formula_options.txt

options, open issues, closed issuues

32     1  14 trilinos
28/23 22 109 opencv3/opencv
27     7 171 octave
26     0  14 vips
20     2  31 petsc
18     6  49 vtk
18     2   6 dealii
14     0  11 insighttoolkit.rb
13     2   4 rampart
11     4   5 maker
11     0   5 getdp
10     4  22 pcl
10     2   8 mathgl
10     4  52 lammps
10     1  15 hypre
10     3  10 graph-tool
10     4  27 blast
 9	 -   - r
 9    10   74 hdf5
 9     0    4 dgtal
 9     0    5 abinit
       8	simpleitk.rb
       8	cppad.rb
       7	xraylib.rb
       7	visp.rb
       7	vigra.rb
       7	sundials.rb
       7	paraview.rb
       7	mfem.rb
       7	libsbml.rb
       7	gmsh.rb
       7	emboss.rb
       6	suite-sparse.rb
       6	slepc.rb
       6	shogun.rb
       6	root.rb
       6	osgearth.rb
       6	opencascade.rb
       6	libsigrokdecode.rb
       6	geant4.rb
       6	gdcm.rb
       6	elemental.rb
       6	dynare.rb
       6	cantera.rb
       6	alpscore.rb
       6	abyss.rb
       5	superlu43.rb
       5	superlu.rb
       5	root6.rb
       5	qr_mumps.rb
       5	openimageio.rb
       5	nip2.rb
       5	nest.rb
       5	mumps.rb
       5	lis.rb
       5	hyphy.rb
       5	gromacs.rb
       5	genometools.rb
       5	blis.rb
       5	bioformats-cpp.rb
       4	zoltan.rb
       4	velvet.rb
       4	tmv-cpp.rb
       4	symphony.rb
       4	oce.rb
       4	nexusformat.rb
       4	netcdf.rb
       4	lumpy-sv.rb
       4	ipopt.rb
       4	igraph.rb
       4	flann.rb
       4	busco.rb
       4	beagle.rb
       4	asl.rb
       4	amos.rb
       3	wcslib.rb
       3	superlu_dist.rb
       3	sratoolkit.rb
       3	scalapack.rb
       3	quaff.rb
       3	pspp.rb
       3	prokka.rb
       3	pnapi.rb
       3	pcb.rb
       3	pastix.rb
       3	p4est.rb
       3	orthofinder.rb
       3	openni2.rb
       3	openni.rb
       3	oases.rb
       3	nlopt.rb
       3	mrbayes.rb
       3	moose.rb
       3	mlpack.rb
       3	libgpkg.rb
       3	libbi.rb
       3	hwloc.rb
       3	harry.rb
       3	galsim.rb
       3	g2o.rb
       3	fwdpp.rb
       3	freebayes.rb
       3	fasttree.rb
       3	express.rb
       3	enblend-enfuse.rb
       3	dlib.rb
       3	ceres-solver.rb
       3	beetl.rb
       3	bcftools.rb
       3	astrometry-net.rb
       3	arpack.rb
       3	adol-c.rb
       2	xrmc.rb
       2	vislcg3.rb
       2	viennarna.rb
       2	vcftools.rb
       2	trinity.rb
       2	superlu_mt.rb
       2	scotch.rb
       2	sara.rb
       2	samtools-0.1.rb
       2	sally.rb
       2	repeatmasker.rb
       2	qrupdate.rb
       2	qgis.rb
       2	pykep.rb
       2	propack.rb
       2	parallel-netcdf.rb
       2	orocos-kdl.rb
       2	openblas.rb
       2	openalpr.rb
       2	nonpareil.rb
       2	nglib.rb
       2	newicktools.rb
       2	neuron.rb
       2	metis.rb
       2	metaphlan.rb
       2	mbsystem.rb
       2	madlib.rb
       2	lola.rb
       2	lobstr.rb
       2	lightstringgraph.rb
       2	libpll.rb
       2	libmatio.rb
       2	kat.rb
       2	itensor.rb
       2	hmmer.rb
       2	gubbins.rb
       2	gnudatalanguage.rb
       2	gmtk.rb
       2	garli.rb
       2	gap.rb
       2	exabayes.rb
       2	einspline.rb
       2	colpack.rb
       2	cgns.rb
       2	cdo.rb
       2	bowtie2.rb
       2	armadillo.rb
       2	apophenia.rb
       2	adam.rb
       1	ucto.rb
       1	tophat.rb
       1	tisean.rb
       1	tagdust.rb
       1	sumo.rb
       1	stiff.rb
       1	stacks.rb
       1	soplex.rb
       1	slicot.rb
       1	simulate-pcr.rb
       1	sextractor.rb
       1	scrm.rb
       1	scamp.rb
       1	sbagen.rb
       1	rmblast.rb
       1	repeatscout.rb
       1	repeatmodeler.rb
       1	reapr.rb
       1	qualimap.rb
       1	primer3.rb
       1	pocl.rb
       1	plink2.rb
       1	plink.rb
       1	pbsuite.rb
       1	nfft.rb
       1	nauty.rb
       1	mira.rb
       1	minia.rb
       1	meme.rb
       1	lp_solve.rb
       1	libfolia.rb
       1	libcerf.rb
       1	kmergenie.rb
       1	infernal.rb
       1	gtsam.rb
       1	glpk448.rb
       1	glpk.rb
       1	fsa.rb
       1	fplll.rb
       1	fann.rb
       1	etsf_io.rb
       1	dsdp.rb
       1	cube.rb
       1	cuba.rb
       1	concorde.rb
       1	cfitsio.rb
       1	cerulean.rb
       1	ccfits.rb
       1	calculix-ccx.rb
       1	bless.rb
       1	biopp.rb
       1	bbtools.rb
       1	augustus.rb
       1	atompaw.rb
       0	yeppp.rb
       0	yass.rb
       0	yaha.rb
       0	yaggo.rb
       0	xylib.rb
       0	xmi-msim.rb
       0	xmgredit.rb
       0	xcdf.rb
       0	xbyak.rb
       0	wxmaxima.rb
       0	wopr.rb
       0	wfdb.rb
       0	weblogo.rb
       0	wcstools.rb
       0	wcalc.rb
       0	vt.rb
       0	vsearch.rb
       0	voro++.rb
       0	velvetoptimiser.rb
       0	veclibfort.rb
       0	vcflib.rb
       0	vcfanno.rb
       0	vcake.rb
       0	varscan.rb
       0	vague.rb
       0	utgb.rb
       0	uproc.rb
       0	uniqtag.rb
       0	unafold.rb
       0	ucsc-genome-browser.rb
       0	trnascan.rb
       0	trimmomatic.rb
       0	trimal.rb
       0	trimadap.rb
       0	triangle.rb
       0	trf.rb
       0	transtermhp.rb
       0	transrate-tools.rb
       0	transpose.rb
       0	transfig.rb
       0	transdecoder.rb
       0	trans-abyss.rb
       0	topcat.rb
       0	timbl.rb
       0	ticcutils.rb
       0	therion.rb
       0	tetgen.rb
       0	tbl2asn.rb
       0	tasr.rb
       0	tabtk.rb
       0	t-coffee.rb
       0	swrcfit.rb
       0	swetest.rb
       0	swarm.rb
       0	stringtie.rb
       0	statismo.rb
       0	sspace-longread.rb
       0	ssake.rb
       0	squeezambler.rb
       0	spici.rb
       0	spatialite-gis.rb
       0	spades.rb
       0	spaced.rb
       0	sortmerna.rb
       0	soapdenovo.rb
       0	snpeff.rb
       0	snp-sites.rb
       0	snoscan.rb
       0	snid.rb
       0	snap.rb
       0	snap-aligner.rb
       0	smrtanalysis.rb
       0	smalt.rb
       0	sllib.rb
       0	skewer.rb
       0	sisl.rb
       0	sigrok-cli.rb
       0	sickle.rb
       0	shrimp.rb
       0	shark.rb
       0	sga.rb
       0	sfscode.rb
       0	sequel.rb
       0	seqtk.rb
       0	seqdb.rb
       0	seqan.rb
       0	seq-gen.rb
       0	sdsl-lite.rb
       0	scotch5.rb
       0	scarpa.rb
       0	samtools.rb
       0	samblaster.rb
       0	sambamba.rb
       0	salt.rb
       0	salmon.rb
       0	sais.rb
       0	sailfish.rb
       0	rstudio-server.rb
       0	ropebwt2.rb
       0	ropebwt.rb
       0	rnammer.rb
       0	rna-star.rb
       0	rml-mmc.rb
       0	recon.rb
       0	readsim.rb
       0	readseq.rb
       0	rcorrector.rb
       0	ray.rb
       0	raxml.rb
       0	rate4site.rb
       0	rapsearch2.rb
       0	rainbow.rb
       0	radx.rb
       0	r8s.rb
       0	r-gui.rb
       0	quorum.rb
       0	quip.rb
       0	quicktree.rb
       0	quest.rb
       0	quast.rb
       0	quake.rb
       0	qsopt_ex.rb
       0	qsopt.rb
       0	qhull.rb
       0	qcl.rb
       0	pymol.rb
       0	pulseview.rb
       0	psmc.rb
       0	proverif.rb
       0	proteinortho.rb
       0	prooftree.rb
       0	prodigal.rb
       0	prank.rb
       0	poretools.rb
       0	populations.rb
       0	poa.rb
       0	plr.rb
       0	plasma.rb
       0	pilon.rb
       0	pilercr.rb
       0	piler.rb
       0	picard-tools.rb
       0	phyutility.rb
       0	phyml.rb
       0	phylip.rb
       0	phlawd.rb
       0	phipack.rb
       0	perf.rb
       0	pear.rb
       0	pcap.rb
       0	paxtools.rb
       0	pathvisio.rb
       0	pathd8.rb
       0	parsnp.rb
       0	parmetis.rb
       0	pandaseq.rb
       0	paml.rb
       0	packmol.rb
       0	oswitch.rb
       0	openmeeg.rb
       0	opengrm-thrax.rb
       0	opengrm-ngram.rb
       0	openfst.rb
       0	openbr.rb
       0	ogdraw.rb
       0	ococo.rb
       0	nxtrim.rb
       0	nusmv.rb
       0	numdiff.rb
       0	novoalign.rb
       0	nixio.rb
       0	niftilib.rb
       0	nextflow.rb
       0	newick-utils.rb
       0	ncview.rb
       0	nco.rb
       0	ncl.rb
       0	nccmp.rb
       0	ncbi-c++-toolkit.rb
       0	nanopolish.rb
       0	muscle.rb
       0	mummer.rb
       0	multi-worm-tracker.rb
       0	mtl.rb
       0	msieve.rb
       0	mrfast.rb
       0	mpsolve.rb
       0	mothur.rb
       0	moab.rb
       0	mlst.rb
       0	mitofy.rb
       0	mir-prefer.rb
       0	minimap.rb
       0	miniasm.rb
       0	minced.rb
       0	minc.rb
       0	mhap.rb
       0	mfusg.rb
       0	metis4.rb
       0	methpipe.rb
       0	meraculous.rb
       0	megam.rb
       0	megahit.rb
       0	mcl.rb
       0	maxima.rb
       0	maude.rb
       0	mathomatic.rb
       0	masurca.rb
       0	mash.rb
       0	maq.rb
       0	mapsembler2.rb
       0	mallet.rb
       0	mafft.rb
       0	macse.rb
       0	lsd.rb
       0	lmod.rb
       0	lmfit.rb
       0	littler.rb
       0	links-scaffolder.rb
       0	lighter.rb
       0	lie.rb
       0	libsequence.rb
       0	libminc.rb
       0	liblbfgs.rb
       0	libdivsufsort.rb
       0	libctl.rb
       0	libccd.rb
       0	libbuddy.rb
       0	lastz.rb
       0	last.rb
       0	lapack-manpages.rb
       0	kraken.rb
       0	kmerstream.rb
       0	kmc.rb
       0	kmacs.rb
       0	kissplice.rb
       0	kent-tools.rb
       0	kallisto.rb
       0	kalign.rb
       0	kaiju.rb
       0	k8.rb
       0	jsbsim.rb
       0	joinx.rb
       0	jmol.rb
       0	jellyfish.rb
       0	jellyfish-1.1.rb
       0	jblas.rb
       0	iva.rb
       0	itsol.rb
       0	iqtree.rb
       0	inter-views.rb
       0	igvtools.rb
       0	igv.rb
       0	idcoefs.rb
       0	idba.rb
       0	humann2.rb
       0	htslib.rb
       0	htsbox.rb
       0	hotspot.rb
       0	hopdm.rb
       0	hmmer2.rb
       0	hlaminer.rb
       0	hisat2.rb
       0	hisat.rb
       0	healpix.rb
       0	harvest-tools.rb
       0	h5utils.rb
       0	graphlan.rb
       0	grabix.rb
       0	gmt4.rb
       0	gmt.rb
       0	gmcloser.rb
       0	gmap-gsnap.rb
       0	glimmerhmm.rb
       0	glimmer3.rb
       0	gingr.rb
       0	giira.rb
       0	ggobi.rb
       0	gfan.rb
       0	genewise.rb
       0	genet.rb
       0	geneid.rb
       0	geda-gaf.rb
       0	gatk.rb
       0	gatb.rb
       0	galib.rb
       0	galfit.rb
       0	gaemr.rb
       0	freec.rb
       0	fqzcomp.rb
       0	flux-simulator.rb
       0	flint.rb
       0	flash.rb
       0	field3d.rb
       0	fgsl.rb
       0	fermikit.rb
       0	fermi2.rb
       0	fermi.rb
       0	fermi-lite.rb
       0	fcgene.rb
       0	fastx_toolkit.rb
       0	fastuniq.rb
       0	fastqc.rb
       0	fastq-tools.rb
       0	fastml.rb
       0	fasta.rb
       0	exonerate.rb
       0	ess.rb
       0	ensembl-tools.rb
       0	elph.rb
       0	edirect.rb
       0	edena.rb
       0	ea-utils.rb
       0	dwgsim.rb
       0	dssp.rb
       0	dsk.rb
       0	ds9.rb
       0	dotwrp.rb
       0	discovardenovo.rb
       0	discovar.rb
       0	dida.rb
       0	diamond.rb
       0	dextractor.rb
       0	des.rb
       0	delly.rb
       0	deeplearning4j-cli.rb
       0	dazz_db.rb
       0	datamash.rb
       0	data-science-toolbox.rb
       0	daligner.rb
       0	dadadodo.rb
       0	cytoscape.rb
       0	cvblob.rb
       0	cufflinks.rb
       0	cryptoverif.rb
       0	crlibm.rb
       0	crfsuite.rb
       0	corset.rb
       0	coinmp.rb
       0	cmor.rb
       0	cminpack.rb
       0	cmdstan.rb
       0	clustal-w.rb
       0	clustal-omega.rb
       0	clonehd.rb
       0	clonalframeml.rb
       0	clinfo.rb
       0	clfft.rb
       0	clblas.rb
       0	clark.rb
       0	ckon.rb
       0	circos.rb
       0	circlator.rb
       0	celera-assembler.rb
       0	cegma.rb
       0	cdsclient.rb
       0	cddlib.rb
       0	cd-hit.rb
       0	cap3.rb
       0	canu.rb
       0	bwtdisk.rb
       0	bwa.rb
       0	butterflow.rb
       0	breseq.rb
       0	bpipe.rb
       0	bpel2owfn.rb
       0	bowtie.rb
       0	boost-compute.rb
       0	blaze-lib.rb
       0	blat.rb
       0	blasr.rb
       0	bitseq.rb
       0	biopieces.rb
       0	biointerchange.rb
       0	biocgal.rb
       0	biobloomtools.rb
       0	bioawk.rb
       0	bfc.rb
       0	bedtools.rb
       0	bedops.rb
       0	beast.rb
       0	bcalm.rb
       0	barrnap.rb
       0	bamutil.rb
       0	bamtools.rb
       0	bamhash.rb
       0	bam-readcount.rb
       0	bali-phy.rb
       0	bact.rb
       0	atram.rb
       0	atpdec.rb
       0	atomic-pseudopotential-engine.rb
       0	ate-pairing.rb
       0	astral.rb
       0	ascii_plots.rb
       0	artemis.rb
       0	art.rb
       0	arrayfire.rb
       0	arow++.rb
       0	aribas.rb
       0	arb.rb
       0	aragorn.rb
       0	ann.rb
       0	andi.rb
       0	analysis.rb
       0	allpaths-lg.rb
       0	alglib.rb
       0	alembic.rb
       0	afra.rb
       0	ace-corrector.rb
       0	abyss-explorer.rb
       0	abacas.rb
       0	a5.rb