Joseph Mingrone 3b7c3a4880 biology/diamond: Update to version 0.9.24 ... Port changes: Tune for package building based on the author's recommendation. Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.24		2018-12-31 19:00:00 +00:00
..
artemis
avida	Change cmake default behaviour to outsource.	2018-12-25 20:25:39 +00:00
babel
bamtools	Change cmake default behaviour to outsource.	2018-12-25 20:25:39 +00:00
bcftools
bedtools	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
biococoa
bowtie	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
bowtie2
bwa
canu	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
cd-hit	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
cdbfasta
checkm	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
chemeq
clustal-omega
clustalw
clustalx	Mark QT4 ports/functionality for removal on 2019-03-15	2018-12-02 15:41:47 +00:00
consed
cytoscape
ddocent	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
diamond	biology/diamond: Update to version 0.9.24	2018-12-31 19:00:00 +00:00
emboss
exonerate
fasta
fasta3
fastahack
fastdnaml
fastool
fastqc
fasttree	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
fastx-toolkit
fluctuate
freebayes	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
garlic
gatk	devel/gradle: Update to 5.0	2018-12-04 17:53:46 +00:00
gff2ps	biology/gff2ps: update 0.98d to 0.98l	2018-12-19 17:34:29 +00:00
gmap
gperiodic
grappa
groopm	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
hmmer
htslib
hyphy	Change cmake default behaviour to outsource.	2018-12-25 20:25:39 +00:00
igv	devel/gradle: Update to 5.0	2018-12-04 17:53:46 +00:00
infernal
iolib	Remove the incorrect typedefs to fix build on tier-2.	2018-11-05 19:45:23 +00:00
iqtree	biology/iqtree: switch to outsource cmake build	2018-12-27 18:34:44 +00:00
jalview
jellyfish	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
kallisto	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
lagan
lamarc
libgtextutils
libsbml	Change cmake default behaviour to outsource.	2018-12-25 20:25:39 +00:00
linux-foldingathome
mafft
mapm3
migrate
molden	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
mopac	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
mrbayes
mummer	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
muscle
ncbi-blast+	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
ncbi-cxx-toolkit	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
ncbi-toolkit	Fix build failure with base GCC because of double typedefs.	2018-11-05 19:47:42 +00:00
ngs-sdk
p5-AcePerl
p5-Bio-ASN1-EntrezGene
p5-Bio-Coordinate
p5-Bio-Das
p5-Bio-Das-Lite
p5-Bio-FeatureIO
p5-Bio-GFF3
p5-Bio-Glite
p5-Bio-Graphics
p5-Bio-MAGETAB
p5-Bio-NEXUS
p5-Bio-Phylo
p5-Bio-SCF
p5-BioPerl
p5-BioPerl-Run
p5-transdecoder	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
p5-TrimGalore
paml
pbbam	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
pbcopper	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
pbseqan
pear-merger
phrap
phred
phylip
phyml
plinkseq
primer3
protomol
psi88	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
py-biom-format	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
py-biopython	- Update to 1.73	2018-12-22 04:54:51 +00:00
py-bx-python	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
py-cutadapt
py-fastTSNE	New port: biology/py-fastTSNE: Fast, parallel implementations of t-SNE	2018-12-15 08:58:05 +00:00
py-Genesis-PyAPI
py-gffutils
py-gtfparse	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
py-loompy	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
py-macs2	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
py-orange3-bioinformatics	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
py-orange3-single-cell	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
py-pyfaidx
py-pysam
pycogent	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
pyfasta	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
python-nexus
rainbow
recombine
ruby-bio
rubygem-bio
samtools
seaview
seqan
seqan1
seqan-apps	Change cmake default behaviour to outsource.	2018-12-25 20:25:39 +00:00
seqio
seqtk
seqtools	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
sim4
slclust
smithwaterman
stacks	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
stringtie
t_coffee	Bump PORTREVISION for ports depending on the canonical version of GCC	2018-12-12 01:35:33 +00:00
tabixpp
treepuzzle
trimadap
trimmomatic
tRNAscan-SE
ugene	Update Qt5 to 5.12.0	2018-12-16 14:49:16 +00:00
unanimity	Change cmake default behaviour to outsource.	2018-12-25 20:25:39 +00:00
vcflib
vcftools
velvet
wise
Makefile	Remove expired ports:	2018-12-21 13:19:02 +00:00