Work-in-progress FreeBSD ports
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1dmean All ports: Remove obsolete comments Feb 28, 2018
1dregression All ports: Remove obsolete comments Feb 28, 2018
Misc Misc/submit-checklist.txt: Clean up Oct 23, 2018
R-cran-ape All ports: Remove obsolete comments Feb 28, 2018
R-cran-getopt All ports: Remove obsolete comments Feb 28, 2018
R-cran-lattice All ports: Remove obsolete comments Feb 28, 2018
R-cran-mclust All ports: Remove obsolete comments Feb 28, 2018
R-cran-metagenomeseq All ports: Remove obsolete comments Feb 28, 2018
R-cran-optparse R-cran-optparse: Fix plist Jul 31, 2018
R-cran-permute All ports: Remove obsolete comments Feb 28, 2018
R-cran-vegan All ports: Remove obsolete comments Feb 28, 2018
R-studio All ports: Remove obsolete comments Feb 28, 2018
TLv All ports: Remove obsolete comments Feb 28, 2018
abinit All ports: Remove obsolete comments Feb 28, 2018
abyss abyss: Disable ghc if preinstalled to prevent build error Jun 10, 2018
afni-2012-04-17 Silence all MKDIRs May 30, 2018
afni-2015-11-13 Silence all MKDIRs May 30, 2018
afni Silence all MKDIRs May 30, 2018
alberta All ports: Remove obsolete comments Feb 28, 2018
amr-cli Silence all MKDIRs May 30, 2018
angora All ports: Remove obsolete comments Feb 28, 2018
ape ape: DOCS option Oct 7, 2018
apt Silence all MKDIRs May 30, 2018
ascecho All ports: Remove obsolete comments Feb 28, 2018
atomistix-installer Silence all MKDIRs May 30, 2018
auto-admin auto-admin: auto-pkgsrc-setup: Disable GCC minimum for NetBSD Oct 22, 2018
bamtools bamtools: Add better descr Mar 28, 2018
beast-mcmc All ports: Remove obsolete comments Feb 28, 2018
beast2 All ports: Remove obsolete comments Feb 28, 2018
bedops All ports: Remove obsolete comments Feb 28, 2018
bedtools bedtools: Fix to respect PREFIX Jun 15, 2018
bench All ports: Remove obsolete comments Feb 28, 2018
bioimagesuite-2.5 All ports: Remove obsolete comments Feb 28, 2018
bioimagesuite-devel All ports: Remove obsolete comments Feb 28, 2018
bioimagesuite All ports: Remove obsolete comments Feb 28, 2018
blacs Silence all MKDIRs May 30, 2018
blasr-cmake blasr-cmake: Add cmake args May 1, 2018
blasr blasr: Fix git tag in build May 1, 2018
blasr_libcpp Silence all MKDIRs May 30, 2018
boinc-client Silence all MKDIRs May 30, 2018
bolt-lmm All ports: Remove obsolete comments Feb 28, 2018
bowtie-devel Silence all MKDIRs May 30, 2018
bowtie Silence all MKDIRs May 30, 2018
bowtie2 Silence all MKDIRs May 30, 2018
brainvox-devel All ports: Remove obsolete comments Feb 28, 2018
busco All ports: Remove obsolete comments Feb 28, 2018
ca_root_nss ca_root_nss: Add wip category Jun 1, 2018
cadx All ports: Remove obsolete comments Feb 28, 2018
caffe All ports: Remove obsolete comments Feb 28, 2018
canu-devel canu-devel: Update to latest commit Aug 8, 2018
canu canu: More slurm controls, update to 1.7.1 Jun 19, 2018
caret Silence all MKDIRs May 30, 2018
celera All ports: Remove obsolete comments Feb 28, 2018
centrifuge centrifuge: Successfull build and generate plist Jul 22, 2018
cereal cereal: Add boost-libs dep Sep 11, 2018
ceres-solver All ports: Remove obsolete comments Feb 28, 2018
cgal Silence all MKDIRs May 30, 2018
chipseq-peakcalling All ports: Remove obsolete comments Feb 28, 2018
cluster-admin cluster-admin: Clean up Oct 5, 2018
cogent All ports: Remove obsolete comments Feb 28, 2018
collectl All ports: Remove obsolete comments Feb 28, 2018
condor-devel condor-devel: Dev branch of HTCondor Jul 8, 2018
condor condor: Upgrade to latest release Jul 8, 2018
cosmos-wfm All ports: Remove obsolete comments Feb 28, 2018
cpat All ports: Remove obsolete comments Feb 28, 2018
cpuflags cpuflags: Add gcc dep to silence failure May 7, 2018
cross-binutils All ports: Remove obsolete comments Feb 28, 2018
cross-gcc Silence all MKDIRs May 30, 2018
cufflinks-devel All ports: Remove obsolete comments Feb 28, 2018
cufflinks All ports: Remove obsolete comments Feb 28, 2018
cups cups: Add wip category Jun 15, 2018
cutecom cutecom: Fix distinfo Jun 27, 2018
daligner-old daligner-old: Save as reference until new daligner is tested May 1, 2018
daligner daligner: Patch to install lib for pbdagcon separate install May 1, 2018
dazz_db-old dazz_db-old: Save for reference until new dazz_db is tested May 1, 2018
dazz_db dazz_db: Add CFLAGS to makefile patch May 1, 2018
dbus dbus: Add wip category Jun 15, 2018
ddclone All ports: Remove obsolete comments Feb 28, 2018
ddocent ddocent: Clean up Jul 8, 2018
desktop-installer p5-transdecoder: Remove following commit Oct 23, 2018
detab All ports: Remove obsolete comments Feb 28, 2018
detonate All ports: Remove obsolete comments Feb 28, 2018
diskimage-tools diskimage-tools: Clean up Mar 1, 2018
docbook2odf All ports: Remove obsolete comments Feb 28, 2018
docviewer All ports: Remove obsolete comments Feb 28, 2018
dolfin dolfin: Remove parallel dependencies for now Feb 16, 2018
domainmath All ports: Remove obsolete comments Feb 28, 2018
dosu All ports: Remove obsolete comments Feb 28, 2018
dri All ports: Remove obsolete comments Feb 28, 2018
dtiquery All ports: Remove obsolete comments Feb 28, 2018
dvdformat All ports: Remove obsolete comments Feb 28, 2018
ea-utils All ports: Remove obsolete comments Feb 28, 2018
edirect edirect: REALLY add test script Jul 11, 2018
eigensoft All ports: Remove obsolete comments Feb 28, 2018
einstein-brp All ports: Remove obsolete comments Feb 28, 2018
endian All ports: Remove obsolete comments Feb 28, 2018
epacts epacts: Fix portversion Apr 1, 2018
epc All ports: Remove obsolete comments Feb 28, 2018
espresso Silence all MKDIRs May 30, 2018
external-ip external-ip: Clean up Oct 3, 2018
ezquota All ports: Remove obsolete comments Feb 28, 2018
famsa famsa: Comment on memset issue Aug 1, 2018
fastaunique fastuniq: Clean up Apr 1, 2018
fastphase All ports: Remove obsolete comments Feb 28, 2018
fastq-join All ports: Remove obsolete comments Feb 28, 2018
fastqc fastqc: Upgrade to 0.11.8 Oct 5, 2018
fastx-toolkit clustal[wx]: Add poudriere logs May 21, 2018
ffmap All ports: Remove obsolete comments Feb 28, 2018
ffnhfilter All ports: Remove obsolete comments Feb 28, 2018
ffsectorstats All ports: Remove obsolete comments Feb 28, 2018
fixperms All ports: Remove obsolete comments Feb 28, 2018
flair All ports: Remove obsolete comments Feb 28, 2018
flann All ports: Remove obsolete comments Feb 28, 2018
flashplayer-c7 nspluginwrapper-c7: c7 dep for pkg upgrade Aug 30, 2018
flex Move from /usr/wip/category/* to /usr/ports/wip/* Jun 16, 2017
freebayes-rolled freebayes-rolled: Save port with rolled distfile until GH_TUPLE works Apr 17, 2018
freerdp All ports: Remove obsolete comments Feb 28, 2018
freesurfer freesurfer: Just exploring the latest Dec 6, 2017
fsl Silence all MKDIRs May 30, 2018
fvcom-openmpi All ports: Remove obsolete comments Feb 28, 2018
fvcom Silence all MKDIRs May 30, 2018
fvcom3 All ports: Remove obsolete comments Feb 28, 2018
fvcom4 Silence all MKDIRs May 30, 2018
galaxy Silence all MKDIRs May 30, 2018
gatk-queue All ports: Remove obsolete comments Feb 28, 2018
gatk Silence all MKDIRs May 30, 2018
gcta Silence all MKDIRs May 30, 2018
gdc-download All ports: Remove obsolete comments Feb 28, 2018
ginkgocadx ginkgocadx: DICOM viewer Jun 4, 2018
globus-toolkit All ports: Remove obsolete comments Feb 28, 2018
gmap All ports: Remove obsolete comments Feb 28, 2018
gnutime All ports: Remove obsolete comments Feb 28, 2018
gsflow All ports: Remove obsolete comments Feb 28, 2018
gtk30 All ports: Remove obsolete comments Feb 28, 2018
haploview Silence all MKDIRs May 30, 2018
hapmix All ports: Remove obsolete comments Feb 28, 2018
hilbplug2ffmap All ports: Remove obsolete comments Feb 28, 2018
hisat2 hisat2: Upgrade to latest Jul 11, 2018
htsjdk-1.133 All ports: Remove obsolete comments Feb 28, 2018
htsjdk All ports: Remove obsolete comments Feb 28, 2018
huang-pipeline1 All ports: Remove obsolete comments Feb 28, 2018
hwloc-debug hwloc-debug: New patch that appears to fix the issue Feb 22, 2018
igv All ports: Remove obsolete comments Feb 28, 2018
inchworm All ports: Remove obsolete comments Feb 28, 2018
incrna All ports: Remove obsolete comments Feb 28, 2018
infernal All ports: Remove obsolete comments Feb 28, 2018
infernal102 All ports: Remove obsolete comments Feb 28, 2018
isoseq3 nspluginwrapper-c7: c7 dep for pkg upgrade Aug 30, 2018
jellyfish All ports: Remove obsolete comments Feb 28, 2018
kallisto kallisto: Test 0.44.0 Oct 18, 2018
klustakwik All ports: Remove obsolete comments Feb 28, 2018
kwwidgets All ports: Remove obsolete comments Feb 28, 2018
lammps-devel Silence all MKDIRs May 30, 2018
lammps-openmpi All ports: Remove obsolete comments Feb 28, 2018
lammps Silence all MKDIRs May 30, 2018
lammps2014-05-24 Silence all MKDIRs May 30, 2018
ldsc Silence all MKDIRs May 30, 2018
lensnns-devel Silence all MKDIRs May 30, 2018
libbacon All ports: Remove obsolete comments Feb 28, 2018
libccmio All ports: Remove obsolete comments Feb 28, 2018
libctl All ports: Remove obsolete comments Feb 28, 2018
libffmap All ports: Remove obsolete comments Feb 28, 2018
libgamepad All ports: Remove obsolete comments Feb 28, 2018
liblemon All ports: Remove obsolete comments Feb 28, 2018
libnxt Silence all MKDIRs May 30, 2018
libpare All ports: Remove obsolete comments Feb 28, 2018
libzeep libzeep: Generate plist Jul 24, 2018
lilyterm lilyterm: Upgrade to latest commit, default to UTF-8 Jun 22, 2018
links-genomics links-genomics: Long Interval Nucleotide K-mer Scaffolder Jun 10, 2018
linux-apt Silence all MKDIRs May 30, 2018
linux-bedops All ports: Remove obsolete comments Feb 28, 2018
linux-birdsuite All ports: Remove obsolete comments Feb 28, 2018
linux-c6-GConf2 All ports: Remove obsolete comments Feb 28, 2018
linux-c6-ORBit2 All ports: Remove obsolete comments Feb 28, 2018
linux-c6-ksh linux-c6-ksh: ksh93 Aug 21, 2018
linux-c6-libudev All ports: Remove obsolete comments Feb 28, 2018
linux-c6-mksh linux-c6-mksh: Clean up Aug 21, 2018
linux-c6-ncurses-base linux-ncurses: Update version Aug 27, 2018
linux-c6-openmpi Silence all MKDIRs May 30, 2018
linux-c6-saleae-logic Silence all MKDIRs May 30, 2018
linux-c7-flashplayer nspluginwrapper-c7: c7 dep for pkg upgrade Aug 30, 2018
linux-gcta Silence all MKDIRs May 30, 2018
linux-ls-dyna-10 linux-ls-dyna-{9,10}: Clean up Feb 22, 2018
linux-ls-dyna-9 linux-ls-dyna-{9,10}: Clean up Feb 22, 2018
linux-signalp Silence all MKDIRs May 30, 2018
linux-snptest linux-snptest: Clearer way to disable strip during install Jun 8, 2018
linux-sratools Silence all MKDIRs May 30, 2018
linux-tmhmm Silence all MKDIRs May 30, 2018
linux-usearch-5.2.236 All ports: Remove obsolete comments Feb 28, 2018
linux-usearch-6.1 All ports: Remove obsolete comments Feb 28, 2018
linux-usearch-9.2 All ports: Remove obsolete comments Feb 28, 2018
makedepf90 All ports: Remove obsolete comments Feb 28, 2018
marvel marvel: Update dep following py-networkx commit Aug 25, 2018
matlab-installer matlab-installer: Test 2018a May 21, 2018
mbl-bpc-scripts Silence all MKDIRs May 30, 2018
mcc18-wrapper Silence all MKDIRs May 30, 2018
mcl mcl: Fast and scalable unsupervised cluster algorithm for graphs Jul 22, 2018
mcwscripts Silence all MKDIRs May 30, 2018
meep All ports: Remove obsolete comments Feb 28, 2018
megahit megahit: Mark only for amd64 and powerpc64 Jul 29, 2018
meme All ports: Remove obsolete comments Feb 28, 2018
merlin All ports: Remove obsolete comments Feb 28, 2018
metal metal: Clean up Apr 23, 2018
microbiomeutil Silence all MKDIRs May 30, 2018
miva All ports: Remove obsolete comments Feb 28, 2018
mkcolor3_caret_fim All ports: Remove obsolete comments Feb 28, 2018
modules modules: Add version.inc Jul 25, 2018
moltemplate Silence all MKDIRs May 30, 2018
mothur-1.36 mothur-1.36: Save working version before major changes Jul 2, 2018
mothur Clean up Jul 6, 2018
moware All ports: Remove obsolete comments Feb 28, 2018
mpb-openmpi All ports: Remove obsolete comments Feb 28, 2018
mpb All ports: Remove obsolete comments Feb 28, 2018
mpi-bench All ports: Remove obsolete comments Feb 28, 2018
mriadmin All ports: Remove obsolete comments Feb 28, 2018
mricro All ports: Remove obsolete comments Feb 28, 2018
mricron All ports: Remove obsolete comments Feb 28, 2018
mritools Silence all MKDIRs May 30, 2018
mshr mshr: Successful build and install Feb 15, 2018
mtr-current Move from /usr/wip/category/* to /usr/ports/wip/* Jun 16, 2017
mtr-graph Move from /usr/wip/category/* to /usr/ports/wip/* Jun 16, 2017
mumps-openmpi All ports: Remove obsolete comments Feb 28, 2018
mumps Silence all MKDIRs May 30, 2018
mutect All ports: Remove obsolete comments Feb 28, 2018
mvapich2 All ports: Remove obsolete comments Feb 28, 2018
ncbi-blast+ ncbi-blast+: Patch Makefile.in.top for destdir support Mar 27, 2018
nco All ports: Remove obsolete comments Feb 28, 2018
ncview All ports: Remove obsolete comments Feb 28, 2018
ngs All ports: Remove obsolete comments Feb 28, 2018
nifticlib All ports: Remove obsolete comments Feb 28, 2018
nonmritools Silence all MKDIRs May 30, 2018
nspluginwrapper-c7 nspluginwrapper-c7: c7 dep for pkg upgrade Aug 30, 2018
ofed All ports: Remove obsolete comments Feb 28, 2018
openconnect openconnect: Fix options Sep 18, 2018
openfoam Silence all MKDIRs May 30, 2018
openfoam301 Silence all MKDIRs May 30, 2018
openfoam4 Silence all MKDIRs May 30, 2018
openkim All ports: Remove obsolete comments Feb 28, 2018
openkim111 Silence all MKDIRs May 30, 2018
openlb All ports: Remove obsolete comments Feb 28, 2018
openmvg All ports: Remove obsolete comments Feb 28, 2018
openmvs All ports: Remove obsolete comments Feb 28, 2018
openvex All ports: Remove obsolete comments Feb 28, 2018
p5-fasta-splitter Silence all MKDIRs May 30, 2018
p5-pfamscan Silence all MKDIRs May 30, 2018
papp All ports: Remove obsolete comments Feb 28, 2018
parafly parafly: Switch to Github Oct 12, 2018
paraview submit-checklist: Add notes from @mat Jun 27, 2018
parmcgridgen All ports: Remove obsolete comments Feb 28, 2018
parmetis All ports: Remove obsolete comments Feb 28, 2018
patchworks All ports: Remove obsolete comments Feb 28, 2018
pbdagcon pbdagcon: Fix python path in configure.py May 1, 2018
pbs-scripts All ports: Remove obsolete comments Feb 28, 2018
pedstats All ports: Remove obsolete comments Feb 28, 2018
picard-tools-1.133 All ports: Remove obsolete comments Feb 28, 2018
picard-tools Silence all MKDIRs May 30, 2018
plasm All ports: Remove obsolete comments Feb 28, 2018
plink19 Organize plink versions May 4, 2018
plink2 plink2: Document Makefile.generic Jun 27, 2018
plinkseq All ports: Remove obsolete comments Feb 28, 2018
polkit polkit: Add wip category Jun 15, 2018
port-dev port-dev: port-diff: Restore Makefile properly Jun 27, 2018
prodigal prodigal: Clean up Makefile patch Jul 25, 2018
py-anvio py-anvio: Add famsa dep Jul 24, 2018
py-auto-sklearn py-auto-sklearn: Python required 3+ Jul 20, 2018
py-biom-format All ports: Remove obsolete comments Feb 28, 2018
py-biom-format131 All ports: Remove obsolete comments Feb 28, 2018
py-burrito-fillings All ports: Remove obsolete comments Feb 28, 2018
py-burrito All ports: Remove obsolete comments Feb 28, 2018
py-bx All ports: Remove obsolete comments Feb 28, 2018
py-cdna-primer Silence all MKDIRs May 30, 2018
py-ceas All ports: Remove obsolete comments Feb 28, 2018
py-consensuscore All ports: Remove obsolete comments Feb 28, 2018
py-constants All ports: Remove obsolete comments Feb 28, 2018
py-cpac All ports: Remove obsolete comments Feb 28, 2018
py-cpat All ports: Remove obsolete comments Feb 28, 2018
py-dijitso FEniCS: Force all modules to python 3.6 as dolfin requires it Feb 14, 2018
py-drmaa All ports: Remove obsolete comments Feb 28, 2018
py-ectools Silence all MKDIRs May 30, 2018
py-eggnog-mapper py-eggnog-mapper: Fast functional annotation of novel DNA or protein … Jul 22, 2018
py-emperor All ports: Remove obsolete comments Feb 28, 2018
py-ete3 py-ete3: Note about pyqt dep Jul 20, 2018
py-fenics py-fenics: Add mshr and matplotlib dependencies Feb 15, 2018
py-ffc py-ffc: Add other FEniCS modules as depends Feb 15, 2018
py-fiat FEniCS ports: Clean up and add deps to dolfin Feb 14, 2018
py-gdc-client All ports: Remove obsolete comments Feb 28, 2018
py-gemtools Patch out explicit inline Oct 10, 2018
py-gensim All ports: Remove obsolete comments Feb 28, 2018
py-healpy All ports: Remove obsolete comments Feb 28, 2018
py-hgapi All ports: Remove obsolete comments Feb 28, 2018
py-hostlist All ports: Remove obsolete comments Feb 28, 2018
py-htseq py-htseq: Clean up Apr 2, 2018
py-idr All ports: Remove obsolete comments Feb 28, 2018
py-illumina-utils py-illumina-utils: Require python3 Jul 27, 2018
py-instant FEniCS: Force all modules to python 3.6 as dolfin requires it Feb 14, 2018
py-intervaltree All ports: Remove obsolete comments Feb 28, 2018
py-klustakwik2 All ports: Remove obsolete comments Feb 28, 2018
py-klustaviewa All ports: Remove obsolete comments Feb 28, 2018
py-kwiklib All ports: Remove obsolete comments Feb 28, 2018
py-libstempo All ports: Remove obsolete comments Feb 28, 2018
py-meep All ports: Remove obsolete comments Feb 28, 2018
py-moa All ports: Remove obsolete comments Feb 28, 2018
py-mpi4py-mpich Move from /usr/wip/category/* to /usr/ports/wip/* Jun 16, 2017
py-mpi4py-openmpi Silence all MKDIRs May 30, 2018
py-networkx py-networkx: Upgrade to 2.1 Jul 17, 2018
py-nibabel All ports: Remove obsolete comments Feb 28, 2018
py-oligotyping All ports: Remove obsolete comments Feb 28, 2018
py-omics-pipe All ports: Remove obsolete comments Feb 28, 2018
py-parameters All ports: Remove obsolete comments Feb 28, 2018
py-parcel-devel Silence all MKDIRs May 30, 2018
py-parcel All ports: Remove obsolete comments Feb 28, 2018
py-pbcommand All ports: Remove obsolete comments Feb 28, 2018
py-pbcore091 All ports: Remove obsolete comments Feb 28, 2018
py-pbfalcon All ports: Remove obsolete comments Feb 28, 2018
py-pbh5tools All ports: Remove obsolete comments Feb 28, 2018
py-picrust All ports: Remove obsolete comments Feb 28, 2018
py-pynast All ports: Remove obsolete comments Feb 28, 2018
py-pypeflow All ports: Remove obsolete comments Feb 28, 2018
py-pyqi All ports: Remove obsolete comments Feb 28, 2018
py-pysam All ports: Remove obsolete comments Feb 28, 2018
py-q2-deblur All ports: Remove obsolete comments Feb 28, 2018
py-q2-feature-classifier All ports: Remove obsolete comments Feb 28, 2018
py-q2-vsearch All ports: Remove obsolete comments Feb 28, 2018
py-qcli-0.1.0 All ports: Remove obsolete comments Feb 28, 2018
py-qcli All ports: Remove obsolete comments Feb 28, 2018
py-qiime-1.8.0 All ports: Remove obsolete comments Feb 28, 2018
py-qiime-default-reference All ports: Remove obsolete comments Feb 28, 2018
py-qiime All ports: Remove obsolete comments Feb 28, 2018
py-qiime2 All ports: Remove obsolete comments Feb 28, 2018
py-qtools All ports: Remove obsolete comments Feb 28, 2018
py-rdfextras All ports: Remove obsolete comments Feb 28, 2018
py-rdflib340 All ports: Remove obsolete comments Feb 28, 2018
py-ruffus All ports: Remove obsolete comments Feb 28, 2018
py-scikit-bio-0.2.3 All ports: Remove obsolete comments Feb 28, 2018
py-scikit-bio py-scikit-bio: Latest release Jul 20, 2018
py-snakemake py-snakemake: Workflow manager Jul 20, 2018
py-spikedetekt2 All ports: Remove obsolete comments Feb 28, 2018
py-stop-words All ports: Remove obsolete comments Feb 28, 2018
py-sumatra All ports: Remove obsolete comments Feb 28, 2018
py-ufl FEniCS ports: Clean up and add deps to dolfin Feb 14, 2018
py-wwwparcel All ports: Remove obsolete comments Feb 28, 2018
py-xopen py-xopen: Clean up Jul 7, 2018
radiance Silence all MKDIRs May 30, 2018
rapid Silence all MKDIRs May 30, 2018
rarefactionanalyzer rarefactionanalyzer, resistomeanalyzer: Switch to PORTVERSION to allo… Mar 9, 2018
rdp-classifier-2.2 Silence all MKDIRs May 30, 2018
rdp-classifier Silence all MKDIRs May 30, 2018
remountnfs All ports: Remove obsolete comments Feb 28, 2018
resistomeanalyzer rarefactionanalyzer, resistomeanalyzer: Switch to PORTVERSION to allo… Mar 9, 2018
rnammer Silence all MKDIRs May 30, 2018
rnaseq-readmapping-featurecounting All ports: Remove obsolete comments Feb 28, 2018
roboctl All ports: Remove obsolete comments Feb 28, 2018
rsem-devel All ports: Remove obsolete comments Feb 28, 2018
rsem rsem: Clean up Sep 1, 2018
rsem1228 All ports: Remove obsolete comments Feb 28, 2018
rstudio All ports: Remove obsolete comments Feb 28, 2018
rtax Silence all MKDIRs May 30, 2018
sage All ports: Remove obsolete comments Feb 28, 2018
sailfish sailfish: Add jellyfish dep May 5, 2018
salmon salmon: Remove remaining build-phase downloads and pass poudriere test Sep 11, 2018
samtools0119 Silence all MKDIRs May 30, 2018
scotch-openmpi All ports: Remove obsolete comments Feb 28, 2018
scotch Silence all MKDIRs May 30, 2018
scythe All ports: Remove obsolete comments Feb 28, 2018
seqkit All ports: Remove obsolete comments Feb 28, 2018
seqlib seqlib: Add many more headers for freebayes Mar 23, 2018
seqprep Silence all MKDIRs May 30, 2018
seqtk seqtk: Upgrade to 1.3 Jun 20, 2018
setfg All ports: Remove obsolete comments Feb 28, 2018
sickle All ports: Remove obsolete comments Feb 28, 2018
siesta All ports: Remove obsolete comments Feb 28, 2018
simpleburn simpleburn: Update to latest 1.8.3.1 Aug 6, 2018
singularity Add singularity Jun 2, 2018
slepc-openmpi All ports: Remove obsolete comments Feb 28, 2018
slepc All ports: Remove obsolete comments Feb 28, 2018
slurm-wlm slurm-wlm: Check existing install to prevent build failures Oct 11, 2018
snpfinder All ports: Remove obsolete comments Feb 28, 2018
sortmerna All ports: Remove obsolete comments Feb 28, 2018
spark All ports: Remove obsolete comments Feb 28, 2018
sra-tools All ports: Remove obsolete comments Feb 28, 2018
stacks stacks: Enable OpenMP Aug 31, 2018
star All ports: Remove obsolete comments Feb 28, 2018
stm32flash All ports: Remove obsolete comments Feb 28, 2018
stop-words All ports: Remove obsolete comments Feb 28, 2018
stringtie stringtie: Set default for MAKE Jul 11, 2018
structure-frontend All ports: Remove obsolete comments Feb 28, 2018
structure All ports: Remove obsolete comments Feb 28, 2018
sumaclust All ports: Remove obsolete comments Feb 28, 2018
swarm All ports: Remove obsolete comments Feb 28, 2018
tcl83 All ports: Remove obsolete comments Feb 28, 2018
tempo2 All ports: Remove obsolete comments Feb 28, 2018
tk83 All ports: Remove obsolete comments Feb 28, 2018
tophat tophat: Patch to use bundled SeqAn Jul 11, 2018
tophat2012 All ports: Remove obsolete comments Feb 28, 2018
trialsto1d All ports: Remove obsolete comments Feb 28, 2018
trilinos All ports: Remove obsolete comments Feb 28, 2018
trinity-devel trinity-devel: Properly handle EXAMPLES Sep 12, 2018
trinity trinity: Update distinfo Sep 13, 2018
trinotate Silence all MKDIRs May 30, 2018
twintk All ports: Remove obsolete comments Feb 28, 2018
uchime uchime: Comment Makefile Aug 17, 2018
vaultaire All ports: Remove obsolete comments Feb 28, 2018
vcglib Silence all MKDIRs May 30, 2018
virusseq Silence all MKDIRs May 30, 2018
visit visit: Add patch files to svn Apr 21, 2018
voro++ All ports: Remove obsolete comments Feb 28, 2018
vsearch vsearch: Clean up and poudriere test Apr 2, 2018
vxl All ports: Remove obsolete comments Feb 28, 2018
webbrowser All ports: Remove obsolete comments Feb 28, 2018
wgrib2 wgrib2: Tools for managing wgrib weather files Apr 26, 2018
wip-tools Add home as backup master_site Sep 8, 2018
xml-format All ports: Remove obsolete comments Feb 28, 2018
xssp xssp: Ignore warnings from boost headers on 10.4 Jul 31, 2018
README README: Note about commit message format Mar 7, 2018
clean-all clean-all: Add support for python flavors Feb 15, 2018
freebsd-wip-checkout freebsd-wip-checkout: Use svnlite Oct 11, 2018

README

This is a collection of work-in-progress FreeBSD ports.

To install ports from this collection:

1)  Download and run the freebsd-wip-checkout script from the repository
    above.

    * Before running any script downloaded from the Internet, carefully
      inspect it for signs of tampering.  This is especially critical before
      running a script as root.

2)  Now you can install any port using

	cd /usr/ports/wip/portname
	make install

    You can reinstall a single port using

	wip-reinstall-port portname

    If you are a ports developer and have a poudriere installation, you can
    test the port by running

	wip-poudriere-test category/portname jail [jail ...] | all | pattern

3)  Run wip-update frequently to retreive the latest commits.

---

Note that there are committed, quality-controlled versions of many of these
ports available.  If you want the latest stable version, use the usual
FreeBSD ports installation methods:

    pkg install package-name

or

    cd /usr/ports/category/port && make deinstall clean install

If you would like to contribute to the collection:

o   Contact the owner of the repository and ask to be added as a Github
    collaborator, so you can commit changes made to your local working
    copy.

    Collaborators need to follow one simple rule:

	Do not modify someone else's files without their consent.

    There are no quality or security requirements for ports of your own.
    Ports in this collection are works-in-progress and may be in any stage
    of development from completely non-functional to ready-to-commit.

    You can use either git or subversion to manage your working copy.

    Note: Github does not support subversion "mv" or "cp" commands.
	  Use "cp -R", "svn add", and "svn rm" instead.

o   Adopt an existing port:

    If there is an existing port that you are interested it, PLEASE PLEASE
    PLEASE inquire about adopting it by contacting the maintainer (see the
    port Makefile for contact info).  There are many ports here and they will
    move beyond WIP faster if more people sign up as maintainers.

o   Commit messages should use the following format if possible:

    portname: Brief description of change

e.g.

    bamtools: Update to 2.5.1, static only

This makes it easier to scan the commit history at a glance.