to 1.28
|
2013-11-28 15:05:08 +00:00 |
|
p5-Bio-NEXUS
|
|
|
|
p5-Bio-Phylo
|
- support stage
|
2014-01-05 12:07:20 +00:00 |
|
p5-Bio-SCF
|
- add stage support
|
2014-01-06 09:44:19 +00:00 |
|
p5-bioperl
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
p5-bioperl-run
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
paml
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
phd2fasta
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
phrap
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
phred
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
phylip
|
|
|
|
phyml
|
|
|
|
platon
|
Version 2013.12.12, USES=fortran, staging.
|
2013-12-17 21:55:24 +00:00 |
|
plink
|
Fix the build with more standards-compliant compilers such as GCC 4.7. [1]
|
2013-12-13 09:34:40 +00:00 |
|
plinkseq
|
In preparation for making libtool generate libraries with a sane name, fix all
|
2013-12-11 14:43:51 +00:00 |
|
povchem
|
Convert to USES=dos2unix
|
2013-11-18 13:45:44 +00:00 |
|
primer3
|
|
|
|
protomol
|
In preparation for making libtool generate libraries with a sane name, fix all
|
2013-12-11 14:43:51 +00:00 |
|
psi88
|
USES=fortran, staging, miscellaneous cleanups.
|
2013-12-18 16:23:08 +00:00 |
|
py-biopython
|
|
|
|
pycogent
|
|
|
|
pyfasta
|
|
|
|
pymol
|
In preparation for making libtool generate libraries with a sane name, fix all
|
2013-12-11 14:43:51 +00:00 |
|
python-nexus
|
|
|
|
rasmol
|
|
|
|
recombine
|
|
|
|
ruby-bio
|
|
|
|
seaview
|
In preparation for making libtool generate libraries with a sane name, fix all
|
2013-12-11 14:43:51 +00:00 |
|
seqan
|
|
|
|
seqio
|
|
|
|
seqtools
|
biology/seqtools: update to 4.24
|
2013-12-24 17:23:23 +00:00 |
|
sim4
|
|
|
|
ssaha
|
|
|
|
t_coffee
|
USES=fortran, staging.
|
2013-12-18 17:24:51 +00:00 |
|
tinker
|
- biology/tinker: USES=fortran, staging.
|
2013-12-18 18:27:04 +00:00 |
|
treepuzzle
|
|
|
|
treeviewx
|
Stage support
|
2013-12-30 18:27:32 +00:00 |
|
tRNAscan-SE
|
|
|
|
ugene
|
|
|
|
velvet
|
Convert biology to MDOCS and MEXAMPLES
|
2014-01-03 15:46:52 +00:00 |
|
wise
|
|
|
|
xmolwt
|
|
|
|
Makefile
|
biology/seqtools: Tools for visualising sequence alignments
|
2013-11-10 11:01:02 +00:00 |
