Basic Usage

The spack command has many subcommands. You’ll only need a small subset of them for typical usage.

Note that Spack colorizes output. less -R should be used with Spack to maintain this colorization. E.g.:

$ spack find | less -R

It is recommended that the following be put in your .bashrc file:

alias less='less -R'

Listing available packages

To install software with Spack, you need to know what software is available. You can see a list of available package names at the Package List webpage, or using the spack list command.

spack list

The spack list command prints out a list of all of the packages Spack can install:

$ spack list
abinit                           muparser                               r-callr
abyss                            muscle                                 r-car
accfft                           muse                                   r-caret
ack                              muster                                 r-category
activeharmony                    mvapich2                               r-catools
adept-utils                      mxml                                   r-cdcfluview
adios                            mxnet                                  r-cellranger
adios2                           nag                                    r-checkmate
adlbx                            nalu                                   r-checkpoint
adol-c                           nalu-wind                              r-chemometrics
aegean                           namd                                   r-chron
aida                             nano                                   r-circlize
albany                           nanoflann                              r-class
albert                           nanopb                                 r-classint
alglib                           nasm                                   r-cli
allinea-forge                    nauty                                  r-clipr
allinea-reports                  ncbi-magicblast                        r-cluster
allpaths-lg                      ncbi-rmblastn                          r-clusterprofiler
alquimia                         ncbi-toolkit                           r-cner
alsa-lib                         nccl                                   r-coda
aluminum                         nccmp                                  r-codetools
amg                              ncdu                                   r-coin
amg2013                          ncftp                                  r-colorspace
amp                              ncl                                    r-complexheatmap
ampliconnoise                    nco                                    r-corpcor
amrex                            ncurses                                r-corrplot
amrvis                           ncview                                 r-covr
andi                             ndiff                                  r-cowplot
angsd                            nek5000                                r-crayon
ant                              nekbone                                r-crosstalk
antlr                            nekcem                                 r-ctc
ants                             nektar                                 r-cubature
ape                              neovim                                 r-cubist
aperture-photometry              nest                                   r-curl
apex                             netcdf                                 r-data-table
apple-libunwind                  netcdf-cxx                             r-dbi
applewmproto                     netcdf-cxx4                            r-dbplyr
appres                           netcdf-fortran                         r-delayedarray
apr                              netgauge                               r-deldir
apr-util                         netgen                                 r-dendextend
aragorn                          netlib-lapack                          r-deoptim
archer                           netlib-scalapack                       r-deoptimr
argobots                         netlib-xblas                           r-deseq
argp-standalone                  nettle                                 r-deseq2
argtable                         neuron                                 r-desolve
arlecore                         nextflow                               r-devtools
armadillo                        nfft                                   r-diagrammer
arpack-ng                        nghttp2                                r-dicekriging
arrow                            nginx                                  r-dichromat
ascent                           ngmlr                                  r-diffusionmap
asciidoc                         ninja                                  r-digest
aspa                             ninja-fortran                          r-diptest
aspcud                           nlohmann-json                          r-dirichletmultinomial
aspect                           nlopt                                  r-dnacopy
aspell                           nmap                                   r-do-db
aspell6-de                       nnvm                                   r-domc
aspell6-en                       node-js                                r-doparallel
aspell6-es                       notmuch                                r-dorng
aspera-cli                       npb                                    r-dose
assimp                           npm                                    r-downloader
astra                            npth                                   r-dplyr
astral                           nspr                                   r-dt
astyle                           numactl                                r-dtw
at-spi2-atk                      numdiff                                r-dygraphs
at-spi2-core                     nut                                    r-e1071
atk                              nvptx-tools                            r-edger
atlas                            nwchem                                 r-ellipse
atom-dft                         ocaml                                  r-ensembldb
atompaw                          occa                                   r-ergm
atop                             oce                                    r-evaluate
augustus                         oclint                                 r-expm
autoconf                         oclock                                 r-factoextra
autodock-vina                    octave                                 r-factominer
autofact                         octave-optim                           r-fastcluster
autogen                          octave-splines                         r-fastmatch
automaded                        octave-struct                          r-ff
automake                         octopus                                r-fftwtools
axel                             of-adios-write                         r-fgsea
axl                              of-precice                             r-filehash
bamdst                           omega-h                                r-findpython
bamtools                         ompss                                  r-fit-models
bamutil                          ompt-openmp                            r-flashclust
barrnap                          oniguruma                              r-flexclust
bash                             ont-albacore                           r-flexmix
bash-completion                  opa-psm2                               r-fnn
bats                             opam                                   r-forcats
bazel                            opari2                                 r-foreach
bbcp                             openbabel                              r-forecast
bbmap                            openblas                               r-foreign
bc                               opencoarrays                           r-formatr
bcftools                         opencv                                 r-formula
bcl2fastq2                       openexr                                r-fpc
bdftopcf                         openfast                               r-fracdiff
bdw-gc                           openfoam-com                           r-futile-logger
bear                             openfoam-org                           r-futile-options
beast1                           openfst                                r-gbm
beast2                           opengl                                 r-gcrma
bedops                           openglu                                r-gdata
bedtools2                        openjpeg                               r-gdsfmt
beforelight                      openmc                                 r-geiger
benchmark                        openmpi                                r-genefilter
berkeley-db                      opennurbs                              r-genelendatabase
bertini                          openpmd-api                            r-geneplotter
bib2xhtml                        openscenegraph                         r-genie3
bigreqsproto                     openslide                              r-genomeinfodb
binutils                         openspeedshop                          r-genomeinfodbdata
bioawk                           openspeedshop-utils                    r-genomicalignments
biopieces                        openssh                                r-genomicfeatures
bismark                          openssl                                r-genomicranges
bison                            opium                                  r-geomorph
bitmap                           optional-lite                          r-geoquery
blasr                            opus                                   r-geosphere
blasr-libcpp                     orfm                                   r-getopt
blast-plus                       orthofinder                            r-getoptlong
blat                             orthomcl                               r-ggally
blaze                            osu-micro-benchmarks                   r-ggbio
blis                             otf                                    r-ggdendro
bliss                            otf2                                   r-ggjoy
blitz                            p4est                                  r-ggmap
bmake                            p7zip                                  r-ggplot2
bml                              pacbio-daligner                        r-ggpubr
bohrium                          pacbio-damasker                        r-ggrepel
bolt                             pacbio-dazz-db                         r-ggridges
bookleaf-cpp                     pacbio-dextractor                      r-ggsci
boost                            pacvim                                 r-ggvis
boostmplcartesianproduct         pagit                                  r-gistr
bowtie                           pagmo                                  r-git2r
bowtie2                          paml                                   r-glimma
boxlib                           panda                                  r-glmnet
bpp-core                         pandaseq                               r-globaloptions
bpp-phyl                         pango                                  r-glue
bpp-seq                          pangomm                                r-gmodels
bpp-suite                        papi                                   r-gmp
bracken                          papyrus                                r-go-db
braker                           paradiseo                              r-googlevis
branson                          parallel                               r-goplot
breakdancer                      parallel-netcdf                        r-gosemsim
breseq                           paraver                                r-goseq
brigand                          paraview                               r-gostats
bsseeker2                        parmetis                               r-gplots
bucky                            parmgridgen                            r-graph
bumpversion                      parquet                                r-gridbase
busco                            parsimonator                           r-gridextra
butter                           parsplice                              r-gseabase
bwa                              partitionfinder                        r-gss
bwtool                           patch                                  r-gsubfn
byobu                            patchelf                               r-gtable
bzip2                            pathfinder                             r-gtools
c-blosc                          pax-utils                              r-gtrellis
c-lime                           pbbam                                  r-gviz
cabana                           pbmpi                                  r-haven
caffe                            pcma                                   r-hexbin
cairo                            pcre                                   r-highr
cairomm                          pcre2                                  r-hmisc
caliper                          pdf2svg                                r-hms
callpath                         pdftk                                  r-htmltable
camellia                         pdsh                                   r-htmltools
candle-benchmarks                pdt                                    r-htmlwidgets
cantera                          pegtl                                  r-httpuv
canu                             pennant                                r-httr
cap3                             percept                                r-hwriter
cares                            perl                                   r-hypergraph
cask                             perl-algorithm-diff                    r-ica
casper                           perl-app-cmd                           r-igraph
catalyst                         perl-array-utils                       r-illuminaio
catch                            perl-b-hooks-endofscope                r-impute
cbench                           perl-bio-perl                          r-influencer
cblas                            perl-bit-vector                        r-inline
cbtf                             perl-cairo                             r-interactivedisplaybase
cbtf-argonavis                   perl-capture-tiny                      r-ipred
cbtf-argonavis-gui               perl-carp-clan                         r-iranges
cbtf-krell                       perl-cgi                               r-irdisplay
cbtf-lanl                        perl-class-data-inheritable            r-irkernel
ccache                           perl-class-inspector                   r-irlba
cctools                          perl-class-load                        r-iso
cdbfasta                         perl-class-load-xs                     r-iterators
cdd                              perl-compress-raw-bzip2                r-janitor
cddlib                           perl-compress-raw-zlib                 r-jaspar2018
cdhit                            perl-contextual-return                 r-jomo
cdo                              perl-cpan-meta-check                   r-jpeg
ceed                             perl-data-optlist                      r-jsonlite
cereal                           perl-data-stag                         r-kegg-db
ceres-solver                     perl-dbd-mysql                         r-kegggraph
cfitsio                          perl-dbd-sqlite                        r-keggrest
cgal                             perl-dbfile                            r-kernlab
cgm                              perl-dbi                               r-kernsmooth
cgns                             perl-devel-cycle                       r-kknn
channelflow                      perl-devel-globaldestruction           r-knitr
charliecloud                     perl-devel-overloadinfo                r-ks
charmpp                          perl-devel-stacktrace                  r-labeling
chatterbug                       perl-digest-md5                        r-lambda-r
check                            perl-dist-checkconflicts               r-laplacesdemon
chlorop                          perl-encode-locale                     r-lars
chombo                           perl-eval-closure                      r-lattice
cistem                           perl-exception-class                   r-latticeextra
cityhash                         perl-exporter-tiny                     r-lava
clamr                            perl-extutils-depends                  r-lazyeval
clapack                          perl-extutils-makemaker                r-leaflet
claw                             perl-extutils-pkgconfig                r-leaps
cleaveland4                      perl-file-copy-recursive               r-learnbayes
cleverleaf                       perl-file-listing                      r-lhs
clfft                            perl-file-pushd                        r-limma
clhep                            perl-file-sharedir-install             r-lme4
clingo                           perl-file-slurp-tiny                   r-lmtest
cloc                             perl-file-slurper                      r-locfit
cloog                            perl-file-which                        r-log4r
cloverleaf                       perl-font-ttf                          r-lpsolve
cloverleaf3d                     perl-gd                                r-lsei
clustalo                         perl-gd-graph                          r-lubridate
clustalw                         perl-gd-text                           r-magic
cmake                            perl-gdgraph-histogram                 r-magrittr
cmocka                           perl-graph                             r-makecdfenv
cmor                             perl-graph-readwrite                   r-maldiquant
cnmem                            perl-html-parser                       r-mapproj
cnpy                             perl-html-tagset                       r-maps
cntk                             perl-http-cookies                      r-maptools
cntk1bitsgd                      perl-http-daemon                       r-markdown
codar-cheetah                    perl-http-date                         r-mass
codes                            perl-http-message                      r-matr
coevp                            perl-http-negotiate                    r-matrix
cohmm                            perl-inline                            r-matrixmodels
coinhsl                          perl-inline-c                          r-matrixstats
colm                             perl-intervaltree                      r-mclust
colordiff                        perl-io-compress                       r-mcmcglmm
comd                             perl-io-html                           r-mco
commons-lang                     perl-io-sessiondata                    r-mda
commons-lang3                    perl-io-socket-ssl                     r-memoise
commons-logging                  perl-io-string                         r-mergemaid
compiz                           perl-json                              r-methodss3
compositeproto                   perl-libwww-perl                       r-mgcv
conduit                          perl-list-moreutils                    r-mgraster
constype                         perl-log-log4perl                      r-mice
converge                         perl-lwp                               r-mime
coreutils                        perl-lwp-mediatypes                    r-minfi
corset                           perl-lwp-protocol-https                r-minqa
cosmomc                          perl-math-cdf                          r-misc3d
cosp2                            perl-math-cephes                       r-mitml
cp2k                             perl-math-matrixreal                   r-mixtools
cppad                            perl-module-build                      r-mlbench
cppcheck                         perl-module-implementation             r-mlinterfaces
cppgsl                           perl-module-runtime                    r-mlr
cpprestsdk                       perl-module-runtime-conflicts          r-mlrmbo
cppunit                          perl-moose                             r-mmwrweek
cppzmq                           perl-mozilla-ca                        r-mnormt
cpu-features                     perl-mro-compat                        r-modelmetrics
cpuinfo                          perl-namespace-clean                   r-modelr
cram                             perl-net-http                          r-modeltools
cryptopp                         perl-net-scp-expect                    r-mpm
cscope                           perl-net-ssleay                        r-msnbase
csdp                             perl-package-deprecationmanager        r-multcomp
ctffind                          perl-package-stash                     r-multicool
cub                              perl-package-stash-xs                  r-multtest
cube                             perl-padwalker                         r-munsell
cubelib                          perl-parallel-forkmanager              r-mvtnorm
cubew                            perl-params-util                       r-mzid
cuda                             perl-parse-recdescent                  r-mzr
cuda-memtest                     perl-pdf-api2                          r-nanotime
cudnn                            perl-pegex                             r-ncbit
cufflinks                        perl-perl4-corelibs                    r-ncdf4
cups                             perl-perl6-slurp                       r-network
curl                             perl-perlio-gzip                       r-networkd3
cvs                              perl-perlio-utf8-strict                r-nlme
czmq                             perl-scalar-util-numeric               r-nloptr
dakota                           perl-soap-lite                         r-nmf
daligner                         perl-star-fusion                       r-nnet
damageproto                      perl-statistics-descriptive            r-nnls
damselfly                        perl-statistics-pca                    r-nor1mix
darshan-runtime                  perl-sub-exporter                      r-np
darshan-util                     perl-sub-exporter-progressive          r-numderiv
dash                             perl-sub-identify                      r-oligoclasses
datamash                         perl-sub-install                       r-oo
dataspaces                       perl-sub-name                          r-openssl
davix                            perl-sub-uplevel                       r-org-hs-eg-db
dbus                             perl-svg                               r-organismdbi
dealii                           perl-swissknife                        r-packrat
dealii-parameter-gui             perl-task-weaken                       r-pacman
deconseq-standalone              perl-term-readkey                      r-pamr
dejagnu                          perl-test-cleannamespaces              r-pan
delly2                           perl-test-deep                         r-parallelmap
denovogear                       perl-test-differences                  r-paramhelpers
dia                              perl-test-exception                    r-party
dialign-tx                       perl-test-fatal                        r-partykit
diamond                          perl-test-memory-cycle                 r-pathview
diffsplice                       perl-test-most                         r-pbapply
diffutils                        perl-test-needs                        r-pbdzmq
direnv                           perl-test-requires                     r-pbkrtest
discovar                         perl-test-requiresinternet             r-pcamethods
discovardenovo                   perl-test-warn                         r-pcapp
dislin                           perl-test-warnings                     r-permute
dlpack                           perl-text-csv                          r-pfam-db
dmd                              perl-text-diff                         r-phangorn
dmlc-core                        perl-text-simpletable                  r-phantompeakqualtools
dmtcp                            perl-text-soundex                      r-phyloseq
dmxproto                         perl-text-unidecode                    r-picante
docbook-xml                      perl-time-hires                        r-pkgconfig
docbook-xsl                      perl-time-piece                        r-pkgmaker
dos2unix                         perl-try-tiny                          r-plogr
dotnet-core-sdk                  perl-uri                               r-plot3d
double-conversion                perl-uri-escape                        r-plotly
doxygen                          perl-version                           r-plotrix
dri2proto                        perl-want                              r-pls
dri3proto                        perl-www-robotrules                    r-plyr
dsdp                             perl-xml-parser                        r-pmcmr
dsrc                             perl-xml-parser-lite                   r-png
dtcmp                            perl-xml-simple                        r-powerlaw
dyninst                          perl-yaml-libyaml                      r-prabclus
ea-utils                         petsc                                  r-praise
easybuild                        pexsi                                  r-preprocesscore
ebms                             pfft                                   r-prettyunits
eccodes                          pflotran                               r-processx
eclipse-gcj-parser               pfunit                                 r-prodlim
ecp-proxy-apps                   pgdspider                              r-progress
ed                               pgi                                    r-protgenerics
editres                          pgmath                                 r-proto
eigen                            phantompeakqualtools                   r-proxy
elasticsearch                    phast                                  r-pryr
elemental                        phasta                                 r-ps
elfutils                         phist                                  r-psych
elk                              phylip                                 r-ptw
elpa                             picard                                 r-purrr
emacs                            picsar                                 r-quadprog
ember                            picsarlite                             r-quantmod
emboss                           pidx                                   r-quantreg
encodings                        pigz                                   r-quantro
energyplus                       pilon                                  r-qvalue
environment-modules              pindel                                 r-r6
eospac                           piranha                                r-randomforest
er                               pism                                   r-ranger
es                               pixman                                 r-rappdirs
esmf                             pkg-config                             r-raster
essl                             pkgconf                                r-rbgl
ethminer                         planck-likelihood                      r-rbokeh
etsf-io                          plasma                                 r-rcolorbrewer
everytrace                       platypus                               r-rcpp
everytrace-example               plink                                  r-rcpparmadillo
evieext                          plplot                                 r-rcppblaze
exabayes                         plumed                                 r-rcppcctz
examinimd                        pmgr-collective                        r-rcppcnpy
exampm                           pmix                                   r-rcppeigen
exasp2                           pnfft                                  r-rcppprogress
exmcutils                        pngwriter                              r-rcurl
exodusii                         pnmpi                                  r-rda
exonerate                        poamsa                                 r-readr
expat                            pocl                                   r-readxl
expect                           polymake                               r-registry
express                          poppler                                r-rematch
extrae                           poppler-data                           r-reordercluster
exuberant-ctags                  porta                                  r-reportingtools
f90cache                         portage                                r-repr
fabtests                         portcullis                             r-reprex
falcon                           postgresql                             r-reshape
fast-global-file-status          ppl                                    r-reshape2
fasta                            pplacer                                r-rex
fastjar                          prank                                  r-rgdal
fastmath                         precice                                r-rgenoud
fastme                           presentproto                           r-rgeos
fastphase                        preseq                                 r-rgl
fastq-screen                     price                                  r-rgooglemaps
fastqc                           primer3                                r-rgraphviz
fastqvalidator                   prinseq-lite                           r-rhdf5
fasttree                         printproto                             r-rhtslib
fastx-toolkit                    prng                                   r-rinside
fenics                           probconsrna                            r-rjags
fermi                            prodigal                               r-rjava
fermikit                         proj                                   r-rjson
fermisciencetools                protobuf                               r-rjsonio
ferret                           proxymngr                              r-rlang
ffmpeg                           pruners-ninja                          r-rmarkdown
fftw                             ps-lite                                r-rminer
figtree                          psi4                                   r-rmpfr
fimpute                          pslib                                  r-rmpi
findutils                        psm                                    r-rmysql
fio                              psmc                                   r-rngtools
fish                             pstreams                               r-robustbase
fixesproto                       pugixml                                r-rocr
flac                             pumi                                   r-rodbc
flang                            pv                                     r-rots
flann                            pvm                                    r-roxygen2
flash                            pxz                                    r-rpart
flatbuffers                      py-3to2                                r-rpart-plot
flecsale                         py-4suite-xml                          r-rpostgresql
flecsi                           py-abipy                               r-rprojroot
flex                             py-adios                               r-rsamtools
flint                            py-affine                              r-rsnns
flit                             py-alabaster                           r-rsolnp
fltk                             py-apache-libcloud                     r-rsqlite
flux-core                        py-apipkg                              r-rstan
flux-sched                       py-appdirs                             r-rstudioapi
fluxbox                          py-appnope                             r-rtracklayer
fmt                              py-apscheduler                         r-rtsne
foam-extend                      py-argcomplete                         r-rvcheck
folly                            py-argparse                            r-rvest
font-adobe-100dpi                py-ase                                 r-rzmq
font-adobe-75dpi                 py-asn1crypto                          r-s4vectors
font-adobe-utopia-100dpi         py-astroid                             r-samr
font-adobe-utopia-75dpi          py-astropy                             r-sandwich
font-adobe-utopia-type1          py-atomicwrites                        r-scales
font-alias                       py-attrs                               r-scatterplot3d
font-arabic-misc                 py-autopep8                            r-sdmtools
font-bh-100dpi                   py-avro                                r-segmented
font-bh-75dpi                    py-avro-json-serializer                r-selectr
font-bh-lucidatypewriter-100dpi  py-babel                               r-seqinr
font-bh-lucidatypewriter-75dpi   py-backcall                            r-seqlogo
font-bh-ttf                      py-backports-abc                       r-seurat
font-bh-type1                    py-backports-functools-lru-cache       r-sf
font-bitstream-100dpi            py-backports-shutil-get-terminal-size  r-sfsmisc
font-bitstream-75dpi             py-backports-ssl-match-hostname        r-shape
font-bitstream-speedo            py-basemap                             r-shiny
font-bitstream-type1             py-bcbio-gff                           r-shinydashboard
font-cronyx-cyrillic             py-beautifulsoup4                      r-shortread
font-cursor-misc                 py-binwalk                             r-siggenes
font-daewoo-misc                 py-biom-format                         r-simpleaffy
font-dec-misc                    py-biopython                           r-sm
font-ibm-type1                   py-bitarray                            r-smoof
font-isas-misc                   py-bitstring                           r-sn
font-jis-misc                    py-bleach                              r-snow
font-micro-misc                  py-blessings                           r-snowfall
font-misc-cyrillic               py-bokeh                               r-snprelate
font-misc-ethiopic               py-boltons                             r-som
font-misc-meltho                 py-bottleneck                          r-somaticsignatures
font-misc-misc                   py-breakseq2                           r-sourcetools
font-mutt-misc                   py-brian                               r-sp
font-schumacher-misc             py-brian2                              r-sparsem
font-screen-cyrillic             py-bsddb3                              r-spdep
font-sony-misc                   py-bx-python                           r-speedglm
font-sun-misc                    py-cartopy                             r-spem
font-util                        py-cclib                               r-splitstackshape
font-winitzki-cyrillic           py-cdat-lite                           r-sqldf
font-xfree86-type1               py-cdo                                 r-squash
fontcacheproto                   py-certifi                             r-stanheaders
fontconfig                       py-cffi                                r-statmod
fontsproto                       py-chardet                             r-statnet-common
fonttosfnt                       py-checkm-genome                       r-stringi
fp16                             py-cheetah                             r-stringr
fpc                              py-click                               r-strucchange
fr-hit                           py-cligj                               r-subplex
freebayes                        py-cloudpickle                         r-summarizedexperiment
freeglut                         py-cogent                              r-survey
freetype                         py-colorama                            r-survival
fseq                             py-colormath                           r-sva
fsl                              py-configparser                        r-tarifx
fslsfonts                        py-counter                             r-tclust
fstobdf                          py-coverage                            r-tensora
ftgl                             py-cpuinfo                             r-testit
funhpc                           py-crispresso                          r-testthat
fyba                             py-cryptography                        r-tfbstools
gapbs                            py-csvkit                              r-tfmpvalue
gapcloser                        py-current                             r-th-data
gapfiller                        py-cutadapt                            r-threejs
gasnet                           py-cvxopt                              r-tibble
gatk                             py-cycler                              r-tidycensus
gaussian                         py-cython                              r-tidyr
gawk                             py-dask                                r-tidyselect
gblocks                          py-dateutil                            r-tidyverse
gcc                              py-dbf                                 r-tiff
gccmakedep                       py-decorator                           r-tigris
gccxml                           py-deeptools                           r-timedate
gconf                            py-dendropy                            r-tmixclust
gcta                             py-dill                                r-topgo
gdal                             py-discover                            r-trimcluster
gdb                              py-dlcpar                              r-truncnorm
gdbm                             py-docopt                              r-trust
gdk-pixbuf                       py-docutils                            r-tseries
gdl                              py-doxypy                              r-tsne
geant4                           py-doxypypy                            r-ttr
gearshifft                       py-dryscrape                           r-udunits2
gemmlowp                         py-dxchange                            r-units
genemark-et                      py-dxfile                              r-utils
genomefinisher                   py-easybuild-easyblocks                r-uuid
genometools                      py-easybuild-easyconfigs               r-variantannotation
geopm                            py-easybuild-framework                 r-varselrf
geos                             py-edffile                             r-vcd
gettext                          py-editdistance                        r-vegan
gflags                           py-elasticsearch                       r-vgam
ghost                            py-elephant                            r-vipor
ghostscript                      py-emcee                               r-viridis
ghostscript-fonts                py-entrypoints                         r-viridislite
giflib                           py-enum34                              r-visnetwork
git                              py-epydoc                              r-vsn
git-imerge                       py-espresso                            r-whisker
git-lfs                          py-espressopp                          r-withr
gl2ps                            py-et-xmlfile                          r-xde
glew                             py-eventlet                            r-xgboost
glfmultiples                     py-execnet                             r-xlconnect
glib                             py-fastaindex                          r-xlconnectjars
glibmm                           py-fasteners                           r-xlsx
glimmer                          py-faststructure                       r-xlsxjars
glm                              py-filelock                            r-xmapbridge
global                           py-fiscalyear                          r-xml
globalarrays                     py-flake8                              r-xml2
globus-toolkit                   py-flake8-polyfill                     r-xtable
glog                             py-flask                               r-xts
gloo                             py-flask-compress                      r-xvector
glpk                             py-flask-socketio                      r-yaml
glproto                          py-flexx                               r-yapsa
glvis                            py-fn                                  r-yaqcaffy
gmake                            py-fparser                             r-yarn
gmap-gsnap                       py-funcsigs                            r-zlibbioc
gmime                            py-functools32                         r-zoo
gmodel                           py-future                              racon
gmp                              py-futures                             raft
gmsh                             py-gdbgui                              ragel
gnat                             py-genders                             raja
gnu-prolog                       py-genshi                              randfold
gnupg                            py-gevent                              random123
gnuplot                          py-git-review                          randrproto
gnutls                           py-git2                                range-v3
go                               py-gnuplot                             rankstr
go-bootstrap                     py-goatools                            rapidjson
gobject-introspection            py-gpaw                                ravel
googletest                       py-greenlet                            raxml
gotcha                           py-griddataformats                     ray
gource                           py-guidata                             rclone
gperf                            py-guiqwt                              rdma-core
gperftools                       py-h5py                                rdp-classifier
gplates                          py-hdfs                                re2c
grackle                          py-hepdata-validator                   readfq
gradle                           py-html2text                           readline
grandr                           py-html5lib                            recordproto
graph500                         py-htseq                               redset
graphicsmagick                   py-httpbin                             redundans
graphlib                         py-hypothesis                          relion
graphmap                         py-idna                                rempi
graphviz                         py-igraph                              rename
grass                            py-illumina-utils                      rendercheck
grib-api                         py-imageio                             renderproto
grnboost                         py-imagesize                           repeatmasker
groff                            py-iminuit                             resourceproto
gromacs                          py-importlib                           revbayes
gsl                              py-ipaddress                           rgb
gslib                            py-ipdb                                rhash
gtkmm                            py-ipykernel                           rlwrap
gtkorvo-atl                      py-ipython                             rmats
gtkorvo-cercs-env                py-ipython-genutils                    rmlab
gtkorvo-dill                     py-ipywidgets                          rna-seqc
gtkorvo-enet                     py-isort                               rngstreams
gtkplus                          py-itsdangerous                        rockstar
gts                              py-jdcal                               root
guidance                         py-jedi                                rose
guile                            py-jinja2                              ross
gurobi                           py-joblib                              rr
h5hut                            py-jprops                              rsbench
h5part                           py-jpype                               rsem
h5utils                          py-jsonschema                          rstart
h5z-zfp                          py-junit-xml                           rsync
hacckernels                      py-jupyter-client                      rtags
hadoop                           py-jupyter-console                     rtax
halc                             py-jupyter-core                        ruby
hapcut2                          py-jupyter-notebook                    ruby-gnuplot
hapdip                           py-keras                               ruby-narray
haploview                        py-kiwisolver                          ruby-ronn
harfbuzz                         py-lark-parser                         ruby-rubyinline
harminv                          py-latexcodec                          ruby-svn2git
hdf                              py-lazy                                ruby-terminal-table
hdf5                             py-lazy-object-proxy                   rust
hdf5-blosc                       py-lazy-property                       rust-bindgen
help2man                         py-lazyarray                           sabre
hepmc                            py-libconf                             sailfish
heppdt                           py-libensemble                         salmon
hic-pro                          py-line-profiler                       sambamba
highfive                         py-linecache2                          samblaster
highwayhash                      py-lit                                 samrai
hiop                             py-llvmlite                            samtools
hisat2                           py-lmfit                               sandbox
hisea                            py-localcider                          sas
hmmer                            py-locket                              satsuma2
hoomd-blue                       py-lockfile                            savanna
hpccg                            py-logilab-common                      saws
hpctoolkit                       py-lrudict                             sbt
hpctoolkit-externals             py-lxml                                scala
hpgmg                            py-lzstring                            scalasca
hpl                              py-macholib                            scalpel
hpx                              py-machotools                          scan-for-matches
hpx5                             py-macs2                               scons
hsakmt                           py-maestrowf                           scorec-core
hstr                             py-mako                                scorep
htop                             py-mappy                               scotch
htslib                           py-markdown                            scr
httpie                           py-markupsafe                          screen
hub                              py-matplotlib                          scripts
hunspell                         py-mccabe                              scrnsaverproto
hwloc                            py-mdanalysis                          sctk
hybpiper                         py-meep                                sdl2
hydra                            py-memory-profiler                     sdl2-image
hydrogen                         py-methylcode                          sed
hypre                            py-mg-rast-tools                       seqan
i3                               py-misopy                              seqprep
ibmisc                           py-mistune                             seqtk
iceauth                          py-mock                                serf
icedtea                          py-moltemplate                         sessreg
icet                             py-mongo                               setxkbmap
ico                              py-monotonic                           sga
icu4c                            py-monty                               shapeit
id3lib                           py-more-itertools                      shared-mime-info
idba                             py-mpi4py                              shiny-server
igraph                           py-mpmath                              shocklibs
igvtools                         py-multiprocess                        shoremap
ilmbase                          py-multiqc                             shortbred
image-magick                     py-mx                                  shortstack
imake                            py-mxnet                               showfont
imp                              py-myhdl                               shuffile
impute2                          py-mysqldb1                            sickle
infernal                         py-natsort                             siesta
inputproto                       py-nbconvert                           signalp
intel                            py-nbformat                            signify
intel-daal                       py-neo                                 silo
intel-gpu-tools                  py-nestle                              simplemoc
intel-ipp                        py-netcdf4                             simul
intel-mkl                        py-netifaces                           simulationio
intel-mkl-dnn                    py-networkx                            singularity
intel-mpi                        py-nose                                skilion-onedrive
intel-parallel-studio            py-nosexcover                          sleef
intel-tbb                        py-numba                               slepc
intel-xed                        py-numexpr                             slurm
intltool                         py-numexpr3                            smalt
ior                              py-numpy                               smproxy
iozone                           py-numpydoc                            snakemake
iperf2                           py-olefile                             snap
iperf3                           py-ont-fast5-api                       snap-berkeley
ipopt                            py-openpmd-validator                   snap-korf
isaac                            py-openpyxl                            snappy
isaac-server                     py-openslide-python                    snbone
isl                              py-opentuner                           sniffles
itstool                          py-ordereddict                         snpeff
itsx                             py-oset                                snphylo
jackcess                         py-owslib                              snptest
jags                             py-packaging                           soap2
jansson                          py-palettable                          soapdenovo-trans
jasper                           py-pandas                              soapdenovo2
jbigkit                          py-paramiko                            soapindel
jchronoss                        py-partd                               soapsnp
jdk                              py-pathlib2                            sofa-c
jellyfish                        py-pathos                              somatic-sniper
jemalloc                         py-pathspec                            sortmerna
jmol                             py-patsy                               sosflow
jq                               py-pbr                                 sowing
json-c                           py-pep8-naming                         sox
json-cwx                         py-perf                                spades
json-glib                        py-performance                         span-lite
jsoncpp                          py-periodictable                       spark
judy                             py-petsc4py                            sparsehash
julia                            py-pexpect                             sparta
k8                               py-phonopy                             spdlog
kahip                            py-pickleshare                         spectrum-mpi
kaiju                            py-picrust                             speex
kaks-calculator                  py-pil                                 spglib
kaldi                            py-pillow                              sph2pipe
kallisto                         py-pip                                 spherepack
kbproto                          py-pipits                              spindle
kdiff3                           py-pkgconfig                           spot
kealib                           py-plotly                              sqlite
kentutils                        py-pluggy                              sqlitebrowser
kibana                           py-ply                                 squid
kim-api                          py-pmw                                 sra-toolkit
kmergenie                        py-poster                              ssht
kokkos                           py-pox                                 sspace-longread
kraken                           py-ppft                                sspace-standard
krb5                             py-prettytable                         sst-core
krims                            py-progress                            sst-dumpi
kripke                           py-proj                                sst-macro
kvasir-mpl                       py-projectq                            stacks
kvtree                           py-prompt-toolkit                      staden-io-lib
laghos                           py-protobuf                            star
lammps                           py-psutil                              star-ccm-plus
last                             py-psyclone                            startup-notification
latte                            py-ptyprocess                          stat
launchmon                        py-pudb                                stc
lazyten                          py-py                                  steps
lbann                            py-py2bit                              stow
lbxproxy                         py-py2cairo                            strace
lcals                            py-py2neo                              stream
lcms                             py-py4j                                strelka
ldc                              py-pyani                               stress
ldc-bootstrap                    py-pyasn1                              string-view-lite
legion                           py-pybigwig                            stringtie
leveldb                          py-pybind11                            structure
lftp                             py-pybtex                              strumpack
libaec                           py-pybtex-docutils                     sublime-text
libaio                           py-pycairo                             subread
libapplewm                       py-pychecker                           subversion
libarchive                       py-pycodestyle                         suite-sparse
libassuan                        py-pycparser                           sumaclust
libatomic-ops                    py-pycrypto                            sundials
libbeagle                        py-pycurl                              superlu
libbeato                         py-pydatalog                           superlu-dist
libbsd                           py-pydispatcher                        superlu-mt
libbson                          py-pydot                               supernova
libcanberra                      py-pyelftools                          sw4lite
libcap                           py-pyepsg                              swap-assembler
libceed                          py-pyfasta                             swarm
libcerf                          py-pyfftw                              swfft
libcheck                         py-pyflakes                            swiftsim
libcint                          py-pygdbmi                             swig
libcircle                        py-pygments                            symengine
libconfig                        py-pygobject                           sympol
libcroco                         py-pygpu                               sz
libctl                           py-pygtk                               tabix
libdivsufsort                    py-pylint                              talass
libdmx                           py-pymatgen                            talloc
libdrm                           py-pyminifier                          tantan
libdwarf                         py-pymol                               tar
libedit                          py-pympler                             targetp
libelf                           py-pymysql                             task
libemos                          py-pynn                                taskd
libepoxy                         py-pypar                               tasmanian
libev                            py-pyparsing                           tassel
libevent                         py-pypeflow                            tau
libevpath                        py-pyprof2html                         tcl
libfabric                        py-pyqi                                tcl-itcl
libffi                           py-pyqt                                tcl-tcllib
libffs                           py-pyrad                               tcl-tclxml
libfontenc                       py-pysam                               tclap
libfs                            py-pyscaf                              tcoffee
libgcrypt                        py-pyserial                            tcptrace
libgd                            py-pyshp                               tcsh
libgeotiff                       py-pyside                              tealeaf
libgit2                          py-pysocks                             templight
libgpg-error                     py-pyspark                             templight-tools
libgpuarray                      py-pysqlite                            tetgen
libgridxc                        py-pytables                            tethex
libgtextutils                    py-pytest                              texinfo
libharu                          py-pytest-cov                          texlive
libhio                           py-pytest-flake8                       the-platinum-searcher
libiberty                        py-pytest-httpbin                      the-silver-searcher
libice                           py-pytest-mock                         thornado-mini
libiconv                         py-pytest-runner                       thrift
libint                           py-pytest-xdist                        thrust
libjpeg                          py-python-daemon                       tig
libjpeg-turbo                    py-python-engineio                     tinyxml
libksba                          py-python-gitlab                       tinyxml2
liblbxutil                       py-python-levenshtein                  tioga
liblockfile                      py-python-socketio                     tk
libmatheval                      py-pythonqwt                           tldd
libmaxminddb                     py-pytorch                             tmalign
libmesh                          py-pytz                                tmhmm
libmng                           py-pyutilib                            tmux
libmongoc                        py-pywavelets                          tmuxinator
libmonitor                       py-pyyaml                              tophat
libnbc                           py-qtawesome                           tppred
libnl                            py-qtconsole                           tracer
libnova                          py-qtpy                                transabyss
libogg                           py-quantities                          transdecoder
liboldx                          py-quast                               transposome
libpcap                          py-radical-utils                       transset
libpciaccess                     py-ranger                              trapproto
libpfm4                          py-rasterio                            tree
libpipeline                      py-readme-renderer                     treesub
libpng                           py-regex                               trf
libpsl                           py-reportlab                           triangle
libpthread-stubs                 py-requests                            trilinos
libquo                           py-requests-toolbelt                   trimgalore
librom                           py-restview                            trimmomatic
libsharp                         py-rope                                trinity
libshm                           py-rpy2                                trinotate
libsigcpp                        py-rsa                                 trnascan-se
libsigsegv                       py-rseqc                               turbine
libsm                            py-rtree                               turbomole
libsodium                        py-saga-python                         tut
libspatialindex                  py-scandir                             twm
libsplash                        py-scientificpython                    tycho2
libssh                           py-scikit-image                        typhon
libssh2                          py-scikit-learn                        typhonio
libsvm                           py-scipy                               uberftp
libszip                          py-seaborn                             ucx
libtermkey                       py-setuptools                          udunits2
libtiff                          py-setuptools-git                      ufo-core
libtool                          py-setuptools-scm                      ufo-filters
libunistring                     py-sfepy                               umpire
libunwind                        py-sh                                  unblur
libuuid                          py-shapely                             uncrustify
libuv                            py-shiboken                            unibilium
libvorbis                        py-simplegeneric                       unison
libvterm                         py-simplejson                          units
libwebsockets                    py-singledispatch                      unixodbc
libwindowswm                     py-sip                                 unuran
libx11                           py-six                                 unzip
libxau                           py-slepc4py                            usearch
libxaw                           py-slurm-pipeline                      util-linux
libxaw3d                         py-sncosmo                             util-macros
libxc                            py-snowballstemmer                     uuid
libxcb                           py-snuggs                              valgrind
libxcomposite                    py-spectra                             vampirtrace
libxcursor                       py-spefile                             vardictjava
libxdamage                       py-spglib                              varscan
libxdmcp                         py-sphinx                              vc
libxevie                         py-sphinx-bootstrap-theme              vcftools
libxext                          py-sphinx-rtd-theme                    vcsh
libxfixes                        py-sphinxcontrib-bibtex                vdt
libxfont                         py-sphinxcontrib-programoutput         vecgeom
libxfont2                        py-sphinxcontrib-websupport            veclibfort
libxfontcache                    py-spyder                              vegas2
libxft                           py-spykeutils                          veloc
libxi                            py-sqlalchemy                          velvet
libxinerama                      py-statsmodels                         verilator
libxkbcommon                     py-stevedore                           verrou
libxkbfile                       py-storm                               videoproto
libxkbui                         py-subprocess32                        viennarna
libxml2                          py-symengine                           viewres
libxmu                           py-symfit                              vim
libxp                            py-sympy                               virtualgl
libxpm                           py-tabulate                            visit
libxpresent                      py-tappy                               vizglow
libxprintapputil                 py-terminado                           vmatch
libxprintutil                    py-testinfra                           voropp
libxrandr                        py-tetoolkit                           votca-csg
libxrender                       py-theano                              votca-ctp
libxres                          py-tifffile                            votca-tools
libxscrnsaver                    py-toml                                votca-xtp
libxshmfence                     py-tomopy                              vpfft
libxslt                          py-toolz                               vpic
libxsmm                          py-tornado                             vsearch
libxstream                       py-tqdm                                vt
libxt                            py-traceback2                          vtk
libxtrap                         py-traitlets                           vtkh
libxtst                          py-tuiview                             vtkm
libxv                            py-twisted                             wannier90
libxvmc                          py-typing                              warpx
libxxf86dga                      py-tzlocal                             wcslib
libxxf86misc                     py-udunits                             wget
libxxf86vm                       py-umi-tools                           wgsim
libyogrt                         py-unittest2                           windowswmproto
libzip                           py-unittest2py3k                       wireshark
lighttpd                         py-urllib3                             workrave
likwid                           py-urwid                               wt
linkphase3                       py-vcversioner                         wx
linux-headers                    py-virtualenv                          wxpropgrid
listres                          py-virtualenv-clone                    x11perf
llvm                             py-virtualenvwrapper                   xapian-core
llvm-openmp-ompt                 py-vsc-base                            xauth
lmdb                             py-vsc-install                         xbacklight
lmod                             py-wcsaxes                             xbiff
lndir                            py-wcwidth                             xbitmaps
log4cplus                        py-webkit-server                       xbraid
log4cxx                          py-weblogo                             xcalc
loki                             py-werkzeug                            xcb-demo
lordec                           py-wheel                               xcb-proto
lrslib                           py-widgetsnbextension                  xcb-util
lrzip                            py-wrapt                               xcb-util-cursor
lsof                             py-xarray                              xcb-util-errors
ltrace                           py-xattr                               xcb-util-image
lua                              py-xdot                                xcb-util-keysyms
lua-bitlib                       py-xlrd                                xcb-util-renderutil
lua-jit                          py-xlsxwriter                          xcb-util-wm
lua-lpeg                         py-xmlrunner                           xcb-util-xrm
lua-luafilesystem                py-xopen                               xclip
lua-luaposix                     py-xpyb                                xclipboard
lua-mpack                        py-xvfbwrapper                         xclock
luit                             py-yamlreader                          xcmiscproto
lulesh                           py-yapf                                xcmsdb
lumpy-sv                         py-yt                                  xcompmgr
lwgrp                            py-ytopt                               xconsole
lwm2                             py-zmq                                 xcursor-themes
lz4                              py-zope-event                          xcursorgen
lzma                             py-zope-interface                      xdbedizzy
lzo                              pythia6                                xditview
m4                               python                                 xdm
macsio                           qbank                                  xdpyinfo
mad-numdiff                      qbox                                   xdriinfo
mafft                            qhull                                  xedit
magics                           qmcpack                                xerces-c
magma                            qmd-progress                           xev
makedepend                       qorts                                  xextproto
mallocmc                         qrupdate                               xeyes
man-db                           qt                                     xf86bigfontproto
manta                            qt-creator                             xf86dga
maq                              qtgraph                                xf86dgaproto
mariadb                          qthreads                               xf86driproto
masa                             quantum-espresso                       xf86miscproto
masurca                          quinoa                                 xf86rushproto
matio                            qwt                                    xf86vidmodeproto
matlab                           r                                      xfd
maven                            r-a4                                   xfindproxy
maverick                         r-a4base                               xfontsel
mawk                             r-a4classif                            xfs
mbedtls                          r-a4core                               xfsinfo
mc                               r-a4preproc                            xfwp
mcl                              r-a4reporting                          xgamma
mdtest                           r-abadata                              xgc
med                              r-abaenrichment                        xhmm
meep                             r-abind                                xhost
mefit                            r-absseq                               xineramaproto
megahit                          r-acde                                 xinit
memaxes                          r-acepack                              xinput
meme                             r-acgh                                 xios
memkind                          r-acme                                 xkbcomp
meraculous                       r-ada                                  xkbdata
mercurial                        r-adabag                               xkbevd
mesa                             r-ade4                                 xkbprint
mesa-glu                         r-adegenet                             xkbutils
meshkit                          r-adsplit                              xkeyboard-config
meson                            r-aer                                  xkill
mesquite                         r-affxparser                           xload
metabat                          r-affy                                 xlogo
metaphysicl                      r-affycomp                             xlsatoms
metis                            r-affycompatible                       xlsclients
mfem                             r-affycontam                           xlsfonts
microbiomeutil                   r-affycoretools                        xmag
minced                           r-affydata                             xman
mindthegap                       r-affyexpress                          xmessage
miniaero                         r-affyilm                              xmh
miniamr                          r-affyio                               xmlf90
miniasm                          r-affypdnn                             xmlto
miniconda2                       r-affyplm                              xmodmap
miniconda3                       r-affyqcreport                         xmore
minife                           r-affyrnadegradation                   xorg-cf-files
minighost                        r-agdex                                xorg-docs
minigmg                          r-agilp                                xorg-gtest
minimap2                         r-agimicrorna                          xorg-server
minimd                           r-aims                                 xorg-sgml-doctools
miniqmc                          r-aldex2                               xphelloworld
minisign                         r-allelicimbalance                     xplor-nih
minismac2d                       r-alpine                               xplsprinters
minitri                          r-als                                  xpr
minivite                         r-alsace                               xprehashprinterlist
minixyce                         r-altcdfenvs                           xprop
minuit                           r-amap                                 xproto
mira                             r-ampliqueso                           xproxymanagementprotocol
mirdeep2                         r-analysispageserver                   xqilla
mitofates                        r-anaquin                              xrandr
mitos                            r-aneufinder                           xrdb
mkfontdir                        r-aneufinderdata                       xrefresh
mkfontscale                      r-animation                            xrootd
mlhka                            r-annaffy                              xrx
moab                             r-annotate                             xsbench
modern-wheel                     r-annotationdbi                        xscope
mofem-cephas                     r-annotationfilter                     xsd
mofem-fracture-module            r-annotationforge                      xsdk
mofem-minimal-surface-equation   r-annotationhub                        xsdktrilinos
mofem-users-modules              r-ape                                  xset
molcas                           r-argparse                             xsetmode
mono                             r-assertthat                           xsetpointer
mosh                             r-backports                            xsetroot
mothur                           r-bamsignals                           xsimd
motif                            r-base64                               xsm
motioncor2                       r-base64enc                            xstdcmap
mount-point-attributes           r-bbmisc                               xtensor
mozjs                            r-beanplot                             xtensor-python
mpark-variant                    r-bh                                   xterm
mpc                              r-biasedurn                            xtl
mpe2                             r-bindr                                xtrans
mpest                            r-bindrcpp                             xtrap
mpfr                             r-biobase                              xts
mpibash                          r-biocgenerics                         xvidtune
mpiblast                         r-biocinstaller                        xvinfo
mpich                            r-biocparallel                         xwd
mpifileutils                     r-biocstyle                            xwininfo
mpilander                        r-biom-utils                           xwud
mpileaks                         r-biomart                              xxhash
mpip                             r-biomformat                           xz
mpir                             r-biostrings                           yajl
mpix-launch-swift                r-biovizbase                           yambo
mrbayes                          r-bit                                  yaml-cpp
mrnet                            r-bit64                                yasm
mrtrix3                          r-bitops                               yorick
mscgen                           r-blob                                 z3
msgpack-c                        r-bookdown                             zeromq
mshadow                          r-boot                                 zfp
multitail                        r-brew                                 zip
multiverso                       r-broom                                zlib
mummer                           r-bsgenome                             zoltan
mumps                            r-bumphunter                           zsh
munge                            r-c50                                  zstd

The packages are listed by name in alphabetical order. A pattern to match with no wildcards, * or ?, will be treated as though it started and ended with *, so util is equivalent to *util*. All patterns will be treated as case-insensitive. You can also add the -d to search the description of the package in addition to the name. Some examples:

All packages whose names contain “sql”:

$ spack list sql
perl-dbd-mysql   postgresql   py-pymysql   py-sqlalchemy  r-rpostgresql  r-sqldf  sqlitebrowser
perl-dbd-sqlite  py-mysqldb1  py-pysqlite  r-rmysql       r-rsqlite      sqlite

All packages whose names or descriptions contain documentation:

$ spack list --search-description documentation
compositeproto     libxfixes     py-docutils                  r-ggplot2   r-stanheaders
damageproto        libxpresent   py-epydoc                    r-quadprog  sowing
double-conversion  man-db        py-markdown                  r-rcpp      texinfo
doxygen            perl-dbfile   py-sphinx                    r-rinside   xorg-docs
gflags             py-alabaster  py-sphinxcontrib-websupport  r-roxygen2  xorg-sgml-doctools

spack info

To get more information on a particular package from spack list, use spack info. Just supply the name of a package:

$ spack info mpich
AutotoolsPackage:   mpich

Description:
    MPICH is a high performance and widely portable implementation of the
    Message Passing Interface (MPI) standard.

Homepage: http://www.mpich.org

Tags: 
    None

Preferred version:  
    3.2.1      http://www.mpich.org/static/downloads/3.2.1/mpich-3.2.1.tar.gz

Safe versions:  
    develop    [git] https://github.com/pmodels/mpich.git
    3.2.1      http://www.mpich.org/static/downloads/3.2.1/mpich-3.2.1.tar.gz
    3.2        http://www.mpich.org/static/downloads/3.2/mpich-3.2.tar.gz
    3.1.4      http://www.mpich.org/static/downloads/3.1.4/mpich-3.1.4.tar.gz
    3.1.3      http://www.mpich.org/static/downloads/3.1.3/mpich-3.1.3.tar.gz
    3.1.2      http://www.mpich.org/static/downloads/3.1.2/mpich-3.1.2.tar.gz
    3.1.1      http://www.mpich.org/static/downloads/3.1.1/mpich-3.1.1.tar.gz
    3.1        http://www.mpich.org/static/downloads/3.1/mpich-3.1.tar.gz
    3.0.4      http://www.mpich.org/static/downloads/3.0.4/mpich-3.0.4.tar.gz

Variants:
    Name [Default]    Allowed values        Description


    device [ch3]      ch3, ch4              Abstract Device Interface
                                            (ADI) implementation. The ch4
                                            device is currently in
                                            experimental state
    hydra [on]        True, False           Build the hydra process
                                            manager
    netmod [tcp]      tcp, mxm, ofi, ucx    Network module. Only single
                                            netmod builds are supported.
                                            For ch3 device configurations,
                                            this presumes the ch3:nemesis
                                            communication channel.
                                            ch3:sock is not supported by
                                            this spack package at this
                                            time.
    pmi [on]          True, False           Build with PMI support
    romio [on]        True, False           Enable ROMIO MPI I/O
                                            implementation
    verbs [off]       True, False           Build support for OpenFabrics
                                            verbs.

Installation Phases:
    autoreconf    configure    build    install

Build Dependencies:
    findutils  libfabric

Link Dependencies:
    libfabric

Run Dependencies:
    None

Virtual Packages: 
    mpich@3: provides mpi@:3.0
    mpich@1: provides mpi@:1.3
    mpich provides mpi

Most of the information is self-explanatory. The safe versions are versions that Spack knows the checksum for, and it will use the checksum to verify that these versions download without errors or viruses.

Dependencies and virtual dependencies are described in more detail later.

spack versions

To see more available versions of a package, run spack versions. For example:

$ spack versions libelf
==> Safe versions (already checksummed):
  0.8.13  0.8.12
==> Remote versions (not yet checksummed):
  0.8.11  0.8.10  0.8.9  0.8.8  0.8.7  0.8.6  0.8.5  0.8.4  0.8.3  0.8.2  0.8.0  0.7.0  0.6.4  0.5.2

There are two sections in the output. Safe versions are versions for which Spack has a checksum on file. It can verify that these versions are downloaded correctly.

In many cases, Spack can also show you what versions are available out on the web—these are remote versions. Spack gets this information by scraping it directly from package web pages. Depending on the package and how its releases are organized, Spack may or may not be able to find remote versions.

Installing and uninstalling

spack install

spack install will install any package shown by spack list. For example, To install the latest version of the mpileaks package, you might type this:

$ spack install mpileaks

If mpileaks depends on other packages, Spack will install the dependencies first. It then fetches the mpileaks tarball, expands it, verifies that it was downloaded without errors, builds it, and installs it in its own directory under $SPACK_ROOT/opt. You’ll see a number of messages from spack, a lot of build output, and a message that the packages is installed:

$ spack install mpileaks
==> Installing mpileaks
==> mpich is already installed in ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/mpich@3.0.4.
==> callpath is already installed in ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/callpath@1.0.2-5dce4318.
==> adept-utils is already installed in ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/adept-utils@1.0-5adef8da.
==> Trying to fetch from https://github.com/hpc/mpileaks/releases/download/v1.0/mpileaks-1.0.tar.gz
######################################################################## 100.0%
==> Staging archive: ~/spack/var/spack/stage/mpileaks@1.0%gcc@4.4.7 arch=linux-debian7-x86_64-59f6ad23/mpileaks-1.0.tar.gz
==> Created stage in ~/spack/var/spack/stage/mpileaks@1.0%gcc@4.4.7 arch=linux-debian7-x86_64-59f6ad23.
==> No patches needed for mpileaks.
==> Building mpileaks.

... build output ...

==> Successfully installed mpileaks.
  Fetch: 2.16s.  Build: 9.82s.  Total: 11.98s.
[+] ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/mpileaks@1.0-59f6ad23

The last line, with the [+], indicates where the package is installed.

Building a specific version

Spack can also build specific versions of a package. To do this, just add @ after the package name, followed by a version:

$ spack install mpich@3.0.4

Any number of versions of the same package can be installed at once without interfering with each other. This is good for multi-user sites, as installing a version that one user needs will not disrupt existing installations for other users.

In addition to different versions, Spack can customize the compiler, compile-time options (variants), compiler flags, and platform (for cross compiles) of an installation. Spack is unique in that it can also configure the dependencies a package is built with. For example, two configurations of the same version of a package, one built with boost 1.39.0, and the other version built with version 1.43.0, can coexist.

This can all be done on the command line using the spec syntax. Spack calls the descriptor used to refer to a particular package configuration a spec. In the commands above, mpileaks and mpileaks@3.0.4 are both valid specs. We’ll talk more about how you can use them to customize an installation in Specs & dependencies.

spack uninstall

To uninstall a package, type spack uninstall <package>. This will ask the user for confirmation before completely removing the directory in which the package was installed.

$ spack uninstall mpich

If there are still installed packages that depend on the package to be uninstalled, spack will refuse to uninstall it.

To uninstall a package and every package that depends on it, you may give the --dependents option.

$ spack uninstall --dependents mpich

will display a list of all the packages that depend on mpich and, upon confirmation, will uninstall them in the right order.

A command like

$ spack uninstall mpich

may be ambiguous if multiple mpich configurations are installed. For example, if both mpich@3.0.2 and mpich@3.1 are installed, mpich could refer to either one. Because it cannot determine which one to uninstall, Spack will ask you either to provide a version number to remove the ambiguity or use the --all option to uninstall all of the matching packages.

You may force uninstall a package with the --force option

$ spack uninstall --force mpich

but you risk breaking other installed packages. In general, it is safer to remove dependent packages before removing their dependencies or use the --dependents option.

Non-Downloadable Tarballs

The tarballs for some packages cannot be automatically downloaded by Spack. This could be for a number of reasons:

  1. The author requires users to manually accept a license agreement before downloading (jdk and galahad).
  2. The software is proprietary and cannot be downloaded on the open Internet.

To install these packages, one must create a mirror and manually add the tarballs in question to it (see Mirrors):

  1. Create a directory for the mirror. You can create this directory anywhere you like, it does not have to be inside ~/.spack:

    $ mkdir ~/.spack/manual_mirror
    
  2. Register the mirror with Spack by creating ~/.spack/mirrors.yaml:

    mirrors:
      manual: file://~/.spack/manual_mirror
    
  3. Put your tarballs in it. Tarballs should be named <package>/<package>-<version>.tar.gz. For example:

    $ ls -l manual_mirror/galahad
    
    -rw-------. 1 me me 11657206 Jun 21 19:25 galahad-2.60003.tar.gz
    
  4. Install as usual:

    $ spack install galahad
    

Seeing installed packages

We know that spack list shows you the names of available packages, but how do you figure out which are already installed?

spack find

spack find shows the specs of installed packages. A spec is like a name, but it has a version, compiler, architecture, and build options associated with it. In spack, you can have many installations of the same package with different specs.

Running spack find with no arguments lists installed packages:

$ spack find
==> 74 installed packages.
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
ImageMagick@6.8.9-10  libdwarf@20130729  py-dateutil@2.4.0
adept-utils@1.0       libdwarf@20130729  py-ipython@2.3.1
atk@2.14.0            libelf@0.8.12      py-matplotlib@1.4.2
boost@1.55.0          libelf@0.8.13      py-nose@1.3.4
bzip2@1.0.6           libffi@3.1         py-numpy@1.9.1
cairo@1.14.0          libmng@2.0.2       py-pygments@2.0.1
callpath@1.0.2        libpng@1.6.16      py-pyparsing@2.0.3
cmake@3.0.2           libtiff@4.0.3      py-pyside@1.2.2
dbus@1.8.6            libtool@2.4.2      py-pytz@2014.10
dbus@1.9.0            libxcb@1.11        py-setuptools@11.3.1
dyninst@8.1.2         libxml2@2.9.2      py-six@1.9.0
fontconfig@2.11.1     libxml2@2.9.2      python@2.7.8
freetype@2.5.3        llvm@3.0           qhull@1.0
gdk-pixbuf@2.31.2     memaxes@0.5        qt@4.8.6
glib@2.42.1           mesa@8.0.5         qt@5.4.0
graphlib@2.0.0        mpich@3.0.4        readline@6.3
gtkplus@2.24.25       mpileaks@1.0       sqlite@3.8.5
harfbuzz@0.9.37       mrnet@4.1.0        stat@2.1.0
hdf5@1.8.13           ncurses@5.9        tcl@8.6.3
icu@54.1              netcdf@4.3.3       tk@src
jpeg@9a               openssl@1.0.1h     vtk@6.1.0
launchmon@1.0.1       pango@1.36.8       xcb-proto@1.11
lcms@2.6              pixman@0.32.6      xz@5.2.0
libdrm@2.4.33         py-dateutil@2.4.0  zlib@1.2.8

-- linux-debian7-x86_64 / gcc@4.9.2 --------------------------------
libelf@0.8.10  mpich@3.0.4

Packages are divided into groups according to their architecture and compiler. Within each group, Spack tries to keep the view simple, and only shows the version of installed packages.

spack find can filter the package list based on the package name, spec, or a number of properties of their installation status. For example, missing dependencies of a spec can be shown with --missing, packages which were explicitly installed with spack install <package> can be singled out with --explicit and those which have been pulled in only as dependencies with --implicit.

In some cases, there may be different configurations of the same version of a package installed. For example, there are two installations of libdwarf@20130729 above. We can look at them in more detail using spack find --deps, and by asking only to show libdwarf packages:

$ spack find --deps libdwarf
==> 2 installed packages.
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
    libdwarf@20130729-d9b90962
        ^libelf@0.8.12
    libdwarf@20130729-b52fac98
        ^libelf@0.8.13

Now we see that the two instances of libdwarf depend on different versions of libelf: 0.8.12 and 0.8.13. This view can become complicated for packages with many dependencies. If you just want to know whether two packages’ dependencies differ, you can use spack find --long:

$ spack find --long libdwarf
==> 2 installed packages.
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
libdwarf@20130729-d9b90962  libdwarf@20130729-b52fac98

Now the libdwarf installs have hashes after their names. These are hashes over all of the dependencies of each package. If the hashes are the same, then the packages have the same dependency configuration.

If you want to know the path where each package is installed, you can use spack find --paths:

$ spack find --paths
==> 74 installed packages.
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
    ImageMagick@6.8.9-10  ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/ImageMagick@6.8.9-10-4df950dd
    adept-utils@1.0       ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/adept-utils@1.0-5adef8da
    atk@2.14.0            ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/atk@2.14.0-3d09ac09
    boost@1.55.0          ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/boost@1.55.0
    bzip2@1.0.6           ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/bzip2@1.0.6
    cairo@1.14.0          ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/cairo@1.14.0-fcc2ab44
    callpath@1.0.2        ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/callpath@1.0.2-5dce4318
...

And, finally, you can restrict your search to a particular package by supplying its name:

$ spack find --paths libelf
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
    libelf@0.8.11  ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/libelf@0.8.11
    libelf@0.8.12  ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/libelf@0.8.12
    libelf@0.8.13  ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/libelf@0.8.13

spack find actually does a lot more than this. You can use specs to query for specific configurations and builds of each package. If you want to find only libelf versions greater than version 0.8.12, you could say:

$ spack find libelf@0.8.12:
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
    libelf@0.8.12  libelf@0.8.13

Finding just the versions of libdwarf built with a particular version of libelf would look like this:

$ spack find --long libdwarf ^libelf@0.8.12
==> 1 installed packages.
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
libdwarf@20130729-d9b90962

We can also search for packages that have a certain attribute. For example, spack find libdwarf +debug will show only installations of libdwarf with the ‘debug’ compile-time option enabled.

The full spec syntax is discussed in detail in Specs & dependencies.

Specs & dependencies

We know that spack install, spack uninstall, and other commands take a package name with an optional version specifier. In Spack, that descriptor is called a spec. Spack uses specs to refer to a particular build configuration (or configurations) of a package. Specs are more than a package name and a version; you can use them to specify the compiler, compiler version, architecture, compile options, and dependency options for a build. In this section, we’ll go over the full syntax of specs.

Here is an example of a much longer spec than we’ve seen thus far:

mpileaks @1.2:1.4 %gcc@4.7.5 +debug -qt arch=bgq_os ^callpath @1.1 %gcc@4.7.2

If provided to spack install, this will install the mpileaks library at some version between 1.2 and 1.4 (inclusive), built using gcc at version 4.7.5 for the Blue Gene/Q architecture, with debug options enabled, and without Qt support. Additionally, it says to link it with the callpath library (which it depends on), and to build callpath with gcc 4.7.2. Most specs will not be as complicated as this one, but this is a good example of what is possible with specs.

More formally, a spec consists of the following pieces:

  • Package name identifier (mpileaks above)
  • @ Optional version specifier (@1.2:1.4)
  • % Optional compiler specifier, with an optional compiler version (gcc or gcc@4.7.3)
  • + or - or ~ Optional variant specifiers (+debug, -qt, or ~qt) for boolean variants
  • name=<value> Optional variant specifiers that are not restricted to boolean variants
  • name=<value> Optional compiler flag specifiers. Valid flag names are cflags, cxxflags, fflags, cppflags, ldflags, and ldlibs.
  • target=<value> os=<value> Optional architecture specifier (target=haswell os=CNL10)
  • ^ Dependency specs (^callpath@1.1)

There are two things to notice here. The first is that specs are recursively defined. That is, each dependency after ^ is a spec itself. The second is that everything is optional except for the initial package name identifier. Users can be as vague or as specific as they want about the details of building packages, and this makes spack good for beginners and experts alike.

To really understand what’s going on above, we need to think about how software is structured. An executable or a library (these are generally the artifacts produced by building software) depends on other libraries in order to run. We can represent the relationship between a package and its dependencies as a graph. Here is the full dependency graph for mpileaks:

digraph { mpileaks -> mpich mpileaks -> callpath -> mpich callpath -> dyninst dyninst -> libdwarf -> libelf dyninst -> libelf }

Each box above is a package and each arrow represents a dependency on some other package. For example, we say that the package mpileaks depends on callpath and mpich. mpileaks also depends indirectly on dyninst, libdwarf, and libelf, in that these libraries are dependencies of callpath. To install mpileaks, Spack has to build all of these packages. Dependency graphs in Spack have to be acyclic, and the depends on relationship is directional, so this is a directed, acyclic graph or DAG.

The package name identifier in the spec is the root of some dependency DAG, and the DAG itself is implicit. Spack knows the precise dependencies among packages, but users do not need to know the full DAG structure. Each ^ in the full spec refers to some dependency of the root package. Spack will raise an error if you supply a name after ^ that the root does not actually depend on (e.g. mpileaks ^emacs@23.3).

Spack further simplifies things by only allowing one configuration of each package within any single build. Above, both mpileaks and callpath depend on mpich, but mpich appears only once in the DAG. You cannot build an mpileaks version that depends on one version of mpich and on a callpath version that depends on some other version of mpich. In general, such a configuration would likely behave unexpectedly at runtime, and Spack enforces this to ensure a consistent runtime environment.

The point of specs is to abstract this full DAG from Spack users. If a user does not care about the DAG at all, she can refer to mpileaks by simply writing mpileaks. If she knows that mpileaks indirectly uses dyninst and she wants a particular version of dyninst, then she can refer to mpileaks ^dyninst@8.1. Spack will fill in the rest when it parses the spec; the user only needs to know package names and minimal details about their relationship.

When spack prints out specs, it sorts package names alphabetically to normalize the way they are displayed, but users do not need to worry about this when they write specs. The only restriction on the order of dependencies within a spec is that they appear after the root package. For example, these two specs represent exactly the same configuration:

mpileaks ^callpath@1.0 ^libelf@0.8.3
mpileaks ^libelf@0.8.3 ^callpath@1.0

You can put all the same modifiers on dependency specs that you would put on the root spec. That is, you can specify their versions, compilers, variants, and architectures just like any other spec. Specifiers are associated with the nearest package name to their left. For example, above, @1.1 and %gcc@4.7.2 associates with the callpath package, while @1.2:1.4, %gcc@4.7.5, +debug, -qt, and target=haswell os=CNL10 all associate with the mpileaks package.

In the diagram above, mpileaks depends on mpich with an unspecified version, but packages can depend on other packages with constraints by adding more specifiers. For example, mpileaks could depend on mpich@1.2: if it can only build with version 1.2 or higher of mpich.

Below are more details about the specifiers that you can add to specs.

Version specifier

A version specifier comes somewhere after a package name and starts with @. It can be a single version, e.g. @1.0, @3, or @1.2a7. Or, it can be a range of versions, such as @1.0:1.5 (all versions between 1.0 and 1.5, inclusive). Version ranges can be open, e.g. :3 means any version up to and including 3. This would include 3.4 and 3.4.2. 4.2: means any version above and including 4.2. Finally, a version specifier can be a set of arbitrary versions, such as @1.0,1.5,1.7 (1.0, 1.5, or 1.7). When you supply such a specifier to spack install, it constrains the set of versions that Spack will install.

If the version spec is not provided, then Spack will choose one according to policies set for the particular spack installation. If the spec is ambiguous, i.e. it could match multiple versions, Spack will choose a version within the spec’s constraints according to policies set for the particular Spack installation.

Details about how versions are compared and how Spack determines if one version is less than another are discussed in the developer guide.

Compiler specifier

A compiler specifier comes somewhere after a package name and starts with %. It tells Spack what compiler(s) a particular package should be built with. After the % should come the name of some registered Spack compiler. This might include gcc, or intel, but the specific compilers available depend on the site. You can run spack compilers to get a list; more on this below.

The compiler spec can be followed by an optional compiler version. A compiler version specifier looks exactly like a package version specifier. Version specifiers will associate with the nearest package name or compiler specifier to their left in the spec.

If the compiler spec is omitted, Spack will choose a default compiler based on site policies.

Variants

Variants are named options associated with a particular package. They are optional, as each package must provide default values for each variant it makes available. Variants can be specified using a flexible parameter syntax name=<value>. For example, spack install libelf debug=True will install libelf build with debug flags. The names of particular variants available for a package depend on what was provided by the package author. spack info <package> will provide information on what build variants are available.

For compatibility with earlier versions, variants which happen to be boolean in nature can be specified by a syntax that represents turning options on and off. For example, in the previous spec we could have supplied libelf +debug with the same effect of enabling the debug compile time option for the libelf package.

Depending on the package a variant may have any default value. For libelf here, debug is False by default, and we turned it on with debug=True or +debug. If a variant is True by default you can turn it off by either adding -name or ~name to the spec.

There are two syntaxes here because, depending on context, ~ and - may mean different things. In most shells, the following will result in the shell performing home directory substitution:

mpileaks ~debug   # shell may try to substitute this!
mpileaks~debug    # use this instead

If there is a user called debug, the ~ will be incorrectly expanded. In this situation, you would want to write libelf -debug. However, - can be ambiguous when included after a package name without spaces:

mpileaks-debug     # wrong!
mpileaks -debug    # right

Spack allows the - character to be part of package names, so the above will be interpreted as a request for the mpileaks-debug package, not a request for mpileaks built without debug options. In this scenario, you should write mpileaks~debug to avoid ambiguity.

When spack normalizes specs, it prints them out with no spaces boolean variants using the backwards compatibility syntax and uses only ~ for disabled boolean variants. The - and spaces on the command line are provided for convenience and legibility.

Compiler Flags

Compiler flags are specified using the same syntax as non-boolean variants, but fulfill a different purpose. While the function of a variant is set by the package, compiler flags are used by the compiler wrappers to inject flags into the compile line of the build. Additionally, compiler flags are inherited by dependencies. spack install libdwarf cppflags="-g" will install both libdwarf and libelf with the -g flag injected into their compile line.

Notice that the value of the compiler flags must be quoted if it contains any spaces. Any of cppflags=-O3, cppflags="-O3", cppflags='-O3', and cppflags="-O3 -fPIC" are acceptable, but cppflags=-O3 -fPIC is not. Additionally, if they value of the compiler flags is not the last thing on the line, it must be followed by a space. The commmand spack install libelf cppflags="-O3"%intel will be interpreted as an attempt to set cppflags=”-O3%intel”`.

The six compiler flags are injected in the order of implicit make commands in GNU Autotools. If all flags are set, the order is $cppflags $cflags|$cxxflags $ldflags <command> $ldlibs for C and C++ and $fflags $cppflags $ldflags <command> $ldlibs for Fortran.

Compiler environment variables and additional RPATHs

In the exceptional case a compiler requires setting special environment variables, like an explicit library load path. These can bet set in an extra section in the compiler configuration (the supported environment modification commands are: set, unset, append-path, and prepend-path). The user can also specify additional RPATHs that the compiler will add to all executables generated by that compiler. This is useful for forcing certain compilers to RPATH their own runtime libraries, so that executables will run without the need to set LD_LIBRARY_PATH.

compilers:
  - compiler:
      spec: gcc@4.9.3
      paths:
        cc: /opt/gcc/bin/gcc
        c++: /opt/gcc/bin/g++
        f77: /opt/gcc/bin/gfortran
        fc: /opt/gcc/bin/gfortran
      environment:
        unset:
          BAD_VARIABLE: # The colon is required but the value must be empty
        set:
          GOOD_VARIABLE_NUM: 1
          GOOD_VARIABLE_STR: good
        prepend-path:
          PATH: /path/to/binutils
        append-path:
          LD_LIBRARY_PATH: /opt/gcc/lib
      extra_rpaths:
      - /path/to/some/compiler/runtime/directory
      - /path/to/some/other/compiler/runtime/directory

Note

The section environment is interpreted as an ordered dictionary, which means two things. First, environment modification are applied in the order they are specified in the configuration file. Second, you cannot express environment modifications that require mixing different commands, i.e. you cannot set one variable, than prepend-path to another one, and than again set a third one.

Architecture specifiers

The architecture can be specified by using the reserved words target and/or os (target=x86-64 os=debian7). You can also use the triplet form of platform, operating system and processor.

$ spack install libelf arch=cray-CNL10-haswell

Users on non-Cray systems won’t have to worry about specifying the architecture. Spack will autodetect what kind of operating system is on your machine as well as the processor. For more information on how the architecture can be used on Cray machines, see Spack on Cray

Virtual dependencies

The dependence graph for mpileaks we saw above wasn’t quite accurate. mpileaks uses MPI, which is an interface that has many different implementations. Above, we showed mpileaks and callpath depending on mpich, which is one particular implementation of MPI. However, we could build either with another implementation, such as openmpi or mvapich.

Spack represents interfaces like this using virtual dependencies. The real dependency DAG for mpileaks looks like this:

digraph { mpi [color=red] mpileaks -> mpi mpileaks -> callpath -> mpi callpath -> dyninst dyninst -> libdwarf -> libelf dyninst -> libelf }

Notice that mpich has now been replaced with mpi. There is no real MPI package, but some packages provide the MPI interface, and these packages can be substituted in for mpi when mpileaks is built.

You can see what virtual packages a particular package provides by getting info on it:

$ spack info mpich
AutotoolsPackage:   mpich

Description:
    MPICH is a high performance and widely portable implementation of the
    Message Passing Interface (MPI) standard.

Homepage: http://www.mpich.org

Tags: 
    None

Preferred version:  
    3.2.1      http://www.mpich.org/static/downloads/3.2.1/mpich-3.2.1.tar.gz

Safe versions:  
    develop    [git] https://github.com/pmodels/mpich.git
    3.2.1      http://www.mpich.org/static/downloads/3.2.1/mpich-3.2.1.tar.gz
    3.2        http://www.mpich.org/static/downloads/3.2/mpich-3.2.tar.gz
    3.1.4      http://www.mpich.org/static/downloads/3.1.4/mpich-3.1.4.tar.gz
    3.1.3      http://www.mpich.org/static/downloads/3.1.3/mpich-3.1.3.tar.gz
    3.1.2      http://www.mpich.org/static/downloads/3.1.2/mpich-3.1.2.tar.gz
    3.1.1      http://www.mpich.org/static/downloads/3.1.1/mpich-3.1.1.tar.gz
    3.1        http://www.mpich.org/static/downloads/3.1/mpich-3.1.tar.gz
    3.0.4      http://www.mpich.org/static/downloads/3.0.4/mpich-3.0.4.tar.gz

Variants:
    Name [Default]    Allowed values        Description


    device [ch3]      ch3, ch4              Abstract Device Interface
                                            (ADI) implementation. The ch4
                                            device is currently in
                                            experimental state
    hydra [on]        True, False           Build the hydra process
                                            manager
    netmod [tcp]      tcp, mxm, ofi, ucx    Network module. Only single
                                            netmod builds are supported.
                                            For ch3 device configurations,
                                            this presumes the ch3:nemesis
                                            communication channel.
                                            ch3:sock is not supported by
                                            this spack package at this
                                            time.
    pmi [on]          True, False           Build with PMI support
    romio [on]        True, False           Enable ROMIO MPI I/O
                                            implementation
    verbs [off]       True, False           Build support for OpenFabrics
                                            verbs.

Installation Phases:
    autoreconf    configure    build    install

Build Dependencies:
    findutils  libfabric

Link Dependencies:
    libfabric

Run Dependencies:
    None

Virtual Packages: 
    mpich@3: provides mpi@:3.0
    mpich@1: provides mpi@:1.3
    mpich provides mpi

Spack is unique in that its virtual packages can be versioned, just like regular packages. A particular version of a package may provide a particular version of a virtual package, and we can see above that mpich versions 1 and above provide all mpi interface versions up to 1, and mpich versions 3 and above provide mpi versions up to 3. A package can depend on a particular version of a virtual package, e.g. if an application needs MPI-2 functions, it can depend on mpi@2: to indicate that it needs some implementation that provides MPI-2 functions.

Constraining virtual packages

When installing a package that depends on a virtual package, you can opt to specify the particular provider you want to use, or you can let Spack pick. For example, if you just type this:

$ spack install mpileaks

Then spack will pick a provider for you according to site policies. If you really want a particular version, say mpich, then you could run this instead:

$ spack install mpileaks ^mpich

This forces spack to use some version of mpich for its implementation. As always, you can be even more specific and require a particular mpich version:

$ spack install mpileaks ^mpich@3

The mpileaks package in particular only needs MPI-1 commands, so any MPI implementation will do. If another package depends on mpi@2 and you try to give it an insufficient MPI implementation (e.g., one that provides only mpi@:1), then Spack will raise an error. Likewise, if you try to plug in some package that doesn’t provide MPI, Spack will raise an error.

Specifying Specs by Hash

Complicated specs can become cumbersome to enter on the command line, especially when many of the qualifications are necessary to distinguish between similar installs. To avoid this, when referencing an existing spec, Spack allows you to reference specs by their hash. We previously discussed the spec hash that Spack computes. In place of a spec in any command, substitute /<hash> where <hash> is any amount from the beginning of a spec hash.

For example, lets say that you accidentally installed two different mvapich2 installations. If you want to uninstall one of them but don’t know what the difference is, you can run:

$ spack find --long mvapich2
==> 2 installed packages.
-- linux-centos7-x86_64 / gcc@6.3.0 ----------
qmt35td mvapich2@2.2%gcc
er3die3 mvapich2@2.2%gcc

You can then uninstall the latter installation using:

$ spack uninstall /er3die3

Or, if you want to build with a specific installation as a dependency, you can use:

$ spack install trilinos ^/er3die3

If the given spec hash is sufficiently long as to be unique, Spack will replace the reference with the spec to which it refers. Otherwise, it will prompt for a more qualified hash.

Note that this will not work to reinstall a dependency uninstalled by spack uninstall --force.

spack providers

You can see what packages provide a particular virtual package using spack providers. If you wanted to see what packages provide mpi, you would just run:

$ spack providers mpi
charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:         mpich      mvapich2        openmpi@2.0.0:
charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:         mpich@1:   openmpi         spectrum-mpi
charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:  intel-mpi              mpich@3:   openmpi@1.6.5
charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:  intel-parallel-studio  mpilander  openmpi@1.7.5:

And if you only wanted to see packages that provide MPI-2, you would add a version specifier to the spec:

$ spack providers mpi@2
charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:         mpich      openmpi         spectrum-mpi
charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:         mpich@3:   openmpi@1.6.5
charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:  intel-mpi              mpilander  openmpi@1.7.5:
charmpp@6.7.1:  charmpp@6.7.1:  charmpp@6.7.1:  intel-parallel-studio  mvapich2   openmpi@2.0.0:

Notice that the package versions that provide insufficient MPI versions are now filtered out.

Extensions & Python support

Spack’s installation model assumes that each package will live in its own install prefix. However, certain packages are typically installed within the directory hierarchy of other packages. For example, modules in interpreted languages like Python are typically installed in the $prefix/lib/python-2.7/site-packages directory.

Spack has support for this type of installation as well. In Spack, a package that can live inside the prefix of another package is called an extension. Suppose you have Python installed like so:

$ spack find python
==> 1 installed packages.
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
python@2.7.8

spack extensions

You can find extensions for your Python installation like this:

$ spack extensions python
==> python@2.7.8%gcc@4.4.7 arch=linux-debian7-x86_64-703c7a96
==> 36 extensions:
geos          py-ipython     py-pexpect    py-pyside            py-sip
py-basemap    py-libxml2     py-pil        py-pytz              py-six
py-biopython  py-mako        py-pmw        py-rpy2              py-sympy
py-cython     py-matplotlib  py-pychecker  py-scientificpython  py-virtualenv
py-dateutil   py-mpi4py      py-pygments   py-scikit-learn
py-epydoc     py-mx          py-pylint     py-scipy
py-gnuplot    py-nose        py-pyparsing  py-setuptools
py-h5py       py-numpy       py-pyqt       py-shiboken

==> 12 installed:
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
py-dateutil@2.4.0    py-nose@1.3.4       py-pyside@1.2.2
py-dateutil@2.4.0    py-numpy@1.9.1      py-pytz@2014.10
py-ipython@2.3.1     py-pygments@2.0.1   py-setuptools@11.3.1
py-matplotlib@1.4.2  py-pyparsing@2.0.3  py-six@1.9.0

==> None activated.

The extensions are a subset of what’s returned by spack list, and they are packages like any other. They are installed into their own prefixes, and you can see this with spack find --paths:

$ spack find --paths py-numpy
==> 1 installed packages.
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
    py-numpy@1.9.1  ~/spack/opt/linux-debian7-x86_64/gcc@4.4.7/py-numpy@1.9.1-66733244

However, even though this package is installed, you cannot use it directly when you run python:

$ spack load python
$ python
Python 2.7.8 (default, Feb 17 2015, 01:35:25)
[GCC 4.4.7 20120313 (Red Hat 4.4.7-11)] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> import numpy
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
ImportError: No module named numpy
>>>

Using Extensions

There are three ways to get numpy working in Python. The first is to use Using module files via Spack. You can simply use or load the module for the extension, and it will be added to the PYTHONPATH in your current shell.

For tcl modules:

$ spack load python
$ spack load py-numpy

or, for dotkit:

$ spack use python
$ spack use py-numpy

Now import numpy will succeed for as long as you keep your current session open.

Activating Extensions in a View

The second way to use extensions is to create a view, which merges the python installation along with the extensions into a single prefix. See Filesystem Views for a more in-depth description of views and spack view for usage of the spack view command.

Activating Extensions Globally

As an alternative to creating a merged prefix with Python and its extensions, and prior to support for views, Spack has provided a means to install the extension into the Spack installation prefix for the extendee. This has typically been useful since extendable packages typically search their own installation path for addons by default.

Global activations are performed with the spack activate command:

spack activate

$ spack activate py-numpy
==> Activated extension py-setuptools@11.3.1%gcc@4.4.7 arch=linux-debian7-x86_64-3c74eb69 for python@2.7.8%gcc@4.4.7.
==> Activated extension py-nose@1.3.4%gcc@4.4.7 arch=linux-debian7-x86_64-5f70f816 for python@2.7.8%gcc@4.4.7.
==> Activated extension py-numpy@1.9.1%gcc@4.4.7 arch=linux-debian7-x86_64-66733244 for python@2.7.8%gcc@4.4.7.

Several things have happened here. The user requested that py-numpy be activated in the python installation it was built with. Spack knows that py-numpy depends on py-nose and py-setuptools, so it activated those packages first. Finally, once all dependencies were activated in the python installation, py-numpy was activated as well.

If we run spack extensions again, we now see the three new packages listed as activated:

$ spack extensions python
==> python@2.7.8%gcc@4.4.7  arch=linux-debian7-x86_64-703c7a96
==> 36 extensions:
geos          py-ipython     py-pexpect    py-pyside            py-sip
py-basemap    py-libxml2     py-pil        py-pytz              py-six
py-biopython  py-mako        py-pmw        py-rpy2              py-sympy
py-cython     py-matplotlib  py-pychecker  py-scientificpython  py-virtualenv
py-dateutil   py-mpi4py      py-pygments   py-scikit-learn
py-epydoc     py-mx          py-pylint     py-scipy
py-gnuplot    py-nose        py-pyparsing  py-setuptools
py-h5py       py-numpy       py-pyqt       py-shiboken

==> 12 installed:
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
py-dateutil@2.4.0    py-nose@1.3.4       py-pyside@1.2.2
py-dateutil@2.4.0    py-numpy@1.9.1      py-pytz@2014.10
py-ipython@2.3.1     py-pygments@2.0.1   py-setuptools@11.3.1
py-matplotlib@1.4.2  py-pyparsing@2.0.3  py-six@1.9.0

==> 3 currently activated:
-- linux-debian7-x86_64 / gcc@4.4.7 --------------------------------
py-nose@1.3.4  py-numpy@1.9.1  py-setuptools@11.3.1

Now, when a user runs python, numpy will be available for import without the user having to explicitly loaded. python@2.7.8 now acts like a system Python installation with numpy installed inside of it.

Spack accomplishes this by symbolically linking the entire prefix of the py-numpy into the prefix of the python package. To the python interpreter, it looks like numpy is installed in the site-packages directory.

The only limitation of global activation is that you can only have a single version of an extension activated at a time. This is because multiple versions of the same extension would conflict if symbolically linked into the same prefix. Users who want a different version of a package can still get it by using environment modules or views, but they will have to explicitly load their preferred version.

spack activate --force

If, for some reason, you want to activate a package without its dependencies, you can use spack activate --force:

$ spack activate --force py-numpy
==> Activated extension py-numpy@1.9.1%gcc@4.4.7 arch=linux-debian7-x86_64-66733244 for python@2.7.8%gcc@4.4.7.

spack deactivate

We’ve seen how activating an extension can be used to set up a default version of a Python module. Obviously, you may want to change that at some point. spack deactivate is the command for this. There are several variants:

  • spack deactivate <extension> will deactivate a single extension. If another activated extension depends on this one, Spack will warn you and exit with an error.

  • spack deactivate --force <extension> deactivates an extension regardless of packages that depend on it.

  • spack deactivate --all <extension> deactivates an extension and all of its dependencies. Use --force to disregard dependents.

  • spack deactivate --all <extendee> deactivates all activated extensions of a package. For example, to deactivate all python extensions, use:

    $ spack deactivate --all python
    

Filesystem requirements

By default, Spack needs to be run from a filesystem that supports flock locking semantics. Nearly all local filesystems and recent versions of NFS support this, but parallel filesystems or NFS volumes may be configured without flock support enabled. You can determine how your filesystems are mounted with mount. The output for a Lustre filesystem might look like this:

$ mount | grep lscratch
mds1-lnet0@o2ib100:/lsd on /p/lscratchd type lustre (rw,nosuid,lazystatfs,flock)
mds2-lnet0@o2ib100:/lse on /p/lscratche type lustre (rw,nosuid,lazystatfs,flock)

Note the flock option on both Lustre mounts.

If you do not see this or a similar option for your filesystem, you have a few options. First, you can move your Spack installation to a filesystem that supports locking. Second, you could ask your system administrator to enable flock for your filesystem.

If none of those work, you can disable locking in one of two ways:

  1. Run Spack with the -L or --disable-locks option to disable locks on a call-by-call basis.
  2. Edit config.yaml and set the locks option to false to always disable locking.

Warning

If you disable locking, concurrent instances of Spack will have no way to avoid stepping on each other. You must ensure that there is only one instance of Spack running at a time. Otherwise, Spack may end up with a corrupted database file, or you may not be able to see all installed packages in commands like spack find.

If you are unfortunate enough to run into this situation, you may be able to fix it by running spack reindex.

This issue typically manifests with the error below:

$ ./spack find
Traceback (most recent call last):
File "./spack", line 176, in <module>
  main()
File "./spack", line 154,' in main
  return_val = command(parser, args)
File "./spack/lib/spack/spack/cmd/find.py", line 170, in find
  specs = set(spack.installed_db.query(\**q_args))
File "./spack/lib/spack/spack/database.py", line 551, in query
  with self.read_transaction():
File "./spack/lib/spack/spack/database.py", line 598, in __enter__
  if self._enter() and self._acquire_fn:
File "./spack/lib/spack/spack/database.py", line 608, in _enter
  return self._db.lock.acquire_read(self._timeout)
File "./spack/lib/spack/llnl/util/lock.py", line 103, in acquire_read
  self._lock(fcntl.LOCK_SH, timeout)   # can raise LockError.
File "./spack/lib/spack/llnl/util/lock.py", line 64, in _lock
  fcntl.lockf(self._fd, op | fcntl.LOCK_NB)
IOError: [Errno 38] Function not implemented

A nicer error message is TBD in future versions of Spack.

Getting Help

spack help

If you don’t find what you need here, the help subcommand will print out out a list of all of spack’s options and subcommands:

$ spack help
usage: spack [-hkV] [--color {always,never,auto}] COMMAND ...

A flexible package manager that supports multiple versions,
configurations, platforms, and compilers.

These are common spack commands:

query packages:
  list                  list and search available packages
  info                  get detailed information on a particular package
  find                  list and search installed packages

build packages:
  install               build and install packages
  uninstall             remove installed packages
  spec                  show what would be installed, given a spec

environment:
  load                  add package to environment using `module load`
  module                manipulate module files
  unload                remove package from environment using `module unload`
  view                  produce a single-rooted directory view of packages

create packages:
  create                create a new package file
  edit                  open package files in $EDITOR

system:
  arch                  print architecture information about this machine
  compilers             list available compilers

optional arguments:
  -h, --help            show this help message and exit
  -k, --insecure        do not check ssl certificates when downloading
  -V, --version         show version number and exit
  --color {always,never,auto}
                        when to colorize output (default: auto)

more help:
  spack help --all       list all commands and options
  spack help <command>   help on a specific command
  spack help --spec      help on the spec syntax
  spack docs             open http://spack.rtfd.io/ in a browser

Adding an argument, e.g. spack help <subcommand>, will print out usage information for a particular subcommand:

$ spack help install
usage: spack install [-hnvy] [--only {package,dependencies}] [-j JOBS] [--overwrite] [--keep-prefix] [--keep-stage]
                     [--dont-restage] [--use-cache] [--show-log-on-error] [--source] [--fake] [-f SPEC_YAML_FILE]
                     [--clean | --dirty] [--test {root,all} | --run-tests] [--log-format {None,cdash,junit}]
                     [--log-file LOG_FILE] [--cdash-upload-url CDASH_UPLOAD_URL]
                     ...

build and install packages

positional arguments:
  package               spec of the package to install

optional arguments:
  -h, --help            show this help message and exit
  --only {package,dependencies}
                        select the mode of installation.
                        the default is to install the package along with all its dependencies.
                        alternatively one can decide to install only the package or only
                        the dependencies
  -j JOBS, --jobs JOBS  explicitely set number of make jobs. default is #cpus
  --overwrite           reinstall an existing spec, even if it has dependents
  --keep-prefix         don't remove the install prefix if installation fails
  --keep-stage          don't remove the build stage if installation succeeds
  --dont-restage        if a partial install is detected, don't delete prior state
  --use-cache           check for pre-built Spack packages in mirrors
  --show-log-on-error   print full build log to stderr if build fails
  --source              install source files in prefix
  -n, --no-checksum     do not use checksums to verify downloadeded files (unsafe)
  -v, --verbose         display verbose build output while installing
  --fake                fake install for debug purposes.
  -f SPEC_YAML_FILE, --file SPEC_YAML_FILE
                        install from file. Read specs to install from .yaml files
  --clean               unset harmful variables in the build environment (default)
  --dirty               preserve user environment in the spack build environment (danger!)
  --test {root,all}     If 'root' is chosen, run package tests during
                        installation for top-level packages (but skip tests for dependencies).
                        if 'all' is chosen, run package tests during installation for all
                        packages. If neither are chosen, don't run tests for any packages.
  --run-tests           run package tests during installation (same as --test=all)
  --log-format {None,cdash,junit}
                        format to be used for log files
  --log-file LOG_FILE   filename for the log file. if not passed a default will be used
  --cdash-upload-url CDASH_UPLOAD_URL
                        CDash URL where reports will be uploaded
  -y, --yes-to-all      assume "yes" is the answer to every confirmation request

Alternately, you can use spack --help in place of spack help, or spack <subcommand> --help to get help on a particular subcommand.