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Jammy Notes
Using PPA ubuntugis-unstable & Ubuntu Universe dot-deb packages, the installation results look roughly like this:
mjam@x10jam:~$ cat /etc/lsb-release
DISTRIB_ID=Ubuntu
DISTRIB_RELEASE=22.04
DISTRIB_CODENAME=jammy
DISTRIB_DESCRIPTION="Ubuntu 22.04 LTS"
#--
libgeos3.10.2 (libgeos3.10.2)
libgdal-dev (3.4.1+dfsg-1build4)
postgresql-14-postgis-3 (3.2.0+dfsg-1~focal0)
PGSQL="140" POSTGIS="3.2.0 c3e3cc0" GEOS="3.10.2-CAPI-1.16.0" PROJ="8.2.1" LIBJSON="0.15"
#--
System:
python: 3.10.4 (main, Apr 2 2022, 09:04:19) [GCC 11.2.0]
executable: /usr/bin/python3
machine: Linux-5.15.0-25-generic-x86_64-with-glibc2.35
Python dependencies:
pip: 22.0.2
setuptools: 59.6.0
sklearn: 0.23.2
numpy: 1.21.5
scipy: 1.8.0
Cython: None
pandas: 1.3.5
matplotlib: 3.5.1
joblib: 0.17.0
threadpoolctl: 3.1.0
Built with OpenMP: True
Jupyter R Install
dbb@x10jam:~$ sudo apt install r-cran-sf Reading package lists... Done Building dependency tree... Done Reading state information... Done The following packages were automatically installed and are no longer required: gstreamer1.0-gtk3 libabsl20210324 libabw-0.1-1 libboost-locale1.74.0 libcdr-0.1-1 libclucene-contribs1v5 libclucene-core1v5 libcolamd2 libe-book-0.1-1 libeot0 libepubgen-0.1-1 libetonyek-0.1-1 libexttextcat-2.0-0 libexttextcat-data libfreehand-0.1-1 liblangtag-common liblangtag1 libmhash2 libmspub-0.1-1 libmwaw-0.3-3 libmythes-1.2-0 libodfgen-0.1-1 liborcus-0.17-0 liborcus-parser-0.17-0 libpagemaker-0.0-0 libraptor2-0 librasqal3 librdf0 librevenge-0.0-0 libsnapd-qt1 libsuitesparseconfig5 libvisio-0.1-1 libwpd-0.10-10 libwpg-0.3-3 libwps-0.4-4 libxmlsec1 libxmlsec1-nss lp-solve xdg-desktop-portal-kde Use 'sudo apt autoremove' to remove them. The following additional packages will be installed: bzip2-doc gfortran gfortran-11 libblas-dev libbz2-dev libc-ares2 libgfortran-11-dev libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery-datatables libjs-jquery-datatables-extensions libjs-jquery-selectize.js libjs-json libjs-microplugin.js libjs-modernizr libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker liblapack-dev libnlopt0 libnode72 libreadline-dev libudunits2-0 libudunits2-data littler node-highlight.js node-html5shiv node-normalize.css nodejs nodejs-doc r-base-core r-base-dev r-cran-abind r-cran-acepack r-cran-askpass r-cran-assertthat r-cran-backports r-cran-base64enc r-cran-bench r-cran-bh r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-boot r-cran-brio r-cran-broom r-cran-cachem r-cran-callr r-cran-caret r-cran-catools r-cran-cba r-cran-checkmate r-cran-chron r-cran-class r-cran-classint r-cran-cli r-cran-cliapp r-cran-cluster r-cran-codetools r-cran-colorspace r-cran-commonmark r-cran-conquer r-cran-covr r-cran-cpp11 r-cran-crayon r-cran-crosstalk r-cran-curl r-cran-cvst r-cran-data.table r-cran-dbi r-cran-dbitest r-cran-dbplyr r-cran-ddalpha r-cran-decor r-cran-deldir r-cran-deoptimr r-cran-desc r-cran-diffobj r-cran-digest r-cran-dimred r-cran-domc r-cran-dplyr r-cran-drr r-cran-dt r-cran-dygraphs r-cran-e1071 r-cran-earth r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastica r-cran-fastmap r-cran-fastmatch r-cran-filehash r-cran-fnn r-cran-fontbitstreamvera r-cran-fontliberation r-cran-fontquiver r-cran-foreach r-cran-foreign r-cran-formula r-cran-fs r-cran-fts r-cran-furrr r-cran-future r-cran-future.apply r-cran-gdata r-cran-generics r-cran-geometry r-cran-geosphere r-cran-ggplot2 r-cran-gh r-cran-gitcreds r-cran-globals r-cran-glue r-cran-goftest r-cran-gower r-cran-gplots r-cran-gridextra r-cran-gtable r-cran-gtools r-cran-hexbin r-cran-highr r-cran-hmisc r-cran-hms r-cran-htmltable r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-httr r-cran-igraph r-cran-ini r-cran-interp r-cran-ipred r-cran-isoband r-cran-iterators r-cran-jpeg r-cran-jsonlite r-cran-kernlab r-cran-kernsmooth r-cran-knitr r-cran-ks r-cran-labeling r-cran-later r-cran-lattice r-cran-latticeextra r-cran-lava r-cran-lazyeval r-cran-lifecycle r-cran-linprog r-cran-listenv r-cran-littler r-cran-lme4 r-cran-lobstr r-cran-logcondens r-cran-lpsolve r-cran-lubridate r-cran-lwgeom r-cran-magic r-cran-magrittr r-cran-mapproj r-cran-maps r-cran-maptools r-cran-markdown r-cran-mass r-cran-matrix r-cran-matrixmodels r-cran-matrixstats r-cran-mclust r-cran-mda r-cran-memoise r-cran-mets r-cran-mgcv r-cran-mime r-cran-minqa r-cran-misc3d r-cran-mlbench r-cran-mlmetrics r-cran-mockery r-cran-mockr r-cran-modeldata r-cran-modelmetrics r-cran-multcomp r-cran-multicool r-cran-munsell r-cran-mvtnorm r-cran-nlme r-cran-nloptr r-cran-nnet r-cran-numderiv r-cran-openssl r-cran-palmerpenguins r-cran-parallelly r-cran-pillar r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plogr r-cran-plot3d r-cran-plotmo r-cran-plotrix r-cran-pls r-cran-plyr r-cran-png r-cran-polyclip r-cran-pracma r-cran-praise r-cran-prettycode r-cran-prettyunits r-cran-proc r-cran-processx r-cran-prodlim r-cran-profmem r-cran-progress r-cran-progressr r-cran-promises r-cran-proxy r-cran-ps r-cran-purrr r-cran-quadprog r-cran-quantmod r-cran-quantreg r-cran-r6 r-cran-ragg r-cran-rann r-cran-rappdirs r-cran-raster r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen r-cran-rcppprogress r-cran-rcpproll r-cran-recipes r-cran-rematch2 r-cran-reshape2 r-cran-rex r-cran-rgdal r-cran-rgl r-cran-rlang r-cran-rmarkdown r-cran-rmysql r-cran-robustbase r-cran-rocr r-cran-rpart r-cran-rpostgresql r-cran-rprojroot r-cran-rsample r-cran-rspectra r-cran-rsqlite r-cran-rstudioapi r-cran-runit r-cran-s2 r-cran-sandwich r-cran-sass r-cran-scales r-cran-selectr r-cran-setrng r-cran-sfsmisc r-cran-shiny r-cran-slider r-cran-sodium r-cran-sourcetools r-cran-sp r-cran-sparsem r-cran-spatial r-cran-spatstat r-cran-spatstat.core r-cran-spatstat.data r-cran-spatstat.geom r-cran-spatstat.linnet r-cran-spatstat.sparse r-cran-spatstat.utils r-cran-squarem r-cran-statmod r-cran-stringi r-cran-stringr r-cran-survival r-cran-svglite r-cran-sys r-cran-systemfonts r-cran-teachingdemos r-cran-tensor r-cran-terra r-cran-testit r-cran-testthat r-cran-textshaping r-cran-th.data r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-tikzdevice r-cran-timedate r-cran-timereg r-cran-timeseries r-cran-tinytex r-cran-tseries r-cran-ttr r-cran-units r-cran-utf8 r-cran-vctrs r-cran-vdiffr r-cran-viridis r-cran-viridislite r-cran-waldo r-cran-warp r-cran-webutils r-cran-withr r-cran-wk r-cran-wkutils r-cran-xfun r-cran-xml r-cran-xml2 r-cran-xtable r-cran-xts r-cran-yaml r-cran-zoo r-doc-html r-recommended ttf-bitstream-vera Suggested packages: gfortran-multilib gfortran-doc gfortran-11-multilib gfortran-11-doc libcoarrays-dev liblapack-doc readline-doc npm elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html texlive-fonts-extra texlive-extra-utils texinfo r-cran-forcats r-cran-ggbeeswarm r-cran-ggridges r-cran-roxygen2 r-cran-aer r-cran-bbmle r-cran-car r-cran-cmprsk r-cran-coda r-cran-emmeans r-cran-epir r-cran-gam r-cran-gee r-cran-geepack r-cran-glmnet r-cran-gmm r-cran-irlba r-cran-lavaan r-cran-leaps r-cran-lmtest r-cran-lsmeans r-cran-metafor r-cran-network r-cran-ordinal r-cran-plm r-cran-psych r-cran-robust r-cran-spdep r-cran-spatialreg r-cran-spelling r-cran-survey r-cran-systemfit r-cran-bradleyterry2 r-cran-ellipse r-cran-party r-cran-randomforest r-cran-gclus r-cran-devtools r-cran-tinytest r-cran-spdata r-cran-whoami r-cran-vcd r-cran-shinyjs r-cran-r.utils r-cran-nanotime r-cran-clipr r-cran-nmf r-cran-rtsne r-cran-energy r-cran-optimx r-cran-pcapp r-cran-reticulate r-cran-scatterplot3d r-cran-vegan r-cran-unitizer r-cran-r.rsp r-bioc-affy r-bioc-biobase r-bioc-limma r-cran-cairo r-cran-readr r-cran-ape r-bioc-graph r-cran-magick r-cran-formatr r-cran-webshot r-cran-fields r-cran-bookdown r-cran-lavasearch2 r-cran-polycor r-cran-tidyverse r-cran-getopt r-cran-mapdata r-cran-rcurl r-cran-ucminf r-cran-cowplot r-cran-tkrplot r-cran-formattable r-cran-gbm r-cran-mlr r-cran-partykit r-cran-rmpi r-cran-doparallel r-cran-itertools r-cran-pbmcapply r-cran-pingr r-cran-ncdf4 r-cran-gstat r-cran-inline r-cran-rvest r-cran-usethis r-cran-tufte r-cran-rsconnect r-cran-gert r-cran-dichromat r-cran-stars r-cran-sm r-cran-gsl r-cran-locfit r-cran-randomfields r-cran-randomfieldsutils r-cran-nleqslv r-cran-tcltk2 r-cran-logspline r-cran-zeallot r-cran-remotes The following NEW packages will be installed: bzip2-doc gfortran gfortran-11 libblas-dev libbz2-dev libc-ares2 libgfortran-11-dev libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery-datatables libjs-jquery-datatables-extensions libjs-jquery-selectize.js libjs-json libjs-microplugin.js libjs-modernizr libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker liblapack-dev libnlopt0 libnode72 libreadline-dev libudunits2-0 libudunits2-data littler node-highlight.js node-html5shiv node-normalize.css nodejs nodejs-doc r-base-core r-base-dev r-cran-abind r-cran-acepack r-cran-askpass r-cran-assertthat r-cran-backports r-cran-base64enc r-cran-bench r-cran-bh r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-boot r-cran-brio r-cran-broom r-cran-cachem r-cran-callr r-cran-caret r-cran-catools r-cran-cba r-cran-checkmate r-cran-chron r-cran-class r-cran-classint r-cran-cli r-cran-cliapp r-cran-cluster r-cran-codetools r-cran-colorspace r-cran-commonmark r-cran-conquer r-cran-covr r-cran-cpp11 r-cran-crayon r-cran-crosstalk r-cran-curl r-cran-cvst r-cran-data.table r-cran-dbi r-cran-dbitest r-cran-dbplyr r-cran-ddalpha r-cran-decor r-cran-deldir r-cran-deoptimr r-cran-desc r-cran-diffobj r-cran-digest r-cran-dimred r-cran-domc r-cran-dplyr r-cran-drr r-cran-dt r-cran-dygraphs r-cran-e1071 r-cran-earth r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastica r-cran-fastmap r-cran-fastmatch r-cran-filehash r-cran-fnn r-cran-fontbitstreamvera r-cran-fontliberation r-cran-fontquiver r-cran-foreach r-cran-foreign r-cran-formula r-cran-fs r-cran-fts r-cran-furrr r-cran-future r-cran-future.apply r-cran-gdata r-cran-generics r-cran-geometry r-cran-geosphere r-cran-ggplot2 r-cran-gh r-cran-gitcreds r-cran-globals r-cran-glue r-cran-goftest r-cran-gower r-cran-gplots r-cran-gridextra r-cran-gtable r-cran-gtools r-cran-hexbin r-cran-highr r-cran-hmisc r-cran-hms r-cran-htmltable r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-httr r-cran-igraph r-cran-ini r-cran-interp r-cran-ipred r-cran-isoband r-cran-iterators r-cran-jpeg r-cran-jsonlite r-cran-kernlab r-cran-kernsmooth r-cran-knitr r-cran-ks r-cran-labeling r-cran-later r-cran-lattice r-cran-latticeextra r-cran-lava r-cran-lazyeval r-cran-lifecycle r-cran-linprog r-cran-listenv r-cran-littler r-cran-lme4 r-cran-lobstr r-cran-logcondens r-cran-lpsolve r-cran-lubridate r-cran-lwgeom r-cran-magic r-cran-magrittr r-cran-mapproj r-cran-maps r-cran-maptools r-cran-markdown r-cran-mass r-cran-matrix r-cran-matrixmodels r-cran-matrixstats r-cran-mclust r-cran-mda r-cran-memoise r-cran-mets r-cran-mgcv r-cran-mime r-cran-minqa r-cran-misc3d r-cran-mlbench r-cran-mlmetrics r-cran-mockery r-cran-mockr r-cran-modeldata r-cran-modelmetrics r-cran-multcomp r-cran-multicool r-cran-munsell r-cran-mvtnorm r-cran-nlme r-cran-nloptr r-cran-nnet r-cran-numderiv r-cran-openssl r-cran-palmerpenguins r-cran-parallelly r-cran-pillar r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plogr r-cran-plot3d r-cran-plotmo r-cran-plotrix r-cran-pls r-cran-plyr r-cran-png r-cran-polyclip r-cran-pracma r-cran-praise r-cran-prettycode r-cran-prettyunits r-cran-proc r-cran-processx r-cran-prodlim r-cran-profmem r-cran-progress r-cran-progressr r-cran-promises r-cran-proxy r-cran-ps r-cran-purrr r-cran-quadprog r-cran-quantmod r-cran-quantreg r-cran-r6 r-cran-ragg r-cran-rann r-cran-rappdirs r-cran-raster r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcppeigen r-cran-rcppprogress r-cran-rcpproll r-cran-recipes r-cran-rematch2 r-cran-reshape2 r-cran-rex r-cran-rgdal r-cran-rgl r-cran-rlang r-cran-rmarkdown r-cran-rmysql r-cran-robustbase r-cran-rocr r-cran-rpart r-cran-rpostgresql r-cran-rprojroot r-cran-rsample r-cran-rspectra r-cran-rsqlite r-cran-rstudioapi r-cran-runit r-cran-s2 r-cran-sandwich r-cran-sass r-cran-scales r-cran-selectr r-cran-setrng r-cran-sf r-cran-sfsmisc r-cran-shiny r-cran-slider r-cran-sodium r-cran-sourcetools r-cran-sp r-cran-sparsem r-cran-spatial r-cran-spatstat r-cran-spatstat.core r-cran-spatstat.data r-cran-spatstat.geom r-cran-spatstat.linnet r-cran-spatstat.sparse r-cran-spatstat.utils r-cran-squarem r-cran-statmod r-cran-stringi r-cran-stringr r-cran-survival r-cran-svglite r-cran-sys r-cran-systemfonts r-cran-teachingdemos r-cran-tensor r-cran-terra r-cran-testit r-cran-testthat r-cran-textshaping r-cran-th.data r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-tikzdevice r-cran-timedate r-cran-timereg r-cran-timeseries r-cran-tinytex r-cran-tseries r-cran-ttr r-cran-units r-cran-utf8 r-cran-vctrs r-cran-vdiffr r-cran-viridis r-cran-viridislite r-cran-waldo r-cran-warp r-cran-webutils r-cran-withr r-cran-wk r-cran-wkutils r-cran-xfun r-cran-xml r-cran-xml2 r-cran-xtable r-cran-xts r-cran-yaml r-cran-zoo r-doc-html r-recommended ttf-bitstream-vera 0 upgraded, 325 newly installed, 0 to remove and 15 not upgraded. Need to get 299 MB of archives. After this operation, 554 MB of additional disk space will be used. Do you want to continue? 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http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 libnode72 amd64 12.22.9~dfsg-1ubuntu3 [10.8 MB] Get:20 http://mirrors.wikimedia.org/ubuntu jammy/main amd64 libreadline-dev amd64 8.1.2-1 [166 kB] Get:21 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 libudunits2-data all 2.2.28-3 [19.0 kB] Get:22 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 libudunits2-0 amd64 2.2.28-3 [50.3 kB] Get:23 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-base-core amd64 4.1.2-1ubuntu2 [26.0 MB] Get:24 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-littler amd64 0.3.15-1 [90.5 kB] Get:25 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 littler all 0.3.15-1 [2,264 B] Get:26 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 nodejs amd64 12.22.9~dfsg-1ubuntu3 [122 kB] Get:27 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 node-highlight.js all 9.18.5+dfsg1-1 [304 kB] Get:28 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 node-html5shiv all 3.7.3+dfsg-4 [13.6 kB] Get:29 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 node-normalize.css all 8.0.1-5 [10.8 kB] Get:30 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 nodejs-doc all 12.22.9~dfsg-1ubuntu3 [2,409 kB] Get:31 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-base-dev all 4.1.2-1ubuntu2 [4,306 B] Get:32 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-abind all 1.4-5-2 [63.6 kB] Get:33 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-acepack amd64 1.4.1-2build3 [59.4 kB] Get:34 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-sys amd64 3.4-1 [43.0 kB] Get:35 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-askpass amd64 1.1-2 [22.4 kB] Get:36 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-assertthat all 0.2.1-2build1 [56.5 kB] Get:37 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-backports amd64 1.4.1-1 [101 kB] Get:38 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-base64enc amd64 0.1-3-3 [27.6 kB] Get:39 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-glue amd64 1.6.1-1 [150 kB] Get:40 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-cli amd64 3.2.0-1 [1,120 kB] Get:41 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-crayon all 1.5.0-1 [162 kB] Get:42 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rlang amd64 1.0.1-1 [1,557 kB] Get:43 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-ellipsis amd64 0.3.2-2 [35.6 kB] Get:44 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-fansi amd64 1.0.2-1 [618 kB] Get:45 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-lifecycle all 1.0.1-1 [105 kB] Get:46 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-utf8 amd64 1.2.2-1 [142 kB] Get:47 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-vctrs amd64 0.3.8-2 [1,080 kB] Get:48 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-pillar all 1.7.0+dfsg-1 [439 kB] Get:49 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-profmem all 0.6.0+dfsg-1 [46.5 kB] Get:50 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-magrittr amd64 2.0.2-1 [156 kB] Get:51 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB] Get:52 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-tibble amd64 3.1.6+dfsg-1 [452 kB] Get:53 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-bench amd64 1.1.2-1 [264 kB] Get:54 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-bh all 1.74.0-2 [5,564 B] Get:55 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-bit amd64 4.0.4+dfsg-1 [423 kB] Get:56 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-bit64 amd64 4.0.5-1 [465 kB] Get:57 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-bitops amd64 1.0-7-1 [29.8 kB] Get:58 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-blob all 1.2.2-1 [50.1 kB] Get:59 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-boot all 1.3-28-2 [618 kB] Get:60 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-brio amd64 1.1.3-1 [36.1 kB] Get:61 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-generics all 0.1.2-1 [80.4 kB] Get:62 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-r6 all 2.5.1-1 [99.0 kB] Get:63 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-purrr amd64 0.3.4-1build1 [397 kB] Get:64 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-tidyselect amd64 1.1.2+dfsg-1 [194 kB] Get:65 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-dplyr amd64 1.0.8-2 [1,197 kB] Get:66 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-stringi amd64 1.7.6-1build1 [823 kB] Get:67 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-stringr all 1.4.0-2build1 [192 kB] Get:68 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-cpp11 all 0.4.2-1 [234 kB] Get:69 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-tidyr amd64 1.2.0-1 [846 kB] Get:70 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-digest amd64 0.6.29-1 [186 kB] Get:71 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-gtable all 0.3.0+dfsg-2build1 [138 kB] Get:72 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-isoband amd64 0.2.5-1 [1,685 kB] Get:73 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mass amd64 7.3-55-1 [1,116 kB] Get:74 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-lattice amd64 0.20-45-1 [1,130 kB] Get:75 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-nlme amd64 3.1.155-1 [2,235 kB] Get:76 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-matrix amd64 1.4-0-1 [4,305 kB] Get:77 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mgcv amd64 1.8-39-1 [2,994 kB] Get:78 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-farver amd64 2.1.0-1 [1,329 kB] Get:79 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-labeling all 0.4.2-1 [62.6 kB] Get:80 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-colorspace amd64 2.0-2+dfsg-1 [1,542 kB] Get:81 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-munsell all 0.5.0-2build1 [208 kB] Get:82 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rcolorbrewer all 1.1-2-3 [54.6 kB] Get:83 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-viridislite all 0.4.0-2 [1,087 kB] Get:84 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-scales all 1.1.1-1build1 [486 kB] Get:85 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-withr all 2.4.3-2 [207 kB] Get:86 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-ggplot2 all 3.3.5+dfsg-2 [3,229 kB] Get:87 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-broom all 0.7.12+dfsg-1 [1,682 kB] Get:88 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-fastmap amd64 1.1.0-1 [64.8 kB] Get:89 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-cachem amd64 1.0.6-1 [70.5 kB] Get:90 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-ps amd64 1.6.0-1 [290 kB] Get:91 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-processx amd64 3.5.2-2 [327 kB] Get:92 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-callr all 3.7.0-1 [438 kB] Get:93 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-class amd64 7.3-20-1 [87.9 kB] Get:94 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-proxy amd64 0.4-26-1 [226 kB] Get:95 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-e1071 amd64 1.7-9-1 [814 kB] Get:96 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-codetools all 0.2-18-1 [90.8 kB] Get:97 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-iterators all 1.0.14-1 [336 kB] Get:98 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-foreach all 1.5.2-1 [124 kB] Get:99 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-pkgkitten all 0.2.2-2 [25.3 kB] Get:100 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rcpp amd64 1.0.8-1 [2,008 kB] Get:101 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-data.table amd64 1.14.2+dfsg-1 [1,743 kB] Get:102 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-modelmetrics amd64 1.2.2.2-1build1 [128 kB] Get:103 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-plyr amd64 1.8.6-2build1 [830 kB] Get:104 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-proc amd64 1.18.0-1 [951 kB] Get:105 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-gower amd64 1.0.0-1 [158 kB] Get:106 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-survival amd64 3.2-13-1 [6,579 kB] Get:107 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rpart amd64 4.1.16-1 [892 kB] Get:108 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-nnet amd64 7.3-17-1 [112 kB] Get:109 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-kernsmooth amd64 2.23-20-1 [90.3 kB] Get:110 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-globals all 0.14.0-1 [105 kB] Get:111 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-listenv all 0.8.0+dfsg-1build1 [106 kB] Get:112 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-parallelly all 1.30.0-1 [290 kB] Get:113 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-future all 1.24.0+dfsg-1 [629 kB] Get:114 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-future.apply all 1.8.1-1 [164 kB] Get:115 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-progressr all 0.10.0-1 [267 kB] Get:116 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-numderiv all 2016.8-1.1-3 [115 kB] Get:117 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-squarem all 2021.1-1 [179 kB] Get:118 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-lava all 1.6.10+dfsg-1 [2,158 kB] Get:119 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-prodlim amd64 2019.11.13-1build1 [395 kB] Get:120 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-ipred amd64 0.9-12-1 [387 kB] Get:121 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-lubridate amd64 1.8.0+dfsg-1 [1,026 kB] Get:122 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-timedate amd64 3043.102-1build2 [1,446 kB] Get:123 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-recipes all 0.1.17+dfsg-1 [1,388 kB] Get:124 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-reshape2 amd64 1.4.4-2build1 [114 kB] Get:125 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-caret amd64 6.0-90+dfsg-1 [3,438 kB] Get:126 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-catools amd64 1.18.2-1 [201 kB] Get:127 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-cba amd64 0.2-21-2 [250 kB] Get:128 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-checkmate amd64 2.0.0-1build1 [601 kB] Get:129 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-chron amd64 2.3-56-1 [188 kB] Get:130 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-classint amd64 0.4-3-1build1 [433 kB] Get:131 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-prettycode all 1.1.0-2build1 [168 kB] Get:132 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-hms all 1.1.1-1 [96.3 kB] Get:133 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-prettyunits all 1.1.1-2build1 [39.6 kB] Get:134 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-progress all 1.2.2-2build1 [88.9 kB] Get:135 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-selectr all 0.4-2-2build1 [416 kB] Get:136 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-xml2 amd64 1.3.3-1 [283 kB] Get:137 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-cliapp all 0.1.1-1 [213 kB] Get:138 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-cluster amd64 2.1.2-2 [541 kB] Get:139 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-commonmark amd64 1.7-2 [111 kB] Get:140 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-matrixstats amd64 0.61.0-1 [467 kB] Get:141 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rcpparmadillo amd64 0.10.8.1.0-1 [840 kB] Get:142 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-conquer amd64 1.2.2-1 [252 kB] Get:143 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-jsonlite amd64 1.7.3+dfsg-1 [449 kB] Get:144 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-lazyeval amd64 0.2.2-1build1 [144 kB] Get:145 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rex all 1.2.1-1 [129 kB] Get:146 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-curl amd64 4.3.2+dfsg-1 [155 kB] Get:147 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mime amd64 0.12-1 [35.8 kB] Get:148 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-openssl amd64 1.4.6+dfsg-1ubuntu1 [389 kB] Get:149 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-httr all 1.4.2-1 [478 kB] Get:150 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-yaml amd64 2.3.5-1 [108 kB] Get:151 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-covr amd64 3.5.1+dfsg-2 [260 kB] Get:152 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-htmltools amd64 0.5.2-1 [348 kB] Get:153 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-later amd64 1.3.0+dfsg-1 [109 kB] Get:154 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-promises amd64 1.2.0.1+dfsg-1 [273 kB] Get:155 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-httpuv amd64 1.6.5+dfsg-1 [499 kB] Get:156 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-xtable all 1:1.8-4-2 [689 kB] Get:157 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-sourcetools amd64 0.1.7-3 [45.4 kB] Get:158 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB] Get:159 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-shiny all 1.5.0+dfsg-2 [3,549 kB] Get:160 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-crosstalk all 1.2.0+dfsg-1 [175 kB] Get:161 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-kernlab amd64 0.9-29-1build2 [2,064 kB] Get:162 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-cvst all 0.2-2-3build1 [86.9 kB] Get:163 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-dbi all 1.1.2-1 [670 kB] Get:164 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rprojroot all 2.0.2-1 [114 kB] Get:165 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-desc all 1.4.0+dfsg-1 [337 kB] Get:166 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-palmerpenguins all 0.1.0-2 [1,927 kB] Get:167 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-evaluate all 0.15-1 [85.1 kB] Get:168 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rstudioapi all 0.13-1 [256 kB] Get:169 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-pkgload all 1.2.4-1 [176 kB] Get:170 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-praise all 1.0.0-4build1 [20.3 kB] Get:171 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-diffobj amd64 0.3.5-1 [1,117 kB] Get:172 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rematch2 all 2.1.2-2build1 [46.5 kB] Get:173 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-waldo all 0.3.1-1 [108 kB] Get:174 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-testthat amd64 3.1.2-1 [1,553 kB] Get:175 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-dbitest all 1.7.2-1 [1,052 kB] Get:176 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-dbplyr all 2.1.1-1 [802 kB] Get:177 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-deoptimr all 1.0-10-1 [42.3 kB] Get:178 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-robustbase amd64 0.93-9-1 [2,978 kB] Get:179 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-sfsmisc all 1.1-12-1 [645 kB] Get:180 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-magic all 1.6-0-1 [389 kB] Get:181 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-lpsolve amd64 5.6.15-1build1 [316 kB] Get:182 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-linprog amd64 0.9-2-2 [74.8 kB] Get:183 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rcppprogress all 0.4.2-2build1 [22.0 kB] Get:184 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-geometry amd64 0.4.5-1build2 [727 kB] Get:185 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-ddalpha amd64 1.3.11-1build2 [1,188 kB] Get:186 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-decor amd64 1.0.1-1 [30.7 kB] Get:187 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-deldir amd64 1.0-6-1 [265 kB] Get:188 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-drr all 0.0.4-2build1 [146 kB] Get:189 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-dimred amd64 0.2.4-1 [1,541 kB] Get:190 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-domc all 1.3.8-1 [168 kB] Get:191 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-htmlwidgets all 1.5.4+dfsg-1 [125 kB] Get:192 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-dt all 0.17+dfsg-3 [208 kB] Get:193 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-zoo amd64 1.8-9-1 [990 kB] Get:194 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-xts amd64 0.12.1-1 [861 kB] Get:195 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-dygraphs all 1.1.1.6+dfsg-2build1 [294 kB] Get:196 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-formula all 1.2-4-1 [175 kB] Get:197 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-plotrix all 3.8-2-1 [1,120 kB] Get:198 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-teachingdemos all 2.12-2 [1,226 kB] Get:199 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-plotmo all 3.6.1-1 [1,507 kB] Get:200 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-earth amd64 5.3.1-1 [1,912 kB] Get:201 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-fastica amd64 1.2-3-1 [42.5 kB] Get:202 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-fastmatch amd64 1.1-3-1 [34.7 kB] Get:203 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-filehash amd64 2.4-2-3 [342 kB] Get:204 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-fnn amd64 1.1.3-2 [119 kB] Get:205 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 ttf-bitstream-vera all 1.10-8.2 [244 kB] Get:206 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-fontbitstreamvera all 0.1.1+dfsg-4build1 [327 kB] Get:207 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-fontliberation all 0.1.0+dfsg-4build1 [2,263 kB] Get:208 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-fontquiver all 0.2.1-3build1 [2,130 kB] Get:209 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-foreign amd64 0.8.82-1 [244 kB] Get:210 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-fs amd64 1.5.2+dfsg-1 [228 kB] Get:211 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-fts amd64 0.9.9.2-2 [177 kB] Get:212 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-furrr all 0.2.3-1 [752 kB] Get:213 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-gtools amd64 3.9.2-2 [337 kB] Get:214 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-gdata all 2.18.0-3build1 [1,015 kB] Get:215 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-sp amd64 1:1.4-6-1 [2,118 kB] Get:216 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-geosphere amd64 1.5-14-1 [961 kB] Get:217 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-gitcreds all 0.1.1-2 [89.6 kB] Get:218 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-ini all 0.3.1-2build1 [15.8 kB] Get:219 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-gh all 1.3.0-1 [143 kB] Get:220 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-goftest amd64 1.2-3-1 [59.5 kB] Get:221 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-gplots all 3.1.1-2 [590 kB] Get:222 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-gridextra all 2.3-3build1 [1,024 kB] Get:223 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-hexbin amd64 1.28.2-1 [1,441 kB] Get:224 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-xfun amd64 0.29-1 [382 kB] Get:225 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-highr all 0.9+dfsg-1 [38.8 kB] Get:226 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-png amd64 0.1-7-4 [39.7 kB] Get:227 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-jpeg amd64 0.1-9-1 [31.3 kB] Get:228 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-latticeextra all 0.6-29-3build1 [2,191 kB] Get:229 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-knitr all 1.37+dfsg-1 [861 kB] Get:230 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-htmltable all 2.4.0-1 [383 kB] Get:231 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-viridis all 0.6.2-1 [2,759 kB] Get:232 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-hmisc amd64 4.6-0-1 [3,212 kB] Get:233 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-igraph amd64 1.2.11-1 [3,459 kB] Get:234 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rcppeigen amd64 0.3.3.9.1-1 [1,341 kB] Get:235 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-interp amd64 1.0-33-1build2 [336 kB] Get:236 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mclust amd64 5.4.9-1 [3,907 kB] Get:237 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-multicool amd64 0.1-12-1 [93.0 kB] Get:238 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mvtnorm amd64 1.1-3-1 [223 kB] Get:239 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rgl amd64 0.108.3-1 [3,121 kB] Get:240 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-misc3d all 0.9-1-1 [239 kB] Get:241 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-plot3d all 1.4-2 [2,778 kB] Get:242 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-pracma all 2.3.6-1 [1,684 kB] Get:243 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-ks amd64 1.13.3-1 [1,807 kB] Get:244 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-minqa amd64 1.2.4-1build4 [109 kB] Get:245 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 libnlopt0 amd64 2.7.1-3build1 [184 kB] Get:246 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-nloptr amd64 2.0.0-1 [386 kB] Get:247 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-statmod amd64 1.4.36-1 [257 kB] Get:248 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-lme4 amd64 1.1-28-1 [4,460 kB] Get:249 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-lobstr amd64 1.1.1-2 [128 kB] Get:250 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-logcondens all 2.1.6-1 [757 kB] Get:251 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-units amd64 0.8-0+dfsg-1 [264 kB] Get:252 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-wk amd64 0.6.0-1 [420 kB] Get:253 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-s2 amd64 1.0.7-3build1 [1,922 kB] Get:254 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-sf amd64 1.0-6+dfsg-1 [2,985 kB] Get:255 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-lwgeom amd64 0.2-8-1build1 [395 kB] Get:256 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-maps amd64 3.4.0-1 [2,390 kB] Get:257 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mapproj amd64 1.2.8-1 [55.8 kB] Get:258 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-maptools amd64 1:1.1-2+dfsg-1 [1,658 kB] Get:259 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-markdown amd64 1.1+dfsg-1build1 [125 kB] Get:260 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-matrixmodels all 0.5-0-1 [380 kB] Get:261 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mda amd64 0.5-2-1 [724 kB] Get:262 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-memoise all 2.0.1-1 [53.9 kB] Get:263 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-timereg amd64 2.0.1-1 [1,065 kB] Get:264 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mets amd64 1.2.9+dfsg-1 [3,320 kB] Get:265 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mlbench amd64 2.1-3-1 [1,050 kB] Get:266 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rocr all 1.0-11-2build1 [446 kB] Get:267 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mlmetrics all 1.1.1-3build1 [72.9 kB] Get:268 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mockery all 0.4.3+dfsg-1 [41.0 kB] Get:269 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-mockr all 0.1-3build1 [24.5 kB] Get:270 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-modeldata all 0.1.1-1 [5,018 kB] Get:271 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-th.data all 1.1-0-1 [8,782 kB] Get:272 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-sandwich all 3.0-1-2 [1,472 kB] Get:273 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-multcomp all 1.4-18-1 [700 kB] Get:274 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-pkgbuild all 1.3.1-1 [151 kB] Get:275 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-plogr all 0.2.0-3build1 [15.1 kB] Get:276 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-pls all 2.8-0-1 [4,845 kB] Get:277 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-polyclip amd64 1.10-0-2 [108 kB] Get:278 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-quadprog amd64 1.5-8-1build1 [30.9 kB] Get:279 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-ttr amd64 0.24.3-1 [508 kB] Get:280 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-quantmod all 0.4.18-1 [1,007 kB] Get:281 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-sparsem amd64 1.81-1 [905 kB] Get:282 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-quantreg amd64 5.88-1 [1,524 kB] Get:283 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-systemfonts amd64 1.0.4-1 [238 kB] Get:284 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-textshaping amd64 0.3.6-1 [92.5 kB] Get:285 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-ragg amd64 1.2.1-1 [393 kB] Get:286 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rann amd64 2.6.1-1build2 [41.9 kB] Get:287 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rappdirs amd64 0.3.3-1 [47.5 kB] Get:288 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-terra amd64 1.5-21-2 [2,788 kB] Get:289 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-raster amd64 3.5-15-1 [3,119 kB] Get:290 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rcpproll amd64 0.3.0-2 [86.9 kB] Get:291 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rgdal amd64 1.5-28+dfsg-1 [2,644 kB] Get:292 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-tinytex all 0.37-1 [130 kB] Get:293 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 libjs-modernizr all 2.6.2+ds1-4 [47.1 kB] Get:294 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rmarkdown all 2.6+dfsg-1 [2,149 kB] Get:295 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rmysql amd64 0.10.23-1 [276 kB] Get:296 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rpostgresql amd64 0.7-3+dfsg-1 [367 kB] Get:297 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-warp amd64 0.2.0-1 [70.1 kB] Get:298 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-slider amd64 0.2.2-1 [304 kB] Get:299 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rsample all 0.1.1-1 [420 kB] Get:300 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rspectra amd64 0.16-0-1build2 [397 kB] Get:301 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-rsqlite amd64 2.2.9-1 [1,116 kB] Get:302 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-runit all 0.4.32-3 [283 kB] Get:303 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-sass amd64 0.4.0+dfsg-1 [888 kB] Get:304 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-setrng all 2013.9-1-3 [85.5 kB] Get:305 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-sodium amd64 1.2.0-1 [287 kB] Get:306 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-spatial amd64 7.3-15-1 [132 kB] Get:307 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-spatstat.utils amd64 2.3-0-1 [344 kB] Get:308 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-spatstat.data all 2.1-2-1 [4,037 kB] Get:309 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-spatstat.geom amd64 2.3-2-1 [3,705 kB] Get:310 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-tensor all 1.5-4 [15.7 kB] Get:311 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-spatstat.sparse amd64 2.1-0-1 [211 kB] Get:312 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-spatstat.core amd64 2.3-2-1 [6,717 kB] Get:313 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-spatstat.linnet amd64 2.3-1-1 [1,274 kB] Get:314 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-spatstat amd64 2.3-0-1 [3,460 kB] Get:315 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-svglite amd64 2.1.0-1 [173 kB] Get:316 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-testit all 0.13-1 [35.0 kB] Get:317 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-tikzdevice amd64 0.12.3.1-2 [1,064 kB] Get:318 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-timeseries all 3062.100-2build1 [1,797 kB] Get:319 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-tseries amd64 0.10-49-1 [370 kB] Get:320 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-vdiffr amd64 1.0.2-1 [147 kB] Get:321 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-webutils amd64 1.1-1build1 [48.1 kB] Get:322 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-wkutils amd64 0.1.1-1 [284 kB] Get:323 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-cran-xml amd64 3.99-0.9-1 [1,706 kB] Get:324 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-doc-html all 4.1.2-1ubuntu2 [557 kB] Get:325 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 r-recommended all 4.1.2-1ubuntu2 [2,624 B] Fetched 299 MB in 12min 45s (391 kB/s) Extracting templates from packages: 100% Selecting previously unselected package bzip2-doc. (Reading database ... 438665 files and directories currently installed.) Preparing to unpack .../000-bzip2-doc_1.0.8-5build1_all.deb ... Unpacking bzip2-doc (1.0.8-5build1) ... Selecting previously unselected package libgfortran-11-dev:amd64. Preparing to unpack .../001-libgfortran-11-dev_11.2.0-19ubuntu1_amd64.deb ... Unpacking libgfortran-11-dev:amd64 (11.2.0-19ubuntu1) ... Selecting previously unselected package gfortran-11. Preparing to unpack .../002-gfortran-11_11.2.0-19ubuntu1_amd64.deb ... Unpacking gfortran-11 (11.2.0-19ubuntu1) ... Selecting previously unselected package gfortran. Preparing to unpack .../003-gfortran_4%3a11.2.0-1ubuntu1_amd64.deb ... Unpacking gfortran (4:11.2.0-1ubuntu1) ... Selecting previously unselected package libblas-dev:amd64. Preparing to unpack .../004-libblas-dev_3.10.0-2ubuntu1_amd64.deb ... Unpacking libblas-dev:amd64 (3.10.0-2ubuntu1) ... Selecting previously unselected package libbz2-dev:amd64. Preparing to unpack .../005-libbz2-dev_1.0.8-5build1_amd64.deb ... Unpacking libbz2-dev:amd64 (1.0.8-5build1) ... Selecting previously unselected package libjs-d3. Preparing to unpack .../006-libjs-d3_3.5.17-4_all.deb ... Unpacking libjs-d3 (3.5.17-4) ... Selecting previously unselected package libjs-es5-shim. Preparing to unpack .../007-libjs-es5-shim_4.6.4-1_all.deb ... Unpacking libjs-es5-shim (4.6.4-1) ... Selecting previously unselected package libjs-highlight.js. Preparing to unpack .../008-libjs-highlight.js_9.18.5+dfsg1-1_all.deb ... Unpacking libjs-highlight.js (9.18.5+dfsg1-1) ... Selecting previously unselected package libjs-jquery-datatables. Preparing to unpack .../009-libjs-jquery-datatables_1.11.4+dfsg-1_all.deb ... Unpacking libjs-jquery-datatables (1.11.4+dfsg-1) ... Selecting previously unselected package libjs-jquery-datatables-extensions. Preparing to unpack .../010-libjs-jquery-datatables-extensions_0.0+git20150910.28fd64e+dfsg-5_all.deb ... Unpacking libjs-jquery-datatables-extensions (0.0+git20150910.28fd64e+dfsg-5) ... Selecting previously unselected package libjs-sifter.js. Preparing to unpack .../011-libjs-sifter.js_0.6.0+dfsg-2_all.deb ... Unpacking libjs-sifter.js (0.6.0+dfsg-2) ... Selecting previously unselected package libjs-microplugin.js. Preparing to unpack .../012-libjs-microplugin.js_0.0.3+dfsg-1.1_all.deb ... Unpacking libjs-microplugin.js (0.0.3+dfsg-1.1) ... Selecting previously unselected package libjs-jquery-selectize.js. Preparing to unpack .../013-libjs-jquery-selectize.js_0.12.6+dfsg-1.1_all.deb ... Unpacking libjs-jquery-selectize.js (0.12.6+dfsg-1.1) ... Selecting previously unselected package libjs-json. Preparing to unpack .../014-libjs-json_0~20210531+~1.0.8-1_all.deb ... Unpacking libjs-json (0~20210531+~1.0.8-1) ... Selecting previously unselected package libjs-prettify. Preparing to unpack .../015-libjs-prettify_2015.12.04+dfsg-1.1_all.deb ... 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Setting up r-cran-lazyeval (0.2.2-1build1) ... Setting up r-cran-lpsolve (5.6.15-1build1) ... Setting up r-cran-wk (0.6.0-1) ... Setting up r-cran-commonmark (1.7-2) ... Setting up r-cran-proxy (0.4-26-1) ... Setting up r-cran-r6 (2.5.1-1) ... Setting up r-cran-pkgkitten (0.2.2-2) ... Setting up r-cran-jpeg (0.1-9-1) ... Setting up r-cran-chron (2.3-56-1) ... Setting up r-cran-numderiv (2016.8-1.1-3) ... Setting up node-normalize.css (8.0.1-5) ... Setting up r-cran-magrittr (2.0.2-1) ... Setting up r-cran-testit (0.13-1) ... Setting up r-cran-rappdirs (0.3.3-1) ... Setting up libblas-dev:amd64 (3.10.0-2ubuntu1) ... Setting up r-cran-quadprog (1.5-8-1build1) ... Setting up libbz2-dev:amd64 (1.0.8-5build1) ... Setting up libjs-jquery-selectize.js (0.12.6+dfsg-1.1) ... Setting up libjs-jquery-datatables-extensions (0.0+git20150910.28fd64e+dfsg-5) ... Setting up r-cran-littler (0.3.15-1) ... Setting up r-cran-prettycode (1.1.0-2build1) ... Setting up r-cran-fs (1.5.2+dfsg-1) ... Setting up r-cran-filehash (2.4-2-3) ... Setting up r-cran-rcpp (1.0.8-1) ... Setting up r-cran-palmerpenguins (0.1.0-2) ... Setting up r-cran-curl (4.3.2+dfsg-1) ... Setting up r-cran-profmem (0.6.0+dfsg-1) ... Setting up r-cran-codetools (0.2-18-1) ... Setting up r-cran-brio (1.1.3-1) ... Setting up r-cran-boot (1.3-28-2) ... Setting up r-cran-diffobj (0.3.5-1) ... Setting up r-cran-maps (3.4.0-1) ... Setting up r-cran-rlang (1.0.1-1) ... Setting up r-cran-matrixstats (0.61.0-1) ... Setting up r-cran-listenv (0.8.0+dfsg-1build1) ... Setting up r-cran-assertthat (0.2.1-2build1) ... Setting up littler (0.3.15-1) ... Setting up r-cran-multicool (0.1-12-1) ... Setting up r-cran-pracma (2.3.6-1) ... Setting up r-cran-xfun (0.29-1) ... Setting up r-cran-sys (3.4-1) ... Setting up r-cran-deoptimr (1.0-10-1) ... Setting up r-cran-plogr (0.2.0-3build1) ... Setting up r-cran-withr (2.4.3-2) ... Setting up r-cran-backports (1.4.1-1) ... Setting up r-cran-processx (3.5.2-2) ... Setting up r-cran-mime (0.12-1) ... Setting up r-cran-praise (1.0.0-4build1) ... Setting up r-cran-generics (0.1.2-1) ... Setting up r-cran-base64enc (0.1-3-3) ... Setting up r-cran-iterators (1.0.14-1) ... Setting up r-cran-spatial (7.3-15-1) ... Setting up r-cran-fontliberation (0.1.0+dfsg-4build1) ... Setting up r-cran-abind (1.4-5-2) ... Setting up r-cran-s2 (1.0.7-3build1) ... Setting up r-cran-digest (0.6.29-1) ... Setting up r-cran-sfsmisc (1.1-12-1) ... Setting up r-cran-yaml (2.3.5-1) ... Setting up r-cran-xml2 (1.3.3-1) ... Setting up r-cran-rann (2.6.1-1build2) ... Setting up r-cran-gower (1.0.0-1) ... Setting up r-cran-evaluate (0.15-1) ... Setting up r-cran-dbi (1.1.2-1) ... Setting up r-cran-timedate (3043.102-1build2) ... Setting up r-cran-highr (0.9+dfsg-1) ... Setting up r-cran-foreach (1.5.2-1) ... Setting up r-cran-prettyunits (1.1.1-2build1) ... Setting up r-cran-fansi (1.0.2-1) ... Setting up r-cran-fastica (1.2-3-1) ... Setting up r-cran-mass (7.3-55-1) ... Setting up r-cran-mockr (0.1-3build1) ... Setting up r-cran-checkmate (2.0.0-1build1) ... Setting up r-cran-acepack (1.4.1-2build3) ... Setting up r-cran-mclust (5.4.9-1) ... Setting up r-cran-setrng (2013.9-1-3) ... Setting up r-cran-modeldata (0.1.1-1) ... Setting up r-cran-gtools (3.9.2-2) ... Setting up r-cran-kernlab (0.9-29-1build2) ... Setting up r-cran-data.table (1.14.2+dfsg-1) ... Setting up r-cran-glue (1.6.1-1) ... Setting up r-cran-foreign (0.8.82-1) ... Setting up nodejs (12.22.9~dfsg-1ubuntu3) ... update-alternatives: using /usr/bin/nodejs to provide /usr/bin/js (js) in auto mode Setting up r-cran-bit (4.0.4+dfsg-1) ... Setting up r-cran-xtable (1:1.8-4-2) ... Setting up r-cran-polyclip (1.10-0-2) ... Setting up r-cran-cli (3.2.0-1) ... Setting up gfortran (4:11.2.0-1ubuntu1) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up r-cran-lifecycle (1.0.1-1) ... Setting up r-cran-bitops (1.0-7-1) ... Setting up r-cran-rprojroot (2.0.2-1) ... Setting up r-cran-fnn (1.1.3-2) ... Setting up r-cran-mlbench (2.1-3-1) ... Setting up r-cran-bit64 (4.0.5-1) ... Setting up r-cran-progressr (0.10.0-1) ... Setting up r-cran-deldir (1.0-6-1) ... Setting up r-cran-goftest (1.2-3-1) ... Setting up r-cran-askpass (1.1-2) ... Setting up r-cran-fastmap (1.1.0-1) ... Setting up r-cran-png (0.1-7-4) ... Setting up r-cran-sodium (1.2.0-1) ... Setting up r-cran-jsonlite (1.7.3+dfsg-1) ... Setting up r-cran-rstudioapi (0.13-1) ... Setting up r-cran-pkgconfig (2.0.3-2build1) ... Setting up r-cran-mapproj (1.2.8-1) ... Setting up r-cran-linprog (0.9-2-2) ... Setting up r-cran-sp (1:1.4-6-1) ... Setting up r-cran-utf8 (1.2.2-1) ... Setting up r-cran-colorspace (2.0-2+dfsg-1) ... Setting up r-cran-parallelly (1.30.0-1) ... Setting up r-cran-warp (0.2.0-1) ... Setting up r-cran-stringi (1.7.6-1build1) ... Setting up r-cran-rex (1.2.1-1) ... Setting up r-cran-markdown (1.1+dfsg-1build1) ... Setting up r-cran-gitcreds (0.1.1-2) ... Setting up r-cran-plotrix (3.8-2-1) ... Setting up r-cran-cpp11 (0.4.2-1) ... Setting up r-cran-mvtnorm (1.1-3-1) ... Setting up r-cran-plyr (1.8.6-2build1) ... Setting up r-cran-rcolorbrewer (1.1-2-3) ... Setting up r-cran-ini (0.3.1-2build1) ... Setting up r-cran-isoband (0.2.5-1) ... Setting up r-cran-runit (0.4.32-3) ... Setting up r-cran-teachingdemos (2.12-2) ... Setting up r-cran-gridextra (2.3-3build1) ... Setting up r-cran-purrr (0.3.4-1build1) ... Setting up r-cran-rmysql (0.10.23-1) ... Setting up r-cran-terra (1.5-21-2) ... Setting up r-cran-zoo (1.8-9-1) ... Setting up r-cran-geosphere (1.5-14-1) ... Setting up r-cran-later (1.3.0+dfsg-1) ... Setting up r-cran-matrix (1.4-0-1) ... Setting up r-cran-spatstat.sparse (2.1-0-1) ... Setting up r-cran-magic (1.6-0-1) ... Setting up r-cran-htmltools (0.5.2-1) ... Setting up r-cran-tinytex (0.37-1) ... Setting up nodejs-doc (12.22.9~dfsg-1ubuntu3) ... Setting up r-cran-kernsmooth (2.23-20-1) ... Setting up r-cran-cba (0.2-21-2) ... Setting up r-cran-mgcv (1.8-39-1) ... Setting up r-cran-plotmo (3.6.1-1) ... Setting up r-cran-robustbase (0.93-9-1) ... Setting up r-cran-rpostgresql (0.7-3+dfsg-1) ... Setting up r-cran-domc (1.3.8-1) ... Setting up r-cran-lobstr (1.1.1-2) ... Setting up r-cran-tikzdevice (0.12.3.1-2) ... Setting up r-cran-cachem (1.0.6-1) ... Setting up r-cran-sass (0.4.0+dfsg-1) ... Setting up r-cran-rcpproll (0.3.0-2) ... Setting up r-cran-catools (1.18.2-1) ... Setting up r-cran-rcpparmadillo (0.10.8.1.0-1) ... Setting up r-cran-cvst (0.2-2-3build1) ... Setting up r-cran-globals (0.14.0-1) ... Setting up r-cran-maptools (1:1.1-2+dfsg-1) ... Setting up r-cran-gdata (2.18.0-3build1) ... Setting up r-cran-webutils (1.1-1build1) ... Setting up r-cran-rcppeigen (0.3.3.9.1-1) ... Setting up r-cran-fontquiver (0.2.1-3build1) ... Setting up r-cran-ellipsis (0.3.2-2) ... Setting up r-cran-minqa (1.2.4-1build4) ... Setting up r-cran-lubridate (1.8.0+dfsg-1) ... Setting up r-cran-openssl (1.4.6+dfsg-1ubuntu1) ... Setting up node-highlight.js (9.18.5+dfsg1-1) ... Setting up r-base-dev (4.1.2-1ubuntu2) ... Setting up r-cran-stringr (1.4.0-2build1) ... Setting up r-cran-class (7.3-20-1) ... Setting up r-cran-modelmetrics (1.2.2.2-1build1) ... Setting up r-cran-callr (3.7.0-1) ... Setting up r-cran-selectr (0.4-2-2build1) ... Setting up r-cran-matrixmodels (0.5-0-1) ... Setting up r-cran-desc (1.4.0+dfsg-1) ... Setting up r-cran-timeseries (3062.100-2build1) ... Setting up r-cran-mda (0.5-2-1) ... Setting up r-cran-munsell (0.5.0-2build1) ... Setting up r-cran-sandwich (3.0-1-2) ... Setting up r-cran-proc (1.18.0-1) ... Setting up r-cran-survival (3.2-13-1) ... Setting up r-cran-igraph (1.2.11-1) ... Setting up r-cran-xts (0.12.1-1) ... Setting up r-cran-latticeextra (0.6-29-3build1) ... Setting up r-cran-future (1.24.0+dfsg-1) ... Setting up r-cran-geometry (0.4.5-1build2) ... Setting up r-cran-htmlwidgets (1.5.4+dfsg-1) ... Setting up r-cran-reshape2 (1.4.4-2build1) ... Setting up r-cran-interp (1.0-33-1build2) ... Setting up r-cran-future.apply (1.8.1-1) ... Setting up r-cran-raster (3.5-15-1) ... Setting up r-cran-fts (0.9.9.2-2) ... Setting up r-cran-rgdal (1.5-28+dfsg-1) ... Setting up r-cran-systemfonts (1.0.4-1) ... Setting up r-cran-th.data (1.1-0-1) ... Setting up r-cran-httr (1.4.2-1) ... Setting up r-cran-scales (1.1.1-1build1) ... Setting up r-cran-memoise (2.0.1-1) ... Setting up r-cran-lava (1.6.10+dfsg-1) ... Setting up r-cran-covr (3.5.1+dfsg-2) ... Setting up r-cran-promises (1.2.0.1+dfsg-1) ... Setting up r-cran-e1071 (1.7-9-1) ... Setting up r-cran-spatstat.data (2.1-2-1) ... Setting up r-cran-multcomp (1.4-18-1) ... Setting up r-cran-svglite (2.1.0-1) ... Setting up r-cran-spatstat.geom (2.3-2-1) ... Setting up r-cran-knitr (1.37+dfsg-1) ... Setting up r-cran-earth (5.3.1-1) ... Setting up r-cran-pkgbuild (1.3.1-1) ... Setting up r-cran-rspectra (0.16-0-1build2) ... Setting up r-cran-drr (0.0.4-2build1) ... Setting up r-cran-gplots (3.1.1-2) ... Setting up r-cran-gh (1.3.0-1) ... Setting up r-cran-ttr (0.24.3-1) ... Setting up r-cran-vctrs (0.3.8-2) ... Setting up r-cran-pillar (1.7.0+dfsg-1) ... Setting up r-cran-timereg (2.0.1-1) ... Setting up r-cran-pkgload (1.2.4-1) ... Setting up r-cran-rocr (1.0-11-2build1) ... Setting up r-cran-prodlim (2019.11.13-1build1) ... Setting up r-cran-mlmetrics (1.1.1-3build1) ... Setting up r-cran-ddalpha (1.3.11-1build2) ... Setting up r-cran-dimred (0.2.4-1) ... Setting up r-cran-httpuv (1.6.5+dfsg-1) ... Setting up r-cran-rpart (4.1.16-1) ... Setting up r-cran-tibble (3.1.6+dfsg-1) ... Setting up r-cran-dygraphs (1.1.1.6+dfsg-2build1) ... Setting up r-cran-shiny (1.5.0+dfsg-2) ... Setting up r-cran-textshaping (0.3.6-1) ... Setting up r-cran-ipred (0.9-12-1) ... Setting up r-cran-bench (1.1.2-1) ... Setting up r-cran-furrr (0.2.3-1) ... Setting up r-cran-tidyselect (1.1.2+dfsg-1) ... Setting up r-cran-wkutils (0.1.1-1) ... Setting up r-cran-slider (0.2.2-1) ... Setting up r-cran-classint (0.4-3-1build1) ... Setting up r-cran-ragg (1.2.1-1) ... Setting up r-cran-hms (1.1.1-1) ... Setting up r-cran-rmarkdown (2.6+dfsg-1) ... Setting up r-cran-mets (1.2.9+dfsg-1) ... Setting up r-cran-blob (1.2.2-1) ... Setting up r-cran-dplyr (1.0.8-2) ... Setting up r-cran-spatstat.core (2.3-2-1) ... Setting up r-cran-dbplyr (2.1.1-1) ... Setting up r-cran-rsqlite (2.2.9-1) ... Setting up r-cran-decor (1.0.1-1) ... Setting up r-cran-progress (1.2.2-2build1) ... Setting up r-cran-quantmod (0.4.18-1) ... Setting up r-recommended (4.1.2-1ubuntu2) ... Setting up r-cran-crosstalk (1.2.0+dfsg-1) ... Setting up r-cran-dt (0.17+dfsg-3) ... Setting up r-cran-ggplot2 (3.3.5+dfsg-2) ... Setting up r-cran-rematch2 (2.1.2-2build1) ... Setting up r-cran-tseries (0.10-49-1) ... Setting up r-cran-viridis (0.6.2-1) ... Setting up r-cran-rgl (0.108.3-1) ... Setting up r-cran-waldo (0.3.1-1) ... Setting up r-cran-tidyr (1.2.0-1) ... Setting up r-cran-recipes (0.1.17+dfsg-1) ... Setting up r-cran-rsample (0.1.1-1) ... Setting up r-cran-spatstat.linnet (2.3-1-1) ... Setting up r-cran-cliapp (0.1.1-1) ... Setting up r-cran-spatstat (2.3-0-1) ... Setting up r-cran-htmltable (2.4.0-1) ... Setting up r-cran-caret (6.0-90+dfsg-1) ... Setting up r-cran-testthat (3.1.2-1) ... Setting up r-cran-mockery (0.4.3+dfsg-1) ... Setting up r-cran-broom (0.7.12+dfsg-1) ... Setting up r-cran-misc3d (0.9-1-1) ... Setting up r-cran-conquer (1.2.2-1) ... Setting up r-cran-vdiffr (1.0.2-1) ... Setting up r-cran-dbitest (1.7.2-1) ... Setting up r-cran-nloptr (2.0.0-1) ... Setting up r-cran-hmisc (4.6-0-1) ... Setting up r-cran-quantreg (5.88-1) ... Setting up r-cran-lme4 (1.1-28-1) ... Setting up r-cran-plot3d (1.4-2) ... Setting up r-cran-ks (1.13.3-1) ... Setting up r-cran-logcondens (2.1.6-1) ... Processing triggers for sgml-base (1.30) ... Processing triggers for install-info (6.8-4build1) ... Processing triggers for mailcap (3.70+nmu1ubuntu1) ... Processing triggers for fontconfig (2.13.1-4.2ubuntu5) ... Setting up libudunits2-0 (2.2.28-3) ... Processing triggers for desktop-file-utils (0.26-1ubuntu3) ... Processing triggers for hicolor-icon-theme (0.17-2) ... Processing triggers for libc-bin (2.35-0ubuntu3) ... Processing triggers for man-db (2.10.2-1) ... Processing triggers for tex-common (6.17) ... Running mktexlsr. This may take some time... done. Setting up r-cran-units (0.8-0+dfsg-1) ... Setting up r-cran-sf (1.0-6+dfsg-1) ... Setting up r-cran-lwgeom (0.2-8-1build1) ...
Python Libraries Strategy
Some priority python for the Jupyter Notebooks of 2022
- GeoPandas (and pySAL) :
gpd 0.10.2direct link to GEOS 3.10, popular extension to Pandas data science; please recall that pySAL is merging into the GeoPandas project overall; GeoPandas+pySAL use matplotlib graphics base, prefers Folium for web maps (?)
- Numpy & Pandas :
np '1.21.5',pd 1.3.5fundamental packages
- PostGIS writing done with pyscopg2 (low-level) or geoalchemy2 (ORM based on sqlalchemy)
- rasterio : modern geoTIFF handling; sophisticated library design; not easy to build from source
1.2.10
- Shapely & Fiona : direct link to libGEOS/ogr from python; example Notebooks in place
Shapely-1.8.0Fiona-1.8.21
- opendatacube core and Notebook client examples v1.8.6 -LINK- odc-geo a minimal Opendatacube setup (see below)
- pySTAC spatial-temporal analysis standard; opendatacube collaborators v1.4 -LINK-
- stactools is a collection of interfaces and utilities, TBD from odc soon -LINK-
- fsspec -LINK-
- geopython OWSLib, pygeoapi, pygeometa v0.9.1, others .. All -LINK-
- Scikit-Learn : original machine-learning library by international research team led by French math; stands the tests of time; integrated with SciPy for Fortran, BLAS, LAPACK libs; numpy for data allocation; important primitives like PCA, SVM, and KNN are optimized in practical ways, and then benchmarked against pure Fortran or C++ for comparison
0.23.2
- boto for AWS S3, other data store transfer; can use AWS credentials (or Hetzner, or..) modern version using pip installed locally
- osmium libosmium2-dev, libosmium2-doc, python3-pyosmium, osmium-tool : a C++ framework for working with OSM data files; osmium library bindings for Python 3 ##
osmium version 1.14.0; libosmium version 2.18.0; Supported PBF compression types: none zlib lz4; Copyright (C) 2013-2022 Jochen Topf <jochen@topf.org>
- mapnik libmapnik3.1, python3-mapnik : mapnik rendering engine for OSM maps and others
libmapnik.so.3.1.0
- mapclassify : part of pySAL, versions must match with geopandas setup
- lightgbm : MSFT python, tricky to install, might have to wait until other versions are sorted here
- inline maps vs slippy maps : cartopy, other matplotlib variants are inline static; notebook web maps need js libs e.g. ipyleaflet
- EOmaps TODO evaluate here -LINK-
- georasters TODO evaluate -LINK
- Canada Met - Meteorological Service of Canada Open Data User Documentation -LINK-
- LiDAR "maybe?" : this is slightly painful since modern commercial GIS is flooded with this tech, delivered by advanced Western companies seeking something novel to sell. Changes to the LASzip licensing have enabled inclusion, but as of today, no Debian maintainer in place, and bas wants PDAL out at this time. -EMAIL- -EMAIL2-
- DeepLearning "no" : deep learning has taken over in the modern AI/ML research, for funding and hype, but not on this disk. Please note that the ML libraries on osgeolive are completely useful, accurate and performant today.. no need for a constant and fast Internet connection, nor a compute infrastructure the size of a large naval ship, or special impenetrable models that can only be built by those machines. -LINK- Serious and in-demand applications like "facial recognition" are not included here. Many real applications to remote sensing are built using DeepLearning, but those are not available on this disk. Some benefits of not including DeepLearning : no dependencies on tricky GPU libs; not suffering from fast-updates of important ML core libraries; avoid black-box training models, and their disk space; avoid software patent problems in Western Nations.
"I feel that a common and well-known distro like this is an opportunity to build engineering cooperation, between teams that may not interact otherwise.. like the physical code sprints" -darkblueb in California
Example Notebooks in previous OSGeoLive -LINK-
Other Resources: Pangeo PYTHIA -LINK-
opendatacube "Cube in a Box" -LINK-
--
Jupyter jammy Install
dbb@x10jam:~$ sudo apt install jupyter Reading package lists... Done Building dependency tree... Done Reading state information... Done The following additional packages will be installed: fonts-glyphicons-halflings jupyter-client jupyter-console jupyter-core jupyter-nbconvert jupyter-nbextension-jupyter-js-widgets jupyter-nbformat jupyter-notebook libjs-backbone libjs-bootstrap libjs-bootstrap-tour libjs-codemirror libjs-es6-promise libjs-jed libjs-jquery-typeahead libjs-marked libjs-moment libjs-requirejs libjs-requirejs-text libjs-text-encoding libjs-xterm node-jed python3-argon2 python3-ipywidgets python3-jupyter-console python3-notebook python3-prometheus-client python3-send2trash python3-terminado python3-widgetsnbextension Suggested packages: jupyter-qtconsole libjs-jquery-lazyload libjs-json The following NEW packages will be installed: fonts-glyphicons-halflings jupyter jupyter-client jupyter-console jupyter-core jupyter-nbconvert jupyter-nbextension-jupyter-js-widgets jupyter-nbformat jupyter-notebook libjs-backbone libjs-bootstrap libjs-bootstrap-tour libjs-codemirror libjs-es6-promise libjs-jed libjs-jquery-typeahead libjs-marked libjs-moment libjs-requirejs libjs-requirejs-text libjs-text-encoding libjs-xterm node-jed python3-argon2 python3-ipywidgets python3-jupyter-console python3-notebook python3-prometheus-client python3-send2trash python3-terminado python3-widgetsnbextension 0 upgraded, 31 newly installed, 0 to remove and 15 not upgraded. Need to get 3,969 kB of archives. After this operation, 33.5 MB of additional disk space will be used. Do you want to continue? [Y/n] Get:1 http://mirrors.wikimedia.org/ubuntu jammy/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-2 [117 kB] ... Fetched 3,969 kB in 13s (301 kB/s) Extracting templates from packages: 100% Selecting previously unselected package fonts-glyphicons-halflings. (Reading database ... 436812 files and directories currently installed.)
Focal Setup Steps
APT install into the system OS python, major, stable parts first.. as a set .. ;
## note gdal & postgis are installed at an earlier step via package dot-deb
## -------------------------------------------------------------------------
591 sudo apt install python3-dev python3-pip
405 sudo apt install ipython3 python3-scipy
apt install python3-pandas ## <== stale version currently
408 sudo apt install r-cran-sf ## match libgeos w/R language bindings
429 sudo apt install python3-shapely python3-fiona
614 sudo apt install --yes python3-geoalchemy2
##-- show the parts explicitly for Jupyter on Ubuntu via dot-deb ---------------
670 sudo apt install --yes jupyter-core jupyter-client jupyter-console jupyter-nbformat jupyter-nbconvert \
jupyter-notebook python3-ipykernel
673 sudo apt install python-notebook-doc jupyter
##--
sudo apt install python3-sklearn-lib python3-pyosmium
next
pip install --user --upgrade-strategy=only-if-needed py3-pkg
# installs to `~/.local/lib/python3.8/`
#
605 pip install --user wheel
835 pip install --user --upgrade --upgrade-strategy=only-if-needed pandas
836 pip install --user --upgrade --upgrade-strategy=only-if-needed scikit-image
837 pip install --user --upgrade --upgrade-strategy=only-if-needed imageio
838 pip install --user --upgrade --upgrade-strategy=only-if-needed numba
630 pip install --user folium
839 pip install --user --upgrade --upgrade-strategy=only-if-needed sentinelhub
867 pip install --user --upgrade --upgrade-strategy=only-if-needed openeo
841 pip install --user --upgrade --upgrade-strategy=only-if-needed eo-learn
853 pip install --user --upgrade --upgrade-strategy=only-if-needed ipyleaflet
606 pip install --user lightgbm ## libs also have an R interface, optional engines
all [ rasterio, networkx, sklearn, boto, more... ] into ~/.local/lib/python3.8/ (below)
note: https://pip.pypa.io/en/stable/cli/pip_install/#hash-checking-mode
next
$ mkdir -p ~/.jupyter/notebooks/ ;# default Jupyter notebooks & assets ; TODO will change.
this opinionated install will update/amend/evolve as installer code and more dot-debs are crafted later this year.
$ ./do_start_jupyter.sh #--------------------------- #!/bin/bash jupyter notebook --no-browser --ip=192.168.1.131 --notebook-dir=.jupyter/notebooks
~/.bashrc ##- PATH=$PATH:~/.local/bin
Focal Notes
dbb@focalk:/etc$ cat lsb-release DISTRIB_ID=Ubuntu DISTRIB_RELEASE=20.04 DISTRIB_CODENAME=focal DISTRIB_DESCRIPTION="Ubuntu 20.04.3 LTS" #-- libgeos3.10.1 (3.10.1-1~focal0) libgdal-dev (3.4.0+dfsg-1~focal0) postgresql-12-postgis-3 (3.2.0+dfsg-1~focal0) PGSQL="120" GEOS="3.10.1-CAPI-1.16.0" PROJ="8.2.0" LIBXML="2.9.10" LIBJSON="0.13.1" #--
opendatacube
via Paul Haesler on Slack #open-data-cube
# install numpy, pyproj and rasterio from Ubuntu distro via apt sudo apt-get install python3-numpy python3-rasterio python3-pyproj # Create virtualenv inheriting numpy and rasterio from system site-packages. cd ~/venvs virtualenv -p `which python3` --system-site-packages odc # Activate new virtualenv source odc/bin/activate # Compile and install cf-units from source: cd ~/src git clone git@github.com:SciTools/cf-units.git cf-units cd cf-units pip install -e . # install datacube-core from source (from pypi should be fine after next release) cd ~/src/datacube/core pip install -e .[all]
geoxarray
$ pip install --user rioxarray
Collecting rioxarray
Downloading rioxarray-0.10.3.tar.gz (47 kB)
| | 47 kB 272 kB/s
Installing build dependencies ... done
Getting requirements to build wheel ... done
Preparing wheel metadata ... done
Requirement already satisfied: packaging in /usr/lib/python3/dist-packages (from rioxarray) (20.3)
Requirement already satisfied: xarray>=0.17 in ./.local/lib/python3.8/site-packages (from rioxarray) (0.21.1)
Requirement already satisfied: rasterio>=1.1.1 in ./.local/lib/python3.8/site-packages (from rioxarray) (1.2.10)
Requirement already satisfied: pyproj>=2.2 in /usr/lib/python3/dist-packages (from rioxarray) (3.2.1)
Requirement already satisfied: pandas>=1.1 in ./.local/lib/python3.8/site-packages (from xarray>=0.17->rioxarray) (1.4.1)
Requirement already satisfied: numpy>=1.18 in ./.local/lib/python3.8/site-packages (from xarray>=0.17->rioxarray) (1.21.5)
Requirement already satisfied: click-plugins in /usr/lib/python3/dist-packages (from rasterio>=1.1.1->rioxarray) (1.1.1)
Requirement already satisfied: cligj>=0.5 in /usr/lib/python3/dist-packages (from rasterio>=1.1.1->rioxarray) (0.5.0)
Requirement already satisfied: attrs in /usr/lib/python3/dist-packages (from rasterio>=1.1.1->rioxarray) (19.3.0)
Requirement already satisfied: certifi in /usr/lib/python3/dist-packages (from rasterio>=1.1.1->rioxarray) (2019.11.28)
Requirement already satisfied: click>=4.0 in /usr/lib/python3/dist-packages (from rasterio>=1.1.1->rioxarray) (7.0)
Requirement already satisfied: affine in ./.local/lib/python3.8/site-packages (from rasterio>=1.1.1->rioxarray) (2.3.0)
Requirement already satisfied: snuggs>=1.4.1 in ./.local/lib/python3.8/site-packages (from rasterio>=1.1.1->rioxarray) (1.4.7)
Requirement already satisfied: setuptools in /usr/lib/python3/dist-packages (from rasterio>=1.1.1->rioxarray) (45.2.0)
Requirement already satisfied: python-dateutil>=2.8.1 in ./.local/lib/python3.8/site-packages (from pandas>=1.1->xarray>=0.17->rioxarray) (2.8.2)
Requirement already satisfied: pytz>=2020.1 in ./.local/lib/python3.8/site-packages (from pandas>=1.1->xarray>=0.17->rioxarray) (2021.3)
Requirement already satisfied: pyparsing>=2.1.6 in /usr/lib/python3/dist-packages (from snuggs>=1.4.1->rasterio>=1.1.1->rioxarray) (2.4.6)
Requirement already satisfied: six>=1.5 in /usr/lib/python3/dist-packages (from python-dateutil>=2.8.1->pandas>=1.1->xarray>=0.17->rioxarray) (1.14.0)
Building wheels for collected packages: rioxarray
Building wheel for rioxarray (PEP 517) ... done
Created wheel for rioxarray: filename=rioxarray-0.10.3-py3-none-any.whl size=55624 sha256=925199c830a54ca5e9b02e89060e822e27014db5cbe601fd6b513d106fe66687
Stored in directory: /home/dbb/.cache/pip/wheels/42/71/40/298b7df47153454b8eb3ef8e5441dafa413e5a2d7ac1832b17
Successfully built rioxarray
Installing collected packages: rioxarray
Successfully installed rioxarray-0.10.3
odc-geo
$ pip install --user --upgrade-strategy only-if-needed odc-geo
Collecting odc-geo
Downloading odc_geo-0.1.1-py3-none-any.whl (81 kB)
| | 81 kB 254 kB/s
Requirement already satisfied: affine in ./.local/lib/python3.8/site-packages (from odc-geo) (2.3.0)
Collecting cachetools
Downloading cachetools-5.0.0-py3-none-any.whl (9.1 kB)
Requirement already satisfied: numpy in ./.local/lib/python3.8/site-packages (from odc-geo) (1.21.5)
Requirement already satisfied: pyproj in /usr/lib/python3/dist-packages (from odc-geo) (3.2.1)
Requirement already satisfied: shapely in /usr/lib/python3/dist-packages (from odc-geo) (1.8.0)
Installing collected packages: cachetools, odc-geo
Successfully installed cachetools-5.0.0 odc-geo-0.1.1
odc-stac
$ pip install --user --upgrade-strategy only-if-needed odc-stac
Collecting odc-stac
Downloading odc_stac-0.2.4-py3-none-any.whl (32 kB)
Requirement already satisfied: affine in ./.local/lib/python3.8/site-packages (from odc-stac) (2.3.0)
Collecting datacube>=1.8.5
Downloading datacube-1.8.6-py2.py3-none-any.whl (272 kB)
| | 272 kB 307 kB/s
Requirement already satisfied: numpy in ./.local/lib/python3.8/site-packages (from odc-stac) (1.21.5)
Requirement already satisfied: pandas in ./.local/lib/python3.8/site-packages (from odc-stac) (1.4.1)
Requirement already satisfied: xarray>=0.19 in ./.local/lib/python3.8/site-packages (from odc-stac) (0.21.1)
Collecting toolz
Downloading toolz-0.11.2-py3-none-any.whl (55 kB)
| | 55 kB 324 kB/s
Collecting pystac<2,>=1.0.0
Downloading pystac-1.4.0-py3-none-any.whl (137 kB)
| | 137 kB 252 kB/s
Requirement already satisfied: jinja2 in /usr/lib/python3/dist-packages (from odc-stac) (2.10.1)
Requirement already satisfied: rasterio>=1.0.2 in ./.local/lib/python3.8/site-packages (from datacube>=1.8.5->odc-stac) (1.2.10)
Requirement already satisfied: pyyaml in /usr/lib/python3/dist-packages (from datacube>=1.8.5->odc-stac) (5.3.1)
Requirement already satisfied: sqlalchemy in /usr/lib/python3/dist-packages (from datacube>=1.8.5->odc-stac) (1.3.12)
Requirement already satisfied: shapely>=1.6.4 in /usr/lib/python3/dist-packages (from datacube>=1.8.5->odc-stac) (1.8.0)
Requirement already satisfied: psycopg2 in /usr/lib/python3/dist-packages (from datacube>=1.8.5->odc-stac) (2.8.4)
Collecting distributed
Downloading distributed-2022.4.0-py3-none-any.whl (853 kB)
| | 853 kB 297 kB/s
Requirement already satisfied: jsonschema in /usr/lib/python3/dist-packages (from datacube>=1.8.5->odc-stac) (3.2.0)
Collecting dask[array]
Downloading dask-2022.4.0-py3-none-any.whl (1.1 MB)
| | 1.1 MB 300 kB/s
Collecting lark-parser>=0.6.7
Downloading lark_parser-0.12.0-py2.py3-none-any.whl (103 kB)
| | 103 kB 339 kB/s
Collecting cloudpickle>=0.4
Downloading cloudpickle-2.0.0-py3-none-any.whl (25 kB)
Collecting netcdf4
Downloading netCDF4-1.5.8-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.7 MB)
| | 4.7 MB 221 kB/s
Requirement already satisfied: python-dateutil in ./.local/lib/python3.8/site-packages (from datacube>=1.8.5->odc-stac) (2.8.2)
Requirement already satisfied: cachetools in ./.local/lib/python3.8/site-packages (from datacube>=1.8.5->odc-stac) (5.0.0)
Requirement already satisfied: click>=5.0 in /usr/lib/python3/dist-packages (from datacube>=1.8.5->odc-stac) (7.0)
Requirement already satisfied: pyproj>=2.5 in /usr/lib/python3/dist-packages (from datacube>=1.8.5->odc-stac) (3.2.1)
Requirement already satisfied: pytz>=2020.1 in ./.local/lib/python3.8/site-packages (from pandas->odc-stac) (2021.3)
Requirement already satisfied: packaging>=20.0 in /usr/lib/python3/dist-packages (from xarray>=0.19->odc-stac) (20.3)
Requirement already satisfied: cligj>=0.5 in /usr/lib/python3/dist-packages (from rasterio>=1.0.2->datacube>=1.8.5->odc-stac) (0.5.0)
Requirement already satisfied: attrs in /usr/lib/python3/dist-packages (from rasterio>=1.0.2->datacube>=1.8.5->odc-stac) (19.3.0)
Requirement already satisfied: certifi in /usr/lib/python3/dist-packages (from rasterio>=1.0.2->datacube>=1.8.5->odc-stac) (2019.11.28)
Requirement already satisfied: snuggs>=1.4.1 in ./.local/lib/python3.8/site-packages (from rasterio>=1.0.2->datacube>=1.8.5->odc-stac) (1.4.7)
Requirement already satisfied: setuptools in /usr/lib/python3/dist-packages (from rasterio>=1.0.2->datacube>=1.8.5->odc-stac) (45.2.0)
Requirement already satisfied: click-plugins in /usr/lib/python3/dist-packages (from rasterio>=1.0.2->datacube>=1.8.5->odc-stac) (1.1.1)
Requirement already satisfied: psutil>=5.0 in /usr/lib/python3/dist-packages (from distributed->datacube>=1.8.5->odc-stac) (5.5.1)
Collecting zict>=0.1.3
Downloading zict-2.1.0-py3-none-any.whl (11 kB)
Collecting tornado>=6.0.3
Downloading tornado-6.1-cp38-cp38-manylinux2010_x86_64.whl (427 kB)
| | 427 kB 184 kB/s
Requirement already satisfied: urllib3 in /usr/lib/python3/dist-packages (from distributed->datacube>=1.8.5->odc-stac) (1.25.8)
Collecting tblib>=1.6.0
Downloading tblib-1.7.0-py2.py3-none-any.whl (12 kB)
Collecting msgpack>=0.6.0
Downloading msgpack-1.0.3-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (322 kB)
| | 322 kB 191 kB/s
Collecting sortedcontainers!=2.0.0,!=2.0.1
Downloading sortedcontainers-2.4.0-py2.py3-none-any.whl (29 kB)
Collecting fsspec>=0.6.0
Downloading fsspec-2022.3.0-py3-none-any.whl (136 kB)
| | 136 kB 255 kB/s
Collecting partd>=0.3.10
Downloading partd-1.2.0-py3-none-any.whl (19 kB)
Collecting cftime
Downloading cftime-1.6.0-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (238 kB)
| | 238 kB 305 kB/s
Requirement already satisfied: six>=1.5 in /usr/lib/python3/dist-packages (from python-dateutil->datacube>=1.8.5->odc-stac) (1.14.0)
Requirement already satisfied: pyparsing>=2.1.6 in /usr/lib/python3/dist-packages (from snuggs>=1.4.1->rasterio>=1.0.2->datacube>=1.8.5->odc-stac) (2.4.6)
Collecting heapdict
Downloading HeapDict-1.0.1-py3-none-any.whl (3.9 kB)
Collecting locket
Downloading locket-0.2.1-py2.py3-none-any.whl (4.1 kB)
Installing collected packages: toolz, fsspec, locket, partd, cloudpickle, dask, heapdict, zict, tornado, tblib, msgpack, sortedcontainers, distributed, lark-parser, cftime, netcdf4, datacube, pystac, odc-stac
Successfully installed cftime-1.6.0 cloudpickle-2.0.0 dask-2022.4.0 datacube-1.8.6 distributed-2022.4.0 fsspec-2022.3.0 heapdict-1.0.1 lark-parser-0.12.0 locket-0.2.1 msgpack-1.0.3 netcdf4-1.5.8 odc-stac-0.2.4 partd-1.2.0 pystac-1.4.0 sortedcontainers-2.4.0 tblib-1.7.0 toolz-0.11.2 tornado-6.1 zict-2.1.0
OSM software stack
osm2pgsql and libosmium
Sat 26 Feb 2022 07:10:31 PM PST # ubuntugis-unstable focal osm2pgsql 1.3.0+ds-1~focal2 # git repo osm2pgsql 1.6 lonvia committed on Jan 24 2022 osm2pgsql 1.5.1 Thu Jul 29 09:49:35 2021 +0200 # osm2pgsql cmake variables set PROJ6_INCLUDE_DIR /usr/include PROJ_LIBRARY /usr/lib/x86_64-linux-gnu/libproj.so WITH_LUA ON EXTERNAL_LIBOSMIUM FALSE # from osm2pgsql/contrib/libosmium/ LIBOSMIUM_VERSION_STRING "2.17.0" $ apt show libosmium2-dev => 2.17.2-1~focal0 ## the result of apt installing Universe python3-pyosmium 2.15.3-1build2 $ osmium --version => osmium version 1.11.1, libosmium version 2.15.4 so, that is behind slightly from 2.17.x osmium headers ## rebuild osm2pgsql 1.6.0, better ! $ osm2pgsql --version 2022-02-26 20:14:19 osm2pgsql version 1.6.0 Build: Debug Compiled using the following library versions: Libosmium 2.17.3 Proj [API 6] 8.2.0 Lua 5.3.3 $ sudo make install ... [ 95%] Built target osm2pgsql_lib [100%] Built target osm2pgsql Install the project... -- Install configuration: "Debug" -- Installing: /usr/local/bin/osm2pgsql -- Installing: /usr/local/bin/osm2pgsql-replication -- Installing: /usr/local/share/man/man1/osm2pgsql-replication.1 -- Installing: /usr/local/share/osm2pgsql/default.style -- Installing: /usr/local/share/osm2pgsql/empty.style -- Installing: /usr/local/share/man/man1/osm2pgsql.1
OSMnx
in tutorial https://pygis.io/docs/d_access_osm.html
code https://pypi.org/project/osmnx/#files
Focal Jupyter Overview
Sat 19 Feb 2022 07:18:48 PM PST
$ jupyter --version
jupyter core : 4.6.3
jupyter-notebook : 6.0.3
qtconsole : not installed
ipython : 7.13.0
ipykernel : 5.2.0
jupyter client : 6.1.2
jupyter lab : not installed
nbconvert : 5.6.1
ipywidgets : 6.0.0
nbformat : 5.0.4
traitlets : 4.3.3
##-------------------------------
Python version: 3.8.10 (default, Nov 26 2021, 20:14:08) [GCC 9.3.0]
pandas version: 0.25.3 <== a weak spot in this setup
matplotlib version: 3.1.2
NumPy version: 1.17.4
SciPy version: 1.3.3
IPython version: 7.13.0
scikit-learn version: 1.0.2
##-----------------------------------------
dbb@focalk:~$ ipython3
Python 3.8.10 (default, Nov 26 2021, 20:14:08)
Type 'copyright', 'credits' or 'license' for more information
IPython 7.13.0 -- An enhanced Interactive Python. Type '?' for help.
In [1]: import sklearn
In [2]: from sklearn import show_versions
In [3]: show_versions()
System:
python: 3.8.10 (default, Nov 26 2021, 20:14:08) [GCC 9.3.0]
executable: /usr/bin/python3
machine: Linux-5.13.0-30-generic-x86_64-with-glibc2.29
Python dependencies:
pip: 20.0.2
setuptools: 45.2.0
sklearn: 1.0.2
numpy: 1.17.4
scipy: 1.3.3
Cython: 0.29.14
pandas: 0.25.3 <== a weak spot in this setup
matplotlib: 3.1.2
joblib: 1.1.0
threadpoolctl: 3.1.0
Built with OpenMP: True
--
dbb@focalk:~$ jupyter --paths
config:
/home/dbb/.jupyter
/usr/local/etc/jupyter
/etc/jupyter
data:
/home/dbb/.local/share/jupyter
/usr/local/share/jupyter
/usr/share/jupyter
runtime:
/home/dbb/.local/share/jupyter/runtime
Focal APT Repos
dbb@focalk:/etc/apt$ cat sources.list # Automatically generated by Calamares on 2022-01-02. # Lines starting with "deb" are mandatory, while lines starting with "deb-src" # are for more detailed package information. ## See http://help.ubuntu.com/community/UpgradeNotes for how to upgrade to ## newer versions of Lubuntu. deb http://ubuntu.osuosl.org/ubuntu/ focal main restricted deb-src http://ubuntu.osuosl.org/ubuntu/ focal main restricted ## Major bug fix updates produced after the final release of Lubuntu. ## Have you noticed a regression? Please report it! ## https://wiki.ubuntu.com/StableReleaseUpdates#Regressions ## Software from this repository is ENTIRELY UNSUPPORTED by the Ubuntu team. ## Also, please note that software in Universe WILL NOT receive any review or ## updates from the Ubuntu security team directly. Updates in this repository ## are provided by volunteers, but most come from Debian. deb http://ubuntu.osuosl.org/ubuntu/ focal universe deb-src http://ubuntu.osuosl.org/ubuntu/ focal universe ## Software from this repository is ENTIRELY UNSUPPORTED by the Ubuntu team, ## and may not be under a free licence. Please satisfy yourself as your rights ## to use the software. Also, please note that software in Multiverse WILL NOT ## receive any review or updates from the Ubuntu security team directly. # deb http://us.archive.ubuntu.com/ubuntu/ focal multiverse # deb-src http://us.archive.ubuntu.com/ubuntu/ focal multiverse # deb http://us.archive.ubuntu.com/ubuntu/ focal-updates multiverse # deb-src http://us.archive.ubuntu.com/ubuntu/ focal-updates multiverse ## Software from this repository contains tested security updates from the ## Ubuntu security team. deb http://security.ubuntu.com/ubuntu focal-security main restricted deb-src http://security.ubuntu.com/ubuntu focal-security main restricted deb http://security.ubuntu.com/ubuntu focal-security universe deb-src http://security.ubuntu.com/ubuntu focal-security universe deb http://security.ubuntu.com/ubuntu focal-security multiverse # deb-src http://security.ubuntu.com/ubuntu focal-security multiverse ## Software from this repository may not have been tested as extensively as ## software contained in the main release, although it includes newer versions ## of some applications which may provide useful features. Also, please note ## that software in Backports WILL NOT receive any review or updates from the ## Ubuntu security team. deb http://ubuntu.osuosl.org/ubuntu/ focal-backports main restricted universe multiverse deb-src http://ubuntu.osuosl.org/ubuntu/ focal-backports main restricted universe multiverse ## Uncomment the following two lines to add software from Canonical's ## "partner" repository. ## This software is not part of Ubuntu, but is offered by Canonical and the ## respective vendors as a service to Ubuntu users. # deb http://archive.canonical.com/ubuntu focal partner # deb-src http://archive.canonical.com/ubuntu focal partner ------------------------- dbb@focalk:/etc/apt$ cat sources.list.d/ubuntugis-ubuntu-ubuntugis-unstable-focal.list deb http://ppa.launchpad.net/ubuntugis/ubuntugis-unstable/ubuntu focal main deb-src http://ppa.launchpad.net/ubuntugis/ubuntugis-unstable/ubuntu focal main
## osm2pgsql FLEX layout post-processing via LUA ./flex-config/ route-relations.lua unitable.lua geometries.lua data-types.lua attributes.lua compatible.lua simple.lua places.lua generic.lua with-schema.lua ./tests/data/ test_output_flex_multigeom_polygon.lua test_output_flex_way.lua test_output_flex_area_3857.lua test_output_flex_attr.lua test_output_flex_stage2.lua test_output_flex_nocluster.lua test_output_flex_multigeom_multipolygon_split.lua test_output_flex_multigeom.lua test_output_flex_multigeom_multipolygon.lua test_output_flex_nodes.lua test_output_flex_area_4326.lua test_output_flex_relation_combinations.lua test_output_flex_nogeom.lua test_output_flex_area.lua test_output_flex_lua_fail.lua test_output_flex_bbox.lua test_output_flex_types.lua test_output_flex_area_mix.lua test_output_flex_relation_changes.lua test_output_flex_schema.lua test_output_flex_multigeom_geometry_split.lua test_output_flex_stage2_alt.lua test_output_flex_uni.lua test_output_flex.lua test_output_flex_validgeom.lua test_output_flex_line.lua test_output_flex_invalid_geom.lua test_output_flex_multigeom_geometry.lua test_output_flex_relations.lua
## a full list of osmium verbs osmium-add-locations-to-ways osmium-export osmium-merge-changes osmium-apply-changes osmium-extract osmium-query-locations-index osmium-cat osmium-file-formats osmium-renumber osmium-changeset-filter osmium-fileinfo osmium-show osmium-check-refs osmium-getid osmium-sort osmium-create-locations-index osmium-getparents osmium-tags-filter osmium-derive-changes osmium-index-types osmium-time-filter osmium-diff osmium-merge
eo-learn pip Fix-It Session
eolearn -- aprox. of python3 dependancies
import
: pandas as pd
: geopandas as gpd
: shapely. geometry, ops, wkt
: rasterio. features, transform, warp
: skimage. feature, filters.rank, morphology, segmentation
: boto3, cv2
: fiona
: graphviz
: ------------------------------------------
: abc, attr, base64
: collections, concurrent.futures
: dataclasses, datetime as dt
: dateutil, dateutil.parser
: fs, functools, gzip
: importlib, inspect, itertools as it
: json, logging, multiprocessing, os
: pickle, ray, re, registration
: tempfile, threading, time, traceback
: unittest.mock as mock, uuid, warnings
: --------------------------
##-----------------------------------------------------------------
$ pip install --user --upgrade --upgrade-strategy=only-if-needed pandas
Collecting pandas
Downloading pandas-1.4.1-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (11.7 MB)
| | 11.7 MB 79 kB/s
Collecting pytz>=2020.1
Downloading pytz-2021.3-py2.py3-none-any.whl (503 kB)
| | 503 kB 260 kB/s
Collecting python-dateutil>=2.8.1
Downloading python_dateutil-2.8.2-py2.py3-none-any.whl (247 kB)
| | 247 kB 210 kB/s
Collecting numpy>=1.18.5; platform_machine != "aarch64" and platform_machine != "arm64" and python_version < "3.10"
Downloading numpy-1.22.2-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.8 MB)
| | 16.8 MB 11 kB/s
Requirement already satisfied, skipping upgrade: six>=1.5 in /usr/lib/python3/dist-packages (from python-dateutil>=2.8.1->pandas) (1.14.0)
ERROR: sentinelhub 3.4.4 has requirement pillow<=8.4.0,>=8.3.2, but you'll have pillow 7.0.0 which is incompatible.
ERROR: scikit-image 0.19.2 has requirement scipy>=1.4.1, but you'll have scipy 1.3.3 which is incompatible.
ERROR: numba 0.55.1 has requirement numpy<1.22,>=1.18, but you'll have numpy 1.22.2 which is incompatible.
ERROR: imageio 2.16.0 has requirement pillow>=8.3.2, but you'll have pillow 7.0.0 which is incompatible.
Installing collected packages: pytz, python-dateutil, numpy, pandas
Successfully installed numpy-1.22.2 pandas-1.4.1 python-dateutil-2.8.2 pytz-2021.3
$ pip install --user --upgrade --upgrade-strategy=only-if-needed scikit-image
Requirement already up-to-date: scikit-image in ./.local/lib/python3.8/site-packages (0.19.2)
Requirement already satisfied, skipping upgrade: imageio>=2.4.1 in ./.local/lib/python3.8/site-packages (from scikit-image) (2.16.0)
Requirement already satisfied, skipping upgrade: packaging>=20.0 in /usr/lib/python3/dist-packages (from scikit-image) (20.3)
Collecting scipy>=1.4.1
Downloading scipy-1.8.0-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (41.6 MB)
| | 41.6 MB 20 kB/s
Requirement already satisfied, skipping upgrade: pillow!=7.1.0,!=7.1.1,!=8.3.0,>=6.1.0 in /usr/lib/python3/dist-packages (from scikit-image) (7.0.0)
Requirement already satisfied, skipping upgrade: numpy>=1.17.0 in ./.local/lib/python3.8/site-packages (from scikit-image) (1.22.2)
Requirement already satisfied, skipping upgrade: PyWavelets>=1.1.1 in ./.local/lib/python3.8/site-packages (from scikit-image) (1.2.0)
Requirement already satisfied, skipping upgrade: networkx>=2.2 in ./.local/lib/python3.8/site-packages (from scikit-image) (2.6.3)
Requirement already satisfied, skipping upgrade: tifffile>=2019.7.26 in ./.local/lib/python3.8/site-packages (from scikit-image) (2022.2.9)
Installing collected packages: scipy
Successfully installed scipy-1.8.0
$ pip install --user --upgrade --upgrade-strategy=only-if-needed imageio
Requirement already up-to-date: imageio in ./.local/lib/python3.8/site-packages (2.16.0)
Requirement already satisfied, skipping upgrade: numpy>=1.20.0 in ./.local/lib/python3.8/site-packages (from imageio) (1.22.2)
Collecting pillow>=8.3.2
Downloading Pillow-9.0.1-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.3 MB)
| | 4.3 MB 99 kB/s
ERROR: sentinelhub 3.4.4 has requirement pillow<=8.4.0,>=8.3.2, but you'll have pillow 9.0.1 which is incompatible.
Installing collected packages: pillow
Successfully installed pillow-9.0.1
$ pip install --user --upgrade --upgrade-strategy=only-if-needed numba
Requirement already up-to-date: numba in ./.local/lib/python3.8/site-packages (0.55.1)
Collecting numpy<1.22,>=1.18
Downloading numpy-1.21.5-cp38-cp38-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (15.7 MB)
| | 15.7 MB 361 kB/s
Requirement already satisfied, skipping upgrade: setuptools in /usr/lib/python3/dist-packages (from numba) (45.2.0)
Requirement already satisfied, skipping upgrade: llvmlite<0.39,>=0.38.0rc1 in ./.local/lib/python3.8/site-packages (from numba) (0.38.0)
ERROR: sentinelhub 3.4.4 has requirement pillow<=8.4.0,>=8.3.2, but you'll have pillow 9.0.1 which is incompatible.
Installing collected packages: numpy
Attempting uninstall: numpy
Found existing installation: numpy 1.22.2
Uninstalling numpy-1.22.2:
Successfully uninstalled numpy-1.22.2
Successfully installed numpy-1.21.5
$ pip install --user --upgrade --upgrade-strategy=only-if-needed sentinelhub
Requirement already up-to-date: sentinelhub in ./.local/lib/python3.8/site-packages (3.4.4)
Requirement already satisfied, skipping upgrade: oauthlib in /usr/lib/python3/dist-packages (from sentinelhub) (3.1.0)
Requirement already satisfied, skipping upgrade: requests-oauthlib in ./.local/lib/python3.8/site-packages (from sentinelhub) (1.3.1)
Requirement already satisfied, skipping upgrade: dataclasses-json in ./.local/lib/python3.8/site-packages (from sentinelhub) (0.5.6)
Requirement already satisfied, skipping upgrade: numpy in ./.local/lib/python3.8/site-packages (from sentinelhub) (1.21.5)
Requirement already satisfied, skipping upgrade: pyproj>=2.2.0 in /usr/lib/python3/dist-packages (from sentinelhub) (3.2.1)
Requirement already satisfied, skipping upgrade: python-dateutil in ./.local/lib/python3.8/site-packages (from sentinelhub) (2.8.2)
Requirement already satisfied, skipping upgrade: requests>=2.5.0 in /usr/lib/python3/dist-packages (from sentinelhub) (2.22.0)
Requirement already satisfied, skipping upgrade: tifffile in ./.local/lib/python3.8/site-packages (from sentinelhub) (2022.2.9)
Requirement already satisfied, skipping upgrade: utm in ./.local/lib/python3.8/site-packages (from sentinelhub) (0.7.0)
Collecting pillow<=8.4.0,>=8.3.2
Downloading Pillow-8.4.0-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (3.1 MB)
| | 3.1 MB 43 kB/s
Requirement already satisfied, skipping upgrade: click in /usr/lib/python3/dist-packages (from sentinelhub) (7.0)
Requirement already satisfied, skipping upgrade: aenum>=2.1.4 in ./.local/lib/python3.8/site-packages (from sentinelhub) (3.1.8)
Requirement already satisfied, skipping upgrade: boto3 in ./.local/lib/python3.8/site-packages (from sentinelhub) (1.21.2)
Requirement already satisfied, skipping upgrade: shapely in /usr/lib/python3/dist-packages (from sentinelhub) (1.8.0)
Requirement already satisfied, skipping upgrade: botocore in ./.local/lib/python3.8/site-packages (from sentinelhub) (1.24.2)
Requirement already satisfied, skipping upgrade: tqdm in ./.local/lib/python3.8/site-packages (from sentinelhub) (4.62.3)
Requirement already satisfied, skipping upgrade: typing-inspect>=0.4.0 in ./.local/lib/python3.8/site-packages (from dataclasses-json->sentinelhub) (0.7.1)
Requirement already satisfied, skipping upgrade: marshmallow-enum<2.0.0,>=1.5.1 in ./.local/lib/python3.8/site-packages (from dataclasses-json->sentinelhub) (1.5.1)
Requirement already satisfied, skipping upgrade: marshmallow<4.0.0,>=3.3.0 in ./.local/lib/python3.8/site-packages (from dataclasses-json->sentinelhub) (3.14.1)
Requirement already satisfied, skipping upgrade: six>=1.5 in /usr/lib/python3/dist-packages (from python-dateutil->sentinelhub) (1.14.0)
Requirement already satisfied, skipping upgrade: jmespath<1.0.0,>=0.7.1 in ./.local/lib/python3.8/site-packages (from boto3->sentinelhub) (0.10.0)
Requirement already satisfied, skipping upgrade: s3transfer<0.6.0,>=0.5.0 in ./.local/lib/python3.8/site-packages (from boto3->sentinelhub) (0.5.1)
Requirement already satisfied, skipping upgrade: urllib3<1.27,>=1.25.4 in /usr/lib/python3/dist-packages (from botocore->sentinelhub) (1.25.8)
Requirement already satisfied, skipping upgrade: typing-extensions>=3.7.4 in ./.local/lib/python3.8/site-packages (from typing-inspect>=0.4.0->dataclasses-json->sentinelhub) (4.1.1)
Requirement already satisfied, skipping upgrade: mypy-extensions>=0.3.0 in ./.local/lib/python3.8/site-packages (from typing-inspect>=0.4.0->dataclasses-json->sentinelhub) (0.4.3)
Installing collected packages: pillow
Attempting uninstall: pillow
Found existing installation: Pillow 9.0.1
Uninstalling Pillow-9.0.1:
Successfully uninstalled Pillow-9.0.1
Successfully installed pillow-8.4.0
$ pip install --user --upgrade --upgrade-strategy=only-if-needed eo-learn
Requirement already up-to-date: eo-learn in ./.local/lib/python3.8/site-packages (1.0.0)
Requirement already satisfied, skipping upgrade: eo-learn-io>=1.0.0 in ./.local/lib/python3.8/site-packages (from eo-learn) (1.0.0)
Requirement already satisfied, skipping upgrade: eo-learn-coregistration>=1.0.0 in ./.local/lib/python3.8/site-packages (from eo-learn) (1.0.0)
Requirement already satisfied, skipping upgrade: eo-learn-features>=1.0.0 in ./.local/lib/python3.8/site-packages (from eo-learn) (1.0.0)
Requirement already satisfied, skipping upgrade: eo-learn-mask>=1.0.0 in ./.local/lib/python3.8/site-packages (from eo-learn) (1.0.0)
Requirement already satisfied, skipping upgrade: eo-learn-ml-tools>=1.0.0 in ./.local/lib/python3.8/site-packages (from eo-learn) (1.0.0)
Requirement already satisfied, skipping upgrade: eo-learn-core>=1.0.0 in ./.local/lib/python3.8/site-packages (from eo-learn) (1.0.0)
Requirement already satisfied, skipping upgrade: eo-learn-visualization>=1.0.0 in ./.local/lib/python3.8/site-packages (from eo-learn) (1.0.0)
Requirement already satisfied, skipping upgrade: eo-learn-geometry>=1.0.0 in ./.local/lib/python3.8/site-packages (from eo-learn) (1.0.0)
Requirement already satisfied, skipping upgrade: rasterio>=1.2.7 in ./.local/lib/python3.8/site-packages (from eo-learn-io>=1.0.0->eo-learn) (1.2.10)
Requirement already satisfied, skipping upgrade: sentinelhub>=3.4.0 in ./.local/lib/python3.8/site-packages (from eo-learn-io>=1.0.0->eo-learn) (3.4.4)
Requirement already satisfied, skipping upgrade: fiona>=1.8.18 in /usr/lib/python3/dist-packages (from eo-learn-io>=1.0.0->eo-learn) (1.8.20)
Requirement already satisfied, skipping upgrade: rtree in /usr/lib/python3/dist-packages (from eo-learn-io>=1.0.0->eo-learn) (0.9.4)
Requirement already satisfied, skipping upgrade: geopandas>=0.8.1 in /usr/lib/python3/dist-packages (from eo-learn-io>=1.0.0->eo-learn) (0.10.2)
Requirement already satisfied, skipping upgrade: boto3 in ./.local/lib/python3.8/site-packages (from eo-learn-io>=1.0.0->eo-learn) (1.21.2)
Requirement already satisfied, skipping upgrade: opencv-contrib-python-headless>=4.1 in ./.local/lib/python3.8/site-packages (from eo-learn-coregistration>=1.0.0->eo-learn) (4.5.5.62)
Requirement already satisfied, skipping upgrade: thunder-registration in ./.local/lib/python3.8/site-packages (from eo-learn-coregistration>=1.0.0->eo-learn) (1.0.1)
Requirement already satisfied, skipping upgrade: python-dateutil in ./.local/lib/python3.8/site-packages (from eo-learn-features>=1.0.0->eo-learn) (2.8.2)
Requirement already satisfied, skipping upgrade: scipy in ./.local/lib/python3.8/site-packages (from eo-learn-features>=1.0.0->eo-learn) (1.8.0)
Requirement already satisfied, skipping upgrade: numba>=0.53.0 in ./.local/lib/python3.8/site-packages (from eo-learn-features>=1.0.0->eo-learn) (0.55.1)
Requirement already satisfied, skipping upgrade: numpy in ./.local/lib/python3.8/site-packages (from eo-learn-features>=1.0.0->eo-learn) (1.21.5)
Requirement already satisfied, skipping upgrade: scikit-learn in ./.local/lib/python3.8/site-packages (from eo-learn-features>=1.0.0->eo-learn) (1.0.2)
Requirement already satisfied, skipping upgrade: scikit-image>=0.19.0 in ./.local/lib/python3.8/site-packages (from eo-learn-features>=1.0.0->eo-learn) (0.19.2)
Requirement already satisfied, skipping upgrade: lightgbm>=2.0.11 in ./.local/lib/python3.8/site-packages (from eo-learn-mask>=1.0.0->eo-learn) (3.3.2)
Requirement already satisfied, skipping upgrade: shapely in /usr/lib/python3/dist-packages (from eo-learn-ml-tools>=1.0.0->eo-learn) (1.8.0)
Requirement already satisfied, skipping upgrade: attrs>=19.2.0 in /usr/lib/python3/dist-packages (from eo-learn-core>=1.0.0->eo-learn) (19.3.0)
Requirement already satisfied, skipping upgrade: tqdm>=4.27 in ./.local/lib/python3.8/site-packages (from eo-learn-core>=1.0.0->eo-learn) (4.62.3)
Requirement already satisfied, skipping upgrade: fs in ./.local/lib/python3.8/site-packages (from eo-learn-core>=1.0.0->eo-learn) (2.4.15)
Requirement already satisfied, skipping upgrade: fs-s3fs in ./.local/lib/python3.8/site-packages (from eo-learn-core>=1.0.0->eo-learn) (1.1.1)
Requirement already satisfied, skipping upgrade: pydot in /usr/lib/python3/dist-packages (from eo-learn-visualization>=1.0.0->eo-learn) (1.4.1)
Requirement already satisfied, skipping upgrade: jinja2 in /usr/lib/python3/dist-packages (from eo-learn-visualization>=1.0.0->eo-learn) (2.10.1)
Requirement already satisfied, skipping upgrade: matplotlib in /usr/lib/python3/dist-packages (from eo-learn-visualization>=1.0.0->eo-learn) (3.1.2)
Requirement already satisfied, skipping upgrade: graphviz>=0.10.1 in ./.local/lib/python3.8/site-packages (from eo-learn-visualization>=1.0.0->eo-learn) (0.19.1)
Requirement already satisfied, skipping upgrade: pygments in /usr/lib/python3/dist-packages (from eo-learn-visualization>=1.0.0->eo-learn) (2.3.1)
Requirement already satisfied, skipping upgrade: descartes in /usr/lib/python3/dist-packages (from eo-learn-geometry>=1.0.0->eo-learn) (1.1.0)
Requirement already satisfied, skipping upgrade: certifi in /usr/lib/python3/dist-packages (from rasterio>=1.2.7->eo-learn-io>=1.0.0->eo-learn) (2019.11.28)
Requirement already satisfied, skipping upgrade: setuptools in /usr/lib/python3/dist-packages (from rasterio>=1.2.7->eo-learn-io>=1.0.0->eo-learn) (45.2.0)
Requirement already satisfied, skipping upgrade: click-plugins in /usr/lib/python3/dist-packages (from rasterio>=1.2.7->eo-learn-io>=1.0.0->eo-learn) (1.1.1)
Requirement already satisfied, skipping upgrade: cligj>=0.5 in /usr/lib/python3/dist-packages (from rasterio>=1.2.7->eo-learn-io>=1.0.0->eo-learn) (0.5.0)
Requirement already satisfied, skipping upgrade: affine in ./.local/lib/python3.8/site-packages (from rasterio>=1.2.7->eo-learn-io>=1.0.0->eo-learn) (2.3.0)
Requirement already satisfied, skipping upgrade: snuggs>=1.4.1 in ./.local/lib/python3.8/site-packages (from rasterio>=1.2.7->eo-learn-io>=1.0.0->eo-learn) (1.4.7)
Requirement already satisfied, skipping upgrade: click>=4.0 in /usr/lib/python3/dist-packages (from rasterio>=1.2.7->eo-learn-io>=1.0.0->eo-learn) (7.0)
Requirement already satisfied, skipping upgrade: pyproj>=2.2.0 in /usr/lib/python3/dist-packages (from sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (3.2.1)
Requirement already satisfied, skipping upgrade: oauthlib in /usr/lib/python3/dist-packages (from sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (3.1.0)
Requirement already satisfied, skipping upgrade: aenum>=2.1.4 in ./.local/lib/python3.8/site-packages (from sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (3.1.8)
Requirement already satisfied, skipping upgrade: dataclasses-json in ./.local/lib/python3.8/site-packages (from sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (0.5.6)
Requirement already satisfied, skipping upgrade: requests>=2.5.0 in /usr/lib/python3/dist-packages (from sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (2.22.0)
Requirement already satisfied, skipping upgrade: tifffile in ./.local/lib/python3.8/site-packages (from sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (2022.2.9)
Requirement already satisfied, skipping upgrade: utm in ./.local/lib/python3.8/site-packages (from sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (0.7.0)
Requirement already satisfied, skipping upgrade: requests-oauthlib in ./.local/lib/python3.8/site-packages (from sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (1.3.1)
Requirement already satisfied, skipping upgrade: pillow<=8.4.0,>=8.3.2 in ./.local/lib/python3.8/site-packages (from sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (8.4.0)
Requirement already satisfied, skipping upgrade: botocore in ./.local/lib/python3.8/site-packages (from sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (1.24.2)
Requirement already satisfied, skipping upgrade: jmespath<1.0.0,>=0.7.1 in ./.local/lib/python3.8/site-packages (from boto3->eo-learn-io>=1.0.0->eo-learn) (0.10.0)
Requirement already satisfied, skipping upgrade: s3transfer<0.6.0,>=0.5.0 in ./.local/lib/python3.8/site-packages (from boto3->eo-learn-io>=1.0.0->eo-learn) (0.5.1)
Requirement already satisfied, skipping upgrade: thunder-python>=1.2.0 in ./.local/lib/python3.8/site-packages (from thunder-registration->eo-learn-coregistration>=1.0.0->eo-learn) (1.4.2)
Requirement already satisfied, skipping upgrade: six>=1.5 in /usr/lib/python3/dist-packages (from python-dateutil->eo-learn-features>=1.0.0->eo-learn) (1.14.0)
Requirement already satisfied, skipping upgrade: llvmlite<0.39,>=0.38.0rc1 in ./.local/lib/python3.8/site-packages (from numba>=0.53.0->eo-learn-features>=1.0.0->eo-learn) (0.38.0)
Requirement already satisfied, skipping upgrade: threadpoolctl>=2.0.0 in ./.local/lib/python3.8/site-packages (from scikit-learn->eo-learn-features>=1.0.0->eo-learn) (3.1.0)
Requirement already satisfied, skipping upgrade: joblib>=0.11 in ./.local/lib/python3.8/site-packages (from scikit-learn->eo-learn-features>=1.0.0->eo-learn) (1.1.0)
Requirement already satisfied, skipping upgrade: PyWavelets>=1.1.1 in ./.local/lib/python3.8/site-packages (from scikit-image>=0.19.0->eo-learn-features>=1.0.0->eo-learn) (1.2.0)
Requirement already satisfied, skipping upgrade: imageio>=2.4.1 in ./.local/lib/python3.8/site-packages (from scikit-image>=0.19.0->eo-learn-features>=1.0.0->eo-learn) (2.16.0)
Requirement already satisfied, skipping upgrade: networkx>=2.2 in ./.local/lib/python3.8/site-packages (from scikit-image>=0.19.0->eo-learn-features>=1.0.0->eo-learn) (2.6.3)
Requirement already satisfied, skipping upgrade: packaging>=20.0 in /usr/lib/python3/dist-packages (from scikit-image>=0.19.0->eo-learn-features>=1.0.0->eo-learn) (20.3)
Requirement already satisfied, skipping upgrade: wheel in /usr/lib/python3/dist-packages (from lightgbm>=2.0.11->eo-learn-mask>=1.0.0->eo-learn) (0.34.2)
Requirement already satisfied, skipping upgrade: pytz in ./.local/lib/python3.8/site-packages (from fs->eo-learn-core>=1.0.0->eo-learn) (2021.3)
Requirement already satisfied, skipping upgrade: appdirs~=1.4.3 in ./.local/lib/python3.8/site-packages (from fs->eo-learn-core>=1.0.0->eo-learn) (1.4.4)
Requirement already satisfied, skipping upgrade: pyparsing>=2.1.6 in /usr/lib/python3/dist-packages (from snuggs>=1.4.1->rasterio>=1.2.7->eo-learn-io>=1.0.0->eo-learn) (2.4.6)
Requirement already satisfied, skipping upgrade: typing-inspect>=0.4.0 in ./.local/lib/python3.8/site-packages (from dataclasses-json->sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (0.7.1)
Requirement already satisfied, skipping upgrade: marshmallow<4.0.0,>=3.3.0 in ./.local/lib/python3.8/site-packages (from dataclasses-json->sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (3.14.1)
Requirement already satisfied, skipping upgrade: marshmallow-enum<2.0.0,>=1.5.1 in ./.local/lib/python3.8/site-packages (from dataclasses-json->sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (1.5.1)
Requirement already satisfied, skipping upgrade: urllib3<1.27,>=1.25.4 in /usr/lib/python3/dist-packages (from botocore->sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (1.25.8)
Requirement already satisfied, skipping upgrade: boto>=2.36.0 in ./.local/lib/python3.8/site-packages (from thunder-python>=1.2.0->thunder-registration->eo-learn-coregistration>=1.0.0->eo-learn) (2.49.0)
Requirement already satisfied, skipping upgrade: bolt-python>=0.7.0 in ./.local/lib/python3.8/site-packages (from thunder-python>=1.2.0->thunder-registration->eo-learn-coregistration>=1.0.0->eo-learn) (0.7.1)
Requirement already satisfied, skipping upgrade: mypy-extensions>=0.3.0 in ./.local/lib/python3.8/site-packages (from typing-inspect>=0.4.0->dataclasses-json->sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (0.4.3)
Requirement already satisfied, skipping upgrade: typing-extensions>=3.7.4 in ./.local/lib/python3.8/site-packages (from typing-inspect>=0.4.0->dataclasses-json->sentinelhub>=3.4.0->eo-learn-io>=1.0.0->eo-learn) (4.1.1)
$ pip install --user --upgrade --upgrade-strategy=only-if-needed ipyleaflet
Collecting ipyleaflet
Downloading ipyleaflet-0.15.0-py2.py3-none-any.whl (3.3 MB)
| | 3.3 MB 364 kB/s
Collecting traittypes<3,>=0.2.1
Downloading traittypes-0.2.1-py2.py3-none-any.whl (8.6 kB)
Collecting xyzservices>=2021.8.1
Downloading xyzservices-2022.2.0-py3-none-any.whl (35 kB)
Collecting ipywidgets<8,>=7.6.0
Downloading ipywidgets-7.6.5-py2.py3-none-any.whl (121 kB)
| | 121 kB 338 kB/s
Requirement already satisfied, skipping upgrade: traitlets>=4.2.2 in /usr/lib/python3/dist-packages (from traittypes<3,>=0.2.1->ipyleaflet) (4.3.3)
Requirement already satisfied, skipping upgrade: ipykernel>=4.5.1 in /usr/lib/python3/dist-packages (from ipywidgets<8,>=7.6.0->ipyleaflet) (5.2.0)
Requirement already satisfied, skipping upgrade: ipython>=4.0.0; python_version >= "3.3" in /usr/lib/python3/dist-packages (from ipywidgets<8,>=7.6.0->ipyleaflet) (7.13.0)
Requirement already satisfied, skipping upgrade: ipython-genutils~=0.2.0 in /usr/lib/python3/dist-packages (from ipywidgets<8,>=7.6.0->ipyleaflet) (0.2.0)
Collecting jupyterlab-widgets>=1.0.0; python_version >= "3.6"
Downloading jupyterlab_widgets-1.0.2-py3-none-any.whl (243 kB)
| | 243 kB 376 kB/s
Collecting widgetsnbextension~=3.5.0
Downloading widgetsnbextension-3.5.2-py2.py3-none-any.whl (1.6 MB)
| | 1.6 MB 359 kB/s
Requirement already satisfied, skipping upgrade: nbformat>=4.2.0 in /usr/lib/python3/dist-packages (from ipywidgets<8,>=7.6.0->ipyleaflet) (5.0.4)
Requirement already satisfied, skipping upgrade: pexpect in /usr/lib/python3/dist-packages (from ipython>=4.0.0; python_version >= "3.3"->ipywidgets<8,>=7.6.0->ipyleaflet) (4.6.0)
Requirement already satisfied, skipping upgrade: notebook>=4.4.1 in /usr/lib/python3/dist-packages (from widgetsnbextension~=3.5.0->ipywidgets<8,>=7.6.0->ipyleaflet) (6.0.3)
Installing collected packages: traittypes, xyzservices, jupyterlab-widgets, widgetsnbextension, ipywidgets, ipyleaflet
Successfully installed ipyleaflet-0.15.0 ipywidgets-7.6.5 jupyterlab-widgets-1.0.2 traittypes-0.2.1 widgetsnbextension-3.5.2 xyzservices-2022.2.0
##jupyter nbextension enable --py --sys-prefix{?} ipyleaflet # can be skipped for notebook 5.3 and above
R setup
Focal default R $ R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
A better future awaits: https://cran.r-project.org/bin/linux/ubuntu/
-- R language example
Explainable Machine Learning for Land Cover Classification by Courage K. 2021
# Load the libraries example code from aigeolabs.com rm(list=ls()) library(sf) # represents simple features as native R objects library(rgdal) # interface to the “Geospatial Data Abstraction Library (GDAL) library(raster) # provides important functions for importing and handling raster data library(rasterVis) # provides functions to display raster objects library(dplyr) # provides basic data transformation functions library(ggplot2) # provides extension for visualizations library(mapview) # provides functions to visualize geospatial data library(randomForest) # implements Breiman’s random forest (RF) algorithm library(kernlab) # implements support vector machine (SVM) algorithm library(corrplot) # provides graphical display of a correlation matrix library(iml) # Keras-base tools for analyzing machine learning models library(caret) # machine learning helper ##--------------
## Focal R apt $ apt install r-base-core --yes ... The following NEW packages will be installed: gfortran gfortran-9 libgfortran-9-dev libpcre2-32-0 libpcre2-dev libpcre2-posix2 r-base-core r-base-dev r-cran-boot r-cran-class r-cran-cluster r-cran-codetools r-cran-foreign r-cran-kernsmooth r-cran-lattice r-cran-mass r-cran-matrix r-cran-mgcv r-cran-nlme r-cran-nnet r-cran-rpart r-cran-spatial r-cran-survival r-doc-html r-recommended $ apt install r-cran-sf --yes ... The following NEW packages will be installed: fonts-glewlwyd libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery-datatables libjs-jquery-datatables-extensions libjs-jquery-selectize.js libjs-json libjs-microplugin.js libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker libnode64 libudunits2-0 libudunits2-data littler node-highlight.js node-html5shiv node-normalize.css nodejs nodejs-doc r-cran-abind r-cran-askpass r-cran-assertthat r-cran-backports r-cran-base64enc r-cran-bh r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-brew r-cran-callr r-cran-classint r-cran-cli r-cran-cliapp r-cran-clipr r-cran-clisymbols r-cran-colorspace r-cran-commonmark r-cran-covr r-cran-crayon r-cran-crosstalk r-cran-curl r-cran-data.table r-cran-dbi r-cran-dbitest r-cran-deldir r-cran-desc r-cran-devtools r-cran-diffobj r-cran-digest r-cran-domc r-cran-dplyr r-cran-dt r-cran-e1071 r-cran-ellipsis r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-filehash r-cran-fontbitstreamvera r-cran-fontliberation r-cran-fontquiver r-cran-foreach r-cran-freetypeharfbuzz r-cran-fs r-cran-future r-cran-gdtools r-cran-generics r-cran-ggplot2 r-cran-gh r-cran-git2r r-cran-globals r-cran-glue r-cran-goftest r-cran-gsl r-cran-gtable r-cran-hexbin r-cran-highr r-cran-hms r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-httr r-cran-ini r-cran-iterators r-cran-jsonlite r-cran-knitr r-cran-labeling r-cran-later r-cran-lazyeval r-cran-lifecycle r-cran-listenv r-cran-littler r-cran-lubridate r-cran-magrittr r-cran-mapproj r-cran-maps r-cran-maptools r-cran-markdown r-cran-memoise r-cran-mime r-cran-mockery r-cran-mockr r-cran-multicore r-cran-munsell r-cran-openssl r-cran-pillar r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plogr r-cran-plyr r-cran-png r-cran-polyclip r-cran-praise r-cran-prettycode r-cran-prettyunits r-cran-processx r-cran-progress r-cran-promises r-cran-ps r-cran-purrr r-cran-r.methodss3 r-cran-r.oo r-cran-r6 r-cran-randomfields r-cran-randomfieldsutils r-cran-raster r-cran-rcmdcheck r-cran-rcolorbrewer r-cran-rcpp r-cran-remotes r-cran-reshape2 r-cran-rex r-cran-rgdal r-cran-rlang r-cran-rmarkdown r-cran-roxygen2 r-cran-rpostgresql r-cran-rprojroot r-cran-rsqlite r-cran-rstudioapi r-cran-runit r-cran-rversions r-cran-scales r-cran-selectr r-cran-sessioninfo r-cran-sf r-cran-shiny r-cran-sodium r-cran-sourcetools r-cran-sp r-cran-spatstat r-cran-spatstat.data r-cran-spatstat.utils r-cran-stringi r-cran-stringr r-cran-sys r-cran-systemfonts r-cran-tensor r-cran-testit r-cran-testthat r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-tikzdevice r-cran-tinytex r-cran-units r-cran-usethis r-cran-utf8 r-cran-vctrs r-cran-vdiffr r-cran-viridislite r-cran-webutils r-cran-whisker r-cran-withr r-cran-xfun r-cran-xml r-cran-xml2 r-cran-xopen r-cran-xtable r-cran-yaml 0 upgraded, 186
'''R''' library '''stars''' -- scalable, spatiotemporal tidy arrays for GNU R Using GDAL bindings, stars package provides support for scalable, spatiotemporal tidy arrays in GNU R. $ sudo apt install r-cran-stars -s ... The following additional packages will be installed: libnlopt0 libproj15 r-cran-aer r-cran-bdsmatrix r-cran-bibtex r-cran-broom r-cran-car r-cran-cardata r-cran-catools r-cran-cellranger r-cran-clubsandwich r-cran-dynlm r-cran-forcats r-cran-formula r-cran-fts r-cran-gbrd r-cran-gdata r-cran-geepack r-cran-geosphere r-cran-gplots r-cran-gtools r-cran-haven r-cran-intervals r-cran-lme4 r-cran-lmtest r-cran-lwgeom r-cran-matrixmodels r-cran-maxlik r-cran-minqa r-cran-misctools r-cran-mlmrev r-cran-ncdf4 r-cran-ncdfgeom r-cran-ncmeta r-cran-nloptr r-cran-numderiv r-cran-openxlsx r-cran-pbkrtest r-cran-pcict r-cran-plm r-cran-pscl r-cran-quadprog r-cran-quantmod r-cran-quantreg r-cran-rcppeigen r-cran-rdpack r-cran-readr r-cran-readxl r-cran-rematch r-cran-rio r-cran-rnetcdf r-cran-rocr r-cran-sandwich r-cran-spacetime r-cran-sparsem r-cran-spdata r-cran-strucchange r-cran-systemfit r-cran-timedate r-cran-timeseries r-cran-tseries r-cran-ttr r-cran-urca r-cran-xts r-cran-zip r-cran-zoo Suggested packages: r-cran-effects r-cran-fgarch r-cran-forecast r-cran-rgl r-cran-scatterplot3d r-cran-bbmle r-cran-brms r-cran-caret r-cran-coda r-cran-emmeans r-cran-gam r-cran-glmnet r-cran-gmm r-cran-hmisc r-cran-irlba r-cran-ks r-cran-lavaan r-cran-lsmeans r-cran-mclust r-cran-multcomp r-cran-ordinal r-cran-psych r-cran-robust r-cran-rsample r-cran-rstan r-cran-rstanarm r-cran-survey r-cran-tidyverse r-cran-spdep r-cran-statmod r-cran-bookdown r-cran-mcmcpack r-cran-vcd r-cran-mvtnorm r-cran-mapdata r-cran-googlevis r-cran-isocodes r-cran-spatialreg r-cran-future.apply r-cran-ggthemes r-cran-pbapply r-cran-viridis r-cran-sem r-cran-robustbase r-cran-chron The following NEW packages will be installed: libnlopt0 libproj15 r-cran-aer r-cran-bdsmatrix r-cran-bibtex r-cran-broom r-cran-car r-cran-cardata r-cran-catools r-cran-cellranger r-cran-clubsandwich r-cran-dynlm r-cran-forcats r-cran-formula r-cran-fts r-cran-gbrd r-cran-gdata r-cran-geepack r-cran-geosphere r-cran-gplots r-cran-gtools r-cran-haven r-cran-intervals r-cran-lme4 r-cran-lmtest r-cran-lwgeom r-cran-matrixmodels r-cran-maxlik r-cran-minqa r-cran-misctools r-cran-mlmrev r-cran-ncdf4 r-cran-ncdfgeom r-cran-ncmeta r-cran-nloptr r-cran-numderiv r-cran-openxlsx r-cran-pbkrtest r-cran-pcict r-cran-plm r-cran-pscl r-cran-quadprog r-cran-quantmod r-cran-quantreg r-cran-rcppeigen r-cran-rdpack r-cran-readr r-cran-readxl r-cran-rematch r-cran-rio r-cran-rnetcdf r-cran-rocr r-cran-sandwich r-cran-spacetime r-cran-sparsem r-cran-spdata r-cran-stars r-cran-strucchange r-cran-systemfit r-cran-timedate r-cran-timeseries r-cran-tseries r-cran-ttr r-cran-urca r-cran-xts r-cran-zip r-cran-zoo
Warning from rgdal
...
> library(rgdal)
Loading required package: sp
rgdal: version: 1.5-18, (SVN revision 1082)
Geospatial Data Abstraction Library extensions to R successfully loaded
Loaded GDAL runtime: GDAL 3.4.0, released 2021/11/04
Path to GDAL shared files: /usr/share/gdal
GDAL binary built with GEOS: TRUE
Loaded PROJ runtime: Rel. 8.2.0, November 1st, 2021, [PJ_VERSION: 820]
Path to PROJ shared files: /home/dbb/.local/share/proj:/usr/share/proj
PROJ CDN enabled: FALSE
Linking to sp version:1.4-0
To mute warnings of possible GDAL/OSR exportToProj4() degradation,
use options("rgdal_show_exportToProj4_warnings"="none") before loading rgdal.
OSGeoLive install_R.sh ver14 apt-get --assume-yes install r-base-core r-cran-sp r-cran-rpostgresql r-cran-udunits2 \ r-cran-ggplot2 r-cran-sf r-cran-lwgeom r-cran-spdata r-cran-rgdal r-cran-maptools
osgeolive 10 patch
in 2016, after being alerted -LINK- , I used pip to upgrade ipywidgets on the OSGeo-Live 10.0 base system.
The following is a modified patch file showing the changes in Python 2.7:
## Major components, version changed -ipykernel==4.2.2 +ipykernel==4.5.2 ... -ipython==4.0.2 +ipython==5.1.0 -ipywidgets==5.1.5 +ipywidgets==5.2.2 -jupyter-client==4.1.1 +jupyter-client==4.4.0 jupyter-console==4.1.0 -jupyter-core==4.0.6 +jupyter-core==4.2.1 -notebook==4.2.1 +notebook==4.3.0 -nbconvert==4.1.0 -nbformat==4.0.1 +nbconvert==5.0.0 +nbformat==4.2.0 +html5lib==0.9999999 -ptyprocess==0.5 +ptyprocess==0.5.1 -pexpect==4.0.1 -pickleshare==0.5 +pexpect==4.2.1 +pickleshare==0.7.4 -decorator==4.0.6 +decorator==4.0.10 ##-- misc other additions -- +backports-abc==0.5 +backports.shutil-get-terminal-size==1.0.0 +bleach==1.5.0 +certifi==2016.9.26 +configparser==3.5.0 -enum34==1.1.2 +entrypoints==0.2.2 +enum34==1.1.6 -mistune==0.7.1 +mistune==0.7.3 +pandocfilters==1.4.1 +pathlib2==2.1.0 +prompt-toolkit==1.0.9 -Pygments==2.1 +Pygments==2.1.3 -pyzmq==15.2.0 +pyzmq==16.0.2 +testpath==0.3 -tornado==4.2.1 -traitlets==4.1.0 +tornado==4.4.2 +traitlets==4.3.1 +wcwidth==0.1.7 -widgetsnbextension==1.2.3 +widgetsnbextension==1.2.6 ##-- misc other python libs (unchanged) anyjson==0.3.3 Biggus==0.13.0 Cartopy==0.14.2 celery==3.1.20 cf-units==1.0.0 colorama==0.3.7 cycler==0.9.0 defer==1.0.6 descartes==1.0.1 filemagic==1.6 Fiona==1.6.3 Iris==1.9.2 imposm==2.6.0 imposm.parser==1.0.7 ipyleaflet==0.2.0 jsonschema==2.5.1 meld==3.14.2 ModestMaps==1.4.6 netCDF4==1.2.4 Nik4==1.6.0 numpy==1.11.0 osmapi==0.6.2 OWSLib==0.10.3 pandas==0.17.1 psutil==3.4.2 psycopg2==2.6.1 pykml==0.1.1 pywps==3.2.5 rasterio==0.31.0 TileStache==1.49.8
Snapshot local python install -- All Packages
Sat 26 Feb 2022 07:10:31 PM PST $ ls .local/lib/python3.8/site-packages/ | grep info | sed -e 's/\.dist-info//' aenum-3.1.8 affine-2.3.0 appdirs-1.4.4 bolt_python-0.7.1 boto-2.49.0 boto3-1.21.2 botocore-1.24.2 branca-0.4.2 charset_normalizer-2.0.12 dataclasses_json-0.5.6 Deprecated-1.2.13 eo_learn-1.0.0 eo_learn_core-1.0.0 eo_learn_coregistration-1.0.0 eo_learn_features-1.0.0 eo_learn_geometry-1.0.0 eo_learn_io-1.0.0 eo_learn_mask-1.0.0 eo_learn_ml_tools-1.0.0 eo_learn_visualization-1.0.0 folium-0.12.1.post1 fs-2.4.15 fs_s3fs-1.1.1 graphviz-0.19.1 imageio-2.16.0 ipyleaflet-0.15.0 ipywidgets-7.6.5 jmespath-0.10.0 joblib-1.1.0 jupyterlab_widgets-1.0.2 lightgbm-3.3.2 llvmlite-0.38.0 marshmallow-3.14.1 marshmallow_enum-1.5.1 mypy_extensions-0.4.3 networkx-2.6.3 numba-0.55.1 numpy-1.21.5 opencv_contrib_python_headless-4.5.5.62 openeo-0.9.2 pandas-1.4.1 Pillow-8.4.0 python_dateutil-2.8.2 pytz-2021.3 PyWavelets-1.2.0 rasterio-1.2.10 requests-2.27.1 requests_oauthlib-1.3.1 s3transfer-0.5.1 scikit_image-0.19.2 scikit_learn-1.0.2 scipy-1.8.0 sentinelhub-3.4.4 snuggs-1.4.7 threadpoolctl-3.1.0 thunder_python-1.4.2 thunder_registration-1.0.1 tifffile-2022.2.9 tqdm-4.62.3 traittypes-0.2.1 typing_extensions-4.1.1 typing_inspect-0.7.1 utm-0.7.0 widgetsnbextension-3.5.2 wrapt-1.13.3 xarray-0.21.1 xyzservices-2022.2.0