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freebsd-ports/biology
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Mark Linimon ebb1ae8d2b Mark as broken on powerpc64. The entire, unhelpful, error message is: 
# gmake[2]: Leaving directory '/wrkdirs/usr/ports/biology/ncbi-blast+/work/ncbi-blast-2.5.0+-src/c++/ReleaseMT/build'
# gmake[1]: *** [Makefile:24: all] Error 2

Approved by:	portmgr (tier-2 blanket)
2018-06-03 11:14:53 +00:00
..
ariadne Deprecate ports broken for more than 6 months 2018-05-05 10:49:36 +00:00
artemis
avida
babel
bamtools biology/bamtools: API and toolkit for handling BAM files 2018-03-28 13:26:31 +00:00
bcftools
bedtools biology/bedtools: Upgrade to 2.27.1 2018-04-19 16:44:59 +00:00
biococoa
blat
bowtie
bowtie2
bwa
canu biology/canu: Upgrade to 1.7 release 2018-04-26 04:16:15 +00:00
cd-hit
cdbfasta
chemeq
clustal-omega biology/clustal-omega: Multiple alignment of nucleic acid and protein, replaces clustalw 2018-05-21 22:15:26 +00:00
clustalw biology/clustalw: Fix license, take maintainership 2018-05-21 01:13:40 +00:00
clustalx biology/clustalx: Multiple alignment of nucleic acid and protein sequences with GUI 2018-05-21 20:56:17 +00:00
consed
crux Deprecate ports broken for more than 6 months 2018-05-05 10:49:36 +00:00
ddocent biology/ddocent: Bash pipeline for RAD sequencing 2018-04-20 01:34:05 +00:00
diamond biology/diamond: Update to version 0.9.22 2018-05-14 17:17:11 +00:00
emboss
fasta
fasta3
fastahack biology/fastahack: Utility for indexing and sequence extraction from FASTA files 2018-04-16 14:50:46 +00:00
fastdnaml
fastool
fastqc
fasttree
fastx-toolkit biology/fastx-toolkit: Fix build on FreeBSD 12 2018-05-16 15:13:43 +00:00
fluctuate
freebayes biology/freebayes: Bayesian haplotype-based polymorphism discovery and genotyping 2018-04-20 00:07:27 +00:00
garlic
gff2ps
gmap
gperiodic
grappa
hmmer
htslib
hyphy biology/hyphy: Update to version 2.3.13 2018-05-22 22:55:18 +00:00
iolib
iqtree biology/iqtree: Update to version 1.6.5 2018-05-11 16:57:09 +00:00
jalview
jellyfish
kallisto Adjust USES to fix building on gcc-based archs (in particular, powerpc64). 2018-06-02 19:40:59 +00:00
lagan
lamarc
libgtextutils biology/libgtextutils: Unbreak for FreeBSD 12 2018-03-29 15:41:07 +00:00
libsbml
linux-foldingathome
mafft
mapm3
migrate
molden biolog/molden: unbreak after at least two intransparent distfile updates 2018-05-20 21:41:57 +00:00
mopac
mrbayes
mummer
muscle
ncbi-blast+ Mark as broken on powerpc64. The entire, unhelpful, error message is: 2018-06-03 11:14:53 +00:00
ncbi-toolkit
njplot
p5-AcePerl Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-ASN1-EntrezGene Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-Coordinate Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-Das Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-Das-Lite Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-FeatureIO Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-GFF3 Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-Glite Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-Graphics Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-MAGETAB Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-NEXUS Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-Phylo Update WWW 2018-05-27 20:15:16 +00:00
p5-Bio-SCF Update WWW 2018-05-27 20:15:16 +00:00
p5-BioPerl
p5-BioPerl-Run
p5-transdecoder
p5-TrimGalore
paml biology/paml: Set PORTVERSION directly 2018-04-26 15:36:30 +00:00
pbbam biology/pbbam: PacBio BAM C++ library, with SWIG bindings 2018-04-23 16:08:21 +00:00
pbcopper biology/pbcopper: Core C++ library for Pacific Biosciences tools 2018-04-23 16:23:53 +00:00
pbseqan biology/pbseqan: Pacific Biosciences patched and stripped down SeqAn 2018-04-21 17:21:30 +00:00
pear-merger biology/pear-merger: Memory-efficient and accurate paired-end read merger 2018-04-04 17:21:39 +00:00
phrap
phred
phylip
phyml - Update to 3.3.20180214 2018-05-15 03:17:54 +00:00
plink Deprecate ports broken for more than 6 months 2018-05-05 10:49:36 +00:00
plinkseq
primer3
protomol
psi88
py-biom-format
py-biopython biology/py-biopython: Unbreak on python3; Add license 2018-05-13 22:30:00 +00:00
py-bx-python
py-cutadapt Switch all pypi.python.org WWWs to a new PyPi home pypi.org where 2018-04-25 16:42:37 +00:00
py-macs2
py-pysam Switch all pypi.python.org WWWs to a new PyPi home pypi.org where 2018-04-25 16:42:37 +00:00
pycogent
pyfasta
python-nexus - Update to 1.61 2018-04-01 11:52:08 +00:00
rainbow biology/rainbow: Efficient clustering and assembling of short reads 2018-04-02 16:50:46 +00:00
recombine
ruby-bio
rubygem-bio
samtools
seaview biology/seaview: Update version 4.6.3=>4.6.5 2018-04-24 12:31:32 +00:00
seqan
seqan1
seqan-apps devel/boost-*: update to 1.67.0 2018-04-18 13:57:42 +00:00
seqio
seqtk biology/seqtk: Tool for processing sequences in FASTA/FASTQ format 2018-04-03 20:57:05 +00:00
seqtools
sim4
slclust
smithwaterman biology/smithwaterman: Smith-waterman-gotoh alignment algorithm 2018-04-15 17:45:52 +00:00
ssaha Deprecate ports broken for more than 6 months 2018-05-05 10:49:36 +00:00
stacks biology/stacks: Software pipeline for building loci from short-read sequences 2018-03-31 13:16:05 +00:00
t_coffee
tabixpp biology/tabixpp: C++ wrapper to tabix indexer 2018-04-14 23:52:16 +00:00
tinker
treepuzzle
trimadap biology/trimadap: Trim adapter sequences from Illumina data 2018-04-03 18:23:54 +00:00
trimmomatic
tRNAscan-SE Deprecate ports broken for more than 6 months 2018-05-05 10:49:36 +00:00
ugene Add upstream patch to fix the build with Qt 5.10. 2018-05-15 18:51:51 +00:00
unanimity biology/unanimity: Pacific Biosciences consensus library and applications 2018-04-24 14:16:46 +00:00
vcflib biology/vcflib: C++ library and CLI tools for parsing and manipulating VCF files 2018-04-17 03:11:39 +00:00
vcftools
velvet
wise
xmolwt
Makefile biology/clustal-omega: Multiple alignment of nucleic acid and protein, replaces clustalw 2018-05-21 22:15:26 +00:00