Package ListΒΆ

This is a list of things you can install using Spack. It is automatically generated based on the packages in the latest Spack release.

Spack currently has 3908 mainline packages:

abinit oniguruma r-annotationhub
abseil-cpp ont-albacore r-aod
abyss opa-psm2 r-ape
accfft opam r-argparse
ace opari2 r-aroma-light
ack openbabel r-askpass
acpid openblas r-assertthat
activeharmony opencascade r-backports
activemq opencoarrays r-bamsignals
acts-core opencv r-base64
adept-utils openexr r-base64enc
adf openfast r-bayesm
adiak openfdtd r-bbmisc
adios openfoam r-beachmat
adios2 openfoam-org r-beanplot
adlbx openfst r-beeswarm
adol-c opengl r-bfast
advancecomp openglu r-bfastspatial
aegean openimageio r-bglr
aida openjdk r-bh
akantu openjpeg r-biasedurn
alan openkim-models r-bibtex
albany openldap r-bindr
albert openmc r-bindrcpp
alglib openmolcas r-bio3d
allpaths-lg openmpi r-biobase
alluxio openmx r-biocfilecache
alquimia opennurbs r-biocgenerics
alsa-lib openpa r-biocinstaller
aluminum openpmd-api r-biocmanager
amber openresty r-biocneighbors
amdblis openscenegraph r-biocparallel
amg openslide r-biocsingular
amg2013 openspeedshop r-biocstyle
aml openspeedshop-utils r-biom-utils
amp openssh r-biomart
ampliconnoise openssl r-biomartr
amrex openstf r-biomformat
amrvis opentsdb r-biostrings
andi opium r-biovizbase
angsd optional-lite r-bit
ant optipng r-bit64
antlr opus r-bitops
ants orca r-blob
aoflagger orfm r-blockmodeling
aom orthofiller r-bmp
apachetop orthofinder r-bookdown
ape orthomcl r-boot
aperture-photometry osmctools r-brew
apex osqp r-broom
apple-libunwind osu-micro-benchmarks r-bsgenome
applewmproto otf r-bsgenome-hsapiens-ucsc-hg19
appres otf2 r-bumphunter
apr p3dfft3 r-c50
apr-util p4est r-cairo
aragorn p7zip r-callr
arborx pacbio-daligner r-car
archer pacbio-damasker r-cardata
argobots pacbio-dazz-db r-caret
argp-standalone pacbio-dextractor r-caroline
argtable packmol r-category
aria2 pacvim r-catools
arm-forge pagit r-cdcfluview
armadillo pagmo r-cellranger
arpack-ng pal r-checkmate
arrow paml r-checkpoint
asagi panda r-chemometrics
ascent pandaseq r-chron
asciidoc pandoc r-circlize
asciidoctor pango r-class
asdf-cxx pangomm r-classint
aspa papi r-cli
aspcud papyrus r-clipr
aspect paradiseo r-clisymbols
aspell parallel r-clue
aspell6-de parallel-netcdf r-cluster
aspell6-en paraver r-clustergeneration
aspell6-es paraview r-clusterprofiler
aspera-cli parmetis r-cner
assimp parmgridgen r-coda
astra parquet-cpp r-codetools
astral parsimonator r-codex
astyle parsplice r-coin
at-spi2-atk partitionfinder r-colorspace
at-spi2-core pasta r-combinat
athena patch r-commonmark
atk patchelf r-complexheatmap
atlas pathfinder r-compositions
atom-dft pax-utils r-condop
atompaw pbbam r-construct
atop pbmpi r-convevol
attr pbsuite r-copula
audit-userspace pcma r-corhmm
augustus pcre r-corpcor
autoconf pcre2 r-corrplot
autodock-vina pdf2svg r-covr
autofact pdftk r-cowplot
autogen pdsh r-crayon
automaded pdt r-crosstalk
automake pegtl r-crul
avizo pennant r-ctc
aws-parallelcluster percept r-cubature
awscli perl r-cubist
axel perl-acme-damn r-curl
axl perl-algorithm-diff r-dada2
bam-readcount perl-alien-build r-data-table
bamdst perl-alien-libxml2 r-dbi
bamtools perl-app-cmd r-dbplyr
bamutil perl-array-utils r-debugme
barrnap perl-b-hooks-endofscope r-delayedarray
bash perl-bioperl r-delayedmatrixstats
bash-completion perl-bit-vector r-deldir
bats perl-cairo r-dendextend
bazel perl-capture-tiny r-deoptim
bbcp perl-carp-clan r-deoptimr
bbmap perl-cgi r-desc
bc perl-class-data-inheritable r-deseq
bcftools perl-class-inspector r-deseq2
bcl2fastq2 perl-class-load r-desolve
bdftopcf perl-class-load-xs r-devtools
bdw-gc perl-clone r-diagrammer
beagle perl-clone-choose r-dicekriging
bear perl-compress-raw-bzip2 r-dichromat
beast-tracer perl-compress-raw-zlib r-diffusionmap
beast1 perl-config-general r-digest
beast2 perl-contextual-return r-diptest
bedops perl-cpan-meta-check r-dirichletmultinomial
bedtools2 perl-data-dumper r-dismo
beforelight perl-data-optlist r-diversitree
benchmark perl-data-stag r-dnacopy
berkeley-db perl-db-file r-do-db
bertini perl-dbd-mysql r-domc
bib2xhtml perl-dbd-pg r-doparallel
bigreqsproto perl-dbd-sqlite r-dorng
bind9 perl-dbi r-dose
binutils perl-devel-cycle r-dosnow
bioawk perl-devel-globaldestruction r-dotcall64
biobloom perl-devel-overloadinfo r-downloader
biopieces perl-devel-stacktrace r-dplyr
bismark perl-devel-symdump r-dqrng
bison perl-digest-md5 r-dt
bitmap perl-dist-checkconflicts r-dtw
blasr perl-encode-locale r-dygraphs
blasr-libcpp perl-error r-dynamictreecut
blast-legacy perl-eval-closure r-e1071
blast-plus perl-exception-class r-earth
blast2go perl-exporter-tiny r-ecp
blat perl-extutils-config r-edger
blaze perl-extutils-depends r-ellipse
blis perl-extutils-helpers r-ellipsis
bliss perl-extutils-installpaths r-emmli
blitz perl-extutils-makemaker r-energy
blktrace perl-extutils-pkgconfig r-enrichplot
bmake perl-ffi-checklib r-ensembldb
bmi perl-file-chdir r-ergm
bml perl-file-copy-recursive r-europepmc
bohrium perl-file-homedir r-evaluate
bolt perl-file-listing r-evd
bookleaf-cpp perl-file-pushd r-exomecopy
boost perl-file-sharedir-install r-exomedepth
boostmplcartesianproduct perl-file-slurp-tiny r-expint
bowtie perl-file-slurper r-expm
bowtie2 perl-file-which r-factoextra
boxlib perl-font-ttf r-factominer
bpp-core perl-forks r-fansi
bpp-phyl perl-gd r-farver
bpp-seq perl-gdgraph r-fastcluster
bpp-suite perl-gdgraph-histogram r-fastmatch
bracken perl-gdtextutil r-fdb-infiniummethylation-hg18
braker perl-graph r-fdb-infiniummethylation-hg19
branson perl-graph-readwrite r-ff
breakdancer perl-hash-merge r-fftwtools
bref3 perl-html-parser r-fgsea
breseq perl-html-tagset r-fields
bridger perl-http-cookies r-filehash
brigand perl-http-daemon r-findpython
brltty perl-http-date r-fit-models
brotli perl-http-message r-fitdistrplus
bsseeker2 perl-http-negotiate r-flashclust
bucky perl-inline r-flexclust
bumpversion perl-inline-c r-flexmix
busco perl-io-all r-fnn
busybox perl-io-compress r-forcats
butter perl-io-html r-foreach
butterflypack perl-io-prompt r-forecast
bwa perl-io-sessiondata r-foreign
bwtool perl-io-socket-ssl r-formatr
byobu perl-io-string r-formula
bzip2 perl-io-stringy r-fpc
c-ares perl-io-tty r-fracdiff
c-blosc perl-ipc-run r-fs
c-blosc2 perl-json r-futile-logger
c-lime perl-libwww-perl r-futile-options
cabana perl-libxml-perl r-future
caffe perl-list-moreutils r-future-apply
cairo perl-list-moreutils-xs r-gamlss
cairomm perl-log-log4perl r-gamlss-data
caliper perl-logger-simple r-gamlss-dist
callpath perl-lwp-mediatypes r-gbm
camellia perl-lwp-protocol-https r-gbrd
camx perl-mailtools r-gcrma
candle-benchmarks perl-math-bezier r-gdalutils
cantera perl-math-cdf r-gdata
canu perl-math-cephes r-gdsfmt
cap3 perl-math-matrixreal r-geiger
capnproto perl-math-round r-genefilter
capstone perl-math-vecstat r-genelendatabase
cardioid perl-module-build r-genemeta
casacore perl-module-build-tiny r-geneplotter
cask perl-module-implementation r-generics
casper perl-module-runtime r-genetics
cassandra perl-module-runtime-conflicts r-genie3
catalyst perl-moose r-genomeinfodb
catch2 perl-mozilla-ca r-genomeinfodbdata
cbench perl-mro-compat r-genomicalignments
cblas perl-namespace-clean r-genomicfeatures
cbtf perl-net-http r-genomicranges
cbtf-argonavis perl-net-scp-expect r-gensa
cbtf-argonavis-gui perl-net-ssleay r-geomorph
cbtf-krell perl-number-format r-geonames
cbtf-lanl perl-object-insideout r-geoquery
ccache perl-package-deprecationmanager r-geor
ccfits perl-package-stash r-geosphere
ccs-qcd perl-package-stash-xs r-getopt
cctools perl-padwalker r-getoptlong
cdbfasta perl-parallel-forkmanager r-ggally
cdd perl-params-util r-ggbeeswarm
cddlib perl-params-validate r-ggbio
cdecimal perl-parse-recdescent r-ggdendro
cdhit perl-path-tiny r-ggforce
cdo perl-pdf-api2 r-ggjoy
ceed perl-pegex r-ggmap
cereal perl-perl-unsafe-signals r-ggplot2
ceres-solver perl-perl-version r-ggplotify
cfitsio perl-perl4-corelibs r-ggpubr
cgal perl-perl6-slurp r-ggraph
cgdb perl-perlio-gzip r-ggrepel
cgm perl-perlio-utf8-strict r-ggridges
cgns perl-readonly r-ggsci
channelflow perl-regexp-common r-ggsignif
chapel perl-scalar-list-utils r-ggvis
charliecloud perl-scalar-util-numeric r-gh
charmpp perl-set-intervaltree r-gistr
chatterbug perl-set-intspan r-git2r
check perl-set-scalar r-glimma
chgcentre perl-soap-lite r-glmnet
chill perl-star-fusion r-globaloptions
chlorop perl-statistics-basic r-globals
chombo perl-statistics-descriptive r-glue
chrpath perl-statistics-pca r-gmodels
cinch perl-sub-exporter r-gmp
circos perl-sub-exporter-progressive r-go-db
cistem perl-sub-identify r-gofuncr
citcoms perl-sub-install r-googlevis
cityhash perl-sub-name r-goplot
clamav perl-sub-uplevel r-gosemsim
clamr perl-svg r-goseq
clapack perl-swissknife r-gostats
clara perl-sys-sigaction r-gower
claw perl-task-weaken r-gplots
cleaveland4 perl-term-readline-gnu r-graph
cleverleaf perl-termreadkey r-graphlayouts
clfft perl-test-cleannamespaces r-grbase
clhep perl-test-deep r-gridbase
clingo perl-test-differences r-gridextra
cln perl-test-exception r-gridgraphics
cloc perl-test-fatal r-gsa
cloog perl-test-memory-cycle r-gsalib
cloverleaf perl-test-most r-gseabase
cloverleaf3d perl-test-needs r-gsl
clp perl-test-requires r-gss
clustal-omega perl-test-requiresinternet r-gstat
clustalw perl-test-warn r-gsubfn
cmake perl-test-warnings r-gtable
cmocka perl-text-csv r-gtools
cmor perl-text-diff r-gtrellis
cnmem perl-text-format r-gviz
cnpy perl-text-simpletable r-gwmodel
cntk perl-text-soundex r-haven
cntk1bitsgd perl-text-unidecode r-hdf5array
cnvnator perl-time-hires r-hdf5r
codar-cheetah perl-time-piece r-hexbin
codes perl-timedate r-highr
coevp perl-try-tiny r-hmisc
cohmm perl-uri r-hms
coinhsl perl-want r-hoardr
colm perl-www-robotrules r-htmltable
colordiff perl-xml-dom r-htmltools
comd perl-xml-dom-xpath r-htmlwidgets
commons-lang perl-xml-filter-buffertext r-httpcode
commons-lang3 perl-xml-libxml r-httpuv
commons-logging perl-xml-libxslt r-httr
compiz perl-xml-namespacesupport r-hwriter
compositeproto perl-xml-parser r-hypergraph
conduit perl-xml-parser-lite r-ica
connect-proxy perl-xml-quote r-igraph
constype perl-xml-regexp r-illuminahumanmethylation450kanno-ilmn12-hg19
converge perl-xml-sax r-illuminaio
coreutils perl-xml-sax-base r-imager
corset perl-xml-sax-writer r-impute
cosbench perl-xml-simple r-influencer
cosmomc perl-xml-twig r-ini
cosp2 perl-xml-writer r-inline
cotter perl-xml-xpathengine r-interactivedisplaybase
cowsay perl-yaml r-intervals
cp2k perl-yaml-libyaml r-inum
cpio petsc r-ipred
cppad pexsi r-iranges
cppcheck pfft r-irdisplay
cppgsl pflotran r-irkernel
cpprestsdk pfunit r-irlba
cppunit pgdspider r-isdparser
cppzmq pgi r-iso
cpu-features pgmath r-iterators
cpuinfo phantompeakqualtools r-janitor
cquery phast r-jaspar2018
cram phasta r-jomo
cray-libsci phist r-jpeg
cromwell phrap-crossmatch-swat r-jsonlite
cromwell-womtool phred r-kegg-db
cryptopp phylip r-kegggraph
cryptsetup phyluce r-keggrest
cscope picard r-kernlab
csdp picsar r-kernsmooth
ctffind picsarlite r-kknn
cub pidx r-knitr
cube pig r-ks
cubelib pigz r-labeling
cubew pilon r-lambda-r
cuda pindel r-laplacesdemon
cuda-memtest pipework r-lars
cudnn piranha r-later
cufflinks pism r-lattice
cups pixman r-latticeextra
curl pixz r-lava
cvs pkg-config r-lazyeval
cxxopts pkgconf r-ldheatmap
czmq pktools r-leaflet
dakota planck-likelihood r-leaps
daligner plasma r-learnbayes
damageproto platypus r-leiden
damaris plink r-lhs
damselfly plplot r-libcoin
darshan-runtime plumed r-limma
darshan-util pmdk r-listenv
dash pmgr-collective r-lme4
datamash pmix r-lmtest
dataspaces pmlib r-locfit
dateutils pnfft r-log4r
davix pngquant r-loo
dbcsr pngwriter r-lpsolve
dbus pnmpi r-lsei
dcmtk poamsa r-lubridate
dd4hep pocl r-lumi
dealii polymake r-magic
dealii-parameter-gui poppler r-magick
decentralized-internet poppler-data r-magrittr
deconseq-standalone popt r-makecdfenv
dejagnu porta r-maldiquant
delly2 portage r-manipulatewidget
denovogear portcullis r-mapplots
dftfe postgresql r-mapproj
dia powerapi r-maps
dialign ppl r-maptools
dialign-tx pplacer r-markdown
diamond prank r-mass
diffsplice precice r-matr
diffutils presentproto r-matrix
dimemas preseq r-matrixmodels
direnv price r-matrixstats
discovar primer3 r-mclust
discovardenovo prinseq-lite r-mcmcglmm
dislin printproto r-mco
diy prng r-mda
dlpack probconsrna r-memoise
dmd procps r-mergemaid
dmlc-core prodigal r-metap
dmtcp proj r-methylumi
dmxproto protobuf r-mgcv
docbook-xml protobuf-c r-mgraster
docbook-xsl proxymngr r-mice
dos2unix prrte r-mime
dotnet-core-sdk pruners-ninja r-minfi
double-conversion ps-lite r-miniui
doxygen psi4 r-minqa
draco pslib r-misc3d
dri2proto psm r-mitml
dri3proto psmc r-mitools
drill pstreams r-mixtools
ds pugixml r-mlbench
dsdp pumi r-mlinterfaces
dsrc pv r-mlr
dtcmp pvm r-mlrmbo
dyninst pxz r-mmwrweek
dysco py-3to2 r-mnormt
ea-utils py-4suite-xml r-modelmetrics
easybuild py-abipy r-modelr
ebms py-absl-py r-modeltools
eccodes py-adios r-mpm
ecflow py-advancedhtmlparser r-msnbase
eclipse-gcj-parser py-aenum r-multcomp
ecos py-affine r-multicool
ecp-io-sdk py-agate r-multitaper
ecp-proxy-apps py-agate-dbf r-multtest
ecp-viz-sdk py-agate-excel r-munsell
ed py-agate-sql r-mvtnorm
editline py-alabaster r-mzid
editres py-alembic r-mzr
eem py-altgraph r-nanotime
eigen py-amqp r-ncbit
elasticsearch py-ansible r-ncdf4
elemental py-antlr4-python3-runtime r-network
elfutils py-apache-libcloud r-networkd3
elk py-apipkg r-nleqslv
elmerfem py-appdirs r-nlme
elpa py-appnope r-nloptr
elsd py-apscheduler r-nmf
elsdc py-argcomplete r-nmof
elsi py-argparse r-nnet
emacs py-arrow r-nnls
ember py-asciitree r-nor1mix
emboss py-asdf r-nortest
enchant py-ase r-np
energyplus py-asn1crypto r-npsurv
entrezdirect py-aspy-yaml r-numderiv
environment-modules py-asserts r-oligoclasses
eospac py-astor r-openssl
eq-r py-astroid r-openxlsx
er py-astropy r-optparse
erfa py-astunparse r-ordinal
erlang py-async-generator r-org-hs-eg-db
ermod py-atomicwrites r-organismdbi
erne py-atropos r-packrat
es-shell py-attrs r-pacman
esmf py-autopep8 r-paleotree
essl py-avro r-pamr
ethminer py-avro-json-serializer r-pan
ethtool py-babel r-parallelmap
etsf-io py-backcall r-paramhelpers
everytrace py-backports-abc r-party
everytrace-example py-backports-functools-lru-cache r-partykit
evieext py-backports-shutil-get-terminal-size r-pathview
exabayes py-backports-ssl-match-hostname r-pbapply
examinimd py-backports-tempfile r-pbdzmq
exampm py-backports-weakref r-pbkrtest
exasp2 py-basemap r-pcamethods
exchanger py-bcbio-gff r-pcapp
exiv2 py-bcrypt r-permute
exmcutils py-beautifulsoup4 r-pfam-db
exodusii py-billiard r-phangorn
exonerate py-binaryornot r-phantompeakqualtools
expat py-bintrees r-philentropy
expect py-binwalk r-phyloseq
express py-biom-format r-phylostratr
extrae py-biomine r-phytools
exuberant-ctags py-biopython r-picante
eztrace py-bitarray r-pillar
f18 py-bitstring r-pkgbuild
f77-zmq py-black r-pkgconfig
f90cache py-bleach r-pkgload
fabtests py-blessed r-pkgmaker
fairlogger py-blessings r-plogr
falcon py-blinker r-plot3d
fann py-bokeh r-plotly
faodel py-boltons r-plotmo
fast-global-file-status py-boto3 r-plotrix
fasta py-botocore r-pls
fastdfs py-bottleneck r-plyr
fastjar py-breakseq2 r-pmcmr
fastmath py-breathe r-png
fastme py-brian r-polyclip
fastp py-brian2 r-polynom
fastphase py-brotlipy r-popgenome
fastq-screen py-bsddb3 r-popvar
fastqc py-bx-python r-powerlaw
fastqvalidator py-bz2file r-prabclus
fasttree py-cached-property r-praise
fastx-toolkit py-cachetools r-preprocesscore
feh py-cairocffi r-prettyunits
fenics py-cartopy r-processx
fermi py-cclib r-prodlim
fermikit py-cdat-lite r-progress
fermisciencetools py-cdo r-proj
ferret py-cdsapi r-proj4
ffmpeg py-celery r-promises
fftw py-certifi r-protgenerics
fgsl py-certipy r-proto
figtree py-cf-units r-proxy
file py-cffi r-pryr
filebench py-cfgv r-ps
fimpute py-cftime r-pscbs
find-circ py-chai r-pspline
findutils py-chardet r-psych
fio py-checkm-genome r-ptw
fish py-cheetah r-purrr
fixesproto py-cheroot r-qtl
fl py-cherrypy r-quadprog
flac py-cinema-lib r-quantmod
flang py-click r-quantreg
flann py-click-plugins r-quantro
flash py-cligj r-qvalue
flatbuffers py-clipboard r-r-cache
flatcc py-cloudpickle r-r-methodss3
flecsale py-clustershell r-r-oo
flecsi py-codecov r-r-utils
flecsph py-cogent r-r6
flex py-colorama r-randomfields
flibcpp py-coloredlogs r-randomfieldsutils
flink py-colorlog r-randomforest
flint py-colormath r-randomglm
flit py-colorpy r-ranger
fltk py-configobj r-rann
flume py-configparser r-rappdirs
flux-core py-contextlib2 r-raster
flux-sched py-convertdate r-rbgl
fluxbox py-cookiecutter r-rbokeh
fmt py-counter r-rcmdcheck
foam-extend py-cov-core r-rcolorbrewer
folly py-coverage r-rcpp
font-util py-crispresso r-rcppannoy
fontcacheproto py-crossmap r-rcpparmadillo
fontconfig py-cryptography r-rcppblaze
fontsproto py-cssselect r-rcppcctz
fonttosfnt py-csvkit r-rcppcnpy
fp16 py-current r-rcppeigen
fpc py-cutadapt r-rcpphnsw
fpocket py-cvxopt r-rcppparallel
fqtrim py-cvxpy r-rcppprogress
fr-hit py-cycler r-rcurl
freebayes py-cython r-rda
freeglut py-dask r-rdpack
freeimage py-dataclasses r-readbitmap
freetype py-dateparser r-readr
freexl py-dbf r-readxl
fribidi py-dbfread r-recipes
fseq py-decorator r-registry
fsl py-deeptools r-rematch
fslsfonts py-deeptoolsintervals r-remotes
fstobdf py-defusedxml r-reordercluster
fstrack py-dendropy r-reportingtools
ftgl py-deprecation r-repr
fujitsu-mpi py-descartes r-reprex
funhpc py-dill r-reshape
fyba py-discover r-reshape2
fzf py-distributed r-reticulate
g4abla py-dlcpar r-rex
g4emlow py-dnaio r-rgdal
g4ensdfstate py-docopt r-rgenoud
g4ndl py-docutils r-rgeos
g4neutronxs py-docutils-stubs r-rgexf
g4photonevaporation py-doxypy r-rgl
g4pii py-doxypypy r-rgooglemaps
g4radioactivedecay py-dryscrape r-rgraphviz
g4realsurface py-dxchange r-rhdf5
g4saiddata py-dxfile r-rhdf5lib
g4tendl py-earthengine-api r-rhmmer
gams py-easybuild-easyblocks r-rhtslib
gapbs py-easybuild-easyconfigs r-rinside
gapcloser py-easybuild-framework r-rio
gapfiller py-ecdsa r-rjags
gasnet py-ecos r-rjava
gatk py-edffile r-rjson
gaudi py-editdistance r-rjsonio
gaussian py-elasticsearch r-rlang
gawk py-elephant r-rmariadb
gblocks py-emcee r-rmarkdown
gcc py-empy r-rminer
gccmakedep py-entrypoints r-rmpfr
gccxml py-enum34 r-rmpi
gconf py-epydoc r-rmutil
gcta py-espresso r-rmysql
gdal py-espressopp r-rnaseqmap
gdb py-et-xmlfile r-rngtools
gdbm py-eventlet r-rnoaa
gdk-pixbuf py-execnet r-robust
gdl py-exodus-bundler r-robustbase
geant4 py-extras r-roc
geant4-data py-fallocate r-rocr
gearshifft py-fastaindex r-rodbc
gemmlowp py-fastcache r-rook
genemark-et py-fasteners r-rots
genomefinisher py-faststructure r-roxygen2
genometools py-filelock r-rpart
genrich py-filemagic r-rpart-plot
geode py-fiona r-rpostgresql
geopm py-fiscalyear r-rprojroot
geos py-fixtures r-rrblup
gettext py-flake8 r-rrcov
gflags py-flake8-import-order r-rrpp
ghost py-flake8-polyfill r-rsamtools
ghostscript py-flask r-rsnns
ghostscript-fonts py-flask-compress r-rsolnp
giflib py-flask-socketio r-rspectra
ginkgo py-flexx r-rsqlite
git py-flye r-rstan
git-fat-git py-fn-py r-rstantools
git-imerge py-fortranformat r-rstudioapi
git-lfs py-fparser r-rsvd
gl2ps py-freezegun r-rtracklayer
glew py-fsspec r-rtsne
glfmultiples py-funcsigs r-runit
glib py-functools32 r-rvcheck
glibmm py-fusepy r-rvest
glimmer py-future r-rzmq
glm py-futures r-s4vectors
global py-fypp r-samr
globalarrays py-gast r-sandwich
glog py-gdbgui r-scales
gloo py-gdc-client r-scater
glpk py-gee-asset-manager r-scatterplot3d
glproto py-geeadd r-scrime
glvis py-geeup r-sctransform
gmake py-genders r-sdmtools
gmap-gsnap py-genshi r-segmented
gmime py-gensim r-selectr
gmodel py-geoalchemy2 r-seqinr
gmp py-geopandas r-seqlogo
gmsh py-gevent r-sessioninfo
gmt py-gf256 r-seurat
gmtsar py-git-review r-sf
gnat py-gnuplot r-sfsmisc
gnome-common py-goatools r-shape
gnupg py-google-api-core r-shiny
gnuplot py-google-api-python-client r-shinydashboard
gnutls py-google-auth r-shinyfiles
go py-google-auth-httplib2 r-shortread
go-bootstrap py-google-cloud-core r-siggenes
go-md2man py-google-cloud-storage r-simpleaffy
gobject-introspection py-google-pasta r-singlecellexperiment
googletest py-google-resumable-media r-sitmo
gotcha py-googleapis-common-protos r-sm
gource py-gpaw r-smoof
gpdb py-graphviz r-sn
gperf py-greenlet r-snakecase
gperftools py-grequests r-snow
gpgme py-griddataformats r-snowfall
gplates py-grpcio r-snprelate
gprolog py-guidata r-snpstats
gpu-burn py-guiqwt r-som
grackle py-h5glance r-somaticsignatures
gradle py-h5py r-sourcetools
grandr py-h5sh r-sp
graph500 py-hacking r-spacetime
graphicsmagick py-hdfs r-spam
graphite2 py-heapdict r-sparsem
graphlib py-hepdata-validator r-spatial
graphmap py-hpcbench r-spatialreg
graphviz py-hpccm r-spdata
grass py-html2text r-spdep
grep py-html5lib r-speedglm
grib-api py-htmlgen r-spem
grnboost py-htseq r-splancs
groff py-httpbin r-splitstackshape
gromacs py-httplib2 r-sqldf
grpc py-humanfriendly r-squarem
gsl py-humanize r-squash
gslib py-hvac r-sseq
gtkmm py-hypothesis r-stabledist
gtkorvo-atl py-ics r-stanheaders
gtkorvo-cercs-env py-identify r-stargazer
gtkorvo-dill py-idna r-statmod
gtkorvo-enet py-illumina-utils r-statnet-common
gtkplus py-imageio r-stringi
gtksourceview py-imagesize r-stringr
gts py-iminuit r-strucchange
guidance py-importlib r-subplex
guile py-importlib-metadata r-summarizedexperiment
gurobi py-importlib-resources r-suppdists
gzip py-iniparse r-survey
h5cpp py-intervaltree r-survival
h5hut py-invoke r-sva
h5part py-ipaddress r-sys
h5utils py-ipdb r-tarifx
h5z-zfp py-ipykernel r-taxizedb
hacckernels py-ipython r-tclust
hadoop py-ipython-genutils r-teachingdemos
halc py-ipywidgets r-tensora
half py-irpf90 r-testit
hama py-isodate r-testthat
hapcut2 py-isort r-tfbstools
hapdip py-itsdangerous r-tfmpvalue
haploview py-jaraco-functools r-th-data
haproxy py-jdatetime r-threejs
harfbuzz py-jdcal r-tibble
harminv py-jedi r-tidycensus
hbase py-jellyfish r-tidygraph
hc py-jinja2 r-tidyr
hdf py-jinja2-time r-tidyselect
hdf5 py-jmespath r-tidyverse
hdf5-blosc py-joblib r-tiff
heaptrack py-jplephem r-tigris
heffte py-jprops r-timedate
help2man py-jpype1 r-tinytex
henson py-jsonpatch r-tmixclust
hepmc py-jsonpointer r-topgo
heppdt py-jsonschema r-triebeard
hic-pro py-junit-xml r-trimcluster
highfive py-jupyter r-truncdist
highwayhash py-jupyter-client r-truncnorm
hiop py-jupyter-console r-trust
hipsycl py-jupyter-core r-tseries
hisat2 py-jupyterhub r-tsne
hisea py-keras r-ttr
hive py-keras-applications r-tweenr
hmmer py-keras-preprocessing r-txdb-hsapiens-ucsc-hg18-knowngene
homer py-kitchen r-txdb-hsapiens-ucsc-hg19-knowngene
hoomd-blue py-kiwisolver r-tximport
hotspot py-kmodes r-ucminf
hpccg py-kombu r-udunits2
hpctoolkit py-lark-parser r-units
hpcviewer py-latexcodec r-upsetr
hpgmg py-lazy r-urca
hpl py-lazy-object-proxy r-urltools
hpx py-lazy-property r-usethis
hpx5 py-lazyarray r-utf8
hsakmt py-leather r-uuid
hstr py-libconf r-uwot
htop py-libensemble r-variantannotation
htslib py-ligo-segments r-varselrf
httperf py-line-profiler r-vcd
httpie py-linecache2 r-vctrs
hub py-lit r-vegan
hugo py-llvmlite r-vfs
hunspell py-lmfit r-vgam
hwloc py-localcider r-vioplot
hybpiper py-locket r-vipor
hydra py-lockfile r-viridis
hydrogen py-logilab-common r-viridislite
hyphy py-lru-dict r-visnetwork
hypre py-lscsoft-glue r-vsn
i3 py-luigi r-watermelon
ibm-java py-lxml r-webshot
ibmisc py-lzstring r-wgcna
iceauth py-m2r r-whisker
icedtea py-macholib r-withr
icet py-machotools r-xde
ico py-macs2 r-xfun
icu4c py-maestrowf r-xgboost
id3lib py-magic r-xlconnect
idba py-mako r-xlconnectjars
iegenlib py-markdown r-xlsx
ignite py-markupsafe r-xlsxjars
igraph py-matplotlib r-xmapbridge
igv py-mccabe r-xml
igvtools py-mdanalysis r-xml2
ilmbase py-mechanize r-xnomial
imagemagick py-memory-profiler r-xopen
imake py-merlin r-xtable
imlib2 py-merlinwf r-xts
imp py-metasv r-xvector
impute2 py-methylcode r-yaml
infernal py-mg-rast-tools r-yapsa
inputproto py-misopy r-yaqcaffy
intel py-mistune r-yarn
intel-daal py-mlxtend r-zeallot
intel-gpu-tools py-mo-pack r-zip
intel-ipp py-mock r-zlibbioc
intel-llvm py-modred r-zoo
intel-mkl py-moltemplate r3d
intel-mkl-dnn py-monotonic rabbitmq
intel-mpi py-monty racon
intel-parallel-studio py-more-itertools raft
intel-pin py-mpi4py ragel
intel-tbb py-mpld3 raja
intel-xed py-mpmath randfold
interproscan py-msgpack random123
intltool py-multi-key-dict randrproto
ioapi py-multiprocess range-v3
ior py-multiqc rankstr
iozone py-munch rapidjson
iperf2 py-mx ravel
iperf3 py-myhdl raxml
ipopt py-mypy ray
isaac py-mypy-extensions rclone
isaac-server py-mysql-connector-python rdma-core
isl py-mysqlclient rdp-classifier
iso-codes py-mysqldb1 rdptools
itstool py-natsort re2c
itsx py-nbconvert readfq
jackcess py-nbformat readline
jafka py-nc-time-axis recon
jags py-neo recordproto
jali py-nestle redis
jansson py-netcdf4 redset
jasper py-netifaces redundans
jbigkit py-networkx reframe
jchronoss py-nodeenv regcm
jdk py-nose relax
jellyfish py-nose-cov relion
jemalloc py-nose2 rempi
jmol py-nosexcover rename
jq py-notebook rendercheck
json-c py-numba renderproto
json-cwx py-numcodecs repeatmasker
json-fortran py-numexpr repeatmodeler
json-glib py-numexpr3 repeatscout
jsoncpp py-numpy resourceproto
jstorm py-numpydoc revbayes
jube py-oauth2client rgb
judy py-oauthlib rhash
julia py-olefile rlwrap
k8 py-onnx rmats
kafka py-ont-fast5-api rmlab
kahip py-openpmd-validator rna-seqc
kaiju py-openpyxl rnaz
kaks-calculator py-openslide-python rngstreams
kaldi py-opentuner rocketmq
kallisto py-opppy rocksdb
karma py-opt-einsum rockstar
kbproto py-ordereddict rodinia
kcov py-oset root
kdiff3 py-osqp rose
kealib py-overpy ross
keepalived py-owslib routino
kentutils py-packaging rpcsvc-proto
kibana py-palettable rr
kim-api py-pamela rsbench
kitty py-pandas rsem
kmergenie py-pandocfilters rstart
kokkos py-parameterized rsync
kokkos-kernels py-paramiko rt-tests
kraken py-parse rtags
krb5 py-parsedatetime rtax
krims py-parso ruby
kripke py-partd ruby-gnuplot
kvasir-mpl py-path-py ruby-narray
kvtree py-pathlib ruby-ronn
ladot py-pathlib2 ruby-rubyinline
laghos py-pathos ruby-svn2git
lame py-pathspec ruby-terminal-table
lammps py-patsy rust
last py-pauvre rust-bindgen
lastz py-pbr sabre
laszip py-pep8 saga-gis
latte py-pep8-naming sailfish
launchmon py-performance salmon
lazyten py-periodictable sambamba
lbann py-petsc4py samblaster
lbxproxy py-pexpect samrai
lbzip2 py-phonopy samtools
lcals py-pickleshare sandbox
lcms py-picrust sas
lcov py-pil satsuma2
ldc py-pillow savanna
ldc-bootstrap py-pint saws
legion py-pip sbt
lemon py-pipits scala
leveldb py-pispino scalasca
lftp py-pkgconfig scallop
libaec py-pkginfo scalpel
libaio py-planar scan-for-matches
libapplewm py-plotly scons
libarchive py-pluggy scorec-core
libassuan py-ply scorep
libatomic-ops py-pmw scotch
libbeagle py-portend scr
libbeato py-poster screen
libbsd py-pox scripts
libbson py-poyo scrnsaverproto
libcanberra py-ppft scs
libcap py-pre-commit sctk
libceed py-prettytable sdl2
libcerf py-progress sdl2-image
libcint py-progressbar2 sdsl-lite
libcircle py-projectq seacas
libconfig py-prometheus-client sed
libcroco py-prompt-toolkit sensei
libctl py-protobuf sentieon-genomics
libdap4 py-psutil seqan
libdivsufsort py-psyclone seqkit
libdmx py-psycopg2 seqprep
libdrm py-ptyprocess seqtk
libdwarf py-pudb serf
libeatmydata py-py sessreg
libedit py-py-cpuinfo setxkbmap
libelf py-py2bit sfcgal
libemos py-py2cairo sga
libepoxy py-py2neo shadow
libev py-py4j shapeit
libevent py-pyani shared-mime-info
libevpath py-pyarrow shiny-server
libexif py-pyasn1 shocklibs
libfabric py-pyasn1-modules shoremap
libfastcommon py-pybedtools shortbred
libffi py-pybigwig shortstack
libffs py-pybind11 showfont
libfive py-pybtex shtools
libflame py-pybtex-docutils shuffile
libfontenc py-pycairo sickle
libfs py-pycares siesta
libgcrypt py-pycbc signalp
libgd py-pychecker signify
libgeotiff py-pycmd silo
libgit2 py-pycodestyle simgrid
libglvnd py-pycparser simmetrix-simmodsuite
libgpg-error py-pycrypto simplemoc
libgpuarray py-pycuda simul
libgridxc py-pycurl simulationio
libgtextutils py-pydatalog singularity
libharu py-pydispatcher singularity-legacy
libhio py-pydot sirius
libiberty py-pydot2 skilion-onedrive
libibumad py-pydotplus skopeo
libice py-pydv sl
libiconv py-pyelftools slate
libid3tag py-pyepsg sleef
libidn2 py-pyfaidx slepc
libint py-pyfasta slurm
libjpeg py-pyfftw smalt
libjpeg-turbo py-pyflakes smof
libkml py-pygdal smproxy
libksba py-pygdbmi snakemake
liblas py-pygit2 snap
liblbxutil py-pyglet snap-berkeley
liblockfile py-pygments snap-korf
libmad py-pygobject snappy
libmatheval py-pygpu snbone
libmaxminddb py-pygresql sniffles
libmesh py-pygtk snpeff
libmmtf-cpp py-pyinstrument snphylo
libmng py-pyinstrument-cext snptest
libmo-unpack py-pyjwt soapdenovo-trans
libmonitor py-pyke soapdenovo2
libnbc py-pykml sofa-c
libnl py-pykwalify sollve
libnova py-pyliblzma somatic-sniper
libnrm py-pylint sortmerna
libnsl py-pymatgen sosflow
libogg py-pymeeus sowing
liboldx py-pyminifier sox
libpaper py-pymol spades
libpcap py-pymongo span-lite
libpciaccess py-pymorph spark
libpeas py-pympler sparsehash
libpfm4 py-pymysql sparta
libpipeline py-pynio spdlog
libplist py-pynn spectrum-mpi
libpmemobj-cpp py-pyodbc speex
libpng py-pyomo spfft
libpsl py-pyopenssl spglib
libpthread-stubs py-pypar sph2pipe
libquo py-pyparsing spherepack
librom py-pypeflow spindle
librsb py-pyperclip spm
librsvg py-pyperf spot
libseccomp py-pyprof2html sqlite
libsecret py-pyproj sqlitebrowser
libsharp py-pyqi squashfs
libshm py-pyqt4 squid
libsigcpp py-pyqt5 sratoolkit
libsigsegv py-pyrad ssht
libsm py-pyrosar sspace-longread
libsodium py-pyrsistent sspace-standard
libspatialindex py-pysam sst-core
libspatialite py-pyscaf sst-dumpi
libsplash py-pyserial sst-macro
libssh py-pyshp stacks
libssh2 py-pyside staden-io-lib
libsvm py-pyside2 star
libszip py-pysmartdl star-ccm-plus
libtasn1 py-pysocks startup-notification
libtermkey py-pyspark stat
libtiff py-pysqlite stata
libtirpc py-pytailf stc
libtomlc99 py-pytest steps
libtool py-pytest-cache storm
libunistring py-pytest-cov stow
libunwind py-pytest-flake8 strace
libusb py-pytest-forked stream
libusbmuxd py-pytest-httpbin strelka
libuuid py-pytest-isort stress
libuv py-pytest-mock string-view-lite
libvdwxc py-pytest-mypy stringtie
libvips py-pytest-pep8 structure
libvorbis py-pytest-runner strumpack
libvterm py-pytest-xdist sublime-text
libwebp py-pythia subread
libwebsockets py-python-daemon subversion
libwindowswm py-python-dateutil suite-sparse
libx11 py-python-editor sumaclust
libxau py-python-engineio sundials
libxaw py-python-gitlab superlu
libxaw3d py-python-igraph superlu-dist
libxc py-python-jenkins superlu-mt
libxcb py-python-ldap supernova
libxcomposite py-python-levenshtein sw4lite
libxcursor py-python-logstash swap-assembler
libxdamage py-python-magic swarm
libxdmcp py-python-mapnik swfft
libxevie py-python-meep swftools
libxext py-python-memcached swiftsim
libxfixes py-python-oauth2 swig
libxfont py-python-rapidjson swipl
libxfont2 py-python-slugify symengine
libxfontcache py-python-socketio sympol
libxft py-python-subunit sysstat
libxi py-python-utils sz
libxinerama py-pythonqwt tabix
libxkbcommon py-pytimeparse tajo
libxkbfile py-pytools talass
libxkbui py-pytz talloc
libxml2 py-pyudev tantan
libxmu py-pyugrid tar
libxp py-pyutilib targetp
libxpm py-pyvcf task
libxpresent py-pywavelets taskd
libxprintapputil py-pyyaml tasmanian
libxprintutil py-pyzmq tassel
libxrandr py-qtawesome tau
libxrender py-qtconsole tcl
libxres py-qtpy tcl-itcl
libxscrnsaver py-quantities tcl-tcllib
libxshmfence py-quast tcl-tclxml
libxslt py-queryablelist tclap
libxsmm py-radical-utils tcoffee
libxstream py-ranger-fm tcptrace
libxt py-rasterio tcsh
libxtrap py-ratelim tealeaf
libxtst py-raven teckit
libxv py-readme-renderer tecplot
libxvmc py-redis templight
libxxf86dga py-regex templight-tools
libxxf86misc py-reportlab tensorflow-serving-client
libxxf86vm py-repoze-lru tetgen
libyaml py-requests tethex
libyogrt py-requests-futures texinfo
libzip py-requests-mock texlive
libzmq py-requests-oauthlib texstudio
liggghts py-requests-toolbelt textparser
lighttpd py-restview tfel
likwid py-retrying the-platinum-searcher
linkphase3 py-rnacocktail the-silver-searcher
linux-headers py-rope thornado-mini
listres py-rpy2 thrift
lizard py-rsa thrust
llvm py-rseqc tig
llvm-flang py-rtree time
llvm-openmp py-ruamel-yaml timemory
llvm-openmp-ompt py-s3cmd tinker
lm-sensors py-s3transfer tinyxml
lmdb py-saga-python tinyxml2
lmod py-scandir tioga
lndir py-scientificpython tippecanoe
log4cplus py-scikit-build tix
log4cxx py-scikit-image tk
logstash py-scikit-learn tldd
loki py-scikit-optimize tmalign
lordec py-scipy tmhmm
lrslib py-scoop tmux
lrzip py-scp tmuxinator
lsf py-scs tomcat
lshw py-seaborn tophat
lsof py-selenium tppred
ltp py-semantic-version tracer
ltrace py-semver transabyss
lua py-send2trash transdecoder
lua-bitlib py-setuptools transposome
lua-lpeg py-setuptools-git transset
lua-luafilesystem py-setuptools-scm trapproto
lua-luajit py-setuptools-scm-git-archive tree
lua-luaposix py-sfepy treesub
lua-mpack py-sgp4 trf
lucene py-sh triangle
luit py-shapely trilinos
lulesh py-shiboken trilinos-catalyst-ioss-adapter
lumpy-sv py-simplegeneric trimal
lvm2 py-simplejson trimgalore
lwgrp py-simplekml trimmomatic
lwm2 py-singledispatch trinity
lz4 py-sip trinotate
lzma py-six trnascan-se
lzo py-slepc4py turbine
m4 py-slurm-pipeline turbomole
macsio py-smart-open tut
mad-numdiff py-sncosmo twm
mafft py-snowballstemmer tycho2
magics py-snuggs typhon
magma py-sortedcontainers typhonio
makedepend py-soupsieve ucx
maker py-spatialist udunits
mallocmc py-spdlog ufo-core
man-db py-spectra ufo-filters
manta py-spefile umap
mapnik py-spglib umoci
mapserver py-sphinx umpire
maq py-sphinx-bootstrap-theme unblur
margo py-sphinx-rtd-theme uncrustify
mariadb py-sphinxautomodapi unibilium
mariadb-c-client py-sphinxcontrib-applehelp unifdef
masa py-sphinxcontrib-bibtex unifyfs
masurca py-sphinxcontrib-devhelp unison
mathematica py-sphinxcontrib-htmlhelp units
matio py-sphinxcontrib-issuetracker unittest-cpp
matlab py-sphinxcontrib-jsmath unixodbc
maven py-sphinxcontrib-programoutput unrar
maverick py-sphinxcontrib-qthelp unuran
mawk py-sphinxcontrib-serializinghtml unzip
mbdyn py-sphinxcontrib-websupport upcxx
mbedtls py-spyder uriparser
mc py-spykeutils usearch
mcl py-sqlalchemy utf8proc
mdtest py-statsmodels util-linux
med py-stestr util-macros
meep py-stevedore uuid
mefit py-storm uvw
megadock py-stratify valgrind
megahit py-subprocess32 vampirtrace
memaxes py-subrosa vardictjava
memcached py-svgpathtools variorum
meme py-svgwrite varscan
memkind py-symengine vc
memsurfer py-symfit vcftools
meraculous py-sympy vcsh
mercurial py-syned vdt
mercury py-systemd-python vecgeom
mesa py-tables veclibfort
mesa-glu py-tabulate vegas2
meshkit py-tap-py veloc
meson py-tatsu velvet
mesquite py-tblib verilator
metabat py-tempora verrou
metall py-tensorflow vesta
metaphysicl py-tensorflow-estimator videoproto
metis py-termcolor viennarna
mfem py-terminado viewres
mg py-testinfra vigra
mgis py-testpath vim
microbiomeutil py-testrepository virtualgl
migrate py-testresources visit
mii py-testscenarios vizglow
minced py-testtools vmatch
mindthegap py-tetoolkit voropp
miniaero py-text-unidecode votca-csg
miniamr py-texttable votca-csg-tutorials
miniasm py-theano votca-csgapps
miniconda2 py-thirdorder votca-ctp
miniconda3 py-tifffile votca-tools
minife py-toml votca-xtp
minighost py-tomopy vpfft
minigmg py-toolz vpic
minimap2 py-torch vsearch
minimd py-torchvision vt
miniqmc py-tornado vtk
minisign py-tox vtk-h
minismac2d py-tqdm vtk-m
minitri py-traceback2 wannier90
minivite py-traitlets warpx
minixyce py-treehash watch
minizip py-tuiview wcslib
minuit py-twine wget
mira py-twisted wgsim
miranda py-typed-ast which
mirdeep2 py-typesentry windowswmproto
mitofates py-typing wireshark
mitos py-typing-extensions wordnet
mixcr py-tzlocal workrave
mkfontdir py-ujson wt
mkfontscale py-umalqurra wtdbg2
mlhka py-umi-tools wxpropgrid
mmg py-unicycler wxwidgets
moab py-unittest2 x11perf
modern-wheel py-unittest2py3k xapian-core
mofem-cephas py-uritemplate xauth
mofem-fracture-module py-urllib3 xbacklight
mofem-minimal-surface-equation py-urwid xbiff
mofem-users-modules py-us xbitmaps
molcas py-usgs xbraid
mongo-c-driver py-uwsgi xcalc
mongo-cxx-driver py-vcversioner xcb-demo
mono py-vermin xcb-proto
montage py-vine xcb-util
moosefs py-virtualenv xcb-util-cursor
moreutils py-virtualenv-clone xcb-util-errors
mosh py-virtualenvwrapper xcb-util-image
mothur py-voluptuous xcb-util-keysyms
motif py-vsc-base xcb-util-renderutil
motioncor2 py-vsc-install xcb-util-wm
mount-point-attributes py-wand xcb-util-xrm
mozjs py-warlock xclip
mpark-variant py-wcsaxes xclipboard
mpc py-wcwidth xclock
mpdecimal py-weave xcmiscproto
mpe2 py-webencodings xcmsdb
mpest py-webkit-server xcompmgr
mpfr py-weblogo xconsole
mpi-bash py-werkzeug xcursor-themes
mpich py-whatshap xcursorgen
mpifileutils py-wheel xdbedizzy
mpilander py-whichcraft xditview
mpileaks py-widgetsnbextension xdm
mpip py-wradlib xdmf3
mpir py-wrapt xdpyinfo
mpix-launch-swift py-wub xdriinfo
mpt py-wxmplot xedit
mrbayes py-wxpython xerces-c
mrnet py-xarray xeus
mrtrix3 py-xattr xev
mscgen py-xdot xextproto
msgpack-c py-xenv xeyes
mshadow py-xlrd xf86bigfontproto
msmc py-xlsxwriter xf86dga
mstk py-xlwt xf86dgaproto
multitail py-xmlrunner xf86driproto
multitime py-xmltodict xf86miscproto
multiverso py-xopen xf86rushproto
mummer py-xpyb xf86vidmodeproto
mumps py-xvfbwrapper xfd
munge py-yajl xfindproxy
muparser py-yamlreader xfontsel
muscle py-yapf xfs
muse py-yt xfsinfo
musl py-ytopt xfwp
muster py-zarr xgamma
mutationpp py-zc-buildout xgboost
mvapich2 py-zc-lockfile xgc
mxml py-zict xhmm
mxnet py-zipp xhost
mysql py-zope-event xineramaproto
nag py-zope-interface xinit
nalu py-zxcvbn xinput
nalu-wind pythia6 xios
namd pythia8 xkbcomp
nano python xkbdata
nanoflann qbank xkbevd
nanopb qbox xkbprint
nasm qca xkbutils
nauty qemu xkeyboard-config
ncbi-magicblast qhull xkill
ncbi-rmblastn qjson xload
ncbi-toolkit qmcpack xlogo
nccl qmd-progress xlsatoms
nccmp qnnpack xlsclients
ncdu qorts xlsfonts
ncftp qperf xmag
ncl qrupdate xman
nco qscintilla xmessage
ncurses qt xmh
ncview qt-creator xmlf90
ndiff qtgraph xmlto
nek5000 qthreads xmodmap
nekbone qtkeychain xmore
nekcem quantum-espresso xorg-cf-files
nektar quinoa xorg-docs
nektools qwt xorg-gtest
neovim qwtpolar xorg-server
nest r xorg-sgml-doctools
netcdf-c r-a4 xphelloworld
netcdf-cxx r-a4base xplor-nih
netcdf-cxx4 r-a4classif xplsprinters
netcdf-fortran r-a4core xpr
netgauge r-a4preproc xprehashprinterlist
netgen r-a4reporting xprop
netlib-lapack r-abadata xproto
netlib-scalapack r-abaenrichment xproxymanagementprotocol
netlib-xblas r-abind xqilla
netperf r-absseq xrandr
nettle r-acde xrdb
neuron r-acepack xrefresh
nextflow r-acgh xrootd
nfft r-acme xrx
nghttp2 r-ada xsbench
nginx r-adabag xscope
ngmlr r-ade4 xsd
nicstat r-adegenet xsdk
nim r-adgoftest xsdktrilinos
ninja r-adsplit xset
ninja-fortran r-aer xsetmode
nix r-affxparser xsetpointer
nlohmann-json r-affy xsetroot
nlopt r-affycomp xsimd
nmap r-affycompatible xsm
nnvm r-affycontam xssp
node-js r-affycoretools xstdcmap
notmuch r-affydata xtensor
npb r-affyexpress xtensor-python
npm r-affyilm xterm
npth r-affyio xtl
nrm r-affypdnn xtrans
nseg r-affyplm xtrap
nsimd r-affyqcreport xts
nspr r-affyrnadegradation xvidtune
ntpoly r-agdex xvinfo
numactl r-agilp xwd
numdiff r-agimicrorna xwininfo
nut r-aims xwud
nvptx-tools r-aldex2 xxhash
nwchem r-allelicimbalance xz
nyancat r-alpine yajl
ocaml r-als yambo
occa r-alsace yaml-cpp
oce r-altcdfenvs yara
oclint r-amap yasm
oclock r-ampliqueso yorick
octave r-analysispageserver z3
octave-optim r-anaquin zfp
octave-splines r-aneufinder zip
octave-struct r-aneufinderdata zlib
octopus r-animation zoltan
of-catalyst r-annaffy zookeeper
of-precice r-annotate zsh
omega-h r-annotationdbi zstd
ompss r-annotationfilter zziplib
ompt-openmp r-annotationforge None

abinit

Homepage:
Spack package:
Versions:
8.10.3, 8.8.2, 8.6.3, 8.2.2, 8.0.8b
Build Dependencies:
blas, lapack, mpi, scalapack, fftw, netcdf-fortran, hdf5, libxc
Link Dependencies:
blas, lapack, mpi, scalapack, fftw, netcdf-fortran, hdf5, libxc
Description:
ABINIT is a package whose main program allows one to find the total energy, charge density and electronic structure of systems made of electrons and nuclei (molecules and periodic solids) within Density Functional Theory (DFT), using pseudopotentials and a planewave or wavelet basis. ABINIT also includes options to optimize the geometry according to the DFT forces and stresses, or to perform molecular dynamics simulations using these forces, or to generate dynamical matrices, Born effective charges, and dielectric tensors, based on Density-Functional Perturbation Theory, and many more properties. Excited states can be computed within the Many-Body Perturbation Theory (the GW approximation and the Bethe-Salpeter equation), and Time- Dependent Density Functional Theory (for molecules). In addition to the main ABINIT code, different utility programs are provided.

abseil-cpp

Homepage:
Spack package:
Versions:
20190808, 20181200, 20180600
Build Dependencies:
cmake
Description:
Abseil Common Libraries (C++)

abyss

Homepage:
Spack package:
Versions:
2.1.4, 2.0.2, 1.5.2
Build Dependencies:
autoconf, automake, mpi, boost, sparsehash, sqlite, libtool
Link Dependencies:
mpi, boost, sparsehash, sqlite, libtool
Run Dependencies:
bwa
Description:
ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads. The single-processor version is useful for assembling genomes up to 100 Mbases in size.

accfft

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cuda, cmake, fftw, parallel-netcdf
Link Dependencies:
cuda, fftw, parallel-netcdf
Description:
AccFFT extends existing FFT libraries for CUDA-enabled Graphics Processing Units (GPUs) to distributed memory clusters

ace

Homepage:
Spack package:
Versions:
6.5.6, 6.5.1, 6.5.0
Description:
ACE is an open-source framework that provides many components and patterns for developing high-performance, distributed real-time and embedded systems. ACE provides powerful, yet efficient abstractions for sockets, demultiplexing loops, threads, synchronization primitives.

ack

Homepage:
Spack package:
Versions:
2.22, 2.18, 2.16, 2.14
Build Dependencies:
perl
Link Dependencies:
perl
Description:
ack 2.14 is a tool like grep, optimized for programmers. Designed for programmers with large heterogeneous trees of source code, ack is written purely in portable Perl 5 and takes advantage of the power of Perl's regular expressions.

acpid

Homepage:
Spack package:
Versions:
2.0.28, 2.0.27, 2.0.26, 2.0.25, 2.0.24
Build Dependencies:
autoconf, automake, libtool, m4
Description:
ACPID used to try to handle events internally. Rather than try to climb an ever-growing mountain, ACPID now lets YOU define what events to handle. Any event that publishes itself to /proc/acpi/event can be handled. ACPID reads a set of configuration files which define event->action pairs. This is how you make it do stuff. See the man page for details.

activeharmony

Homepage:
Spack package:
Versions:
4.5
Description:
Active Harmony: a framework for auto-tuning (the automated search for values to improve the performance of a target application).

activemq

Homepage:
Spack package:
Versions:
5.14.0
Description:
Apache ActiveMQ is a high performance Apache 2.0 licensed Message Broker and JMS 1.1 implementation.

acts-core

Homepage:
Spack package:
Versions:
develop, 0.16.0, 0.15.0, 0.14.0, 0.13.0, 0.12.1, 0.12.0, 0.11.1, 0.11.0, 0.10.5, 0.10.4, 0.10.3, 0.10.2, 0.10.1, 0.10.0, 0.09.5, 0.09.4, 0.09.3, 0.09.2, 0.09.1, 0.09.0, 0.08.2, 0.08.1, 0.08.0
Build Dependencies:
cmake, boost, eigen, nlohmann-json, root, dd4hep
Link Dependencies:
boost, nlohmann-json, root, dd4hep
Description:
A Common Tracking Software (ACTS) This project contains an experiment- independent set of track reconstruction tools. The main philosophy is to provide high-level track reconstruction modules that can be used for any tracking detector. The description of the tracking detector's geometry is optimized for efficient navigation and quick extrapolation of tracks. Converters for several common geometry description languages exist. Having a highly performant, yet largely customizable implementation of track reconstruction algorithms was a primary objective for the design of this toolset. Additionally, the applicability to real-life HEP experiments plays major role in the development process. Apart from algorithmic code, this project also provides an event data model for the description of track parameters and measurements. Key features of this project include: tracking geometry description which can be constructed from TGeo, DD4Hep, or GDML input, simple and efficient event data model, performant and highly flexible algorithms for track propagation and fitting, basic seed finding algorithms.

adept-utils

Homepage:
Spack package:
Versions:
1.0.1, 1.0
Build Dependencies:
cmake, boost, mpi
Link Dependencies:
boost, mpi
Description:
Utility libraries for LLNL performance tools.

adf

Homepage:
Spack package:
Versions:
2017.113
Description:
Amsterdam Density Functional (ADF) is a program for first-principles electronic structure calculations that makes use of density functional theory.

adiak

Homepage:
Spack package:
Versions:
0.1.1
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Adiak collects metadata about HPC application runs and provides it to tools.

adios

Homepage:
Spack package:
Versions:
develop, 1.13.1, 1.13.0, 1.12.0, 1.11.1, 1.11.0, 1.10.0, 1.9.0
Build Dependencies:
autoconf, automake, m4, libtool, python, mpi, zlib, bzip2, szip, sz, zfp, lz4, c-blosc, hdf5, netcdf-c, libevpath, dataspaces
Link Dependencies:
mpi, zlib, bzip2, szip, sz, zfp, lz4, c-blosc, hdf5, netcdf-c, libevpath, dataspaces
Description:
The Adaptable IO System (ADIOS) provides a simple, flexible way for scientists to describe the data in their code that may need to be written, read, or processed outside of the running simulation.

adios2

Homepage:
Spack package:
Versions:
develop, 2.5.0, 2.4.0, 2.3.1
Build Dependencies:
cmake, pkgconfig, libffi, libfabric, mpi, libzmq, dataspaces, hdf5, c-blosc, bzip2, libpng, zfp, sz, python, py-numpy, py-mpi4py
Link Dependencies:
libffi, libfabric, mpi, libzmq, dataspaces, hdf5, c-blosc, bzip2, libpng, zfp, sz, python
Run Dependencies:
python, py-numpy, py-mpi4py
Description:
The Adaptable Input Output System version 2, developed in the Exascale Computing Program

adlbx

Homepage:
Spack package:
Versions:
master, 0.9.2, 0.9.1
Build Dependencies:
exmcutils, autoconf, automake, libtool, m4, mpi
Link Dependencies:
exmcutils, mpi
Description:
ADLB/X: Master-worker library + work stealing and data dependencies

adol-c

Homepage:
Spack package:
Versions:
develop, 2.6.3, 2.6.2, 2.6.1, 2.5.2
Build Dependencies:
automake, autoconf, libtool, m4, boost
Link Dependencies:
boost
Description:
A package for the automatic differentiation of first and higher derivatives of vector functions in C and C++ programs by operator overloading.

advancecomp

Homepage:
Spack package:
Versions:
2.1, 2.0, 1.23, 1.22
Build Dependencies:
autoconf, automake, libtool, m4
Description:
AdvanceCOMP contains recompression utilities for your .zip archives, .png images, .mng video clips and .gz files.

aegean

Homepage:
Spack package:
Versions:
0.15.2
Build Dependencies:
genometools
Link Dependencies:
genometools
Description:
The AEGeAn Toolkit is designed for the Analysis and Evaluation of Genome Annotations. The toolkit includes a variety of analysis programs as well as a C library whose API provides access to AEGeAn's core functions and data structures.

aida

Homepage:
Spack package:
Versions:
3.2.1
Description:
Abstract Interfaces for Data Analysis

akantu

Homepage:
Spack package:
Versions:
master, 3.0.0
Build Dependencies:
cmake, boost, lapack, python, py-numpy, py-scipy, py-pybind11, mumps, netlib-scalapack, petsc, mpi, scotch
Link Dependencies:
boost, lapack, python, mumps, netlib-scalapack, petsc, mpi, scotch
Run Dependencies:
python, py-numpy, py-scipy, py-pybind11
Description:
Akantu means a little element in Kinyarwanda, a Bantu language. From now on it is also an opensource object-oriented Finite Element library which has the ambition to be generic and efficient.

alan

Homepage:
Spack package:
Versions:
2.1.1
Description:
Alignment viewer for linux terminal

albany

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, mpi, trilinos
Link Dependencies:
mpi, trilinos
Description:
Albany is an implicit, unstructured grid, finite element code for the solution and analysis of multiphysics problems. The Albany repository on the GitHub site contains hundreds of regression tests and examples that demonstrate the code's capabilities on a wide variety of problems including fluid mechanics, solid mechanics (elasticity and plasticity), ice-sheet flow, quantum device modeling, and many other applications.

albert

Homepage:
Spack package:
Versions:
4.0a_opt4
Build Dependencies:
readline
Link Dependencies:
readline
Description:
Albert is an interactive program to assist the specialist in the study of nonassociative algebra.

alglib

Homepage:
Spack package:
Versions:
3.11.0
Description:
ALGLIB is a cross-platform numerical analysis and data processing library.

allpaths-lg

Homepage:
Spack package:
Versions:
52488
Description:
ALLPATHS-LG is our original short read assembler and it works on both small and large (mammalian size) genomes.

alluxio

Homepage:
Spack package:
Versions:
2.1.0
Description:
Alluxio (formerly known as Tachyon) is a virtual distributed storage system. It bridges the gap between computation frameworks and storage systems, enabling computation applications to connect to numerous storage systems through a common interface.

alquimia

Homepage:
Spack package:
Versions:
develop, xsdk-0.5.0, xsdk-0.4.0, xsdk-0.3.0, xsdk-0.2.0
Build Dependencies:
cmake, mpi, hdf5, pflotran, petsc
Link Dependencies:
mpi, hdf5, pflotran, petsc
Description:
Alquimia is an interface that exposes the capabilities of mature geochemistry codes such as CrunchFlow and PFLOTRAN

alsa-lib

Homepage:
Spack package:
Versions:
1.1.4.1
Description:
The Advanced Linux Sound Architecture (ALSA) provides audio and MIDI functionality to the Linux operating system. alsa-lib contains the user space library that developers compile ALSA applications against.

aluminum

Homepage:
Spack package:
Versions:
master, 0.3.3, 0.3.2, 0.2.1-1, 0.2.1, 0.2, 0.1
Build Dependencies:
cmake, cuda, mpi, nccl, hwloc, ninja
Link Dependencies:
cuda, mpi, nccl, hwloc
Description:
Aluminum provides a generic interface to high-performance communication libraries, with a focus on allreduce algorithms. Blocking and non- blocking algorithms and GPU-aware algorithms are supported. Aluminum also contains custom implementations of select algorithms to optimize for certain situations.

amber

Homepage:
Spack package:
Versions:
18, 16
Build Dependencies:
cuda, zlib, flex, bison, netcdf-fortran, mpi
Link Dependencies:
cuda, zlib, netcdf-fortran, mpi
Description:
Amber is a suite of biomolecular simulation programs. Note: A manual download is required for Amber. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see http://spack.readthedocs.io/en/latest/mirrors.html

blis

Homepage:
Spack package:
Versions:
2.1
Build Dependencies:
python
Run Dependencies:
python
Description:
AMD Optimized BLIS. BLIS is a portable software framework for instantiating high-performance BLAS-like dense linear algebra libraries. The framework was designed to isolate essential kernels of computation that, when optimized, immediately enable optimized implementations of most of its commonly used and computationally intensive operations.

amg

Homepage:
Spack package:
Versions:
develop, 1.2, 1.1, 1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
AMG is a parallel algebraic multigrid solver for linear systems arising from problems on unstructured grids. The driver provided with AMG builds linear systems for various 3-dimensional problems.

amg2013

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
AMG2013 is a parallel algebraic multigrid solver for linear systems arising from problems on unstructured grids. It has been derived directly from the BoomerAMG solver in the hypre library, a large linear solver library that is being developed in the Center for Applied Scientific Computing (CASC) at LLNL.

aml

Homepage:
Spack package:
Versions:
develop, master, 0.1.0
Build Dependencies:
numactl, m4, autoconf, automake, libtool
Link Dependencies:
numactl
Description:
AML: Building Blocks for Memory Management.

amp

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, blas, lapack, boost, petsc, trilinos, hdf5, silo, zlib, mpi
Link Dependencies:
blas, lapack, boost, petsc, trilinos, hdf5, silo, zlib, mpi
Description:
The Advanced Multi-Physics (AMP) package is an open source parallel object-oriented computational framework that is designed with single and multi-domain multi-physics applications in mind. AMP can be used to build powerful and flexible multi-physics simulation algorithms from lightweight operator, solver, linear algebra, material database, discretization, and meshing components. The AMP design is meant to enable existing investments in application codes to be leveraged without having to adopt dramatically different data structures while developing new computational science applications. Application components are represented as discrete mathematical operators that only require a minimal interface and through operator composition the incremental development of complex parallel applications is enabled. AMP is meant to allow application domain scientists, computer scientists and mathematicians to simulate, collaborate, and conduct research on various aspects of massively parallel simulation algorithms.

ampliconnoise

Homepage:
Spack package:
Versions:
1.29
Build Dependencies:
mpi, gsl
Link Dependencies:
mpi, gsl
Description:
AmpliconNoise is a collection of programs for the removal of noise from 454 sequenced PCR amplicons.

amrex

Homepage:
Spack package:
Versions:
develop, 20.02, 20.01, 19.10, 19.08, 18.10.1, 18.10, 18.09.1
Build Dependencies:
cmake, mpi, sundials, python
Link Dependencies:
mpi, sundials
Description:
AMReX is a publicly available software framework designed for building massively parallel block- structured adaptive mesh refinement (AMR) applications.

amrvis

Homepage:
Spack package:
Versions:
master
Build Dependencies:
gmake, mpi, libsm, libice, libxpm, libx11, libxt, libxext, motif, flex, bison
Link Dependencies:
mpi, libsm, libice, libxpm, libx11, libxt, libxext, motif, flex, bison
Description:
Amrvis is a visualization package specifically designed to read and display output and profiling data from codes built on the AMReX framework.

andi

Homepage:
Spack package:
Versions:
0.10
Build Dependencies:
m4, autoconf, automake, libtool, gsl, libdivsufsort
Link Dependencies:
gsl, libdivsufsort
Description:
andi is used for for estimating the evolutionary distance between closely related genomes.

angsd

Homepage:
Spack package:
Versions:
0.921, 0.919
Build Dependencies:
htslib
Link Dependencies:
htslib
Description:
Angsd is a program for analysing NGS data. The software can handle a number of different input types from mapped reads to imputed genotype probabilities. Most methods take genotype uncertainty into account instead of basing the analysis on called genotypes. This is especially useful for low and medium depth data.

ant

Homepage:
Spack package:
Versions:
1.10.7, 1.10.6, 1.10.5, 1.10.4, 1.10.3, 1.10.2, 1.10.1, 1.10.0, 1.9.9, 1.9.8, 1.9.7, 1.9.6
Build Dependencies:
java
Link Dependencies:
java
Description:
Apache Ant is a Java library and command-line tool whose mission is to drive processes described in build files as targets and extension points dependent upon each other

antlr

Homepage:
Spack package:
Versions:
2.7.7
Build Dependencies:
python, java
Link Dependencies:
python
Run Dependencies:
java
Description:
ANTLR (ANother Tool for Language Recognition) is a powerful parser generator for reading, processing, executing, or translating structured text or binary files. It's widely used to build languages, tools, and frameworks. From a grammar, ANTLR generates a parser that can build and walk parse trees.

ants

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
cmake
Link Dependencies:
zlib
Description:
ANTs extracts information from complex datasets that include imaging. Paired with ANTsR (answer), ANTs is useful for managing, interpreting and visualizing multidimensional data. ANTs is popularly considered a state-of-the-art medical image registration and segmentation toolkit. ANTs depends on the Insight ToolKit (ITK), a widely used medical image processing library to which ANTs developers contribute.

aoflagger

Homepage:
Spack package:
Versions:
2.10.0
Build Dependencies:
cmake, casacore, fftw, boost, libxml2, lapack, cfitsio
Link Dependencies:
casacore, fftw, boost, libxml2, lapack, cfitsio
Description:
RFI detector and quality analysis for astronomical radio observations.

aom

Homepage:
Spack package:
Versions:
v1.0.0-errata1
Build Dependencies:
cmake, yasm
Link Dependencies:
yasm
Description:
Alliance for Open Media AOM AV1 Codec Library

apachetop

Homepage:
Spack package:
Versions:
0.19.7, 0.18.4, 0.17.4, 0.15.6
Build Dependencies:
autoconf, automake, libtool, m4, readline
Link Dependencies:
readline
Description:
ApacheTop watches a logfile generated by Apache (in standard common or combined logformat, and generates human-parsable output in realtime.) See the INSTALL file for ./configure options (there's a few newly added since v0.11)

ape

Homepage:
Spack package:
Versions:
2.2.1
Build Dependencies:
gsl, libxc
Link Dependencies:
gsl, libxc
Description:
A tool for generating atomic pseudopotentials within a Density- Functional Theory framework

aperture-photometry

Homepage:
Spack package:
Versions:
2.7.2
Build Dependencies:
java
Link Dependencies:
java
Description:
Aperture Photometry Tool APT is software for astronomical research

apex

Homepage:
Spack package:
Versions:
0.1
Build Dependencies:
cmake, binutils, boost, activeharmony, ompt-openmp
Link Dependencies:
binutils, boost, activeharmony, ompt-openmp
Description:
Autonomic Performance Environment for eXascale (APEX).

apple-libunwind

Homepage:
Spack package:
Description:
Placeholder package for Apple's analogue to non-GNU libunwind

applewmproto

Homepage:
Spack package:
Versions:
1.4.2
Build Dependencies:
pkgconfig, util-macros
Description:
Apple Rootless Window Management Extension. This extension defines a protcol that allows X window managers to better interact with the Mac OS X Aqua user interface when running X11 in a rootless mode.

appres

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
libx11, libxt, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxt
Description:
The appres program prints the resources seen by an application (or subhierarchy of an application) with the specified class and instance names. It can be used to determine which resources a particular program will load.

apr

Homepage:
Spack package:
Versions:
1.7.0, 1.6.2, 1.5.2
Description:
Apache portable runtime.

apr-util

Homepage:
Spack package:
Versions:
1.6.1, 1.6.0, 1.5.4
Build Dependencies:
apr, expat, libiconv, openssl, gdbm, postgresql, sqlite, unixodbc
Link Dependencies:
apr, expat, libiconv, openssl, gdbm, postgresql, sqlite, unixodbc
Description:
Apache Portable Runtime Utility

aragorn

Homepage:
Spack package:
Versions:
1.2.38, 1.2.36
Description:
ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences.

arborx

Homepage:
Spack package:
Versions:
master, 0.8-beta2
Build Dependencies:
cmake, cuda, mpi, kokkos
Link Dependencies:
cuda, mpi, kokkos
Description:
ArborX is a performance-portable library for geometric search

archer

Homepage:
Spack package:
Versions:
2.0.0, 1.0.0
Build Dependencies:
cmake, llvm, ninja, llvm-openmp-ompt
Link Dependencies:
llvm, llvm-openmp-ompt
Description:
ARCHER, a data race detection tool for large OpenMP applications.

argobots

Homepage:
Spack package:
Versions:
master, 1.0rc2, 1.0rc1, 1.0b1, 1.0a1
Build Dependencies:
m4, autoconf, automake, libtool, valgrind
Link Dependencies:
valgrind
Description:
Argobots, which was developed as a part of the Argo project, is a lightweight runtime system that supports integrated computation and data movement with massive concurrency. It will directly leverage the lowest- level constructs in the hardware and OS: lightweight notification mechanisms, data movement engines, memory mapping, and data placement strategies. It consists of an execution model and a memory model.

argp-standalone

Homepage:
Spack package:
Versions:
1.3
Description:
Standalone version of the argp interface from glibc for parsing unix- style arguments.

argtable

Homepage:
Spack package:
Versions:
2-13
Description:
Argtable is an ANSI C library for parsing GNU style command line options with a minimum of fuss.

aria2

Homepage:
Spack package:
Versions:
1.34.0
Build Dependencies:
libxml2, libssh2, libgcrypt, zlib, c-ares, sqlite
Link Dependencies:
libxml2, libssh2, libgcrypt, zlib, c-ares, sqlite
Description:
An ultra fast download utility

arm-forge

Homepage:
Spack package:
Versions:
19.0.4-19.0.4-Ubuntu-16.04-x86_64, 19.0.4-Ubuntu-16.04-aarch64, 19.0.4-Ubuntu-14.04-x86_64, 19.0.4-Suse-15-x86_64, 19.0.4-Suse-12-x86_64, 19.0.4-Suse-12-aarch64, 19.0.4-Suse-11-x86_64, 19.0.4-Redhat-7.4-aarch64, 19.0.4-Redhat-7.2-ppc64le, 19.0.4-Redhat-7.0-x86_64, 19.0.4-Redhat-6.0-x86_64, 19.0.3-Ubuntu-16.04-x86_64, 19.0.3-Ubuntu-16.04-aarch64, 19.0.3-Ubuntu-14.04-x86_64, 19.0.3-Suse-12-x86_64, 19.0.3-Suse-12-aarch64, 19.0.3-Suse-11-x86_64, 19.0.3-Redhat-7.4-aarch64, 19.0.3-Redhat-7.2-ppc64le, 19.0.3-Redhat-7.0-x86_64, 19.0.3-Redhat-6.0-x86_64
Description:
Arm Forge is the complete toolsuite for software development - with everything needed to debug, profile, optimize, edit and build C, C++ and Fortran applications on Linux for high performance - from single threads through to complex parallel HPC codes with MPI, OpenMP, threads or CUDA.

armadillo

Homepage:
Spack package:
Versions:
9.800.3, 8.100.1, 7.950.1
Build Dependencies:
cmake, arpack-ng, blas, lapack, superlu, hdf5
Link Dependencies:
arpack-ng, blas, lapack, superlu, hdf5
Description:
Armadillo is a high quality linear algebra library (matrix maths) for the C++ language, aiming towards a good balance between speed and ease of use.

arpack-ng

Homepage:
Spack package:
Versions:
develop, 3.7.0, 3.6.3, 3.6.2, 3.6.0, 3.5.0, 3.4.0, 3.3.0
Build Dependencies:
blas, lapack, automake, autoconf, libtool, cmake, mpi
Link Dependencies:
blas, lapack, mpi
Description:
ARPACK-NG is a collection of Fortran77 subroutines designed to solve large scale eigenvalue problems. Important Features: * Reverse Communication Interface. * Single and Double Precision Real Arithmetic Versions for Symmetric, Non-symmetric, Standard or Generalized Problems. * Single and Double Precision Complex Arithmetic Versions for Standard or Generalized Problems. * Routines for Banded Matrices - Standard or Generalized Problems. * Routines for The Singular Value Decomposition. * Example driver routines that may be used as templates to implement numerous Shift-Invert strategies for all problem types, data types and precision. This project is a joint project between Debian, Octave and Scilab in order to provide a common and maintained version of arpack. Indeed, no single release has been published by Rice university for the last few years and since many software (Octave, Scilab, R, Matlab...) forked it and implemented their own modifications, arpack-ng aims to tackle this by providing a common repository and maintained versions. arpack-ng is replacing arpack almost everywhere.

arrow

Homepage:
Spack package:
Versions:
0.15.1, 0.15.0, 0.14.1, 0.12.1, 0.11.0, 0.9.0, 0.8.0
Build Dependencies:
cmake, boost, flatbuffers, python, py-numpy, rapidjson, snappy, zlib, zstd
Link Dependencies:
boost, flatbuffers, python, py-numpy, rapidjson, snappy, zlib, zstd
Description:
A cross-language development platform for in-memory data. This package contains the C++ bindings.

asagi

Homepage:
Spack package:
Versions:
1.0.1, 1.0
Build Dependencies:
cmake, mpi, netcdf-c, numactl
Link Dependencies:
mpi, netcdf-c, numactl
Description:
a pArallel Server for Adaptive GeoInformation.

ascent

Homepage:
Spack package:
Versions:
develop, 0.5.0
Build Dependencies:
cuda, cmake, conduit, python, py-numpy, py-pip, mpi, py-mpi4py, vtk-h, mfem, adios, py-sphinx, py-sphinx-rtd-theme
Link Dependencies:
cuda, conduit, python, mpi, py-mpi4py, vtk-h, mfem, adios
Run Dependencies:
py-numpy, py-pip
Description:
Ascent is an open source many-core capable lightweight in situ visualization and analysis infrastructure for multi-physics HPC simulations.

asciidoc

Homepage:
Spack package:
Versions:
8.6.9
Build Dependencies:
libxml2, libxslt, docbook-xml, docbook-xsl
Link Dependencies:
libxml2, libxslt, docbook-xml, docbook-xsl
Description:
A presentable text document format for writing articles, UNIX man pages and other small to medium sized documents.

asciidoctor

Homepage:
Spack package:
Versions:
1.5.8
Build Dependencies:
ruby
Link Dependencies:
ruby
Description:
Modern asciidoc tool based on ruby

asdf-cxx

Homepage:
Spack package:
Versions:
7.2.1, 7.2.0, 7.1.0, 7.0.0, 6.3.0, 6.0.0, 5.0.0, 4.0.1, 3.1.0, 3.0.0, 2.6.1, 2.5.1, 2.5.0, 2.4.1, 2.4.0, 2.3.1, 2.2.1, 2.1.1, 2.1.0, 1.1.0, 1.0.0
Build Dependencies:
cmake, bzip2, openssl, py-numpy, python, swig, yaml-cpp, zlib
Link Dependencies:
bzip2, openssl, yaml-cpp, zlib
Run Dependencies:
py-numpy, python
Description:
ASDF - Advanced Scientific Data Format, a C++ implementation

aspa

Homepage:
Spack package:
Versions:
master
Build Dependencies:
lapack, blas, mpi, hdf5
Link Dependencies:
lapack, blas, mpi, hdf5
Description:
A fundamental premise in ExMatEx is that scale-bridging performed in heterogeneous MPMD materials science simulations will place important demands upon the exascale ecosystem that need to be identified and quantified.

aspcud

Homepage:
Spack package:
Versions:
1.9.4
Build Dependencies:
cmake, boost, re2c, clingo
Link Dependencies:
clingo
Description:
Aspcud: Package dependency solver Aspcud is a solver for package dependencies. A package universe and a request to install, remove, or upgrade packages have to be encoded in the CUDF format. Such a CUDF document can then be passed to aspcud along with an optimization criteria to obtain a solution to the given package problem.

aspect

Homepage:
Spack package:
Versions:
develop, 2.1.0, 2.0.1, 2.0.0
Build Dependencies:
cmake, dealii, dealii-parameter-gui
Link Dependencies:
dealii, dealii-parameter-gui
Description:
Parallel, extendible finite element code to simulate convection in the Earth's mantle and elsewhere.

aspell

Homepage:
Spack package:
Versions:
0.60.6.1
Description:
GNU Aspell is a Free and Open Source spell checker designed to eventually replace Ispell.

aspell6-de

Homepage:
Spack package:
Versions:
6-de-20030222-1
Build Dependencies:
aspell
Link Dependencies:
aspell
Description:
German (de) dictionary for aspell.

aspell6-en

Homepage:
Spack package:
Versions:
2017.01.22-0
Build Dependencies:
aspell
Link Dependencies:
aspell
Description:
English (en) dictionary for aspell.

aspell6-es

Homepage:
Spack package:
Versions:
1.11-2
Build Dependencies:
aspell
Link Dependencies:
aspell
Description:
Spanish (es) dictionary for aspell.

aspera-cli

Homepage:
Spack package:
Versions:
3.7.7
Description:
The Aspera CLI client for the Fast and Secure Protocol (FASP).

assimp

Homepage:
Spack package:
Versions:
4.0.1
Build Dependencies:
cmake, boost
Link Dependencies:
boost
Description:
Open Asset Import Library (Assimp) is a portable Open Source library to import various well-known 3D model formats in a uniform manner.

astra

Homepage:
Spack package:
Versions:
2016-11-30
Description:
A Space Charge Tracking Algorithm.

astral

Homepage:
Spack package:
Versions:
5.6.1, 4.10.7
Build Dependencies:
java, zip
Run Dependencies:
java
Description:
ASTRAL is a tool for estimating an unrooted species tree given a set of unrooted gene trees.

astyle

Homepage:
Spack package:
Versions:
3.1, 3.0.1, 2.06, 2.05.1, 2.04
Description:
A Free, Fast, and Small Automatic Formatter for C, C++, C++/CLI, Objective-C, C#, and Java Source Code.

at-spi2-atk

Homepage:
Spack package:
Versions:
2.26.2, 2.26.1
Build Dependencies:
meson, ninja, pkgconfig, at-spi2-core, atk
Link Dependencies:
at-spi2-core, atk
Description:
The At-Spi2 Atk package contains a library that bridges ATK to At-Spi2 D-Bus service.

at-spi2-core

Homepage:
Spack package:
Versions:
2.28.0
Build Dependencies:
meson, ninja, glib, dbus, gettext, libx11, libxi, libxtst, recordproto, inputproto, fixesproto, pkgconfig, python
Link Dependencies:
glib, dbus, gettext, libx11, libxi
Description:
The At-Spi2 Core package provides a Service Provider Interface for the Assistive Technologies available on the GNOME platform and a library against which applications can be linked.

athena

Homepage:
Spack package:
Versions:
master, 4.2
Build Dependencies:
autoconf, automake, libtool, m4, mpi, fftw
Link Dependencies:
mpi, fftw
Description:
Athena is a grid-based code for astrophysical magnetohydrodynamics (MHD). It was developed primarily for studies of the interstellar medium, star formation, and accretion flows.

atk

Homepage:
Spack package:
Versions:
2.30.0, 2.28.1, 2.20.0, 2.14.0
Build Dependencies:
meson, glib, gettext, pkgconfig, gobject-introspection, libffi
Link Dependencies:
glib, gettext, gobject-introspection, libffi
Description:
ATK provides the set of accessibility interfaces that are implemented by other toolkits and applications. Using the ATK interfaces, accessibility tools have full access to view and control running applications.

atlas

Homepage:
Spack package:
Versions:
3.11.41, 3.11.39, 3.11.34, 3.10.3, 3.10.2
Description:
Automatically Tuned Linear Algebra Software, generic shared ATLAS is an approach for the automatic generation and optimization of numerical software. Currently ATLAS supplies optimized versions for the complete set of linear algebra kernels known as the Basic Linear Algebra Subroutines (BLAS), and a subset of the linear algebra routines in the LAPACK library.

atom-dft

Homepage:
Spack package:
Versions:
4.2.6
Build Dependencies:
libgridxc, xmlf90
Link Dependencies:
libgridxc, xmlf90
Description:
ATOM is a program for DFT calculations in atoms and pseudopotential generation.

atompaw

Homepage:
Spack package:
Versions:
4.0.0.13, 3.1.0.3
Build Dependencies:
lapack, blas, libxc
Link Dependencies:
lapack, blas, libxc
Description:
A Projector Augmented Wave (PAW) code for generating atom-centered functions. Official website: http://pwpaw.wfu.edu User's guide: ~/doc/atompaw-usersguide.pdf

atop

Homepage:
Spack package:
Versions:
2.5.0, 2.4.0, 2.3.0, 2.2.6, 2.2-3
Build Dependencies:
zlib, ncurses
Link Dependencies:
zlib, ncurses
Description:
Atop is an ASCII full-screen performance monitor for Linux

attr

Homepage:
Spack package:
Versions:
2.4.47, 2.4.46
Description:
Commands for Manipulating Filesystem Extended Attributes

audit-userspace

Homepage:
Spack package:
Versions:
2.8.5, 2.8.4, 2.8.3, 2.8.2
Build Dependencies:
autoconf, automake, libtool, m4, openldap, swig
Link Dependencies:
openldap, swig
Description:
Linux audit userspace

augustus

Homepage:
Spack package:
Versions:
3.3.2, 3.3.1-tag1, 3.3, 3.2.3
Build Dependencies:
perl, bamtools, gsl, boost, zlib, htslib, bcftools, samtools, curl
Link Dependencies:
bamtools, gsl, boost, zlib, htslib, bcftools, samtools, curl
Run Dependencies:
perl
Description:
AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences

autoconf

Homepage:
Spack package:
Versions:
2.69, 2.62, 2.59, 2.13
Build Dependencies:
m4, perl
Run Dependencies:
m4, perl
Description:
Autoconf -- system configuration part of autotools

autodock-vina

Homepage:
Spack package:
Versions:
1_1_2
Build Dependencies:
boost
Link Dependencies:
boost
Description:
AutoDock Vina is an open-source program for doing molecular docking

autofact

Homepage:
Spack package:
Versions:
3_4
Run Dependencies:
perl, perl-bioperl, perl-io-string, perl-libwww-perl, blast-legacy
Description:
An Automatic Functional Annotation and Classification Tool

autogen

Homepage:
Spack package:
Versions:
5.18.12
Build Dependencies:
pkgconfig, guile, libxml2
Link Dependencies:
guile, libxml2
Description:
AutoGen is a tool designed to simplify the creation and maintenance of programs that contain large amounts of repetitious text. It is especially valuable in programs that have several blocks of text that must be kept synchronized.

automaded

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
cmake, mpi, boost, callpath
Link Dependencies:
mpi, boost, callpath
Description:
AutomaDeD (Automata-based Debugging for Dissimilar parallel tasks) is a tool for automatic diagnosis of performance and correctness problems in MPI applications. It creates control-flow models of each MPI process and, when a failure occurs, these models are leveraged to find the origin of problems automatically. MPI calls are intercepted (using wrappers) to create the models. When an MPI application hangs, AutomaDeD creates a progress-dependence graph that helps finding the process (or group of processes) that caused the hang.

automake

Homepage:
Spack package:
Versions:
1.16.1, 1.15.1, 1.15, 1.14.1, 1.13.4, 1.11.6
Build Dependencies:
autoconf, perl
Run Dependencies:
perl
Description:
Automake -- make file builder part of autotools

avizo

Homepage:
Spack package:
Versions:
9.7.0
Description:
Avizo is a 3D analysis software for scientific and industrial data. Wherever three-dimensional imaging data sets need to be processed, in materials science, geosciences or engineering applications, Avizo offers abundant state-of-the-art image data processing, exploration and analysis features within an intuitive workflow and easy-to-use graphical user interface.

aws-parallelcluster

Homepage:
Spack package:
Versions:
2.5.1, 2.5.0
Build Dependencies:
python, py-setuptools, py-boto3, py-future, py-tabulate, py-ipaddress, py-enum34, py-pyyaml, py-configparser
Link Dependencies:
python
Run Dependencies:
python, py-setuptools, py-boto3, py-future, py-tabulate, py-ipaddress, py-enum34, py-pyyaml, py-configparser
Description:
AWS ParallelCluster is an AWS supported Open Source cluster management tool to deploy and manage HPC clusters in the AWS cloud.

awscli

Homepage:
Spack package:
Versions:
1.16.308, 1.16.179
Build Dependencies:
python, py-setuptools, py-botocore, py-docutils, py-rsa, py-s3transfer, py-argparse, py-pyyaml, py-colorama
Link Dependencies:
python
Run Dependencies:
python, py-botocore, py-docutils, py-rsa, py-s3transfer, py-argparse, py-pyyaml, py-colorama
Test Dependencies:
py-nose, py-mock
Description:
This package provides a unified command line interface to Amazon Web Services

axel

Homepage:
Spack package:
Versions:
2.16.1
Build Dependencies:
m4, autoconf, automake, libtool, pkgconfig, gettext, openssl
Link Dependencies:
gettext, openssl
Description:
Axel is a light command line download accelerator for Linux and Unix

axl

Homepage:
Spack package:
Versions:
master, 0.1.1
Build Dependencies:
cmake, kvtree
Link Dependencies:
kvtree
Description:
Asynchronous transfer library

bam-readcount

Homepage:
Spack package:
Versions:
0.8.0
Build Dependencies:
cmake
Description:
Bam-readcount generates metrics at single nucleotide positions.

bamdst

Homepage:
Spack package:
Versions:
master
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Bamdst is a a lightweight bam file depth statistical tool.

bamtools

Homepage:
Spack package:
Versions:
2.5.1, 2.5.0, 2.4.1, 2.4.0, 2.3.0, 2.2.3
Build Dependencies:
cmake
Link Dependencies:
zlib
Description:
C++ API & command-line toolkit for working with BAM data.

bamutil

Homepage:
Spack package:
Versions:
1.0.13
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
bamUtil is a repository that contains several programs that perform operations on SAM/BAM files. All of these programs are built into a single executable, bam.

barrnap

Homepage:
Spack package:
Versions:
0.8, 0.7, 0.6
Run Dependencies:
hmmer
Description:
Barrnap predicts the location of ribosomal RNA genes in genomes.

bash

Homepage:
Spack package:
Versions:
5.0, 4.4.12, 4.4, 4.3
Build Dependencies:
ncurses, readline, libiconv
Link Dependencies:
ncurses, readline, libiconv
Description:
The GNU Project's Bourne Again SHell.

bash-completion

Homepage:
Spack package:
Versions:
develop, 2.7, 2.3
Build Dependencies:
automake, autoconf, libtool
Run Dependencies:
bash
Description:
Programmable completion functions for bash.

bats

Homepage:
Spack package:
Versions:
0.4.0
Description:
Bats is a TAP-compliant testing framework for Bash.

bazel

Homepage:
Spack package:
Versions:
1.2.1, 1.2.0, 1.1.0, 1.0.1, 1.0.0, 0.29.1, 0.29.0, 0.28.1, 0.28.0, 0.27.2, 0.27.1, 0.27.0, 0.26.1, 0.26.0, 0.25.3, 0.25.2, 0.25.1, 0.25.0, 0.24.1, 0.24.0, 0.23.2, 0.23.1, 0.23.0, 0.22.0, 0.21.0, 0.20.0, 0.19.2, 0.19.1, 0.19.0, 0.18.1, 0.18.0, 0.17.2, 0.17.1, 0.16.1, 0.16.0, 0.15.2, 0.15.1, 0.15.0, 0.14.1, 0.14.0, 0.13.1, 0.13.0, 0.12.0, 0.11.1, 0.11.0, 0.10.1, 0.10.0, 0.9.0, 0.8.1, 0.8.0, 0.7.0, 0.6.1, 0.6.0, 0.5.4, 0.5.3, 0.5.2, 0.5.1, 0.5.0, 0.4.5, 0.4.4, 0.4.3, 0.4.2, 0.4.1, 0.4.0, 0.3.2, 0.3.1, 0.3.0
Build Dependencies:
jdk, python
Run Dependencies:
jdk, python
Description:
Bazel is an open-source build and test tool similar to Make, Maven, and Gradle. It uses a human-readable, high-level build language. Bazel supports projects in multiple languages and builds outputs for multiple platforms. Bazel supports large codebases across multiple repositories, and large numbers of users.

bbcp

Homepage:
Spack package:
Versions:
git
Build Dependencies:
zlib, openssl
Link Dependencies:
zlib, openssl
Description:
Securely and quickly copy data from source to target

bbmap

Homepage:
Spack package:
Versions:
38.63, 37.36
Build Dependencies:
java
Link Dependencies:
java
Description:
Short read aligner for DNA and RNA-seq data.

bc

Homepage:
Spack package:
Versions:
1.07
Build Dependencies:
ed, texinfo
Description:
bc is an arbitrary precision numeric processing language. Syntax is similar to C, but differs in many substantial areas. It supports interactive execution of statements.

bcftools

Homepage:
Spack package:
Versions:
1.10.2, 1.9, 1.8, 1.7, 1.6, 1.4, 1.3.1, 1.2
Build Dependencies:
gsl, perl, htslib
Link Dependencies:
gsl, htslib
Run Dependencies:
py-matplotlib, perl
Description:
BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF- compressed.

bcl2fastq2

Homepage:
Spack package:
Versions:
2.20.0.422, 2.19.1.403
Build Dependencies:
boost, cmake, libxml2, libxslt, libgcrypt, zlib
Link Dependencies:
boost, cmake, libxml2, libxslt, libgcrypt, zlib
Description:
The bcl2fastq2 Conversion Software converts base call (BCL) files from a sequencing run into FASTQ files.

bdftopcf

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
libxfont, pkgconfig, xproto, fontsproto, util-macros
Link Dependencies:
libxfont
Description:
bdftopcf is a font compiler for the X server and font server. Fonts in Portable Compiled Format can be read by any architecture, although the file is structured to allow one particular architecture to read them directly without reformatting. This allows fast reading on the appropriate machine, but the files are still portable (but read more slowly) on other machines.

bdw-gc

Homepage:
Spack package:
Versions:
8.0.0, 7.6.0, 7.4.4
Build Dependencies:
libatomic-ops
Link Dependencies:
libatomic-ops
Description:
The Boehm-Demers-Weiser conservative garbage collector is a garbage collecting replacement for C malloc or C++ new.

beagle

Homepage:
Spack package:
Versions:
5.1, 5.0, 4.1
Run Dependencies:
java
Description:
Beagle is a software package for phasing genotypes and for imputing ungenotyped markers.

bear

Homepage:
Spack package:
Versions:
2.2.0, 2.0.4
Build Dependencies:
cmake, python
Link Dependencies:
python
Description:
Bear is a tool that generates a compilation database for clang tooling from non-cmake build systems.

beast-tracer

Homepage:
Spack package:
Versions:
1.7.1
Build Dependencies:
ant, java
Run Dependencies:
java
Description:
Tracer is a graphical tool for visualization and diagnostics of MCMC output.

beast1

Homepage:
Spack package:
Versions:
1.10.4, 1.8.4
Build Dependencies:
libbeagle
Link Dependencies:
libbeagle
Run Dependencies:
java, libbeagle
Description:
BEAST is a cross-platform program for Bayesian analysis of molecular sequences using MCMC.

beast2

Homepage:
Spack package:
Versions:
2.5.2, 2.4.6
Build Dependencies:
java
Link Dependencies:
java
Description:
BEAST is a cross-platform program for Bayesian inference using MCMC of molecular sequences. It is entirely orientated towards rooted, time- measured phylogenies inferred using strict or relaxed molecular clock models. It can be used as a method of reconstructing phylogenies but is also a framework for testing evolutionary hypotheses without conditioning on a single tree topology.

bedops

Homepage:
Spack package:
Versions:
2.4.35, 2.4.34, 2.4.30
Description:
BEDOPS is an open-source command-line toolkit that performs highly efficient and scalable Boolean and other set operations, statistical calculations, archiving, conversion and other management of genomic data of arbitrary scale.

bedtools2

Homepage:
Spack package:
Versions:
2.27.1, 2.27.0, 2.26.0, 2.25.0, 2.23.0
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome.

beforelight

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
libx11, libxscrnsaver, libxt, pkgconfig, util-macros
Link Dependencies:
libx11, libxscrnsaver, libxt
Description:
The beforelight program is a sample implementation of a screen saver for X servers supporting the MIT-SCREEN-SAVER extension. It is only recommended for use as a code sample, as it does not include features such as screen locking or configurability.

benchmark

Homepage:
Spack package:
Versions:
develop, 1.5.0, 1.4.1, 1.4.0, 1.3.0, 1.2.0, 1.1.0, 1.0.0
Build Dependencies:
cmake
Description:
A microbenchmark support library

berkeley-db

Homepage:
Spack package:
Versions:
6.2.32, 6.1.29, 6.0.35, 5.3.28
Description:
Oracle Berkeley DB

bertini

Homepage:
Spack package:
Versions:
1.5
Build Dependencies:
flex, bison, gmp, mpfr, mpi
Link Dependencies:
gmp, mpfr, mpi
Description:
Bertini is a general-purpose solver, written in C, that was created for research about polynomial continuation. It solves for the numerical solution of systems of polynomial equations using homotopy continuation.

bib2xhtml

Homepage:
Spack package:
Versions:
3.0-79-ge935
Description:
bib2xhtml is a program that converts BibTeX files into HTML.

bigreqsproto

Homepage:
Spack package:
Versions:
1.1.2
Build Dependencies:
pkgconfig, util-macros
Description:
Big Requests Extension. This extension defines a protocol to enable the use of requests that exceed 262140 bytes in length.

bind9

Homepage:
Spack package:
Versions:
9_14_6
Description:
BIND 9 has evolved to be a very flexible, full-featured DNS system.

binutils

Homepage:
Spack package:
Versions:
2.33.1, 2.32, 2.31.1, 2.29.1, 2.28, 2.27, 2.26, 2.25.1, 2.25, 2.24, 2.23.2, 2.20.1
Build Dependencies:
zlib, gettext, m4, bison
Link Dependencies:
zlib, gettext
Description:
GNU binutils, which contain the linker, assembler, objdump and others

bioawk

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
zlib, bison
Link Dependencies:
zlib
Description:
Bioawk is an extension to Brian Kernighan's awk, adding the support of several common biological data formats, including optionally gzip'ed BED, GFF, SAM, VCF, FASTA/Q and TAB-delimited formats with column names.

biobloom

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
boost, sdsl-lite, sparsehash, zlib
Link Dependencies:
boost, sdsl-lite, sparsehash, zlib
Description:
BioBloom Tools (BBT) provides the means to create filters for a given reference and then to categorize sequences.

bismark

Homepage:
Spack package:
Versions:
0.19.0, 0.18.2
Run Dependencies:
bowtie2, perl, samtools
Description:
A tool to map bisulfite converted sequence reads and determine cytosine methylation states

bison

Homepage:
Spack package:
Versions:
3.4.2, 3.4.1, 3.0.5, 3.0.4, 2.7
Build Dependencies:
diffutils, m4, perl, help2man
Run Dependencies:
m4
Description:
Bison is a general-purpose parser generator that converts an annotated context-free grammar into a deterministic LR or generalized LR (GLR) parser employing LALR(1) parser tables.

bitmap

Homepage:
Spack package:
Versions:
1.0.8
Build Dependencies:
libx11, libxmu, libxaw, libxt, xbitmaps, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libxmu, libxaw, libxt
Description:
bitmap, bmtoa, atobm - X bitmap (XBM) editor and converter utilities.

blasr

Homepage:
Spack package:
Versions:
5.3.1
Build Dependencies:
ncurses, hdf5, htslib, zlib, boost, pbbam, blasr-libcpp, python
Link Dependencies:
ncurses, hdf5, htslib, zlib, boost, pbbam, blasr-libcpp
Description:
The PacBio long read aligner.

blasr-libcpp

Homepage:
Spack package:
Versions:
5.3.1
Build Dependencies:
pbbam, hdf5, python
Link Dependencies:
pbbam, hdf5
Description:
Blasr_libcpp is a library used by blasr and other executables such as samtoh5, loadPulses for analyzing PacBio sequences.

blast-legacy

Homepage:
Spack package:
Versions:
2.2.26
Build Dependencies:
tcsh
Description:
Legacy NCBI BLAST distribution -- no longer supported. Contains older programs including `blastall'

blast-plus

Homepage:
Spack package:
Versions:
2.9.0, 2.8.1, 2.7.1, 2.6.0, 2.2.30
Build Dependencies:
jpeg, libpng, freetype, gnutls, openssl, zlib, bzip2, lzo, pcre, python, perl, lmdb
Link Dependencies:
jpeg, libpng, freetype, gnutls, openssl, zlib, bzip2, lzo, pcre, python, perl, lmdb
Description:
Basic Local Alignment Search Tool.

blast2go

Homepage:
Spack package:
Versions:
5.2.5
Build Dependencies:
bash, java
Run Dependencies:
blast-plus
Description:
Blast2GO is a bioinformatics platform for high-quality functional annotation and analysis of genomic datasets.

blat

Homepage:
Spack package:
Versions:
35
Build Dependencies:
libpng
Link Dependencies:
libpng
Description:
BLAT (BLAST-like alignment tool) is a pairwise sequence alignment algorithm.

blaze

Homepage:
Spack package:
Versions:
master, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.6, 2.5, 2.4, 2.3, 2.2, 2.1, 2.0, 1.5, 1.4, 1.3, 1.2, 1.1, 1.0
Build Dependencies:
cmake
Description:
Blaze is an open-source, high-performance C++ math library for dense and sparse arithmetic. With its state-of-the-art Smart Expression Template implementation Blaze combines the elegance and ease of use of a domain- specific language with HPC-grade performance, making it one of the most intuitive and fastest C++ math libraries available.

blis

Homepage:
Spack package:
Versions:
master, 0.6.1, 0.6.0, 0.5.0, 0.4.0, 0.3.2, 0.3.1, 0.3.0, 0.2.2
Build Dependencies:
python
Run Dependencies:
python
Description:
BLIS is a portable software framework for instantiating high-performance BLAS-like dense linear algebra libraries. The framework was designed to isolate essential kernels of computation that, when optimized, immediately enable optimized implementations of most of its commonly used and computationally intensive operations. BLIS is written in ISO C99 and available under a new/modified/3-clause BSD license. While BLIS exports a new BLAS-like API, it also includes a BLAS compatibility layer which gives application developers access to BLIS implementations via traditional BLAS routine calls. An object-based API unique to BLIS is also available.

bliss

Homepage:
Spack package:
Versions:
0.73
Build Dependencies:
gmp, libtool
Link Dependencies:
gmp
Description:
bliss: A Tool for Computing Automorphism Groups and Canonical Labelings of Graphs

blitz

Homepage:
Spack package:
Versions:
1.0.1, 1.0.0
Description:
N-dimensional arrays for C++

blktrace

Homepage:
Spack package:
Versions:
1.2.0, 1.1.0, 1.0.5, 1.0.4, 1.0.3, 1.0.2
Build Dependencies:
libaio
Link Dependencies:
libaio
Description:
blktrace is a block layer IO tracing mechanism which provides detailed information about request queue operations up to user space. There are three major components: a kernel component, a utility to record the i/o trace information for the kernel to user space, and utilities to analyse and view the trace information.

bmake

Homepage:
Spack package:
Versions:
20180512, 20171207
Description:
Portable version of NetBSD make(1).

bmi

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
autoconf, automake
Description:
a communications framework and network abstraction layer

bml

Homepage:
Spack package:
Versions:
develop, 1.3.1, 1.3.0, 1.2.3, 1.2.2, 1.1.0
Build Dependencies:
cmake, blas, lapack, mpi
Link Dependencies:
blas, lapack, mpi
Description:
The basic matrix library (bml) is a collection of various matrix data formats (in dense and sparse) and their associated algorithms for basic matrix operations.

bohrium

Homepage:
Spack package:
Versions:
develop, 0.9.1, 0.9.0
Build Dependencies:
cuda, cmake, python, boost, opencl, netlib-lapack, blas, opencv, py-numpy, swig, py-cython, zlib
Link Dependencies:
cuda, python, boost, opencl, netlib-lapack, blas, opencv, zlib
Run Dependencies:
py-numpy
Test Dependencies:
python, py-numpy
Description:
Library for automatic acceleration of array operations

bolt

Homepage:
Spack package:
Versions:
master, 1.0rc3, 1.0rc2, 1.0rc1, 1.0b1
Build Dependencies:
cmake, argobots, autoconf, automake, libtool
Link Dependencies:
argobots
Description:
BOLT targets a high-performing OpenMP implementation, especially specialized for fine-grain parallelism. Unlike other OpenMP implementations, BOLT utilizes a lightweight threading model for its underlying threading mechanism. It currently adopts Argobots, a new holistic, low-level threading and tasking runtime, in order to overcome shortcomings of conventional OS-level threads. The current BOLT implementation is based on the OpenMP runtime in LLVM, and thus it can be used with LLVM/Clang, Intel OpenMP compiler, and GCC.

bookleaf-cpp

Homepage:
Spack package:
Versions:
develop, 2.0.2, 2.0.1, 2.0
Build Dependencies:
cmake, caliper, parmetis, silo, typhon, mpi, yaml-cpp
Link Dependencies:
caliper, parmetis, silo, typhon, mpi, yaml-cpp
Description:
BookLeaf is a 2D unstructured hydrodynamics mini-app.

boost

Homepage:
Spack package:
Versions:
develop, 1.72.0, 1.71.0, 1.70.0, 1.69.0, 1.68.0, 1.67.0, 1.66.0, 1.65.1, 1.65.0, 1.64.0, 1.63.0, 1.62.0, 1.61.0, 1.60.0, 1.59.0, 1.58.0, 1.57.0, 1.56.0, 1.55.0, 1.54.0, 1.53.0, 1.52.0, 1.51.0, 1.50.0, 1.49.0, 1.48.0, 1.47.0, 1.46.1, 1.46.0, 1.45.0, 1.44.0, 1.43.0, 1.42.0, 1.41.0, 1.40.0, 1.39.0, 1.38.0, 1.37.0, 1.36.0, 1.35.0, 1.34.1, 1.34.0
Build Dependencies:
icu4c, python, mpi, bzip2, zlib, py-numpy
Link Dependencies:
icu4c, python, mpi, bzip2, zlib
Run Dependencies:
py-numpy
Description:
Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library. Boost libraries are intended to be widely useful, and usable across a broad spectrum of applications. The Boost license encourages both commercial and non-commercial use.

boostmplcartesianproduct

Homepage:
Spack package:
Versions:
20161205
Description:
Cartesian_product is an extension to the Boost.MPL library and as such requires a version of the Boost libraries on your system.

bowtie

Homepage:
Spack package:
Versions:
1.2.3, 1.2.2_p1, 1.2.2, 1.2.1.1, 1.2.1, 1.2.0, 1.2
Build Dependencies:
tbb, zlib
Link Dependencies:
tbb, zlib
Description:
Bowtie is an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers.

bowtie2

Homepage:
Spack package:
Versions:
2.3.5.1, 2.3.5, 2.3.4.1, 2.3.1, 2.3.0, 2.2.5
Build Dependencies:
tbb, readline, zlib
Link Dependencies:
tbb, readline, zlib
Run Dependencies:
perl, python
Description:
Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences

boxlib

Homepage:
Spack package:
Versions:
16.12.2
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
BoxLib, a software framework for massively parallel block-structured adaptive mesh refinement (AMR) codes.

bpp-core

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
cmake
Description:
Bio++ core library.

bpp-phyl

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
cmake, bpp-core, bpp-seq
Link Dependencies:
bpp-core, bpp-seq
Description:
Bio++ phylogeny library.

bpp-seq

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
cmake, bpp-core
Link Dependencies:
bpp-core
Description:
Bio++ seq library.

bpp-suite

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
cmake, texinfo, bpp-core, bpp-seq, bpp-phyl
Link Dependencies:
bpp-core, bpp-seq, bpp-phyl
Description:
BppSuite is a suite of ready-to-use programs for phylogenetic and sequence analysis.

bracken

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
perl, python, perl-exporter-tiny, perl-list-moreutils, perl-parallel-forkmanager
Link Dependencies:
perl, python, perl-exporter-tiny, perl-list-moreutils, perl-parallel-forkmanager
Run Dependencies:
perl, python
Description:
Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.

braker

Homepage:
Spack package:
Versions:
2.1.4, 1.11
Build Dependencies:
perl, perl-scalar-util-numeric, perl-parallel-forkmanager, perl-file-which, perl-yaml, perl-hash-merge, perl-logger-simple, perl-file-homedir, augustus, genemark-et, bamtools, samtools, diamond
Link Dependencies:
augustus, genemark-et, bamtools, samtools, diamond
Run Dependencies:
perl, perl-scalar-util-numeric, perl-parallel-forkmanager, perl-file-which, perl-yaml, perl-hash-merge, perl-logger-simple, perl-file-homedir
Description:
BRAKER is a pipeline for unsupervised RNA-Seq-based genome annotation that combines the advantages of GeneMark-ET and AUGUSTUS

branson

Homepage:
Spack package:
Versions:
develop, 0.82, 0.81, 0.8
Build Dependencies:
cmake, mpi, boost, metis, parmetis
Link Dependencies:
mpi, boost, metis, parmetis
Description:
Branson's purpose is to study different algorithms for parallel Monte Carlo transport. Currently it contains particle passing and mesh passing methods for domain decomposition.

breakdancer

Homepage:
Spack package:
Versions:
master, 1.4.5
Build Dependencies:
cmake, zlib
Link Dependencies:
zlib, ncurses
Run Dependencies:
perl-statistics-descriptive, perl-math-cdf, perl-gdgraph, perl-gdgraph-histogram, perl-list-moreutils, perl-exporter-tiny
Description:
BreakDancer-1.3.6, released under GPLv3, is a perl/Cpp package that provides genome-wide detection of structural variants from next generation paired-end sequencing reads. It includes two complementary programs. BreakDancerMax predicts five types of structural variants: insertions, deletions, inversions, inter- and intra-chromosomal translocations from next-generation short paired-end sequencing reads using read pairs that are mapped with unexpected separation distances or orientation. BreakDancerMini focuses on detecting small indels (usually between 10bp and 100bp) using normally mapped read pairs..

bref3

Homepage:
Spack package:
Versions:
2019-11-25, 2019-07-12, 2018-01-27
Run Dependencies:
java
Description:
Bref3: Converts from VCF format to bref3 format.

breseq

Homepage:
Spack package:
Versions:
0.33.2, 0.33.1, 0.31.1
Build Dependencies:
autoconf, automake, libtool, m4
Link Dependencies:
zlib
Run Dependencies:
bedtools2, r
Description:
breseq is a computational pipeline for finding mutations relative to a reference sequence in short-read DNA re-sequencing data for haploid microbial-sized genomes.

bridger

Homepage:
Spack package:
Versions:
2014-12-01
Build Dependencies:
boost
Link Dependencies:
boost
Run Dependencies:
perl
Description:
Bridger : An Efficient De novo Transcriptome Assembler For RNA-Seq Data

brigand

Homepage:
Spack package:
Versions:
master, 1.3.0, 1.2.0, 1.1.0, 1.0.0
Description:
Brigand Meta-programming library

brltty

Homepage:
Spack package:
Versions:
6.0, 5.6, 5.5, 5.4
Build Dependencies:
autoconf, automake, libtool, m4, expat
Link Dependencies:
expat
Description:
BRLTTY is a background process (daemon) providing access to the Linux/Unix console (when in text mode) for a blind person using a refreshable braille display.

brotli

Homepage:
Spack package:
Versions:
1.0.7
Build Dependencies:
cmake
Description:
Brotli is a generic-purpose lossless compression algorithm

bsseeker2

Homepage:
Spack package:
Versions:
2.1.8, 2.1.7, 2.1.2
Build Dependencies:
python, py-pysam
Run Dependencies:
python, py-pysam
Description:
A versatile aligning pipeline for bisulfite sequencing data.

bucky

Homepage:
Spack package:
Versions:
1.4.4
Description:
BUCKy is a free program to combine molecular data from multiple loci. BUCKy estimates the dominant history of sampled individuals, and how much of the genome supports each relationship, using Bayesian concordance analysis.

bumpversion

Homepage:
Spack package:
Versions:
0.5.3, 0.5.0
Build Dependencies:
python, py-setuptools
Link Dependencies:
python
Run Dependencies:
python
Description:
Version-bump your software with a single command.

busco

Homepage:
Spack package:
Versions:
3.0.1, 2.0.1
Build Dependencies:
python, blast-plus, hmmer, augustus
Link Dependencies:
python, blast-plus, hmmer, augustus
Run Dependencies:
python
Description:
Assesses genome assembly and annotation completeness with Benchmarking Universal Single-Copy Orthologs

busybox

Homepage:
Spack package:
Versions:
1.31.1, 1.31.0, 1.30.1, 1.30.0
Description:
BusyBox combines tiny versions of many common UNIX utilities into a single small executable. It provides replacements for most of the utilities you usually find in GNU fileutils, shellutils, etc

butter

Homepage:
Spack package:
Versions:
0.3.3
Build Dependencies:
perl, samtools, bowtie
Link Dependencies:
samtools, bowtie
Run Dependencies:
perl
Description:
butter: Bowtie UTilizing iTerative placEment of Repetitive small rnas. A wrapper for bowtie to produce small RNA-seq alignments where multimapped small RNAs tend to be placed near regions of confidently high density.

butterflypack

Homepage:
Spack package:
Versions:
master, 1.1.0, 1.0.3, 1.0.1, 1.0.0
Build Dependencies:
cmake, mpi, blas, lapack, scalapack, arpack-ng
Link Dependencies:
mpi, blas, lapack, scalapack, arpack-ng
Description:
ButterflyPACK is a mathematical software for rapidly solving large-scale dense linear systems that exhibit off-diagonal rank-deficiency. These systems arise frequently from boundary element methods, or factorization phases in finite-difference/finite-element methods. ButterflyPACK relies on low-rank or butterfly formats under Hierarchical matrix, HODLR or other hierarchically nested frameworks to compress, factor and solve the linear system in quasi-linear time. The computationally most intensive phase, factorization, is accelerated via randomized linear algebras. The butterfly format, originally inspired by the butterfly data flow in fast Fourier Transform, is a linear algebra tool well-suited for compressing matrices arising from high-frequency wave equations or highly oscillatory integral operators.

bwa

Homepage:
Spack package:
Versions:
0.7.17, 0.7.15, 0.7.13, 0.7.12
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Burrow-Wheeler Aligner for pairwise alignment between DNA sequences.

bwtool

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
libbeato
Link Dependencies:
libbeato
Description:
bwtool is a command-line utility for bigWig files.

byobu

Homepage:
Spack package:
Versions:
5.131, 5.127, 5.125, 5.123
Build Dependencies:
tmux
Run Dependencies:
tmux
Description:
Byobu: Text-based window manager and terminal multiplexer.

bzip2

Homepage:
Spack package:
Versions:
1.0.8, 1.0.7, 1.0.6
Build Dependencies:
diffutils
Description:
bzip2 is a freely available, patent free high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression.

c-ares

Homepage:
Spack package:
Versions:
master, 1.15.0, 1.13.0
Build Dependencies:
cmake
Description:
c-ares: A C library for asynchronous DNS requests

c-blosc

Homepage:
Spack package:
Versions:
1.17.0, 1.16.3, 1.15.0, 1.12.1, 1.11.1, 1.9.2, 1.9.1, 1.9.0, 1.8.1, 1.8.0
Build Dependencies:
cmake, snappy, zlib, zstd, lz4
Link Dependencies:
snappy, zlib, zstd, lz4
Description:
Blosc, an extremely fast, multi-threaded, meta-compressor library

c-blosc2

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, lizard, lz4, snappy, zlib, zstd
Link Dependencies:
lizard, lz4, snappy, zlib, zstd
Description:
Next generation c-blosc with a new API, a new container and other bells and whistles

c-lime

Homepage:
Spack package:
Versions:
2-3-9
Description:
LIME (which can stand for Lattice QCD Interchange Message Encapsulation or more generally, Large Internet Message Encapsulation) is a simple packaging scheme for combining records containing ASCII and/or binary data.

cabana

Homepage:
Spack package:
Versions:
develop, 0.1.0-rc0, 0.1.0
Build Dependencies:
cmake, kokkos
Link Dependencies:
kokkos
Description:
The Exascale Co-Design Center for Particle Applications Toolkit

caffe

Homepage:
Spack package:
Versions:
1.0, rc5, rc4, rc3, rc2
Build Dependencies:
cmake, boost, cuda, blas, protobuf, glog, gflags, hdf5, opencv, leveldb, lmdb, python, py-numpy, matlab
Link Dependencies:
boost, cuda, blas, protobuf, glog, gflags, hdf5, opencv, leveldb, lmdb, python, matlab
Run Dependencies:
py-numpy
Description:
Caffe is a deep learning framework made with expression, speed, and modularity in mind. It is developed by the Berkeley Vision and Learning Center (BVLC) and by community contributors.

cairo

Homepage:
Spack package:
Versions:
1.17.2, 1.16.0, 1.14.12, 1.14.8, 1.14.0
Build Dependencies:
libx11, libxext, libxrender, libxcb, python, libpng, librsvg, glib, pixman, automake, autoconf, libtool, m4, freetype, pkgconfig, fontconfig
Link Dependencies:
libx11, libxext, libxrender, libxcb, libpng, librsvg, glib, pixman, freetype, fontconfig
Description:
Cairo is a 2D graphics library with support for multiple output devices.

cairomm

Homepage:
Spack package:
Versions:
1.6.4, 1.6.2
Build Dependencies:
cairo, libsigcpp
Link Dependencies:
cairo, libsigcpp
Description:
Cairomm is a C++ wrapper for the cairo graphics library.

caliper

Homepage:
Spack package:
Versions:
master, 2.2.0, 2.1.1, 2.0.1, 1.9.1, 1.9.0, 1.8.0, 1.7.0
Build Dependencies:
cmake, adiak, gotcha, dyninst, papi, libpfm4, mpi, unwind, sosflow, python
Link Dependencies:
adiak, gotcha, dyninst, papi, libpfm4, mpi, unwind, sosflow
Description:
Caliper is a program instrumentation and performance measurement framework. It is designed as a performance analysis toolbox in a library, allowing one to bake performance analysis capabilities directly into applications and activate them at runtime.

callpath

Homepage:
Spack package:
Versions:
1.0.4, 1.0.2, 1.0.1
Build Dependencies:
cmake, libdwarf, dyninst, adept-utils, mpi
Link Dependencies:
elf, libdwarf, dyninst, adept-utils, mpi
Description:
Library for representing callpaths consistently in distributed-memory performance tools.

camellia

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, trilinos, moab, hdf5, mpi
Link Dependencies:
trilinos, moab, hdf5, mpi
Description:
Camellia: user-friendly MPI-parallel adaptive finite element package, with support for DPG and other hybrid methods, built atop Trilinos.

camx

Homepage:
Spack package:
Versions:
6.50
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Comprehensive Air Quality Model with Extensions.

candle-benchmarks

Homepage:
Spack package:
Versions:
0.1
Build Dependencies:
python, py-theano, py-keras, py-matplotlib, py-tqdm, py-scikit-learn, opencv, py-mdanalysis, py-mpi4py, py-h5py, py-requests
Link Dependencies:
python, opencv
Run Dependencies:
py-theano, py-keras, py-matplotlib, py-tqdm, py-scikit-learn, py-mdanalysis, py-mpi4py, py-h5py, py-requests
Description:
ECP-CANDLE Benchmarks

cantera

Homepage:
Spack package:
Versions:
2.4.0, 2.3.0, 2.2.1
Build Dependencies:
scons, fmt, googletest, eigen, boost, sundials, blas, lapack, python, py-cython, py-numpy, py-scipy, py-3to2, py-unittest2, py-unittest2py3k, matlab
Link Dependencies:
fmt, googletest, eigen, boost, sundials, blas, lapack, python, matlab
Run Dependencies:
py-numpy, py-scipy, py-3to2, py-unittest2, py-unittest2py3k
Description:
Cantera is a suite of object-oriented software tools for problems involving chemical kinetics, thermodynamics, and/or transport processes.

canu

Homepage:
Spack package:
Versions:
1.8, 1.7.1, 1.7, 1.5
Run Dependencies:
gnuplot, jdk, perl
Description:
A single molecule sequence assembler for genomes large and small.

cap3

Homepage:
Spack package:
Versions:
2015-02-11
Description:
CAP3 is DNA Sequence Assembly Program

capnproto

Homepage:
Spack package:
Versions:
0.7.0
Description:
Cap'n Proto is an insanely fast data interchange format and capability- based RPC system.

capstone

Homepage:
Spack package:
Versions:
4.0.1
Build Dependencies:
cmake
Description:
Capstone is a lightweight multi-platform, multi-architecture disassembly framework.

cardioid

Homepage:
Spack package:
Versions:
develop, elecfem
Build Dependencies:
cmake, blas, lapack, mpi, cuda, mfem, perl
Link Dependencies:
blas, lapack, mpi, cuda, mfem
Description:
Cardiac simulation suite.

casacore

Homepage:
Spack package:
Versions:
3.2.0, 3.1.2, 3.1.1, 3.1.0, 3.0.0, 2.4.1
Build Dependencies:
cmake, flex, bison, blas, lapack, cfitsio, wcslib, fftw, hdf5, readline, python, boost, py-numpy
Link Dependencies:
blas, lapack, cfitsio, wcslib, fftw, hdf5, readline, python, boost, py-numpy
Description:
A suite of c++ libraries for radio astronomy data processing.

cask

Homepage:
Spack package:
Versions:
0.8.1, 0.7.4
Build Dependencies:
emacs
Run Dependencies:
emacs
Description:
Cask is a project management tool for Emacs Lisp to automate the package development cycle; development, dependencies, testing, building, packaging and more.

casper

Homepage:
Spack package:
Versions:
0.8.2
Build Dependencies:
jellyfish, boost
Link Dependencies:
jellyfish, boost
Description:
CASPER (Context-Aware Scheme for Paired-End Read) is state-of-the art merging tool in terms of accuracy and robustness. Using this sophisticated merging method, we could get elongated reads from the forward and reverse reads.

cassandra

Homepage:
Spack package:
Versions:
4.0-alpha2, 4.0-alpha1, 3.11.5
Description:
Apache Cassandra is a highly-scalable partitioned row store. Rows are organized into tables with a required primary key.

catalyst

Homepage:
Spack package:
Versions:
5.6.0, 5.5.2, 5.5.1, 5.5.0, 5.4.1, 5.4.0, 5.3.0, 5.2.0, 5.1.2, 5.0.1, 4.4.0
Build Dependencies:
cmake, python, git, mpi, py-numpy, py-mpi4py, gl, mesa, glx
Link Dependencies:
python, mpi, gl, mesa, glx
Run Dependencies:
python, py-numpy, py-mpi4py
Description:
Catalyst is an in situ use case library, with an adaptable application programming interface (API), that orchestrates the alliance between simulation and analysis and/or visualization tasks.

catch2

Homepage:
Spack package:
Versions:
2.9.1, 2.9.0, 2.8.0, 2.7.2, 2.7.1, 2.7.0, 2.6.1, 2.6.0, 2.5.0, 2.4.2, 2.4.1, 2.4.0, 2.3.0, 2.2.3, 2.2.2, 2.2.1, 2.1.0, 2.0.1, 1.12.1, 1.12.0, 1.11.0, 1.10.0, 1.9.7, 1.9.6, 1.9.5, 1.9.4, 1.9.3, 1.9.2, 1.9.1, 1.9.0, 1.8.2, 1.8.1, 1.8.0, 1.7.2, 1.7.1, 1.7.0, 1.6.1, 1.6.0, 1.5.9, 1.5.0, 1.4.0, 1.3.5, 1.3.0
Build Dependencies:
cmake
Description:
Catch2 is a multi-paradigm test framework for C++, which also supports Objective-C (and maybe C).

cbench

Homepage:
Spack package:
Versions:
1.3.0
Build Dependencies:
mpi, blas, lapack, fftw
Link Dependencies:
mpi, blas, lapack, fftw
Description:
Cbench is intended as a relatively straightforward toolbox of tests, benchmarks, applications, utilities, and framework to hold them together with the goal to facilitate scalable testing, benchmarking, and analysis of a Linux parallel compute cluster.

cblas

Homepage:
Spack package:
Versions:
2015-06-06
Build Dependencies:
blas
Link Dependencies:
blas
Description:
The BLAS (Basic Linear Algebra Subprograms) are routines that provide standard building blocks for performing basic vector and matrix operations.

cbtf

Homepage:
Spack package:
Versions:
develop, 1.9.3, 1.9.2, 1.9.1.2, 1.9.1.1, 1.9.1.0
Build Dependencies:
cmake, rpcsvc-proto, boost, mrnet, xerces-c, libxml2
Link Dependencies:
libtirpc, boost, mrnet, xerces-c, libxml2
Description:
CBTF project contains the base code for CBTF that supports creating components, component networks and the support to connect these components and component networks into sequential and distributed network tools.

cbtf-argonavis

Homepage:
Spack package:
Versions:
develop, 1.9.3, 1.9.2, 1.9.1.2, 1.9.1.1, 1.9.1.0
Build Dependencies:
cmake, boost, mrnet, cbtf, libmonitor, papi, cbtf-krell, cuda
Link Dependencies:
elf, boost, mrnet, cbtf, libmonitor, papi, cbtf-krell, cuda
Run Dependencies:
mrnet, cbtf, libmonitor, papi, cbtf-krell
Description:
CBTF Argo Navis project contains the CUDA collector and supporting libraries that was done as a result of a DOE SBIR grant.

cbtf-argonavis-gui

Homepage:
Spack package:
Versions:
develop, 1.3.0.0
Build Dependencies:
qt, cmake, boost, mrnet, cbtf, cbtf-krell, cbtf-argonavis, cuda, openspeedshop-utils, xerces-c, graphviz, qtgraph
Link Dependencies:
qt, boost, mrnet, cbtf, cbtf-krell, cbtf-argonavis, cuda, openspeedshop-utils, xerces-c, graphviz, qtgraph
Description:
CBTF Argo Navis GUI project contains the GUI that views OpenSpeedShop performance information by loading in the Sqlite database files.

cbtf-krell

Homepage:
Spack package:
Versions:
develop, 1.9.3, 1.9.2, 1.9.1.2, 1.9.1.1, 1.9.1.0
Build Dependencies:
cmake, rpcsvc-proto, binutils, boost, dyninst, mrnet, xerces-c, cbtf, libmonitor, libunwind, papi, llvm-openmp-ompt, openmpi, mpich, mvapich2, mpt, python, gotcha
Link Dependencies:
libtirpc, binutils, boost, dyninst, mrnet, xerces-c, cbtf, libmonitor, libunwind, papi, llvm-openmp-ompt, openmpi, mpich, mvapich2, mpt, gotcha
Run Dependencies:
mrnet, cbtf, libmonitor, papi, python
Description:
CBTF Krell project contains the Krell Institute contributions to the CBTF project. These contributions include many performance data collectors and support libraries as well as some example tools that drive the data collection at HPC levels of scale.

cbtf-lanl

Homepage:
Spack package:
Versions:
develop, 1.9.3, 1.9.2, 1.9.1.2, 1.9.1.1, 1.9.1.0
Build Dependencies:
cmake, mrnet, xerces-c, cbtf, cbtf-krell
Link Dependencies:
mrnet, xerces-c, cbtf, cbtf-krell
Description:
CBTF LANL project contains a memory tool and data center type system command monitoring tool.

ccache

Homepage:
Spack package:
Versions:
3.7.1, 3.3.4, 3.3.3, 3.3.2, 3.3.1, 3.3, 3.2.9
Build Dependencies:
gperf, libxslt, zlib
Link Dependencies:
gperf, libxslt, zlib
Description:
ccache is a compiler cache. It speeds up recompilation by caching previous compilations and detecting when the same compilation is being done again.

ccfits

Homepage:
Spack package:
Versions:
2.5, 2.4
Build Dependencies:
cfitsio
Link Dependencies:
cfitsio
Description:
CCfits is an object oriented interface to the cfitsio library. It is designed to make the capabilities of cfitsio available to programmers working in C++. It is written in ANSI C++ and implemented using the C++ Standard Library with namespaces, exception handling, and member template functions.

ccs-qcd

Homepage:
Spack package:
Versions:
master, 1.2.1
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
This program benchmarks the performance of a linear equation solver with a large sparse coefficient matrix appering in a lattice QCD probrem. Lattice QCD describes the property of protons, neutrons and neucleons in terms of more fundamental interacting elementary particles gluon and quarks.

cctools

Homepage:
Spack package:
Versions:
7.0.18, 6.1.1
Build Dependencies:
openssl, perl, python, readline, swig, zlib
Link Dependencies:
openssl, readline, swig, zlib
Run Dependencies:
perl, python
Description:
The Cooperative Computing Tools (cctools) enable large scale distributed computations to harness hundreds to thousands of machines from clusters, clouds, and grids.

cdbfasta

Homepage:
Spack package:
Versions:
2017-03-16
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Fast indexing and retrieval of fasta records from flat file databases

cdd

Homepage:
Spack package:
Versions:
0.61a
Build Dependencies:
libtool
Description:
The program cdd+ (cdd, respectively) is a C++ (ANSI C) implementation of the Double Description Method [MRTT53] for generating all vertices (i.e. extreme points) and extreme rays of a general convex polyhedron given by a system of linear inequalities

cddlib

Homepage:
Spack package:
Versions:
0.94h
Build Dependencies:
gmp, libtool
Link Dependencies:
gmp
Description:
The C-library cddlib is a C implementation of the Double Description Method of Motzkin et al. for generating all vertices (i.e. extreme points) and extreme rays of a general convex polyhedron in R^d given by a system of linear inequalities

cdecimal

Homepage:
Spack package:
Versions:
2.3
Description:
cdecimal is a fast drop-in replacement for the decimal module in Python's standard library.

cdhit

Homepage:
Spack package:
Versions:
4.8.1, 4.6.8
Build Dependencies:
perl
Link Dependencies:
zlib
Run Dependencies:
perl
Description:
CD-HIT is a very widely used program for clustering and comparing protein or nucleotide sequences.

cdo

Homepage:
Spack package:
Versions:
1.9.8, 1.9.7.1, 1.9.6, 1.9.5, 1.9.4, 1.9.3, 1.9.2, 1.9.1, 1.9.0, 1.8.2, 1.7.2
Build Dependencies:
pkgconfig, netcdf-c, hdf5, grib-api, eccodes, szip, udunits, libxml2, proj, curl, fftw, magics, libuuid
Link Dependencies:
netcdf-c, hdf5, grib-api, eccodes, szip, udunits, libxml2, proj, curl, fftw, magics, libuuid
Description:
CDO is a collection of command line Operators to manipulate and analyse Climate and NWP model Data.

ceed

Homepage:
Spack package:
Versions:
2.0
Build Dependencies:
libceed, occa, nek5000, nektools, gslib, nekbone, nekcem, petsc, hpgmg, magma, pumi, mfem, laghos, hypre, suite-sparse
Link Dependencies:
libceed, occa, nek5000, nektools, gslib, nekbone, nekcem, petsc, hpgmg, magma, pumi, mfem, laghos, hypre, suite-sparse
Description:
Ceed is a collection of benchmarks, miniapps, software libraries and APIs for efficient high-order finite element and spectral element discretizations for exascale applications developed in the Department of Energy (DOE) and partially supported by the Exascale Computing Project (ECP). This is a Spack bundle package that installs the CEED software components.

cereal

Homepage:
Spack package:
Versions:
1.2.2, 1.2.1, 1.2.0, 1.1.2, 1.1.1, 1.1.0, 1.0.0, 0.9.1
Build Dependencies:
cmake
Description:
cereal is a header-only C++11 serialization library. cereal takes arbitrary data types and reversibly turns them into different representations, such as compact binary encodings, XML, or JSON. cereal was designed to be fast, light-weight, and easy to extend - it has no external dependencies and can be easily bundled with other code or used standalone.

ceres-solver

Homepage:
Spack package:
Versions:
1.12.0
Build Dependencies:
cmake, eigen, lapack, glog
Link Dependencies:
eigen, lapack, glog
Description:
Ceres Solver is an open source C++ library for modeling and solving large, complicated optimization problems. It can be used to solve Non- linear Least Squares problems with bounds constraints and general unconstrained optimization problems. It is a mature, feature rich, and performant library that has been used in production at Google since 2010.

cfitsio

Homepage:
Spack package:
Versions:
3.450, 3.420, 3.410, 3.370
Build Dependencies:
curl, bzip2
Link Dependencies:
curl, bzip2
Description:
CFITSIO is a library of C and Fortran subroutines for reading and writing data files in FITS (Flexible Image Transport System) data format.

cgal

Homepage:
Spack package:
Versions:
4.13, 4.12, 4.11, 4.9.1, 4.9, 4.7, 4.6.3
Build Dependencies:
cmake, boost, gmp, mpfr, zlib, qt
Link Dependencies:
boost, gmp, mpfr, zlib, qt
Description:
The Computational Geometry Algorithms Library (CGAL) is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. CGAL is used in various areas needing geometric computation, such as geographic information systems, computer aided design, molecular biology, medical imaging, computer graphics, and robotics.

cgdb

Homepage:
Spack package:
Versions:
0.7.0
Build Dependencies:
ncurses, readline
Link Dependencies:
ncurses, readline
Description:
A curses front-end to GDB

cgm

Homepage:
Spack package:
Versions:
16.0, 13.1.1, 13.1.0, 13.1
Build Dependencies:
mpi, oce
Link Dependencies:
mpi, oce
Description:
The Common Geometry Module, Argonne (CGMA) is a code library which provides geometry functionality used for mesh generation and other applications.

cgns

Homepage:
Spack package:
Versions:
develop, master, 3.4.0, 3.3.1, 3.3.0
Build Dependencies:
cmake, hdf5, mpi
Link Dependencies:
hdf5, mpi
Description:
The CFD General Notation System (CGNS) provides a general, portable, and extensible standard for the storage and retrieval of computational fluid dynamics (CFD) analysis data.

channelflow

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, eigen, fftw, mpi, hdf5, netcdf-c, boost
Link Dependencies:
eigen, fftw, mpi, hdf5, netcdf-c, boost
Description:
Channelflow is a software system for numerical analysis of the incompressible fluid flow in channel geometries, written in C++.

chapel

Homepage:
Spack package:
Versions:
1.20.0, 1.19.0, 1.18.0
Description:
Chapel is a modern programming language that is parallel, productive, portable, scalable and open-source.

charliecloud

Homepage:
Spack package:
Versions:
master, 0.13
Build Dependencies:
python, rsync, py-sphinx, py-sphinx-rtd-theme
Run Dependencies:
python, py-lark-parser, skopeo, umoci
Test Dependencies:
bats
Description:
Lightweight user-defined software stacks for HPC.

charmpp

Homepage:
Spack package:
Versions:
develop, 6.10.0, 6.9.0, 6.8.2, 6.8.1, 6.8.0, 6.7.1, 6.7.0, 6.6.1, 6.6.0, 6.5.1
Build Dependencies:
mpi, papi, cuda, automake, autoconf
Link Dependencies:
mpi, papi, cuda, automake, autoconf
Description:
Charm++ is a parallel programming framework in C++ supported by an adaptive runtime system, which enhances user productivity and allows programs to run portably from small multicore computers (your laptop) to the largest supercomputers.

chatterbug

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
mpi, scorep
Link Dependencies:
mpi, scorep
Description:
A suite of communication-intensive proxy applications that mimic commonly found communication patterns in HPC codes. These codes can be used as synthetic codes for benchmarking, or for trace generation using Score-P / OTF2.

check

Homepage:
Spack package:
Versions:
0.12.0, 0.11.0, 0.10.0
Description:
Check is a unit testing framework for C. It features a simple interface for defining unit tests, putting little in the way of the developer. Tests are run in a separate address space, so both assertion failures and code errors that cause segmentation faults or other signals can be caught. Test results are reportable in the following: Subunit, TAP, XML, and a generic logging format.

chgcentre

Homepage:
Spack package:
Versions:
1.6
Build Dependencies:
cmake, casacore, gsl
Link Dependencies:
casacore, gsl
Description:
The chgcentre tool can be used to change the phase centre of a measurement set.

chill

Homepage:
Spack package:
Versions:
master, 0.3
Build Dependencies:
boost, rose, autoconf, automake, libtool, m4, iegenlib, bison, flex, python
Link Dependencies:
python
Description:
A polyheadral compiler for autotuning

chlorop

Homepage:
Spack package:
Versions:
1.1
Run Dependencies:
awk
Description:
Chlorop predicts the presence of chloroplast transit peptides in protein sequences and the location of potential cTP cleavage sites. You will need to obtain the tarball by visiting the URL and completing the form. You can then either run spack install with the tarball in the directory, or add it to a mirror. You will need to set the CHLOROTMP environment variable to the full path of the directory you want chlorop to use as a temporary directory.

chombo

Homepage:
Spack package:
Versions:
develop, 3.2
Build Dependencies:
blas, lapack, gmake, mpi, hdf5
Link Dependencies:
blas, lapack, mpi, hdf5
Description:
The Chombo package provides a set of tools for implementing finite difference and finite-volume methods for the solution of partial differential equations on block-structured adaptively refined logically rectangular (i.e. Cartesian) grids.

chrpath

Homepage:
Spack package:
Versions:
0.16
Description:
chrpath: Modifies the dynamic library load path (rpath and runpath) of compiled programs and libraries.

cinch

Homepage:
Spack package:
Versions:
develop, 1.0
Description:
Cinch is a set of utilities and configuration options designed to make cmake builds easy to use and manage.

cistem

Homepage:
Spack package:
Versions:
1.0.0-beta
Build Dependencies:
wxwidgets, fftw
Link Dependencies:
wxwidgets, fftw
Description:
cisTEM is user-friendly software to process cryo-EM images of macromolecular complexes and obtain high-resolution 3D reconstructions from them.

citcoms

Homepage:
Spack package:
Versions:
3.3.1, 3.2.0
Build Dependencies:
mpi, zlib, exchanger, py-pythia, hc, cuda, hdf5
Link Dependencies:
mpi, zlib, exchanger, hc, cuda, hdf5
Run Dependencies:
py-pythia
Description:
CitcomS is a finite element code designed to solve compressible thermochemical convection problems relevant to Earth's mantle.

cityhash

Homepage:
Spack package:
Versions:
master, 2013-07-31
Description:
CityHash, a family of hash functions for strings.

clamav

Homepage:
Spack package:
Versions:
0.101.2
Build Dependencies:
pkgconfig, json-c, openssl, pcre, yara, zlib, bzip2
Link Dependencies:
json-c, openssl, pcre, yara, zlib, bzip2
Description:
Open source antivirus engine for detecting trojans, viruses, malware & other malicious threats.

clamr

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, mpi, mpe
Link Dependencies:
cmake, mpi, mpe
Description:
The CLAMR code is a cell-based adaptive mesh refinement (AMR) mini-app developed as a testbed for hybrid algorithm development using MPI and OpenCL GPU code.

clapack

Homepage:
Spack package:
Versions:
3.2.1
Build Dependencies:
atlas
Link Dependencies:
atlas
Description:
CLAPACK is a f2c'ed version of LAPACK. The CLAPACK library was built using a Fortran to C conversion utility called f2c. The entire Fortran 77 LAPACK library is run through f2c to obtain C code, and then modified to improve readability. CLAPACK's goal is to provide LAPACK for someone who does not have access to a Fortran compiler.

clara

Homepage:
Spack package:
Versions:
1.1.5, 1.1.4, 1.1.3, 1.1.2, 1.1.1, 1.1.0
Build Dependencies:
cmake
Description:
A simple to use, composable, command line parser for C++ 11 and beyond.

claw

Homepage:
Spack package:
Versions:
2.0.1, 2.0, 1.2.3, 1.2.2, 1.2.1, 1.2.0, 1.1.0
Build Dependencies:
cmake, java, ant, libxml2, bison
Link Dependencies:
java, ant, libxml2, bison
Description:
CLAW Compiler targets performance portability problem in climate and weather application written in Fortran. From a single source code, it generates architecture specific code decorated with OpenMP or OpenACC

cleaveland4

Homepage:
Spack package:
Versions:
4.4
Build Dependencies:
perl, perl-math-cdf, bowtie, viennarna, r, samtools
Link Dependencies:
bowtie, viennarna, samtools
Run Dependencies:
perl, perl-math-cdf, r
Description:
CleaveLand4: Analysis of degradome data to find sliced miRNA and siRNA targets

cleverleaf

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, samrai, hdf5, boost
Link Dependencies:
samrai, hdf5, boost
Description:
CleverLeaf is a hydrodynamics mini-app that extends CloverLeaf with Adaptive Mesh Refinement using the SAMRAI toolkit from Lawrence Livermore National Laboratory. The primary goal of CleverLeaf is to evaluate the application of AMR to the Lagrangian-Eulerian hydrodynamics scheme used by CloverLeaf.

clfft

Homepage:
Spack package:
Versions:
2.12.2
Build Dependencies:
cmake, opencl, boost
Link Dependencies:
opencl, boost
Description:
a software library containing FFT functions written in OpenCL

clhep

Homepage:
Spack package:
Versions:
2.4.1.3, 2.4.1.2, 2.4.1.0, 2.4.0.4, 2.4.0.2, 2.4.0.1, 2.4.0.0, 2.3.4.6, 2.3.4.5, 2.3.4.4, 2.3.4.3, 2.3.4.2, 2.3.3.2, 2.3.3.1, 2.3.3.0, 2.3.2.2, 2.3.1.1, 2.3.1.0, 2.3.0.0, 2.2.0.8, 2.2.0.5, 2.2.0.4
Build Dependencies:
cmake
Description:
CLHEP is a C++ Class Library for High Energy Physics.

clingo

Homepage:
Spack package:
Versions:
5.4.0, 5.3.0, 5.2.2
Build Dependencies:
cmake, doxygen, python
Link Dependencies:
python
Description:
Clingo: A grounder and solver for logic programs Clingo is part of the Potassco project for Answer Set Programming (ASP). ASP offers a simple and powerful modeling language to describe combinatorial problems as logic programs. The clingo system then takes such a logic program and computes answer sets representing solutions to the given problem.

cln

Homepage:
Spack package:
Versions:
1.3.6, 1.3.5, 1.3.4, 1.3.3, 1.3.2, 1.3.1, 1.3.0, 1.2.2, 1.2.1, 1.2.0
Build Dependencies:
autoconf, automake, libtool, m4
Description:
CLN is a library for efficient computations with all kinds of numbers in arbitrary precision. It features number classes for unlimited length integers, rationals, arbitrary precision floating point numbers and much more.

cloc

Homepage:
Spack package:
Versions:
1.84, 1.80, 1.74
Build Dependencies:
perl
Link Dependencies:
perl
Description:
Count, or compute differences of, physical lines of source code in the given files (may be archives such as compressed tarballs or zip files) and/or recursively below the given directories.

cloog

Homepage:
Spack package:
Versions:
0.18.1, 0.18.0, 0.17.0
Build Dependencies:
gmp, isl
Link Dependencies:
gmp, isl
Description:
CLooG is a free software and library to generate code for scanning Z-polyhedra. That is, it finds a code (e.g. in C, FORTRAN...) that reaches each integral point of one or more parameterized polyhedra.

cloverleaf

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
mpi, cuda
Link Dependencies:
mpi, cuda
Description:
Proxy Application. CloverLeaf is a miniapp that solves the compressible Euler equations on a Cartesian grid, using an explicit, second-order accurate method.

cloverleaf3d

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Proxy Application. CloverLeaf3D is 3D version of the CloverLeaf mini- app. CloverLeaf is a mini-app that solves the compressible Euler equations on a Cartesian grid, using an explicit, second-order accurate method.

clp

Homepage:
Spack package:
Versions:
1.16.11
Description:
Clp (Coin-or linear programming) is an open-source linear programming solver written in C++.

clustal-omega

Homepage:
Spack package:
Versions:
1.2.4
Build Dependencies:
argtable
Link Dependencies:
argtable
Description:
Clustal Omega: the last alignment program you'll ever need.

clustalw

Homepage:
Spack package:
Versions:
2.1
Description:
Multiple alignment of nucleic acid and protein sequences.

cmake

Homepage:
Spack package:
Versions:
3.16.2, 3.16.1, 3.16.0, 3.15.5, 3.15.4, 3.15.3, 3.15.2, 3.15.1, 3.15.0, 3.14.5, 3.14.4, 3.14.3, 3.14.2, 3.14.1, 3.14.0, 3.13.4, 3.13.3, 3.13.2, 3.13.1, 3.13.0, 3.12.4, 3.12.3, 3.12.2, 3.12.1, 3.12.0, 3.11.4, 3.11.3, 3.11.2, 3.11.1, 3.11.0, 3.10.3, 3.10.2, 3.10.1, 3.10.0, 3.9.6, 3.9.4, 3.9.0, 3.8.2, 3.8.1, 3.8.0, 3.7.2, 3.7.1, 3.6.1, 3.6.0, 3.5.2, 3.5.1, 3.5.0, 3.4.3, 3.4.0, 3.3.1, 3.1.0, 3.0.2, 2.8.10.2
Build Dependencies:
curl, expat, zlib, bzip2, xz, libarchive, libuv, rhash, qt, python, py-sphinx, openssl, ncurses
Link Dependencies:
curl, expat, zlib, bzip2, xz, libarchive, libuv, rhash, qt, openssl, ncurses
Description:
A cross-platform, open-source build system. CMake is a family of tools designed to build, test and package software.

cmocka

Homepage:
Spack package:
Versions:
1.1.1, 1.1.0
Build Dependencies:
cmake
Description:
Unit-testing framework in pure C

cmor

Homepage:
Spack package:
Versions:
3.4.0, 3.3.0, 3.2.0, 3.1.2
Build Dependencies:
uuid, netcdf-c, udunits, hdf5, python, py-numpy
Link Dependencies:
uuid, netcdf-c, udunits, hdf5, python
Run Dependencies:
py-numpy
Description:
Climate Model Output Rewriter is used to produce CF-compliant netCDF files. The structure of the files created by the library and the metadata they contain fulfill the requirements of many of the climate community's standard model experiments.

cnmem

Homepage:
Spack package:
Versions:
git
Build Dependencies:
cmake
Description:
CNMem mempool for CUDA devices

cnpy

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake
Link Dependencies:
zlib
Description:
cnpy: library to read/write .npy and .npz files in C/C++.

cntk

Homepage:
Spack package:
Versions:
master, 2.0
Build Dependencies:
libzip, openblas, mpi, boost, protobuf, kaldi, opencv, cuda, cub, cudnn, nccl, cntk1bitsgd, multiverso
Link Dependencies:
libzip, openblas, mpi, boost, protobuf, kaldi, opencv, cuda, cub, cudnn, nccl, cntk1bitsgd, multiverso
Description:
The Microsoft Cognitive Toolkit is a unified deep-learning toolkit that describes neural networks as a series of computational steps via a directed graph.

cntk1bitsgd

Homepage:
Spack package:
Versions:
master, c8b77d
Description:
CNTK1bitSGD is the header-only 1-bit stochastic gradient descent (1bit- SGD) library for the Computational Network Toolkit (CNTK).

cnvnator

Homepage:
Spack package:
Versions:
0.3.3
Build Dependencies:
samtools, htslib, root, bzip2, curl, lzma, zlib
Link Dependencies:
samtools, htslib, root, bzip2, curl, lzma, zlib
Description:
A tool for CNV discovery and genotyping from depth-of-coverage by mapped reads.

codar-cheetah

Homepage:
Spack package:
Versions:
develop, 0.5
Build Dependencies:
python
Link Dependencies:
python
Run Dependencies:
python
Description:
CODAR Cheetah: The CODAR Experiment Harness for Exascale science applications.

codes

Homepage:
Spack package:
Versions:
develop, 1.1.0, 1.0.0
Build Dependencies:
autoconf, automake, libtool, m4, pkgconfig, bison, flex, mpi, ross, sst-dumpi
Link Dependencies:
mpi, ross, sst-dumpi
Description:
CO-Design of multi-layer Exascale Storage (CODES) simulation framework

coevp

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
mpi, silo, flann, lapack
Link Dependencies:
mpi, silo, flann, lapack
Description:
CoEVP is a scale-bridging proxy application for embedded viscoplasticity applications. It is created and maintained by The Exascale Co-Design Center for Materials in Extreme Environments (ExMatEx). The code is intended to serve as a vehicle for co-design by allowing others to extend and/or reimplement it as needed to test performance of new architectures, programming models, etc. Due to the size and complexity of the studied models, as well as restrictions on distribution, the currently available LULESH proxy application provides the coarse-scale model implementation and the ASPA proxy application provides the adaptive sampling support.

cohmm

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
gnuplot
Link Dependencies:
gnuplot
Description:
An anticipated important use-case for next-generation supercomputing is multiscale modeling, in which continuum equations for large-scale material deformation are augmented with high-fidelity, fine-scale simulations that provide constitutive data on demand.

coinhsl

Homepage:
Spack package:
Versions:
2015.06.23, 2014.01.17, 2014.01.10
Build Dependencies:
blas
Link Dependencies:
blas
Description:
CoinHSL is a collection of linear algebra libraries (KB22, MA27, MA28, MA54, MA57, MA64, MA77, MA86, MA97, MC19, MC34, MC64, MC68, MC69, MC78, MC80, OF01, ZB01, ZB11) bundled for use with IPOPT and other applications that use these HSL routines. Note: CoinHSL is licensed software. You will need to request a license from Research Councils UK and download a .tar.gz archive of CoinHSL yourself. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see http://spack.readthedocs.io/en/latest/mirrors.html

colm

Homepage:
Spack package:
Versions:
0.12.0
Description:
Colm Programming Language Colm is a programming language designed for the analysis and transformation of computer languages. Colm is influenced primarily by TXL. It is in the family of program transformation languages.

colordiff

Homepage:
Spack package:
Versions:
1.0.18
Build Dependencies:
perl
Link Dependencies:
perl
Description:
Colorful diff utility.

comd

Homepage:
Spack package:
Versions:
develop, 1.1
Build Dependencies:
mpi, graphviz
Link Dependencies:
mpi, graphviz
Description:
CoMD is a reference implementation of classical molecular dynamics algorithms and workloads as used in materials science. It is created and maintained by The Exascale Co-Design Center for Materials in Extreme Environments (ExMatEx). The code is intended to serve as a vehicle for co-design by allowing others to extend and/or reimplement it as needed to test performance of new architectures, programming models, etc. New versions of CoMD will be released to incorporate the lessons learned from the co-design process.

commons-lang

Homepage:
Spack package:
Versions:
2.6, 2.4
Build Dependencies:
jdk
Link Dependencies:
jdk
Run Dependencies:
java
Description:
The standard Java libraries fail to provide enough methods for manipulation of its core classes. Apache Commons Lang provides these extra methods. Lang provides a host of helper utilities for the java.lang API, notably String manipulation methods, basic numerical methods, object reflection, concurrency, creation and serialization and System properties. Additionally it contains basic enhancements to java.util.Date and a series of utilities dedicated to help with building methods, such as hashCode, toString and equals.

commons-lang3

Homepage:
Spack package:
Versions:
3.7
Build Dependencies:
jdk
Link Dependencies:
jdk
Run Dependencies:
java
Description:
The standard Java libraries fail to provide enough methods for manipulation of its core classes. Apache Commons Lang provides these extra methods. Lang provides a host of helper utilities for the java.lang API, notably String manipulation methods, basic numerical methods, object reflection, concurrency, creation and serialization and System properties. Additionally it contains basic enhancements to java.util.Date and a series of utilities dedicated to help with building methods, such as hashCode, toString and equals.

commons-logging

Homepage:
Spack package:
Versions:
1.2, 1.1.3, 1.1.1
Build Dependencies:
jdk
Link Dependencies:
jdk
Run Dependencies:
java
Description:
When writing a library it is very useful to log information. However there are many logging implementations out there, and a library cannot impose the use of a particular one on the overall application that the library is a part of. The Logging package is an ultra-thin bridge between different logging implementations. A library that uses the commons-logging API can be used with any logging implementation at runtime. Commons-logging comes with support for a number of popular logging implementations, and writing adapters for others is a reasonably simple task.

compiz

Homepage:
Spack package:
Versions:
0.7.8
Build Dependencies:
libxcb, libxcomposite, libxfixes, libxdamage, libxrandr, libxinerama, libice, libsm, libxml2, libxslt, libxrender, libpng, glib, gconf
Link Dependencies:
libxcb, libxcomposite, libxfixes, libxdamage, libxrandr, libxinerama, libice, libsm, libxml2, libxslt, libxrender, libpng, glib, gconf
Description:
compiz - OpenGL window and compositing manager. Compiz is an OpenGL compositing manager that use GLX_EXT_texture_from_pixmap for binding redirected top-level windows to texture objects. It has a flexible plug- in system and it is designed to run well on most graphics hardware.

compositeproto

Homepage:
Spack package:
Versions:
0.4.2
Build Dependencies:
pkgconfig, util-macros
Description:
Composite Extension. This package contains header files and documentation for the composite extension. Library and server implementations are separate.

conduit

Homepage:
Spack package:
Versions:
master, 0.5.1, 0.5.0, 0.4.0, 0.3.1, 0.3.0, 0.2.1, 0.2.0
Build Dependencies:
cmake, python, py-numpy, hdf5, silo, adios, zfp, mpi, py-sphinx, py-sphinx-rtd-theme, doxygen
Link Dependencies:
python, hdf5, silo, adios, zfp, mpi, doxygen
Run Dependencies:
py-numpy
Description:
Conduit is an open source project from Lawrence Livermore National Laboratory that provides an intuitive model for describing hierarchical scientific data in C++, C, Fortran, and Python. It is used for data coupling between packages in-core, serialization, and I/O tasks.

connect-proxy

Homepage:
Spack package:
Versions:
1.105
Description:
`connect.c` is a simple relaying command to make network connection via SOCKS and https proxy

constype

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
pkgconfig, util-macros
Description:
constype prints on the standard output the Sun code for the type of display that the specified device is. It was originally written for SunOS, but has been ported to other SPARC OS'es and to Solaris on both SPARC & x86.

converge

Homepage:
Spack package:
Versions:
2.4.10, 2.3.23, 2.2.0, 2.1.0, 2.0.0
Build Dependencies:
mpi, openmpi
Link Dependencies:
mpi, openmpi
Description:
CONVERGE is a revolutionary computational fluid dynamics (CFD) program that eliminates the grid generation bottleneck from the simulation process. CONVERGE was developed by engine simulation experts and is straightforward to use for both engine and non-engine simulations. Unlike many CFD programs, CONVERGE automatically generates a perfectly orthogonal, structured grid at runtime based on simple, user-defined grid control parameters. This grid generation method completely eliminates the need to manually generate a grid. In addition, CONVERGE offers many other features to expedite the setup process and to ensure that your simulations are as computationally efficient as possible.

coreutils

Homepage:
Spack package:
Versions:
8.31, 8.30, 8.29, 8.26, 8.23
Description:
The GNU Core Utilities are the basic file, shell and text manipulation utilities of the GNU operating system. These are the core utilities which are expected to exist on every operating system.

corset

Homepage:
Spack package:
Versions:
1.06
Description:
Corset is a command-line software program to go from a de novo transcriptome assembly to gene-level counts.

cosbench

Homepage:
Spack package:
Versions:
0.4.2, 0.4.1.0, 0.4.0.1
Run Dependencies:
java, curl
Description:
COSBench is a benchmarking tool to measure the performance of Cloud Object Storage services. Object storage is an emerging technology that is different from traditional file systems (e.g., NFS) or block device systems (e.g., iSCSI). Amazon S3 and Openstack* swift are well-known object storage solutions

cosmomc

Homepage:
Spack package:
Versions:
2016.11, 2016.06
Build Dependencies:
python, mpi, planck-likelihood, py-matplotlib, py-numpy, py-pandas, py-scipy, py-six
Link Dependencies:
python, mpi, planck-likelihood
Run Dependencies:
python, py-matplotlib, py-numpy, py-pandas, py-scipy, py-six
Description:
CosmoMC is a Fortran 2008 Markov-Chain Monte-Carlo (MCMC) engine for exploring cosmological parameter space, together with Fortran and python code for analysing Monte-Carlo samples and importance sampling (plus a suite of scripts for building grids of runs, plotting and presenting results).

cosp2

Homepage:
Spack package:
Versions:
master
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Proxy Application. CoSP2 represents a sparse linear algebra parallel algorithm for calculating the density matrix in electronic tructure theory. The algorithm is based on a recursive second-order Fermi- Operator expansion method (SP2) and is tailored for density functional based tight-binding calculations of non-metallic systems.

cotter

Homepage:
Spack package:
Versions:
master, 20190205
Build Dependencies:
cmake, erfa, pal, aoflagger
Link Dependencies:
erfa, pal, aoflagger
Description:
Andre Offringa's cotter pre-processing pipeline.

cowsay

Homepage:
Spack package:
Versions:
3.04
Run Dependencies:
perl
Description:
A program that generates ASCII pictures of a cow with a message.

cp2k

Homepage:
Spack package:
Versions:
develop, 6.1, 5.1, 4.1, 3.0
Build Dependencies:
cuda, python, fftw, openblas, lapack, intel-mkl, libxsmm, pkgconfig, libint, libxc, mpi, scalapack, elpa, plumed, pexsi, sirius, py-numpy, wannier90
Link Dependencies:
cuda, fftw, openblas, lapack, intel-mkl, libxsmm, libint, libxc, mpi, scalapack, elpa, plumed, pexsi, sirius
Description:
CP2K is a quantum chemistry and solid state physics software package that can perform atomistic simulations of solid state, liquid, molecular, periodic, material, crystal, and biological systems

cpio

Homepage:
Spack package:
Versions:
2.13
Description:
GNU cpio copies files into or out of a cpio or tar archive. The archive can be another file on the disk, a magnetic tape, or a pipe.

cppad

Homepage:
Spack package:
Versions:
develop, 20170114
Build Dependencies:
cmake
Description:
A Package for Differentiation of C++ Algorithms.

cppcheck

Homepage:
Spack package:
Versions:
1.87, 1.81, 1.78, 1.72, 1.68
Run Dependencies:
py-pygments
Description:
A tool for static C/C++ code analysis.

cppgsl

Homepage:
Spack package:
Versions:
develop, 2.0.0, 1.0.0
Build Dependencies:
cmake
Description:
C++ Guideline Support Library

cpprestsdk

Homepage:
Spack package:
Versions:
2.9.1
Build Dependencies:
cmake, boost
Link Dependencies:
boost
Description:
The C++ REST SDK is a Microsoft project for cloud-based client-server communication in native code using a modern asynchronous C++ API design. This project aims to help C++ developers connect to and interact with services.

cppunit

Homepage:
Spack package:
Versions:
1.14.0, 1.13.2
Description:
Obsolete Unit testing framework for C++

cppzmq

Homepage:
Spack package:
Versions:
develop, 4.3.0, 4.2.2
Build Dependencies:
cmake, libzmq
Link Dependencies:
libzmq
Description:
C++ binding for 0MQ

cpu-features

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake
Description:
A cross platform C99 library to get cpu features at runtime.

cpuinfo

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake
Description:
cpuinfo is a library to detect essential for performance optimization information about host CPU.

cquery

Homepage:
Spack package:
Versions:
2018-08-23
Build Dependencies:
cmake, llvm
Link Dependencies:
llvm
Description:
a C++ header-only library for Nearest Neighbor (NN) search wih KD-trees.

cram

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
cmake, python, mpi
Link Dependencies:
python, mpi
Description:
Cram runs many small MPI jobs inside one large MPI job.

cray-libsci

Homepage:
Spack package:
Versions:
18.11.1.2, 16.11.1, 16.09.1, 16.07.1, 16.06.1, 16.03.1
Description:
The Cray Scientific Libraries package, LibSci, is a collection of numerical routines optimized for best performance on Cray systems.

cromwell

Homepage:
Spack package:
Versions:
44
Run Dependencies:
java
Description:
Cromwell is a Workflow Management System geared towards scientific workflows.

cromwell-womtool

Homepage:
Spack package:
Versions:
44
Run Dependencies:
java
Description:
Command line utilities for interacting with the Workflow Object Model (WOM).

cryptopp

Homepage:
Spack package:
Versions:
7.0.0, 6.1.0, 6.0.0, 5.6.5, 5.6.4, 5.6.3, 5.6.2, 5.6.1
Build Dependencies:
gmake
Description:
Crypto++ is an open-source C++ library of cryptographic schemes. The library supports a number of different cryptography algorithms, including authenticated encryption schemes (GCM, CCM), hash functions (SHA-1, SHA2), public-key encryption (RSA, DSA), and a few obsolete/historical encryption algorithms (MD5, Panama).

cryptsetup

Homepage:
Spack package:
Versions:
2.2.1
Build Dependencies:
libuuid, lvm2, popt, json-c, util-linux, gettext, autoconf, automake, libtool, m4
Link Dependencies:
libuuid, lvm2, popt, json-c, util-linux, gettext
Description:
Cryptsetup and LUKS - open-source disk encryption.

cscope

Homepage:
Spack package:
Versions:
15.8b
Build Dependencies:
ncurses, flex, bison, pkgconfig
Link Dependencies:
ncurses
Description:
Cscope is a developer's tool for browsing source code.

csdp

Homepage:
Spack package:
Versions:
6.1.1
Build Dependencies:
atlas
Link Dependencies:
atlas
Description:
CSDP is a library of routines that implements a predictor corrector variant of the semidefinite programming algorithm of Helmberg, Rendl, Vanderbei, and Wolkowicz

ctffind

Homepage:
Spack package:
Versions:
4.1.8
Build Dependencies:
wxwidgets, fftw
Link Dependencies:
wxwidgets, fftw
Description:
Fast and accurate defocus estimation from electron micrographs.

cub

Homepage:
Spack package:
Versions:
1.8.0, 1.7.5, 1.7.4, 1.7.3, 1.7.2, 1.7.1
Description:
CUB is a C++ header library of cooperative threadblock primitives and other utilities for CUDA kernel programming.

cube

Homepage:
Spack package:
Versions:
4.4.4, 4.4.3, 4.4.2, 4.4, 4.3.5, 4.3.4, 4.3.3, 4.2.3
Build Dependencies:
cubelib, pkgconfig, dbus, zlib, qt
Link Dependencies:
cubelib, dbus, zlib, qt
Description:
Cube the profile viewer for Score-P and Scalasca profiles. It displays a multi-dimensional performance space consisting of the dimensions: - performance metric - call path - system resource

cubelib

Homepage:
Spack package:
Versions:
4.4.4, 4.4.3, 4.4.2, 4.4
Build Dependencies:
pkgconfig, zlib
Link Dependencies:
zlib
Description:
Component of CubeBundle: General purpose C++ library and tools

cubew

Homepage:
Spack package:
Versions:
4.4.3, 4.4.2, 4.4.1, 4.4
Build Dependencies:
pkgconfig, zlib
Link Dependencies:
zlib
Description:
Component of CubeBundle: High performance C Writer library

cuda

Homepage:
Spack package:
Versions:
10.2.89, 10.1.243, 10.0.130, 9.2.88, 9.1.85, 9.0.176, 8.0.61, 8.0.44, 7.5.18, 6.5.14
Build Dependencies:
libxml2
Link Dependencies:
libxml2
Description:
CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU). Note: This package does not currently install the drivers necessary to run CUDA. These will need to be installed manually. See: https://docs.nvidia.com/cuda/ for details.

cuda-memtest

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, cuda
Link Dependencies:
cuda
Description:
Maintained and updated fork of cuda_memtest. original homepage: http://sourceforge.net/projects/cudagpumemtest . This software tests GPU memory for hardware errors and soft errors using CUDA or OpenCL.

cudnn

Homepage:
Spack package:
Versions:
7.6.5.32-10.2-linux-x64, 7.6.5.32-10.1-osx-x64, 7.6.5.32-10.1-linux-x64, 7.6.5.32-10.1-linux-ppc64le, 7.6.5.32-10.0-osx-x64, 7.6.5.32-10.0-linux-x64, 7.6.5.32-10.0-linux-ppc64le, 7.6.5.32-9.2-linux-x64, 7.6.5.32-9.2-linux-ppc64le, 7.6.5.32-9.0-linux-x64, 7.6.4.38-10.1-osx-x64, 7.6.4.38-10.1-linux-x64, 7.6.4.38-10.1-linux-ppc64le, 7.6.4.38-10.0-osx-x64, 7.6.4.38-10.0-linux-x64, 7.6.4.38-10.0-linux-ppc64le, 7.6.4.38-9.2-linux-x64, 7.6.4.38-9.2-linux-ppc64le, 7.6.4.38-9.0-linux-x64, 7.6.3.30-10.1-linux-x64, 7.6.3.30-10.1-linux-ppc64le, 7.5.1.10-10.1-linux-x64, 7.5.1.10-10.1-linux-ppc64le, 7.5.1.10-10.0-linux-x64, 7.5.1.10-10.0-linux-ppc64le, 7.5.0.56-10.1-linux-x64, 7.5.0.56-10.1-linux-ppc64le, 7.5.0.56-10.0-linux-x64, 7.5.0.56-10.0-linux-ppc64le, 7.3.0.29-9.0-linux-x64, 7.2.1.38-9.0-linux-x64, 7.1.3-9.1-linux-x64, 7.1.3-9.1-linux-ppc64le, 6.0-8.0-linux-x64, 5.1-8.0-linux-x64
Build Dependencies:
cuda
Link Dependencies:
cuda
Description:
NVIDIA cuDNN is a GPU-accelerated library of primitives for deep neural networks

cups

Homepage:
Spack package:
Versions:
2.2.3
Build Dependencies:
gnutls
Link Dependencies:
gnutls
Description:
CUPS is the standards-based, open source printing system developed by Apple Inc. for macOS and other UNIX-like operating systems. CUPS uses the Internet Printing Protocol (IPP) to support printing to local and network printers. This provides the core CUPS libraries, not a complete CUPS install.

curl

Homepage:
Spack package:
Versions:
7.68.0, 7.63.0, 7.60.0, 7.59.0, 7.56.0, 7.54.0, 7.53.1, 7.52.1, 7.50.3, 7.50.2, 7.50.1, 7.49.1, 7.47.1, 7.46.0, 7.45.0, 7.44.0, 7.43.0, 7.42.1
Build Dependencies:
openssl, zlib, nghttp2, libssh2, libssh, krb5
Link Dependencies:
openssl, zlib, nghttp2, libssh2, libssh, krb5
Description:
cURL is an open source command line tool and library for transferring data with URL syntax

cvs

Homepage:
Spack package:
Versions:
1.12.13
Description:
CVS a very traditional source control system

cxxopts

Homepage:
Spack package:
Versions:
2.2.0, 2.1.2, 2.1.1, 2.1.0, 2.0.0, 1.4.4, 1.4.3, 1.4.2, 1.4.1, 1.4.0
Build Dependencies:
cmake, icu4c
Link Dependencies:
icu4c
Description:
Lightweight C++ command line option parser

czmq

Homepage:
Spack package:
Versions:
4.1.1, 4.0.2, 3.0.2
Build Dependencies:
libtool, automake, autoconf, pkgconfig, libuuid, libzmq
Link Dependencies:
libuuid, libzmq
Description:
A C interface to the ZMQ library

dakota

Homepage:
Spack package:
Versions:
6.9, 6.3
Build Dependencies:
cmake, netlib-lapack, blas, mpi, python, boost
Link Dependencies:
netlib-lapack, blas, mpi, python, boost
Description:
The Dakota toolkit provides a flexible, extensible interface between analysis codes and iterative systems analysis methods. Dakota contains algorithms for: - optimization with gradient and non gradient-based methods; - uncertainty quantification with sampling, reliability, stochastic - expansion, and epistemic methods; - parameter estimation with nonlinear least squares methods; - sensitivity/variance analysis with design of experiments and - parameter study methods. These capabilities may be used on their own or as components within advanced strategies such as hybrid optimization, surrogate-based optimization, mixed integer nonlinear programming, or optimization under uncertainty.

daligner

Homepage:
Spack package:
Versions:
1.0
Description:
Daligner: The Dazzler "Overlap" Module.

damageproto

Homepage:
Spack package:
Versions:
1.2.1
Build Dependencies:
pkgconfig, util-macros
Description:
X Damage Extension. This package contains header files and documentation for the X Damage extension. Library and server implementations are separate.

damaris

Homepage:
Spack package:
Versions:
master, 1.3.1
Build Dependencies:
cmake, mpi, boost, xsd, xerces-c, hdf5, catalyst, visit
Link Dependencies:
mpi, boost, xsd, xerces-c, hdf5, catalyst, visit
Description:
Damaris is a middleware for I/O and in situ analytics targeting large- scale, MPI-based HPC simulations.

damselfly

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Damselfly is a model-based parallel network simulator.

darshan-runtime

Homepage:
Spack package:
Versions:
develop, 3.1.7, 3.1.6, 3.1.0, 3.0.0
Build Dependencies:
mpi, zlib
Link Dependencies:
mpi, zlib
Description:
Darshan (runtime) is a scalable HPC I/O characterization tool designed to capture an accurate picture of application I/O behavior, including properties such as patterns of access within files, with minimum overhead. DarshanRuntime package should be installed on systems where you intend to instrument MPI applications.

darshan-util

Homepage:
Spack package:
Versions:
develop, 3.1.7, 3.1.6, 3.1.0, 3.0.0
Build Dependencies:
zlib, bzip2
Link Dependencies:
zlib, bzip2
Run Dependencies:
bzip2
Description:
Darshan (util) is collection of tools for parsing and summarizing log files produced by Darshan (runtime) instrumentation. This package is typically installed on systems (front-end) where you intend to analyze log files produced by Darshan (runtime).

dash

Homepage:
Spack package:
Versions:
0.5.9.1
Build Dependencies:
autoconf, automake, libtool, m4
Link Dependencies:
libedit
Description:
The Debian Almquist Shell.

datamash

Homepage:
Spack package:
Versions:
1.3, 1.1.0, 1.0.7, 1.0.6, 1.0.5
Description:
GNU datamash is a command-line program which performs basic numeric, textual and statistical operations on input textual data files.

dataspaces

Homepage:
Spack package:
Versions:
1.8.0, 1.6.2
Build Dependencies:
m4, automake, autoconf, libtool, mpi
Link Dependencies:
mpi
Description:
an extreme scale data management framework.

dateutils

Homepage:
Spack package:
Versions:
0.4.6, 0.4.5
Description:
Dateutils are a bunch of tools that revolve around fiddling with dates and times in the command line with a strong focus on use cases that arise when dealing with large amounts of financial data.

davix

Homepage:
Spack package:
Versions:
0.7.5, 0.7.3, 0.6.9, 0.6.8
Build Dependencies:
cmake, pkgconfig, libxml2, libuuid, openssl
Link Dependencies:
libxml2, libuuid, openssl
Description:
High-performance file management over WebDAV/HTTP.

dbcsr

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, blas, lapack, mpi, py-fypp
Link Dependencies:
blas, lapack, mpi, py-fypp
Description:
Distributed Block Compressed Sparse Row matrix library.

dbus

Homepage:
Spack package:
Versions:
1.12.8, 1.11.2, 1.9.0, 1.8.8, 1.8.6, 1.8.4, 1.8.2
Build Dependencies:
pkgconfig, expat, glib
Link Dependencies:
expat, glib
Description:
D-Bus is a message bus system, a simple way for applications to talk to one another. D-Bus supplies both a system daemon (for events such new hardware device printer queue ) and a per-user-login-session daemon (for general IPC needs among user applications). Also, the message bus is built on top of a general one-to-one message passing framework, which can be used by any two applications to communicate directly (without going through the message bus daemon).

dcmtk

Homepage:
Spack package:
Versions:
3.6.3, 3.6.2
Build Dependencies:
cmake, openssl, zlib, libtiff, libpng, libxml2, libiconv
Link Dependencies:
openssl, zlib, libtiff, libpng, libxml2, libiconv
Description:
DCMTK is a collection of libraries and applications implementing large parts of the DICOM standard.

dd4hep

Homepage:
Spack package:
Versions:
master, 1.11.0, 1.10.0
Build Dependencies:
cmake, boost, root, python, xerces-c, geant4
Link Dependencies:
boost, root, python, xerces-c, geant4
Description:
DD4hep is a software framework for providing a complete solution for full detector description (geometry, materials, visualization, readout, alignment, calibration, etc.) for the full experiment life cycle (detector concept development, detector optimization, construction, operation). It offers a consistent description through a single source of detector information for simulation, reconstruction, analysis, etc. It distributed under the LGPLv3 License.

dealii

Homepage:
Spack package:
Versions:
develop, 9.1.1, 9.1.0, 9.0.1, 9.0.0, 8.5.1, 8.5.0, 8.4.2, 8.4.1, 8.4.0, 8.3.0, 8.2.1, 8.1.0
Build Dependencies:
cuda, cmake, blas, boost, bzip2, lapack, suite-sparse, zlib, mpi, adol-c, arpack-ng, assimp, doxygen, graphviz, ginkgo, gmsh, gsl, hdf5, metis, muparser, nanoflann, netcdf-c, netcdf-cxx, oce, p4est, petsc, python, scalapack, slepc, sundials, symengine, tbb, trilinos
Link Dependencies:
cuda, blas, boost, bzip2, lapack, suite-sparse, zlib, mpi, adol-c, arpack-ng, assimp, doxygen, graphviz, ginkgo, gsl, hdf5, metis, muparser, nanoflann, netcdf-c, netcdf-cxx, oce, p4est, petsc, python, scalapack, slepc, sundials, symengine, tbb, trilinos
Run Dependencies:
gmsh
Description:
C++ software library providing well-documented tools to build finite element codes for a broad variety of PDEs.

dealii-parameter-gui

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, qt
Link Dependencies:
qt
Description:
A qt based graphical user interface for editing deal.II .prm parameter files.

decentralized-internet

Homepage:
Spack package:
Versions:
4.2.3
Description:
A library for building decentralized and grid computing projects

deconseq-standalone

Homepage:
Spack package:
Versions:
0.4.3
Build Dependencies:
perl
Link Dependencies:
perl
Description:
The DeconSeq tool can be used to automatically detect and efficiently remove sequence contaminations from genomic and metagenomic datasets.

dejagnu

Homepage:
Spack package:
Versions:
1.6, 1.4.4
Build Dependencies:
expect, tcl
Link Dependencies:
expect, tcl
Description:
DejaGnu is a framework for testing other programs. Its purpose is to provide a single front end for all tests.

delly2

Homepage:
Spack package:
Versions:
2017-08-03
Build Dependencies:
htslib, boost, bcftools
Link Dependencies:
htslib, boost, bcftools
Description:
Delly2 is an integrated structural variant prediction method that can discover, genotype and visualize deletions, tandem duplications, inversions and translocations at single-nucleotide resolution in short- read massively parallel sequencing data..

denovogear

Homepage:
Spack package:
Versions:
1.1.1, 1.1.0
Build Dependencies:
cmake, boost, htslib, eigen
Link Dependencies:
zlib
Description:
DeNovoGear is a software package to detect de novo mutations using next- generation sequencing data. It supports the analysis of many differential experimental designs and uses advanced statistical models to reduce the false positve rate.

dftfe

Homepage:
Spack package:
Versions:
0.6.0, 0.5.2, 0.5.1, 0.5.0
Build Dependencies:
cmake, mpi, dealii, scalapack, alglib, libxc, spglib, libxml2
Link Dependencies:
mpi, dealii, scalapack, alglib, libxc, spglib, libxml2
Description:
Real-space DFT calculations using Finite Elements

dia

Homepage:
Spack package:
Versions:
0.97.3
Build Dependencies:
intltool, gettext, pkgconfig, gtkplus, libxslt, python, swig, libsm, libuuid, libxinerama, libxrender, libxml2, freetype
Link Dependencies:
gtkplus, libxslt, python, swig, libsm, libuuid, libxinerama, libxrender, libxml2, freetype
Description:
Dia is a program for drawing structured diagrams.

dialign

Homepage:
Spack package:
Versions:
2.2.1
Description:
DIALIGN is a software program for multiple sequence alignment developed by Burkhard Morgenstern et al..

dialign-tx

Homepage:
Spack package:
Versions:
1.0.2
Description:
DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment

diamond

Homepage:
Spack package:
Versions:
0.9.25, 0.9.23, 0.9.22, 0.9.21, 0.9.20, 0.9.19, 0.9.14, 0.8.38, 0.8.26
Build Dependencies:
cmake, zlib
Link Dependencies:
zlib
Description:
DIAMOND is a sequence aligner for protein and translated DNA searches, designed for high performance analysis of big sequence data.

diffsplice

Homepage:
Spack package:
Versions:
0.1.2beta, 0.1.1
Description:
A novel tool for discovering and quantitating alternative splicing variants present in an RNA-seq dataset, without relying on annotated transcriptome or pre-determined splice pattern.

diffutils

Homepage:
Spack package:
Versions:
3.7, 3.6
Build Dependencies:
libiconv
Link Dependencies:
libiconv
Description:
GNU Diffutils is a package of several programs related to finding differences between files.

dimemas

Homepage:
Spack package:
Versions:
5.4.1
Build Dependencies:
autoconf, automake, libtool, m4, bison, flex, boost
Link Dependencies:
bison, flex, boost
Run Dependencies:
bison, flex
Description:
High-abstracted network simulator for message-passing programs.

direnv

Homepage:
Spack package:
Versions:
2.20.0, 2.11.3
Build Dependencies:
go
Description:
direnv is an environment switcher for the shell.

discovar

Homepage:
Spack package:
Versions:
52488
Description:
DISCOVAR is a variant caller and small genome assembler.

discovardenovo

Homepage:
Spack package:
Versions:
52488
Build Dependencies:
samtools, jemalloc
Link Dependencies:
samtools, jemalloc
Description:
DISCOVAR de novo is a large (and small) de novo genome assembler. It quickly generates highly accurate and complete assemblies using the same single library data as used by DISCOVAR. It currently doesn't support variant calling, for that, please use DISCOVAR instead.

dislin

Homepage:
Spack package:
Versions:
11.0
Build Dependencies:
motif, gl, glx
Link Dependencies:
motif, gl, glx
Description:
DISLIN is a high level and easy to use graphics library for displaying data as curves, bar graphs, pie charts, 3D-colour plots, surfaces, contours and maps.

diy

Homepage:
Spack package:
Versions:
master, 3.5.0
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Data-parallel out-of-core library

dlpack

Homepage:
Spack package:
Versions:
master
Description:
DLPack is an RFC for common tensor and operator guidelines in deep learning systems.

dmd

Homepage:
Spack package:
Versions:
2.081.1
Build Dependencies:
openssl, curl
Link Dependencies:
openssl, curl
Description:
DMD is the reference compiler for the D programming language.

dmlc-core

Homepage:
Spack package:
Versions:
master, 20170508
Build Dependencies:
cmake
Description:
DMLC-Core is the backbone library to support all DMLC projects, offers the bricks to build efficient and scalable distributed machine learning libraries.

dmtcp

Homepage:
Spack package:
Versions:
2.6.0, 2.5.2
Description:
DMTCP (Distributed MultiThreaded Checkpointing) transparently checkpoints a single-host or distributed computation in user-space -- with no modifications to user code or to the O/S.

dmxproto

Homepage:
Spack package:
Versions:
2.3.1
Build Dependencies:
pkgconfig, util-macros
Description:
Distributed Multihead X (DMX) Extension. This extension defines a protocol for clients to access a front-end proxy X server that controls multiple back-end X servers making up a large display.

docbook-xml

Homepage:
Spack package:
Versions:
4.5
Description:
Docbook DTD XML files.

docbook-xsl

Homepage:
Spack package:
Versions:
1.79.2
Build Dependencies:
docbook-xml
Link Dependencies:
docbook-xml
Description:
DocBook XSLT 1.0 Stylesheets.

dos2unix

Homepage:
Spack package:
Versions:
7.3.4
Description:
DOS/Mac to Unix and vice versa text file format converter.

dotnet-core-sdk

Homepage:
Spack package:
Versions:
2.1.300
Description:
The .NET Core SDK is a powerful development environment to write applications for all types of infrastructure.

double-conversion

Homepage:
Spack package:
Versions:
2.0.1, 2.0.0, 1.1.5, 1.1.4, 1.1.3
Build Dependencies:
cmake
Description:
This project (double-conversion) provides binary-decimal and decimal- binary routines for IEEE doubles. The library consists of efficient conversion routines that have been extracted from the V8 JavaScript engine. The code has been refactored and improved so that it can be used more easily in other projects. There is extensive documentation in src/double-conversion.h. Other examples can be found in test/cctest/test-conversions.cc.

doxygen

Homepage:
Spack package:
Versions:
1.8.15, 1.8.14, 1.8.12, 1.8.11, 1.8.10
Build Dependencies:
cmake, python, libiconv, flex, bison
Link Dependencies:
libiconv
Run Dependencies:
graphviz
Description:
Doxygen is the de facto standard tool for generating documentation from annotated C++ sources, but it also supports other popular programming languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba, Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some extent D..

draco

Homepage:
Spack package:
Versions:
develop, 7.4.0, 7.3.0, 7.2.0, 7.1.0, 6.25.0, 6.23.0, 6.22.0, 6.21.0, 6.20.1, 6.20.0
Build Dependencies:
cmake, gsl, mpi, numdiff, python, random123, eospac, lapack, libquo, metis, parmetis, qt, superlu-dist
Link Dependencies:
gsl, mpi, eospac, lapack, libquo, metis, parmetis, qt, superlu-dist
Run Dependencies:
mpi, python, qt
Description:
Draco is an object-oriented component library geared towards numerically intensive, radiation (particle) transport applications built for parallel computing hardware. It consists of semi-independent packages and a robust build system.

dri2proto

Homepage:
Spack package:
Versions:
2.8
Build Dependencies:
pkgconfig, util-macros
Description:
Direct Rendering Infrastructure 2 Extension. This extension defines a protocol to securely allow user applications to access the video hardware without requiring data to be passed through the X server.

dri3proto

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
pkgconfig, util-macros
Description:
Direct Rendering Infrastructure 3 Extension. This extension defines a protocol to securely allow user applications to access the video hardware without requiring data to be passed through the X server.

drill

Homepage:
Spack package:
Versions:
1.17.0, 1.16.0, 1.15.0, 1.14.0, 1.13.0
Run Dependencies:
java
Description:
Apache Drill is a distributed MPP query layer that supports SQL and alternative query languages against NoSQL and Hadoop data storage systems.

ds

Homepage:
Spack package:
Versions:
9.8.0
Build Dependencies:
autoconf, automake, m4, libtool, libx11, libxml2, libxslt, openssl, tcl, tcl-tclxml, tk
Link Dependencies:
libx11, libxml2, libxslt, openssl, tcl, tcl-tclxml, tk
Description:
SAOImage DS9 is an astronomical imaging and data visualization application.

dsdp

Homepage:
Spack package:
Versions:
5.8
Build Dependencies:
blas, lapack
Link Dependencies:
blas, lapack
Description:
The DSDP software is a free open source implementation of an interior- point method for semidefinite programming. It provides primal and dual solutions, exploits low-rank structure and sparsity in the data, and has relatively low memory requirements for an interior-point method. It allows feasible and infeasible starting points and provides approximate certificates of infeasibility when no feasible solution exists.

dsrc

Homepage:
Spack package:
Versions:
2.0.2
Description:
DNA Sequence Reads Compression is an application designed for compression of data files containing reads from DNA sequencing in FASTQ format.

dtcmp

Homepage:
Spack package:
Versions:
1.1.0, 1.0.3
Build Dependencies:
mpi, lwgrp
Link Dependencies:
mpi, lwgrp
Description:
The Datatype Comparison Library provides comparison operations and parallel sort algorithms for MPI applications.

dyninst

Homepage:
Spack package:
Versions:
develop, 10.1.0, 10.0.0, 9.3.2, 9.3.0, 9.2.0, 9.1.0, 8.2.1
Build Dependencies:
cmake, boost, libiberty, libdwarf, tbb
Link Dependencies:
boost, libiberty, elf, libdwarf, tbb
Description:
API for dynamic binary instrumentation. Modify programs while they are executing without recompiling, re-linking, or re-executing.

dysco

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
cmake, casacore, gsl, boost
Link Dependencies:
casacore, gsl, boost
Description:
Dysco is a compressing storage manager for Casacore mearement sets.

ea-utils

Homepage:
Spack package:
Versions:
1.04.807
Build Dependencies:
subversion, zlib, gsl, bamtools, perl
Link Dependencies:
subversion, zlib, gsl, bamtools
Description:
Command-line tools for processing biological sequencing data. Barcode demultiplexing, adapter trimming, etc. Primarily written to support an Illumina based pipeline - but should work with any FASTQs.

easybuild

Homepage:
Spack package:
Versions:
4.0.0, 3.1.2
Build Dependencies:
python
Link Dependencies:
python
Run Dependencies:
python, py-easybuild-framework, py-easybuild-easyblocks, py-easybuild-easyconfigs
Description:
EasyBuild is a software build and installation framework for (scientific) software on HPC systems.

ebms

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
This is a miniapp for the Energy Banding Monte Carlo (EBMC) neutron transportation simulation code. It is adapted from a similar miniapp provided by Andrew Siegel, whose algorithm is described in [1], where only one process in a compute node is used, and the compute nodes are divided into memory nodes and tracking nodes. Memory nodes do not participate in particle tracking. Obviously, there is a lot of resource waste in this design.

eccodes

Homepage:
Spack package:
Versions:
2.13.0, 2.5.0, 2.2.0
Build Dependencies:
cmake, netcdf-c, openjpeg, jasper, libpng, libaec, python, py-numpy
Link Dependencies:
netcdf-c, openjpeg, jasper, libpng, libaec, python
Run Dependencies:
python, py-numpy
Description:
ecCodes is a package developed by ECMWF for processing meteorological data in GRIB (1/2), BUFR (3/4) and GTS header formats.

ecflow

Homepage:
Spack package:
Versions:
4.11.1
Build Dependencies:
cmake, boost, qt
Link Dependencies:
boost, qt
Description:
ecFlow is a work flow package that enables users to run a large number of programs (with dependencies on each other and on time) in a controlled environment. It provides tolerance for hardware and software failures, combined with good restart capabilities.

eclipse-gcj-parser

Homepage:
Spack package:
Versions:
4.8
Description:
GCJ requires the Eclipse Java parser, but does not ship with it. This builds that parser into an executable binary, thereby making GCJ work.

ecos

Homepage:
Spack package:
Versions:
2.0.7
Description:
A lightweight conic solver for second-order cone programming.

ecp-io-sdk

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
cmake, adios2, darshan-runtime, darshan-util, faodel, hdf5, mercury, parallel-netcdf, unifyfs, veloc
Link Dependencies:
adios2, darshan-runtime, darshan-util, faodel, hdf5, mercury, parallel-netcdf, unifyfs, veloc
Description:
ECP I/O Services SDK

ecp-proxy-apps

Homepage:
Spack package:
Versions:
2.1, 2.0, 1.1, 1.0
Build Dependencies:
amg, miniamr, ember, miniqmc, minivite, picsarlite, thornado-mini, candle-benchmarks, laghos, macsio, sw4lite, xsbench, examinimd, nekbone, swfft, minife, minitri, comd
Link Dependencies:
amg, miniamr, ember, miniqmc, minivite, picsarlite, thornado-mini, candle-benchmarks, laghos, macsio, sw4lite, xsbench, examinimd, nekbone, swfft, minife, minitri, comd
Description:
This is a collection of packages that represents the official suite of DOE/ECP proxy applications. This is a Spack bundle package that installs the ECP proxy application suite.

ecp-viz-sdk

Homepage:
Spack package:
Versions:
1.0
Build Dependencies:
cmake, ascent, catalyst, paraview, sz, visit, vtk-m, zfp
Link Dependencies:
ascent, catalyst, paraview, sz, visit, vtk-m, zfp
Description:
ECP Viz & Analysis SDK

ed

Homepage:
Spack package:
Versions:
1.4
Description:
GNU ed is a line-oriented text editor. It is used to create, display, modify and otherwise manipulate text files, both interactively and via shell scripts.

editline

Homepage:
Spack package:
Versions:
1.16.0
Build Dependencies:
autoconf, automake, libtool, m4, ncurses
Link Dependencies:
ncurses
Description:
A readline() replacement for UNIX without termcap (ncurses)

editres

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
libxaw, libx11, libxt, libxmu, pkgconfig, util-macros
Link Dependencies:
libxaw, libx11, libxt, libxmu
Description:
Dynamic resource editor for X Toolkit applications.

eem

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
EEM is a program to extract the gene group and expression modules that are co-expressed in the mRNA expression data.

eigen

Homepage:
Spack package:
Versions:
3.3.7, 3.3.5, 3.3.4, 3.3.3, 3.3.1, 3.2.10, 3.2.9, 3.2.8, 3.2.7
Build Dependencies:
cmake, metis, scotch, fftw, suite-sparse, mpfr, gmp
Link Dependencies:
metis, scotch, fftw, suite-sparse, mpfr, gmp
Description:
Eigen is a C++ template library for linear algebra matrices, vectors, numerical solvers, and related algorithms.

elasticsearch

Homepage:
Spack package:
Versions:
6.4.0, 6.3.0, 6.2.4
Run Dependencies:
jdk
Description:
Elasticsearch is a search engine based on Lucene. It provides a distributed, multitenant-capable full-text search engine with an HTTP web interface and schema-free JSON documents.

elemental

Homepage:
Spack package:
Versions:
develop, 0.87.7, 0.87.6
Build Dependencies:
cmake, blas, openblas, intel-mkl, veclibfort, essl, lapack, netlib-lapack, metis, mpi, scalapack, python, gmp, mpc, mpfr
Link Dependencies:
blas, openblas, intel-mkl, veclibfort, essl, lapack, netlib-lapack, metis, mpi, scalapack, python, gmp, mpc, mpfr
Description:
Elemental: Distributed-memory dense and sparse-direct linear algebra and optimization library.

elfutils

Homepage:
Spack package:
Versions:
0.178, 0.177, 0.176, 0.175, 0.174, 0.173, 0.170, 0.168, 0.163
Build Dependencies:
gettext, m4
Link Dependencies:
bzip2, xz, zlib, gettext
Description:
elfutils is a collection of various binary tools such as eu-objdump, eu- readelf, and other utilities that allow you to inspect and manipulate ELF files. Refer to Table 5.Tools Included in elfutils for Red Hat Developer for a complete list of binary tools that are distributed with the Red Hat Developer Toolset version of elfutils.

elk

Homepage:
Spack package:
Versions:
3.3.17
Build Dependencies:
blas, lapack, fftw, mpi, libxc
Link Dependencies:
blas, lapack, fftw, mpi, libxc
Description:
An all-electron full-potential linearised augmented-plane wave (FP-LAPW) code with many advanced features.

elmerfem

Homepage:
Spack package:
Versions:
8.4, devel
Build Dependencies:
cmake, mpi, netcdf-fortran, blas, lapack, mumps, hypre, trilinos, zoltan, lua
Link Dependencies:
mpi, netcdf-fortran, blas, lapack, mumps, hypre, trilinos, zoltan, lua
Description:
Elmer is an open source multiphysical simulation software. It includes physical models of fluid dynamics, structural mechanics, electromagnetics, heat transfer and acoustics.

elpa

Homepage:
Spack package:
Versions:
2019.05.002, 2018.11.001, 2018.05.001.rc1, 2017.11.001, 2017.05.003, 2017.05.002, 2016.11.001.pre, 2016.05.004, 2016.05.003, 2015.11.001
Build Dependencies:
mpi, blas, lapack, scalapack
Link Dependencies:
mpi, blas, lapack, scalapack
Description:
Eigenvalue solvers for Petaflop-Applications (ELPA)

elsd

Homepage:
Spack package:
Versions:
master
Build Dependencies:
blas, lapack
Link Dependencies:
blas, lapack
Description:
ELSD: Ellipse and Line Segment Detector

elsdc

Homepage:
Spack package:
Versions:
master
Build Dependencies:
blas, lapack
Link Dependencies:
blas, lapack
Description:
ELSDc: Ellipse and Line Segment Detector, with Continuous validation.

elsi

Homepage:
Spack package:
Versions:
2.2.1
Build Dependencies:
cmake, mpi, elpa, ntpoly, slepc, petsc, superlu-dist
Link Dependencies:
blas, lapack, mpi, scalapack, elpa, ntpoly, slepc, petsc, superlu-dist
Description:
ELSI provides a unified interface for electronic structure codes to a variety of eigenvalue solvers.

emacs

Homepage:
Spack package:
Versions:
26.3, 26.2, 26.1, 25.3, 25.2, 25.1, 24.5
Build Dependencies:
pkgconfig, ncurses, pcre, zlib, libtiff, libpng, libxpm, giflib, libx11, libxaw, gtkplus, gnutls, jpeg
Link Dependencies:
ncurses, pcre, zlib, libtiff, libpng, libxpm, giflib, libx11, libxaw, gtkplus, gnutls, jpeg
Description:
The Emacs programmable text editor.

ember

Homepage:
Spack package:
Versions:
1.0.0
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
Ember Communication Pattern Library The Ember suite provides communication patterns in a simplified setting (simplified by the removal of application calculations, control flow, etc.).

emboss

Homepage:
Spack package:
Versions:
6.6.0
Build Dependencies:
libxpm, libgd, postgresql
Link Dependencies:
libxpm, libgd, postgresql
Description:
EMBOSS is a free Open Source software analysis package specially developed for the needs of the molecular biology (e.g. EMBnet) user community

enchant

Homepage:
Spack package:
Versions:
2.2.7, 2.2.6, 2.2.5, 2.2.4, 2.2.3, 2.2.2, 2.2.1, 2.2.0, 2.1.3, 2.1.2, 2.1.1, 2.1.0
Build Dependencies:
glib, aspell, hunspell
Link Dependencies:
glib, aspell, hunspell
Description:
Enchant is a library (and command-line program) that wraps a number of different spelling libraries and programs with a consistent interface.

energyplus

Homepage:
Spack package:
Versions:
8.9.0
Description:
EnergyPlus is a whole building energy simulation program that engineers, architects, and researchers use to model both energy consumption for heating, cooling, ventilation, lighting and plug and process loads and water use in buildings

entrezdirect

Homepage:
Spack package:
Versions:
10.7.20190114
Run Dependencies:
perl, perl-html-parser, perl-libwww-perl, perl-lwp-protocol-https, perl-http-message, perl-xml-simple
Description:
Entrez Direct (EDirect) provides access to the NCBI's suite of interconnected databases (publication, sequence, structure, gene, variation, expression, etc.) from a UNIX terminal window.

environment-modules

Homepage:
Spack package:
Versions:
4.4.1, 4.4.0, 4.3.1, 4.3.0, 4.2.5, 4.2.4, 4.2.3, 4.2.2, 4.2.1, 4.2.0, 4.1.4, 4.1.3, 4.1.2, 4.1.1, 4.1.0, 4.0.0, 3.2.10
Build Dependencies:
tcl
Link Dependencies:
tcl
Run Dependencies:
tcl
Description:
The Environment Modules package provides for the dynamic modification of a user's environment via module files.

eospac

Homepage:
Spack package:
Versions:
6.4.0beta.4, 6.4.0beta.3, 6.4.0beta.2, 6.4.0beta.1, 6.4.0, 6.3.1
Description:
A collection of C routines that can be used to access the Sesame data library.

eq-r

Homepage:
Spack package:
Versions:
master, 1.0
Build Dependencies:
autoconf, automake, libtool, m4, mpi, r-rinside, r-rcpp, r, tcl, swig
Link Dependencies:
mpi, r-rinside, r-rcpp, r, tcl, swig
Description:
EMEWS Queues for R (EQ/R) Installs EQ/R.

er

Homepage:
Spack package:
Versions:
master, 0.0.3
Build Dependencies:
cmake, mpi, kvtree, redset, shuffile
Link Dependencies:
mpi, kvtree, redset, shuffile
Description:
Encoding and redundancy on a file set

erfa

Homepage:
Spack package:
Versions:
1.4.0
Build Dependencies:
m4, autoconf, automake, libtool
Description:
ERFA(Essential Routines for Fundamental Astronomy) is a C library containing key algorithms for astronomy.

erlang

Homepage:
Spack package:
Versions:
22.2, 22.1, 22.0, 21.3, 21.2
Build Dependencies:
autoconf, automake, m4, libtool
Description:
Erlang is a programming language and runtime system for building massively scalable soft real-time systems with requirements on high availability.

ermod

Homepage:
Spack package:
Versions:
0.3.6, 0.3.5
Build Dependencies:
fftw, blas
Link Dependencies:
fftw, blas
Description:
ERmod (Energy Representation Module) is a program to calculate the solvation free energy based on the energy representation method. The program allows users to calculate the solvation free energy to arbitrary solvents, including inhomogeneous systems, and can run in cooperation with state-of-art molecular simulation softwares, such as NAMD, GROMACS and/or AMBER.

erne

Homepage:
Spack package:
Versions:
2.1.1
Build Dependencies:
boost, openmpi
Link Dependencies:
boost
Run Dependencies:
boost, openmpi
Description:
The Extended Randomized Numerical alignEr using BWT

es-shell

Homepage:
Spack package:
Versions:
0.9.1
Build Dependencies:
readline
Link Dependencies:
readline
Description:
Es is an extensible shell. The language was derived from the Plan 9 shell, rc, and was influenced by functional programming languages, such as Scheme, and the Tcl embeddable programming language. This implementation is derived from Byron Rakitzis's public domain implementation of rc.

esmf

Homepage:
Spack package:
Versions:
7.1.0r
Build Dependencies:
zlib, libxml2, mpi, lapack, netcdf-c, netcdf-fortran, parallel-netcdf, xerces-c
Link Dependencies:
zlib, libxml2, mpi, lapack, netcdf-c, netcdf-fortran, parallel-netcdf, xerces-c
Test Dependencies:
perl
Description:
The Earth System Modeling Framework (ESMF) is high-performance, flexible software infrastructure for building and coupling weather, climate, and related Earth science applications. The ESMF defines an architecture for composing complex, coupled modeling systems and includes data structures and utilities for developing individual models.

essl

Homepage:
Spack package:
Description:
IBM's Engineering and Scientific Subroutine Library (ESSL).

ethminer

Homepage:
Spack package:
Versions:
0.12.0
Build Dependencies:
cmake, python, boost, json-c, curl, zlib, cuda, mesa
Link Dependencies:
python, boost, json-c, curl, zlib, cuda, mesa
Description:
The ethminer is an Ethereum GPU mining worker.

ethtool

Homepage:
Spack package:
Versions:
4.8
Build Dependencies:
autoconf, automake, libtool, m4
Description:
Ethtool is a small utility for examining and tuning your ethernet-based network interface.

etsf-io

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
netcdf-fortran, hdf5
Link Dependencies:
netcdf-fortran, hdf5
Description:
ETSF_IO is a library implementing the Nanoquanta/ETSF file format specifications. ETSF_IO enables an architecture-independent exchange of crystallographic data, electronic wavefunctions, densities and potentials, as well as spectroscopic data. It is meant to be used by quantum-physical and quantum-chemical applications relying upon Density Functional Theory (DFT).

everytrace

Homepage:
Spack package:
Versions:
develop, 0.2.2
Build Dependencies:
cmake, mpi
Link Dependencies:
mpi
Description:
Get stack trace EVERY time a program exits.

everytrace-example

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, everytrace, openmpi
Link Dependencies:
everytrace, openmpi
Description:
Get stack trace EVERY time a program exits.

evieext

Homepage:
Spack package:
Versions:
1.1.1
Build Dependencies:
pkgconfig, util-macros
Description:
Extended Visual Information Extension (XEVIE). This extension defines a protocol for a client to determine information about core X visuals beyond what the core protocol provides.

exabayes

Homepage:
Spack package:
Versions:
1.5
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
ExaBayes is a software package for Bayesian tree inference. It is particularly suitable for large-scale analyses on computer clusters.

examinimd

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
kokkos, mpi
Link Dependencies:
kokkos, mpi
Description:
ExaMiniMD is a proxy application and research vehicle for particle codes, in particular Molecular Dynamics (MD). Compared to previous MD proxy apps (MiniMD, COMD), its design is significantly more modular in order to allow independent investigation of different aspects. To achieve that the main components such as force calculation, communication, neighbor list construction and binning are derived classes whose main functionality is accessed via virtual functions. This allows a developer to write a new derived class and drop it into the code without touching much of the rest of the application.

exampm

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake
Description:
Exascale Material Point Method (MPM) Mini-App

exasp2

Homepage:
Spack package:
Versions:
develop, 1.0
Build Dependencies:
bml, blas, lapack, mpi
Link Dependencies:
bml, blas, lapack, mpi
Description:
ExaSP2 is a reference implementation of typical linear algebra algorithms and workloads for a quantum molecular dynamics (QMD) electronic structure code. The algorithm is based on a recursive second- order Fermi-Operator expansion method (SP2) and is tailored for density functional based tight-binding calculations of material systems. The SP2 algorithm variants are part of the Los Alamos Transferable Tight-binding for Energetics (LATTE) code, based on a matrix expansion of the Fermi operator in a recursive series of generalized matrix-matrix multiplications. It is created and maintained by Co-Design Center for Particle Applications (CoPA). The code is intended to serve as a vehicle for co-design by allowing others to extend and/or reimplement as needed to test performance of new architectures, programming models, etc.

exchanger

Homepage:
Spack package:
Versions:
1.0.1
Build Dependencies:
python, py-merlin, py-pythia
Run Dependencies:
python, py-pythia
Description:
Exchanger is a package containing several C++ base classes. These classes, when customized for a solver, can provide communication channels between solvers. This packaged is used by CitcomS for solver coupling.

exiv2

Homepage:
Spack package:
Versions:
0.27.2
Build Dependencies:
cmake
Description:
Exiv2 is a Cross-platform C++ library and a command line utility to manage image metadata

exmcutils

Homepage:
Spack package:
Versions:
master, 0.5.7, 0.5.6
Build Dependencies:
m4, autoconf, automake, libtool
Link Dependencies:
m4, autoconf, automake, libtool
Description:
ExM C-Utils: Generic C utility library for ADLB/X and Swift/T

exodusii

Homepage:
Spack package:
Versions:
master, 2016-08-09
Build Dependencies:
cmake, mpi, netcdf-c
Link Dependencies:
mpi, netcdf-c
Description:
Exodus II is a C++/Fortran library developed to store and retrieve data for finite element analyses. It's used for preprocessing (problem definition), postprocessing (results visualization), and data transfer between codes. An Exodus II data file is a random access, machine independent, binary file that is written and read via C, C++, or Fortran API routines.

exonerate

Homepage:
Spack package:
Versions:
2.4.0
Build Dependencies:
pkgconfig, glib
Link Dependencies:
glib
Description:
Pairwise sequence alignment of DNA and proteins

expat

Homepage:
Spack package:
Versions:
2.2.9, 2.2.6, 2.2.5, 2.2.2, 2.2.0
Build Dependencies:
libbsd
Link Dependencies:
libbsd
Description:
Expat is an XML parser library written in C.

expect

Homepage:
Spack package:
Versions:
5.45
Build Dependencies:
tcl, automake, autoconf, libtool, m4
Link Dependencies:
tcl
Description:
Expect is a tool for automating interactive applications such as telnet, ftp, passwd, fsck, rlogin, tip, etc.

express

Homepage:
Spack package:
Versions:
1.5.2, 1.5.1
Build Dependencies:
cmake, boost, bamtools, zlib
Link Dependencies:
boost, bamtools, zlib
Description:
eXpress is a streaming tool for quantifying the abundances of a set of target sequences from sampled subsequences.

extrae

Homepage:
Spack package:
Versions:
3.7.1, 3.4.1
Build Dependencies:
autoconf, automake, libtool, m4, mpi, libunwind, boost, libdwarf, papi, libxml2, numactl, binutils, gettext, dyninst
Link Dependencies:
mpi, libunwind, boost, libdwarf, papi, elf, libxml2, numactl, binutils, gettext, dyninst
Description:
Extrae is the package devoted to generate tracefiles which can be analyzed later by Paraver. Extrae is a tool that uses different interposition mechanisms to inject probes into the target application so as to gather information regarding the application performance. The Extrae instrumentation package can instrument the MPI programin model, and the following parallel programming models either alone or in conjunction with MPI : OpenMP, CUDA, OpenCL, pthread, OmpSs

exuberant-ctags

Homepage:
Spack package:
Versions:
5.8
Description:
The canonical ctags generator

eztrace

Homepage:
Spack package:
Versions:
1.1-8
Build Dependencies:
mpi
Link Dependencies:
mpi
Description:
EZTrace is a tool to automatically generate execution traces of HPC applications.

f18

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, llvm
Link Dependencies:
llvm
Description:
F18 is a front-end for Fortran intended to replace the existing front- end in the Flang compiler

f77-zmq

Homepage:
Spack package:
Versions:
4.3.1
Build Dependencies:
libzmq, python
Link Dependencies:
libzmq
Description:
Fortran binding for the ZeroMQ communication library

f90cache

Homepage:
Spack package:
Versions:
0.99c, 0.99
Description:
f90cache is a compiler cache. It acts as a caching pre-processor to Fortran compilers, using the -E compiler switch and a hash to detect when a compilation can be satisfied from cache. This often results in a great speedup in common compilations.

fabtests

Homepage:
Spack package:
Versions:
1.6.0, 1.5.3
Build Dependencies:
libfabric
Link Dependencies:
libfabric
Description:
Fabtests provides a set of examples that uses libfabric. DEPRECATED. Fabtests has merged with the libfabric git repo.

fairlogger

Homepage:
Spack package:
Versions:
develop, 1.6.1, 1.6.0, 1.5.0, 1.4.0, 1.3.0, 1.2.0, 1.1.0, 1.0.6
Build Dependencies:
cmake, git, boost, fmt
Link Dependencies:
boost, fmt
Description:
Lightweight and fast C++ Logging Library

falcon

Homepage:
Spack package:
Versions:
2017-05-30
Build Dependencies:
python, py-networkx
Link Dependencies:
python
Run Dependencies:
python, py-setuptools, py-pypeflow, py-networkx, pacbio-dazz-db, pacbio-daligner, pacbio-dextractor, pacbio-damasker
Description:
Falcon: a set of tools for fast aligning long reads for consensus and assembly. The Falcon tool kit is a set of simple code collection which I use for studying efficient assembly algorithm for haploid and diploid genomes. It has some back-end code implemented in C for speed and some simple front-end written in Python for convenience.

fann

Homepage:
Spack package:
Versions:
2.2.0
Build Dependencies:
cmake
Description:
Fast Artificial Neural Network Library is a free open source neural network library, which implements multilayer artificial neural networks in C with support for both fully connected and sparsely connected networks. Cross-platform execution in both fixed and floating point are supported. It includes a framework for easy handling of training data sets. It is easy to use, versatile, well documented, and fast. Bindings to more than 20 programming languages are available. An easy to read introduction article and a reference manual accompanies the library with examples and recommendations on how to use the library. Several graphical user interfaces are also available for the library.

faodel

Homepage:
Spack package:
Versions:
1.1906.1, 1.1811.2, 1.1811.1, 1.1803.1
Build Dependencies:
cmake, mpi, boost, hdf5, libfabric, googletest
Link Dependencies:
mpi, boost, hdf5, libfabric
Description:
Flexible, Asynchronous, Object Data-Exchange Libraries

fast-global-file-status

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
mrnet, mount-point-attributes, mpi
Link Dependencies:
mrnet, mount-point-attributes, mpi
Description:
provides a scalable mechanism to retrieve such information of a file, including its degree of distribution or replication and consistency.

fasta

Homepage:
Spack package:
Versions:
36.3.8g
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
The FASTA programs find regions of local or global similarity between Protein or DNA sequences, either by searching Protein or DNA databases, or by identifying local duplications within a sequence. Other programs provide information on the statistical significance of an alignment. Like BLAST, FASTA can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.

fastdfs

Homepage:
Spack package:
Versions:
6.05, 6.04, 6.03, 6.02, 6.01
Build Dependencies:
perl, libfastcommon
Description:
FastDFS is an open source high performance distributed file system. It's major functions include: file storing, file syncing and file accessing (file uploading and file downloading), and it can resolve the high capacity and load balancing problem. FastDFS should meet the requirement of the website whose service based on files such as photo sharing site and video sharing site.

fastjar

Homepage:
Spack package:
Versions:
0.98
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
Fastjar is a version of Sun's 'jar' utility, written entirely in C.

fastmath

Homepage:
Spack package:
Versions:
latest
Build Dependencies:
amrex, chombo, hypre, mpi, arpack-ng, petsc, phasta, pumi, sundials, superlu-dist, trilinos, zoltan
Link Dependencies:
amrex, chombo, hypre, mpi, arpack-ng, petsc, phasta, pumi, sundials, superlu-dist, trilinos, zoltan
Description:
FASTMath is a suite of ~15 numerical libraries frequently used together in various SciDAC and CSE applications. The suite includes discretization libraries for structured, AMR and unstructured grids as well as solver libraries for ODE's, Time Integrators, Iterative, Non- Linear, and Direct Solvers.

fastme

Homepage:
Spack package:
Versions:
2.1.5.1
Build Dependencies:
autoconf, automake, libtool, m4
Description:
FastME is a distance based phylogeny reconstruction program that works on distance matrices and, as of v2.0, sequence data.

fastp

Homepage:
Spack package:
Versions:
0.20.0
Description:
A tool designed to provide fast all-in-one preprocessing for FastQ files.

fastphase

Homepage:
Spack package:
Versions:
2016-03-30
Description:
Software for haplotype reconstruction, and estimating missing genotypes from population data.

fastq-screen

Homepage:
Spack package:
Versions:
0.11.2
Build Dependencies:
bowtie, bowtie2, bwa, samtools
Link Dependencies:
bowtie, bowtie2, bwa, samtools
Run Dependencies:
perl, perl-gdgraph
Description:
FastQ Screen allows you to screen a library of sequences in FastQ format against a set of sequence databases so you can see if the composition of the library matches with what you expect.

fastqc

Homepage:
Spack package:
Versions:
0.11.7, 0.11.5, 0.11.4
Build Dependencies:
perl
Link Dependencies:
perl
Run Dependencies:
java
Description:
A quality control tool for high throughput sequence data.

fastqvalidator

Homepage:
Spack package:
Versions:
2017-01-10
Link Dependencies:
zlib
Description:
The fastQValidator validates the format of fastq files.

fasttree

Homepage:
Spack package:
Versions:
2.1.10
Description:
FastTree infers approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences. FastTree can handle alignments with up to a million of sequences in a reasonable amount of time and memory.

fastx-toolkit

Homepage:
Spack package:
Versions:
0.0.14
Build Dependencies:
libgtextutils
Link Dependencies:
libgtextutils
Description:
The FASTX-Toolkit is a collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing.

feh

Homepage:
Spack package:
Versions:
3.3, 3.1.1
Build Dependencies:
imlib2, curl, libxinerama, libexif, libxt
Link Dependencies:
imlib2, curl, libxinerama, libexif, libxt
Description:
feh is an X11 image viewer aimed mostly at console users. Unlike most other viewers, it does not have a fancy GUI, but simply displays images. It is controlled via commandline arguments and configurable key/mouse actions.

fenics

Homepage:
Spack package:
Versions:
2016.1.0, 1.6.0
Build Dependencies:
cmake, python, eigen, boost, mpi, hdf5, parmetis, scotch, petsc, slepc, trilinos, vtk, suite-sparse, qt, py-ply, py-six, py-numpy, py-sympy, swig, py-setuptools, py-sphinx
Link Dependencies:
python, eigen, boost, mpi, hdf5, parmetis, scotch, petsc, slepc, trilinos, vtk, suite-sparse, qt
Run Dependencies:
py-ply, py-six, py-numpy, py-sympy, swig
Description:
FEniCS is organized as a collection of interoperable components that together form the FEniCS Project. These components include the problem- solving environment DOLFIN, the form compiler FFC, the finite element tabulator FIAT, the just-in-time compiler Instant, the code generation interface UFC, the form language UFL and a range of additional components.

fermi

Homepage:
Spack package:
Versions:
1.1
Build Dependencies:
zlib
Link Dependencies:
zlib
Run Dependencies:
perl
Description:
A WGS de novo assembler based on the FMD-index for large genomes.

fermikit

Homepage:
Spack package:
Versions:
2017-11-7
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
De novo assembly based variant calling pipeline for Illumina short reads

fermisciencetools

Homepage:
Spack package:
Versions:
11r5p3
Description:
The Fermi Science Tools consists of the basic tools necessary to analyze Fermi data. This is the binary version for Linux x86_64 with libc-2.17.

ferret

Homepage:
Spack package:
Versions:
7.2, 6.96
Build Dependencies:
hdf5, netcdf-c, netcdf-fortran, readline, zlib, libx11
Link Dependencies:
hdf5, netcdf-c, netcdf-fortran, readline, zlib, libx11
Description:
Ferret is an interactive computer visualization and analysis environment designed to meet the needs of oceanographers and meteorologists analyzing large and complex gridded data sets.

ffmpeg

Homepage:
Spack package:
Versions:
4.1.1, 4.1, 3.2.4
Build Dependencies:
yasm, aom
Link Dependencies:
yasm, aom
Description:
FFmpeg is a complete, cross-platform solution to record, convert and stream audio and video.

fftw

Homepage:
Spack package:
Versions:
3.3.8, 3.3.7, 3.3.6-pl2, 3.3.5, 3.3.4, 2.1.5
Build Dependencies:
mpi, automake, autoconf, libtool
Link Dependencies:
mpi
Description:
FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for most applications.

fgsl

Homepage:
Spack package:
Versions:
1.3.0, 1.2.0, 1.1.0
Build Dependencies:
autoconf, automake, libtool, m4, gsl
Link Dependencies:
gsl
Description:
Fortran interface to the GNU Scientific Library

figtree

Homepage:
Spack package:
Versions:
1.4.3
Run Dependencies:
java
Description:
FigTree is designed as a graphical viewer of phylogenetic trees and as a program for producing publication-ready figures. As with most of my programs, it was written for my own needs so may not be as polished and feature-complete as a commercial program. In particular it is designed to display summarized and annotated trees produced by BEAST.

file

Homepage:
Spack package:
Versions:
5.37
Description:
The file command is "a file type guesser", that is, a command-line tool that tells you in words what kind of data a file contains

filebench

Homepage:
Spack package:
Versions:
1.4.9.1, 1.4.9
Build Dependencies:
autoconf, automake, libtool, m4, flex, bison
Description:
Filebench is a file system and storage benchmark that can generate a large variety of workloads. Unlike typical benchmarks it is extremely flexible and allows to specify application's I/O behavior using its extensive Workload Model Language (WML). Users can either describe desired workloads from scratch or use(with or without modifications) workload personalities shipped with Filebench(e.g., mail-, web-, file-, and database-server workloads). Filebench is equally good for micro and macro-benchmarking, quick to setup, and relatively easy to use.

fimpute

Homepage:
Spack package:
Versions:
2014-01
Description:
FImpute uses an overlapping sliding window approach to efficiently exploit relationships or haplotype similarities between target and reference individuals.

find-circ

Homepage:
Spack package:
Versions:
1.2
Build Dependencies:
python, py-pysam, py-numpy
Run Dependencies:
python, py-pysam, py-numpy
Description:
Find-circ is a collection of python scripts detecting head-to-tail spliced (back-spliced) sequencing reads, indicative of circular RNA (circRNA) in RNA-seq data.

findutils

Homepage:
Spack package:
Versions:
4.6.0, 4.4.2, 4.4.1, 4.4.0, 4.2.33, 4.2.32, 4.2.31, 4.2.30, 4.2.29, 4.2.28, 4.2.27, 4.2.26, 4.2.25, 4.2.23, 4.2.20, 4.2.18, 4.2.15, 4.1.20, 4.1
Build Dependencies:
autoconf, automake, libtool, m4, texinfo
Description:
The GNU Find Utilities are the basic directory searching utilities of the GNU operating system.

fio

Homepage:
Spack package:
Versions:
3.16, 2.19
Build Dependencies:
gtkplus, cairo, libaio, py-sphinx
Link Dependencies:
gtkplus, cairo, libaio
Description:
Flexible I/O Tester. Fio spawns a number of threads or processes doing a particular type of I/O action as specified by the user. fio takes a number of global parameters, each inherited by the thread unless otherwise parameters given to them overriding that setting is given.

fish

Homepage:
Spack package:
Versions:
3.0.0, 2.7.1, 2.7.0, 2.2.0
Build Dependencies:
ncurses
Link Dependencies:
ncurses
Description:
fish is a smart and user-friendly command line shell for OS X, Linux, and the rest of the family.

fixesproto

Homepage:
Spack package:
Versions:
5.0
Build Dependencies:
pkgconfig, util-macros
Description:
X Fixes Extension. The extension makes changes to many areas of the protocol to resolve issues raised by application interaction with core protocol mechanisms that cannot be adequately worked around on the client side of the wire.

fl

Homepage:
Spack package:
Versions:
0.79.47
Description:
Fawlty Language is an IDL8 (Interactive Data Language) compatible compiler.

flac

Homepage:
Spack package:
Versions:
1.3.2, 1.3.1, 1.3.0
Build Dependencies:
libvorbis, id3lib
Link Dependencies:
libvorbis, id3lib
Description:
Encoder/decoder for the Free Lossless Audio Codec

flang

Homepage:
Spack package:
Versions:
master, 20190329, 20181226, 20180921, 20180612
Build Dependencies:
cuda, cmake, python, llvm-flang, pgmath
Link Dependencies:
cuda, llvm-flang, pgmath
Description:
Flang is a Fortran compiler targeting LLVM.

flann

Homepage:
Spack package:
Versions:
1.9.1, 1.8.5, 1.8.4, 1.8.1, 1.8.0
Build Dependencies:
cmake, python, py-numpy, matlab, cuda, mpi, hdf5, boost, texlive
Link Dependencies:
python, cuda, mpi, hdf5, boost, texlive
Run Dependencies:
py-numpy, matlab
Test Dependencies:
hdf5, googletest
Description:
FLANN is a library for performing fast approximate nearest neighbor searches in high dimensional spaces. It contains a collection of algorithms we found to work best for nearest neighbor search and a system for automatically choosing the best algorithm and optimum parameters depending on the dataset. FLANN is written in C++ and contains bindings for the following languages: C, MATLAB and Python.

flash

Homepage:
Spack package:
Versions:
1.2.11
Build Dependencies:
zlib
Link Dependencies:
zlib
Description:
FLASH (Fast Length Adjustment of SHort reads) is a very fast and accurate software tool to merge paired-end reads from next-generation sequencing experiments.

flatbuffers

Homepage:
Spack package:
Versions:
1.11.0, 1.10.0, 1.9.0, 1.8.0
Build Dependencies:
cmake
Description:
Memory Efficient Serialization Library

flatcc

Homepage:
Spack package:
Versions:
master, 0.5.3, 0.5.2, 0.5.1, 0.5.0, 0.4.3, 0.4.2, 0.4.1
Build Dependencies:
cmake
Description:
FlatBuffers C Compiler (flatcc), a memory-efficient serialization library, is implemented as a standalone tool instead of extending Googles flatc compiler in order to have a pure portable C library implementation of the schema compiler that is designed to fail graciously on abusive input in long running processes. It is also believed a C version may help provide schema parsing to other language interfaces that find interfacing with C easier than C++.

flecsale

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, pkgconfig, flecsi, python, openssl, boost, exodusii
Link Dependencies:
flecsi, python, openssl, boost, exodusii
Description:
Flecsale is an ALE code based on FleCSI

flecsi

Homepage:
Spack package:
Versions:
master
Build Dependencies:
cmake, cinch, mpi, legion, hpx, boost, metis, parmetis, hdf5, caliper, graphviz, python, llvm
Link Dependencies:
mpi, legion, hpx, boost, metis, parmetis, hdf5, caliper, graphviz, python, llvm
Description:
FleCSI is a compile-time configurable framework designed to support multi-physics application development. As such, FleCSI attempts to provide a very general set of infrastructure design patterns that can be specialized and extended to suit the needs of a broad variety of solver and data requirements. Current support includes multi-dimensional mesh topology, mesh geometry, and mesh adjacency information, n-dimensional hashed-tree data structures, graph partitioning interfaces,and dependency closures.

flecsph

Homepage:
Spack package:
Versions:
develop
Build Dependencies:
cmake, boost, mpi, hdf5, flecsi, gsl
Link Dependencies:
boost, mpi, hdf5, flecsi, gsl
Description:
FleCSPH is a multi-physics compact application that exercises FleCSI parallel data structures for tree-based particle methods. In particular, FleCSPH implements a smoothed-particle hydrodynamics (SPH) solver for the solution of Lagrangian problems in astrophysics and cosmology. FleCSPH includes support for gravitational forces using the fast multipole method (FMM).

flex

Homepage:
Spack package:
Versions:
2.6.4, 2.6.3, 2.6.1, 2.6.0, 2.5.39
Build Dependencies:
bison, gettext, help2man, findutils, diffutils, m4, autoconf, automake, libtool
Description:
Flex is a tool for generating scanners.

flibcpp

Homepage:
Spack package:
Versions:
master, 0.3.1
Build Dependencies:
cmake, swig, py-sphinx
Description:
Fortran bindings to the C++ Standard Library.

flint

Homepage:
Spack package:
Versions:
develop, 2.5.2, 2.4.5
Build Dependencies:
autoconf, gmp, mpfr
Link Dependencies:
gmp, mpfr
Description:
FLINT (Fast Library for Number Theory).

flit

Homepage:
Spack package:
Versions:
2.0-alpha.1
Run Dependencies:
python, py-numpy, py-matplotlib, py-toml
Description:
Floating-point Litmus Tests (FLiT) is a C++ test infrastructure for detecting variability in floating-point code caused by variations in compiler code generation, hardware and execution environments.

fltk

Homepage:
Spack package:
Versions:
1.3.3
Build Dependencies:
libx11
Link Dependencies:
libx11
Description:
FLTK (pronounced "fulltick") is a cross-platform C++ GUI toolkit for UNIX/Linux (X11), Microsoft Windows, and MacOS X. FLTK provides modern GUI functionality without the bloat and supports 3D graphics via OpenGL and its built-in GLUT emulation. FLTK is designed to be small and modular enough to be statically linked, but works fine as a shared library. FLTK also includes an excellent UI builder called FLUID that can be used to create applications in minutes.

flume

Homepage:
Spack package:
Versions:
1.9.0, 1.8.0, 1.7.0, 1.6.0, 1.5.2
Run Dependencies:
java
Description:
Apache Flume is a distributed, reliable, and available service for efficiently collecting, aggregating, and moving large amounts of log data. It has a simple and flexible architecture based on streaming data flows. It is robust and fault tolerant with tunable reliability mechanisms and many failover and recovery mechanisms. The system is centrally managed and allows for intelligent dynamic management. It uses a simple extensible data model that allows for online analytic application.

flux-core

Homepage:
Spack package:
Versions:
master, 0.11.3, 0.11.2, 0.11.1, 0.11.0, 0.10.0, 0.9.0, 0.8.0
Build Dependencies:
libzmq, czmq, hwloc, lua, lua-luaposix, munge, python, py-cffi, py-six, py-pyyaml, py-jsonschema, jansson, pkgconfig, yaml-cpp, lz4, py-pylint, asciidoc, autoconf, automake, libtool
Link Dependencies:
libzmq, czmq, hwloc, lua, lua-luaposix, munge, python, jansson, pkgconfig, yaml-cpp, lz4
Run Dependencies:
lua, python, py-cffi, py-six, py-pyyaml, py-jsonschema
Test Dependencies:
mpich, valgrind, jq
Description:
A next-generation resource manager (pre-alpha)

flux-sched

Homepage:
Spack package:
Versions:
master, 0.7.1, 0.7.0, 0.6.0, 0.5.0, 0.4.0
Build Dependencies:
boost, py-pyyaml, libxml2, yaml-cpp, libuuid, pkgconfig, flux-core, autoconf, automake, libtool
Link Dependencies:
boost, py-pyyaml, libxml2, yaml-cpp, libuuid, pkgconfig, flux-core
Run Dependencies:
flux-core
Description:
A scheduler for flux-core (pre-alpha)

fluxbox

Homepage:
Spack package:
Versions:
1.3.7
Build Dependencies:
pkgconfig, freetype, libxrender, libxext, expat, libx11
Link Dependencies:
freetype, libxrender, libxext, expat, libx11
Description:
Fluxbox is a windowmanager for X that was based on the Blackbox 0.61.1 code. It is very light on resources and easy to handle but yet full of features to make an easy, and extremely fast, desktop experience.

fmt

Homepage:
Spack package:
Versions:
5.3.0, 5.2.1, 5.2.0, 5.1.0, 5.0.0, 4.1.0, 4.0.0, 3.0.2, 3.0.1, 3.0.0
Build Dependencies:
cmake
Description:
fmt (formerly cppformat) is an open-source formatting library. It can be used as a safe alternative to printf or as a fast alternative to C++ IOStreams.

foam-extend

Homepage:
Spack package:
Versions:
4.0, 3.2, 3.1, 3.0
Build Dependencies:
mpi, python, zlib, flex, cmake, scotch, metis, parmetis, parmgridgen, paraview
Link Dependencies:
mpi, python, zlib, scotch, metis, parmetis, paraview
Description:
The Extend Project is a fork of the OpenFOAM opensource library for Computational Fluid Dynamics (CFD). This offering is not approved or endorsed by OpenCFD Ltd, producer and distributor of the OpenFOAM software via www.openfoam.com, and owner of the OPENFOAM trademark.

folly

Homepage:
Spack package:
Versions:
2017.06.05.00, 2016.11.14.00, 2016.11.07.00, 2016.10.31.00, 2016.10.24.00, 2016.10.17.00
Build Dependencies:
m4, autoconf, automake, libtool, pkgconfig, boost, gflags, glog, double-conversion, libevent
Link Dependencies:
boost, gflags, glog, double-conversion, libevent
Description:
Folly (acronymed loosely after Facebook Open Source Library) is a library of C++11 components designed with practicality and efficiency in mind. Folly contains a variety of core library components used extensively at Facebook. In particular, it's often a dependency of Facebook's other open source C++ efforts and place where those projects can share code.

font-util

Homepage:
Spack package:
Versions:
1.3.2, 1.3.1
Build Dependencies:
autoconf, automake, pkgconfig, util-macros, bdftopcf, mkfontscale, mkfontdir
Description:
X.Org font package creation/installation utilities and fonts.

fontcacheproto

Homepage:
Spack package:
Versions:
0.1.3
Description:
X.org FontcacheProto protocol headers.

fontconfig

Homepage:
Spack package:
Versions:
2.13.1, 2.12.3, 2.12.1, 2.11.1
Build Dependencies:
freetype, gperf, libxml2, pkgconfig, font-util, libuuid
Link Dependencies:
freetype, libxml2, font-util, libuuid
Description:
Fontconfig is a library for configuring/customizing font access

fontsproto

Homepage:
Spack package:
Versions:
2.1.3
Build Dependencies:
pkgconfig, util-macros
Description:
X Fonts Extension.

fonttosfnt

Homepage:
Spack package:
Versions:
1.0.4
Build Dependencies:
freetype, libfontenc, xproto, pkgconfig, util-macros
Link Dependencies:
freetype, libfontenc
Description:
Wrap a bitmap font in a sfnt (TrueType) wrapper.

fp16

Homepage:
Spack package:
Versions:
master
Description:
FP16 is a header-only library for conversion to/from half-precision floating point formats

fpc

Homepage:
Spack package:
Versions:
3.0.2
Description:
Free Pascal is a 32, 64 and 16 bit professional Pascal compiler.

fpocket

Homepage:
Spack package:
Versions:
master
Build Dependencies:
netcdf-c
Link Dependencies:
netcdf-c
Description:
fpocket is a very fast open source protein pocket detection algorithm based on Voronoi tessellation.

fqtrim

Homepage:
Spack package:
Versions:
0.9.7
Description:
fqtrim is a versatile stand-alone utility that can be used to trim adapters, poly-A tails, terminal unknown bases (Ns) and low quality 3' regions in reads from high-throughput next-generation sequencing machines.

fr-hit

Homepage:
Spack package:
Versions:
0.7.1-2013-02-20
Build Dependencies:
perl, python
Link Dependencies:
perl, python
Description:
An efficient algorithm for fragment recruitment for next generation sequences against microbial reference genomes.

freebayes

Homepage:
Spack package:
Versions:
1.1.0
Build Dependencies:
cmake, zlib
Link Dependencies:
zlib
Description:
Bayesian haplotype-based genetic polymorphism discovery and genotyping.

freeglut

Homepage:
Spack package:
Versions:
3.0.0
Build Dependencies:
cmake, gl, glu, libx11, libxrandr, libxi, xrandr, inputproto
Link Dependencies:
gl, glu, libx11, libxrandr, libxi, xrandr, inputproto
Description:
FreeGLUT is a free-software/open-source alternative to the OpenGL Utility Toolkit (GLUT) library

freeimage

Homepage:
Spack package:
Versions:
3.18.0
Description:
FreeImage is an Open Source library project for developers who would like to support popular graphics image formats like PNG, BMP, JPEG, TIFF and others as needed by today's multimedia applications

freetype

Homepage:
Spack package:
Versions:
2.10.1, 2.10.0, 2.9.1, 2.7.1, 2.7, 2.5.3
Build Dependencies:
libpng, bzip2, pkgconfig
Link Dependencies:
libpng, bzip2
Description:
FreeType is a freely available software library to render fonts. It is written in C, designed to be small, efficient, highly customizable, and portable while capable of producing high-quality output (glyph images) of most vector and bitmap font formats.

freexl

Homepage:
Spack package:
Versions:
1.0.5
Description:
FreeXL is an open source library to extract valid data from within an Excel (.xls) spreadsheet.

fribidi

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
m4, autoconf, automake, libtool
Description:
GNU FriBidi: The Free Implementation of the Unicode Bidirectional Algorithm.

fseq

Homepage:
Spack package:
Versions:
1.84
Build Dependencies:
java
Run Dependencies:
java
Description:
F-Seq: A Feature Density Estimator for High-Throughput Sequence Tags

fsl

Homepage:
Spack package:
Versions:
5.0.10
Build Dependencies:
python, expat, libx11, glu, zlib, libpng, boost, sqlite
Link Dependencies:
expat, libx11, glu, zlib, libpng, boost, sqlite
Run Dependencies:
python
Description:
FSL is a comprehensive library of analysis tools for FMRI, MRI and DTI brain imaging data. Note: A manual download is required for FSL. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see http://spack.readthedocs.io/en/latest/mirrors.html

fslsfonts

Homepage:
Spack package:
Versions:
1.0.5
Build Dependencies:
libfs, xproto, pkgconfig, util-macros
Link Dependencies:
libfs
Description:
fslsfonts produces a list of fonts served by an X font server.

fstobdf

Homepage:
Spack package:
Versions:
1.0.6
Build Dependencies:
libx11, libfs, xproto, pkgconfig, util-macros
Link Dependencies:
libx11, libfs
Description:
The fstobdf program reads a font from a font server and prints a BDF file on the standard output that may be used to recreate the font. This is useful in testing servers, debugging font metrics, and reproducing lost BDF files.

fstrack

Homepage:
Spack package:
Versions:
0.5.3.092918
Build Dependencies:
gmt, netcdf-c
Link Dependencies:
gmt, netcdf-c
Description:
Package with tools to analyze symmetry components of elastic tensors, predict synthetic waveforms and compute automated shear wave splitting along ray paths, and to track finite strain and predict LPO from mantle flow given on GMT/netcdf grds.

ftgl

Homepage:
Spack package:
Versions:
master, 2.4.0, 2.3.1
Build Dependencies:
cmake, pkgconfig, gl, glu, freetype
Link Dependencies:
gl, glu, freetype
Description:
Library to use arbitrary fonts in OpenGL applications.

fujitsu-mpi

Homepage:
Spack package:
Description:
Fujitsu MPI implementation only for Fujitsu compiler.

funhpc

Homepage: