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freebsd-ports/biology
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Piotr Kubaj 488e433066 biology/hhsuite: fix build on powerpc64 
This port can't use Altivec. Instead, it's possible to use GCC's translation layer from SSE. Adjust build flags to do it.

PR:		239645
Approved by:	yuri (maintainer), tcberner (mentor)
Differential Revision:	https://reviews.freebsd.org/D21160
2019-08-05 14:23:23 +00:00
..
abyss Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
artemis
avida
babel
bamtools
bcftools
bedtools Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
biococoa
bolt-lmm PR: 239613 2019-08-04 23:48:22 +00:00
bowtie Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
bowtie2
bwa
canu Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
cd-hit Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
cdbfasta
checkm Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
chemeq Mark BROKEN: unfetchable 2019-08-04 08:31:22 +00:00
clustal-omega
clustalw
consed
cufflinks biology/cufflinks: Fix build on i386 by removing the hard-coded -m64 2019-05-29 07:02:28 +00:00
cytoscape
ddocent Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
diamond biology/diamond: Update to version 0.9.25 2019-08-04 23:35:15 +00:00
dsr-pdb Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
emboss
exonerate
fasta
fasta3
fastahack
fastdnaml
fastool
fastp Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
fastqc
fasttree Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
fastx-toolkit
figtree
fluctuate
freebayes Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
garlic
gatk biology/gatk: Update 4.0.11.0 -> 4.1.2.0-43 2019-07-26 18:03:08 +00:00
gemma Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
gff2ps
gmap Enable workaround for building on powerpc64. 2019-06-21 11:15:08 +00:00
gperiodic Mark BROKEN: unfetchable 2019-08-04 08:31:22 +00:00
graphlan
grappa
groopm Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
hhsuite biology/hhsuite: fix build on powerpc64 2019-08-05 14:23:23 +00:00
hisat2
hmmer Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
htslib
hyphy Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
igv biology/igv: Update 2.5.2 -> 2.5.3 2019-06-01 20:49:20 +00:00
infernal
iolib
iqtree Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
jalview
jellyfish Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
kallisto Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
lagan
lamarc
libbigwig New port: biology/libbigwig: C library for handling bigWig files (containing genomic data) 2019-07-11 17:05:22 +00:00
libgtextutils
libsbml Use USES=pathfix 2019-06-22 21:48:14 +00:00
linux-foldingathome Mark BROKEN: unfetchable 2019-08-04 08:31:22 +00:00
mafft
mapm3
migrate
minimap2
molden Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
mopac Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
mothur Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
mrbayes
mummer Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
muscle
ncbi-blast+ Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
ncbi-cxx-toolkit Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
ncbi-toolkit Update security/nettle to 3.5.1 2019-07-09 17:13:07 +00:00
ngs-sdk Mark this port as not buildable on powerpc64: 2019-06-25 12:17:04 +00:00
p5-AcePerl
p5-Bio-ASN1-EntrezGene
p5-Bio-Cluster
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 2019-07-26 20:46:53 +00:00
p5-TrimGalore
paml
pbbam Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
pbcopper Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
pbseqan
pear-merger
phrap
phred
phylip
phyml
plinkseq
primer3
prodigal
prodigy-lig Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
protomol
psi88 Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
py-biom-format Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
py-biopython Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
py-bx-python Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
py-cutadapt
py-dnaio
py-fastTSNE Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
py-Genesis-PyAPI
py-gffutils
py-gtfparse Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
py-loompy Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
py-macs2 Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
py-orange3-bioinformatics Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
py-orange3-single-cell Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
py-pyfaidx
py-pysam
py-xenaPython
pycogent Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
pyfasta Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
python-nexus
rainbow
recombine
ruby-bio
rubygem-bio
samtools
seaview
seqan
seqan1
seqan-apps Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
seqio
seqtk
seqtools Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
sim4
slclust
smithwaterman
stacks Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
star Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
stringtie
t_coffee Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
tabixpp
treekin Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
treepuzzle
trimadap
trimmomatic
tRNAscan-SE biology/tRNAscan-SE: Update to 2.0.3 2019-06-08 01:31:18 +00:00
ugene
unanimity Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
vcflib
vcftools
velvet
viennarna Bump PORTREVISION for ports depending on the canonical version of GCC 2019-07-26 20:46:53 +00:00
vsearch
wise
Makefile New port: biology/libbigwig: C library for handling bigWig files (containing genomic data) 2019-07-11 17:05:22 +00:00