0s autopkgtest [10:38:45]: starting date and time: 2024-05-24 10:38:45+0000 0s autopkgtest [10:38:45]: git checkout: 699e7f9f ssh-setup/nova: explicitely set 'fqdn' in cloud-init 0s autopkgtest [10:38:45]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.5abmgmiw/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:r-cran-ggplot2 --apt-upgrade r-cran-stars --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=r-cran-ggplot2/3.5.1+dfsg-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@lcy02-103.secgroup --name adt-oracular-amd64-r-cran-stars-20240524-094623-juju-7f2275-prod-proposed-migration-environment-2-a8fc73d8-b8c2-4c64-87ab-3300fe6d8cef --image adt/ubuntu-oracular-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 83s autopkgtest [10:40:08]: testbed dpkg architecture: amd64 83s autopkgtest [10:40:08]: testbed apt version: 2.9.3 83s autopkgtest [10:40:08]: @@@@@@@@@@@@@@@@@@@@ test bed setup 84s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease [73.9 kB] 84s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/restricted Sources [1964 B] 84s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/universe Sources [524 kB] 84s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse Sources [3388 B] 84s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/main Sources [57.4 kB] 84s Get:6 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 Packages [179 kB] 84s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/main i386 Packages [140 kB] 84s Get:8 http://ftpmaster.internal/ubuntu oracular-proposed/restricted amd64 Packages [7700 B] 84s Get:9 http://ftpmaster.internal/ubuntu oracular-proposed/universe amd64 Packages [545 kB] 84s Get:10 http://ftpmaster.internal/ubuntu oracular-proposed/universe i386 Packages [198 kB] 84s Get:11 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse i386 Packages [1392 B] 84s Get:12 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse amd64 Packages [2536 B] 84s Fetched 1734 kB in 0s (5271 kB/s) 84s Reading package lists... 86s Reading package lists... 86s Building dependency tree... 86s Reading state information... 87s Calculating upgrade... 87s The following packages will be upgraded: 87s libclang-cpp18 libclang1-18 libllvm18 87s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 87s Need to get 48.8 MB of archives. 87s After this operation, 726 kB of additional disk space will be used. 87s Get:1 http://ftpmaster.internal/ubuntu oracular/main amd64 libclang-cpp18 amd64 1:18.1.6-1 [13.5 MB] 87s Get:2 http://ftpmaster.internal/ubuntu oracular/main amd64 libllvm18 amd64 1:18.1.6-1 [27.5 MB] 88s Get:3 http://ftpmaster.internal/ubuntu oracular/main amd64 libclang1-18 amd64 1:18.1.6-1 [7804 kB] 88s Fetched 48.8 MB in 0s (117 MB/s) 88s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 74358 files and directories currently installed.) 88s Preparing to unpack .../libclang-cpp18_1%3a18.1.6-1_amd64.deb ... 88s Unpacking libclang-cpp18 (1:18.1.6-1) over (1:18.1.3-1) ... 89s Preparing to unpack .../libllvm18_1%3a18.1.6-1_amd64.deb ... 89s Unpacking libllvm18:amd64 (1:18.1.6-1) over (1:18.1.3-1) ... 89s Preparing to unpack .../libclang1-18_1%3a18.1.6-1_amd64.deb ... 89s Unpacking libclang1-18 (1:18.1.6-1) over (1:18.1.3-1) ... 90s Setting up libllvm18:amd64 (1:18.1.6-1) ... 90s Setting up libclang1-18 (1:18.1.6-1) ... 90s Setting up libclang-cpp18 (1:18.1.6-1) ... 90s Processing triggers for libc-bin (2.39-0ubuntu8.1) ... 90s Reading package lists... 90s Building dependency tree... 90s Reading state information... 91s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 91s Hit:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease 91s Hit:2 http://ftpmaster.internal/ubuntu oracular InRelease 91s Hit:3 http://ftpmaster.internal/ubuntu oracular-updates InRelease 91s Hit:4 http://ftpmaster.internal/ubuntu oracular-security InRelease 92s Reading package lists... 92s Reading package lists... 92s Building dependency tree... 92s Reading state information... 93s Calculating upgrade... 93s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 93s Reading package lists... 93s Building dependency tree... 93s Reading state information... 94s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 95s autopkgtest [10:40:20]: testbed running kernel: Linux 6.8.0-31-generic #31-Ubuntu SMP PREEMPT_DYNAMIC Sat Apr 20 00:40:06 UTC 2024 95s autopkgtest [10:40:20]: @@@@@@@@@@@@@@@@@@@@ apt-source r-cran-stars 96s Get:1 http://ftpmaster.internal/ubuntu oracular/universe r-cran-stars 0.6-4-1 (dsc) [2749 B] 96s Get:2 http://ftpmaster.internal/ubuntu oracular/universe r-cran-stars 0.6-4-1 (tar) [3714 kB] 96s Get:3 http://ftpmaster.internal/ubuntu oracular/universe r-cran-stars 0.6-4-1 (diff) [4316 B] 96s gpgv: Signature made Tue Oct 17 13:19:14 2023 UTC 96s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 96s gpgv: issuer "tille@debian.org" 96s gpgv: Can't check signature: No public key 96s dpkg-source: warning: cannot verify inline signature for ./r-cran-stars_0.6-4-1.dsc: no acceptable signature found 96s autopkgtest [10:40:21]: testing package r-cran-stars version 0.6-4-1 97s autopkgtest [10:40:22]: build not needed 100s autopkgtest [10:40:25]: test run-unit-test: preparing testbed 100s Reading package lists... 100s Building dependency tree... 100s Reading state information... 101s Starting pkgProblemResolver with broken count: 0 101s Starting 2 pkgProblemResolver with broken count: 0 101s Done 101s The following additional packages will be installed: 101s fontconfig fonts-font-awesome fonts-glyphicons-halflings fonts-mathjax 101s gdal-data gdal-plugins javascript-common libaec0 libarmadillo12 101s libarpack2t64 libblas3 libblosc1 libcairo2 libcfitsio10t64 libdatrie1 101s libfreexl1 libfyba0t64 libgdal34t64 libgeos-c1t64 libgeos3.12.1t64 101s libgeotiff5 libgfortran5 libgif7 libgomp1 libgraphite2-3 libharfbuzz0b 101s libhdf4-0-alt libhdf5-103-1t64 libhdf5-hl-100t64 libice6 libjs-bootstrap 101s libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery 101s libjs-jquery-datatables libjs-jquery-selectize.js libjs-jquery-ui libjs-json 101s libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js 101s libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker 101s libkmlbase1t64 libkmldom1t64 libkmlengine1t64 liblapack3 liblcms2-2 libltdl7 101s liblua5.4-0 libminizip1t64 libmysqlclient21 libnetcdf19t64 libodbc2 101s libodbcinst2 libogdi4.1 libopenjp2-7 libpango-1.0-0 libpangocairo-1.0-0 101s libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpoppler134 101s libpq5 libproj25 libqhull-r8.0 librttopo1 libsm6 libsnappy1v5 101s libspatialite8t64 libsuperlu6 libsz2 libtcl8.6 libthai-data libthai0 101s libtk8.6 libudunits2-0 libudunits2-data liburiparser1 libxcb-render0 101s libxcb-shm0 libxerces-c3.2t64 libxft2 libxrender1 libxss1 libxt6t64 littler 101s mysql-common node-bootstrap-sass node-html5shiv node-normalize.css pandoc 101s pandoc-data proj-data r-base-core r-cran-abind r-cran-areal r-cran-askpass 101s r-cran-base64enc r-cran-bdsmatrix r-cran-brio r-cran-bslib r-cran-cachem 101s r-cran-cairo r-cran-callr r-cran-class r-cran-classint r-cran-cli 101s r-cran-clue r-cran-cluster r-cran-codetools r-cran-collapse 101s r-cran-colorspace r-cran-commonmark r-cran-covr r-cran-cpp11 r-cran-crayon 101s r-cran-cubelyr r-cran-curl r-cran-dbi r-cran-deldir r-cran-desc 101s r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-e1071 r-cran-evaluate 101s r-cran-exactextractr r-cran-fansi r-cran-farver r-cran-fastmap r-cran-fnn 101s r-cran-fontawesome r-cran-formula r-cran-fs r-cran-future 101s r-cran-future.apply r-cran-generics r-cran-ggforce r-cran-ggplot2 101s r-cran-ggthemes r-cran-globals r-cran-glue r-cran-goftest r-cran-gridextra 101s r-cran-gstat r-cran-gtable r-cran-highr r-cran-htmltools r-cran-httpuv 101s r-cran-httr r-cran-intervals r-cran-isoband r-cran-jquerylib r-cran-jsonlite 101s r-cran-kernsmooth r-cran-knitr r-cran-labeling r-cran-later r-cran-lattice 101s r-cran-lazyeval r-cran-lifecycle r-cran-listenv r-cran-littler r-cran-lmtest 101s r-cran-lwgeom r-cran-magrittr r-cran-mapdata r-cran-maps r-cran-mass 101s r-cran-matrix r-cran-maxlik r-cran-memoise r-cran-mgcv r-cran-mime 101s r-cran-misctools r-cran-munsell r-cran-ncdfgeom r-cran-ncmeta r-cran-nlme 101s r-cran-openssl r-cran-parallelly r-cran-pbapply r-cran-pcict r-cran-pillar 101s r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plm 101s r-cran-polyclip r-cran-praise r-cran-processx r-cran-promises r-cran-proxy 101s r-cran-ps r-cran-purrr r-cran-r6 r-cran-randomforest r-cran-rappdirs 101s r-cran-raster r-cran-rbibutils r-cran-rcolorbrewer r-cran-rcpp 101s r-cran-rcppeigen r-cran-rdpack r-cran-rematch2 r-cran-rex r-cran-rlang 101s r-cran-rmarkdown r-cran-rnetcdf r-cran-rpart r-cran-rprojroot r-cran-s2 101s r-cran-sandwich r-cran-sass r-cran-scales r-cran-sf r-cran-sftime 101s r-cran-shiny r-cran-sourcetools r-cran-sp r-cran-spacetime r-cran-spatstat 101s r-cran-spatstat.data r-cran-spatstat.explore r-cran-spatstat.geom 101s r-cran-spatstat.linnet r-cran-spatstat.model r-cran-spatstat.random 101s r-cran-spatstat.sparse r-cran-spatstat.utils r-cran-stars r-cran-stringi 101s r-cran-stringr r-cran-survival r-cran-sys r-cran-systemfonts r-cran-tensor 101s r-cran-terra r-cran-testthat r-cran-tibble r-cran-tidyr r-cran-tidyselect 101s r-cran-tinytex r-cran-tweenr r-cran-units r-cran-utf8 r-cran-vctrs 101s r-cran-viridis r-cran-viridislite r-cran-waldo r-cran-withr r-cran-wk 101s r-cran-xfun r-cran-xtable r-cran-xts r-cran-yaml r-cran-zoo unixodbc-common 101s unzip x11-common xdg-utils zip 101s Suggested packages: 101s apache2 | lighttpd | httpd geotiff-bin gdal-bin libgeotiff-epsg 101s libhdf4-alt-dev hdf4-tools libjs-jquery-ui-docs fonts-mathjax-extras 101s fonts-stix libjs-mathjax-doc liblcms2-utils odbc-postgresql tdsodbc ogdi-bin 101s proj-bin tcl8.6 tk8.6 nodejs texlive-latex-recommended texlive-xetex 101s texlive-luatex pandoc-citeproc texlive-latex-extra context wkhtmltopdf 101s librsvg2-bin groff ghc php python ruby libjs-katex 101s citation-style-language-styles elpa-ess r-doc-info | r-doc-pdf r-mathlib 101s r-base-html r-cran-png r-cran-lpsolve r-cran-quadprog r-cran-kernlab 101s r-cran-mvtnorm r-cran-vcd r-cran-shinyjs r-cran-jpeg r-cran-rstudioapi 101s r-cran-rmysql r-cran-sessioninfo r-cran-reshape2 r-cran-magick r-cran-getopt 101s r-cran-mapproj r-cran-tinytest r-cran-bit64 r-cran-formattable 101s r-cran-nanotime r-cran-palmerpenguins r-cran-vdiffr r-cran-roxygen2 101s r-cran-inline r-cran-hmisc r-cran-rvest r-cran-spelling r-cran-bench 101s r-cran-blob r-cran-here r-cran-hms 101s Recommended packages: 101s proj-bin node-jquery poppler-data r-recommended r-base-dev r-doc-html 101s r-cran-thematic r-cran-mockery r-cran-spelling r-cran-spdata r-cran-tinytest 101s r-cran-htmlwidgets r-cran-rstudioapi r-cran-whoami r-cran-data.table 101s r-cran-rcpparmadillo r-cran-xml2 r-cran-dt r-cran-bench r-cran-decor 101s r-cran-lobstr r-cran-progress r-cran-webutils r-cran-gh r-cran-broom 101s r-cran-dbplyr r-cran-rmysql r-cran-rpostgresql r-cran-rsqlite r-cran-foreign 101s r-cran-ncdf4 r-cran-unitizer r-cran-rsvg r-cran-rhpcblasctl r-cran-r.rsp 101s r-cran-markdown r-cran-hexbin r-cran-hmisc r-cran-mapproj r-cran-multcomp 101s r-cran-profvis r-cran-quantreg r-cran-ragg r-cran-svglite r-cran-vdiffr 101s r-cran-lintr r-cran-pander r-cran-fields r-cran-testit r-cran-jpeg 101s r-cran-png r-cran-readr r-cran-formatr r-cran-gridsvg r-cran-magick 101s r-cran-reticulate r-cran-rgl r-cran-tikzdevice r-cran-webshot 101s node-highlight.js r-cran-tidyverse r-cran-r.utils r-cran-geosphere 101s r-cran-runit r-cran-pkgdown r-cran-zip r-cran-sodium r-cran-lubridate 101s r-cran-bitops r-cran-mathjaxr r-cran-mockr r-cran-remotes r-cran-aer 101s r-cran-car r-cran-spdep r-cran-statmod r-cran-urca r-cran-bookdown 101s r-cran-webfakes r-cran-cba r-cran-pingr r-cran-igraph r-cran-gbrd 101s r-cran-usethis r-cran-dygraphs r-cran-rsconnect r-cran-downlit r-cran-bit64 101s r-cran-dichromat r-cran-hms r-cran-blob r-cran-nanoarrow r-cran-googlevis 101s r-cran-isocodes r-cran-sm r-cran-gsl r-cran-locfit r-cran-spatial 101s r-cran-nleqslv r-cran-glmnet r-cran-xml r-cran-formattable r-cran-zeallot 101s r-cran-renv r-cran-timeseries r-cran-timedate r-cran-tseries r-cran-chron 101s libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils 101s x11-xserver-utils 101s The following NEW packages will be installed: 101s autopkgtest-satdep fontconfig fonts-font-awesome fonts-glyphicons-halflings 101s fonts-mathjax gdal-data gdal-plugins javascript-common libaec0 101s libarmadillo12 libarpack2t64 libblas3 libblosc1 libcairo2 libcfitsio10t64 101s libdatrie1 libfreexl1 libfyba0t64 libgdal34t64 libgeos-c1t64 101s libgeos3.12.1t64 libgeotiff5 libgfortran5 libgif7 libgomp1 libgraphite2-3 101s libharfbuzz0b libhdf4-0-alt libhdf5-103-1t64 libhdf5-hl-100t64 libice6 101s libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js 101s libjs-jquery libjs-jquery-datatables libjs-jquery-selectize.js 101s libjs-jquery-ui libjs-json libjs-mathjax libjs-microplugin.js 101s libjs-modernizr libjs-popper.js libjs-prettify libjs-sifter.js 101s libjs-twitter-bootstrap-datepicker libkmlbase1t64 libkmldom1t64 101s libkmlengine1t64 liblapack3 liblcms2-2 libltdl7 liblua5.4-0 libminizip1t64 101s libmysqlclient21 libnetcdf19t64 libodbc2 libodbcinst2 libogdi4.1 101s libopenjp2-7 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 101s libpaper-utils libpaper1 libpixman-1-0 libpoppler134 libpq5 libproj25 101s libqhull-r8.0 librttopo1 libsm6 libsnappy1v5 libspatialite8t64 libsuperlu6 101s libsz2 libtcl8.6 libthai-data libthai0 libtk8.6 libudunits2-0 101s libudunits2-data liburiparser1 libxcb-render0 libxcb-shm0 libxerces-c3.2t64 101s libxft2 libxrender1 libxss1 libxt6t64 littler mysql-common 101s node-bootstrap-sass node-html5shiv node-normalize.css pandoc pandoc-data 101s proj-data r-base-core r-cran-abind r-cran-areal r-cran-askpass 101s r-cran-base64enc r-cran-bdsmatrix r-cran-brio r-cran-bslib r-cran-cachem 101s r-cran-cairo r-cran-callr r-cran-class r-cran-classint r-cran-cli 101s r-cran-clue r-cran-cluster r-cran-codetools r-cran-collapse 101s r-cran-colorspace r-cran-commonmark r-cran-covr r-cran-cpp11 r-cran-crayon 101s r-cran-cubelyr r-cran-curl r-cran-dbi r-cran-deldir r-cran-desc 101s r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-e1071 r-cran-evaluate 101s r-cran-exactextractr r-cran-fansi r-cran-farver r-cran-fastmap r-cran-fnn 101s r-cran-fontawesome r-cran-formula r-cran-fs r-cran-future 101s r-cran-future.apply r-cran-generics r-cran-ggforce r-cran-ggplot2 101s r-cran-ggthemes r-cran-globals r-cran-glue r-cran-goftest r-cran-gridextra 101s r-cran-gstat r-cran-gtable r-cran-highr r-cran-htmltools r-cran-httpuv 101s r-cran-httr r-cran-intervals r-cran-isoband r-cran-jquerylib r-cran-jsonlite 101s r-cran-kernsmooth r-cran-knitr r-cran-labeling r-cran-later r-cran-lattice 101s r-cran-lazyeval r-cran-lifecycle r-cran-listenv r-cran-littler r-cran-lmtest 101s r-cran-lwgeom r-cran-magrittr r-cran-mapdata r-cran-maps r-cran-mass 101s r-cran-matrix r-cran-maxlik r-cran-memoise r-cran-mgcv r-cran-mime 101s r-cran-misctools r-cran-munsell r-cran-ncdfgeom r-cran-ncmeta r-cran-nlme 101s r-cran-openssl r-cran-parallelly r-cran-pbapply r-cran-pcict r-cran-pillar 101s r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plm 101s r-cran-polyclip r-cran-praise r-cran-processx r-cran-promises r-cran-proxy 101s r-cran-ps r-cran-purrr r-cran-r6 r-cran-randomforest r-cran-rappdirs 101s r-cran-raster r-cran-rbibutils r-cran-rcolorbrewer r-cran-rcpp 101s r-cran-rcppeigen r-cran-rdpack r-cran-rematch2 r-cran-rex r-cran-rlang 101s r-cran-rmarkdown r-cran-rnetcdf r-cran-rpart r-cran-rprojroot r-cran-s2 101s r-cran-sandwich r-cran-sass r-cran-scales r-cran-sf r-cran-sftime 101s r-cran-shiny r-cran-sourcetools r-cran-sp r-cran-spacetime r-cran-spatstat 101s r-cran-spatstat.data r-cran-spatstat.explore r-cran-spatstat.geom 101s r-cran-spatstat.linnet r-cran-spatstat.model r-cran-spatstat.random 101s r-cran-spatstat.sparse r-cran-spatstat.utils r-cran-stars r-cran-stringi 101s r-cran-stringr r-cran-survival r-cran-sys r-cran-systemfonts r-cran-tensor 101s r-cran-terra r-cran-testthat r-cran-tibble r-cran-tidyr r-cran-tidyselect 101s r-cran-tinytex r-cran-tweenr r-cran-units r-cran-utf8 r-cran-vctrs 101s r-cran-viridis r-cran-viridislite r-cran-waldo r-cran-withr r-cran-wk 101s r-cran-xfun r-cran-xtable r-cran-xts r-cran-yaml r-cran-zoo unixodbc-common 101s unzip x11-common xdg-utils zip 101s 0 upgraded, 270 newly installed, 0 to remove and 0 not upgraded. 101s Need to get 277 MB/277 MB of archives. 101s After this operation, 730 MB of additional disk space will be used. 101s Get:1 /tmp/autopkgtest.CPWIq5/1-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [952 B] 101s Get:2 http://ftpmaster.internal/ubuntu oracular/main amd64 fontconfig amd64 2.15.0-1.1ubuntu2 [180 kB] 101s Get:3 http://ftpmaster.internal/ubuntu oracular/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB] 101s Get:4 http://ftpmaster.internal/ubuntu oracular/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB] 101s Get:5 http://ftpmaster.internal/ubuntu oracular/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 101s Get:6 http://ftpmaster.internal/ubuntu oracular/universe amd64 gdal-data all 3.8.5+dfsg-1 [261 kB] 101s Get:7 http://ftpmaster.internal/ubuntu oracular/universe amd64 gdal-plugins amd64 3.8.5+dfsg-1 [24.6 kB] 101s Get:8 http://ftpmaster.internal/ubuntu oracular/main amd64 javascript-common all 11+nmu1 [5936 B] 101s Get:9 http://ftpmaster.internal/ubuntu oracular/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB] 101s Get:10 http://ftpmaster.internal/ubuntu oracular/main amd64 libblas3 amd64 3.12.0-3build1 [238 kB] 101s Get:11 http://ftpmaster.internal/ubuntu oracular/main amd64 libgfortran5 amd64 14.1.0-1ubuntu1 [928 kB] 101s Get:12 http://ftpmaster.internal/ubuntu oracular/main amd64 liblapack3 amd64 3.12.0-3build1 [2650 kB] 101s Get:13 http://ftpmaster.internal/ubuntu oracular/universe amd64 libarpack2t64 amd64 3.9.1-1.1build2 [106 kB] 101s Get:14 http://ftpmaster.internal/ubuntu oracular/universe amd64 libsuperlu6 amd64 6.0.1+dfsg1-1build1 [180 kB] 101s Get:15 http://ftpmaster.internal/ubuntu oracular/universe amd64 libarmadillo12 amd64 1:12.8.2+dfsg-1 [106 kB] 101s Get:16 http://ftpmaster.internal/ubuntu oracular/main amd64 libsnappy1v5 amd64 1.2.1-1 [30.4 kB] 101s Get:17 http://ftpmaster.internal/ubuntu oracular/universe amd64 libblosc1 amd64 1.21.5+ds-1build1 [36.2 kB] 101s Get:18 http://ftpmaster.internal/ubuntu oracular/main amd64 libpixman-1-0 amd64 0.42.2-1build1 [279 kB] 101s Get:19 http://ftpmaster.internal/ubuntu oracular/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 101s Get:20 http://ftpmaster.internal/ubuntu oracular/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 101s Get:21 http://ftpmaster.internal/ubuntu oracular/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 101s Get:22 http://ftpmaster.internal/ubuntu oracular/main amd64 libcairo2 amd64 1.18.0-3build1 [566 kB] 101s Get:23 http://ftpmaster.internal/ubuntu oracular/universe amd64 libcfitsio10t64 amd64 4.3.1-1.1build2 [528 kB] 102s Get:24 http://ftpmaster.internal/ubuntu oracular/main amd64 libdatrie1 amd64 0.2.13-3build1 [19.0 kB] 102s Get:25 http://ftpmaster.internal/ubuntu oracular/universe amd64 libfyba0t64 amd64 4.1.1-11build1 [119 kB] 102s Get:26 http://ftpmaster.internal/ubuntu oracular/universe amd64 libminizip1t64 amd64 1:1.3.dfsg-3.1ubuntu2 [22.2 kB] 102s Get:27 http://ftpmaster.internal/ubuntu oracular/universe amd64 libfreexl1 amd64 2.0.0-1build2 [41.7 kB] 102s Get:28 http://ftpmaster.internal/ubuntu oracular/universe amd64 libgeos3.12.1t64 amd64 3.12.1-3build1 [849 kB] 102s Get:29 http://ftpmaster.internal/ubuntu oracular/universe amd64 libgeos-c1t64 amd64 3.12.1-3build1 [94.5 kB] 102s Get:30 http://ftpmaster.internal/ubuntu oracular/universe amd64 proj-data all 9.4.0-1build2 [7885 kB] 102s Get:31 http://ftpmaster.internal/ubuntu oracular/universe amd64 libproj25 amd64 9.4.0-1build2 [1396 kB] 102s Get:32 http://ftpmaster.internal/ubuntu oracular/universe amd64 libgeotiff5 amd64 1.7.1-5build1 [62.9 kB] 102s Get:33 http://ftpmaster.internal/ubuntu oracular/main amd64 libgif7 amd64 5.2.2-1ubuntu1 [35.2 kB] 102s Get:34 http://ftpmaster.internal/ubuntu oracular/universe amd64 libsz2 amd64 1.1.3-1 [5456 B] 102s Get:35 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhdf4-0-alt amd64 4.3.0-1 [285 kB] 102s Get:36 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhdf5-103-1t64 amd64 1.10.10+repack-3.1ubuntu4 [1270 kB] 102s Get:37 http://ftpmaster.internal/ubuntu oracular/universe amd64 liburiparser1 amd64 0.9.7+dfsg-2build1 [35.8 kB] 102s Get:38 http://ftpmaster.internal/ubuntu oracular/universe amd64 libkmlbase1t64 amd64 1.3.0-12build1 [49.9 kB] 102s Get:39 http://ftpmaster.internal/ubuntu oracular/universe amd64 libkmldom1t64 amd64 1.3.0-12build1 [156 kB] 102s Get:40 http://ftpmaster.internal/ubuntu oracular/universe amd64 libkmlengine1t64 amd64 1.3.0-12build1 [71.4 kB] 102s Get:41 http://ftpmaster.internal/ubuntu oracular/main amd64 mysql-common all 5.8+1.1.0build1 [6746 B] 102s Get:42 http://ftpmaster.internal/ubuntu oracular/main amd64 libmysqlclient21 amd64 8.0.37-1 [1254 kB] 102s Get:43 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-3.1ubuntu4 [56.0 kB] 102s Get:44 http://ftpmaster.internal/ubuntu oracular/universe amd64 libnetcdf19t64 amd64 1:4.9.2-5ubuntu4 [473 kB] 102s Get:45 http://ftpmaster.internal/ubuntu oracular/main amd64 libltdl7 amd64 2.4.7-7build1 [40.3 kB] 102s Get:46 http://ftpmaster.internal/ubuntu oracular/main amd64 libodbc2 amd64 2.3.12-1build2 [158 kB] 102s Get:47 http://ftpmaster.internal/ubuntu oracular/main amd64 unixodbc-common all 2.3.12-1build2 [8646 B] 102s Get:48 http://ftpmaster.internal/ubuntu oracular/main amd64 libodbcinst2 amd64 2.3.12-1build2 [30.6 kB] 102s Get:49 http://ftpmaster.internal/ubuntu oracular/universe amd64 libogdi4.1 amd64 4.1.1+ds-4 [226 kB] 102s Get:50 http://ftpmaster.internal/ubuntu oracular/main amd64 libopenjp2-7 amd64 2.5.0-2build3 [173 kB] 102s Get:51 http://ftpmaster.internal/ubuntu oracular/main amd64 liblcms2-2 amd64 2.14-2build1 [161 kB] 102s Get:52 http://ftpmaster.internal/ubuntu oracular/main amd64 libpoppler134 amd64 24.02.0-1ubuntu9 [1113 kB] 102s Get:53 http://ftpmaster.internal/ubuntu oracular/main amd64 libpq5 amd64 16.2-1ubuntu4 [138 kB] 102s Get:54 http://ftpmaster.internal/ubuntu oracular/universe amd64 libqhull-r8.0 amd64 2020.2-6build1 [193 kB] 102s Get:55 http://ftpmaster.internal/ubuntu oracular/universe amd64 librttopo1 amd64 1.1.0-3build2 [191 kB] 102s Get:56 http://ftpmaster.internal/ubuntu oracular/universe amd64 libspatialite8t64 amd64 5.1.0-3build1 [1919 kB] 102s Get:57 http://ftpmaster.internal/ubuntu oracular/universe amd64 libxerces-c3.2t64 amd64 3.2.4+debian-1.3 [917 kB] 102s Get:58 http://ftpmaster.internal/ubuntu oracular/universe amd64 libgdal34t64 amd64 3.8.5+dfsg-1 [8345 kB] 102s Get:59 http://ftpmaster.internal/ubuntu oracular/main amd64 libgomp1 amd64 14.1.0-1ubuntu1 [148 kB] 102s Get:60 http://ftpmaster.internal/ubuntu oracular/main amd64 libgraphite2-3 amd64 1.3.14-2build1 [73.0 kB] 102s Get:61 http://ftpmaster.internal/ubuntu oracular/main amd64 libharfbuzz0b amd64 8.3.0-2build2 [469 kB] 102s Get:62 http://ftpmaster.internal/ubuntu oracular/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 102s Get:63 http://ftpmaster.internal/ubuntu oracular/main amd64 libice6 amd64 2:1.0.10-1build3 [41.4 kB] 102s Get:64 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-bootstrap all 3.4.1+dfsg-3 [129 kB] 102s Get:65 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-popper.js all 1.16.1+ds-6 [54.1 kB] 102s Get:66 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-bootstrap4 all 4.6.1+dfsg1-4 [537 kB] 102s Get:67 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-d3 all 3.5.17-4 [132 kB] 102s Get:68 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-es5-shim all 4.6.7-2 [39.8 kB] 102s Get:69 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-highlight.js all 9.18.5+dfsg1-2 [385 kB] 102s Get:70 http://ftpmaster.internal/ubuntu oracular/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 102s Get:71 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-jquery-datatables all 1.11.5+dfsg-2 [146 kB] 102s Get:72 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB] 102s Get:73 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-microplugin.js all 0.0.3+dfsg-1.1 [3712 B] 102s Get:74 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB] 102s Get:75 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 102s Get:76 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-json all 0~20221030+~1.0.8-1 [20.6 kB] 102s Get:77 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-prettify all 2015.12.04+dfsg-1.1 [39.3 kB] 102s Get:78 http://ftpmaster.internal/ubuntu oracular/main amd64 liblua5.4-0 amd64 5.4.6-3build2 [166 kB] 102s Get:79 http://ftpmaster.internal/ubuntu oracular/main amd64 libthai-data all 0.1.29-2build1 [158 kB] 102s Get:80 http://ftpmaster.internal/ubuntu oracular/main amd64 libthai0 amd64 0.1.29-2build1 [18.9 kB] 102s Get:81 http://ftpmaster.internal/ubuntu oracular/main amd64 libpango-1.0-0 amd64 1.52.2+ds-1 [233 kB] 102s Get:82 http://ftpmaster.internal/ubuntu oracular/main amd64 libpangoft2-1.0-0 amd64 1.52.2+ds-1 [42.6 kB] 102s Get:83 http://ftpmaster.internal/ubuntu oracular/main amd64 libpangocairo-1.0-0 amd64 1.52.2+ds-1 [28.7 kB] 102s Get:84 http://ftpmaster.internal/ubuntu oracular/main amd64 libpaper1 amd64 1.1.29build1 [13.4 kB] 102s Get:85 http://ftpmaster.internal/ubuntu oracular/main amd64 libpaper-utils amd64 1.1.29build1 [8650 B] 102s Get:86 http://ftpmaster.internal/ubuntu oracular/main amd64 libsm6 amd64 2:1.2.3-1build3 [15.7 kB] 102s Get:87 http://ftpmaster.internal/ubuntu oracular/main amd64 libtcl8.6 amd64 8.6.14+dfsg-1build1 [988 kB] 102s Get:88 http://ftpmaster.internal/ubuntu oracular/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 102s Get:89 http://ftpmaster.internal/ubuntu oracular/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 102s Get:90 http://ftpmaster.internal/ubuntu oracular/main amd64 libtk8.6 amd64 8.6.14-1build1 [779 kB] 102s Get:91 http://ftpmaster.internal/ubuntu oracular/universe amd64 libudunits2-data all 2.2.28-7build1 [19.4 kB] 102s Get:92 http://ftpmaster.internal/ubuntu oracular/universe amd64 libudunits2-0 amd64 2.2.28-7build1 [54.1 kB] 102s Get:93 http://ftpmaster.internal/ubuntu oracular/main amd64 libxt6t64 amd64 1:1.2.1-1.2build1 [171 kB] 102s Get:94 http://ftpmaster.internal/ubuntu oracular/main amd64 zip amd64 3.0-13build1 [175 kB] 102s Get:95 http://ftpmaster.internal/ubuntu oracular/main amd64 unzip amd64 6.0-28ubuntu4 [175 kB] 102s Get:96 http://ftpmaster.internal/ubuntu oracular/main amd64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB] 102s Get:97 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-base-core amd64 4.4.0-2 [28.5 MB] 102s Get:98 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-littler amd64 0.3.20-1 [96.0 kB] 102s Get:99 http://ftpmaster.internal/ubuntu oracular/universe amd64 littler all 0.3.20-1 [2486 B] 102s Get:100 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-bootstrap-sass all 3.4.3-2 [187 kB] 102s Get:101 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-html5shiv all 3.7.3+dfsg-5 [13.5 kB] 102s Get:102 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-normalize.css all 8.0.1-5 [10.8 kB] 102s Get:103 http://ftpmaster.internal/ubuntu oracular/universe amd64 pandoc-data all 3.1.3-2build2 [78.3 kB] 102s Get:104 http://ftpmaster.internal/ubuntu oracular/universe amd64 pandoc amd64 3.1.3+ds-3build1 [26.9 MB] 102s Get:105 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-abind all 1.4-5-2 [63.6 kB] 102s Get:106 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-cli amd64 3.6.2-1 [1380 kB] 102s Get:107 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-generics all 0.1.3-1 [81.3 kB] 102s Get:108 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-glue amd64 1.7.0-1 [154 kB] 102s Get:109 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rlang amd64 1.1.3-1 [1663 kB] 102s Get:110 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] 102s Get:111 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-magrittr amd64 2.0.3-1 [154 kB] 102s Get:112 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-fansi amd64 1.0.5-1 [619 kB] 102s Get:113 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-utf8 amd64 1.2.4-1 [140 kB] 102s Get:114 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB] 102s Get:115 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pillar all 1.9.0+dfsg-1 [464 kB] 102s Get:116 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-r6 all 2.5.1-1 [99.0 kB] 102s Get:117 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB] 102s Get:118 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tibble amd64 3.2.1+dfsg-2 [415 kB] 102s Get:119 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-withr all 2.5.0-1 [225 kB] 102s Get:120 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tidyselect amd64 1.2.0+dfsg-1 [218 kB] 102s Get:121 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-dplyr amd64 1.1.4-1 [1515 kB] 102s Get:122 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-purrr amd64 1.0.2-1 [502 kB] 102s Get:123 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-mass amd64 7.3-60.2-1 [1109 kB] 102s Get:124 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-class amd64 7.3-22-2build1 [88.2 kB] 102s Get:125 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-proxy amd64 0.4-27-1 [182 kB] 102s Get:126 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-e1071 amd64 1.7-14-1 [558 kB] 102s Get:127 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-kernsmooth amd64 2.23-24-1 [92.9 kB] 102s Get:128 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-classint amd64 0.4-10+dfsg-1 [106 kB] 102s Get:129 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-dbi all 1.2.2-1 [823 kB] 102s Get:130 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pkgkitten all 0.2.3-1 [25.1 kB] 102s Get:131 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rcpp amd64 1.0.12-1 [1981 kB] 102s Get:132 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-wk amd64 0.9.1-1 [1784 kB] 102s Get:133 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-s2 amd64 1.1.6-1build2 [1981 kB] 102s Get:134 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-units amd64 0.8-5+dfsg-1 [275 kB] 102s Get:135 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sf amd64 1.0-16+dfsg-1 [3064 kB] 102s Get:136 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-areal all 0.1.8+dfsg-2 [1004 kB] 102s Get:137 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sys amd64 3.4.2-1 [44.6 kB] 102s Get:138 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-askpass amd64 1.2.0-1 [24.6 kB] 102s Get:139 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-base64enc amd64 0.1-3-3 [27.6 kB] 102s Get:140 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-bdsmatrix amd64 1.3-7-1 [299 kB] 102s Get:141 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-brio amd64 1.1.5-1 [39.0 kB] 102s Get:142 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-fastmap amd64 1.1.1-1 [70.5 kB] 102s Get:143 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-cachem amd64 1.0.8-1 [72.1 kB] 102s Get:144 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-digest amd64 0.6.35-1 [195 kB] 102s Get:145 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-htmltools amd64 0.5.8.1-1 [373 kB] 102s Get:146 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-jquerylib all 0.1.4+dfsg-4 [13.5 kB] 102s Get:147 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-jsonlite amd64 1.8.8+dfsg-1 [441 kB] 102s Get:148 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-memoise all 2.0.1-1 [53.9 kB] 102s Get:149 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-mime amd64 0.12-2 [35.8 kB] 102s Get:150 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-fs amd64 1.6.3+dfsg-1build2 [229 kB] 102s Get:151 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rappdirs amd64 0.3.3-1 [47.5 kB] 102s Get:152 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sass amd64 0.4.9+dfsg-1 [1001 kB] 102s Get:153 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-bslib all 0.7.0+dfsg-1 [4255 kB] 103s Get:154 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-cairo amd64 1.6-2-1 [88.8 kB] 103s Get:155 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-ps amd64 1.7.6-1 [313 kB] 103s Get:156 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-processx amd64 3.8.3-1 [346 kB] 103s Get:157 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-callr all 3.7.6-1 [458 kB] 103s Get:158 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-cluster amd64 2.1.6-1build1 [553 kB] 103s Get:159 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-clue amd64 0.3-65-1 [960 kB] 103s Get:160 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-codetools all 0.2-20-1 [90.5 kB] 103s Get:161 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-collapse amd64 2.0.13-1 [3130 kB] 103s Get:162 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-colorspace amd64 2.1-0+dfsg-1 [1541 kB] 103s Get:163 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-commonmark amd64 1.9.1-1 [131 kB] 103s Get:164 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-lazyeval amd64 0.2.2-1build1 [144 kB] 103s Get:165 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rex all 1.2.1-1 [129 kB] 103s Get:166 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-curl amd64 5.2.0+dfsg-1build2 [177 kB] 103s Get:167 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-openssl amd64 2.1.1+dfsg-2build2 [402 kB] 103s Get:168 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] 103s Get:169 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-crayon all 1.5.2-1 [164 kB] 103s Get:170 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-yaml amd64 2.3.8-2 [108 kB] 103s Get:171 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-covr amd64 3.6.4+dfsg-1 [303 kB] 103s Get:172 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-cpp11 all 0.4.7-1 [266 kB] 103s Get:173 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-cubelyr all 1.0.2-1 [347 kB] 103s Get:174 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-deldir amd64 2.0-4-1build1 [270 kB] 103s Get:175 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-desc all 1.4.3-1 [359 kB] 103s Get:176 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-diffobj amd64 0.3.5-1 [1117 kB] 103s Get:177 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-evaluate all 0.23-1 [90.2 kB] 103s Get:178 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-lattice amd64 0.22-6-1 [1340 kB] 103s Get:179 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sp amd64 1:2.1-2+dfsg-1 [1447 kB] 103s Get:180 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-terra amd64 1.7-65-1build2 [3678 kB] 103s Get:181 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-raster amd64 3.6-26-1 [3118 kB] 103s Get:182 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-exactextractr amd64 0.10.0-1build2 [578 kB] 103s Get:183 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-farver amd64 2.1.1-2 [1349 kB] 103s Get:184 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-fnn amd64 1.1.4-1 [122 kB] 103s Get:185 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-fontawesome all 0.5.2-1 [1300 kB] 103s Get:186 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-formula all 1.2-5-1 [158 kB] 103s Get:187 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-globals all 0.16.3-1 [120 kB] 103s Get:188 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-listenv all 0.9.1+dfsg-1 [112 kB] 103s Get:189 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-parallelly amd64 1.37.1-1build1 [365 kB] 103s Get:190 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-future all 1.33.1+dfsg-1 [634 kB] 103s Get:191 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-future.apply all 1.11.2+dfsg-1 [172 kB] 103s Get:192 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-gtable all 0.3.4+dfsg-1 [191 kB] 103s Get:193 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-isoband amd64 0.2.7-1 [1481 kB] 103s Get:194 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-nlme amd64 3.1.164-1build1 [2261 kB] 103s Get:195 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-matrix amd64 1.6-5-1 [3830 kB] 103s Get:196 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-mgcv amd64 1.9-1-1 [3252 kB] 103s Get:197 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-labeling all 0.4.3-1 [62.1 kB] 103s Get:198 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-munsell all 0.5.0-2build1 [208 kB] 103s Get:199 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rcolorbrewer all 1.1-3-1build1 [55.4 kB] 103s Get:200 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-viridislite all 0.4.2-2 [1088 kB] 103s Get:201 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-scales all 1.3.0-1 [603 kB] 103s Get:202 http://ftpmaster.internal/ubuntu oracular-proposed/universe amd64 r-cran-ggplot2 all 3.5.1+dfsg-1 [3940 kB] 103s Get:203 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tweenr amd64 2.0.3-1 [410 kB] 103s Get:204 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-polyclip amd64 1.10-6-1 [113 kB] 103s Get:205 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-systemfonts amd64 1.0.5-1 [229 kB] 103s Get:206 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rcppeigen amd64 0.3.4.0.0-1build1 [1425 kB] 103s Get:207 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-ggforce amd64 0.4.2-1 [1777 kB] 103s Get:208 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-stringi amd64 1.8.3-1 [873 kB] 103s Get:209 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-stringr all 1.5.1-1 [290 kB] 103s Get:210 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-ggthemes all 5.1.0-1 [434 kB] 103s Get:211 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-goftest amd64 1.2-3-1 [59.5 kB] 103s Get:212 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-gridextra all 2.3-3build1 [1024 kB] 103s Get:213 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-zoo amd64 1.8-12-2 [984 kB] 103s Get:214 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sftime all 0.2-0-6 [168 kB] 103s Get:215 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-xts amd64 0.13.2-1 [772 kB] 103s Get:216 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-intervals amd64 0.15.4-1 [756 kB] 103s Get:217 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spacetime all 1.3-1-1 [2804 kB] 103s Get:218 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-stars all 0.6-4-1 [4030 kB] 103s Get:219 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-gstat amd64 2.1-1-2 [2343 kB] 103s Get:220 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-xfun amd64 0.44+dfsg-1 [518 kB] 103s Get:221 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-highr all 0.10+dfsg-2 [38.5 kB] 103s Get:222 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-later amd64 1.3.2+dfsg-1 [123 kB] 103s Get:223 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-promises amd64 1.3.0+dfsg-1 [287 kB] 103s Get:224 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-httpuv amd64 1.6.15+dfsg-1 [510 kB] 103s Get:225 http://ftpmaster.internal/ubuntu oracular/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 103s Get:226 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-knitr all 1.46+dfsg-1 [911 kB] 103s Get:227 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-lmtest amd64 0.9.40-1 [396 kB] 103s Get:228 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-lwgeom amd64 0.2-13-3build2 [420 kB] 103s Get:229 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-maps amd64 3.4.2-1 [2359 kB] 103s Get:230 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-mapdata amd64 2.3.1-1 [23.5 MB] 103s Get:231 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-misctools all 0.6-28-1 [99.9 kB] 103s Get:232 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sandwich all 3.1-0-1 [1484 kB] 103s Get:233 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-maxlik all 1.5-2-1 [1550 kB] 103s Get:234 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rnetcdf amd64 2.9-1-1build2 [233 kB] 103s Get:235 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tidyr amd64 1.3.1-1 [1156 kB] 103s Get:236 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-ncmeta all 0.3.6-1 [360 kB] 103s Get:237 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-ncdfgeom all 1.1.6+dfsg-1 [4124 kB] 103s Get:238 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pbapply all 1.7-2-1 [102 kB] 103s Get:239 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pcict amd64 0.5-4.4-1 [94.4 kB] 103s Get:240 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pkgbuild all 1.4.3-1 [209 kB] 103s Get:241 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rprojroot all 2.0.4-1 [124 kB] 103s Get:242 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pkgload all 1.3.4-1 [207 kB] 103s Get:243 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rbibutils amd64 2.2.16-1 [754 kB] 103s Get:244 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rdpack all 2.6-1 [742 kB] 103s Get:245 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-plm all 2.6-4-1 [2161 kB] 104s Get:246 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-praise all 1.0.0-4build1 [20.3 kB] 104s Get:247 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-randomforest amd64 4.7-1.1-1 [215 kB] 104s Get:248 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rematch2 all 2.1.2-2build1 [46.5 kB] 104s Get:249 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tinytex all 0.49-1 [141 kB] 104s Get:250 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-modernizr all 3.13.0-0.1 [101 kB] 104s Get:251 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-xtable all 1:1.8-4-2 [689 kB] 104s Get:252 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sourcetools amd64 0.1.7-1-1 [48.1 kB] 104s Get:253 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB] 104s Get:254 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-shiny all 1.8.1.1+dfsg-1 [2873 kB] 104s Get:255 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rmarkdown all 2.25+dfsg-3 [1481 kB] 104s Get:256 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-survival amd64 3.5-8-1 [6120 kB] 104s Get:257 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rpart amd64 4.1.23-1build1 [661 kB] 104s Get:258 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.utils amd64 3.0-4-1 [361 kB] 104s Get:259 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.data all 3.0-4-1 [4090 kB] 104s Get:260 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.geom amd64 3.2-9-1 [3937 kB] 104s Get:261 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.random amd64 3.2-3-1 [1169 kB] 104s Get:262 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tensor all 1.5-4 [15.7 kB] 104s Get:263 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.sparse amd64 3.0-3-1 [215 kB] 104s Get:264 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.explore amd64 3.2-5-1 [3283 kB] 104s Get:265 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.model amd64 3.2-11-1 [3385 kB] 104s Get:266 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.linnet amd64 3.1-5-1 [1468 kB] 104s Get:267 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat amd64 3.0-7-1 [3817 kB] 104s Get:268 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-waldo all 0.5.2-1build1 [120 kB] 104s Get:269 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-testthat amd64 3.2.1-1 [1684 kB] 104s Get:270 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-viridis all 0.6.5-1 [2770 kB] 105s Preconfiguring packages ... 105s Fetched 277 MB in 3s (106 MB/s) 105s Selecting previously unselected package fontconfig. 105s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 74359 files and directories currently installed.) 105s Preparing to unpack .../000-fontconfig_2.15.0-1.1ubuntu2_amd64.deb ... 105s Unpacking fontconfig (2.15.0-1.1ubuntu2) ... 105s Selecting previously unselected package fonts-font-awesome. 105s Preparing to unpack .../001-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb ... 105s Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 105s Selecting previously unselected package fonts-glyphicons-halflings. 105s Preparing to unpack .../002-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-3_all.deb ... 105s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 105s Selecting previously unselected package fonts-mathjax. 105s Preparing to unpack .../003-fonts-mathjax_2.7.9+dfsg-1_all.deb ... 105s Unpacking fonts-mathjax (2.7.9+dfsg-1) ... 105s Selecting previously unselected package gdal-data. 105s Preparing to unpack .../004-gdal-data_3.8.5+dfsg-1_all.deb ... 105s Unpacking gdal-data (3.8.5+dfsg-1) ... 105s Selecting previously unselected package gdal-plugins:amd64. 105s Preparing to unpack .../005-gdal-plugins_3.8.5+dfsg-1_amd64.deb ... 105s Unpacking gdal-plugins:amd64 (3.8.5+dfsg-1) ... 105s Selecting previously unselected package javascript-common. 105s Preparing to unpack .../006-javascript-common_11+nmu1_all.deb ... 105s Unpacking javascript-common (11+nmu1) ... 105s Selecting previously unselected package libaec0:amd64. 105s Preparing to unpack .../007-libaec0_1.1.3-1_amd64.deb ... 105s Unpacking libaec0:amd64 (1.1.3-1) ... 105s Selecting previously unselected package libblas3:amd64. 105s Preparing to unpack .../008-libblas3_3.12.0-3build1_amd64.deb ... 105s Unpacking libblas3:amd64 (3.12.0-3build1) ... 105s Selecting previously unselected package libgfortran5:amd64. 105s Preparing to unpack .../009-libgfortran5_14.1.0-1ubuntu1_amd64.deb ... 105s Unpacking libgfortran5:amd64 (14.1.0-1ubuntu1) ... 105s Selecting previously unselected package liblapack3:amd64. 105s Preparing to unpack .../010-liblapack3_3.12.0-3build1_amd64.deb ... 105s Unpacking liblapack3:amd64 (3.12.0-3build1) ... 105s Selecting previously unselected package libarpack2t64:amd64. 105s Preparing to unpack .../011-libarpack2t64_3.9.1-1.1build2_amd64.deb ... 105s Unpacking libarpack2t64:amd64 (3.9.1-1.1build2) ... 105s Selecting previously unselected package libsuperlu6:amd64. 105s Preparing to unpack .../012-libsuperlu6_6.0.1+dfsg1-1build1_amd64.deb ... 105s Unpacking libsuperlu6:amd64 (6.0.1+dfsg1-1build1) ... 105s Selecting previously unselected package libarmadillo12. 105s Preparing to unpack .../013-libarmadillo12_1%3a12.8.2+dfsg-1_amd64.deb ... 105s Unpacking libarmadillo12 (1:12.8.2+dfsg-1) ... 105s Selecting previously unselected package libsnappy1v5:amd64. 105s Preparing to unpack .../014-libsnappy1v5_1.2.1-1_amd64.deb ... 105s Unpacking libsnappy1v5:amd64 (1.2.1-1) ... 105s Selecting previously unselected package libblosc1:amd64. 105s Preparing to unpack .../015-libblosc1_1.21.5+ds-1build1_amd64.deb ... 105s Unpacking libblosc1:amd64 (1.21.5+ds-1build1) ... 105s Selecting previously unselected package libpixman-1-0:amd64. 105s Preparing to unpack .../016-libpixman-1-0_0.42.2-1build1_amd64.deb ... 105s Unpacking libpixman-1-0:amd64 (0.42.2-1build1) ... 105s Selecting previously unselected package libxcb-render0:amd64. 105s Preparing to unpack .../017-libxcb-render0_1.17.0-2_amd64.deb ... 105s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 105s Selecting previously unselected package libxcb-shm0:amd64. 105s Preparing to unpack .../018-libxcb-shm0_1.17.0-2_amd64.deb ... 105s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 105s Selecting previously unselected package libxrender1:amd64. 105s Preparing to unpack .../019-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 105s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 106s Selecting previously unselected package libcairo2:amd64. 106s Preparing to unpack .../020-libcairo2_1.18.0-3build1_amd64.deb ... 106s Unpacking libcairo2:amd64 (1.18.0-3build1) ... 106s Selecting previously unselected package libcfitsio10t64:amd64. 106s Preparing to unpack .../021-libcfitsio10t64_4.3.1-1.1build2_amd64.deb ... 106s Unpacking libcfitsio10t64:amd64 (4.3.1-1.1build2) ... 106s Selecting previously unselected package libdatrie1:amd64. 106s Preparing to unpack .../022-libdatrie1_0.2.13-3build1_amd64.deb ... 106s Unpacking libdatrie1:amd64 (0.2.13-3build1) ... 106s Selecting previously unselected package libfyba0t64:amd64. 106s Preparing to unpack .../023-libfyba0t64_4.1.1-11build1_amd64.deb ... 106s Unpacking libfyba0t64:amd64 (4.1.1-11build1) ... 106s Selecting previously unselected package libminizip1t64:amd64. 106s Preparing to unpack .../024-libminizip1t64_1%3a1.3.dfsg-3.1ubuntu2_amd64.deb ... 106s Unpacking libminizip1t64:amd64 (1:1.3.dfsg-3.1ubuntu2) ... 106s Selecting previously unselected package libfreexl1:amd64. 106s Preparing to unpack .../025-libfreexl1_2.0.0-1build2_amd64.deb ... 106s Unpacking libfreexl1:amd64 (2.0.0-1build2) ... 106s Selecting previously unselected package libgeos3.12.1t64:amd64. 106s Preparing to unpack .../026-libgeos3.12.1t64_3.12.1-3build1_amd64.deb ... 106s Unpacking libgeos3.12.1t64:amd64 (3.12.1-3build1) ... 106s Selecting previously unselected package libgeos-c1t64:amd64. 106s Preparing to unpack .../027-libgeos-c1t64_3.12.1-3build1_amd64.deb ... 106s Unpacking libgeos-c1t64:amd64 (3.12.1-3build1) ... 106s Selecting previously unselected package proj-data. 106s Preparing to unpack .../028-proj-data_9.4.0-1build2_all.deb ... 106s Unpacking proj-data (9.4.0-1build2) ... 106s Selecting previously unselected package libproj25:amd64. 106s Preparing to unpack .../029-libproj25_9.4.0-1build2_amd64.deb ... 106s Unpacking libproj25:amd64 (9.4.0-1build2) ... 106s Selecting previously unselected package libgeotiff5:amd64. 106s Preparing to unpack .../030-libgeotiff5_1.7.1-5build1_amd64.deb ... 106s Unpacking libgeotiff5:amd64 (1.7.1-5build1) ... 106s Selecting previously unselected package libgif7:amd64. 106s Preparing to unpack .../031-libgif7_5.2.2-1ubuntu1_amd64.deb ... 106s Unpacking libgif7:amd64 (5.2.2-1ubuntu1) ... 106s Selecting previously unselected package libsz2:amd64. 106s Preparing to unpack .../032-libsz2_1.1.3-1_amd64.deb ... 106s Unpacking libsz2:amd64 (1.1.3-1) ... 106s Selecting previously unselected package libhdf4-0-alt:amd64. 106s Preparing to unpack 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previously unselected package r-cran-pillar. 110s Preparing to unpack .../113-r-cran-pillar_1.9.0+dfsg-1_all.deb ... 110s Unpacking r-cran-pillar (1.9.0+dfsg-1) ... 110s Selecting previously unselected package r-cran-r6. 110s Preparing to unpack .../114-r-cran-r6_2.5.1-1_all.deb ... 110s Unpacking r-cran-r6 (2.5.1-1) ... 110s Selecting previously unselected package r-cran-pkgconfig. 110s Preparing to unpack .../115-r-cran-pkgconfig_2.0.3-2build1_all.deb ... 110s Unpacking r-cran-pkgconfig (2.0.3-2build1) ... 110s Selecting previously unselected package r-cran-tibble. 110s Preparing to unpack .../116-r-cran-tibble_3.2.1+dfsg-2_amd64.deb ... 110s Unpacking r-cran-tibble (3.2.1+dfsg-2) ... 110s Selecting previously unselected package r-cran-withr. 110s Preparing to unpack .../117-r-cran-withr_2.5.0-1_all.deb ... 110s Unpacking r-cran-withr (2.5.0-1) ... 110s Selecting previously unselected package r-cran-tidyselect. 110s Preparing to unpack .../118-r-cran-tidyselect_1.2.0+dfsg-1_amd64.deb ... 110s Unpacking r-cran-tidyselect (1.2.0+dfsg-1) ... 110s Selecting previously unselected package r-cran-dplyr. 110s Preparing to unpack .../119-r-cran-dplyr_1.1.4-1_amd64.deb ... 110s Unpacking r-cran-dplyr (1.1.4-1) ... 110s Selecting previously unselected package r-cran-purrr. 110s Preparing to unpack .../120-r-cran-purrr_1.0.2-1_amd64.deb ... 110s Unpacking r-cran-purrr (1.0.2-1) ... 110s Selecting previously unselected package r-cran-mass. 110s Preparing to unpack .../121-r-cran-mass_7.3-60.2-1_amd64.deb ... 110s Unpacking r-cran-mass (7.3-60.2-1) ... 110s Selecting previously unselected package r-cran-class. 110s Preparing to unpack .../122-r-cran-class_7.3-22-2build1_amd64.deb ... 110s Unpacking r-cran-class (7.3-22-2build1) ... 110s Selecting previously unselected package r-cran-proxy. 110s Preparing to unpack .../123-r-cran-proxy_0.4-27-1_amd64.deb ... 110s Unpacking r-cran-proxy (0.4-27-1) ... 110s Selecting previously unselected package r-cran-e1071. 111s Preparing to unpack .../124-r-cran-e1071_1.7-14-1_amd64.deb ... 111s Unpacking r-cran-e1071 (1.7-14-1) ... 111s Selecting previously unselected package r-cran-kernsmooth. 111s Preparing to unpack .../125-r-cran-kernsmooth_2.23-24-1_amd64.deb ... 111s Unpacking r-cran-kernsmooth (2.23-24-1) ... 111s Selecting previously unselected package r-cran-classint. 111s Preparing to unpack .../126-r-cran-classint_0.4-10+dfsg-1_amd64.deb ... 111s Unpacking r-cran-classint (0.4-10+dfsg-1) ... 111s Selecting previously unselected package r-cran-dbi. 111s Preparing to unpack .../127-r-cran-dbi_1.2.2-1_all.deb ... 111s Unpacking r-cran-dbi (1.2.2-1) ... 111s Selecting previously unselected package r-cran-pkgkitten. 111s Preparing to unpack .../128-r-cran-pkgkitten_0.2.3-1_all.deb ... 111s Unpacking r-cran-pkgkitten (0.2.3-1) ... 111s Selecting previously unselected package r-cran-rcpp. 111s Preparing to unpack .../129-r-cran-rcpp_1.0.12-1_amd64.deb ... 111s Unpacking r-cran-rcpp (1.0.12-1) ... 111s Selecting previously unselected package r-cran-wk. 111s Preparing to unpack .../130-r-cran-wk_0.9.1-1_amd64.deb ... 111s Unpacking r-cran-wk (0.9.1-1) ... 111s Selecting previously unselected package r-cran-s2. 111s Preparing to unpack .../131-r-cran-s2_1.1.6-1build2_amd64.deb ... 111s Unpacking r-cran-s2 (1.1.6-1build2) ... 111s Selecting previously unselected package r-cran-units. 111s Preparing to unpack .../132-r-cran-units_0.8-5+dfsg-1_amd64.deb ... 111s Unpacking r-cran-units (0.8-5+dfsg-1) ... 111s Selecting previously unselected package r-cran-sf. 111s Preparing to unpack .../133-r-cran-sf_1.0-16+dfsg-1_amd64.deb ... 111s Unpacking r-cran-sf (1.0-16+dfsg-1) ... 111s Selecting previously unselected package r-cran-areal. 111s Preparing to unpack .../134-r-cran-areal_0.1.8+dfsg-2_all.deb ... 111s Unpacking r-cran-areal (0.1.8+dfsg-2) ... 111s Selecting previously unselected package r-cran-sys. 111s Preparing to unpack .../135-r-cran-sys_3.4.2-1_amd64.deb ... 111s Unpacking r-cran-sys (3.4.2-1) ... 111s Selecting previously unselected package r-cran-askpass. 111s Preparing to unpack .../136-r-cran-askpass_1.2.0-1_amd64.deb ... 111s Unpacking r-cran-askpass (1.2.0-1) ... 111s Selecting previously unselected package r-cran-base64enc. 111s Preparing to unpack .../137-r-cran-base64enc_0.1-3-3_amd64.deb ... 111s Unpacking r-cran-base64enc (0.1-3-3) ... 111s Selecting previously unselected package r-cran-bdsmatrix. 111s Preparing to unpack .../138-r-cran-bdsmatrix_1.3-7-1_amd64.deb ... 111s Unpacking r-cran-bdsmatrix (1.3-7-1) ... 111s Selecting previously unselected package r-cran-brio. 111s Preparing to unpack .../139-r-cran-brio_1.1.5-1_amd64.deb ... 111s Unpacking r-cran-brio (1.1.5-1) ... 111s Selecting previously unselected package r-cran-fastmap. 111s Preparing to unpack .../140-r-cran-fastmap_1.1.1-1_amd64.deb ... 111s Unpacking r-cran-fastmap (1.1.1-1) ... 111s Selecting previously unselected package r-cran-cachem. 111s Preparing to unpack .../141-r-cran-cachem_1.0.8-1_amd64.deb ... 111s Unpacking r-cran-cachem (1.0.8-1) ... 111s Selecting previously unselected package r-cran-digest. 111s Preparing to unpack .../142-r-cran-digest_0.6.35-1_amd64.deb ... 111s Unpacking r-cran-digest (0.6.35-1) ... 111s Selecting previously unselected package r-cran-htmltools. 111s Preparing to unpack .../143-r-cran-htmltools_0.5.8.1-1_amd64.deb ... 111s Unpacking r-cran-htmltools (0.5.8.1-1) ... 111s Selecting previously unselected package r-cran-jquerylib. 111s Preparing to unpack .../144-r-cran-jquerylib_0.1.4+dfsg-4_all.deb ... 111s Unpacking r-cran-jquerylib (0.1.4+dfsg-4) ... 111s Selecting previously unselected package r-cran-jsonlite. 111s Preparing to unpack .../145-r-cran-jsonlite_1.8.8+dfsg-1_amd64.deb ... 111s Unpacking r-cran-jsonlite (1.8.8+dfsg-1) ... 111s Selecting previously unselected package r-cran-memoise. 111s Preparing to unpack .../146-r-cran-memoise_2.0.1-1_all.deb ... 111s Unpacking r-cran-memoise (2.0.1-1) ... 112s Selecting previously unselected package r-cran-mime. 112s Preparing to unpack .../147-r-cran-mime_0.12-2_amd64.deb ... 112s Unpacking r-cran-mime (0.12-2) ... 112s Selecting previously unselected package r-cran-fs. 112s Preparing to unpack .../148-r-cran-fs_1.6.3+dfsg-1build2_amd64.deb ... 112s Unpacking r-cran-fs (1.6.3+dfsg-1build2) ... 112s Selecting previously unselected package r-cran-rappdirs. 112s Preparing to unpack .../149-r-cran-rappdirs_0.3.3-1_amd64.deb ... 112s Unpacking r-cran-rappdirs (0.3.3-1) ... 112s Selecting previously unselected package r-cran-sass. 112s Preparing to unpack .../150-r-cran-sass_0.4.9+dfsg-1_amd64.deb ... 112s Unpacking r-cran-sass (0.4.9+dfsg-1) ... 112s Selecting previously unselected package r-cran-bslib. 112s Preparing to unpack .../151-r-cran-bslib_0.7.0+dfsg-1_all.deb ... 112s Unpacking r-cran-bslib (0.7.0+dfsg-1) ... 112s Selecting previously unselected package r-cran-cairo. 112s Preparing to unpack .../152-r-cran-cairo_1.6-2-1_amd64.deb ... 112s Unpacking r-cran-cairo (1.6-2-1) ... 112s Selecting previously unselected package r-cran-ps. 112s Preparing to unpack .../153-r-cran-ps_1.7.6-1_amd64.deb ... 112s Unpacking r-cran-ps (1.7.6-1) ... 112s Selecting previously unselected package r-cran-processx. 112s Preparing to unpack .../154-r-cran-processx_3.8.3-1_amd64.deb ... 112s Unpacking r-cran-processx (3.8.3-1) ... 112s Selecting previously unselected package r-cran-callr. 112s Preparing to unpack .../155-r-cran-callr_3.7.6-1_all.deb ... 112s Unpacking r-cran-callr (3.7.6-1) ... 112s Selecting previously unselected package r-cran-cluster. 112s Preparing to unpack .../156-r-cran-cluster_2.1.6-1build1_amd64.deb ... 112s Unpacking r-cran-cluster (2.1.6-1build1) ... 112s Selecting previously unselected package r-cran-clue. 112s Preparing to unpack .../157-r-cran-clue_0.3-65-1_amd64.deb ... 112s Unpacking r-cran-clue (0.3-65-1) ... 112s Selecting previously unselected package r-cran-codetools. 112s Preparing to unpack .../158-r-cran-codetools_0.2-20-1_all.deb ... 112s Unpacking r-cran-codetools (0.2-20-1) ... 112s Selecting previously unselected package r-cran-collapse. 112s Preparing to unpack .../159-r-cran-collapse_2.0.13-1_amd64.deb ... 112s Unpacking r-cran-collapse (2.0.13-1) ... 112s Selecting previously unselected package r-cran-colorspace. 112s Preparing to unpack .../160-r-cran-colorspace_2.1-0+dfsg-1_amd64.deb ... 112s Unpacking r-cran-colorspace (2.1-0+dfsg-1) ... 112s Selecting previously unselected package r-cran-commonmark. 112s Preparing to unpack .../161-r-cran-commonmark_1.9.1-1_amd64.deb ... 112s Unpacking r-cran-commonmark (1.9.1-1) ... 112s Selecting previously unselected package r-cran-lazyeval. 112s Preparing to unpack .../162-r-cran-lazyeval_0.2.2-1build1_amd64.deb ... 112s Unpacking r-cran-lazyeval (0.2.2-1build1) ... 112s Selecting previously unselected package r-cran-rex. 112s Preparing to unpack .../163-r-cran-rex_1.2.1-1_all.deb ... 112s Unpacking r-cran-rex (1.2.1-1) ... 112s Selecting previously unselected package r-cran-curl. 112s Preparing to unpack .../164-r-cran-curl_5.2.0+dfsg-1build2_amd64.deb ... 112s Unpacking r-cran-curl (5.2.0+dfsg-1build2) ... 112s Selecting previously unselected package r-cran-openssl. 112s Preparing to unpack .../165-r-cran-openssl_2.1.1+dfsg-2build2_amd64.deb ... 112s Unpacking r-cran-openssl (2.1.1+dfsg-2build2) ... 112s Selecting previously unselected package r-cran-httr. 112s Preparing to unpack .../166-r-cran-httr_1.4.7+dfsg-1_all.deb ... 112s Unpacking r-cran-httr (1.4.7+dfsg-1) ... 112s Selecting previously unselected package r-cran-crayon. 112s Preparing to unpack .../167-r-cran-crayon_1.5.2-1_all.deb ... 112s Unpacking r-cran-crayon (1.5.2-1) ... 112s Selecting previously unselected package r-cran-yaml. 112s Preparing to unpack .../168-r-cran-yaml_2.3.8-2_amd64.deb ... 112s Unpacking r-cran-yaml (2.3.8-2) ... 112s Selecting previously unselected package r-cran-covr. 112s Preparing to unpack .../169-r-cran-covr_3.6.4+dfsg-1_amd64.deb ... 112s Unpacking r-cran-covr (3.6.4+dfsg-1) ... 113s Selecting previously unselected package r-cran-cpp11. 113s Preparing to unpack .../170-r-cran-cpp11_0.4.7-1_all.deb ... 113s Unpacking r-cran-cpp11 (0.4.7-1) ... 113s Selecting previously unselected package r-cran-cubelyr. 113s Preparing to unpack .../171-r-cran-cubelyr_1.0.2-1_all.deb ... 113s Unpacking r-cran-cubelyr (1.0.2-1) ... 113s Selecting previously unselected package r-cran-deldir. 113s Preparing to unpack .../172-r-cran-deldir_2.0-4-1build1_amd64.deb ... 113s Unpacking r-cran-deldir (2.0-4-1build1) ... 113s Selecting previously unselected package r-cran-desc. 113s Preparing to unpack .../173-r-cran-desc_1.4.3-1_all.deb ... 113s Unpacking r-cran-desc (1.4.3-1) ... 113s Selecting previously unselected package r-cran-diffobj. 113s Preparing to unpack .../174-r-cran-diffobj_0.3.5-1_amd64.deb ... 113s Unpacking r-cran-diffobj (0.3.5-1) ... 113s Selecting previously unselected package r-cran-evaluate. 113s Preparing to unpack .../175-r-cran-evaluate_0.23-1_all.deb ... 113s Unpacking r-cran-evaluate (0.23-1) ... 113s Selecting previously unselected package r-cran-lattice. 113s Preparing to unpack .../176-r-cran-lattice_0.22-6-1_amd64.deb ... 113s Unpacking r-cran-lattice (0.22-6-1) ... 113s Selecting previously unselected package r-cran-sp. 113s Preparing to unpack .../177-r-cran-sp_1%3a2.1-2+dfsg-1_amd64.deb ... 113s Unpacking r-cran-sp (1:2.1-2+dfsg-1) ... 113s Selecting previously unselected package r-cran-terra. 113s Preparing to unpack .../178-r-cran-terra_1.7-65-1build2_amd64.deb ... 113s Unpacking r-cran-terra (1.7-65-1build2) ... 113s Selecting previously unselected package r-cran-raster. 113s Preparing to unpack .../179-r-cran-raster_3.6-26-1_amd64.deb ... 113s Unpacking r-cran-raster (3.6-26-1) ... 113s Selecting previously unselected package r-cran-exactextractr. 113s Preparing to unpack .../180-r-cran-exactextractr_0.10.0-1build2_amd64.deb ... 113s Unpacking r-cran-exactextractr (0.10.0-1build2) ... 113s Selecting previously unselected package r-cran-farver. 113s Preparing to unpack .../181-r-cran-farver_2.1.1-2_amd64.deb ... 113s Unpacking r-cran-farver (2.1.1-2) ... 113s Selecting previously unselected package r-cran-fnn. 113s Preparing to unpack .../182-r-cran-fnn_1.1.4-1_amd64.deb ... 113s Unpacking r-cran-fnn (1.1.4-1) ... 113s Selecting previously unselected package r-cran-fontawesome. 113s Preparing to unpack .../183-r-cran-fontawesome_0.5.2-1_all.deb ... 113s Unpacking r-cran-fontawesome (0.5.2-1) ... 113s Selecting previously unselected package r-cran-formula. 113s Preparing to unpack .../184-r-cran-formula_1.2-5-1_all.deb ... 113s Unpacking r-cran-formula (1.2-5-1) ... 113s Selecting previously unselected package r-cran-globals. 113s Preparing to unpack .../185-r-cran-globals_0.16.3-1_all.deb ... 113s Unpacking r-cran-globals (0.16.3-1) ... 113s Selecting previously unselected package r-cran-listenv. 113s Preparing to unpack .../186-r-cran-listenv_0.9.1+dfsg-1_all.deb ... 113s Unpacking r-cran-listenv (0.9.1+dfsg-1) ... 113s Selecting previously unselected package r-cran-parallelly. 113s Preparing to unpack .../187-r-cran-parallelly_1.37.1-1build1_amd64.deb ... 113s Unpacking r-cran-parallelly (1.37.1-1build1) ... 113s Selecting previously unselected package r-cran-future. 113s Preparing to unpack .../188-r-cran-future_1.33.1+dfsg-1_all.deb ... 113s Unpacking r-cran-future (1.33.1+dfsg-1) ... 113s Selecting previously unselected package r-cran-future.apply. 113s Preparing to unpack .../189-r-cran-future.apply_1.11.2+dfsg-1_all.deb ... 113s Unpacking r-cran-future.apply (1.11.2+dfsg-1) ... 113s Selecting previously unselected package r-cran-gtable. 113s Preparing to unpack .../190-r-cran-gtable_0.3.4+dfsg-1_all.deb ... 113s Unpacking r-cran-gtable (0.3.4+dfsg-1) ... 113s Selecting previously unselected package r-cran-isoband. 113s Preparing to unpack .../191-r-cran-isoband_0.2.7-1_amd64.deb ... 113s Unpacking r-cran-isoband (0.2.7-1) ... 113s Selecting previously unselected package r-cran-nlme. 113s Preparing to unpack .../192-r-cran-nlme_3.1.164-1build1_amd64.deb ... 113s Unpacking r-cran-nlme (3.1.164-1build1) ... 113s Selecting previously unselected package r-cran-matrix. 113s Preparing to unpack .../193-r-cran-matrix_1.6-5-1_amd64.deb ... 113s Unpacking r-cran-matrix (1.6-5-1) ... 114s Selecting previously unselected package r-cran-mgcv. 114s Preparing to unpack .../194-r-cran-mgcv_1.9-1-1_amd64.deb ... 114s Unpacking r-cran-mgcv (1.9-1-1) ... 114s Selecting previously unselected package r-cran-labeling. 114s Preparing to unpack .../195-r-cran-labeling_0.4.3-1_all.deb ... 114s Unpacking r-cran-labeling (0.4.3-1) ... 114s Selecting previously unselected package r-cran-munsell. 114s Preparing to unpack .../196-r-cran-munsell_0.5.0-2build1_all.deb ... 114s Unpacking r-cran-munsell (0.5.0-2build1) ... 114s Selecting previously unselected package r-cran-rcolorbrewer. 114s Preparing to unpack .../197-r-cran-rcolorbrewer_1.1-3-1build1_all.deb ... 114s Unpacking r-cran-rcolorbrewer (1.1-3-1build1) ... 114s Selecting previously unselected package r-cran-viridislite. 114s Preparing to unpack .../198-r-cran-viridislite_0.4.2-2_all.deb ... 114s Unpacking r-cran-viridislite (0.4.2-2) ... 114s Selecting previously unselected package r-cran-scales. 114s Preparing to unpack .../199-r-cran-scales_1.3.0-1_all.deb ... 114s Unpacking r-cran-scales (1.3.0-1) ... 114s Selecting previously unselected package r-cran-ggplot2. 114s Preparing to unpack .../200-r-cran-ggplot2_3.5.1+dfsg-1_all.deb ... 114s Unpacking r-cran-ggplot2 (3.5.1+dfsg-1) ... 114s Selecting previously unselected package r-cran-tweenr. 114s Preparing to unpack .../201-r-cran-tweenr_2.0.3-1_amd64.deb ... 114s Unpacking r-cran-tweenr (2.0.3-1) ... 114s Selecting previously unselected package r-cran-polyclip. 114s Preparing to unpack .../202-r-cran-polyclip_1.10-6-1_amd64.deb ... 114s Unpacking r-cran-polyclip (1.10-6-1) ... 114s Selecting previously unselected package r-cran-systemfonts. 114s Preparing to unpack .../203-r-cran-systemfonts_1.0.5-1_amd64.deb ... 114s Unpacking r-cran-systemfonts (1.0.5-1) ... 114s Selecting previously unselected package r-cran-rcppeigen. 114s Preparing to unpack .../204-r-cran-rcppeigen_0.3.4.0.0-1build1_amd64.deb ... 114s Unpacking r-cran-rcppeigen (0.3.4.0.0-1build1) ... 114s Selecting previously unselected package r-cran-ggforce. 114s Preparing to unpack .../205-r-cran-ggforce_0.4.2-1_amd64.deb ... 114s Unpacking r-cran-ggforce (0.4.2-1) ... 114s Selecting previously unselected package r-cran-stringi. 114s Preparing to unpack .../206-r-cran-stringi_1.8.3-1_amd64.deb ... 114s Unpacking r-cran-stringi (1.8.3-1) ... 114s Selecting previously unselected package r-cran-stringr. 114s Preparing to unpack .../207-r-cran-stringr_1.5.1-1_all.deb ... 114s Unpacking r-cran-stringr (1.5.1-1) ... 114s Selecting previously unselected package r-cran-ggthemes. 114s Preparing to unpack .../208-r-cran-ggthemes_5.1.0-1_all.deb ... 114s Unpacking r-cran-ggthemes (5.1.0-1) ... 114s Selecting previously unselected package r-cran-goftest. 114s Preparing to unpack .../209-r-cran-goftest_1.2-3-1_amd64.deb ... 114s Unpacking r-cran-goftest (1.2-3-1) ... 114s Selecting previously unselected package r-cran-gridextra. 114s Preparing to unpack .../210-r-cran-gridextra_2.3-3build1_all.deb ... 114s Unpacking r-cran-gridextra (2.3-3build1) ... 115s Selecting previously unselected package r-cran-zoo. 115s Preparing to unpack .../211-r-cran-zoo_1.8-12-2_amd64.deb ... 115s Unpacking r-cran-zoo (1.8-12-2) ... 115s Selecting previously unselected package r-cran-sftime. 115s Preparing to unpack .../212-r-cran-sftime_0.2-0-6_all.deb ... 115s Unpacking r-cran-sftime (0.2-0-6) ... 115s Selecting previously unselected package r-cran-xts. 115s Preparing to unpack .../213-r-cran-xts_0.13.2-1_amd64.deb ... 115s Unpacking r-cran-xts (0.13.2-1) ... 115s Selecting previously unselected package r-cran-intervals. 115s Preparing to unpack .../214-r-cran-intervals_0.15.4-1_amd64.deb ... 115s Unpacking r-cran-intervals (0.15.4-1) ... 115s Selecting previously unselected package r-cran-spacetime. 115s Preparing to unpack .../215-r-cran-spacetime_1.3-1-1_all.deb ... 115s Unpacking r-cran-spacetime (1.3-1-1) ... 115s Selecting previously unselected package r-cran-stars. 115s Preparing to unpack .../216-r-cran-stars_0.6-4-1_all.deb ... 115s Unpacking r-cran-stars (0.6-4-1) ... 115s Selecting previously unselected package r-cran-gstat. 115s Preparing to unpack .../217-r-cran-gstat_2.1-1-2_amd64.deb ... 115s Unpacking r-cran-gstat (2.1-1-2) ... 115s Selecting previously unselected package r-cran-xfun. 115s Preparing to unpack .../218-r-cran-xfun_0.44+dfsg-1_amd64.deb ... 115s Unpacking r-cran-xfun (0.44+dfsg-1) ... 115s Selecting previously unselected package r-cran-highr. 115s Preparing to unpack .../219-r-cran-highr_0.10+dfsg-2_all.deb ... 115s Unpacking r-cran-highr (0.10+dfsg-2) ... 115s Selecting previously unselected package r-cran-later. 115s Preparing to unpack .../220-r-cran-later_1.3.2+dfsg-1_amd64.deb ... 115s Unpacking r-cran-later (1.3.2+dfsg-1) ... 115s Selecting previously unselected package r-cran-promises. 115s Preparing to unpack .../221-r-cran-promises_1.3.0+dfsg-1_amd64.deb ... 115s Unpacking r-cran-promises (1.3.0+dfsg-1) ... 115s Selecting previously unselected package r-cran-httpuv. 115s Preparing to unpack .../222-r-cran-httpuv_1.6.15+dfsg-1_amd64.deb ... 115s Unpacking r-cran-httpuv (1.6.15+dfsg-1) ... 115s Selecting previously unselected package libjs-mathjax. 115s Preparing to unpack .../223-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 115s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 116s Selecting previously unselected package r-cran-knitr. 116s Preparing to unpack .../224-r-cran-knitr_1.46+dfsg-1_all.deb ... 116s Unpacking r-cran-knitr (1.46+dfsg-1) ... 116s Selecting previously unselected package r-cran-lmtest. 116s Preparing to unpack .../225-r-cran-lmtest_0.9.40-1_amd64.deb ... 116s Unpacking r-cran-lmtest (0.9.40-1) ... 116s Selecting previously unselected package r-cran-lwgeom. 116s Preparing to unpack .../226-r-cran-lwgeom_0.2-13-3build2_amd64.deb ... 116s Unpacking r-cran-lwgeom (0.2-13-3build2) ... 116s Selecting previously unselected package r-cran-maps. 116s Preparing to unpack .../227-r-cran-maps_3.4.2-1_amd64.deb ... 116s Unpacking r-cran-maps (3.4.2-1) ... 116s Selecting previously unselected package r-cran-mapdata. 116s Preparing to unpack .../228-r-cran-mapdata_2.3.1-1_amd64.deb ... 116s Unpacking r-cran-mapdata (2.3.1-1) ... 117s Selecting previously unselected package r-cran-misctools. 117s Preparing to unpack .../229-r-cran-misctools_0.6-28-1_all.deb ... 117s Unpacking r-cran-misctools (0.6-28-1) ... 117s Selecting previously unselected package r-cran-sandwich. 117s Preparing to unpack .../230-r-cran-sandwich_3.1-0-1_all.deb ... 117s Unpacking r-cran-sandwich (3.1-0-1) ... 117s Selecting previously unselected package r-cran-maxlik. 117s Preparing to unpack .../231-r-cran-maxlik_1.5-2-1_all.deb ... 117s Unpacking r-cran-maxlik (1.5-2-1) ... 117s Selecting previously unselected package r-cran-rnetcdf. 117s Preparing to unpack .../232-r-cran-rnetcdf_2.9-1-1build2_amd64.deb ... 117s Unpacking r-cran-rnetcdf (2.9-1-1build2) ... 117s Selecting previously unselected package r-cran-tidyr. 117s Preparing to unpack .../233-r-cran-tidyr_1.3.1-1_amd64.deb ... 117s Unpacking r-cran-tidyr (1.3.1-1) ... 117s Selecting previously unselected package r-cran-ncmeta. 117s Preparing to unpack .../234-r-cran-ncmeta_0.3.6-1_all.deb ... 117s Unpacking r-cran-ncmeta (0.3.6-1) ... 117s Selecting previously unselected package r-cran-ncdfgeom. 117s Preparing to unpack .../235-r-cran-ncdfgeom_1.1.6+dfsg-1_all.deb ... 117s Unpacking r-cran-ncdfgeom (1.1.6+dfsg-1) ... 117s Selecting previously unselected package r-cran-pbapply. 117s Preparing to unpack .../236-r-cran-pbapply_1.7-2-1_all.deb ... 117s Unpacking r-cran-pbapply (1.7-2-1) ... 117s Selecting previously unselected package r-cran-pcict. 117s Preparing to unpack .../237-r-cran-pcict_0.5-4.4-1_amd64.deb ... 117s Unpacking r-cran-pcict (0.5-4.4-1) ... 117s Selecting previously unselected package r-cran-pkgbuild. 117s Preparing to unpack .../238-r-cran-pkgbuild_1.4.3-1_all.deb ... 117s Unpacking r-cran-pkgbuild (1.4.3-1) ... 117s Selecting previously unselected package r-cran-rprojroot. 117s Preparing to unpack .../239-r-cran-rprojroot_2.0.4-1_all.deb ... 117s Unpacking r-cran-rprojroot (2.0.4-1) ... 117s Selecting previously unselected package r-cran-pkgload. 117s Preparing to unpack .../240-r-cran-pkgload_1.3.4-1_all.deb ... 117s Unpacking r-cran-pkgload (1.3.4-1) ... 117s Selecting previously unselected package r-cran-rbibutils. 117s Preparing to unpack .../241-r-cran-rbibutils_2.2.16-1_amd64.deb ... 117s Unpacking r-cran-rbibutils (2.2.16-1) ... 117s Selecting previously unselected package r-cran-rdpack. 117s Preparing to unpack .../242-r-cran-rdpack_2.6-1_all.deb ... 117s Unpacking r-cran-rdpack (2.6-1) ... 117s Selecting previously unselected package r-cran-plm. 117s Preparing to unpack .../243-r-cran-plm_2.6-4-1_all.deb ... 117s Unpacking r-cran-plm (2.6-4-1) ... 117s Selecting previously unselected package r-cran-praise. 117s Preparing to unpack .../244-r-cran-praise_1.0.0-4build1_all.deb ... 117s Unpacking r-cran-praise (1.0.0-4build1) ... 117s Selecting previously unselected package r-cran-randomforest. 117s Preparing to unpack .../245-r-cran-randomforest_4.7-1.1-1_amd64.deb ... 117s Unpacking r-cran-randomforest (4.7-1.1-1) ... 117s Selecting previously unselected package r-cran-rematch2. 117s Preparing to unpack .../246-r-cran-rematch2_2.1.2-2build1_all.deb ... 117s Unpacking r-cran-rematch2 (2.1.2-2build1) ... 117s Selecting previously unselected package r-cran-tinytex. 117s Preparing to unpack .../247-r-cran-tinytex_0.49-1_all.deb ... 117s Unpacking r-cran-tinytex (0.49-1) ... 118s Selecting previously unselected package libjs-modernizr. 118s Preparing to unpack .../248-libjs-modernizr_3.13.0-0.1_all.deb ... 118s Unpacking libjs-modernizr (3.13.0-0.1) ... 118s Selecting previously unselected package r-cran-xtable. 118s Preparing to unpack .../249-r-cran-xtable_1%3a1.8-4-2_all.deb ... 118s Unpacking r-cran-xtable (1:1.8-4-2) ... 118s Selecting previously unselected package r-cran-sourcetools. 118s Preparing to unpack .../250-r-cran-sourcetools_0.1.7-1-1_amd64.deb ... 118s Unpacking r-cran-sourcetools (0.1.7-1-1) ... 118s Selecting previously unselected package libjs-twitter-bootstrap-datepicker. 118s Preparing to unpack .../251-libjs-twitter-bootstrap-datepicker_1.3.1+dfsg1-4.1_all.deb ... 118s Unpacking libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... 118s Selecting previously unselected package r-cran-shiny. 118s Preparing to unpack .../252-r-cran-shiny_1.8.1.1+dfsg-1_all.deb ... 118s Unpacking r-cran-shiny 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r-cran-spatstat.geom. 118s Preparing to unpack .../258-r-cran-spatstat.geom_3.2-9-1_amd64.deb ... 118s Unpacking r-cran-spatstat.geom (3.2-9-1) ... 118s Selecting previously unselected package r-cran-spatstat.random. 118s Preparing to unpack .../259-r-cran-spatstat.random_3.2-3-1_amd64.deb ... 118s Unpacking r-cran-spatstat.random (3.2-3-1) ... 118s Selecting previously unselected package r-cran-tensor. 118s Preparing to unpack .../260-r-cran-tensor_1.5-4_all.deb ... 118s Unpacking r-cran-tensor (1.5-4) ... 118s Selecting previously unselected package r-cran-spatstat.sparse. 118s Preparing to unpack .../261-r-cran-spatstat.sparse_3.0-3-1_amd64.deb ... 118s Unpacking r-cran-spatstat.sparse (3.0-3-1) ... 118s Selecting previously unselected package r-cran-spatstat.explore. 118s Preparing to unpack .../262-r-cran-spatstat.explore_3.2-5-1_amd64.deb ... 118s Unpacking r-cran-spatstat.explore (3.2-5-1) ... 118s Selecting previously unselected package r-cran-spatstat.model. 118s Preparing to 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r-cran-globals (0.16.3-1) ... 122s Setting up r-cran-vctrs (0.6.5-1) ... 122s Setting up r-cran-rcppeigen (0.3.4.0.0-1build1) ... 122s Setting up r-cran-pillar (1.9.0+dfsg-1) ... 122s Setting up r-cran-openssl (2.1.1+dfsg-2build2) ... 122s Setting up r-cran-misctools (0.6-28-1) ... 122s Setting up r-cran-stringr (1.5.1-1) ... 122s Setting up r-cran-class (7.3-22-2build1) ... 122s Setting up r-cran-callr (3.7.6-1) ... 122s Setting up r-cran-desc (1.4.3-1) ... 122s Setting up r-cran-munsell (0.5.0-2build1) ... 122s Setting up r-cran-tibble (3.2.1+dfsg-2) ... 122s Setting up r-cran-sandwich (3.1-0-1) ... 122s Setting up r-cran-fontawesome (0.5.2-1) ... 122s Setting up r-cran-survival (3.5-8-1) ... 122s Setting up r-cran-xts (0.13.2-1) ... 122s Setting up r-cran-rdpack (2.6-1) ... 122s Setting up r-cran-tweenr (2.0.3-1) ... 122s Setting up r-cran-future (1.33.1+dfsg-1) ... 122s Setting up r-cran-jquerylib (0.1.4+dfsg-4) ... 122s Setting up r-cran-tidyselect (1.2.0+dfsg-1) ... 122s Setting up r-cran-future.apply (1.11.2+dfsg-1) ... 122s Setting up r-cran-raster (3.6-26-1) ... 122s Setting up r-cran-systemfonts (1.0.5-1) ... 122s Setting up r-cran-httr (1.4.7+dfsg-1) ... 122s Setting up r-cran-gridextra (2.3-3build1) ... 122s Setting up r-cran-scales (1.3.0-1) ... 122s Setting up r-cran-memoise (2.0.1-1) ... 122s Setting up r-cran-covr (3.6.4+dfsg-1) ... 122s Setting up r-cran-promises (1.3.0+dfsg-1) ... 122s Setting up r-cran-purrr (1.0.2-1) ... 122s Setting up r-cran-e1071 (1.7-14-1) ... 122s Setting up r-cran-spatstat.data (3.0-4-1) ... 122s Setting up r-cran-maxlik (1.5-2-1) ... 122s Setting up r-cran-spacetime (1.3-1-1) ... 122s Setting up r-cran-spatstat.geom (3.2-9-1) ... 122s Setting up r-cran-pkgbuild (1.4.3-1) ... 122s Setting up r-cran-dplyr (1.1.4-1) ... 122s Setting up r-cran-cubelyr (1.0.2-1) ... 122s Setting up r-cran-pkgload (1.3.4-1) ... 122s Setting up r-cran-ggplot2 (3.5.1+dfsg-1) ... 122s Setting up r-cran-httpuv (1.6.15+dfsg-1) ... 122s Setting up r-cran-rematch2 (2.1.2-2build1) ... 122s Setting up r-cran-rpart (4.1.23-1build1) ... 122s Setting up r-cran-spatstat.random (3.2-3-1) ... 122s Setting up r-cran-plm (2.6-4-1) ... 122s Setting up r-cran-viridis (0.6.5-1) ... 122s Setting up r-cran-classint (0.4-10+dfsg-1) ... 122s Setting up r-cran-bslib (0.7.0+dfsg-1) ... 122s Setting up r-cran-spatstat.explore (3.2-5-1) ... 122s Setting up r-cran-ggthemes (5.1.0-1) ... 122s Setting up r-cran-waldo (0.5.2-1build1) ... 122s Setting up r-cran-tidyr (1.3.1-1) ... 122s Setting up r-cran-sf (1.0-16+dfsg-1) ... 122s Setting up r-cran-exactextractr (0.10.0-1build2) ... 122s Setting up r-cran-stars (0.6-4-1) ... 122s Setting up r-cran-ggforce (0.4.2-1) ... 122s Setting up r-cran-sftime (0.2-0-6) ... 122s Setting up r-cran-spatstat.model (3.2-11-1) ... 122s Setting up r-cran-shiny (1.8.1.1+dfsg-1) ... 122s Setting up r-cran-areal (0.1.8+dfsg-2) ... 122s Setting up r-cran-gstat (2.1-1-2) ... 122s Setting up r-cran-testthat (3.2.1-1) ... 122s Setting up r-cran-lwgeom (0.2-13-3build2) ... 122s Setting up r-cran-ncmeta (0.3.6-1) ... 122s Setting up r-cran-rmarkdown (2.25+dfsg-3) ... 122s Setting up r-cran-spatstat.linnet (3.1-5-1) ... 122s Setting up r-cran-ncdfgeom (1.1.6+dfsg-1) ... 122s Setting up r-cran-spatstat (3.0-7-1) ... 122s Setting up autopkgtest-satdep (0) ... 122s Processing triggers for man-db (2.12.1-1) ... 123s Processing triggers for install-info (7.1-3build2) ... 123s Processing triggers for libc-bin (2.39-0ubuntu8.1) ... 133s (Reading database ... 98758 files and directories currently installed.) 133s Removing autopkgtest-satdep (0) ... 133s autopkgtest [10:40:58]: test run-unit-test: [----------------------- 133s BEGIN TEST aggregate.R 134s 134s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 134s Copyright (C) 2024 The R Foundation for Statistical Computing 134s Platform: x86_64-pc-linux-gnu 134s 134s R is free software and comes with ABSOLUTELY NO WARRANTY. 134s You are welcome to redistribute it under certain conditions. 134s Type 'license()' or 'licence()' for distribution details. 134s 134s R is a collaborative project with many contributors. 134s Type 'contributors()' for more information and 134s 'citation()' on how to cite R or R packages in publications. 134s 134s Type 'demo()' for some demos, 'help()' for on-line help, or 134s 'help.start()' for an HTML browser interface to help. 134s Type 'q()' to quit R. 134s 134s > library(stars) 134s Loading required package: abind 134s Loading required package: sf 134s Linking to GEOS 3.12.1, GDAL 3.8.5, PROJ 9.4.0; sf_use_s2() is TRUE 134s > 134s > if (suppressPackageStartupMessages(require(sp, quietly = TRUE)) && require(spacetime, quietly = TRUE)) { 134s + data(air) # this loads several datasets in .GlobalEnv 134s + dim(air) 134s + d = st_dimensions(station = st_set_crs(st_as_sfc(stations), 4326), time = dates) 134s + 134s + blocks = st_make_grid(st_as_sfc("POLYGON ((5.871619 47.26986, 15.03811 47.26986, 15.03811 55.05653, 5.871619 55.05653, 5.871619 47.26986))", crs = 4326), 134s + n = c(3,3)) 134s + 134s + print(aq <- st_as_stars(list(PM10 = air), dimensions = d)) 134s + print(a <- aggregate(aq, blocks, mean, na.rm = TRUE)) 134s + } 135s stars object with 2 dimensions and 1 attribute 135s attribute(s): 135s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 135s PM10 0 9.921 14.792 17.69728 21.992 274.333 157659 135s dimension(s): 135s from to offset delta refsys point 135s station 1 70 NA NA WGS 84 TRUE 135s time 1 4383 1998-01-01 1 days Date FALSE 135s values 135s station POINT (9.585911 53.67057),...,POINT (9.446661 49.24068) 135s time NULL 135s stars object with 2 dimensions and 1 attribute 135s attribute(s): 135s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 135s PM10 1 11 15.57425 18.1715 22.17197 183.271 8429 135s dimension(s): 135s from to offset delta refsys point 135s geometry 1 9 NA NA WGS 84 FALSE 135s time 1 4383 1998-01-01 1 days Date FALSE 135s values 135s geometry POLYGON ((5.871619 47.269...,...,POLYGON ((11.98261 52.460... 135s time NULL 135s > 135s > # adapted from ?read_stars: 135s > m = array(1:720, dim = c(x = 10, y = 12, t = 6)) # named dim 135s > st = st_as_stars(m) 135s > attr(st, "dimensions")$y$delta = -1 135s > attr(st, "dimensions")$y$offset = 12 135s > tm = as.Date("2019-02-19") + 1:6 135s > st = st_set_crs(st_set_dimensions(st, 3, values = tm), 4326) 135s > 135s > tmp = tempfile(fileext = ".tif") 135s > write_stars(st, tmp) 135s > 135s > (red <- setNames(read_stars(tmp, RasterIO = list(nXOff = 1, nYOff = 1, nXsize = 10, nYSize = 12, 135s + nBufXSize = 2, nBufYSize = 2)), "foo")) 135s stars object with 3 dimensions and 1 attribute 135s attribute(s): 135s Min. 1st Qu. Median Mean 3rd Qu. Max. 135s foo 33 199.25 365.5 365.5 531.75 698 135s dimension(s): 135s from to offset delta refsys point x/y 135s x 1 2 0 5 WGS 84 FALSE [x] 135s y 1 2 12 -6 WGS 84 FALSE [y] 135s band 1 6 NA NA NA NA 135s > 135s > sfc = st_set_crs(st_as_sfc(red, as_points = FALSE), st_crs(st)) 135s > (a = aggregate(st, st_sf(a = 1, geom = sfc), mean)) 135s stars object with 2 dimensions and 1 attribute 135s attribute(s): 135s Min. 1st Qu. Median Mean 3rd Qu. Max. 135s A1 28 194.25 360.5 360.5 526.75 693 135s dimension(s): 135s from to offset delta refsys point 135s geom 1 4 NA NA WGS 84 FALSE 135s t 1 6 2019-02-20 1 days Date FALSE 135s values 135s geom POLYGON ((0 12, 5 12, 5 6...,...,POLYGON ((5 6, 10 6, 10 0... 135s t NULL 135s > (a = aggregate(st, sfc, mean)) 135s stars object with 2 dimensions and 1 attribute 135s attribute(s): 135s Min. 1st Qu. Median Mean 3rd Qu. Max. 135s A1 28 194.25 360.5 360.5 526.75 693 135s dimension(s): 135s from to offset delta refsys point 135s geometry 1 4 NA NA WGS 84 FALSE 135s t 1 6 2019-02-20 1 days Date FALSE 135s values 135s geometry POLYGON ((0 12, 5 12, 5 6...,...,POLYGON ((5 6, 10 6, 10 0... 135s t NULL 135s > 135s > tm0 = as.Date("2019-02-19") + -1:8 135s > (a = aggregate(st, tm0, mean, na.rm = TRUE)) 135s stars object with 3 dimensions and 1 attribute 135s attribute(s): 135s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 135s A1 1 180.75 360.5 360.5 540.25 720 480 135s dimension(s): 135s from to offset delta refsys point x/y 135s time 1 10 2019-02-18 1 days Date NA 135s x 1 10 0 1 WGS 84 FALSE [x] 135s y 1 12 12 -1 WGS 84 FALSE [y] 135s > (a = aggregate(st, "days", mean, na.rm = TRUE)) 135s stars object with 3 dimensions and 1 attribute 135s attribute(s): 135s Min. 1st Qu. Median Mean 3rd Qu. Max. 135s A1 1 180.75 360.5 360.5 540.25 720 135s dimension(s): 135s from to offset delta refsys point x/y 135s time 1 6 2019-02-20 1 days Date NA 135s x 1 10 0 1 WGS 84 FALSE [x] 135s y 1 12 12 -1 WGS 84 FALSE [y] 135s > yd = function(x) as.POSIXlt(x)$yday 135s > (a = aggregate(st, yd, mean, na.rm = TRUE)) 135s stars object with 3 dimensions and 1 attribute 135s attribute(s): 135s Min. 1st Qu. Median Mean 3rd Qu. Max. 135s A1 1 180.75 360.5 360.5 540.25 720 135s dimension(s): 135s from to offset delta refsys point values x/y 135s geometry 1 6 NA NA NA NA 50,...,55 135s x 1 10 0 1 WGS 84 FALSE NULL [x] 135s y 1 12 12 -1 WGS 84 FALSE NULL [y] 135s > 135s > # with "by" geometry not overlapping x 135s > pt = st_point(c(-10,-10)) 135s > (sfc = c(sfc, st_sfc(pt, crs = st_crs(sfc)))) 135s Geometry set for 5 features 135s Geometry type: GEOMETRY 135s Dimension: XY 135s Bounding box: xmin: -10 ymin: -10 xmax: 10 ymax: 12 135s Geodetic CRS: WGS 84 135s POLYGON ((0 12, 5 12, 5 6, 0 6, 0 12)) 135s POLYGON ((5 12, 10 12, 10 6, 5 6, 5 12)) 135s POLYGON ((0 6, 5 6, 5 0, 0 0, 0 6)) 135s POLYGON ((5 6, 10 6, 10 0, 5 0, 5 6)) 135s > (a = aggregate(st, sfc, mean)) 135s POINT (-10 -10) 135s stars object with 2 dimensions and 1 attribute 135s attribute(s): 135s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 135s A1 28 194.25 360.5 360.5 526.75 693 6 135s dimension(s): 135s from to offset delta refsys point 135s geometry 1 5 NA NA WGS 84 FALSE 135s t 1 6 2019-02-20 1 days Date FALSE 135s values 135s geometry POLYGON ((0 12, 5 12, 5 6...,...,POINT (-10 -10) 135s t NULL 135s > (a = aggregate(st, st, mean)) 135s stars object with 2 dimensions and 1 attribute 135s attribute(s): 135s Min. 1st Qu. Median Mean 3rd Qu. Max. 135s A1 1 180.75 360.5 360.5 540.25 720 135s dimension(s): 135s from to offset delta refsys point 135s geometry 1 120 NA NA WGS 84 FALSE 135s t 1 6 2019-02-20 1 days Date FALSE 135s values 135s geometry POLYGON ((0 12, 1 12, 1 1...,...,POLYGON ((9 1, 10 1, 10 0... 135s t NULL 135s > 135s BEGIN TEST align.R 135s 135s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 135s Copyright (C) 2024 The R Foundation for Statistical Computing 135s Platform: x86_64-pc-linux-gnu 135s 135s R is free software and comes with ABSOLUTELY NO WARRANTY. 135s You are welcome to redistribute it under certain conditions. 135s Type 'license()' or 'licence()' for distribution details. 135s 135s R is a collaborative project with many contributors. 135s Type 'contributors()' for more information and 135s 'citation()' on how to cite R or R packages in publications. 135s 135s Type 'demo()' for some demos, 'help()' for on-line help, or 135s 'help.start()' for an HTML browser interface to help. 135s Type 'q()' to quit R. 135s 135s > suppressPackageStartupMessages(library(stars)) 136s > set.seed(1331) 136s > st_sample(st_as_sfc(st_bbox(L7_ETMs)), 1) 136s Geometry set for 1 feature 136s Geometry type: POINT 136s Dimension: XY 136s Bounding box: xmin: 291430.8 ymin: 9111430 xmax: 291430.8 ymax: 9111430 136s Projected CRS: SIRGAS 2000 / UTM zone 25S 136s POINT (291430.8 9111430) 136s > b = st_buffer(st_sample(st_as_sfc(st_bbox(L7_ETMs)), 1), 335) 136s > bba = stars:::st_align(st_bbox(b), st_dimensions(L7_ETMs)) 136s > 136s > plot(L7_ETMs[,,,1], extent = st_buffer(b, 20), reset = FALSE, key.pos = NULL) 136s > plot(b, add = TRUE, col = NA, border = 'red') 136s > plot(st_as_sfc(st_bbox(b)), col = NA, border = 'red', add = TRUE) 136s > plot(st_as_sfc(bba), col = NA, border = 'blue', add = TRUE) 136s > st_bbox(b) 136s xmin ymin xmax ymax 136s 297116.8 9119404.1 297786.8 9120074.1 136s > bba 136s xmin ymin xmax ymax 136s 297098.3 9119392.8 297810.8 9120076.8 136s > 136s > plot(L7_ETMs[,,,1], reset = FALSE, key.pos = NULL) 136s > plot(b, col = 'red', add = TRUE) 136s > plot(st_as_sfc(bba), col = NA, border = 'blue', add = TRUE) 136s > 136s > b0 = st_buffer(b, -100) 136s > L7 = st_as_stars(L7_ETMs)[b0][,,,1] |> st_normalize() 136s > bbb = stars:::st_align(st_bbox(b), st_dimensions(L7)) 136s > plot(L7, extent = st_buffer(b, 120), reset = FALSE, key.pos = NULL) 136s > plot(st_as_sfc(st_bbox(L7)), col = NA, border = 'black', add = TRUE) 136s > plot(st_as_sfc(bbb), col = NA, border = 'blue', add = TRUE) 136s > plot(b, col = NA, border = 'red', add = TRUE) 136s > 136s > all.equal(bbb, bba) 136s [1] TRUE 136s > 136s BEGIN TEST area.R 136s 136s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 136s Copyright (C) 2024 The R Foundation for Statistical Computing 136s Platform: x86_64-pc-linux-gnu 136s 136s R is free software and comes with ABSOLUTELY NO WARRANTY. 136s You are welcome to redistribute it under certain conditions. 136s Type 'license()' or 'licence()' for distribution details. 136s 136s R is a collaborative project with many contributors. 136s Type 'contributors()' for more information and 136s 'citation()' on how to cite R or R packages in publications. 136s 136s Type 'demo()' for some demos, 'help()' for on-line help, or 136s 'help.start()' for an HTML browser interface to help. 136s Type 'q()' to quit R. 136s 137s > suppressPackageStartupMessages(library(stars)) 137s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 137s > x = read_stars(tif) 137s > (a = st_area(x[,1:5,1:5])) 137s stars object with 2 dimensions and 1 attribute 137s attribute(s): 137s Min. 1st Qu. Median Mean 3rd Qu. Max. 137s area [m^2] 812.25 812.25 812.25 812.25 812.25 812.25 137s dimension(s): 137s from to offset delta refsys point x/y 137s x 1 5 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 137s y 1 5 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 137s > 137s > m = matrix(1:20, nrow = 5, ncol = 4) 137s > x = c(0, 0.5, 1, 2, 4, 5) # 6 numbers: boundaries! 137s > y = c(0.3, 0.5, 1, 2, 2.2) # 5 numbers: boundaries! 137s > (r = st_as_stars(list(m = m), dimensions = st_dimensions(x = x, y = y))) 137s stars object with 2 dimensions and 1 attribute 137s attribute(s): 137s Min. 1st Qu. Median Mean 3rd Qu. Max. 137s m 1 5.75 10.5 10.5 15.25 20 137s dimension(s): 137s from to point values x/y 137s x 1 5 FALSE [0,0.5),...,[4,5) [x] 137s y 1 4 FALSE [0.3,0.5),...,[2,2.2) [y] 137s > # image(r, axes = TRUE, col = grey((1:20)/20)) 137s > (a = st_area(r)) 137s Missing coordinate reference system: assuming Cartesian coordinates 137s stars object with 2 dimensions and 1 attribute 137s attribute(s): 137s Min. 1st Qu. Median Mean 3rd Qu. Max. 137s area 0.1 0.2 0.325 0.475 0.5 2 137s dimension(s): 137s from to point values x/y 137s x 1 5 FALSE [0,0.5),...,[4,5) [x] 137s y 1 4 FALSE [0.3,0.5),...,[2,2.2) [y] 137s > #plot(a, axes = TRUE) 137s > 137s > s5p = system.file("sentinel5p/S5P_NRTI_L2__NO2____20180717T120113_20180717T120613_03932_01_010002_20180717T125231.nc", package = "starsdata") 137s > if (s5p != "") { 137s + nit.c = read_stars(s5p, sub = "//PRODUCT/SUPPORT_DATA/DETAILED_RESULTS/nitrogendioxide_summed_total_column", 137s + curvilinear = c("//PRODUCT/longitude", "//PRODUCT/latitude"), driver = NULL) 137s + if (inherits(nit.c[[1]], "units")) 137s + nit.c[[1]] = units::drop_units(nit.c[[1]]) 137s + nit.c[[1]][nit.c[[1]] > 9e+36] = NA 137s + st_crs(nit.c) = 4326 137s + print((a <- st_area(nit.c[,1:5,1:5]))) 137s + # plot(a, axes = TRUE, border = NA) 137s + } 137s > 137s BEGIN TEST crop.R 137s 137s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 137s Copyright (C) 2024 The R Foundation for Statistical Computing 137s Platform: x86_64-pc-linux-gnu 137s 137s R is free software and comes with ABSOLUTELY NO WARRANTY. 137s You are welcome to redistribute it under certain conditions. 137s Type 'license()' or 'licence()' for distribution details. 137s 137s R is a collaborative project with many contributors. 137s Type 'contributors()' for more information and 137s 'citation()' on how to cite R or R packages in publications. 137s 137s Type 'demo()' for some demos, 'help()' for on-line help, or 137s 'help.start()' for an HTML browser interface to help. 137s Type 'q()' to quit R. 137s 137s > suppressPackageStartupMessages(library(stars)) 138s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 138s > x = read_stars(tif) 138s > xy = structure(list(x = c(293253.999046018, 296400.196497684), y = c(9113801.64775462, 138s + 9111328.49619133)), .Names = c("x", "y")) 138s > pts = st_as_sf(data.frame(do.call(cbind, xy)), coords = c("x", "y"), crs = st_crs(x)) 138s > image(x, axes = TRUE) 138s > plot(st_as_sfc(st_bbox(pts)), col = NA, add = TRUE) 138s > 138s > bb = st_bbox(pts) 138s > (xx = x[bb]) 138s stars object with 3 dimensions and 1 attribute 138s attribute(s): 138s Min. 1st Qu. Median Mean 3rd Qu. Max. 138s L7_ETMs.tif 3 56 73 70.87303 89 255 138s dimension(s): 138s from to offset delta refsys point x/y 138s x 158 268 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 138s y 245 331 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 138s band 1 6 NA NA NA NA 138s > image(xx) 138s > plot(st_as_sfc(bb), add = TRUE, col = NA) 138s > st_contains(st_as_sfc(st_bbox(xx)), st_as_sfc(st_bbox(pts))) 138s Sparse geometry binary predicate list of length 1, where the predicate 138s was `contains' 138s 1: 1 138s > 138s > image(x) 138s > pt = st_point(c(x = 290462.103109179, y = 9114202.32594085)) 138s > buf = st_buffer(st_sfc(pt, crs = st_crs(x)), 1500) 138s > plot(buf, add = TRUE) 138s > 138s > buf = st_sfc(st_polygon(list(st_buffer(pt, 1500)[[1]], st_buffer(pt, 1000)[[1]])), 138s + crs = st_crs(x)) 138s > image(x[buf]) 138s > plot(buf, add = TRUE, col = NA) 138s > image(x[buf,crop=FALSE]) 139s > plot(buf, add = TRUE, col = NA) 139s > 139s > plot(x, rgb = 1:3) 139s > 139s > # #638: 139s > l = st_as_stars(L7_ETMs) 139s > st_bbox(l) |> st_as_sfc() -> bb 139s > (bb + 1e6) |> st_set_crs(st_crs(l)) -> b 139s > st_crop(l, b) 140s stars object with 3 dimensions and 1 attribute 140s attribute(s): 140s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 140s L7_ETMs NA NA NA NaN NA NA 737088 140s dimension(s): 140s from to offset delta refsys point x/y 140s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 140s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 140s band 1 6Warning message: 140s In st_crop.stars(l, b) : st_crop: bounding boxes of x and y do not overlap 140s NA NA NA NA 140s > st_intersects(b, st_as_sfc(st_bbox(l))) |> as.matrix() 140s [,1] 140s [1,] FALSE 140s > (bb - 1e6) |> st_set_crs(st_crs(l)) -> b 140s > st_crop(l, b) 140s stars object with 3 dimensions and 1 attribute 140s attribute(s): 140s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 140s L7_ETMs NA NA NA NaN NA NA 737088 140s dimension(s): 140s from to offset delta refsys point x/y 140s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 140s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 140s band 1 6 NA NA NA NA 140s > 140s Warning message: 140s In st_crop.stars(l, b) : st_crop: bounding boxes of x and y do not overlap 140s BEGIN TEST curvilinear.R 140s 140s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 140s Copyright (C) 2024 The R Foundation for Statistical Computing 140s Platform: x86_64-pc-linux-gnu 140s 140s R is free software and comes with ABSOLUTELY NO WARRANTY. 140s You are welcome to redistribute it under certain conditions. 140s Type 'license()' or 'licence()' for distribution details. 140s 140s R is a collaborative project with many contributors. 140s Type 'contributors()' for more information and 140s 'citation()' on how to cite R or R packages in publications. 140s 140s Type 'demo()' for some demos, 'help()' for on-line help, or 140s 'help.start()' for an HTML browser interface to help. 140s Type 'q()' to quit R. 140s 140s > suppressPackageStartupMessages(library(stars)) 141s > 141s > s5p = system.file("sentinel5p/S5P_NRTI_L2__NO2____20180717T120113_20180717T120613_03932_01_010002_20180717T125231.nc", package = "starsdata") 141s > if (s5p != "") { 141s + 141s + lat_ds = paste0("HDF5:\"", s5p, "\"://PRODUCT/latitude") 141s + lon_ds = paste0("HDF5:\"", s5p, "\"://PRODUCT/longitude") 141s + nit_ds = paste0("HDF5:\"", s5p, "\"://PRODUCT/SUPPORT_DATA/DETAILED_RESULTS/nitrogendioxide_summed_total_column") 141s + lat = read_stars(lat_ds) 141s + lon = read_stars(lon_ds) 141s + nit = read_stars(nit_ds) 141s + nit[[1]][nit[[1]] > 9e+36] = NA 141s + 141s + ll = setNames(c(lon, lat), c("x", "y")) 141s + nit.c0 = st_as_stars(nit, curvilinear = ll) 141s + 141s + # more direct method: 141s + nit.c = read_stars(s5p, sub = "//PRODUCT/SUPPORT_DATA/DETAILED_RESULTS/nitrogendioxide_summed_total_column", 141s + curvilinear = c("//PRODUCT/longitude", "//PRODUCT/latitude"), driver = NULL) 141s + if (inherits(nit.c[[1]], "units")) 141s + nit.c[[1]] = units::drop_units(nit.c[[1]]) 141s + nit.c[[1]][nit.c[[1]] > 9e+36] = NA 141s + all.equal(nit.c0, nit.c) 141s + st_crs(nit.c) = 4326 141s + print(nit.c) 141s + 141s + if (FALSE && capabilities()["png"]) { 141s + png("nit1.png", 800, 800) 141s + plot(nit.c, breaks = "equal", reset = FALSE, axes = TRUE, as_points = TRUE, pch = 16) 141s + maps::map('world', add = TRUE, col = 'red') 141s + dev.off() 141s + 141s + png("nit2.png", 800, 800) 141s + plot(nit.c, breaks = "equal", reset = FALSE, axes = TRUE, as_points = FALSE, border = NA) 141s + maps::map('world', add = TRUE, col = 'red') 141s + dev.off() 141s + 141s + nit.c = stars:::st_downsample(nit.c, 8) 141s + print(nit.c) 141s + 141s + png("nit3.png", 800, 800) 141s + plot(nit.c, breaks = "equal", reset = FALSE, axes = TRUE, as_points = TRUE, pch = 16) 141s + maps::map('world', add = TRUE, col = 'red') 141s + dev.off() 141s + 141s + png("nit4.png", 800, 800) 141s + plot(nit.c, breaks = "equal", reset = FALSE, axes = TRUE, as_points = FALSE, border = NA) 141s + maps::map('world', add = TRUE, col = 'red') 141s + dev.off() 141s + } 141s + 141s + } 141s > 141s BEGIN TEST datasets.R 141s 141s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 141s Copyright (C) 2024 The R Foundation for Statistical Computing 141s Platform: x86_64-pc-linux-gnu 141s 141s R is free software and comes with ABSOLUTELY NO WARRANTY. 141s You are welcome to redistribute it under certain conditions. 141s Type 'license()' or 'licence()' for distribution details. 141s 141s R is a collaborative project with many contributors. 141s Type 'contributors()' for more information and 141s 'citation()' on how to cite R or R packages in publications. 141s 141s Type 'demo()' for some demos, 'help()' for on-line help, or 141s 'help.start()' for an HTML browser interface to help. 141s Type 'q()' to quit R. 141s 141s > suppressPackageStartupMessages(library(stars)) 142s > bcsd_obs 142s stars_proxy object with 2 attributes in 2 file(s): 142s $foo 142s [1] "[...]/bcsd_obs_1999.nc:pr" 142s 142s $bar 142s [1] "[...]/bcsd_obs_1999.nc:tas" 142s 142s dimension(s): 142s from to offset delta refsys values x/y 142s x 1 81 -85 0.125 NA NULL [x] 142s y 1 33 37.12 -0.125 NA NULL [y] 142s time 1 12 NA NA POSIXct 1999-01-31,...,1999-12-31 142s > L7_ETMs 142s stars_proxy object with 1 attribute in 1 file(s): 142s $L7_ETMs 142s [1] "[...]/L7_ETMs.tif" 142s 142s dimension(s): 142s from to offset delta refsys point x/y 142s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 142s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 142s band 1 6 NA NA NA NA 142s > if (require(starsdata, quietly = TRUE)) { 142s + print(stars_sentinel2) 142s + } 142s > 142s BEGIN TEST dimensions.R 142s 142s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 142s Copyright (C) 2024 The R Foundation for Statistical Computing 142s Platform: x86_64-pc-linux-gnu 142s 142s R is free software and comes with ABSOLUTELY NO WARRANTY. 142s You are welcome to redistribute it under certain conditions. 142s Type 'license()' or 'licence()' for distribution details. 142s 142s R is a collaborative project with many contributors. 142s Type 'contributors()' for more information and 142s 'citation()' on how to cite R or R packages in publications. 142s 142s Type 'demo()' for some demos, 'help()' for on-line help, or 142s 'help.start()' for an HTML browser interface to help. 142s Type 'q()' to quit R. 142s 142s > # https://github.com/r-spatial/stars/issues/295 142s > suppressPackageStartupMessages(library(stars)) 142s > raw <- read_stars(system.file("nc/bcsd_obs_1999.nc", package = "stars")) 142s pr, tas, 142s > foo <- function(x, idx) stats::lowess(idx, x)$y 142s > 142s > timeline <- st_get_dimension_values(raw, "time") 142s > smooth = st_apply(raw, 142s + MARGIN = c("x", "y"), 142s + FUN = foo, 142s + idx = st_get_dimension_values(raw, "time") 142s + ) 143s > 143s > st_set_dimensions(smooth, 143s + which = "foo", 143s + values = st_get_dimension_values(raw, "time"), 143s + names = "time" 143s + ) 143s stars object with 3 dimensions and 2 attributes 143s attribute(s): 143s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 143s pr 16.133519 70.371665 84.55774 87.72969 101.94830 278.6427 7116 143s tas -2.354958 9.632157 15.32671 14.61650 19.99331 24.7976 7116 143s dimension(s): 143s from to offset delta refsys values x/y 143s time 1 12 NA NA POSIXct 1999-01-31,...,1999-12-31 143s x 1 81 -85 0.125 NA NULL [x] 143s y 1 33 37.12 -0.125 NA NULL [y] 143s > 143s > raw %>% 143s + st_apply(MARGIN = c("x", "y"), FUN = foo, idx = timeline) %>% 143s + st_set_dimensions("foo", st_dimensions(raw)["time"]) 143s stars object with 3 dimensions and 2 attributes 143s attribute(s): 143s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 143s pr 16.133519 70.371665 84.55774 87.72969 101.94830 278.6427 7116 143s tas -2.354958 9.632157 15.32671 14.61650 19.99331 24.7976 7116 143s dimension(s): 143s from to offset delta refsys values x/y 143s time 1 12 NA NA POSIXct 1999-01-31,...,1999-12-31 143s x 1 81 -85 0.125 NA NULL [x] 143s y 1 33 37.12 -0.125 NA NULL [y] 143s > 143s BEGIN TEST downsample.R 143s 143s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 143s Copyright (C) 2024 The R Foundation for Statistical Computing 143s Platform: x86_64-pc-linux-gnu 143s 143s R is free software and comes with ABSOLUTELY NO WARRANTY. 143s You are welcome to redistribute it under certain conditions. 143s Type 'license()' or 'licence()' for distribution details. 143s 143s R is a collaborative project with many contributors. 143s Type 'contributors()' for more information and 143s 'citation()' on how to cite R or R packages in publications. 143s 143s Type 'demo()' for some demos, 'help()' for on-line help, or 143s 'help.start()' for an HTML browser interface to help. 143s Type 'q()' to quit R. 143s 143s > library(stars) 143s Loading required package: abind 143s Loading required package: sf 143s Linking to GEOS 3.12.1, GDAL 3.8.5, PROJ 9.4.0; sf_use_s2() is TRUE 144s > m = matrix(1:121, 11, 11) 144s > m 144s [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,10] [,11] 144s [1,] 1 12 23 34 45 56 67 78 89 100 111 144s [2,] 2 13 24 35 46 57 68 79 90 101 112 144s [3,] 3 14 25 36 47 58 69 80 91 102 113 144s [4,] 4 15 26 37 48 59 70 81 92 103 114 144s [5,] 5 16 27 38 49 60 71 82 93 104 115 144s [6,] 6 17 28 39 50 61 72 83 94 105 116 144s [7,] 7 18 29 40 51 62 73 84 95 106 117 144s [8,] 8 19 30 41 52 63 74 85 96 107 118 144s [9,] 9 20 31 42 53 64 75 86 97 108 119 144s [10,] 10 21 32 43 54 65 76 87 98 109 120 144s [11,] 11 22 33 44 55 66 77 88 99 110 121 144s > s = st_as_stars(m) 144s > st_downsample(s, 1) 144s stars object with 2 dimensions and 1 attribute 144s attribute(s): 144s Min. 1st Qu. Median Mean 3rd Qu. Max. 144s A1 1 28.5 61 61 93.5 121 144s dimension(s): 144s from to offset delta point x/y 144s X1 1 6 0 2 FALSE [x] 144s X2 1 6 0 2 FALSE [y] 144s > st_downsample(s, 1)[[1]] 144s [,1] [,2] [,3] [,4] [,5] [,6] 144s [1,] 1 23 45 67 89 111 144s [2,] 3 25 47 69 91 113 144s [3,] 5 27 49 71 93 115 144s [4,] 7 29 51 73 95 117 144s [5,] 9 31 53 75 97 119 144s [6,] 11 33 55 77 99 121 144s > st_downsample(s, 1, offset = 1) 144s stars object with 2 dimensions and 1 attribute 144s attribute(s): 144s Min. 1st Qu. Median Mean 3rd Qu. Max. 144s A1 13 37 61 61 85 109 144s dimension(s): 144s from to offset delta point x/y 144s X1 1 5 1 2 FALSE [x] 144s X2 1 5 1 2 FALSE [y] 144s > st_downsample(s, 1, offset = 1)[[1]] 144s [,1] [,2] [,3] [,4] [,5] 144s [1,] 13 35 57 79 101 144s [2,] 15 37 59 81 103 144s [3,] 17 39 61 83 105 144s [4,] 19 41 63 85 107 144s [5,] 21 43 65 87 109 144s > st_downsample(s, 1, FUN = mean) 144s stars object with 2 dimensions and 1 attribute 144s attribute(s): 144s Min. 1st Qu. Median Mean 3rd Qu. Max. 144s A1 7 31 55 55 79 103 144s dimension(s): 144s from to offset delta point x/y 144s X1 1 5 0 2 FALSE [x] 144s X2 1 5 0 2 FALSE [y] 144s > st_downsample(s, 1, FUN = mean)[[1]] 144s [,1] [,2] [,3] [,4] [,5] 144s [1,] 7 29 51 73 95 144s [2,] 9 31 53 75 97 144s [3,] 11 33 55 77 99 144s [4,] 13 35 57 79 101 144s [5,] 15 37 59 81 103 144s > st_downsample(s, 1, offset = 1, FUN = mean) 144s stars object with 2 dimensions and 1 attribute 144s attribute(s): 144s Min. 1st Qu. Median Mean 3rd Qu. Max. 144s A1 19 43 67 67 91 115 144s dimension(s): 144s from to offset delta point x/y 144s X1 1 5 1 2 FALSE [x] 144s X2 1 5 1 2 FALSE [y] 144s > st_downsample(s, 1, offset = c(0,1), FUN = mean)[[1]] 144s [,1] [,2] [,3] [,4] [,5] 144s [1,] 18 40 62 84 106 144s [2,] 20 42 64 86 108 144s [3,] 22 44 66 88 110 144s [4,] 24 46 68 90 112 144s [5,] 26 48 70 92 114 144s > st_downsample(s, 1, offset = c(0,1)) 144s stars object with 2 dimensions and 1 attribute 144s attribute(s): 144s Min. 1st Qu. Median Mean 3rd Qu. Max. 144s A1 12 36.5 61 61 85.5 110 144s dimension(s): 144s from to offset delta point x/y 144s X1 1 6 0 2 FALSE [x] 144s X2 1 5 1 2 FALSE [y] 144s > st_downsample(s, 1, offset = c(0,1))[[1]] 144s [,1] [,2] [,3] [,4] [,5] 144s [1,] 12 34 56 78 100 144s [2,] 14 36 58 80 102 144s [3,] 16 38 60 82 104 144s [4,] 18 40 62 84 106 144s [5,] 20 42 64 86 108 144s [6,] 22 44 66 88 110 144s > 144s BEGIN TEST ee.R 144s 144s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 144s Copyright (C) 2024 The R Foundation for Statistical Computing 144s Platform: x86_64-pc-linux-gnu 144s 144s R is free software and comes with ABSOLUTELY NO WARRANTY. 144s You are welcome to redistribute it under certain conditions. 144s Type 'license()' or 'licence()' for distribution details. 144s 144s R is a collaborative project with many contributors. 144s Type 'contributors()' for more information and 144s 'citation()' on how to cite R or R packages in publications. 144s 144s Type 'demo()' for some demos, 'help()' for on-line help, or 144s 'help.start()' for an HTML browser interface to help. 144s Type 'q()' to quit R. 144s 144s > # show that extract with exact=TRUE equals st_interpolate_aw(), only much faster 144s > options(digits=15) 144s > suppressPackageStartupMessages(library(stars)) 144s > L = st_as_stars(L7_ETMs)[,,,1] 144s > set.seed(123432) 144s > st_bbox(L) |> 144s + st_as_sfc() |> 144s + st_centroid() |> 144s + st_buffer(50) |> 144s + st_sample(10) |> 144s + st_combine() |> 144s + st_convex_hull() -> ch 144s > if (interactive()) { 144s + plot(L, reset = FALSE) 144s + plot(ch, add = TRUE, border = 'red', col = NA) 144s + } 144s > if (FALSE) { 144s + e = st_extract(L, ch)[[1]] 144s + a = aggregate(L, ch, mean)[[1]] 144s + identical(e, a) # same code path 144s + ee = aggregate(L, ch, mean, exact = TRUE)[[1]] 144s + all.equal(e, ee) 144s + aw = suppressWarnings(st_interpolate_aw(L, ch, extensive = FALSE)$V1) 144s + all.equal(as.vector(ee), aw) 144s + ee0 = st_extract(L, ch, exact = TRUE)[[1]] 144s + all.equal(ee0, ee) # ?? 144s + } 144s > 144s BEGIN TEST extract.R 144s 144s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 144s Copyright (C) 2024 The R Foundation for Statistical Computing 144s Platform: x86_64-pc-linux-gnu 144s 144s R is free software and comes with ABSOLUTELY NO WARRANTY. 144s You are welcome to redistribute it under certain conditions. 144s Type 'license()' or 'licence()' for distribution details. 144s 144s R is a collaborative project with many contributors. 144s Type 'contributors()' for more information and 144s 'citation()' on how to cite R or R packages in publications. 144s 144s Type 'demo()' for some demos, 'help()' for on-line help, or 144s 'help.start()' for an HTML browser interface to help. 144s Type 'q()' to quit R. 144s 145s > # Create 'stars' object 145s > set.seed(1331) 145s > suppressPackageStartupMessages(library(stars)) 145s > volcano = rbind(volcano, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA) # add NA rows 145s > d = st_dimensions(x = 1:ncol(volcano), y = 1:nrow(volcano)) 145s > (r = st_as_stars(t(volcano))) 145s stars object with 2 dimensions and 1 attribute 145s attribute(s): 145s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 145s A1 94 108 124 130.1879 150 195 732 145s dimension(s): 145s from to offset delta point x/y 145s X1 1 61 0 1 FALSE [x] 145s X2 1 99 0 1 FALSE [y] 145s > r = st_set_dimensions(r, 1, offset = 0, delta = 1) 145s > r = st_set_dimensions(r, 2, offset = nrow(volcano), delta = -1) 145s > 145s > # Create points 145s > pnt = st_sample(st_as_sfc(st_bbox(r)), 100) 145s > pnt = st_as_sf(pnt) 145s > 145s > # Extract - 'st_join' 145s > x = st_join(pnt, st_as_sf(r)) 145s > 145s > # Extract - 'st_extract' 145s > y = st_extract(r, pnt) 145s > 145s > # check there are NA's: 145s > any(is.na(x)) 145s [1] TRUE 145s > # Compare 145s > all.equal(x$A1, y[[1]]) 145s [1] TRUE 145s > 145s > ################################################ 145s > if (FALSE) { 145s + 145s + ## tic: segfaults 145s + # check equal results with stars_proxy: 145s + #x = st_extract(stars:::st_as_stars_proxy(r), pnt) 145s + #all.equal(x$A1, y[[1]]) 145s + #all.equal(x, y) 145s + 145s + r = c(r, 2*r, 10*r) 145s + x = st_join(pnt, st_as_sf(r)) 145s + y = st_as_sf(st_extract(r, pnt)) 145s + all.equal(x, y) 145s + 145s + ## tic: segfaults 145s + #x = st_extract(stars:::st_as_stars_proxy(merge(r)), pnt) 145s + #all.equal(st_as_sf(x), y) 145s + 145s + tif = system.file("tif/L7_ETMs.tif", package = "stars") 145s + xp = read_stars(tif, proxy = TRUE) 145s + xm = read_stars(tif, proxy = FALSE) 145s + pts = st_sample(st_as_sfc(st_bbox(xp)), 10) 145s + pts = c(pts, st_as_sfc("POINT(0 0)"), pts) 145s + em = st_extract(xm, pts) 145s + if (utils::packageVersion("sf") >= "0.9-7") { 145s + ep = st_extract(xp, pts) 145s + print(all.equal(ep, em, check.attributes = TRUE)) 145s + } 145s + 145s + # two-attribute objects: 145s + library(stars) 145s + tif = system.file("tif/L7_ETMs.tif", package = "stars") 145s + xp = read_stars(c(tif, tif), proxy = TRUE) 145s + xm = read_stars(c(tif, tif), proxy = FALSE) 145s + pts = st_sample(st_as_sfc(st_bbox(xp)), 10) 145s + pts = c(pts, st_as_sfc("POINT(0 0)"), pts) 145s + em = st_extract(xm, pts) 145s + if (utils::packageVersion("sf") >= "0.9-7") { 145s + ep = st_extract(xp, pts) 145s + print(all.equal(ep, em, check.attributes = TRUE)) 145s + } 145s + 145s + # single-attribute, single raster objects: 145s + tif1 = paste0(tempfile(), ".tif") 145s + write_stars(xm[1,,,1], "x.tif") 145s + xp = read_stars("x.tif", proxy = TRUE) 145s + xm = read_stars("x.tif", proxy = FALSE) 145s + em = st_extract(xm, pts) 145s + if (utils::packageVersion("sf") >= "0.9-7") { 145s + ep = st_extract(xp, pts) 145s + print(all.equal(ep, em, check.attributes = TRUE)) 145s + } 145s + 145s + # multiple-file attributes: 145s + x = c( 145s + "avhrr-only-v2.19810901.nc", 145s + "avhrr-only-v2.19810902.nc", 145s + "avhrr-only-v2.19810903.nc", 145s + "avhrr-only-v2.19810904.nc", 145s + "avhrr-only-v2.19810905.nc", 145s + "avhrr-only-v2.19810906.nc", 145s + "avhrr-only-v2.19810907.nc", 145s + "avhrr-only-v2.19810908.nc", 145s + "avhrr-only-v2.19810909.nc" 145s + ) 145s + file_list = system.file(paste0("netcdf/", x), package = "starsdata") 145s + if (!identical(file_list, "")) { 145s + y = read_stars(file_list, quiet = TRUE) 145s + print(y) 145s + st_crs(y) = "OGC:CRS84" 145s + pts = st_sample(st_as_sfc(st_bbox(y)), 10) 145s + em = st_extract(y, pts) 145s + 145s + (y = read_stars(file_list, quiet = TRUE, proxy = TRUE)) 145s + print(y) 145s + st_crs(y) = "OGC:CRS84" 145s + if (utils::packageVersion("sf") >= "0.9-7") { 145s + ep = st_extract(y, pts) 145s + print(all.equal(em, ep)) 145s + } 145s + } 145s + 145s + # nearest & bilinear comparison: 145s + if (utils::packageVersion("sf") >= "0.9-7") { 145s + set.seed(12331) 145s + s = st_as_stars(matrix(rnorm(16), 4)) 145s + pts = st_sample(st_as_sfc(st_bbox(s)), 10000, type = "regular") 145s + s1 = st_extract(s, pts, bilinear = FALSE) 145s + s2 = st_extract(s, pts, bilinear = TRUE) 145s + s1$s2 = s2[[1]] 145s + names(s1)[c(1,3)] = c("nearest", "bilinear") 145s + print(s1[sample(10000, 5),]) 145s + } 145s + } 145s > 145s BEGIN TEST gridtypes.R 145s 145s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 145s Copyright (C) 2024 The R Foundation for Statistical Computing 145s Platform: x86_64-pc-linux-gnu 145s 145s R is free software and comes with ABSOLUTELY NO WARRANTY. 145s You are welcome to redistribute it under certain conditions. 145s Type 'license()' or 'licence()' for distribution details. 145s 145s R is a collaborative project with many contributors. 145s Type 'contributors()' for more information and 145s 'citation()' on how to cite R or R packages in publications. 145s 145s Type 'demo()' for some demos, 'help()' for on-line help, or 145s 'help.start()' for an HTML browser interface to help. 145s Type 'q()' to quit R. 145s 145s > suppressPackageStartupMessages(library(stars)) 146s > 146s > # regular, but not spatial: 146s > d = st_dimensions(a = 1:3, b = 1:3, band = c("foo", "bar")) 146s > (st = st_as_stars(array(1:18, c(3,3,2)), dimension = d)) 146s stars object with 3 dimensions and 1 attribute 146s attribute(s): 146s Min. 1st Qu. Median Mean 3rd Qu. Max. 146s X 1 5.25 9.5 9.5 13.75 18 146s dimension(s): 146s from to offset delta point values 146s a 1 3 1 1 FALSE NULL 146s b 1 3 1 1 FALSE NULL 146s band 1 2 NA NA FALSE foo, bar 146s > as.data.frame(st, add_max=FALSE)[1:4,] 146s a b band X 146s 1 1 1 foo 1 146s 2 2 1 foo 2 146s 3 3 1 foo 3 146s 4 1 2 foo 4 146s > try(x <- st_bbox(st)) # error 146s Error in st_bbox.dimensions(st_dimensions(obj), ...) : 146s dimensions table does not have x & y, nor an sfc dimension 146s > 146s > # regular, geotransform: 146s > d = st_dimensions(x = 1:3, y = 1:3, band = c("foo", "bar"), .raster = c("x", "y")) 146s > (st = st_as_stars(array(1:18, c(3,3,2)), dimension = d)) 146s stars object with 3 dimensions and 1 attribute 146s attribute(s): 146s Min. 1st Qu. Median Mean 3rd Qu. Max. 146s X 1 5.25 9.5 9.5 13.75 18 146s dimension(s): 146s from to offset delta point values x/y 146s x 1 3 1 1 FALSE NULL [x] 146s y 1 3 1 1 FALSE NULL [y] 146s band 1 2 NA NA FALSE foo, bar 146s > as.data.frame(st, add_max=FALSE)[1:4,] 146s x y band X 146s 1 1.5 1.5 foo 1 146s 2 2.5 1.5 foo 2 146s 3 3.5 1.5 foo 3 146s 4 1.5 2.5 foo 4 146s > as.data.frame(st, add_max=TRUE)[1:4,] 146s x y band x_max y_max X 146s 1 1 1 foo 2 2 1 146s 2 2 1 foo 3 2 2 146s 3 3 1 foo 4 2 3 146s 4 1 2 foo 2 3 4 146s > st_bbox(st) 146s xmin ymin xmax ymax 146s 1 1 4 4 146s > 146s > # rectilinear with offset given: 146s > xd = c(1, 2, 4) 146s > d = st_dimensions(x = xd, y = 1:3, band = c("foo", "bar"), .raster = c("x", "y")) 146s > (st = st_as_stars(array(1:18, c(3,3,2)), dimension = d)) 146s stars object with 3 dimensions and 1 attribute 146s attribute(s): 146s Min. 1st Qu. Median Mean 3rd Qu. Max. 146s X 1 5.25 9.5 9.5 13.75 18 146s dimension(s): 146s from to offset delta point values x/y 146s x 1 3 NA NA FALSE [1,2), [2,4), [4,6) [x] 146s y 1 3 1 1 FALSE NULL [y] 146s band 1 2 NA NA FALSE foo, bar 146s > as.data.frame(st, add_max=FALSE)[1:4,] 146s x y band X 146s 1 1.5 1.5 foo 1 146s 2 3.0 1.5 foo 2 146s 3 5.0 1.5 foo 3 146s 4 1.5 2.5 foo 4 146s > as.data.frame(st, add_max=TRUE)[1:4,] 146s x y band x_max y_max X 146s 1 1 1 foo 2 2 1 146s 2 2 1 foo 4 2 2 146s 3 4 1 foo 6 2 3 146s 4 1 2 foo 2 3 4 146s > st_bbox(st) 146s xmin ymin xmax ymax 146s 1 1 6 4 146s > 146s > # rectilinear with midpoints given: 146s > xd = c(1, 2, 4) 146s > d = st_dimensions(x = xd, y = 1:3, band = c("foo", "bar"), .raster = c("x", "y"), cell_midpoints = TRUE) 146s > (st = st_as_stars(array(1:18, c(3,3,2)), dimension = d)) 146s stars object with 3 dimensions and 1 attribute 146s attribute(s): 146s Min. 1st Qu. Median Mean 3rd Qu. Max. 146s X 1 5.25 9.5 9.5 13.75 18 146s dimension(s): 146s from to offset delta point values x/y 146s x 1 3 NA NA FALSE [0.5,1.5), [1.5,3.0), [3.0,5.0) [x] 146s y 1 3 0.5 1 FALSE NULL [y] 146s band 1 2 NA NA FALSE foo, bar 146s > as.data.frame(st, add_max=FALSE)[1:4,] 146s x y band X 146s 1 1.00 1 foo 1 146s 2 2.25 1 foo 2 146s 3 4.00 1 foo 3 146s 4 1.00 2 foo 4 146s > as.data.frame(st, add_max=TRUE)[1:4,] 146s x y band x_max y_max X 146s 1 0.5 0.5 foo 1.5 1.5 1 146s 2 1.5 0.5 foo 3.0 1.5 2 146s 3 3.0 0.5 foo 5.0 1.5 3 146s 4 0.5 1.5 foo 1.5 2.5 4 146s > st_bbox(st) 146s xmin ymin xmax ymax 146s 0.5 0.5 5.0 3.5 146s > 146s > # rectilinear with midpoints given, point support 146s > xd = c(1, 2, 4) 146s > d = st_dimensions(x = xd, y = 1:3, band = c("foo", "bar"), .raster = c("x", "y"), cell_midpoints = TRUE, point = TRUE) 146s > (st = st_as_stars(array(1:18, c(3,3,2)), dimension = d)) 146s stars object with 3 dimensions and 1 attribute 146s attribute(s): 146s Min. 1st Qu. Median Mean 3rd Qu. Max. 146s X 1 5.25 9.5 9.5 13.75 18 146s dimension(s): 146s from to offset delta point values x/y 146s x 1 3 NA NA TRUE 1, 2, 4 [x] 146s y 1 3 0.5 1 TRUE NULL [y] 146s band 1 2 NA NA TRUE foo, bar 146s > as.data.frame(st, add_max=FALSE)[1:4,] 146s x y band X 146s 1 1 1 foo 1 146s 2 2 1 foo 2 146s 3 4 1 foo 3 146s 4 1 2 foo 4 146s > as.data.frame(st, add_max=TRUE)[1:4,] 146s x y band x_max y_max X 146s 1 1 0.5 foo 1 1.5 1 146s 2 2 0.5 foo 2 1.5 2 146s 3 4 0.5 foo 4 1.5 3 146s 4 1 1.5 foo 1 2.5 4 146s > st_bbox(st) 146s xmin ymin xmax ymax 146s 1.0 0.5 4.0 3.5 146s > 146s > # rectilinear with start/end given: 146s > #xd = stars:::make_intervals(start = c(1,2,4), end = c(2, 4, 8)) 146s > xd = c(1, 2, 4, 8) # one more than dim of the data array 146s > d = st_dimensions(x = xd, y = 1:3, band = c("foo", "bar"), .raster = c("x", "y")) 146s > (st = st_as_stars(array(1:18, c(3,3,2)), dimension = d)) 146s stars object with 3 dimensions and 1 attribute 146s attribute(s): 146s Min. 1st Qu. Median Mean 3rd Qu. Max. 146s X 1 5.25 9.5 9.5 13.75 18 146s dimension(s): 146s from to offset delta point values x/y 146s x 1 3 NA NA FALSE [1,2), [2,4), [4,8) [x] 146s y 1 3 1 1 FALSE NULL [y] 146s band 1 2 NA NA FALSE foo, bar 146s > as.data.frame(st, add_max=FALSE)[1:4,] 146s x y band X 146s 1 1.5 1.5 foo 1 146s 2 3.0 1.5 foo 2 146s 3 6.0 1.5 foo 3 146s 4 1.5 2.5 foo 4 146s > as.data.frame(st, add_max=TRUE)[1:4,] 146s x y band x_max y_max X 146s 1 1 1 foo 2 2 1 146s 2 2 1 foo 4 2 2 146s 3 4 1 foo 8 2 3 146s 4 1 2 foo 2 3 4 146s > st_bbox(st) 146s xmin ymin xmax ymax 146s 1 1 8 4 146s > 146s > # with sfc: 146s > sfc = st_sfc(st_point(0:1), st_point(2:1), st_point(4:3)) 146s > d = st_dimensions(x = sfc, y = 1:3, band = c("foo", "bar")) 146s > (st = st_as_stars(array(1:18, c(3,3,2)), dimension = d)) 146s stars object with 3 dimensions and 1 attribute 146s attribute(s): 146s Min. 1st Qu. Median Mean 3rd Qu. Max. 146s X 1 5.25 9.5 9.5 13.75 18 146s dimension(s): 146s from to offset delta point values 146s x 1 3 NA NA TRUE POINT (0 1),...,POINT (4 3) 146s y 1 3 1 1 FALSE NULL 146s band 1 2 NA NA FALSE foo, bar 146s > as.data.frame(st, add_max=FALSE)[1:4,] 146s x y band X 146s 1 POINT (0 1) 1 foo 1 146s 2 POINT (2 1) 1 foo 2 146s 3 POINT (4 3) 1 foo 3 146s 4 POINT (0 1) 2 foo 4 146s > st_as_sf(st, long = TRUE)[1:4,] 146s Simple feature collection with 4 features and 3 fields 146s Geometry type: POINT 146s Dimension: XY 146s Bounding box: xmin: 0 ymin: 1 xmax: 4 ymax: 3 146s CRS: NA 146s y band X x 146s 1 1 foo 1 POINT (0 1) 146s 2 1 foo 2 POINT (2 1) 146s 3 1 foo 3 POINT (4 3) 146s 4 2 foo 4 POINT (0 1) 146s > st_bbox(st) 146s xmin ymin xmax ymax 146s 0 1 4 3 146s > 146s > # rotated/sheared: 146s > d = st_dimensions(x = 1:3, y = 1:3, band = c("foo", "bar"), .raster = c("x", "y"), affine = c(0.2, -0.2)) 146s > (st = st_as_stars(array(1:18, c(3,3,2)), dimension = d)) 146s stars object with 3 dimensions and 1 attribute 146s attribute(s): 146s Min. 1st Qu. Median Mean 3rd Qu. Max. 146s X 1 5.25 9.5 9.5 13.75 18 146s dimension(s): 146s from to offset delta point values x/y 146s x 1 3 1 1 FALSE NULL [x] 146s y 1 3 1 1 FALSE NULL [y] 146s band 1 2 NA NA FALSE foo, bar 146s sheared raster with parameters: 0.2 -0.2 146s > as.data.frame(st, add_max=FALSE)[1:4,] 146s x y X 146s 1 1.6 1.4 1 146s 2 2.6 1.2 2 146s 3 3.6 1.0 3 146s 4 1.8 2.4 4 146s > try(as.data.frame(st, add_max=TRUE)[1:4,]) # errors 146s > st_bbox(st) 146s Error in st_coordinates.stars(x, add_max = add_max, center = center, ...) : 146s add_max will not work for rotated/shared rasters 146s xmin ymin xmax ymax 146s 1.0 0.4 4.6 4.0 146s > 146s > # curvilinear: 146s > set.seed(13531) 146s > lon = st_as_stars(matrix(signif(runif(9), 2), 3, 3)) 146s > lat = st_as_stars(matrix(signif(runif(9), 2), 3, 3)) 146s > ll = setNames(c(lon, lat), c("lon", "lat")) 146s > d = st_dimensions(lon = 1:3, lat = 1:3) 146s > a = st_as_stars(list(X = array(1:9, c(3,3))), dimensions = d) 146s > (st = st_as_stars(a, curvilinear = ll)) 146s stars object with 2 dimensions and 1 attribute 146s attribute(s): 146s Min. 1st Qu. Median Mean 3rd Qu. Max. 146s X 1 3 5 5 7 9 146s dimension(s): 146s from to refsys point values x/y 146s lon 1 3 WGS 84 (CRS84) FALSE [3x3] 0.03,...,0.89 [x] 146s lat 1 3 WGS 84 (CRS84) FALSE [3x3] 0.021,...,0.89 [y] 146s curvilinear grid 146s > as.data.frame(st) 146s lon lat X 146s 1 0.89 0.250 1 146s 2 0.64 0.510 2 146s 3 0.30 0.670 3 146s 4 0.69 0.890 4 146s 5 0.47 0.890 5 146s 6 0.26 0.190 6 146s 7 0.57 0.021 7 146s 8 0.27 0.220 8 146s 9 0.03 0.340 9 146s > st_bbox(st) 146s xmin ymin xmax ymax 146s 0.030 0.021 0.890 0.890 146s > 146s > # time regular: 146s > t = as.Date("2019-01-20") + 0:3 146s > d = st_dimensions(t, sfc) 146s > (st = st_as_stars(list(a = matrix(1:12, 4, 3)), dimensions = d)) 146s stars object with 2 dimensions and 1 attribute 146s attribute(s): 146s Min. 1st Qu. Median Mean 3rd Qu. Max. 146s a 1 3.75 6.5 6.5 9.25 12 146s dimension(s): 146s from to offset delta refsys point values 146s X1 1 4 2019-01-20 1 days Date FALSE NULL 146s X2 1 3 NA NA NA TRUE POINT (0 1),...,POINT (4 3) 146s > as.data.frame(st) 146s X1 X2 a 146s 1 2019-01-20 POINT (0 1) 1 146s 2 2019-01-21 POINT (0 1) 2 146s 3 2019-01-22 POINT (0 1) 3 146s 4 2019-01-23 POINT (0 1) 4 146s 5 2019-01-20 POINT (2 1) 5 146s 6 2019-01-21 POINT (2 1) 6 146s 7 2019-01-22 POINT (2 1) 7 146s 8 2019-01-23 POINT (2 1) 8 146s 9 2019-01-20 POINT (4 3) 9 146s 10 2019-01-21 POINT (4 3) 10 146s 11 2019-01-22 POINT (4 3) 11 146s 12 2019-01-23 POINT (4 3) 12 146s > 146s > # time, rectilinear 146s > t = as.Date("2019-01-20") + c(0, 2, 3, 10) 146s > d = st_dimensions(t, sfc) 146s > (st = st_as_stars(list(a = matrix(1:12, 4, 3)), dimensions = d)) 146s stars object with 2 dimensions and 1 attribute 146s attribute(s): 146s Min. 1st Qu. Median Mean 3rd Qu. Max. 146s a 1 3.75 6.5 6.5 9.25 12 146s dimension(s): 146s from to refsys point values 146s X1 1 4 Date FALSE 2019-01-20,...,2019-01-30 146s X2 1 3 NA TRUE POINT (0 1),...,POINT (4 3) 146s > as.data.frame(st) 146s X1 X2 a 146s 1 2019-01-20 POINT (0 1) 1 146s 2 2019-01-22 POINT (0 1) 2 146s 3 2019-01-23 POINT (0 1) 3 146s 4 2019-01-30 POINT (0 1) 4 146s 5 2019-01-20 POINT (2 1) 5 146s 6 2019-01-22 POINT (2 1) 6 146s 7 2019-01-23 POINT (2 1) 7 146s 8 2019-01-30 POINT (2 1) 8 146s 9 2019-01-20 POINT (4 3) 9 146s 10 2019-01-22 POINT (4 3) 10 146s 11 2019-01-23 POINT (4 3) 11 146s 12 2019-01-30 POINT (4 3) 12 146s > 146s BEGIN TEST mdim.R 146s 146s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 146s Copyright (C) 2024 The R Foundation for Statistical Computing 146s Platform: x86_64-pc-linux-gnu 146s 146s R is free software and comes with ABSOLUTELY NO WARRANTY. 146s You are welcome to redistribute it under certain conditions. 146s Type 'license()' or 'licence()' for distribution details. 146s 146s R is a collaborative project with many contributors. 146s Type 'contributors()' for more information and 146s 'citation()' on how to cite R or R packages in publications. 146s 146s Type 'demo()' for some demos, 'help()' for on-line help, or 146s 'help.start()' for an HTML browser interface to help. 146s Type 'q()' to quit R. 146s 146s > Sys.setenv(TZ="") 146s > suppressPackageStartupMessages(library(stars)) 147s > matrix(1:4,2) 147s [,1] [,2] 147s [1,] 1 3 147s [2,] 2 4 147s > m = matrix(1:4,2) 147s > s = st_as_stars(m) 147s > 147s > s = st_set_dimensions(s, st_dimensions(s), xy = NULL) 147s > sfc = st_sfc(st_point(0:1), st_point(3:2)) 147s > s = st_set_dimensions(s, 1, sfc) |> st_set_crs(4326) 147s > tm = as.POSIXct("2023-03-04 12:35") + c(0, 3600) 147s > (s = st_set_dimensions(s, 2, tm)) 147s stars object with 2 dimensions and 1 attribute 147s attribute(s): 147s Min. 1st Qu. Median Mean 3rd Qu. Max. 147s A1 1 1.75 2.5 2.5 3.25 4 147s dimension(s): 147s from to offset delta refsys point 147s X1 1 2 NA NA WGS 84 TRUE 147s X2 1 2 2023-03-04 12:35:00 Universal 1 hours POSIXct FALSE 147s values 147s X1 POINT (0 1), POINT (3 2) 147s X2 NULL 147s > f = tempfile(fileext = ".nc") 147s > if (compareVersion(sf_extSoftVersion()["GDAL"], "3.4.0") > -1) { 147s + write_mdim(s, f, as_float = FALSE) 147s + s2 = read_mdim(f) 147s + print(s2) 147s + print(all.equal(s, s2, check.attributes = FALSE)) 147s + print(all.equal(s, s2)) 147s + 147s + st_crs(sfc) = st_crs(s2) 147s + st_crs(s) = st_crs(s2) 147s + tm = as.Date("2023-02-25") + 0:1 147s + sd = st_set_dimensions(s, 2, tm) 147s + print(sd) 147s + sd = st_set_dimensions(sd, 1, sfc) 147s + print(sd) 147s + f = tempfile(fileext = ".nc") 147s + write_mdim(sd, f) 147s + sd2 = read_mdim(f) 147s + print(sd2) 147s + print(all.equal(sd, sd2, check.attributes = FALSE)) 147s + print(all.equal(sd, sd2)) 147s + } 147s stars object with 2 dimensions and 1 attribute 147s attribute(s): 147s Min. 1st Qu. Median Mean 3rd Qu. Max. 147s A1 1 1.75 2.5 2.5 3.25 4 147s dimension(s): 147s from to offset delta refsys point 147s X1 1 2 NA NA WGS 84 TRUE 147s X2 1 2 2023-03-04 12:35:00 UTC 1 hours POSIXct NA 147s values 147s X1 POINT (0 1), POINT (3 2) 147s X2 NULL 147s [1] TRUE 147s [1] "Attributes: < Component \"dimensions\": Component \"X1\": Component \"refsys\": Component \"input\": 1 string mismatch >" 147s [2] "Attributes: < Component \"dimensions\": Component \"X1\": Component \"refsys\": Component \"wkt\": 1 string mismatch >" 147s [3] "Attributes: < Component \"dimensions\": Component \"X1\": Component \"values\": Attributes: < Component \"crs\": Component \"input\": 1 string mismatch > >" 147s [4] "Attributes: < Component \"dimensions\": Component \"X1\": Component \"values\": Attributes: < Component \"crs\": Component \"wkt\": 1 string mismatch > >" 147s [5] "Attributes: < Component \"dimensions\": Component \"X2\": Component \"offset\": 'tzone' attributes are inconsistent ('' and 'UTC') >" 147s [6] "Attributes: < Component \"dimensions\": Component \"X2\": Component \"point\": 'is.NA' value mismatch: 1 in current 0 in target >" 147s stars object with 2 dimensions and 1 attribute 147s attribute(s): 147s Min. 1st Qu. Median Mean 3rd Qu. Max. 147s A1 1 1.75 2.5 2.5 3.25 4 147s dimension(s): 147s from to offset delta refsys point values 147s X1 1 2 NA NA WGS 84 TRUE POINT (0 1), POINT (3 2) 147s X2 1 2 2023-02-25 1 days Date FALSE NULL 147s stars object with 2 dimensions and 1 attribute 147s attribute(s): 147s Min. 1st Qu. Median Mean 3rd Qu. Max. 147s A1 1 1.75 2.5 2.5 3.25 4 147s dimension(s): 147s from to offset delta refsys point values 147s X1 1 2 NA NA WGS 84 TRUE POINT (0 1), POINT (3 2) 147s X2 1 2 2023-02-25 1 days Date FALSE NULL 147s stars object with 2 dimensions and 1 attribute 147s attribute(s): 147s Min. 1st Qu. Median Mean 3rd Qu. Max. 147s A1 1 1.75 2.5 2.5 3.25 4 147s dimension(s): 147s from to offset delta refsys point values 147s X1 1 2 NA NA WGS 84 TRUE POINT (0 1), POINT (3 2) 147s X2 1 2 2023-02-25 1 days Date NA NULL 147s [1] TRUE 147s [1] "Attributes: < Component \"dimensions\": Component \"X2\": Component \"point\": 'is.NA' value mismatch: 1 in current 0 in target >"Warning messages: 147s 1: In CPL_write_mdim(file, driver, dimx, cdl, wkt, xy, root_group_options, : 147s GDAL Error 6: SetIndexingVariable() not implemented 147s 2: In CPL_write_mdim(file, driver, dimx, cdl, wkt, xy, root_group_options, : 147s GDAL Error 6: SetIndexingVariable() not implemented 147s 3: In CPL_write_mdim(file, driver, dimx, cdl, wkt, xy, root_group_options, : 147s GDAL Error 6: SetIndexingVariable() not implemented 147s 4: In CPL_write_mdim(file, driver, dimx, cdl, wkt, xy, root_group_options, : 147s GDAL Error 6: SetIndexingVariable() not implemented 147s 147s > 147s BEGIN TEST nc.R 147s 147s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 147s Copyright (C) 2024 The R Foundation for Statistical Computing 147s Platform: x86_64-pc-linux-gnu 147s 147s R is free software and comes with ABSOLUTELY NO WARRANTY. 147s You are welcome to redistribute it under certain conditions. 147s Type 'license()' or 'licence()' for distribution details. 147s 147s R is a collaborative project with many contributors. 147s Type 'contributors()' for more information and 147s 'citation()' on how to cite R or R packages in publications. 147s 147s Type 'demo()' for some demos, 'help()' for on-line help, or 147s 'help.start()' for an HTML browser interface to help. 147s Type 'q()' to quit R. 147s 147s > # examples with the sf::nc polygon dataset NOT ABOUT NETCDF's, see e.g. stars.R netcdf.R 147s > suppressPackageStartupMessages(library(sf)) 147s > nc = read_sf(system.file("gpkg/nc.gpkg", package="sf")) 147s > m = st_set_geometry(nc, NULL) 147s > n = as.matrix(m[c("BIR74", "SID74", "NWBIR74", "BIR79", "SID79", "NWBIR79")]) 147s > dim(n) = c(county = 100, var = 3, year = 2) 147s > dimnames(n) = list(county = nc$NAME, var = c("BIR", "SID", "NWBIR"), year = c(1974, 1979)) 147s > suppressPackageStartupMessages(library(stars)) 147s > (st = st_as_stars(pop = n)) 147s stars object with 3 dimensions and 1 attribute 147s attribute(s): 147s Min. 1st Qu. Median Mean 3rd Qu. Max. 148s pop 0 8 538 1657.032 1784 30757 148s dimension(s): 148s from to values 148s county 1 100 Ashe,...,Brunswick 148s var 1 3 BIR , SID , NWBIR 148s year 1 2 1974, 1979 148s > foo <- st %>% st_set_dimensions(1, st_geometry(nc)) # %>% st_set_dimensions(3, c(1974, 1979)) 148s > st %>% st_set_dimensions(1, st_geometry(nc)) %>% st_set_dimensions(names = c("geometries", "var", "year")) 148s stars object with 3 dimensions and 1 attribute 148s attribute(s): 148s Min. 1st Qu. Median Mean 3rd Qu. Max. 148s pop 0 8 538 1657.032 1784 30757 148s dimension(s): 148s from to refsys point 148s geometries 1 100 NAD27 FALSE 148s var 1 3 NA NA 148s year 1 2 NA NA 148s values 148s geometries MULTIPOLYGON (((-81.47276...,...,MULTIPOLYGON (((-78.65572... 148s var BIR , SID , NWBIR 148s year 1974, 1979 148s > foo 148s stars object with 3 dimensions and 1 attribute 148s attribute(s): 148s Min. 1st Qu. Median Mean 3rd Qu. Max. 148s pop 0 8 538 1657.032 1784 30757 148s dimension(s): 148s from to refsys point 148s county 1 100 NAD27 FALSE 148s var 1 3 NA NA 148s year 1 2 NA NA 148s values 148s county MULTIPOLYGON (((-81.47276...,...,MULTIPOLYGON (((-78.65572... 148s var BIR , SID , NWBIR 148s year 1974, 1979 148s > st_bbox(foo) 148s xmin ymin xmax ymax 148s -84.32385 33.88199 -75.45698 36.58965 148s > (x = st_as_sf(foo)) 148s Simple feature collection with 100 features and 6 fields 148s Geometry type: MULTIPOLYGON 148s Dimension: XY 148s Bounding box: xmin: -84.32385 ymin: 33.88199 xmax: -75.45698 ymax: 36.58965 148s Geodetic CRS: NAD27 148s First 10 features: 148s BIR.1974 SID.1974 NWBIR.1974 BIR.1979 SID.1979 NWBIR.1979 148s 1 1091 1 10 1364 0 19 148s 2 487 0 10 542 3 12 148s 3 3188 5 208 3616 6 260 148s 4 508 1 123 830 2 145 148s 5 1421 9 1066 1606 3 1197 148s 6 1452 7 954 1838 5 1237 148s 7 286 0 115 350 2 139 148s 8 420 0 254 594 2 371 148s 9 968 4 748 1190 2 844 148s 10 1612 1 160 2038 5 176 148s county 148s 1 MULTIPOLYGON (((-81.47276 3... 148s 2 MULTIPOLYGON (((-81.23989 3... 148s 3 MULTIPOLYGON (((-80.45634 3... 148s 4 MULTIPOLYGON (((-76.00897 3... 148s 5 MULTIPOLYGON (((-77.21767 3... 148s 6 MULTIPOLYGON (((-76.74506 3... 148s 7 MULTIPOLYGON (((-76.00897 3... 148s 8 MULTIPOLYGON (((-76.56251 3... 148s 9 MULTIPOLYGON (((-78.30876 3... 148s 10 MULTIPOLYGON (((-80.02567 3... 148s > frac = function(x) x[2] / x[1] 148s > frac2 = function(x) c(sidsr = x[2] / x[1], nwbr = x[3] / x[1]) 148s > frac2an = function(x) c(x[2] / x[1], x[3] / x[1]) 148s > st_apply(foo, c(1,3), frac) 148s stars object with 2 dimensions and 1 attribute 148s attribute(s): 148s Min. 1st Qu. Median Mean 3rd Qu. Max. 148s frac 0 0.001197874 0.001930504 0.002042241 0.002599348 0.00955414 148s dimension(s): 148s from to refsys point 148s county 1 100 NAD27 FALSE 148s year 1 2 NA NA 148s values 148s county MULTIPOLYGON (((-81.47276...,...,MULTIPOLYGON (((-78.65572... 148s year 1974, 1979 148s > st_apply(foo, c(1,3), frac2) 148s stars object with 3 dimensions and 1 attribute 148s attribute(s): 148s Min. 1st Qu. Median Mean 3rd Qu. Max. 148s pop 0 0.001923331 0.005119673 0.1567576 0.3065298 0.7727273 148s dimension(s): 148s from to refsys point 148s frac2 1 2 NA NA 148s county 1 100 NAD27 FALSE 148s year 1 2 NA NA 148s values 148s frac2 sidsr, nwbr 148s county MULTIPOLYGON (((-81.47276...,...,MULTIPOLYGON (((-78.65572... 148s year 1974, 1979 148s > st_apply(foo, c(1,3), frac2an) 148s stars object with 3 dimensions and 1 attribute 148s attribute(s): 148s Min. 1st Qu. Median Mean 3rd Qu. Max. 148s pop 0 0.001923331 0.005119673 0.1567576 0.3065298 0.7727273 148s dimension(s): 148s from to refsys point 148s frac2an 1 2 NA NA 148s county 1 100 NAD27 FALSE 148s year 1 2 NA NA 148s values 148s frac2an NULL 148s county MULTIPOLYGON (((-81.47276...,...,MULTIPOLYGON (((-78.65572... 148s year 1974, 1979 148s > library(abind) 148s > (x = aperm(st_apply(foo, c(1,3), frac2), c(2,3,1))) 148s stars object with 3 dimensions and 1 attribute 148s attribute(s): 148s Min. 1st Qu. Median Mean 3rd Qu. Max. 148s pop 0 0.001923331 0.005119673 0.1567576 0.3065298 0.7727273 148s dimension(s): 148s from to refsys point 148s county 1 100 NAD27 FALSE 148s year 1 2 NA NA 148s frac2 1 2 NA NA 148s values 148s county MULTIPOLYGON (((-81.47276...,...,MULTIPOLYGON (((-78.65572... 148s year 1974, 1979 148s frac2 sidsr, nwbr 148s > y = aperm(st_apply(foo, c(1,3), frac2), c("county","year","frac2")) 148s > all.equal(st_dimensions(x), st_dimensions(y)) 148s [1] TRUE 148s > 148s > split(foo, 2) 148s stars object with 2 dimensions and 3 attributes 148s attribute(s): 148s Min. 1st Qu. Median Mean 3rd Qu. Max. 148s BIR 248 1176.75 2265 3761.770 4450.75 30757 148s SID 0 2.00 5 7.515 9.00 57 148s NWBIR 1 206.00 742 1201.810 1315.75 11631 148s dimension(s): 148s from to refsys point 148s county 1 100 NAD27 FALSE 148s year 1 2 NA NA 148s values 148s county MULTIPOLYGON (((-81.47276...,...,MULTIPOLYGON (((-78.65572... 148s year 1974, 1979 148s > split(foo, 3) 148s stars object with 2 dimensions and 2 attributes 148s attribute(s): 148s Min. 1st Qu. Median Mean 3rd Qu. Max. 148s 1974 0 8 501.5 1452.367 1580.50 21588 148s 1979 0 9 614.0 1861.697 2040.25 30757 148s dimension(s): 148s from to refsys point 148s county 1 100 NAD27 FALSE 148s var 1 3 NA NA 148s values 148s county MULTIPOLYGON (((-81.47276...,...,MULTIPOLYGON (((-78.65572... 148s var BIR , SID , NWBIR 148s > 148s > st_crs(foo) 148s Coordinate Reference System: 148s User input: NAD27 148s wkt: 148s GEOGCRS["NAD27", 148s DATUM["North American Datum 1927", 148s ELLIPSOID["Clarke 1866",6378206.4,294.978698213898, 148s LENGTHUNIT["metre",1]]], 148s PRIMEM["Greenwich",0, 148s ANGLEUNIT["degree",0.0174532925199433]], 148s CS[ellipsoidal,2], 148s AXIS["geodetic latitude (Lat)",north, 148s ORDER[1], 148s ANGLEUNIT["degree",0.0174532925199433]], 148s AXIS["geodetic longitude (Lon)",east, 148s ORDER[2], 148s ANGLEUNIT["degree",0.0174532925199433]], 148s USAGE[ 148s SCOPE["Geodesy."], 148s AREA["North and central America: Antigua and Barbuda - onshore. Bahamas - onshore plus offshore over internal continental shelf only. Belize - onshore. British Virgin Islands - onshore. Canada onshore - Alberta, British Columbia, Manitoba, New Brunswick, Newfoundland and Labrador, Northwest Territories, Nova Scotia, Nunavut, Ontario, Prince Edward Island, Quebec, Saskatchewan and Yukon - plus offshore east coast. Cuba - onshore and offshore. El Salvador - onshore. Guatemala - onshore. Honduras - onshore. Panama - onshore. Puerto Rico - onshore. Mexico - onshore plus offshore east coast. Nicaragua - onshore. United States (USA) onshore and offshore - Alabama, Alaska, Arizona, Arkansas, California, Colorado, Connecticut, Delaware, Florida, Georgia, Idaho, Illinois, Indiana, Iowa, Kansas, Kentucky, Louisiana, Maine, Maryland, Massachusetts, Michigan, Minnesota, Mississippi, Missouri, Montana, Nebraska, Nevada, New Hampshire, New Jersey, New Mexico, New York, North Carolina, North Dakota, Ohio, Oklahoma, Oregon, Pennsylvania, Rhode Island, South Carolina, South Dakota, Tennessee, Texas, Utah, Vermont, Virginia, Washington, West Virginia, Wisconsin and Wyoming - plus offshore . US Virgin Islands - onshore."], 148s BBOX[7.15,167.65,83.17,-47.74]], 148s ID["EPSG",4267]] 148s > plot(foo) 148s > 148s > # subset vector cube: 148s > foo[nc[1]] 148s stars object with 3 dimensions and 1 attribute 148s attribute(s): 148s Min. 1st Qu. Median Mean 3rd Qu. Max. 148s pop 0 8 538 1657.032 1784 30757 148s dimension(s): 148s from to refsys point 148s county 1 100 NAD27 FALSE 148s var 1 3 NA NA 148s year 1 2 NA NA 148s values 148s county MULTIPOLYGON (((-81.47276...,...,MULTIPOLYGON (((-78.65572... 148s var BIR , SID , NWBIR 148s year 1974, 1979 148s > 148s BEGIN TEST plot.R 148s 148s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 148s Copyright (C) 2024 The R Foundation for Statistical Computing 148s Platform: x86_64-pc-linux-gnu 148s 148s R is free software and comes with ABSOLUTELY NO WARRANTY. 148s You are welcome to redistribute it under certain conditions. 148s Type 'license()' or 'licence()' for distribution details. 148s 148s R is a collaborative project with many contributors. 148s Type 'contributors()' for more information and 148s 'citation()' on how to cite R or R packages in publications. 148s 148s Type 'demo()' for some demos, 'help()' for on-line help, or 148s 'help.start()' for an HTML browser interface to help. 148s Type 'q()' to quit R. 148s 148s > suppressPackageStartupMessages(library(stars)) 149s > if (suppressPackageStartupMessages(require(sp, quietly = TRUE)) && require(spacetime, quietly = TRUE)) { 149s + data(air) # this loads several datasets in .GlobalEnv 149s + dim(air) 149s + d = st_dimensions(station = st_as_sfc(stations), time = dates) 149s + aq = st_as_stars(list(PM10 = air), dimensions = d) 149s + image(aperm(log(aq), 2:1), main = "NA pattern (white) in PM10 station time series") 149s + st_geometry(aq) 149s + } 149s POINT (9.585911 53.67057) 149s POINT (9.68503 53.52418) 149s POINT (9.791584 54.07312) 149s POINT (13.64701 52.44775) 149s POINT (13.29635 52.65315) 149s Geometry set for 70 features 149s Geometry type: POINT 149s Dimension: XY 149s Bounding box: xmin: 6.28107 ymin: 47.80847 xmax: 14.78617 ymax: 54.92497 149s Geodetic CRS: +proj=longlat +datum=WGS84 +no_defs 149s First 5 geometries: 149s > 149s > csv = system.file("tif/ESACCI-LC-Legend.csv", package = "starsdata") 149s > if (csv != "") { 149s + rgb = read.csv(csv, header = TRUE, sep = ";") 149s + luc = read_stars(system.file("tif/LUC3.tif", package = "starsdata")) 149s + plot(luc, rgb = rgb, axes = TRUE, key.pos = NULL) 149s + } 149s > 149s > # https://github.com/r-spatial/stars/issues/233 : 149s > nc = read_sf(system.file("shape/nc.shp", package = "sf")) 150s > output = st_as_stars(st_bbox(nc), nx = 1, ny = 1, values = 1) 150s > plot(output) 150s > 150s Warning message: 150s In plot.stars(output) : 150s breaks="quantile" leads to a single class; maybe try breaks="equal" instead? 150s BEGIN TEST predict.R 150s 150s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 150s Copyright (C) 2024 The R Foundation for Statistical Computing 150s Platform: x86_64-pc-linux-gnu 150s 150s R is free software and comes with ABSOLUTELY NO WARRANTY. 150s You are welcome to redistribute it under certain conditions. 150s Type 'license()' or 'licence()' for distribution details. 150s 150s R is a collaborative project with many contributors. 150s Type 'contributors()' for more information and 150s 'citation()' on how to cite R or R packages in publications. 150s 150s Type 'demo()' for some demos, 'help()' for on-line help, or 150s 'help.start()' for an HTML browser interface to help. 150s Type 'q()' to quit R. 150s 150s > suppressPackageStartupMessages(library(stars)) 150s > # predict: 150s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 150s > (x = read_stars(tif)) 150s stars object with 3 dimensions and 1 attribute 150s attribute(s): 151s Min. 1st Qu. Median Mean 3rd Qu. Max. 151s L7_ETMs.tif 1 54 69 68.91242 86 255 151s dimension(s): 151s from to offset delta refsys point x/y 151s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 151s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 151s band 1 6 NA NA NA NA 151s > st_crs(x) = st_crs(x) # cleans trailing space 151s > model = lm(x~L7_ETMs.tif, head(as.data.frame(x), 50)) 151s > x = predict(x, model) 152s > 152s > (y = read_stars(tif, proxy = TRUE)) 152s stars_proxy object with 1 attribute in 1 file(s): 152s $L7_ETMs.tif 152s [1] "[...]/L7_ETMs.tif" 152s 152s dimension(s): 152s from to offset delta refsys point x/y 152s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 152s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 152s band 1 6 NA NA NA NA 152s > (yp = predict(y, model)) 152s stars_proxy object with 1 attribute in 1 file(s): 152s $L7_ETMs.tif 152s [1] "[...]/L7_ETMs.tif" 152s 152s dimension(s): 152s from to offset delta refsys point x/y 152s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 152s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 152s band 1 6 NA NA NA NA 152s call_list: 152s [[1]] 152s predict(object = object, model = model) 152s attr(,".Environment") 152s 152s 152s This object has pending lazy operations: dimensions as printed may not reflect this. 152s > all.equal(x, st_as_stars(yp)) 152s [1] TRUE 152s > 152s > yy = st_set_dimensions(y, 3, values = paste0("band", 1:6)) 152s > (y_spl = split(yy, 3)) 152s stars_proxy object with 1 attribute in 1 file(s): 152s $L7_ETMs.tif 152s [1] "[...]/L7_ETMs.tif" 152s 152s dimension(s): 152s from to offset delta refsys point values 152s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL 152s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL 152s band 1 6 NA NA NA NA band1,...,band6 152s x/y 152s x [x] 152s y [y] 152s band 152s call_list: 152s [[1]] 152s split(x = x, 3) 152s attr(,".Environment") 152s 152s 152s This object has pending lazy operations: dimensions as printed may not reflect this. 152s > as.data.frame(st_as_stars(split(yy, 3)))[1:3,] 152s x y band1 band2 band3 band4 band5 band6 152s 1 288790.5 9120747 69 56 46 79 86 46 152s 2 288819.0 9120747 69 57 49 75 88 49 152s 3 288847.5 9120747 63 52 45 66 75 41 152s > 153s BEGIN TEST proxy.R 153s 153s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 153s Copyright (C) 2024 The R Foundation for Statistical Computing 153s Platform: x86_64-pc-linux-gnu 153s 153s R is free software and comes with ABSOLUTELY NO WARRANTY. 153s You are welcome to redistribute it under certain conditions. 153s Type 'license()' or 'licence()' for distribution details. 153s 153s R is a collaborative project with many contributors. 153s Type 'contributors()' for more information and 153s 'citation()' on how to cite R or R packages in publications. 153s 153s Type 'demo()' for some demos, 'help()' for on-line help, or 153s 'help.start()' for an HTML browser interface to help. 153s Type 'q()' to quit R. 153s 153s > Sys.setenv(TZ="UTC") 153s > suppressPackageStartupMessages(library(sf)) 153s > suppressPackageStartupMessages(library(stars)) 153s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 153s > (r = read_stars(tif, proxy = TRUE)) 153s stars_proxy object with 1 attribute in 1 file(s): 153s $L7_ETMs.tif 153s [1] "[...]/L7_ETMs.tif" 153s 153s dimension(s): 153s from to offset delta refsys point x/y 153s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 153s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 153s band 1 6 NA NA NA NA 153s > if (interactive()) { 153s + plot(r) 153s + } 153s > dim(r) 153s x y band 153s 349 352 6 153s > r[,,,2:3] 153s stars_proxy object with 1 attribute in 1 file(s): 153s $L7_ETMs.tif 153s [1] "[...]/L7_ETMs.tif" 153s 153s dimension(s): 153s from to offset delta refsys point x/y 153s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 153s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 153s band 2 3 NA NA NA NA 153s > r+r 153s stars_proxy object with 1 attribute in 1 file(s): 153s $L7_ETMs.tif 153s [1] "[...]/L7_ETMs.tif" 153s 153s dimension(s): 153s from to offset delta refsys point x/y 153s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 153s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 153s band 1 6 NA NA NA NA 153s call_list: 153s [[1]] 153s e1 + e2 153s attr(,".Environment") 153s 153s 153s This object has pending lazy operations: dimensions as printed may not reflect this. 153s > st_as_stars(sin(r), downsample = 2) 153s stars object with 3 dimensions and 1 attribute 153s attribute(s): 153s Min. 1st Qu. Median Mean 3rd Qu. Max. 153s L7_ETMs.tif -0.9999902 -0.676772 0.0353983 0.01655317 0.7210377 0.9999119 153s dimension(s): 153s from to offset delta refsys point x/y 153s x 1 117 288776 85.01 SIRGAS 2000 / UTM zone 25S FALSE [x] 153s y 1 118 9120761 -85.02 SIRGAS 2000 / UTM zone 25S FALSE [y] 153s band 1 6 NA NA NA NA 153s > aperm(r, c(3,2,1)) 153s stars_proxy object with 1 attribute in 1 file(s): 153s $L7_ETMs.tif 153s [1] "[...]/L7_ETMs.tif" 153s 153s dimension(s): 153s from to offset delta refsys point x/y 153s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 153s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 153s band 1 6 NA NA NA NA 153s call_list: 153s [[1]] 153s aperm(a = a, perm = perm) 153s attr(,".Environment") 153s 153s 153s This object has pending lazy operations: dimensions as printed may not reflect this. 153s > if (interactive()) { 153s + plot(r) 153s + } 153s > (xx = c(r,r)) 153s stars_proxy object with 2 attributes in 2 file(s): 153s $L7_ETMs.tif 153s [1] "[...]/L7_ETMs.tif" 153s 153s $L7_ETMs.tif 153s [1] "[...]/L7_ETMs.tif" 153s 153s dimension(s): 153s from to offset delta refsys point x/y 153s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 153s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 153s band 1 6 NA NA NA NA 153s > st_redimension(xx) 153s stars_proxy object with 1 attribute in 2 file(s): 153s $L7_ETMs.tif.L7_ETMs.tif 153s [1] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 153s 153s dimension(s): 153s from to offset delta refsys point 153s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE 153s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE 153s band 1 6 NA NA NA NA 153s new_dim 1 2 NA NA NA NA 153s values x/y 153s x NULL [x] 153s y NULL [y] 153s band NULL 153s new_dim L7_ETMs.tif, L7_ETMs.tif 153s > st_as_stars(r) 153s stars object with 3 dimensions and 1 attribute 153s attribute(s): 154s Min. 1st Qu. Median Mean 3rd Qu. Max. 154s L7_ETMs.tif 1 54 69 68.91242 86 255 154s dimension(s): 154s from to offset delta refsys point x/y 154s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 154s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 154s band 1 6 NA NA NA NA 154s > (y = st_apply(r, 1:2, max)) 154s stars_proxy object with 1 attribute in 1 file(s): 154s $L7_ETMs.tif 154s [1] "[...]/L7_ETMs.tif" 154s 154s dimension(s): 154s from to offset delta refsys point x/y 154s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 154s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 154s band 1 6 NA NA NA NA 154s call_list: 154s [[1]] 154s st_apply(X = X, MARGIN = MARGIN, FUN = FUN, CLUSTER = CLUSTER, 154s PROGRESS = PROGRESS, FUTURE = FUTURE, rename = rename, .fname = .fname) 154s attr(,".Environment") 154s 154s 154s This object has pending lazy operations: dimensions as printed may not reflect this. 154s > (yy = st_as_stars(y, downsample = 1)) 154s stars object with 2 dimensions and 1 attribute 154s attribute(s): 154s Min. 1st Qu. Median Mean 3rd Qu. Max. 154s max 55 85 96 99.38568 113 255 154s dimension(s): 154s from to offset delta refsys point x/y 154s x 1 175 288776 56.84 SIRGAS 2000 / UTM zone 25S FALSE [x] 154s y 1 176 9120761 -57 SIRGAS 2000 / UTM zone 25S FALSE [y] 154s > (y = adrop(st_apply(r, c("x", "y"), max))) 154s stars_proxy object with 1 attribute in 1 file(s): 154s $L7_ETMs.tif 154s [1] "[...]/L7_ETMs.tif" 154s 154s dimension(s): 154s from to offset delta refsys point x/y 154s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 154s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 154s band 1 6 NA NA NA NA 154s call_list: 154s [[1]] 154s st_apply(X = X, MARGIN = MARGIN, FUN = FUN, CLUSTER = CLUSTER, 154s PROGRESS = PROGRESS, FUTURE = FUTURE, rename = rename, .fname = .fname) 154s attr(,".Environment") 154s 154s 154s [[2]] 154s adrop(x = x, drop = drop) 154s attr(,".Environment") 154s 154s 154s This object has pending lazy operations: dimensions as printed may not reflect this. 154s > (yy = st_as_stars(y, downsample = 1)) 154s stars object with 2 dimensions and 1 attribute 154s attribute(s): 154s Min. 1st Qu. Median Mean 3rd Qu. Max. 154s max 55 85 96 99.38568 113 255 154s dimension(s): 154s from to offset delta refsys point x/y 154s x 1 175 288776 56.84 SIRGAS 2000 / UTM zone 25S FALSE [x] 154s y 1 176 9120761 -57 SIRGAS 2000 / UTM zone 25S FALSE [y] 154s > plot(yy) 154s > (y = adrop(st_apply(r, c("x", "band"), max))) 154s stars_proxy object with 1 attribute in 1 file(s): 154s $L7_ETMs.tif 154s [1] "[...]/L7_ETMs.tif" 154s 154s dimension(s): 154s from to offset delta refsys point x/y 154s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 154s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 154s band 1 6 NA NA NA NA 154s call_list: 154s [[1]] 154s st_apply(X = X, MARGIN = MARGIN, FUN = FUN, CLUSTER = CLUSTER, 154s PROGRESS = PROGRESS, FUTURE = FUTURE, rename = rename, .fname = .fname) 154s attr(,".Environment") 154s 154s 154s [[2]] 154s adrop(x = x, drop = drop) 154s attr(,".Environment") 154s 154s 154s This object has pending lazy operations: dimensions as printed may not reflect this. 154s > (yy = st_as_stars(y, downsample = 1)) 154s stars object with 2 dimensions and 1 attribute 154s attribute(s): 154s Min. 1st Qu. Median Mean 3rd Qu. Max. 154s max 77 111 133 137.8505 157 255 154s dimension(s): 154s from to offset delta refsys point 154s x 1 175 288776 56.84 SIRGAS 2000 / UTM zone 25S FALSE 154s band 1 6 NA NA NA NA 154s > rm(yy) 154s > 154s > (xx = c(r,r)) 154s Warning message: 154s In FUN(X[[i]], ...) : 154s st_apply on x/y dimensions applied to downsampled image(s) 154s stars_proxy object with 2 attributes in 2 file(s): 154s $L7_ETMs.tif 154s [1] "[...]/L7_ETMs.tif" 154s 154s $L7_ETMs.tif 154s [1] "[...]/L7_ETMs.tif" 154s 154s dimension(s): 154s from to offset delta refsys point x/y 154s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 154s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 154s band 1 6 NA NA NA NA 154s > names(xx) = c("a", "b") 154s > xx["a"] 154s stars_proxy object with 1 attribute in 1 file(s): 154s $a 154s [1] "[...]/L7_ETMs.tif" 154s 154s dimension(s): 154s from to offset delta refsys point x/y 154s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 154s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 154s band 1 6 NA NA NA NA 154s > pt = st_point(c(x = 290462.103109179, y = 9114202.32594085)) 154s > buf = st_buffer(st_sfc(pt, crs = st_crs(r)), 1500) 154s > buf = st_sfc(st_polygon(list(st_buffer(pt, 1500)[[1]], st_buffer(pt, 1000)[[1]])), 154s + crs = st_crs(r)) 154s > r = r[buf] # crops 154s > r = r[buf, epsilon = 1e-5] # crops with shrinked bounding box 154s > 154s > # c: 154s > f = system.file("netcdf/avhrr-only-v2.19810902.nc", package = "starsdata") 154s > if (FALSE && f != "") { 154s + files = c("avhrr-only-v2.19810901.nc", 154s + "avhrr-only-v2.19810902.nc", 154s + "avhrr-only-v2.19810903.nc", 154s + "avhrr-only-v2.19810904.nc", 154s + "avhrr-only-v2.19810905.nc", 154s + "avhrr-only-v2.19810906.nc", 154s + "avhrr-only-v2.19810907.nc", 154s + "avhrr-only-v2.19810908.nc", 154s + "avhrr-only-v2.19810909.nc") 154s + l = list() 154s + for (f in files) { 154s + from = system.file(paste0("netcdf/", f), package = "starsdata") 154s + l[[f]] = read_stars(from, sub = c("sst", "anom"), proxy = TRUE) 154s + } 154s + ret = do.call(c, l) 154s + print(ret) 154s + all = system.file(paste0("netcdf/", files), package = "starsdata") 154s + ret = read_stars(all, sub = c("sst", "anom")) 154s + print(ret) 154s + print(st_redimension(ret)) # collapse the two attributes into new dimension 154s + 154s + try(ret <- c(l[[1]], l[[2]], l[[3]], along = list(times = as.Date("1981-09-01") + 0:2))) 154s + #print(ret) 154s + #ret = adrop(adrop(c(l[[1]], l[[2]], l[[3]], along = "times"))) 154s + #print(ret) 154s + ret <- st_redimension(l[[1]], along = list(times = as.Date("1981-09-01") + 0:1)) 154s + print(ret) 154s + } 154s > 154s > # demonstrate that environments work: 154s > x = read_stars(tif, proxy = TRUE) 154s > f = function(x) { 154s + g = function(xx) { 154s + ndvi = function(z1, z2, z3, z4, z5, z6) (z2-z1)/(z2+z1) 154s + st_apply(xx, 1:2, ndvi) 154s + } 154s + g(x) 154s + } 154s > (x = f(x)) 154s stars_proxy object with 1 attribute in 1 file(s): 154s $L7_ETMs.tif 154s [1] "[...]/L7_ETMs.tif" 154s 154s dimension(s): 154s from to offset delta refsys point x/y 154s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 154s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 154s band 1 6 NA NA NA NA 154s call_list: 154s [[1]] 154s st_apply(X = X, MARGIN = MARGIN, FUN = FUN, CLUSTER = CLUSTER, 154s PROGRESS = PROGRESS, FUTURE = FUTURE, rename = rename, .fname = .fname) 154s attr(,".Environment") 154s 154s 154s This object has pending lazy operations: dimensions as printed may not reflect this. 154s > st_as_stars(x) 154s stars object with 2 dimensions and 1 attribute 154s attribute(s): 154s Min. 1st Qu. Median Mean 3rd Qu. Max. 154s ndvi -0.2828283 -0.1081081 -0.08287293 -0.08464615 -0.05882353 0.09259259 154s dimension(s): 154s from to offset delta refsys point x/y 154s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 154s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 154s > 154s BEGIN TEST raster.R 154s 154s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 154s Copyright (C) 2024 The R Foundation for Statistical Computing 154s Platform: x86_64-pc-linux-gnu 154s 154s R is free software and comes with ABSOLUTELY NO WARRANTY. 154s You are welcome to redistribute it under certain conditions. 154s Type 'license()' or 'licence()' for distribution details. 154s 154s R is a collaborative project with many contributors. 154s Type 'contributors()' for more information and 154s 'citation()' on how to cite R or R packages in publications. 154s 154s Type 'demo()' for some demos, 'help()' for on-line help, or 154s 'help.start()' for an HTML browser interface to help. 154s Type 'q()' to quit R. 154s 154s > options(rgdal_show_exportToProj4_warnings = "none") 154s > suppressPackageStartupMessages(library(stars)) 155s > 155s > if (suppressPackageStartupMessages(require(sp, quietly = TRUE)) && require("raster", quietly = TRUE) && 155s + suppressPackageStartupMessages(require("terra", quietly = TRUE))) { 155s + 155s + tif = system.file("tif/L7_ETMs.tif", package = "stars") 155s + (x = read_stars(tif)) 155s + (r = as(x, "Raster")) 155s + (y = st_as_stars(r)) 155s + 155s + # single band: 155s + x = adrop(x[,,,1]) 155s + r = as(x, "Raster") 155s + (y = st_as_stars(r)) 155s + 155s + # proxy: 155s + (x = read_stars(tif, proxy = TRUE)) 155s + (r = as(x, "Raster")) 155s + (y = st_as_stars(r)) 155s + (y2 = st_as_stars(r, proxy = TRUE)) 155s + } 160s stars_proxy object with 1 attribute in 1 file(s): 160s $L7_ETMs.tif 160s [1] "[...]/L7_ETMs.tif" 160s 160s dimension(s): 160s from to offset delta refsys point x/y 160s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 160s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 160s band 1 6 NA NA NA NA 160s > 160s > if (require(terra, quietly = TRUE)) { 160s + ## terra ------------- 160s + stopifnot(require(terra)) 160s + (x = read_stars(tif)) 160s + (r = as(x, "SpatRaster")) 160s + (y = st_as_stars(r)) 160s + 160s + # single band: 160s + x = adrop(x[,,,1]) 160s + r = as(x, "SpatRaster") 160s + (y = st_as_stars(r)) 160s + 160s + # proxy: 160s + (x = read_stars(tif, proxy = TRUE)) 160s + (r = as(x, "SpatRaster")) 160s + (y = st_as_stars(r)) 160s + (y2 = st_as_stars(r, proxy = TRUE)) 160s + 160s + f = system.file("tif/lc.tif", package = "stars") 160s + lc = read_stars(system.file("tif/lc.tif", package = "stars")) 160s + levels(lc[[1]]) 160s + r = rast(lc) 160s + e = attr(lc[[1]], "exclude") 160s + 160s + if (packageVersion("terra") >= "1.5.48") { 160s + 160s + print(all.equal(terra::levels(r)[[1]][,2], terra::levels(rast(f))[[1]][!e,2])) 160s + print(all.equal(terra::coltab(r)[[1]][!e,], terra::coltab(rast(f))[[1]][!e,], check.attributes = FALSE)) 160s + 160s + r<- rast(nrow=10, ncol=10) 160s + set.seed(5) 160s + values(r)<- sample(1:3, size = ncell(r), replace = TRUE) 160s + levels(r) <- data.frame(ID=1:3, category = c("c1", "c2", "c3")) 160s + 160s + r2<- rast(nrow=10, ncol=10) 160s + set.seed(6) 160s + values(r2)<- sample(c(0,2,3), size = ncell(r2), replace = TRUE) 160s + levels(r2) <- data.frame(ID=c(0,2,3), category = c("x1", "x2", "x3")) 160s + 160s + r3<- c(r,r2) 160s + names(r3)<- c("lyr.1", "lyr.2") 160s + 160s + r3_stars<- st_as_stars(r3) 160s + 160s + st_redimension(r3_stars) |> print() 160s + rast(r3_stars) |> levels() |> print() 160s + 160s + m = matrix(1:121, 11, 11) 160s + bb = st_bbox(c(xmin=0, xmax=11, ymin=0, ymax=11)) 160s + s = st_as_stars(bb, values = m) 160s + r = rast(s) 160s + aggregate(r, 2) |> st_as_stars() -> r.s 160s + stopifnot(isTRUE(all.equal(r.s[,1:5,1:5], st_downsample(s, 1, FUN = mean)))) 160s + } 160s + } 160s [1] TRUE 160s [1] TRUE 160s stars object with 3 dimensions and 1 attribute 160s attribute(s): 160s lyr.1.lyr.2 160s c1:34 160s c2:32 160s c3:34 160s x1:28 160s x2:37 160s x3:35 160s dimension(s): 160s from to offset delta refsys values x/y 160s x 1 10 -180 36 WGS 84 (CRS84) NULL [x] 160s y 1 10 90 -18 WGS 84 (CRS84) NULL [y] 160s new_dim 1 2 NA NA NA lyr.1, lyr.2 160s [[1]] 160s IDs categories 160s 1 1 c1 160s 2 2 c2 160s 3 3 c3 160s 160s [[2]] 160s IDs categories 160s 1 0 x1 160s 2 2 x2 160s 3 3 x3 160s 160s > 160s > 160s BEGIN TEST rasterize.R 160s 160s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 160s Copyright (C) 2024 The R Foundation for Statistical Computing 160s Platform: x86_64-pc-linux-gnu 160s 160s R is free software and comes with ABSOLUTELY NO WARRANTY. 160s You are welcome to redistribute it under certain conditions. 160s Type 'license()' or 'licence()' for distribution details. 160s 160s R is a collaborative project with many contributors. 160s Type 'contributors()' for more information and 160s 'citation()' on how to cite R or R packages in publications. 160s 160s Type 'demo()' for some demos, 'help()' for on-line help, or 160s 'help.start()' for an HTML browser interface to help. 160s Type 'q()' to quit R. 160s 161s > suppressPackageStartupMessages(library(stars)) 161s > nc = read_sf(system.file("gpkg/nc.gpkg", package="sf")) 161s > (x = st_rasterize(nc)) # default grid: 162s stars object with 2 dimensions and 12 attributes 162s attribute(s): 162s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 162s AREA 0.042 0.108 0.142 1.451932e-01 0.181 0.241 30904 162s PERIMETER 0.999 1.461 1.716 1.786110e+00 2.004 3.640 30904 162s CNTY_ 1825.000 1907.000 1989.000 1.998403e+03 2085.000 2241.000 30904 162s CNTY_ID 1825.000 1907.000 1989.000 1.998403e+03 2085.000 2241.000 30904 162s FIPSNO 37001.000 37049.000 37101.000 3.710042e+04 37153.000 37199.000 30904 162s CRESS_ID 1.000 25.000 51.000 5.071206e+01 77.000 100.000 30904 162s BIR74 248.000 1323.000 2648.000 3.791637e+03 4139.000 21588.000 30904 162s SID74 0.000 3.000 5.000 7.891985e+00 10.000 44.000 30904 162s NWBIR74 1.000 297.000 844.000 1.246210e+03 1396.000 8027.000 30904 162s BIR79 319.000 1606.000 3108.000 4.852046e+03 5400.000 30757.000 30904 162s SID79 0.000 3.000 6.000 9.584098e+00 13.000 57.000 30904 162s NWBIR79 3.000 360.000 1058.000 1.604642e+03 1524.000 11631.000 30904 162s dimension(s): 162s from to offset delta refsys point x/y 162s x 1 461 -84.32 0.01925 NAD27 FALSE [x] 162s y 1 141 36.59 -0.01925 NAD27 FALSE [y] 162s > plot(x, axes = TRUE) 162s > # a bit more customized grid: 162s > (x = st_rasterize(nc, st_as_stars(st_bbox(nc), nx = 100, ny = 50, values = NA_real_))) 162s stars object with 2 dimensions and 12 attributes 162s attribute(s): 162s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 162s AREA 0.042 0.108 0.142 0.145536 0.181 0.241 2373 162s PERIMETER 0.999 1.470 1.716 1.789032 2.004 3.640 2373 162s CNTY_ 1825.000 1908.000 1989.000 1999.761325 2088.000 2241.000 2373 162s CNTY_ID 1825.000 1908.000 1989.000 1999.761325 2088.000 2241.000 2373 162s FIPSNO 37001.000 37049.000 37101.000 37100.327750 37151.000 37199.000 2373 162s CRESS_ID 1.000 25.000 51.000 50.663875 76.000 100.000 2373 162s BIR74 248.000 1323.500 2648.000 3790.530263 4139.000 21588.000 2373 162s SID74 0.000 3.000 5.000 7.905976 10.000 44.000 2373 162s NWBIR74 1.000 289.000 844.000 1246.116483 1396.000 8027.000 2373 162s BIR79 319.000 1606.000 3108.000 4848.231062 5386.000 30757.000 2373 162s SID79 0.000 3.000 6.000 9.574419 13.000 57.000 2373 162s NWBIR79 3.000 360.000 1058.000 1602.740769 1524.000 11631.000 2373 162s dimension(s): 162s from to offset delta refsys point x/y 162s x 1 100 -84.32 0.08867 NAD27 FALSE [x] 162s y 1 50 36.59 -0.05415 NAD27 FALSE [y] 162s > plot(x, axes = TRUE) 162s > (ls = st_sf(a = 1:2, st_sfc(st_linestring(rbind(c(0.1, 0), c(1.1, 1))), st_linestring(rbind(c(0, 0.05), c(1, 0.05)))))) 162s Simple feature collection with 2 features and 1 field 162s Geometry type: LINESTRING 162s Dimension: XY 162s Bounding box: xmin: 0 ymin: 0 xmax: 1.1 ymax: 1 162s CRS: NA 162s a 162s 1 1 162s 2 2 162s c..st_sfc.st_linestring.rbind.c.0.1..0...c.1.1..1.....st_linestring.rbind.c.0..........0.05...c.1..0.05...... 162s 1 LINESTRING (0.1 0, 1.1 1) 162s 2 LINESTRING (0 0.05, 1 0.05) 162s > (grd = st_as_stars(st_bbox(ls), nx = 10, ny = 10, xlim = c(0, 1.0), ylim = c(0, 1), values = NA_real_)) 162s stars object with 2 dimensions and 1 attribute 162s attribute(s): 162s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 162s values NA NA NA NaN NA NA 100 162s dimension(s): 162s from to offset delta x/y 162s x 1 10 0 0.1 [x] 162s y 1 10 1 -0.1 [y] 162s > # the following two plots confirm that (only) the 162s > # upper-left corner is part of the grid cell (when dy is negative), leading 162s > # to a seemingly half-gridcell-shift problem: 162s > ## sf_extSoftVersion()["GDAL"] 162s > plot(st_rasterize(ls, grd), axes = TRUE, reset = FALSE) # ALL_TOUCHED=FALSE; 162s > plot(ls, add = TRUE, col = "red") 162s > plot(st_rasterize(ls, grd, options = "ALL_TOUCHED=TRUE"), axes = TRUE, reset = FALSE) 162s > plot(ls, add = TRUE, col = "red") 162s > # add lines to existing 0 values, summing values in case of multiple lines: 162s > (grd = st_as_stars(st_bbox(ls), nx = 10, ny = 10, xlim = c(0, 1.0), ylim = c(0, 1), values = 0)) 162s stars object with 2 dimensions and 1 attribute 162s attribute(s): 162s Min. 1st Qu. Median Mean 3rd Qu. Max. 162s values 0 0 0 0 0 0 162s dimension(s): 162s from to offset delta x/y 162s x 1 10 0 0.1 [x] 162s y 1 10 1 -0.1 [y] 162s > r = st_rasterize(ls, grd, options = c("MERGE_ALG=ADD", "ALL_TOUCHED=TRUE")) 162s > plot(r, axes = TRUE, reset = FALSE) 162s > plot(ls, add = TRUE, col = "red") 162s > 162s BEGIN TEST rectilinear.R 162s 162s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 162s Copyright (C) 2024 The R Foundation for Statistical Computing 162s Platform: x86_64-pc-linux-gnu 162s 162s R is free software and comes with ABSOLUTELY NO WARRANTY. 162s You are welcome to redistribute it under certain conditions. 162s Type 'license()' or 'licence()' for distribution details. 162s 162s R is a collaborative project with many contributors. 162s Type 'contributors()' for more information and 162s 'citation()' on how to cite R or R packages in publications. 162s 162s Type 'demo()' for some demos, 'help()' for on-line help, or 162s 'help.start()' for an HTML browser interface to help. 162s Type 'q()' to quit R. 162s 162s > suppressPackageStartupMessages(library(stars)) 163s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 163s > x = read_stars(tif) 163s > (xx = x[,c(1:347,349),c(1:350,352),]) # rectilinear: one-but-last row & col missing 163s stars object with 3 dimensions and 1 attribute 163s attribute(s): 163s Min. 1st Qu. Median Mean 3rd Qu. Max. 163s L7_ETMs.tif 1 54 69 68.9915 86 255 163s dimension(s): 163s from to refsys point 163s x 1 348 SIRGAS 2000 / UTM zone 25S FALSE 163s y 1 351 SIRGAS 2000 / UTM zone 25S FALSE 163s band 1 6 NA NA 163s values x/y 163s x [288790.5,288819),...,[298708.5,298737) [x] 163s y [9120747,9120718),...,[9110743,9110715) [y] 163s band NULL 163s > image(xx) # chooses useRaster itself 163s > # see also tidy.R for a ggplot example, leaving out the row. 163s > 163s > m = matrix(1:16, 4, 4) 163s > x = 1:4 163s > y = 2:5 163s > (st = st_as_stars(list(m = m), dimensions = st_dimensions(x = x, y = y))) 163s stars object with 2 dimensions and 1 attribute 163s attribute(s): 163s Min. 1st Qu. Median Mean 3rd Qu. Max. 163s m 1 4.75 8.5 8.5 12.25 16 163s dimension(s): 163s from to offset delta point x/y 163s x 1 4 1 1 FALSE [x] 163s y 1 4 2 1 FALSE [y] 163s > st = st_set_dimensions(st, 1, values = c(1,2,3,4,6)) 163s > st = st_set_dimensions(st, 2, values = c(2,3,4,5,8)) 163s > try(st_set_dimensions(st, 2, values = c(2,3,4,5,8,20))) # one too many 163s > 163s > # $<-.stars: 163s > st$foo = st$m * 2 163s Error in st_set_dimensions(st, 2, values = c(2, 3, 4, 5, 8, 20)) : 163s length of values ( 6 ) does not match length of dimension 2 ( 4 ) 163s > st 163s stars object with 2 dimensions and 2 attributes 163s attribute(s): 163s Min. 1st Qu. Median Mean 3rd Qu. Max. 163s m 1 4.75 8.5 8.5 12.25 16 163s foo 2 9.50 17.0 17.0 24.50 32 163s dimension(s): 163s from to point values x/y 163s x 1 4 FALSE [1,2),...,[4,6) [x] 163s y 1 4 FALSE [2,3),...,[5,8) [y] 163s > 163s > # st_as_sf: 163s > 163s > if (utils::packageVersion("sf") > "0.7.2") { 163s + plot(st_as_sf(st, as_points = FALSE), axes = TRUE) 163s + } 163s > 163s > image(st, text_values = TRUE, axes = TRUE) 163s > 163s BEGIN TEST redimension.R 163s 163s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 163s Copyright (C) 2024 The R Foundation for Statistical Computing 163s Platform: x86_64-pc-linux-gnu 163s 163s R is free software and comes with ABSOLUTELY NO WARRANTY. 163s You are welcome to redistribute it under certain conditions. 163s Type 'license()' or 'licence()' for distribution details. 163s 163s R is a collaborative project with many contributors. 163s Type 'contributors()' for more information and 163s 'citation()' on how to cite R or R packages in publications. 163s 163s Type 'demo()' for some demos, 'help()' for on-line help, or 163s 'help.start()' for an HTML browser interface to help. 163s Type 'q()' to quit R. 163s 164s > suppressPackageStartupMessages(library(stars)) 164s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 164s > r = read_stars(list(a = c(tif,tif), b = c(tif, tif)), proxy = TRUE) 164s > (xx = st_redimension(r, along = list(foo = 1:4))) 164s stars_proxy object with 1 attribute in 4 file(s): 164s $a.L7_ETMs.tif.a.L7_ETMs.tif.b.L7_ETMs.tif.b.L7_ETMs.tif 164s [1] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 164s [4] "[...]/L7_ETMs.tif" 164s 164s dimension(s): 164s from to offset delta refsys point x/y 164s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 164s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 164s band 1 6 NA NA NA NA 164s foo 1 4 1 1 NA NA 164s > (rr = c(xx, xx)) 164s stars_proxy object with 2 attributes in 8 file(s): 164s $a.L7_ETMs.tif.a.L7_ETMs.tif.b.L7_ETMs.tif.b.L7_ETMs.tif 164s [1] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 164s [4] "[...]/L7_ETMs.tif" 164s 164s $a.L7_ETMs.tif.a.L7_ETMs.tif.b.L7_ETMs.tif.b.L7_ETMs.tif 164s [1] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 164s [4] "[...]/L7_ETMs.tif" 164s 164s dimension(s): 164s from to offset delta refsys point x/y 164s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 164s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 164s band 1 6 NA NA NA NA 164s foo 1 4 1 1 NA NA 164s > # st_as_stars(rr) 164s > (rrr = st_redimension(rr, along = list(bar = as.Date(c("2001-01-01", "2002-01-01"))))) 164s stars_proxy object with 1 attribute in 8 file(s): 164s $a.L7_ETMs.tif.a.L7_ETMs.tif.b.L7_ETMs.tif.b.L7_ETMs.tif.a.L7_ETMs.tif.a.L7_ETMs.tif.b.L7_ETMs.tif.b.L7_ETMs.tif 164s [1] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 164s [4] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 164s [7] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 164s 164s dimension(s): 164s from to offset delta refsys point x/y 164s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 164s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 164s band 1 6 NA NA NA NA 164s foo 1 4 1 1 NA NA 164s bar 1 2 2001-01-01 365 days Date NA 164s > (rr = c(a = xx, b = xx)) 164s stars_proxy object with 2 attributes in 8 file(s): 164s $a 164s [1] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 164s [4] "[...]/L7_ETMs.tif" 164s 164s $b 164s [1] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 164s [4] "[...]/L7_ETMs.tif" 164s 164s dimension(s): 164s from to offset delta refsys point x/y 164s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 164s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 164s band 1 6 NA NA NA NA 164s foo 1 4 1 1 NA NA 164s > # st_as_stars(rr) 164s > (rrr = st_redimension(rr, along = list(bar = as.Date(c("2001-01-01", "2002-01-01"))))) 164s stars_proxy object with 1 attribute in 8 file(s): 164s $a.b 164s [1] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 164s [4] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 164s [7] "[...]/L7_ETMs.tif" "[...]/L7_ETMs.tif" 164s 164s dimension(s): 164s from to offset delta refsys point x/y 164s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 164s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 164s band 1 6 NA NA NA NA 164s foo 1 4 1 1 NA NA 164s bar 1 2 2001-01-01 365 days Date NA 164s > 164s BEGIN TEST sf.R 164s 164s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 164s Copyright (C) 2024 The R Foundation for Statistical Computing 164s Platform: x86_64-pc-linux-gnu 164s 164s R is free software and comes with ABSOLUTELY NO WARRANTY. 164s You are welcome to redistribute it under certain conditions. 164s Type 'license()' or 'licence()' for distribution details. 164s 164s R is a collaborative project with many contributors. 164s Type 'contributors()' for more information and 164s 'citation()' on how to cite R or R packages in publications. 164s 164s Type 'demo()' for some demos, 'help()' for on-line help, or 164s 'help.start()' for an HTML browser interface to help. 164s Type 'q()' to quit R. 164s 164s > suppressPackageStartupMessages(library(stars)) 165s > library(sf) 165s > #jp2 = system.file("jp2/B01.jp2", package = "stars") 165s > #(x = read_stars(jp2, options = c("OVERVIEW_LEVEL=3"))) 165s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 165s > #(x = read_stars(tif, options = c("OVERVIEW_LEVEL=3"))) # FIXME: breaks on windows 165s > (x = read_stars(tif)[,1:20,1:20]) 165s stars object with 3 dimensions and 1 attribute 165s attribute(s): 165s Min. 1st Qu. Median Mean 3rd Qu. Max. 165s L7_ETMs.tif 17 44 58 58.19667 70 130 165s dimension(s): 165s from to offset delta refsys point x/y 165s x 1 20 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 165s y 1 20 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 165s band 1 6 NA NA NA NA 165s > # names(x) = "L7_ETM" 165s > 165s > # library(abind) 165s > # x = adrop(x) 165s > image(x) 165s > (sfc = st_as_sfc(x, as_points = FALSE)) 165s Geometry set for 400 features 165s Geometry type: POLYGON 165s Dimension: XY 165s Bounding box: xmin: 288776.3 ymin: 9120191 xmax: 289346.3 ymax: 9120761 165s Projected CRS: SIRGAS 2000 / UTM zone 25S 165s First 5 geometries: 165s POLYGON ((288776.3 9120761, 288804.8 9120761, 2... 165s POLYGON ((288804.8 9120761, 288833.3 9120761, 2... 165s POLYGON ((288833.3 9120761, 288861.8 9120761, 2... 165s POLYGON ((288861.8 9120761, 288890.3 9120761, 2... 165s POLYGON ((288890.3 9120761, 288918.8 9120761, 2... 165s > plot(sfc, add =TRUE) 165s > (sfc = st_as_sfc(x, as_points = TRUE)) 165s Geometry set for 400 features 165s Geometry type: POINT 165s Dimension: XY 165s Bounding box: xmin: 288790.5 ymin: 9120205 xmax: 289332 ymax: 9120747 165s Projected CRS: SIRGAS 2000 / UTM zone 25S 165s First 5 geometries: 165s > plot(sfc, add = TRUE) 165s POINT (288790.5 9120747) 165s POINT (288819 9120747) 165s POINT (288847.5 9120747) 165s POINT (288876 9120747) 165s POINT (288904.5 9120747) 165s > 165s > sf = st_as_sf(x, as_points = FALSE) 165s > plot(sf, border = NA) 165s > sf = st_as_sf(x[,,,1], as_points = FALSE, merge = TRUE) 165s > plot(sf, border = NA) 165s > 165s > sfc1 <- st_as_sfc(x, as_points = TRUE, use_cpp = TRUE, na.rm = FALSE) 165s > sfc2 <- st_as_sfc(x, as_points = TRUE, use_cpp = FALSE) 165s > identical(sfc1, sfc2) 165s [1] TRUE 165s > 165s > sfc1 <- st_as_sfc(x, as_points = FALSE, use_cpp = TRUE, na.rm = FALSE) 165s > sfc2 <- st_as_sfc(x, as_points = FALSE, use_cpp = FALSE) 165s > identical(sfc1, sfc2) 165s [1] TRUE 165s > 165s > # sf -> stars -> sf 165s > x = st_sfc(st_point(0:1), st_point(1:2), st_point(2:3)) 165s > m = matrix(1:9,3) 165s > colnames(m) = c("a", "b", "c") 165s > foo = st_sf(m, geom = x) 165s > x = st_as_stars(foo) 165s > c(x) 165s stars object with 1 dimensions and 3 attributes 165s attribute(s): 165s Min. 1st Qu. Median Mean 3rd Qu. Max. 165s a 1 1.5 2 2 2.5 3 165s b 4 4.5 5 5 5.5 6 165s c 7 7.5 8 8 8.5 9 165s dimension(s): 165s from to point values 165s geom 1 3 TRUE POINT (0 1),...,POINT (2 3) 165s > st_redimension(x) 165s stars object with 2 dimensions and 1 attribute 165s attribute(s): 165s Min. 1st Qu. Median Mean 3rd Qu. Max. 165s a.b.c 1 3 5 5 7 9 165s dimension(s): 165s from to point values 165s geom 1 3 TRUE POINT (0 1),...,POINT (2 3) 165s new_dim 1 3 NA a, b, c 165s > c(x, x) 165s stars object with 1 dimensions and 6 attributes 165s attribute(s): 165s Min. 1st Qu. Median Mean 3rd Qu. Max. 165s a 1 1.5 2 2 2.5 3 165s b 4 4.5 5 5 5.5 6 165s c 7 7.5 8 8 8.5 9 165s a.1 1 1.5 2 2 2.5 3 165s b.1 4 4.5 5 5 5.5 6 165s c.1 7 7.5 8 8 8.5 9 165s dimension(s): 165s from to point values 165s geom 1 3 TRUE POINT (0 1),...,POINT (2 3) 165s > (y = st_redimension(x, along = list(time = as.Date("2017-11-27") + 0:2))) 165s stars object with 2 dimensions and 1 attribute 165s attribute(s): 165s Min. 1st Qu. Median Mean 3rd Qu. Max. 165s a.b.c 1 3 5 5 7 9 165s dimension(s): 165s from to offset delta refsys point values 165s geom 1 3 NA NA NA TRUE POINT (0 1),...,POINT (2 3) 165s time 1 3 2017-11-27 1 days Date NA NULL 165s > st_as_sf(y) 165s Simple feature collection with 3 features and 3 fields 165s Geometry type: POINT 165s Dimension: XY 165s Bounding box: xmin: 0 ymin: 1 xmax: 2 ymax: 3 165s CRS: NA 165s 2017-11-27 2017-11-28 2017-11-29 geom 165s 1 1 4 7 POINT (0 1) 165s 2 2 5 8 POINT (1 2) 165s 3 3 6 9 POINT (2 3) 165s > st_as_sf(st_as_stars(foo)) 165s Simple feature collection with 3 features and 3 fields 165s Geometry type: POINT 165s Dimension: XY 165s Bounding box: xmin: 0 ymin: 1 xmax: 2 ymax: 3 165s CRS: NA 165s a b c geom 165s 1 1 4 7 POINT (0 1) 165s 2 2 5 8 POINT (1 2) 165s 3 3 6 9 POINT (2 3) 165s > 165s > c(x,x,along=1) # NEEDS FIXING! 165s stars object with 1 dimensions and 3 attributes 165s attribute(s): 165s Min. 1st Qu. Median Mean 3rd Qu. Max. 165s a 1 1.25 2 2 2.75 3 165s b 4 4.25 5 5 5.75 6 165s c 7 7.25 8 8 8.75 9 165s dimension(s): 165s from to point values 165s geom 1 6 TRUE POINT (0 1),...,POINT (2 3) 165s > # st_as_stars.sfc 165s > st_as_stars(st_geometry(st_as_sf(y)), nx = 10, ny = 10, as_points = FALSE) 165s stars object with 2 dimensions and 1 attribute 165s attribute(s): 165s Min. 1st Qu. Median Mean 3rd Qu. Max. 165s values 0 0 0 0.06 0 1 165s dimension(s): 165s from to offset delta x/y 165s x 1 10 0 0.2 [x] 165s y 1 10 3 -0.2 [y] 165s > 165s BEGIN TEST sp.R 165s 165s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 165s Copyright (C) 2024 The R Foundation for Statistical Computing 165s Platform: x86_64-pc-linux-gnu 165s 165s R is free software and comes with ABSOLUTELY NO WARRANTY. 165s You are welcome to redistribute it under certain conditions. 165s Type 'license()' or 'licence()' for distribution details. 165s 165s R is a collaborative project with many contributors. 165s Type 'contributors()' for more information and 165s 'citation()' on how to cite R or R packages in publications. 165s 165s Type 'demo()' for some demos, 'help()' for on-line help, or 165s 'help.start()' for an HTML browser interface to help. 165s Type 'q()' to quit R. 165s 166s > options(rgdal_show_exportToProj4_warnings = "none") 166s > if (suppressPackageStartupMessages(require(sp, quietly = TRUE))) { 166s + demo(meuse) 166s + # remove +init=xxx 166s + meuse@proj4string = CRS( 166s + "+proj=sterea +lat_0=52.1561605555556 +lon_0=5.38763888888889 +k=0.9999079 +x_0=155000 +y_0=463000 +ellps=bessel +units=m +no_defs" 166s + ) 166s + meuse.grid@proj4string = CRS( 166s + "+proj=sterea +lat_0=52.1561605555556 +lon_0=5.38763888888889 +k=0.9999079 +x_0=155000 +y_0=463000 +ellps=bessel +units=m +no_defs" 166s + ) 166s + 166s + suppressPackageStartupMessages(library(stars)) 166s + (m = st_as_stars(meuse)) 166s + (gr = st_as_stars(meuse.grid)) 166s + 166s + m2 = as(m, "Spatial") 166s + summary(m2) 166s + gr2 = as(gr, "Spatial") 166s + summary(gr2) 166s + 166s + all.equal(meuse, m2, check.attributes = FALSE) 166s + fullgrid(meuse.grid) = TRUE 166s + all.equal(meuse.grid, gr2, check.attributes = FALSE) 166s + 166s + #all.equal(meuse, m2) 166s + #all.equal(meuse.grid, gr2) 166s + } 166s 166s 166s demo(meuse) 166s ---- ~~~~~ 166s 166s > require(sp) 166s 166s > crs = CRS("EPSG:28992") 166s 166s > data("meuse") 166s 166s > coordinates(meuse) <- ~x+y 166s 166s > proj4string(meuse) <- crs 166s 166s > data("meuse.grid") 166s 166s > coordinates(meuse.grid) <- ~x+y 166s 166s > gridded(meuse.grid) <- TRUE 166s 166s > proj4string(meuse.grid) <- crs 166s 166s > data("meuse.riv") 166s 166s > meuse.riv <- SpatialPolygons(list(Polygons(list(Polygon(meuse.riv)),"meuse.riv"))) 166s 166s > proj4string(meuse.riv) <- crs 166s 166s > data("meuse.area") 166s 166s > meuse.area = SpatialPolygons(list(Polygons(list(Polygon(meuse.area)), "area"))) 166s 166s > proj4string(meuse.area) <- crs 166s [1] TRUE 166s > 167s BEGIN TEST spacetime.R 167s 167s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 167s Copyright (C) 2024 The R Foundation for Statistical Computing 167s Platform: x86_64-pc-linux-gnu 167s 167s R is free software and comes with ABSOLUTELY NO WARRANTY. 167s You are welcome to redistribute it under certain conditions. 167s Type 'license()' or 'licence()' for distribution details. 167s 167s R is a collaborative project with many contributors. 167s Type 'contributors()' for more information and 167s 'citation()' on how to cite R or R packages in publications. 167s 167s Type 'demo()' for some demos, 'help()' for on-line help, or 167s 'help.start()' for an HTML browser interface to help. 167s Type 'q()' to quit R. 167s 167s > suppressPackageStartupMessages(library(stars)) 167s > if (suppressPackageStartupMessages(require(sp, quietly = TRUE)) && require(spacetime, quietly = TRUE)) { 167s + set.seed(1331) 167s + Sys.setenv(TZ="UTC") 167s + example(STFDF) 167s + 167s + x = st_as_stars(stfdf) 167s + xx = as(x, "STFDF") 167s + 167s + # as.xts.stars: 167s + library(xts) 167s + xts = as.xts(x) 167s + st_as_stars(xts) 167s + st_as_stars(xts, dimensions = st_dimensions(x)) 167s + 167s + library(sp) 167s + pts = SpatialPoints(rbind(c(0,0), c(0,1), c(1,0), c(1,1))) 167s + gridded(pts) = TRUE 167s + 167s + tm = xts(1:10, as.Date("2010-01-01")+0:9) 167s + stfdf = STFDF(pts, tm, data.frame(foo = seq_len(length(pts) * length(tm)))) 167s + x = st_as_stars(stfdf) 167s + xx = as(x, "STFDF") 167s + 167s + x = st_as_stars(as(stfdf, "STSDF")) 167s + } 168s 168s STFDF> sp = cbind(x = c(0,0,1), y = c(0,1,1)) 168s 168s STFDF> row.names(sp) = paste("point", 1:nrow(sp), sep="") 168s 168s STFDF> library(sp) 168s 168s STFDF> sp = SpatialPoints(sp) 168s 168s STFDF> time = as.POSIXct("2010-08-05")+3600*(10:13) 168s 168s STFDF> m = c(10,20,30) # means for each of the 3 point locations 168s 168s STFDF> mydata = rnorm(length(sp)*length(time),mean=rep(m, 4)) 168s 168s STFDF> IDs = paste("ID",1:length(mydata)) 168s 168s STFDF> mydata = data.frame(values = signif(mydata,3), ID=IDs) 168s 168s STFDF> stfdf = STFDF(sp, time, mydata) 168s 168s STFDF> stfdf 168s An object of class "STFDF" 168s Slot "data": 168s values ID 168s 1 9.38 ID 1 168s 2 21.10 ID 2 168s 3 29.80 ID 3 168s 4 11.50 ID 4 168s 5 19.80 ID 5 168s 6 31.20 ID 6 168s 7 10.40 ID 7 168s 8 20.50 ID 8 168s 9 29.80 ID 9 168s 10 10.30 ID 10 168s 11 21.40 ID 11 168s 12 29.40 ID 12 168s 168s Slot "sp": 168s SpatialPoints: 168s x y 168s point1 0 0 168s point2 0 1 168s point3 1 1 168s Coordinate Reference System (CRS) arguments: NA 168s 168s Slot "time": 168s timeIndex 168s 2010-08-05 10:00:00 1 168s 2010-08-05 11:00:00 2 168s 2010-08-05 12:00:00 3 168s 2010-08-05 13:00:00 4 168s 168s Slot "endTime": 168s [1] "2010-08-05 11:00:00 UTC" "2010-08-05 12:00:00 UTC" 168s [3] "2010-08-05 13:00:00 UTC" "2010-08-05 14:00:00 UTC" 168s 168s 168s STFDF> stfdf[1:2,] 168s An object of class "STFDF" 168s Slot "data": 168s values ID 168s 1 9.38 ID 1 168s 2 21.10 ID 2 168s 3 11.50 ID 4 168s 4 19.80 ID 5 168s 5 10.40 ID 7 168s 6 20.50 ID 8 168s 7 10.30 ID 10 168s 8 21.40 ID 11 168s 168s Slot "sp": 168s SpatialPoints: 168s x y 168s point1 0 0 168s point2 0 1 168s Coordinate Reference System (CRS) arguments: NA 168s 168s Slot "time": 168s timeIndex 168s 2010-08-05 10:00:00 1 168s 2010-08-05 11:00:00 2 168s 2010-08-05 12:00:00 3 168s 2010-08-05 13:00:00 4 168s 168s Slot "endTime": 168s [1] "2010-08-05 11:00:00 UTC" "2010-08-05 12:00:00 UTC" 168s [3] "2010-08-05 13:00:00 UTC" "2010-08-05 14:00:00 UTC" 168s 168s 168s STFDF> stfdf[,1:2] 168s An object of class "STFDF" 168s Slot "data": 168s values ID 168s 1 9.38 ID 1 168s 2 21.10 ID 2 168s 3 29.80 ID 3 168s 4 11.50 ID 4 168s 5 19.80 ID 5 168s 6 31.20 ID 6 168s 168s Slot "sp": 168s SpatialPoints: 168s x y 168s point1 0 0 168s point2 0 1 168s point3 1 1 168s Coordinate Reference System (CRS) arguments: NA 168s 168s Slot "time": 168s timeIndex 168s 2010-08-05 10:00:00 1 168s 2010-08-05 11:00:00 2 168s 168s Slot "endTime": 168s [1] "2010-08-05 11:00:00 UTC" "2010-08-05 12:00:00 UTC" 168s 168s 168s STFDF> stfdf[,,2] 168s An object of class "STFDF" 168s Slot "data": 168s ID 168s 1 ID 1 168s 2 ID 2 168s 3 ID 3 168s 4 ID 4 168s 5 ID 5 168s 6 ID 6 168s 7 ID 7 168s 8 ID 8 168s 9 ID 9 168s 10 ID 10 168s 11 ID 11 168s 12 ID 12 168s 168s Slot "sp": 168s SpatialPoints: 168s x y 168s point1 0 0 168s point2 0 1 168s point3 1 1 168s Coordinate Reference System (CRS) arguments: NA 168s 168s Slot "time": 168s timeIndex 168s 2010-08-05 10:00:00 1 168s 2010-08-05 11:00:00 2 168s 2010-08-05 12:00:00 3 168s 2010-08-05 13:00:00 4 168s 168s Slot "endTime": 168s [1] "2010-08-05 11:00:00 UTC" "2010-08-05 12:00:00 UTC" 168s [3] "2010-08-05 13:00:00 UTC" "2010-08-05 14:00:00 UTC" 168s 168s 168s STFDF> stfdf[,,"values"] 168s An object of class "STFDF" 168s Slot "data": 168s values 168s 1 9.38 168s 2 21.10 168s 3 29.80 168s 4 11.50 168s 5 19.80 168s 6 31.20 168s 7 10.40 168s 8 20.50 168s 9 29.80 168s 10 10.30 168s 11 21.40 168s 12 29.40 168s 168s Slot "sp": 168s SpatialPoints: 168s x y 168s point1 0 0 168s point2 0 1 168s point3 1 1 168s Coordinate Reference System (CRS) arguments: NA 168s 168s Slot "time": 168s timeIndex 168s 2010-08-05 10:00:00 1 168s 2010-08-05 11:00:00 2 168s 2010-08-05 12:00:00 3 168s 2010-08-05 13:00:00 4 168s 168s Slot "endTime": 168s [1] "2010-08-05 11:00:00 UTC" "2010-08-05 12:00:00 UTC" 168s [3] "2010-08-05 13:00:00 UTC" "2010-08-05 14:00:00 UTC" 168s 168s 168s STFDF> stfdf[1,] 168s values ID timeIndex 168s 2010-08-05 10:00:00 9.38 ID 1 1 168s 2010-08-05 11:00:00 11.50 ID 4 2 168s 2010-08-05 12:00:00 10.40 ID 7 3 168s 2010-08-05 13:00:00 10.30 ID 10 4 168s 168s STFDF> stfdf[,2] 168s coordinates values ID 168s 1 (0, 0) 11.5 ID 4 168s 2 (0, 1) 19.8 ID 5 168s 3 (1, 1) 31.2 ID 6 168s 168s STFDF> as(stfdf[,,1], "xts") 168s point1 point2 point3 168s 2010-08-05 10:00:00 9.38 21.1 29.8 168s 2010-08-05 11:00:00 11.50 19.8 31.2 168s 2010-08-05 12:00:00 10.40 20.5 29.8 168s 2010-08-05 13:00:00 10.30 21.4 29.4 168s 168s STFDF> as(stfdf[,,2], "xts") 168s point1 point2 point3 168s 2010-08-05 10:00:00 ID 1 ID 2 ID 3 168s 2010-08-05 11:00:00 ID 4 ID 5 ID 6 168s 2010-08-05 12:00:00 ID 7 ID 8 ID 9 168s 2010-08-05 13:00:00 ID 10 ID 11 ID 12 168s 168s STFDF> # examples for [[, [[<-, $ and $<- 168s STFDF> stfdf[[1]] 168s [1] 9.38 21.10 29.80 11.50 19.80 31.20 10.40 20.50 29.80 10.30 21.40 29.40 168s 168s STFDF> stfdf[["values"]] 168s [1] 9.38 21.10 29.80 11.50 19.80 31.20 10.40 20.50 29.80 10.30 21.40 29.40 168s 168s STFDF> stfdf[["newVal"]] <- rnorm(12) 168s 168s STFDF> stfdf$ID 168s [1] "ID 1" "ID 2" "ID 3" "ID 4" "ID 5" "ID 6" "ID 7" "ID 8" "ID 9" 168s [10] "ID 10" "ID 11" "ID 12" 168s 168s STFDF> stfdf$ID = paste("OldIDs", 1:12, sep="") 168s 168s STFDF> stfdf$NewID = paste("NewIDs", 12:1, sep="") 168s 168s STFDF> stfdf 168s An object of class "STFDF" 168s Slot "data": 168s values ID newVal NewID 168s 1 9.38 OldIDs1 -0.3125824 NewIDs12 168s 2 21.10 OldIDs2 -1.0536246 NewIDs11 168s 3 29.80 OldIDs3 -0.7188880 NewIDs10 168s 4 11.50 OldIDs4 -1.0525404 NewIDs9 168s 5 19.80 OldIDs5 -0.8441413 NewIDs8 168s 6 31.20 OldIDs6 1.1420848 NewIDs7 168s 7 10.40 OldIDs7 1.9479070 NewIDs6 168s 8 20.50 OldIDs8 -0.4512836 NewIDs5 168s 9 29.80 OldIDs9 0.6695716 NewIDs4 168s 10 10.30 OldIDs10 0.1269003 NewIDs3 168s 11 21.40 OldIDs11 -0.7273297 NewIDs2 168s 12 29.40 OldIDs12 -0.8151803 NewIDs1 168s 168s Slot "sp": 168s SpatialPoints: 168s x y 168s point1 0 0 168s point2 0 1 168s point3 1 1 168s Coordinate Reference System (CRS) arguments: NA 168s 168s Slot "time": 168s timeIndex 168s 2010-08-05 10:00:00 1 168s 2010-08-05 11:00:00 2 168s 2010-08-05 12:00:00 3 168s 2010-08-05 13:00:00 4 168s 168s Slot "endTime": 168s [1] "2010-08-05 11:00:00 UTC" "2010-08-05 12:00:00 UTC" 168s [3] "2010-08-05 13:00:00 UTC" "2010-08-05 14:00:00 UTC" 168s 168s 168s STFDF> x = stfdf[stfdf[1:2,],] 168s 168s STFDF> all.equal(x, stfdf[1:2,]) 168s [1] TRUE 168s 168s STFDF> all.equal(stfdf, stfdf[stfdf,]) # converts character to factor... 168s [1] TRUE 168s Loading required package: zoo 168s 168s Attaching package: 'zoo' 168s 168s The following objects are masked from 'package:base': 168s 168s as.Date, as.Date.numeric 168s 168s only the first attribute will used; maybe use merge() first? 168s > 168s BEGIN TEST spatstat.R 168s 168s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 168s Copyright (C) 2024 The R Foundation for Statistical Computing 168s Platform: x86_64-pc-linux-gnu 168s 168s R is free software and comes with ABSOLUTELY NO WARRANTY. 168s You are welcome to redistribute it under certain conditions. 168s Type 'license()' or 'licence()' for distribution details. 168s 168s R is a collaborative project with many contributors. 168s Type 'contributors()' for more information and 168s 'citation()' on how to cite R or R packages in publications. 168s 168s Type 'demo()' for some demos, 'help()' for on-line help, or 168s 'help.start()' for an HTML browser interface to help. 168s Type 'q()' to quit R. 168s 168s > suppressPackageStartupMessages(library(sf)) 168s > 168s > library(stars) 168s Loading required package: abind 169s > if (suppressPackageStartupMessages(require(spatstat.geom, quietly = TRUE))) { 169s + tif = system.file("tif/L7_ETMs.tif", package = "stars") 169s + s = adrop(read_stars(tif)[,,,1]) > 70 169s + plot(s) 169s + m = as.owin(s) 169s + plot(m) 169s + print(table(m$m)) 169s + } 170s 170s FALSE TRUE 170s 39494 83354 170s > 170s BEGIN TEST stars.R 170s 170s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 170s Copyright (C) 2024 The R Foundation for Statistical Computing 170s Platform: x86_64-pc-linux-gnu 170s 170s R is free software and comes with ABSOLUTELY NO WARRANTY. 170s You are welcome to redistribute it under certain conditions. 170s Type 'license()' or 'licence()' for distribution details. 170s 170s R is a collaborative project with many contributors. 170s Type 'contributors()' for more information and 170s 'citation()' on how to cite R or R packages in publications. 170s 170s Type 'demo()' for some demos, 'help()' for on-line help, or 170s 'help.start()' for an HTML browser interface to help. 170s Type 'q()' to quit R. 170s 170s > Sys.setenv(TZ="UTC") 170s > suppressPackageStartupMessages(library(stars)) 171s > set.seed(13521) # runif 171s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 171s > (x_ = read_stars(c(tif,tif))) # FIXME: not what you'd expect 171s stars object with 3 dimensions and 2 attributes 171s attribute(s): 171s Min. 1st Qu. Median Mean 3rd Qu. Max. 171s L7_ETMs.tif 1 54 69 68.91242 86 255 171s L7_ETMs.tif.1 1 54 69 68.91242 86 255 171s dimension(s): 171s from to offset delta refsys point x/y 171s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 171s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 171s band 1 6 NA NA NA NA 171s > (x = read_stars(tif)) 171s stars object with 3 dimensions and 1 attribute 171s attribute(s): 171s Min. 1st Qu. Median Mean 3rd Qu. Max. 171s L7_ETMs.tif 1 54 69 68.91242 86 255 171s dimension(s): 171s from to offset delta refsys point x/y 171s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 171s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 171s band 1 6 NA NA NA NA 171s > # image(x) 171s > gdal_crs(tif) 171s Coordinate Reference System: 171s User input: PROJCS["SIRGAS 2000 / UTM zone 25S",GEOGCS["SIRGAS 2000",DATUM["Sistema_de_Referencia_Geocentrico_para_las_AmericaS_2000",SPHEROID["GRS 1980",6378137,298.257222101,AUTHORITY["EPSG","7019"]],AUTHORITY["EPSG","6674"]],PRIMEM["Greenwich",0,AUTHORITY["EPSG","8901"]],UNIT["degree",0.0174532925199433,AUTHORITY["EPSG","9122"]],AUTHORITY["EPSG","4674"]],PROJECTION["Transverse_Mercator"],PARAMETER["latitude_of_origin",0],PARAMETER["central_meridian",-33],PARAMETER["scale_factor",0.9996],PARAMETER["false_easting",500000],PARAMETER["false_northing",10000000],UNIT["metre",1,AUTHORITY["EPSG","9001"]],AXIS["Easting",EAST],AXIS["Northing",NORTH],AUTHORITY["EPSG","31985"]] 171s wkt: 171s PROJCRS["SIRGAS 2000 / UTM zone 25S", 171s BASEGEOGCRS["SIRGAS 2000", 171s DATUM["Sistema de Referencia Geocentrico para las AmericaS 2000", 171s ELLIPSOID["GRS 1980",6378137,298.257222101, 171s LENGTHUNIT["metre",1]]], 171s PRIMEM["Greenwich",0, 171s ANGLEUNIT["degree",0.0174532925199433]], 171s ID["EPSG",4674]], 171s CONVERSION["UTM zone 25S", 171s METHOD["Transverse Mercator", 171s ID["EPSG",9807]], 171s PARAMETER["Latitude of natural origin",0, 171s ANGLEUNIT["degree",0.0174532925199433], 171s ID["EPSG",8801]], 171s PARAMETER["Longitude of natural origin",-33, 171s ANGLEUNIT["degree",0.0174532925199433], 171s ID["EPSG",8802]], 171s PARAMETER["Scale factor at natural origin",0.9996, 171s SCALEUNIT["unity",1], 171s ID["EPSG",8805]], 171s PARAMETER["False easting",500000, 171s LENGTHUNIT["metre",1], 171s ID["EPSG",8806]], 171s PARAMETER["False northing",10000000, 171s LENGTHUNIT["metre",1], 171s ID["EPSG",8807]]], 171s CS[Cartesian,2], 171s AXIS["easting",east, 171s ORDER[1], 171s LENGTHUNIT["metre",1]], 171s AXIS["northing",north, 171s ORDER[2], 171s LENGTHUNIT["metre",1]], 171s ID["EPSG",31985]] 171s > plot(x) 171s > plot(x, join_zlim = FALSE) 171s > x %>% st_set_dimensions(names = c('a', 'b', 'c')) 171s stars object with 3 dimensions and 1 attribute 171s attribute(s): 171s Min. 1st Qu. Median Mean 3rd Qu. Max. 171s L7_ETMs.tif 1 54 69 68.91242 86 255 171s dimension(s): 171s from to offset delta refsys point x/y 171s a 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 171s b 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 171s c 1 6 NA NA NA NA 171s > st_get_dimension_values(x, 3) 171s [1] 1 2 3 4 5 6 171s > 171s > (x1 = st_set_dimensions(x, "band", values = c(1,2,3,4,5,7), names = "band_number", point = TRUE)) 171s stars object with 3 dimensions and 1 attribute 171s attribute(s): 172s Min. 1st Qu. Median Mean 3rd Qu. Max. 172s L7_ETMs.tif 1 54 69 68.91242 86 255 172s dimension(s): 172s from to offset delta refsys point values x/y 172s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [x] 172s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [y] 172s band_number 1 6 NA NA NA TRUE 1,...,7 172s > rbind(c(0.45,0.515), c(0.525,0.605), c(0.63,0.69), c(0.775,0.90), c(1.55,1.75), c(2.08,2.35)) %>% 172s + units::set_units(um) -> bw # units::set_units(µm) -> bw 172s > # set bandwidth midpoint: 172s > (x2 = st_set_dimensions(x, "band", values = 0.5 * (bw[,1]+bw[,2]), 172s + names = "bandwidth_midpoint", point = TRUE)) 172s stars object with 3 dimensions and 1 attribute 172s attribute(s): 172s Min. 1st Qu. Median Mean 3rd Qu. Max. 172s L7_ETMs.tif 1 54 69 68.91242 86 255 172s dimension(s): 172s from to offset delta refsys point 172s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE 172s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE 172s bandwidth_midpoint 1 6 NA NA udunits TRUE 172s values x/y 172s x NULL [x] 172s y NULL [y] 172s bandwidth_midpoint 0.4825 [um],...,2.215 [um] 172s > # set bandwidth intervals: 172s > (x3 = st_set_dimensions(x, "band", values = make_intervals(bw), names = "bandwidth")) 172s stars object with 3 dimensions and 1 attribute 172s attribute(s): 172s Min. 1st Qu. Median Mean 3rd Qu. Max. 172s L7_ETMs.tif 1 54 69 68.91242 86 255 172s dimension(s): 172s from to offset delta refsys point 172s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE 172s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE 172s bandwidth 1 6 NA NA udunits NA 172s values x/y 172s x NULL [x] 172s y NULL [y] 172s bandwidth [0.45,0.515) [um],...,[2.08,2.35) [um] 172s > 172s > x + x 172s stars object with 3 dimensions and 1 attribute 172s attribute(s): 172s Min. 1st Qu. Median Mean 3rd Qu. Max. 172s L7_ETMs.tif 2 108 138 137.8248 172 510 172s dimension(s): 172s from to offset delta refsys point x/y 172s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 172s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 172s band 1 6 NA NA NA NA 172s > x * x 172s stars object with 3 dimensions and 1 attribute 172s attribute(s): 172s Min. 1st Qu. Median Mean 3rd Qu. Max. 172s L7_ETMs.tif 1 2916 4761 5512.41 7396 65025 172s dimension(s): 172s from to offset delta refsys point x/y 172s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 172s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 172s band 1 6 NA NA NA NA 172s > x[,,,1:3] 172s stars object with 3 dimensions and 1 attribute 172s attribute(s): 172s Min. 1st Qu. Median Mean 3rd Qu. Max. 172s L7_ETMs.tif 21 58 70 70.36041 83 255 172s dimension(s): 172s from to offset delta refsys point x/y 172s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 172s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 172s band 1 3 NA NA NA NA 172s > x[,1:100,100:200,] 172s stars object with 3 dimensions and 1 attribute 172s attribute(s): 172s Min. 1st Qu. Median Mean 3rd Qu. Max. 172s L7_ETMs.tif 13 54 65 67.21531 77 252 172s dimension(s): 172s from to offset delta refsys point x/y 172s x 1 100 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 172s y 100 200 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 172s band 1 6 NA NA NA NA 172s > sqrt(x) 172s stars object with 3 dimensions and 1 attribute 172s attribute(s): 172s Min. 1st Qu. Median Mean 3rd Qu. Max. 172s L7_ETMs.tif 1 7.348469 8.306624 8.094006 9.273618 15.96872 172s dimension(s): 172s from to offset delta refsys point x/y 172s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 172s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 172s band 1 6 NA NA NA NA 172s > st_apply(x, 3, min) 172s stars object with 1 dimensions and 1 attribute 172s attribute(s): 172s Min. 1st Qu. Median Mean 3rd Qu. Max. 172s min 1 3 15 18.5 29.25 47 172s dimension(s): 172s from to 172s band 1 6 172s > st_apply(x, 1:2, max) 172s stars object with 2 dimensions and 1 attribute 172s attribute(s): 172s Min. 1st Qu. Median Mean 3rd Qu. Max. 172s max 55 85 96 99.36018 113 255 172s dimension(s): 172s from to offset delta refsys point x/y 172s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 172s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 172s > st_apply(x, 1:2, range) 173s stars object with 3 dimensions and 1 attribute 173s attribute(s): 173s Min. 1st Qu. Median Mean 3rd Qu. Max. 173s L7_ETMs.tif 1 50 71 72.43565 96 255 173s dimension(s): 173s from to offset delta refsys point x/y 173s range 1 2 NA NA NA NA 173s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 173s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 173s > 173s > geomatrix = system.file("tif/geomatrix.tif", package = "stars") 173s > x = read_stars(geomatrix) 173s > y = st_transform(x, st_crs(4326)) 173s > st_coordinates(x)[1:10,] 173s x y 173s 1 1841000 1144000 173s 2 1841002 1143995 173s 3 1841003 1143990 173s 4 1841004 1143985 173s 5 1841006 1143980 173s 6 1841008 1143975 173s 7 1841009 1143970 173s 8 1841010 1143965 173s 9 1841012 1143960 173s 10 1841014 1143955 173s > 173s > nc = system.file("nc/tos_O1_2001-2002.nc", package = "stars") 173s > if (nc != "" && require(PCICt, quietly = TRUE)) { 173s + print(x <- read_stars(nc)) 173s + print(st_bbox(x)) 173s + s = st_as_stars(st_bbox(x)) # inside = NA 173s + print(st_bbox(s)) 173s + s = st_as_stars(st_bbox(x), inside = TRUE) 173s + print(st_bbox(s)) 173s + s = st_as_stars(st_bbox(x), inside = FALSE) 173s + print(st_bbox(s)) 173s + (s = st_as_stars(st_bbox(x), dy = 1)) 173s + print(st_bbox(s)) 173s + print(identical(st_as_stars(st_bbox(x), dx = 1), st_as_stars(st_bbox(x), dy = 1))) 173s + s = st_as_stars(st_bbox(x), dx = 10) 173s + print(st_bbox(s)) 173s + s = st_as_stars(st_bbox(x), dx = 20) 173s + print(st_bbox(s)) 173s + x1 = x 173s + st_crs(x1) = "OGC:CRS84" 173s + print(identical(st_as_stars(st_bbox(x1), dx = 1), st_as_stars(st_bbox(x1), dx = units::set_units(1, degree)))) 173s + 173s + df = as.data.frame(x) 173s + if (require(units, quietly = TRUE)) 173s + print(units::drop_units(x)) 173s + 173s + print(dimnames(x)) 173s + dimnames(x) <- letters[1:3] 173s + print(dimnames(x)) 173s + } # PCICt 173s > 173s > st_as_stars() 173s stars object with 2 dimensions and 1 attribute 173s attribute(s): 173s Min. 1st Qu. Median Mean 3rd Qu. Max. 173s values 0 0 0 0 0 0 173s dimension(s): 173s from to offset delta refsys x/y 173s x 1 360 -180 1 WGS 84 (CRS84) [x] 173s y 1 180 90 -1 WGS 84 (CRS84) [y] 173s > 173s > # multiple sub-datasets: 173s > nc_red = system.file("nc/reduced.nc", package = "stars") 173s > red = read_stars(nc_red) 173s sst, anom, err, ice, 173s > red 173s stars object with 4 dimensions and 4 attributes 173s attribute(s): 173s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 173s sst [degree_Celsius] -1.80 -0.03 13.655 12.9940841 24.8125 32.97 4448 173s anom [degree_Celsius] -10.16 -0.58 -0.080 -0.1855812 0.2100 2.99 4448 173s err [degree_Celsius] 0.11 0.16 0.270 0.2626872 0.3200 0.84 4448 173s ice [percent] 0.01 0.47 0.920 0.7178118 0.9600 1.00 13266 173s dimension(s): 173s from to offset delta refsys x/y 173s x 1 180 -1 2 NA [x] 173s y 1 90 90 -2 NA [y] 173s zlev 1 1 0 [m] NA NA 173s time 1 1 1981-12-31 UTC NA POSIXct 173s > plot(red) 173s > 173s > x = st_xy2sfc(read_stars(tif)[,1:10,1:10,], as_points = FALSE) 173s > st_bbox(x) 173s xmin ymin xmax ymax 173s 288776.3 9120475.8 289061.3 9120760.8 173s > x = read_stars(tif) 173s > merge(split(x, "band")) 173s stars object with 3 dimensions and 1 attribute 173s attribute(s): 174s Min. 1st Qu. Median Mean 3rd Qu. Max. 174s X1.X2.X3.X4.X5.X6 1 54 69 68.91242 86 255 174s dimension(s): 174s from to offset delta refsys point values 174s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL 174s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL 174s attributes 1 6 NA NA NA NA X1,...,X6 174s x/y 174s x [x] 174s y [y] 174s attributes 174s > 174s > read_stars(c(tif,tif)) # merges as attributes 174s stars object with 3 dimensions and 2 attributes 174s attribute(s): 174s Min. 1st Qu. Median Mean 3rd Qu. Max. 174s L7_ETMs.tif 1 54 69 68.91242 86 255 174s L7_ETMs.tif.1 1 54 69 68.91242 86 255 174s dimension(s): 174s from to offset delta refsys point x/y 174s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 174s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 174s band 1 6 NA NA NA NA 174s > read_stars(c(tif,tif), along = "sensor") 174s stars object with 4 dimensions and 1 attribute 174s attribute(s), summary of first 1e+05 cells: 174s Min. 1st Qu. Median Mean 3rd Qu. Max. 174s L7_ETMs.tif 47 65 76 77.3419 87 255 174s dimension(s): 174s from to offset delta refsys point x/y 174s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 174s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 174s band 1 6 NA NA NA NA 174s sensor 1 2 NA NA NA NA 174s > read_stars(c(tif,tif), along = 4) 174s stars object with 4 dimensions and 1 attribute 174s attribute(s), summary of first 1e+05 cells: 174s Min. 1st Qu. Median Mean 3rd Qu. Max. 174s L7_ETMs.tif 47 65 76 77.3419 87 255 174s dimension(s): 174s from to offset delta refsys point x/y 174s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 174s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 174s band 1 6 NA NA NA NA 174s new_dim 1 2 NA NA NA NA 174s > read_stars(c(tif,tif), along = "band") 174s stars object with 3 dimensions and 1 attribute 174s attribute(s), summary of first 1e+05 cells: 174s Min. 1st Qu. Median Mean 3rd Qu. Max. 174s L7_ETMs.tif 47 65 76 77.3419 87 255 174s dimension(s): 174s from to offset delta refsys point x/y 174s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 174s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 174s band 1 12 NA NA NA NA 174s > read_stars(c(tif,tif), along = 3) 175s stars object with 3 dimensions and 1 attribute 175s attribute(s), summary of first 1e+05 cells: 175s Min. 1st Qu. Median Mean 3rd Qu. Max. 175s L7_ETMs.tif 47 65 76 77.3419 87 255 175s dimension(s): 175s from to offset delta refsys point x/y 175s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 175s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 175s band 1 12 NA NA NA NA 175s > 175s > # cut: 175s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 175s > x = read_stars(tif) 175s > cut(x, c(0, 50, 100, 255)) 175s stars object with 3 dimensions and 1 attribute 175s attribute(s): 175s L7_ETMs.tif 175s (0,50] :156060 175s (50,100] :503764 175s (100,255]: 77264 175s dimension(s): 175s from to offset delta refsys point x/y 175s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 175s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 175s band 1 6 NA NA NA NA 175s > cut(x[,,,1,drop=TRUE], c(0, 50, 100, 255)) 175s stars object with 2 dimensions and 1 attribute 175s attribute(s): 175s L7_ETMs.tif 175s (0,50] : 1 175s (50,100] :117134 175s (100,255]: 5713 175s dimension(s): 175s from to offset delta refsys point x/y 175s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 175s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 175s > plot(cut(x[,,,1,drop=TRUE], c(0, 50, 100, 255))) 175s > 175s > st_bbox(st_dimensions(x)) 175s xmin ymin xmax ymax 175s 288776.3 9110728.8 298722.8 9120760.8 175s > x[x < 0] = NA 175s > x[is.na(x)] = 0 175s > 175s > # c: 175s > f = system.file("netcdf/avhrr-only-v2.19810902.nc", package = "starsdata") 175s > if (FALSE && f != "") { 175s + files = c("avhrr-only-v2.19810901.nc", 175s + "avhrr-only-v2.19810902.nc", 175s + "avhrr-only-v2.19810903.nc", 175s + "avhrr-only-v2.19810904.nc", 175s + "avhrr-only-v2.19810905.nc", 175s + "avhrr-only-v2.19810906.nc", 175s + "avhrr-only-v2.19810907.nc", 175s + "avhrr-only-v2.19810908.nc", 175s + "avhrr-only-v2.19810909.nc") 175s + l = list() 175s + for (f in files) { 175s + from = system.file(paste0("netcdf/", f), package = "starsdata") 175s + l[[f]] = read_stars(from, sub = c("sst", "anom")) 175s + } 175s + ret = do.call(c, l) 175s + print(ret) 175s + ret = adrop(c(l[[1]], l[[2]], l[[3]], along = list(times = as.Date("1981-09-01") + 0:2))) 175s + print(ret) 175s + #ret = adrop(adrop(c(l[[1]], l[[2]], l[[3]], along = "times"))) 175s + #print(ret) 175s + } 175s > 175s > st_dimensions(list(matrix(1, 4, 4))) # st_dimensions.default 175s from to point values 175s X1 1 1 FALSE 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 175s > 175s > if (FALSE && require("starsdata", quietly = TRUE)) { 175s + # curvilinear: 175s + s5p = system.file( 175s + "sentinel5p/S5P_NRTI_L2__NO2____20180717T120113_20180717T120613_03932_01_010002_20180717T125231.nc", 175s + package = "starsdata") 175s + print(s5p) 175s + lat_ds = paste0("HDF5:\"", s5p, "\"://PRODUCT/latitude") 175s + lon_ds = paste0("HDF5:\"", s5p, "\"://PRODUCT/longitude") 175s + nit_ds = paste0("HDF5:\"", s5p, "\"://PRODUCT/SUPPORT_DATA/DETAILED_RESULTS/nitrogendioxide_summed_total_column") 175s + lat = read_stars(lat_ds) 175s + lon = read_stars(lon_ds) 175s + nit = read_stars(nit_ds) 175s + nit[[1]][nit[[1]] > 9e+36] = NA 175s + 175s + ll = setNames(c(lon, lat), c("x", "y")) 175s + nit.c = st_as_stars(nit, curvilinear = ll) 175s + print(nit.c) 175s + 175s + s5p = system.file( 175s + "sentinel5p/S5P_NRTI_L2__NO2____20180717T120113_20180717T120613_03932_01_010002_20180717T125231.nc", 175s + package = "starsdata") 175s + nit.c2 = read_stars(s5p, 175s + sub = "//PRODUCT/SUPPORT_DATA/DETAILED_RESULTS/nitrogendioxide_summed_total_column", 175s + curvilinear = c("//PRODUCT/latitude", "//PRODUCT/longitude")) 175s + print(all.equal(nit.c, nit.c2)) 175s + } 175s > 175s BEGIN TEST subset.R 175s 175s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 175s Copyright (C) 2024 The R Foundation for Statistical Computing 175s Platform: x86_64-pc-linux-gnu 175s 175s R is free software and comes with ABSOLUTELY NO WARRANTY. 175s You are welcome to redistribute it under certain conditions. 175s Type 'license()' or 'licence()' for distribution details. 175s 175s R is a collaborative project with many contributors. 175s Type 'contributors()' for more information and 175s 'citation()' on how to cite R or R packages in publications. 175s 175s Type 'demo()' for some demos, 'help()' for on-line help, or 175s 'help.start()' for an HTML browser interface to help. 175s Type 'q()' to quit R. 175s 175s > suppressPackageStartupMessages(library(stars)) 175s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 175s > x = read_stars(tif) 175s > y = st_set_dimensions(x, "band", point = TRUE) 175s > y[,1:10, 1:10, c(1,4,3,2)] 175s stars object with 3 dimensions and 1 attribute 175s attribute(s): 175s Min. 1st Qu. Median Mean 3rd Qu. Max. 175s L7_ETMs.tif 25 45 57 56.535 64 97 175s dimension(s): 175s from to offset delta refsys point values x/y 175s x 1 10 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [x] 175s y 1 10 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [y] 175s band 1 4 NA NA NA TRUE 1,...,2 175s > y = st_set_dimensions(x, "band", point = NA) 175s > y[,1:10, 1:10, c(1,4,3,2)] 176s stars object with 3 dimensions and 1 attribute 176s attribute(s): 176s Min. 1st Qu. Median Mean 3rd Qu. Max. 176s L7_ETMs.tif 25 45 57 56.535 64 97 176s dimension(s): 176s from to offset delta refsys point values x/y 176s x 1 10 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [x] 176s y 1 10 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [y] 176s band 1 4 NA NA NA NA [1,2),...,[2,3) 176s > y = st_set_dimensions(x, "band", point = FALSE) 176s > y[,1:10, 1:10, c(1,4,3,2)] 176s stars object with 3 dimensions and 1 attribute 176s attribute(s): 176s Min. 1st Qu. Median Mean 3rd Qu. Max. 176s L7_ETMs.tif 25 45 57 56.535 64 97 176s dimension(s): 176s from to offset delta refsys point values x/y 176s x 1 10 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [x] 176s y 1 10 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [y] 176s band 1 4 NA NA NA FALSE [1,2),...,[2,3) 176s > y = st_set_dimensions(x, "band", values = letters[1:6]) 176s > y[,1:10, 1:10, c(1,4,3,2)] 176s stars object with 3 dimensions and 1 attribute 176s attribute(s): 176s Min. 1st Qu. Median Mean 3rd Qu. Max. 176s L7_ETMs.tif 25 45 57 56.535 64 97 176s dimension(s): 176s from to offset delta refsys point values x/y 176s x 1 10 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [x] 176s y 1 10 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [y] 176s band 1 4 NA NA NA NA a,...,b 176s > y = st_set_dimensions(x, "band", values = letters[1:6], point = NA) 176s > y[,1:10, 1:10, c(1,4,3,2)] 176s stars object with 3 dimensions and 1 attribute 176s attribute(s): 176s Min. 1st Qu. Median Mean 3rd Qu. Max. 176s L7_ETMs.tif 25 45 57 56.535 64 97 176s dimension(s): 176s from to offset delta refsys point values x/y 176s x 1 10 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [x] 176s y 1 10 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [y] 176s band 1 4 NA NA NA NA a,...,b 176s > y = st_set_dimensions(x, "band", values = letters[1:6], point = TRUE) 176s > y[,1:10, 1:10, c(1,4,3,2)] 176s stars object with 3 dimensions and 1 attribute 176s attribute(s): 176s Min. 1st Qu. Median Mean 3rd Qu. Max. 176s L7_ETMs.tif 25 45 57 56.535 64 97 176s dimension(s): 176s from to offset delta refsys point values x/y 176s x 1 10 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [x] 176s y 1 10 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE NULL [y] 176s band 1 4 NA NA NA TRUE a,...,b 176s > 176s BEGIN TEST testthat.R 176s 176s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 176s Copyright (C) 2024 The R Foundation for Statistical Computing 176s Platform: x86_64-pc-linux-gnu 176s 176s R is free software and comes with ABSOLUTELY NO WARRANTY. 176s You are welcome to redistribute it under certain conditions. 176s Type 'license()' or 'licence()' for distribution details. 176s 176s R is a collaborative project with many contributors. 176s Type 'contributors()' for more information and 176s 'citation()' on how to cite R or R packages in publications. 176s 176s Type 'demo()' for some demos, 'help()' for on-line help, or 176s 'help.start()' for an HTML browser interface to help. 176s Type 'q()' to quit R. 176s 176s > ## load dependencies 176s > library(testthat) 176s > suppressPackageStartupMessages(library(stars)) 176s > 176s > ## test package 176s > test_check("stars") 181s [ FAIL 0 | WARN 0 | SKIP 5 | PASS 69 ] 181s 181s == Skipped tests (5) =========================================================== 182s * On CRAN (4): 'test_ncdf.R:1:1', 'test_ncproxy.R:1:1', 'test_osm.R:4:3', 182s 'test_rectilinear.R:89:3' 182s * cubble cannot be loaded (1): 'test_cubble.R:2:3' 182s 182s [ FAIL 0 | WARN 0 | SKIP 5 | PASS 69 ] 182s > 182s BEGIN TEST tidy.R 182s 182s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 182s Copyright (C) 2024 The R Foundation for Statistical Computing 182s Platform: x86_64-pc-linux-gnu 182s 182s R is free software and comes with ABSOLUTELY NO WARRANTY. 182s You are welcome to redistribute it under certain conditions. 182s Type 'license()' or 'licence()' for distribution details. 182s 182s R is a collaborative project with many contributors. 182s Type 'contributors()' for more information and 182s 'citation()' on how to cite R or R packages in publications. 182s 182s Type 'demo()' for some demos, 'help()' for on-line help, or 182s 'help.start()' for an HTML browser interface to help. 182s Type 'q()' to quit R. 182s 182s > suppressPackageStartupMessages(library(stars)) 182s > 182s > if (require(dplyr, quietly = TRUE)) { 182s + tif = system.file("tif/L7_ETMs.tif", package = "stars") 182s + x <- read_stars(tif) 182s + (y <- x %>% select(L7_ETMs.tif)) 182s + (y <- x %>% filter(band > 2)) 182s + (z <- x %>% mutate(foo = 2* L7_ETMs.tif)) 182s + x %>% pull(L7_ETMs.tif) %>% class() 182s + x %>% filter(x > 289900) 182s + x %>% slice("x", 50:100) 182s + 182s + suppressPackageStartupMessages(library(ggplot2)) 182s + ggplot() + geom_stars(data = x) + coord_equal() + facet_wrap(~band) 182s + ggplot() + geom_stars(data = x[,c(1:50,52:100),c(1:45, 50:60)]) + 182s + coord_equal() 182s + ggplot() + geom_stars(data = x[,1:10,1:10,1:2], sf = TRUE) + facet_wrap(~band) 182s + 182s + 182s + # see https://github.com/r-spatial/stars/issues/539 : 182s + x <- read_stars(system.file("tif/L7_ETMs.tif", package = "stars")) 182s + y <- transmute(x, L7_ETMs.tif = units::set_units(L7_ETMs.tif, degree_C)) # same as x but with units 182s + 182s + x - slice(x, 'band', 1) # runs as expected, recycling the second object 182s + try(y - slice(x, 'band', 1)) # fails as expected because x is unitless 182s + try(x - slice(y, 'band', 1)) # fails as expected 182s + y - slice(y, 'band', 1) # runs as expected 182s + } 182s 182s Attaching package: 'dplyr' 182s 182s The following objects are masked from 'package:stats': 182s 182s filter, lag 182s 182s The following objects are masked from 'package:base': 182s 182s intersect, setdiff, setequal, union 182s 183s Error in Ops.units(X[[i]], ...) : 183s both operands of the expression should be "units" objects 183s Error in Ops.units(X[[i]], ...) : 183s both operands of the expression should be "units" objects 183s stars object with 3 dimensions and 1 attribute 183s attribute(s): 183s Min. 1st Qu. Median Mean 3rd Qu. Max. 183s L7_ETMs.tif [degree_Celsius] -184 -19 -8 -10.2353 0 131 183s dimension(s): 183s from to offset delta refsys point x/y 183s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 183s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 183s band 1 6 NA NA NA NA 183s > 183s BEGIN TEST transform.R 183s 183s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 183s Copyright (C) 2024 The R Foundation for Statistical Computing 183s Platform: x86_64-pc-linux-gnu 183s 183s R is free software and comes with ABSOLUTELY NO WARRANTY. 183s You are welcome to redistribute it under certain conditions. 183s Type 'license()' or 'licence()' for distribution details. 183s 183s R is a collaborative project with many contributors. 183s Type 'contributors()' for more information and 183s 'citation()' on how to cite R or R packages in publications. 183s 183s Type 'demo()' for some demos, 'help()' for on-line help, or 183s 'help.start()' for an HTML browser interface to help. 183s Type 'q()' to quit R. 183s 183s > suppressPackageStartupMessages(library(stars)) 184s > suppressPackageStartupMessages(library(lwgeom)) 184s > geomatrix = system.file("tif/geomatrix.tif", package = "stars") 184s > (x = read_stars(geomatrix)) 184s stars object with 2 dimensions and 1 attribute 184s attribute(s): 184s Min. 1st Qu. Median Mean 3rd Qu. Max. 184s geomatrix.tif 74 107 123 126.765 132 255 184s dimension(s): 184s from to offset delta refsys point x/y 184s x 1 20 1841002 1.5 WGS 84 / UTM zone 11N TRUE [x] 184s y 1 20 1144003 -1.5 WGS 84 / UTM zone 11N TRUE [y] 184s sheared raster with parameters: -5 -5 184s > new = st_crs(4326) 184s > y = st_transform(x, new) 184s > plot(st_transform(st_as_sfc(st_bbox(x)), new), col = NA, border = 'red') 184s > plot(st_as_sfc(y, as_points=FALSE), col = NA, border = 'green', axes = TRUE, add = TRUE) 184s > image(y, add = TRUE) 184s > plot(st_as_sfc(y, as_points=TRUE), pch=3, cex=.5, col = 'blue', add = TRUE) 184s > plot(st_transform(st_as_sfc(x, as_points=FALSE), new), add = TRUE) 184s > 184s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 184s > x = read_stars(tif)[,1:10,1:10,1:3] 184s > x_ = st_transform(x, st_crs(4326)) 184s > x__ = st_transform_proj(x, st_crs(4326)$proj4string) 184s > st_crs(x_) = st_crs(x__) 184s > all.equal(x_,x__) 184s [1] TRUE 184s > 184s > # x__ = st_transform(x, x_) #now in st_warp 184s > # all.equal(x_, x__) 184s > 184s > x = st_xy2sfc(x, as_points = FALSE) 184s > (x_ = st_transform(x, st_crs(4326))) 184s stars object with 2 dimensions and 1 attribute 184s attribute(s): 184s Min. 1st Qu. Median Mean 3rd Qu. Max. 184s L7_ETMs.tif 25 43 51 50.72 60 74 184s dimension(s): 184s from to refsys point 184s geometry 1 100 WGS 84 FALSE 184s band 1 3 NA NA 184s values 184s geometry POLYGON ((-34.91617 -7.94...,...,POLYGON ((-34.91385 -7.95... 184s band NULL 184s > (x__ = st_transform_proj(x, st_crs(4326))) 184s stars object with 2 dimensions and 1 attribute 184s attribute(s): 184s Min. 1st Qu. Median Mean 3rd Qu. Max. 184s L7_ETMs.tif 25 43 51 50.72 60 74 184s dimension(s): 184s from to refsys point 184s geometry 1 100 WGS 84 FALSE 184s band 1 3 NA NA 184s values 184s geometry POLYGON ((-34.91617 -7.94...,...,POLYGON ((-34.91385 -7.95... 184s band NULL 184s > all.equal(x_,x__,check.attributes = FALSE) 184s [1] TRUE 184s Error in st_transform.stars(st_as_stars(list(matrix(1, 10, 10))), st_crs(4326)) : 184s !is.na(st_crs(x)) is not TRUE 184s Error in st_transform_proj.stars(st_as_stars(list(matrix(1, 10, 10))), : 184s !is.na(st_crs(x)) is not TRUE 184s > 184s > # nothing to transform: now errs: 184s > try(st_transform(st_as_stars(list(matrix(1,10,10))), st_crs(4326))) 184s > try(st_transform_proj(st_as_stars(list(matrix(1,10,10))), st_crs(4326))) 184s > 184s BEGIN TEST warp.R 184s 184s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 184s Copyright (C) 2024 The R Foundation for Statistical Computing 184s Platform: x86_64-pc-linux-gnu 184s 184s R is free software and comes with ABSOLUTELY NO WARRANTY. 184s You are welcome to redistribute it under certain conditions. 184s Type 'license()' or 'licence()' for distribution details. 184s 184s R is a collaborative project with many contributors. 184s Type 'contributors()' for more information and 184s 'citation()' on how to cite R or R packages in publications. 184s 184s Type 'demo()' for some demos, 'help()' for on-line help, or 184s 'help.start()' for an HTML browser interface to help. 184s Type 'q()' to quit R. 184s 184s > suppressPackageStartupMessages(library(stars)) 184s > geomatrix = system.file("tif/geomatrix.tif", package = "stars") 184s > x = read_stars(geomatrix) 184s > # can stars reproduce what gdal does, by default? 184s > x2 = st_warp(x, use_gdal = TRUE, no_data_value = -9999) 184s > y = st_warp(x, x2) 184s > if (interactive()) { plot(x2, breaks = "equal", axes=TRUE) } 184s > if (interactive()) { plot(y, breaks = "equal", axes=TRUE) } 184s > names(x2) = names(y) 184s > all.equal(x2, y) # yes? 184s [1] TRUE 184s > 184s > # does gdal reproduce with stars template object? 184s > (x2 = setNames(st_warp(x, y, use_gdal = TRUE, no_data_value=-1), "file.tif")) 185s stars object with 2 dimensions and 1 attribute 185s attribute(s): 185s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 185s file.tif 74 115 123 126.4289 132 255 224 185s dimension(s): 185s from to offset delta refsys point x/y 185s x 1 25 1840902 5.22 WGS 84 / UTM zone 11N FALSE [x] 185s y 1 25 1144003 -5.22 WGS 84 / UTM zone 11N FALSE [y] 185s > 185s > # does gdal reproduce what stars does, default cell size? 185s > (x2 = st_warp(x, crs = st_crs(x), use_gdal = FALSE)) 185s stars object with 2 dimensions and 1 attribute 185s attribute(s): 185s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 185s geomatrix.tif 74 115 123 126.4289 132 255 224 185s dimension(s): 185s from to offset delta refsys x/y 185s x 1 25 1840902 5.22 WGS 84 / UTM zone 11N [x] 185s y 1 25 1144003 -5.22 WGS 84 / UTM zone 11N [y] 185s > (y = setNames(st_warp(x, x2, use_gdal = TRUE, debug = FALSE, no_data_value=-1), "file.tif")) 185s stars object with 2 dimensions and 1 attribute 185s attribute(s): 185s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 185s file.tif 74 115 123 126.4289 132 255 224 185s dimension(s): 185s from to offset delta refsys point x/y 185s x 1 25 1840902 5.22 WGS 84 / UTM zone 11N FALSE [x] 185s y 1 25 1144003 -5.22 WGS 84 / UTM zone 11N FALSE [y] 185s > 185s > # try with multiple bands: 185s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 185s > (x1 = read_stars(tif)) 185s stars object with 3 dimensions and 1 attribute 185s attribute(s): 185s Min. 1st Qu. Median Mean 3rd Qu. Max. 185s L7_ETMs.tif 1 54 69 68.91242 86 255 185s dimension(s): 185s from to offset delta refsys point x/y 185s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 185s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 185s band 1 6 NA NA NA NA 185s > tifcp = tempfile(fileext = ".tif") 185s > file.copy(tif, tifcp) 185s [1] TRUE 185s > x1p = read_stars(tifcp, proxy = TRUE) 185s > st_dimensions(x1p) 185s from to offset delta refsys point x/y 185s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 185s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 185s band 1 6 NA NA NA NA 185s > (x1a = st_warp(x1, crs = st_crs(4326))) 185s stars object with 3 dimensions and 1 attribute 185s attribute(s): 185s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 185s L7_ETMs.tif 1 54 69 68.93072 86 255 8778 185s dimension(s): 185s from to offset delta refsys x/y 185s x 1 350 -34.92 0.0002592 WGS 84 [x] 185s y 1 352 -7.95 -0.0002592 WGS 84 [y] 185s band 1 6 NA NA NA 185s > (x1b = setNames(st_warp(x1, x1p, use_gdal = TRUE, no_data_value=-1), "file.tif")) 185s stars object with 3 dimensions and 1 attribute 185s attribute(s): 185s Min. 1st Qu. Median Mean 3rd Qu. Max. 185s file.tif 1 54 69 68.91242 86 255 185s dimension(s): 185s from to offset delta refsys point x/y 185s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 185s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 185s band 1 6 NA NA NA NA 185s > 185s > # does gdal reproduce what stars does? Smaller grid: 185s > (x2 = st_warp(x, crs = st_crs(x), use_gdal = FALSE, cellsize = 3)) 185s stars object with 2 dimensions and 1 attribute 185s attribute(s): 185s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 185s geomatrix.tif 74 107 123 126.6857 132 255 727 185s dimension(s): 185s from to offset delta refsys x/y 185s x 1 44 1840902 3 WGS 84 / UTM zone 11N [x] 185s y 1 44 1144003 -3 WGS 84 / UTM zone 11N [y] 185s > # x2 = x2[,2:43,2:43] 185s > if (interactive()) { plot(x2, breaks = "equal", axes=TRUE, reset = FALSE) } 185s > if (interactive()) { plot(st_as_sfc(st_bbox(x2)), add = TRUE, col = NA, border = 'red') } 185s > ### doesn't work: FIXME: check with more recent GDAL: 185s > (y = setNames(st_warp(x, x2, use_gdal = TRUE, debug = FALSE, no_data_value=-1), "file.tif")) 185s stars object with 2 dimensions and 1 attribute 185s attribute(s): 185s Min. 1st Qu. Median Mean 3rd Qu. Max. NA's 185s file.tif 74 107 123 126.6584 132 255 727 185s dimension(s): 185s from to offset delta refsys point x/y 185s x 1 44 1840902 3 WGS 84 / UTM zone 11N FALSE [x] 185s y 1 44 1144003 -3 WGS 84 / UTM zone 11N FALSE [y] 185s > if (interactive()) { plot(y, breaks = "equal") } 185s > names(x2) = names(y) 185s > # isTRUE(all.equal(x2, y, check.attributes=FALSE)) 185s > mean(as.vector(x2[[1]]==y[[1]]), na.rm = TRUE) 185s [1] 0.9958644 185s > unique(as.vector(x2[[1]]-y[[1]])) 185s [1] NA 0 -33 -25 25 49 17 185s > 185s > g = st_as_stars() 185s > attr(g, "dimensions")$x$offset = 0 185s > g$values = as.vector(t(matrix(seq_len(prod(dim(g))), 180, 360))) 185s > if (interactive()) { plot(g, axes=TRUE) } 185s > a = st_warp(g, st_as_stars(), use_gdal=FALSE) 185s > b = st_warp(g, st_as_stars(), use_gdal=TRUE, no_data_value = -1) 185s > all.equal(a, b, check.attributes = FALSE) 185s [1] TRUE 185s > 185s BEGIN TEST write.R 185s 185s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 185s Copyright (C) 2024 The R Foundation for Statistical Computing 185s Platform: x86_64-pc-linux-gnu 185s 185s R is free software and comes with ABSOLUTELY NO WARRANTY. 185s You are welcome to redistribute it under certain conditions. 185s Type 'license()' or 'licence()' for distribution details. 185s 185s R is a collaborative project with many contributors. 185s Type 'contributors()' for more information and 185s 'citation()' on how to cite R or R packages in publications. 185s 185s Type 'demo()' for some demos, 'help()' for on-line help, or 185s 'help.start()' for an HTML browser interface to help. 185s Type 'q()' to quit R. 185s 185s > suppressPackageStartupMessages(library(stars)) 186s > 186s > tif = system.file("tif/L7_ETMs.tif", package = "stars") 186s > (x = read_stars(tif)) 186s stars object with 3 dimensions and 1 attribute 186s attribute(s): 186s Min. 1st Qu. Median Mean 3rd Qu. Max. 186s L7_ETMs.tif 1 54 69 68.91242 86 255 186s dimension(s): 186s from to offset delta refsys point x/y 186s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 186s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 186s band 1 6 NA NA NA NA 186s > 186s > # write stars object: 186s > write_stars(x, tempfile(), driver = "GTiff") 186s > 186s > # write stars_proxy object: 186s > (x = read_stars(tif, proxy = TRUE)) 186s stars_proxy object with 1 attribute in 1 file(s): 186s $L7_ETMs.tif 186s [1] "[...]/L7_ETMs.tif" 186s 186s dimension(s): 186s from to offset delta refsys point x/y 186s x 1 349 288776 28.5 SIRGAS 2000 / UTM zone 25S FALSE [x] 186s y 1 352 9120761 -28.5 SIRGAS 2000 / UTM zone 25S FALSE [y] 186s band 1 6 NA NA NA NA 186s > write_stars(x, tempfile(), driver = "GTiff") 186s 186s > 187s autopkgtest [10:41:52]: test run-unit-test: -----------------------] 187s autopkgtest [10:41:52]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 187s run-unit-test PASS 187s autopkgtest [10:41:52]: test pkg-r-autopkgtest: preparing testbed 341s autopkgtest [10:44:26]: testbed dpkg architecture: amd64 342s autopkgtest [10:44:27]: testbed apt version: 2.9.3 342s autopkgtest [10:44:27]: @@@@@@@@@@@@@@@@@@@@ test bed setup 342s Get:1 http://ftpmaster.internal/ubuntu oracular-proposed InRelease [73.9 kB] 342s Get:2 http://ftpmaster.internal/ubuntu oracular-proposed/main Sources [57.4 kB] 342s Get:3 http://ftpmaster.internal/ubuntu oracular-proposed/universe Sources [524 kB] 342s Get:4 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse Sources [3388 B] 342s Get:5 http://ftpmaster.internal/ubuntu oracular-proposed/restricted Sources [1964 B] 342s Get:6 http://ftpmaster.internal/ubuntu oracular-proposed/main amd64 Packages [179 kB] 342s Get:7 http://ftpmaster.internal/ubuntu oracular-proposed/main i386 Packages [140 kB] 342s Get:8 http://ftpmaster.internal/ubuntu oracular-proposed/restricted amd64 Packages [7700 B] 342s Get:9 http://ftpmaster.internal/ubuntu oracular-proposed/universe i386 Packages [198 kB] 342s Get:10 http://ftpmaster.internal/ubuntu oracular-proposed/universe amd64 Packages [545 kB] 342s Get:11 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse amd64 Packages [2536 B] 342s Get:12 http://ftpmaster.internal/ubuntu oracular-proposed/multiverse i386 Packages [1392 B] 342s Fetched 1734 kB in 0s (4801 kB/s) 342s Reading package lists... 344s Reading package lists... 344s Building dependency tree... 344s Reading state information... 344s Calculating upgrade... 345s The following packages will be upgraded: 345s libclang-cpp18 libclang1-18 libllvm18 345s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 345s Need to get 48.8 MB of archives. 345s After this operation, 726 kB of additional disk space will be used. 345s Get:1 http://ftpmaster.internal/ubuntu oracular/main amd64 libclang-cpp18 amd64 1:18.1.6-1 [13.5 MB] 345s Get:2 http://ftpmaster.internal/ubuntu oracular/main amd64 libllvm18 amd64 1:18.1.6-1 [27.5 MB] 345s Get:3 http://ftpmaster.internal/ubuntu oracular/main amd64 libclang1-18 amd64 1:18.1.6-1 [7804 kB] 345s Fetched 48.8 MB in 0s (114 MB/s) 346s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 74358 files and directories currently installed.) 346s Preparing to unpack .../libclang-cpp18_1%3a18.1.6-1_amd64.deb ... 346s Unpacking libclang-cpp18 (1:18.1.6-1) over (1:18.1.3-1) ... 346s Preparing to unpack .../libllvm18_1%3a18.1.6-1_amd64.deb ... 346s Unpacking libllvm18:amd64 (1:18.1.6-1) over (1:18.1.3-1) ... 347s Preparing to unpack .../libclang1-18_1%3a18.1.6-1_amd64.deb ... 347s Unpacking libclang1-18 (1:18.1.6-1) over (1:18.1.3-1) ... 347s 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to remove and 0 not upgraded. 353s Reading package lists... 353s Building dependency tree... 353s Reading state information... 353s Starting pkgProblemResolver with broken count: 0 353s Starting 2 pkgProblemResolver with broken count: 0 353s Done 354s The following additional packages will be installed: 354s build-essential cpp cpp-13 cpp-13-x86-64-linux-gnu cpp-x86-64-linux-gnu 354s dctrl-tools fontconfig fonts-font-awesome fonts-glyphicons-halflings 354s fonts-mathjax g++ g++-13 g++-13-x86-64-linux-gnu g++-x86-64-linux-gnu gcc 354s gcc-13 gcc-13-base gcc-13-x86-64-linux-gnu gcc-x86-64-linux-gnu gdal-data 354s gdal-plugins gfortran gfortran-13 gfortran-13-x86-64-linux-gnu 354s gfortran-x86-64-linux-gnu icu-devtools javascript-common libaec0 354s libarmadillo12 libarpack2t64 libasan8 libatomic1 libblas-dev libblas3 354s libblosc1 libbz2-dev libcairo2 libcc1-0 libcfitsio10t64 libdatrie1 354s libdeflate-dev libfreexl1 libfyba0t64 libgcc-13-dev libgdal34t64 354s libgeos-c1t64 libgeos3.12.1t64 libgeotiff5 libgfortran-13-dev libgfortran5 354s libgif7 libgomp1 libgraphite2-3 libharfbuzz0b libhdf4-0-alt libhdf5-103-1t64 354s libhdf5-hl-100t64 libhwasan0 libice6 libicu-dev libisl23 libitm1 libjpeg-dev 354s libjpeg-turbo8-dev libjpeg8-dev libjs-bootstrap libjs-bootstrap4 libjs-d3 354s libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables 354s libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-mathjax 354s libjs-microplugin.js libjs-modernizr libjs-popper.js libjs-prettify 354s libjs-sifter.js libjs-twitter-bootstrap-datepicker libkmlbase1t64 354s libkmldom1t64 libkmlengine1t64 liblapack-dev liblapack3 liblcms2-2 liblsan0 354s libltdl7 liblua5.4-0 liblzma-dev libminizip1t64 libmpc3 libmysqlclient21 354s libncurses-dev libnetcdf19t64 libodbc2 libodbcinst2 libogdi4.1 libopenjp2-7 354s libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils 354s libpaper1 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3 354s libpixman-1-0 libpkgconf3 libpng-dev libpoppler134 libpq5 libproj25 354s libqhull-r8.0 libquadmath0 libreadline-dev librttopo1 libsm6 libsnappy1v5 354s libspatialite8t64 libstdc++-13-dev libsuperlu6 libsz2 libtcl8.6 libthai-data 354s libthai0 libtirpc-dev libtk8.6 libtsan2 libubsan1 libudunits2-0 354s libudunits2-data liburiparser1 libxcb-render0 libxcb-shm0 libxerces-c3.2t64 354s libxft2 libxrender1 libxss1 libxt6t64 littler mysql-common 354s node-bootstrap-sass node-html5shiv node-normalize.css pandoc pandoc-data 354s pkg-r-autopkgtest pkgconf pkgconf-bin proj-data r-base-core r-base-dev 354s r-cran-abind r-cran-areal r-cran-askpass r-cran-base64enc r-cran-bdsmatrix 354s r-cran-brio r-cran-bslib r-cran-cachem r-cran-cairo r-cran-callr 354s r-cran-class r-cran-classint r-cran-cli r-cran-clue r-cran-cluster 354s r-cran-codetools r-cran-collapse r-cran-colorspace r-cran-commonmark 354s r-cran-covr r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-dbi r-cran-deldir 354s r-cran-desc r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-e1071 354s r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-fnn 354s r-cran-fontawesome r-cran-formula r-cran-fs r-cran-future 354s r-cran-future.apply r-cran-generics r-cran-ggforce r-cran-ggplot2 354s r-cran-ggthemes r-cran-globals r-cran-glue r-cran-goftest r-cran-gridextra 354s r-cran-gtable r-cran-highr r-cran-htmltools r-cran-httpuv r-cran-httr 354s r-cran-intervals r-cran-isoband r-cran-jquerylib r-cran-jsonlite 354s r-cran-kernsmooth r-cran-knitr r-cran-labeling r-cran-later r-cran-lattice 354s r-cran-lazyeval r-cran-lifecycle r-cran-listenv r-cran-littler r-cran-lmtest 354s r-cran-lwgeom r-cran-magrittr r-cran-mapdata r-cran-maps r-cran-mass 354s r-cran-matrix r-cran-maxlik r-cran-memoise r-cran-mgcv r-cran-mime 354s r-cran-misctools r-cran-munsell r-cran-ncdfgeom r-cran-ncmeta r-cran-nlme 354s r-cran-openssl r-cran-parallelly r-cran-pbapply r-cran-pcict r-cran-pillar 354s r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plm 354s r-cran-polyclip r-cran-praise r-cran-processx r-cran-promises r-cran-proxy 354s r-cran-ps r-cran-purrr r-cran-r6 r-cran-randomforest r-cran-rappdirs 354s r-cran-raster r-cran-rbibutils r-cran-rcolorbrewer r-cran-rcpp 354s r-cran-rcppeigen r-cran-rdpack r-cran-rematch2 r-cran-rex r-cran-rlang 354s r-cran-rmarkdown r-cran-rnetcdf r-cran-rpart r-cran-rprojroot r-cran-s2 354s r-cran-sandwich r-cran-sass r-cran-scales r-cran-sf r-cran-shiny 354s r-cran-sourcetools r-cran-sp r-cran-spacetime r-cran-spatstat 354s r-cran-spatstat.data r-cran-spatstat.explore r-cran-spatstat.geom 354s r-cran-spatstat.linnet r-cran-spatstat.model r-cran-spatstat.random 354s r-cran-spatstat.sparse r-cran-spatstat.utils r-cran-stars r-cran-stringi 354s r-cran-stringr r-cran-survival r-cran-sys r-cran-systemfonts r-cran-tensor 354s r-cran-terra r-cran-testthat r-cran-tibble r-cran-tidyr r-cran-tidyselect 354s r-cran-tinytex r-cran-tweenr r-cran-units r-cran-utf8 r-cran-vctrs 354s r-cran-viridis r-cran-viridislite r-cran-waldo r-cran-withr r-cran-wk 354s r-cran-xfun r-cran-xtable r-cran-xts r-cran-yaml r-cran-zoo unixodbc-common 354s unzip x11-common xdg-utils zip zlib1g-dev 354s Suggested packages: 354s cpp-doc gcc-13-locales cpp-13-doc debtags g++-multilib g++-13-multilib 354s gcc-13-doc gcc-multilib manpages-dev autoconf automake libtool flex bison 354s gdb gcc-doc gcc-13-multilib gdb-x86-64-linux-gnu gfortran-multilib 354s gfortran-doc gfortran-13-multilib gfortran-13-doc libcoarrays-dev apache2 354s | lighttpd | httpd liblapack-doc geotiff-bin gdal-bin libgeotiff-epsg 354s libhdf4-alt-dev hdf4-tools icu-doc libjs-jquery-ui-docs fonts-mathjax-extras 354s fonts-stix libjs-mathjax-doc liblcms2-utils liblzma-doc ncurses-doc 354s odbc-postgresql tdsodbc ogdi-bin proj-bin readline-doc libstdc++-13-doc 354s tcl8.6 tk8.6 nodejs texlive-latex-recommended texlive-xetex texlive-luatex 354s pandoc-citeproc texlive-latex-extra context wkhtmltopdf librsvg2-bin groff 354s ghc php python ruby libjs-katex citation-style-language-styles elpa-ess 354s r-doc-info | r-doc-pdf r-mathlib r-base-html texlive-base texlive-latex-base 354s texlive-plain-generic texlive-fonts-recommended texlive-fonts-extra 354s texlive-extra-utils texinfo r-cran-png r-cran-lpsolve r-cran-quadprog 354s r-cran-kernlab r-cran-mvtnorm r-cran-vcd r-cran-shinyjs r-cran-jpeg 354s r-cran-rstudioapi r-cran-rmysql r-cran-sessioninfo r-cran-reshape2 354s r-cran-magick r-cran-getopt r-cran-mapproj r-cran-tinytest r-cran-bit64 354s r-cran-formattable r-cran-nanotime r-cran-palmerpenguins r-cran-vdiffr 354s r-cran-roxygen2 r-cran-inline r-cran-hmisc r-cran-rvest r-cran-spelling 354s r-cran-bench r-cran-blob r-cran-here r-cran-hms 354s Recommended packages: 354s bzip2-doc proj-bin node-jquery libpng-tools poppler-data r-recommended 354s r-doc-html r-cran-thematic r-cran-mockery r-cran-spelling r-cran-spdata 354s r-cran-tinytest r-cran-htmlwidgets r-cran-rstudioapi r-cran-whoami 354s r-cran-data.table r-cran-rcpparmadillo r-cran-xml2 r-cran-dt r-cran-bench 354s r-cran-decor r-cran-lobstr r-cran-progress r-cran-webutils r-cran-gh 354s r-cran-broom r-cran-dbplyr r-cran-rmysql r-cran-rpostgresql r-cran-rsqlite 354s r-cran-unitizer r-cran-rsvg r-cran-rhpcblasctl r-cran-r.rsp r-cran-markdown 354s r-cran-hexbin r-cran-hmisc r-cran-mapproj r-cran-multcomp r-cran-profvis 354s r-cran-quantreg r-cran-ragg r-cran-svglite r-cran-vdiffr r-cran-lintr 354s r-cran-pander r-cran-testit r-cran-jpeg r-cran-png r-cran-readr 354s r-cran-formatr r-cran-gridsvg r-cran-magick r-cran-reticulate r-cran-rgl 354s r-cran-tikzdevice r-cran-webshot node-highlight.js r-cran-tidyverse 354s r-cran-r.utils r-cran-geosphere r-cran-runit r-cran-pkgdown r-cran-zip 354s r-cran-ncdf4 r-cran-sodium r-cran-lubridate r-cran-bitops r-cran-mathjaxr 354s r-cran-mockr r-cran-remotes r-cran-aer r-cran-car r-cran-spdep 354s r-cran-statmod r-cran-urca r-cran-foreign r-cran-bookdown r-cran-webfakes 354s r-cran-cba r-cran-pingr r-cran-igraph r-cran-gstat r-cran-fields 354s r-cran-exactextractr r-cran-gbrd r-cran-usethis r-cran-dygraphs 354s r-cran-rsconnect r-cran-downlit r-cran-bit64 r-cran-dichromat r-cran-hms 354s r-cran-blob r-cran-nanoarrow r-cran-googlevis r-cran-isocodes r-cran-sftime 354s r-cran-sm r-cran-gsl r-cran-locfit r-cran-spatial r-cran-nleqslv 354s r-cran-glmnet r-cran-cubelyr r-cran-xml r-cran-formattable r-cran-zeallot 354s r-cran-renv r-cran-timeseries r-cran-timedate r-cran-tseries r-cran-chron 354s libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils 354s x11-xserver-utils 354s The following NEW packages will be installed: 354s autopkgtest-satdep build-essential cpp cpp-13 cpp-13-x86-64-linux-gnu 354s cpp-x86-64-linux-gnu dctrl-tools fontconfig fonts-font-awesome 354s fonts-glyphicons-halflings fonts-mathjax g++ g++-13 g++-13-x86-64-linux-gnu 354s g++-x86-64-linux-gnu gcc gcc-13 gcc-13-base gcc-13-x86-64-linux-gnu 354s gcc-x86-64-linux-gnu gdal-data gdal-plugins gfortran gfortran-13 354s gfortran-13-x86-64-linux-gnu gfortran-x86-64-linux-gnu icu-devtools 354s javascript-common libaec0 libarmadillo12 libarpack2t64 libasan8 libatomic1 354s libblas-dev libblas3 libblosc1 libbz2-dev libcairo2 libcc1-0 libcfitsio10t64 354s libdatrie1 libdeflate-dev libfreexl1 libfyba0t64 libgcc-13-dev libgdal34t64 354s libgeos-c1t64 libgeos3.12.1t64 libgeotiff5 libgfortran-13-dev libgfortran5 354s libgif7 libgomp1 libgraphite2-3 libharfbuzz0b libhdf4-0-alt libhdf5-103-1t64 354s libhdf5-hl-100t64 libhwasan0 libice6 libicu-dev libisl23 libitm1 libjpeg-dev 354s libjpeg-turbo8-dev libjpeg8-dev libjs-bootstrap libjs-bootstrap4 libjs-d3 354s libjs-es5-shim libjs-highlight.js libjs-jquery libjs-jquery-datatables 354s libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-mathjax 354s libjs-microplugin.js libjs-modernizr libjs-popper.js libjs-prettify 354s libjs-sifter.js libjs-twitter-bootstrap-datepicker libkmlbase1t64 354s libkmldom1t64 libkmlengine1t64 liblapack-dev liblapack3 liblcms2-2 liblsan0 354s libltdl7 liblua5.4-0 liblzma-dev libminizip1t64 libmpc3 libmysqlclient21 354s libncurses-dev libnetcdf19t64 libodbc2 libodbcinst2 libogdi4.1 libopenjp2-7 354s libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils 354s libpaper1 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3 354s libpixman-1-0 libpkgconf3 libpng-dev libpoppler134 libpq5 libproj25 354s libqhull-r8.0 libquadmath0 libreadline-dev librttopo1 libsm6 libsnappy1v5 354s libspatialite8t64 libstdc++-13-dev libsuperlu6 libsz2 libtcl8.6 libthai-data 354s libthai0 libtirpc-dev libtk8.6 libtsan2 libubsan1 libudunits2-0 354s libudunits2-data liburiparser1 libxcb-render0 libxcb-shm0 libxerces-c3.2t64 354s libxft2 libxrender1 libxss1 libxt6t64 littler mysql-common 354s node-bootstrap-sass node-html5shiv node-normalize.css pandoc pandoc-data 354s pkg-r-autopkgtest pkgconf pkgconf-bin proj-data r-base-core r-base-dev 354s r-cran-abind r-cran-areal r-cran-askpass r-cran-base64enc r-cran-bdsmatrix 354s r-cran-brio r-cran-bslib r-cran-cachem r-cran-cairo r-cran-callr 354s r-cran-class r-cran-classint r-cran-cli r-cran-clue r-cran-cluster 354s r-cran-codetools r-cran-collapse r-cran-colorspace r-cran-commonmark 354s r-cran-covr r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-dbi r-cran-deldir 354s r-cran-desc r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-e1071 354s r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-fnn 354s r-cran-fontawesome r-cran-formula r-cran-fs r-cran-future 354s r-cran-future.apply r-cran-generics r-cran-ggforce r-cran-ggplot2 354s r-cran-ggthemes r-cran-globals r-cran-glue r-cran-goftest r-cran-gridextra 354s r-cran-gtable r-cran-highr r-cran-htmltools r-cran-httpuv r-cran-httr 354s r-cran-intervals r-cran-isoband r-cran-jquerylib r-cran-jsonlite 354s r-cran-kernsmooth r-cran-knitr r-cran-labeling r-cran-later r-cran-lattice 354s r-cran-lazyeval r-cran-lifecycle r-cran-listenv r-cran-littler r-cran-lmtest 354s r-cran-lwgeom r-cran-magrittr r-cran-mapdata r-cran-maps r-cran-mass 354s r-cran-matrix r-cran-maxlik r-cran-memoise r-cran-mgcv r-cran-mime 354s r-cran-misctools r-cran-munsell r-cran-ncdfgeom r-cran-ncmeta r-cran-nlme 354s r-cran-openssl r-cran-parallelly r-cran-pbapply r-cran-pcict r-cran-pillar 354s r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plm 354s r-cran-polyclip r-cran-praise r-cran-processx r-cran-promises r-cran-proxy 354s r-cran-ps r-cran-purrr r-cran-r6 r-cran-randomforest r-cran-rappdirs 354s r-cran-raster r-cran-rbibutils r-cran-rcolorbrewer r-cran-rcpp 354s r-cran-rcppeigen r-cran-rdpack r-cran-rematch2 r-cran-rex r-cran-rlang 354s r-cran-rmarkdown r-cran-rnetcdf r-cran-rpart r-cran-rprojroot r-cran-s2 354s r-cran-sandwich r-cran-sass r-cran-scales r-cran-sf r-cran-shiny 354s r-cran-sourcetools r-cran-sp r-cran-spacetime r-cran-spatstat 354s r-cran-spatstat.data r-cran-spatstat.explore r-cran-spatstat.geom 354s r-cran-spatstat.linnet r-cran-spatstat.model r-cran-spatstat.random 354s r-cran-spatstat.sparse r-cran-spatstat.utils r-cran-stars r-cran-stringi 354s r-cran-stringr r-cran-survival r-cran-sys r-cran-systemfonts r-cran-tensor 354s r-cran-terra r-cran-testthat r-cran-tibble r-cran-tidyr r-cran-tidyselect 354s r-cran-tinytex r-cran-tweenr r-cran-units r-cran-utf8 r-cran-vctrs 354s r-cran-viridis r-cran-viridislite r-cran-waldo r-cran-withr r-cran-wk 354s r-cran-xfun r-cran-xtable r-cran-xts r-cran-yaml r-cran-zoo unixodbc-common 354s unzip x11-common xdg-utils zip zlib1g-dev 354s 0 upgraded, 323 newly installed, 0 to remove and 0 not upgraded. 354s Need to get 369 MB/369 MB of archives. 354s After this operation, 1079 MB of additional disk space will be used. 354s Get:1 /tmp/autopkgtest.CPWIq5/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [904 B] 354s Get:2 http://ftpmaster.internal/ubuntu oracular/main amd64 gcc-13-base amd64 13.2.0-23ubuntu4 [49.0 kB] 354s Get:3 http://ftpmaster.internal/ubuntu oracular/main amd64 libisl23 amd64 0.26-3build1 [680 kB] 354s Get:4 http://ftpmaster.internal/ubuntu oracular/main amd64 libmpc3 amd64 1.3.1-1build1 [54.5 kB] 354s Get:5 http://ftpmaster.internal/ubuntu oracular/main amd64 cpp-13-x86-64-linux-gnu amd64 13.2.0-23ubuntu4 [11.2 MB] 354s Get:6 http://ftpmaster.internal/ubuntu oracular/main amd64 cpp-13 amd64 13.2.0-23ubuntu4 [1032 B] 354s Get:7 http://ftpmaster.internal/ubuntu oracular/main amd64 cpp-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [5326 B] 354s Get:8 http://ftpmaster.internal/ubuntu oracular/main amd64 cpp amd64 4:13.2.0-7ubuntu1 [22.4 kB] 354s Get:9 http://ftpmaster.internal/ubuntu oracular/main amd64 libcc1-0 amd64 14.1.0-1ubuntu1 [48.0 kB] 354s Get:10 http://ftpmaster.internal/ubuntu oracular/main amd64 libgomp1 amd64 14.1.0-1ubuntu1 [148 kB] 354s Get:11 http://ftpmaster.internal/ubuntu oracular/main amd64 libitm1 amd64 14.1.0-1ubuntu1 [29.1 kB] 354s Get:12 http://ftpmaster.internal/ubuntu oracular/main amd64 libatomic1 amd64 14.1.0-1ubuntu1 [10.4 kB] 354s Get:13 http://ftpmaster.internal/ubuntu oracular/main amd64 libasan8 amd64 14.1.0-1ubuntu1 [3025 kB] 354s Get:14 http://ftpmaster.internal/ubuntu oracular/main amd64 liblsan0 amd64 14.1.0-1ubuntu1 [1313 kB] 354s Get:15 http://ftpmaster.internal/ubuntu oracular/main amd64 libtsan2 amd64 14.1.0-1ubuntu1 [2736 kB] 354s Get:16 http://ftpmaster.internal/ubuntu oracular/main amd64 libubsan1 amd64 14.1.0-1ubuntu1 [1174 kB] 354s Get:17 http://ftpmaster.internal/ubuntu oracular/main amd64 libhwasan0 amd64 14.1.0-1ubuntu1 [1632 kB] 354s Get:18 http://ftpmaster.internal/ubuntu oracular/main amd64 libquadmath0 amd64 14.1.0-1ubuntu1 [153 kB] 354s Get:19 http://ftpmaster.internal/ubuntu oracular/main amd64 libgcc-13-dev amd64 13.2.0-23ubuntu4 [2688 kB] 354s Get:20 http://ftpmaster.internal/ubuntu oracular/main amd64 gcc-13-x86-64-linux-gnu amd64 13.2.0-23ubuntu4 [21.9 MB] 354s Get:21 http://ftpmaster.internal/ubuntu oracular/main amd64 gcc-13 amd64 13.2.0-23ubuntu4 [482 kB] 354s Get:22 http://ftpmaster.internal/ubuntu oracular/main amd64 gcc-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1212 B] 354s Get:23 http://ftpmaster.internal/ubuntu oracular/main amd64 gcc amd64 4:13.2.0-7ubuntu1 [5018 B] 354s Get:24 http://ftpmaster.internal/ubuntu oracular/main amd64 libstdc++-13-dev amd64 13.2.0-23ubuntu4 [2399 kB] 355s Get:25 http://ftpmaster.internal/ubuntu oracular/main amd64 g++-13-x86-64-linux-gnu amd64 13.2.0-23ubuntu4 [12.5 MB] 355s Get:26 http://ftpmaster.internal/ubuntu oracular/main amd64 g++-13 amd64 13.2.0-23ubuntu4 [14.5 kB] 355s Get:27 http://ftpmaster.internal/ubuntu oracular/main amd64 g++-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [964 B] 355s Get:28 http://ftpmaster.internal/ubuntu oracular/main amd64 g++ amd64 4:13.2.0-7ubuntu1 [1100 B] 355s Get:29 http://ftpmaster.internal/ubuntu oracular/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 355s Get:30 http://ftpmaster.internal/ubuntu oracular/main amd64 dctrl-tools amd64 2.24-3build3 [106 kB] 355s Get:31 http://ftpmaster.internal/ubuntu oracular/main amd64 fontconfig amd64 2.15.0-1.1ubuntu2 [180 kB] 355s Get:32 http://ftpmaster.internal/ubuntu oracular/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB] 355s Get:33 http://ftpmaster.internal/ubuntu oracular/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB] 355s Get:34 http://ftpmaster.internal/ubuntu oracular/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 355s Get:35 http://ftpmaster.internal/ubuntu oracular/universe amd64 gdal-data all 3.8.5+dfsg-1 [261 kB] 355s Get:36 http://ftpmaster.internal/ubuntu oracular/universe amd64 gdal-plugins amd64 3.8.5+dfsg-1 [24.6 kB] 355s Get:37 http://ftpmaster.internal/ubuntu oracular/main amd64 libgfortran5 amd64 14.1.0-1ubuntu1 [928 kB] 355s Get:38 http://ftpmaster.internal/ubuntu oracular/main amd64 libgfortran-13-dev amd64 13.2.0-23ubuntu4 [942 kB] 355s Get:39 http://ftpmaster.internal/ubuntu oracular/main amd64 gfortran-13-x86-64-linux-gnu amd64 13.2.0-23ubuntu4 [11.6 MB] 355s Get:40 http://ftpmaster.internal/ubuntu oracular/main amd64 gfortran-13 amd64 13.2.0-23ubuntu4 [11.7 kB] 355s Get:41 http://ftpmaster.internal/ubuntu oracular/main amd64 gfortran-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1024 B] 355s Get:42 http://ftpmaster.internal/ubuntu oracular/main amd64 gfortran amd64 4:13.2.0-7ubuntu1 [1176 B] 355s Get:43 http://ftpmaster.internal/ubuntu oracular/main amd64 icu-devtools amd64 74.2-1ubuntu3 [212 kB] 355s Get:44 http://ftpmaster.internal/ubuntu oracular/main amd64 javascript-common all 11+nmu1 [5936 B] 355s Get:45 http://ftpmaster.internal/ubuntu oracular/universe amd64 libaec0 amd64 1.1.3-1 [22.7 kB] 355s Get:46 http://ftpmaster.internal/ubuntu oracular/main amd64 libblas3 amd64 3.12.0-3build1 [238 kB] 355s Get:47 http://ftpmaster.internal/ubuntu oracular/main amd64 liblapack3 amd64 3.12.0-3build1 [2650 kB] 355s Get:48 http://ftpmaster.internal/ubuntu oracular/universe amd64 libarpack2t64 amd64 3.9.1-1.1build2 [106 kB] 355s Get:49 http://ftpmaster.internal/ubuntu oracular/universe amd64 libsuperlu6 amd64 6.0.1+dfsg1-1build1 [180 kB] 355s Get:50 http://ftpmaster.internal/ubuntu oracular/universe amd64 libarmadillo12 amd64 1:12.8.2+dfsg-1 [106 kB] 355s Get:51 http://ftpmaster.internal/ubuntu oracular/main amd64 libblas-dev amd64 3.12.0-3build1 [170 kB] 355s Get:52 http://ftpmaster.internal/ubuntu oracular/main amd64 libsnappy1v5 amd64 1.2.1-1 [30.4 kB] 355s Get:53 http://ftpmaster.internal/ubuntu oracular/universe amd64 libblosc1 amd64 1.21.5+ds-1build1 [36.2 kB] 355s Get:54 http://ftpmaster.internal/ubuntu oracular/main amd64 libbz2-dev amd64 1.0.8-5.1 [33.6 kB] 355s Get:55 http://ftpmaster.internal/ubuntu oracular/main amd64 libpixman-1-0 amd64 0.42.2-1build1 [279 kB] 355s Get:56 http://ftpmaster.internal/ubuntu oracular/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 355s Get:57 http://ftpmaster.internal/ubuntu oracular/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 355s Get:58 http://ftpmaster.internal/ubuntu oracular/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 355s Get:59 http://ftpmaster.internal/ubuntu oracular/main amd64 libcairo2 amd64 1.18.0-3build1 [566 kB] 355s Get:60 http://ftpmaster.internal/ubuntu oracular/universe amd64 libcfitsio10t64 amd64 4.3.1-1.1build2 [528 kB] 355s Get:61 http://ftpmaster.internal/ubuntu oracular/main amd64 libdatrie1 amd64 0.2.13-3build1 [19.0 kB] 355s Get:62 http://ftpmaster.internal/ubuntu oracular/main amd64 libdeflate-dev amd64 1.20-1 [55.8 kB] 355s Get:63 http://ftpmaster.internal/ubuntu oracular/universe amd64 libfyba0t64 amd64 4.1.1-11build1 [119 kB] 355s Get:64 http://ftpmaster.internal/ubuntu oracular/universe amd64 libminizip1t64 amd64 1:1.3.dfsg-3.1ubuntu2 [22.2 kB] 355s Get:65 http://ftpmaster.internal/ubuntu oracular/universe amd64 libfreexl1 amd64 2.0.0-1build2 [41.7 kB] 355s Get:66 http://ftpmaster.internal/ubuntu oracular/universe amd64 libgeos3.12.1t64 amd64 3.12.1-3build1 [849 kB] 355s Get:67 http://ftpmaster.internal/ubuntu oracular/universe amd64 libgeos-c1t64 amd64 3.12.1-3build1 [94.5 kB] 355s Get:68 http://ftpmaster.internal/ubuntu oracular/universe amd64 proj-data all 9.4.0-1build2 [7885 kB] 355s Get:69 http://ftpmaster.internal/ubuntu oracular/universe amd64 libproj25 amd64 9.4.0-1build2 [1396 kB] 355s Get:70 http://ftpmaster.internal/ubuntu oracular/universe amd64 libgeotiff5 amd64 1.7.1-5build1 [62.9 kB] 355s Get:71 http://ftpmaster.internal/ubuntu oracular/main amd64 libgif7 amd64 5.2.2-1ubuntu1 [35.2 kB] 355s Get:72 http://ftpmaster.internal/ubuntu oracular/universe amd64 libsz2 amd64 1.1.3-1 [5456 B] 355s Get:73 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhdf4-0-alt amd64 4.3.0-1 [285 kB] 355s Get:74 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhdf5-103-1t64 amd64 1.10.10+repack-3.1ubuntu4 [1270 kB] 355s Get:75 http://ftpmaster.internal/ubuntu oracular/universe amd64 liburiparser1 amd64 0.9.7+dfsg-2build1 [35.8 kB] 355s Get:76 http://ftpmaster.internal/ubuntu oracular/universe amd64 libkmlbase1t64 amd64 1.3.0-12build1 [49.9 kB] 355s Get:77 http://ftpmaster.internal/ubuntu oracular/universe amd64 libkmldom1t64 amd64 1.3.0-12build1 [156 kB] 355s Get:78 http://ftpmaster.internal/ubuntu oracular/universe amd64 libkmlengine1t64 amd64 1.3.0-12build1 [71.4 kB] 355s Get:79 http://ftpmaster.internal/ubuntu oracular/main amd64 mysql-common all 5.8+1.1.0build1 [6746 B] 355s Get:80 http://ftpmaster.internal/ubuntu oracular/main amd64 libmysqlclient21 amd64 8.0.37-1 [1254 kB] 355s Get:81 http://ftpmaster.internal/ubuntu oracular/universe amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-3.1ubuntu4 [56.0 kB] 355s Get:82 http://ftpmaster.internal/ubuntu oracular/universe amd64 libnetcdf19t64 amd64 1:4.9.2-5ubuntu4 [473 kB] 355s Get:83 http://ftpmaster.internal/ubuntu oracular/main amd64 libltdl7 amd64 2.4.7-7build1 [40.3 kB] 355s Get:84 http://ftpmaster.internal/ubuntu oracular/main amd64 libodbc2 amd64 2.3.12-1build2 [158 kB] 355s Get:85 http://ftpmaster.internal/ubuntu oracular/main amd64 unixodbc-common all 2.3.12-1build2 [8646 B] 355s Get:86 http://ftpmaster.internal/ubuntu oracular/main amd64 libodbcinst2 amd64 2.3.12-1build2 [30.6 kB] 355s Get:87 http://ftpmaster.internal/ubuntu oracular/universe amd64 libogdi4.1 amd64 4.1.1+ds-4 [226 kB] 355s Get:88 http://ftpmaster.internal/ubuntu oracular/main amd64 libopenjp2-7 amd64 2.5.0-2build3 [173 kB] 355s Get:89 http://ftpmaster.internal/ubuntu oracular/main amd64 liblcms2-2 amd64 2.14-2build1 [161 kB] 355s Get:90 http://ftpmaster.internal/ubuntu oracular/main amd64 libpoppler134 amd64 24.02.0-1ubuntu9 [1113 kB] 355s Get:91 http://ftpmaster.internal/ubuntu oracular/main amd64 libpq5 amd64 16.2-1ubuntu4 [138 kB] 355s Get:92 http://ftpmaster.internal/ubuntu oracular/universe amd64 libqhull-r8.0 amd64 2020.2-6build1 [193 kB] 355s Get:93 http://ftpmaster.internal/ubuntu oracular/universe amd64 librttopo1 amd64 1.1.0-3build2 [191 kB] 355s Get:94 http://ftpmaster.internal/ubuntu oracular/universe amd64 libspatialite8t64 amd64 5.1.0-3build1 [1919 kB] 355s Get:95 http://ftpmaster.internal/ubuntu oracular/universe amd64 libxerces-c3.2t64 amd64 3.2.4+debian-1.3 [917 kB] 355s Get:96 http://ftpmaster.internal/ubuntu oracular/universe amd64 libgdal34t64 amd64 3.8.5+dfsg-1 [8345 kB] 355s Get:97 http://ftpmaster.internal/ubuntu oracular/main amd64 libgraphite2-3 amd64 1.3.14-2build1 [73.0 kB] 355s Get:98 http://ftpmaster.internal/ubuntu oracular/main amd64 libharfbuzz0b amd64 8.3.0-2build2 [469 kB] 355s Get:99 http://ftpmaster.internal/ubuntu oracular/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 355s Get:100 http://ftpmaster.internal/ubuntu oracular/main amd64 libice6 amd64 2:1.0.10-1build3 [41.4 kB] 355s Get:101 http://ftpmaster.internal/ubuntu oracular/main amd64 libicu-dev amd64 74.2-1ubuntu3 [11.9 MB] 355s Get:102 http://ftpmaster.internal/ubuntu oracular/main amd64 libjpeg-turbo8-dev amd64 2.1.5-2ubuntu2 [295 kB] 355s Get:103 http://ftpmaster.internal/ubuntu oracular/main amd64 libjpeg8-dev amd64 8c-2ubuntu11 [1484 B] 355s Get:104 http://ftpmaster.internal/ubuntu oracular/main amd64 libjpeg-dev amd64 8c-2ubuntu11 [1482 B] 355s Get:105 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-bootstrap all 3.4.1+dfsg-3 [129 kB] 355s Get:106 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-popper.js all 1.16.1+ds-6 [54.1 kB] 355s Get:107 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-bootstrap4 all 4.6.1+dfsg1-4 [537 kB] 355s Get:108 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-d3 all 3.5.17-4 [132 kB] 355s Get:109 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-es5-shim all 4.6.7-2 [39.8 kB] 355s Get:110 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-highlight.js all 9.18.5+dfsg1-2 [385 kB] 355s Get:111 http://ftpmaster.internal/ubuntu oracular/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 355s Get:112 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-jquery-datatables all 1.11.5+dfsg-2 [146 kB] 355s Get:113 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB] 355s Get:114 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-microplugin.js all 0.0.3+dfsg-1.1 [3712 B] 355s Get:115 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB] 355s Get:116 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 355s Get:117 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-json all 0~20221030+~1.0.8-1 [20.6 kB] 355s Get:118 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-prettify all 2015.12.04+dfsg-1.1 [39.3 kB] 355s Get:119 http://ftpmaster.internal/ubuntu oracular/main amd64 liblapack-dev amd64 3.12.0-3build1 [5196 kB] 355s Get:120 http://ftpmaster.internal/ubuntu oracular/main amd64 liblua5.4-0 amd64 5.4.6-3build2 [166 kB] 355s Get:121 http://ftpmaster.internal/ubuntu oracular/main amd64 libncurses-dev amd64 6.4+20240113-1ubuntu2 [384 kB] 355s Get:122 http://ftpmaster.internal/ubuntu oracular/main amd64 libthai-data all 0.1.29-2build1 [158 kB] 355s Get:123 http://ftpmaster.internal/ubuntu oracular/main amd64 libthai0 amd64 0.1.29-2build1 [18.9 kB] 355s Get:124 http://ftpmaster.internal/ubuntu oracular/main amd64 libpango-1.0-0 amd64 1.52.2+ds-1 [233 kB] 355s Get:125 http://ftpmaster.internal/ubuntu oracular/main amd64 libpangoft2-1.0-0 amd64 1.52.2+ds-1 [42.6 kB] 355s Get:126 http://ftpmaster.internal/ubuntu oracular/main amd64 libpangocairo-1.0-0 amd64 1.52.2+ds-1 [28.7 kB] 355s Get:127 http://ftpmaster.internal/ubuntu oracular/main amd64 libpaper1 amd64 1.1.29build1 [13.4 kB] 355s Get:128 http://ftpmaster.internal/ubuntu oracular/main amd64 libpaper-utils amd64 1.1.29build1 [8650 B] 355s Get:129 http://ftpmaster.internal/ubuntu oracular/main amd64 libpcre2-16-0 amd64 10.42-4ubuntu2 [210 kB] 355s Get:130 http://ftpmaster.internal/ubuntu oracular/main amd64 libpcre2-32-0 amd64 10.42-4ubuntu2 [197 kB] 355s Get:131 http://ftpmaster.internal/ubuntu oracular/main amd64 libpcre2-posix3 amd64 10.42-4ubuntu2 [6686 B] 355s Get:132 http://ftpmaster.internal/ubuntu oracular/main amd64 libpcre2-dev amd64 10.42-4ubuntu2 [737 kB] 355s Get:133 http://ftpmaster.internal/ubuntu oracular/main amd64 libpkgconf3 amd64 1.8.1-2build1 [30.7 kB] 355s Get:134 http://ftpmaster.internal/ubuntu oracular/main amd64 zlib1g-dev amd64 1:1.3.dfsg-3.1ubuntu2 [894 kB] 355s Get:135 http://ftpmaster.internal/ubuntu oracular/main amd64 libpng-dev amd64 1.6.43-5build1 [264 kB] 355s Get:136 http://ftpmaster.internal/ubuntu oracular/main amd64 libreadline-dev amd64 8.2-4build1 [167 kB] 355s Get:137 http://ftpmaster.internal/ubuntu oracular/main amd64 libsm6 amd64 2:1.2.3-1build3 [15.7 kB] 355s Get:138 http://ftpmaster.internal/ubuntu oracular/main amd64 libtcl8.6 amd64 8.6.14+dfsg-1build1 [988 kB] 355s Get:139 http://ftpmaster.internal/ubuntu oracular/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 355s Get:140 http://ftpmaster.internal/ubuntu oracular/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 355s Get:141 http://ftpmaster.internal/ubuntu oracular/main amd64 libtk8.6 amd64 8.6.14-1build1 [779 kB] 355s Get:142 http://ftpmaster.internal/ubuntu oracular/universe amd64 libudunits2-data all 2.2.28-7build1 [19.4 kB] 355s Get:143 http://ftpmaster.internal/ubuntu oracular/universe amd64 libudunits2-0 amd64 2.2.28-7build1 [54.1 kB] 355s Get:144 http://ftpmaster.internal/ubuntu oracular/main amd64 libxt6t64 amd64 1:1.2.1-1.2build1 [171 kB] 355s Get:145 http://ftpmaster.internal/ubuntu oracular/main amd64 zip amd64 3.0-13build1 [175 kB] 355s Get:146 http://ftpmaster.internal/ubuntu oracular/main amd64 unzip amd64 6.0-28ubuntu4 [175 kB] 355s Get:147 http://ftpmaster.internal/ubuntu oracular/main amd64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB] 355s Get:148 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-base-core amd64 4.4.0-2 [28.5 MB] 356s Get:149 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-littler amd64 0.3.20-1 [96.0 kB] 356s Get:150 http://ftpmaster.internal/ubuntu oracular/universe amd64 littler all 0.3.20-1 [2486 B] 356s Get:151 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-bootstrap-sass all 3.4.3-2 [187 kB] 356s Get:152 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-html5shiv all 3.7.3+dfsg-5 [13.5 kB] 356s Get:153 http://ftpmaster.internal/ubuntu oracular/universe amd64 node-normalize.css all 8.0.1-5 [10.8 kB] 356s Get:154 http://ftpmaster.internal/ubuntu oracular/universe amd64 pandoc-data all 3.1.3-2build2 [78.3 kB] 356s Get:155 http://ftpmaster.internal/ubuntu oracular/universe amd64 pandoc amd64 3.1.3+ds-3build1 [26.9 MB] 356s Get:156 http://ftpmaster.internal/ubuntu oracular/main amd64 liblzma-dev amd64 5.6.1+really5.4.5-1 [176 kB] 356s Get:157 http://ftpmaster.internal/ubuntu oracular/main amd64 pkgconf-bin amd64 1.8.1-2build1 [20.7 kB] 356s Get:158 http://ftpmaster.internal/ubuntu oracular/main amd64 pkgconf amd64 1.8.1-2build1 [16.8 kB] 356s Get:159 http://ftpmaster.internal/ubuntu oracular/main amd64 libtirpc-dev amd64 1.3.4+ds-1.3 [193 kB] 356s Get:160 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-base-dev all 4.4.0-2 [4340 B] 356s Get:161 http://ftpmaster.internal/ubuntu oracular/universe amd64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B] 356s Get:162 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-abind all 1.4-5-2 [63.6 kB] 356s Get:163 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-cli amd64 3.6.2-1 [1380 kB] 356s Get:164 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-generics all 0.1.3-1 [81.3 kB] 356s Get:165 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-glue amd64 1.7.0-1 [154 kB] 356s Get:166 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rlang amd64 1.1.3-1 [1663 kB] 356s Get:167 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] 356s Get:168 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-magrittr amd64 2.0.3-1 [154 kB] 356s Get:169 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-fansi amd64 1.0.5-1 [619 kB] 356s Get:170 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-utf8 amd64 1.2.4-1 [140 kB] 356s Get:171 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB] 356s Get:172 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pillar all 1.9.0+dfsg-1 [464 kB] 356s Get:173 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-r6 all 2.5.1-1 [99.0 kB] 356s Get:174 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB] 356s Get:175 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tibble amd64 3.2.1+dfsg-2 [415 kB] 356s Get:176 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-withr all 2.5.0-1 [225 kB] 356s Get:177 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tidyselect amd64 1.2.0+dfsg-1 [218 kB] 356s Get:178 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-dplyr amd64 1.1.4-1 [1515 kB] 356s Get:179 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-purrr amd64 1.0.2-1 [502 kB] 356s Get:180 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-mass amd64 7.3-60.2-1 [1109 kB] 356s Get:181 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-class amd64 7.3-22-2build1 [88.2 kB] 356s Get:182 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-proxy amd64 0.4-27-1 [182 kB] 356s Get:183 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-e1071 amd64 1.7-14-1 [558 kB] 356s Get:184 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-kernsmooth amd64 2.23-24-1 [92.9 kB] 356s Get:185 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-classint amd64 0.4-10+dfsg-1 [106 kB] 356s Get:186 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-dbi all 1.2.2-1 [823 kB] 356s Get:187 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pkgkitten all 0.2.3-1 [25.1 kB] 356s Get:188 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rcpp amd64 1.0.12-1 [1981 kB] 356s Get:189 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-wk amd64 0.9.1-1 [1784 kB] 356s Get:190 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-s2 amd64 1.1.6-1build2 [1981 kB] 356s Get:191 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-units amd64 0.8-5+dfsg-1 [275 kB] 356s Get:192 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sf amd64 1.0-16+dfsg-1 [3064 kB] 356s Get:193 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-areal all 0.1.8+dfsg-2 [1004 kB] 356s Get:194 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sys amd64 3.4.2-1 [44.6 kB] 356s Get:195 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-askpass amd64 1.2.0-1 [24.6 kB] 356s Get:196 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-base64enc amd64 0.1-3-3 [27.6 kB] 356s Get:197 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-bdsmatrix amd64 1.3-7-1 [299 kB] 356s Get:198 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-brio amd64 1.1.5-1 [39.0 kB] 356s Get:199 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-fastmap amd64 1.1.1-1 [70.5 kB] 356s Get:200 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-cachem amd64 1.0.8-1 [72.1 kB] 356s Get:201 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-digest amd64 0.6.35-1 [195 kB] 356s Get:202 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-htmltools amd64 0.5.8.1-1 [373 kB] 356s Get:203 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-jquerylib all 0.1.4+dfsg-4 [13.5 kB] 356s Get:204 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-jsonlite amd64 1.8.8+dfsg-1 [441 kB] 356s Get:205 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-memoise all 2.0.1-1 [53.9 kB] 356s Get:206 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-mime amd64 0.12-2 [35.8 kB] 356s Get:207 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-fs amd64 1.6.3+dfsg-1build2 [229 kB] 356s Get:208 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rappdirs amd64 0.3.3-1 [47.5 kB] 356s Get:209 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sass amd64 0.4.9+dfsg-1 [1001 kB] 356s Get:210 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-bslib all 0.7.0+dfsg-1 [4255 kB] 356s Get:211 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-cairo amd64 1.6-2-1 [88.8 kB] 356s Get:212 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-ps amd64 1.7.6-1 [313 kB] 356s Get:213 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-processx amd64 3.8.3-1 [346 kB] 356s Get:214 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-callr all 3.7.6-1 [458 kB] 356s Get:215 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-cluster amd64 2.1.6-1build1 [553 kB] 356s Get:216 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-clue amd64 0.3-65-1 [960 kB] 356s Get:217 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-codetools all 0.2-20-1 [90.5 kB] 356s Get:218 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-collapse amd64 2.0.13-1 [3130 kB] 356s Get:219 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-colorspace amd64 2.1-0+dfsg-1 [1541 kB] 356s Get:220 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-commonmark amd64 1.9.1-1 [131 kB] 356s Get:221 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-lazyeval amd64 0.2.2-1build1 [144 kB] 356s Get:222 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rex all 1.2.1-1 [129 kB] 356s Get:223 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-curl amd64 5.2.0+dfsg-1build2 [177 kB] 356s Get:224 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-openssl amd64 2.1.1+dfsg-2build2 [402 kB] 356s Get:225 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] 356s Get:226 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-crayon all 1.5.2-1 [164 kB] 356s Get:227 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-yaml amd64 2.3.8-2 [108 kB] 356s Get:228 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-covr amd64 3.6.4+dfsg-1 [303 kB] 356s Get:229 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-cpp11 all 0.4.7-1 [266 kB] 356s Get:230 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-deldir amd64 2.0-4-1build1 [270 kB] 356s Get:231 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-desc all 1.4.3-1 [359 kB] 356s Get:232 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-diffobj amd64 0.3.5-1 [1117 kB] 356s Get:233 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-evaluate all 0.23-1 [90.2 kB] 356s Get:234 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-farver amd64 2.1.1-2 [1349 kB] 356s Get:235 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-fnn amd64 1.1.4-1 [122 kB] 356s Get:236 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-fontawesome all 0.5.2-1 [1300 kB] 356s Get:237 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-formula all 1.2-5-1 [158 kB] 356s Get:238 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-globals all 0.16.3-1 [120 kB] 356s Get:239 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-listenv all 0.9.1+dfsg-1 [112 kB] 356s Get:240 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-parallelly amd64 1.37.1-1build1 [365 kB] 356s Get:241 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-future all 1.33.1+dfsg-1 [634 kB] 356s Get:242 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-future.apply all 1.11.2+dfsg-1 [172 kB] 356s Get:243 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-gtable all 0.3.4+dfsg-1 [191 kB] 356s Get:244 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-isoband amd64 0.2.7-1 [1481 kB] 356s Get:245 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-lattice amd64 0.22-6-1 [1340 kB] 356s Get:246 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-nlme amd64 3.1.164-1build1 [2261 kB] 356s Get:247 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-matrix amd64 1.6-5-1 [3830 kB] 356s Get:248 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-mgcv amd64 1.9-1-1 [3252 kB] 356s Get:249 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-labeling all 0.4.3-1 [62.1 kB] 356s Get:250 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-munsell all 0.5.0-2build1 [208 kB] 356s Get:251 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rcolorbrewer all 1.1-3-1build1 [55.4 kB] 356s Get:252 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-viridislite all 0.4.2-2 [1088 kB] 356s Get:253 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-scales all 1.3.0-1 [603 kB] 356s Get:254 http://ftpmaster.internal/ubuntu oracular-proposed/universe amd64 r-cran-ggplot2 all 3.5.1+dfsg-1 [3940 kB] 356s Get:255 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tweenr amd64 2.0.3-1 [410 kB] 356s Get:256 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-polyclip amd64 1.10-6-1 [113 kB] 356s Get:257 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-systemfonts amd64 1.0.5-1 [229 kB] 356s Get:258 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rcppeigen amd64 0.3.4.0.0-1build1 [1425 kB] 356s Get:259 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-ggforce amd64 0.4.2-1 [1777 kB] 356s Get:260 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-stringi amd64 1.8.3-1 [873 kB] 356s Get:261 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-stringr all 1.5.1-1 [290 kB] 356s Get:262 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-ggthemes all 5.1.0-1 [434 kB] 356s Get:263 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-goftest amd64 1.2-3-1 [59.5 kB] 356s Get:264 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-gridextra all 2.3-3build1 [1024 kB] 356s Get:265 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-xfun amd64 0.44+dfsg-1 [518 kB] 356s Get:266 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-highr all 0.10+dfsg-2 [38.5 kB] 356s Get:267 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-later amd64 1.3.2+dfsg-1 [123 kB] 356s Get:268 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-promises amd64 1.3.0+dfsg-1 [287 kB] 356s Get:269 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-httpuv amd64 1.6.15+dfsg-1 [510 kB] 356s Get:270 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-intervals amd64 0.15.4-1 [756 kB] 357s Get:271 http://ftpmaster.internal/ubuntu oracular/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 357s Get:272 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-knitr all 1.46+dfsg-1 [911 kB] 357s Get:273 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-zoo amd64 1.8-12-2 [984 kB] 357s Get:274 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-lmtest amd64 0.9.40-1 [396 kB] 357s Get:275 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-lwgeom amd64 0.2-13-3build2 [420 kB] 357s Get:276 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-maps amd64 3.4.2-1 [2359 kB] 357s Get:277 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-mapdata amd64 2.3.1-1 [23.5 MB] 357s Get:278 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-misctools all 0.6-28-1 [99.9 kB] 357s Get:279 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sandwich all 3.1-0-1 [1484 kB] 357s Get:280 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-maxlik all 1.5-2-1 [1550 kB] 357s Get:281 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rnetcdf amd64 2.9-1-1build2 [233 kB] 357s Get:282 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tidyr amd64 1.3.1-1 [1156 kB] 357s Get:283 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-ncmeta all 0.3.6-1 [360 kB] 357s Get:284 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-stars all 0.6-4-1 [4030 kB] 357s Get:285 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-ncdfgeom all 1.1.6+dfsg-1 [4124 kB] 357s Get:286 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pbapply all 1.7-2-1 [102 kB] 357s Get:287 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pcict amd64 0.5-4.4-1 [94.4 kB] 357s Get:288 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pkgbuild all 1.4.3-1 [209 kB] 357s Get:289 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rprojroot all 2.0.4-1 [124 kB] 357s Get:290 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-pkgload all 1.3.4-1 [207 kB] 357s Get:291 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rbibutils amd64 2.2.16-1 [754 kB] 357s Get:292 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rdpack all 2.6-1 [742 kB] 357s Get:293 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-plm all 2.6-4-1 [2161 kB] 357s Get:294 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-praise all 1.0.0-4build1 [20.3 kB] 357s Get:295 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-randomforest amd64 4.7-1.1-1 [215 kB] 357s Get:296 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sp amd64 1:2.1-2+dfsg-1 [1447 kB] 357s Get:297 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-terra amd64 1.7-65-1build2 [3678 kB] 357s Get:298 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-raster amd64 3.6-26-1 [3118 kB] 357s Get:299 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rematch2 all 2.1.2-2build1 [46.5 kB] 357s Get:300 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tinytex all 0.49-1 [141 kB] 357s Get:301 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-modernizr all 3.13.0-0.1 [101 kB] 357s Get:302 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-xtable all 1:1.8-4-2 [689 kB] 357s Get:303 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-sourcetools amd64 0.1.7-1-1 [48.1 kB] 357s Get:304 http://ftpmaster.internal/ubuntu oracular/universe amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB] 357s Get:305 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-shiny all 1.8.1.1+dfsg-1 [2873 kB] 357s Get:306 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rmarkdown all 2.25+dfsg-3 [1481 kB] 357s Get:307 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-survival amd64 3.5-8-1 [6120 kB] 357s Get:308 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-rpart amd64 4.1.23-1build1 [661 kB] 357s Get:309 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-xts amd64 0.13.2-1 [772 kB] 357s Get:310 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spacetime all 1.3-1-1 [2804 kB] 357s Get:311 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.utils amd64 3.0-4-1 [361 kB] 357s Get:312 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.data all 3.0-4-1 [4090 kB] 357s Get:313 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.geom amd64 3.2-9-1 [3937 kB] 357s Get:314 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.random amd64 3.2-3-1 [1169 kB] 357s Get:315 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-tensor all 1.5-4 [15.7 kB] 357s Get:316 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.sparse amd64 3.0-3-1 [215 kB] 357s Get:317 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.explore amd64 3.2-5-1 [3283 kB] 357s Get:318 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.model amd64 3.2-11-1 [3385 kB] 358s Get:319 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat.linnet amd64 3.1-5-1 [1468 kB] 358s Get:320 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-spatstat amd64 3.0-7-1 [3817 kB] 358s Get:321 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-waldo all 0.5.2-1build1 [120 kB] 358s Get:322 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-testthat amd64 3.2.1-1 [1684 kB] 358s Get:323 http://ftpmaster.internal/ubuntu oracular/universe amd64 r-cran-viridis all 0.6.5-1 [2770 kB] 358s Preconfiguring packages ... 359s Fetched 369 MB in 4s (102 MB/s) 359s Selecting previously unselected package gcc-13-base:amd64. 359s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 74359 files and directories currently installed.) 359s Preparing to unpack .../000-gcc-13-base_13.2.0-23ubuntu4_amd64.deb ... 359s Unpacking gcc-13-base:amd64 (13.2.0-23ubuntu4) ... 359s Selecting previously unselected package libisl23:amd64. 359s Preparing to unpack .../001-libisl23_0.26-3build1_amd64.deb ... 359s Unpacking libisl23:amd64 (0.26-3build1) ... 359s Selecting previously unselected package libmpc3:amd64. 359s Preparing to unpack .../002-libmpc3_1.3.1-1build1_amd64.deb ... 359s Unpacking libmpc3:amd64 (1.3.1-1build1) ... 359s Selecting previously unselected package cpp-13-x86-64-linux-gnu. 359s Preparing to unpack .../003-cpp-13-x86-64-linux-gnu_13.2.0-23ubuntu4_amd64.deb ... 359s Unpacking cpp-13-x86-64-linux-gnu (13.2.0-23ubuntu4) ... 359s Selecting previously unselected package cpp-13. 359s Preparing to unpack .../004-cpp-13_13.2.0-23ubuntu4_amd64.deb ... 359s Unpacking cpp-13 (13.2.0-23ubuntu4) ... 359s Selecting previously unselected package cpp-x86-64-linux-gnu. 359s Preparing to unpack .../005-cpp-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ... 359s Unpacking cpp-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ... 359s Selecting previously unselected package cpp. 359s Preparing to unpack .../006-cpp_4%3a13.2.0-7ubuntu1_amd64.deb ... 359s Unpacking cpp (4:13.2.0-7ubuntu1) ... 359s Selecting previously unselected package libcc1-0:amd64. 359s Preparing to unpack .../007-libcc1-0_14.1.0-1ubuntu1_amd64.deb ... 359s Unpacking libcc1-0:amd64 (14.1.0-1ubuntu1) ... 359s Selecting previously unselected package libgomp1:amd64. 359s Preparing to unpack .../008-libgomp1_14.1.0-1ubuntu1_amd64.deb ... 359s Unpacking libgomp1:amd64 (14.1.0-1ubuntu1) ... 359s Selecting previously unselected package libitm1:amd64. 359s Preparing to unpack .../009-libitm1_14.1.0-1ubuntu1_amd64.deb ... 359s Unpacking libitm1:amd64 (14.1.0-1ubuntu1) ... 359s Selecting previously unselected package libatomic1:amd64. 359s Preparing to unpack .../010-libatomic1_14.1.0-1ubuntu1_amd64.deb ... 359s Unpacking libatomic1:amd64 (14.1.0-1ubuntu1) ... 359s Selecting previously unselected package libasan8:amd64. 359s Preparing to unpack .../011-libasan8_14.1.0-1ubuntu1_amd64.deb ... 359s Unpacking libasan8:amd64 (14.1.0-1ubuntu1) ... 359s Selecting previously unselected package liblsan0:amd64. 359s Preparing to unpack .../012-liblsan0_14.1.0-1ubuntu1_amd64.deb ... 359s Unpacking liblsan0:amd64 (14.1.0-1ubuntu1) ... 359s Selecting previously unselected package libtsan2:amd64. 359s Preparing to unpack .../013-libtsan2_14.1.0-1ubuntu1_amd64.deb ... 359s Unpacking libtsan2:amd64 (14.1.0-1ubuntu1) ... 359s Selecting previously unselected package libubsan1:amd64. 359s Preparing to unpack .../014-libubsan1_14.1.0-1ubuntu1_amd64.deb ... 359s Unpacking libubsan1:amd64 (14.1.0-1ubuntu1) ... 359s Selecting previously unselected package libhwasan0:amd64. 359s Preparing to unpack .../015-libhwasan0_14.1.0-1ubuntu1_amd64.deb ... 359s Unpacking libhwasan0:amd64 (14.1.0-1ubuntu1) ... 359s Selecting previously unselected package libquadmath0:amd64. 359s Preparing to unpack .../016-libquadmath0_14.1.0-1ubuntu1_amd64.deb ... 359s Unpacking libquadmath0:amd64 (14.1.0-1ubuntu1) ... 359s Selecting previously unselected package libgcc-13-dev:amd64. 359s Preparing to unpack .../017-libgcc-13-dev_13.2.0-23ubuntu4_amd64.deb ... 359s Unpacking libgcc-13-dev:amd64 (13.2.0-23ubuntu4) ... 360s Selecting previously unselected package gcc-13-x86-64-linux-gnu. 360s Preparing to unpack .../018-gcc-13-x86-64-linux-gnu_13.2.0-23ubuntu4_amd64.deb ... 360s Unpacking gcc-13-x86-64-linux-gnu (13.2.0-23ubuntu4) ... 360s Selecting previously unselected package gcc-13. 360s Preparing to unpack .../019-gcc-13_13.2.0-23ubuntu4_amd64.deb ... 360s Unpacking gcc-13 (13.2.0-23ubuntu4) ... 360s Selecting previously unselected package gcc-x86-64-linux-gnu. 360s Preparing to unpack .../020-gcc-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ... 360s Unpacking gcc-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ... 360s Selecting previously unselected package gcc. 360s Preparing to unpack .../021-gcc_4%3a13.2.0-7ubuntu1_amd64.deb ... 360s Unpacking gcc (4:13.2.0-7ubuntu1) ... 360s Selecting previously unselected package libstdc++-13-dev:amd64. 360s Preparing to unpack .../022-libstdc++-13-dev_13.2.0-23ubuntu4_amd64.deb ... 360s Unpacking libstdc++-13-dev:amd64 (13.2.0-23ubuntu4) ... 360s Selecting previously unselected package g++-13-x86-64-linux-gnu. 360s Preparing to unpack .../023-g++-13-x86-64-linux-gnu_13.2.0-23ubuntu4_amd64.deb ... 360s Unpacking g++-13-x86-64-linux-gnu (13.2.0-23ubuntu4) ... 360s Selecting previously unselected package g++-13. 360s Preparing to unpack .../024-g++-13_13.2.0-23ubuntu4_amd64.deb ... 360s Unpacking g++-13 (13.2.0-23ubuntu4) ... 360s Selecting previously unselected package g++-x86-64-linux-gnu. 360s Preparing to unpack .../025-g++-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ... 360s Unpacking g++-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ... 360s Selecting previously unselected package g++. 360s Preparing to unpack .../026-g++_4%3a13.2.0-7ubuntu1_amd64.deb ... 360s Unpacking g++ (4:13.2.0-7ubuntu1) ... 361s Selecting previously unselected package build-essential. 361s Preparing to unpack .../027-build-essential_12.10ubuntu1_amd64.deb ... 361s Unpacking build-essential (12.10ubuntu1) ... 361s Selecting previously unselected package dctrl-tools. 361s Preparing to unpack .../028-dctrl-tools_2.24-3build3_amd64.deb ... 361s Unpacking dctrl-tools (2.24-3build3) ... 361s Selecting previously unselected package fontconfig. 361s Preparing to unpack .../029-fontconfig_2.15.0-1.1ubuntu2_amd64.deb ... 361s Unpacking fontconfig (2.15.0-1.1ubuntu2) ... 361s Selecting previously unselected package fonts-font-awesome. 361s Preparing to unpack .../030-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb ... 361s Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 361s Selecting previously unselected package fonts-glyphicons-halflings. 361s Preparing to unpack .../031-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-3_all.deb ... 361s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 361s Selecting previously unselected package fonts-mathjax. 361s Preparing to unpack .../032-fonts-mathjax_2.7.9+dfsg-1_all.deb ... 361s Unpacking fonts-mathjax (2.7.9+dfsg-1) ... 361s Selecting previously unselected package gdal-data. 361s Preparing to unpack .../033-gdal-data_3.8.5+dfsg-1_all.deb ... 361s Unpacking gdal-data (3.8.5+dfsg-1) ... 361s Selecting previously unselected package gdal-plugins:amd64. 361s Preparing to unpack .../034-gdal-plugins_3.8.5+dfsg-1_amd64.deb ... 361s Unpacking gdal-plugins:amd64 (3.8.5+dfsg-1) ... 361s Selecting previously unselected package libgfortran5:amd64. 361s Preparing to unpack .../035-libgfortran5_14.1.0-1ubuntu1_amd64.deb ... 361s Unpacking libgfortran5:amd64 (14.1.0-1ubuntu1) ... 361s Selecting previously unselected package libgfortran-13-dev:amd64. 361s Preparing to unpack .../036-libgfortran-13-dev_13.2.0-23ubuntu4_amd64.deb ... 361s Unpacking libgfortran-13-dev:amd64 (13.2.0-23ubuntu4) ... 361s Selecting previously unselected package gfortran-13-x86-64-linux-gnu. 361s Preparing to unpack .../037-gfortran-13-x86-64-linux-gnu_13.2.0-23ubuntu4_amd64.deb ... 361s Unpacking gfortran-13-x86-64-linux-gnu (13.2.0-23ubuntu4) ... 361s Selecting previously unselected package gfortran-13. 361s Preparing to unpack .../038-gfortran-13_13.2.0-23ubuntu4_amd64.deb ... 361s Unpacking gfortran-13 (13.2.0-23ubuntu4) ... 361s Selecting previously unselected package gfortran-x86-64-linux-gnu. 361s Preparing to unpack .../039-gfortran-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ... 361s Unpacking gfortran-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ... 361s Selecting previously unselected package gfortran. 361s Preparing to unpack .../040-gfortran_4%3a13.2.0-7ubuntu1_amd64.deb ... 361s Unpacking gfortran (4:13.2.0-7ubuntu1) ... 361s Selecting previously unselected package icu-devtools. 361s Preparing to unpack .../041-icu-devtools_74.2-1ubuntu3_amd64.deb ... 361s Unpacking icu-devtools (74.2-1ubuntu3) ... 361s Selecting previously unselected package javascript-common. 361s Preparing to unpack .../042-javascript-common_11+nmu1_all.deb ... 361s Unpacking javascript-common (11+nmu1) ... 361s Selecting previously unselected package libaec0:amd64. 361s Preparing to unpack .../043-libaec0_1.1.3-1_amd64.deb ... 361s Unpacking libaec0:amd64 (1.1.3-1) ... 361s Selecting previously unselected package libblas3:amd64. 361s Preparing to unpack .../044-libblas3_3.12.0-3build1_amd64.deb ... 361s Unpacking libblas3:amd64 (3.12.0-3build1) ... 361s Selecting previously unselected package liblapack3:amd64. 362s Preparing to unpack .../045-liblapack3_3.12.0-3build1_amd64.deb ... 362s Unpacking liblapack3:amd64 (3.12.0-3build1) ... 362s Selecting previously unselected package libarpack2t64:amd64. 362s Preparing to unpack .../046-libarpack2t64_3.9.1-1.1build2_amd64.deb ... 362s Unpacking libarpack2t64:amd64 (3.9.1-1.1build2) ... 362s Selecting previously unselected package libsuperlu6:amd64. 362s Preparing to unpack .../047-libsuperlu6_6.0.1+dfsg1-1build1_amd64.deb ... 362s Unpacking libsuperlu6:amd64 (6.0.1+dfsg1-1build1) ... 362s Selecting previously unselected package libarmadillo12. 362s Preparing to unpack .../048-libarmadillo12_1%3a12.8.2+dfsg-1_amd64.deb ... 362s Unpacking libarmadillo12 (1:12.8.2+dfsg-1) ... 362s Selecting previously unselected package libblas-dev:amd64. 362s Preparing to unpack .../049-libblas-dev_3.12.0-3build1_amd64.deb ... 362s Unpacking libblas-dev:amd64 (3.12.0-3build1) ... 362s Selecting previously unselected package libsnappy1v5:amd64. 362s Preparing to unpack .../050-libsnappy1v5_1.2.1-1_amd64.deb ... 362s Unpacking libsnappy1v5:amd64 (1.2.1-1) ... 362s Selecting previously unselected package libblosc1:amd64. 362s Preparing to unpack .../051-libblosc1_1.21.5+ds-1build1_amd64.deb ... 362s Unpacking libblosc1:amd64 (1.21.5+ds-1build1) ... 362s Selecting previously unselected package libbz2-dev:amd64. 362s Preparing to unpack .../052-libbz2-dev_1.0.8-5.1_amd64.deb ... 362s Unpacking libbz2-dev:amd64 (1.0.8-5.1) ... 362s Selecting previously unselected package libpixman-1-0:amd64. 362s Preparing to unpack .../053-libpixman-1-0_0.42.2-1build1_amd64.deb ... 362s Unpacking libpixman-1-0:amd64 (0.42.2-1build1) ... 362s Selecting previously unselected package libxcb-render0:amd64. 362s Preparing to unpack .../054-libxcb-render0_1.17.0-2_amd64.deb ... 362s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 362s Selecting previously unselected package libxcb-shm0:amd64. 362s Preparing to unpack .../055-libxcb-shm0_1.17.0-2_amd64.deb ... 362s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 362s Selecting previously unselected package libxrender1:amd64. 362s Preparing to unpack .../056-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 362s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 362s Selecting previously unselected package libcairo2:amd64. 362s Preparing to unpack .../057-libcairo2_1.18.0-3build1_amd64.deb ... 362s Unpacking libcairo2:amd64 (1.18.0-3build1) ... 362s Selecting previously unselected package libcfitsio10t64:amd64. 362s Preparing to unpack .../058-libcfitsio10t64_4.3.1-1.1build2_amd64.deb ... 362s Unpacking libcfitsio10t64:amd64 (4.3.1-1.1build2) ... 362s Selecting previously unselected package libdatrie1:amd64. 362s Preparing to unpack .../059-libdatrie1_0.2.13-3build1_amd64.deb ... 362s Unpacking libdatrie1:amd64 (0.2.13-3build1) ... 362s Selecting previously unselected package libdeflate-dev:amd64. 362s Preparing to unpack .../060-libdeflate-dev_1.20-1_amd64.deb ... 362s Unpacking libdeflate-dev:amd64 (1.20-1) ... 362s Selecting previously unselected package libfyba0t64:amd64. 362s Preparing to unpack .../061-libfyba0t64_4.1.1-11build1_amd64.deb ... 362s Unpacking libfyba0t64:amd64 (4.1.1-11build1) ... 362s Selecting previously unselected package libminizip1t64:amd64. 362s Preparing to unpack .../062-libminizip1t64_1%3a1.3.dfsg-3.1ubuntu2_amd64.deb ... 362s Unpacking libminizip1t64:amd64 (1:1.3.dfsg-3.1ubuntu2) ... 362s Selecting previously unselected package libfreexl1:amd64. 362s Preparing to unpack .../063-libfreexl1_2.0.0-1build2_amd64.deb ... 362s Unpacking libfreexl1:amd64 (2.0.0-1build2) ... 362s Selecting previously unselected package libgeos3.12.1t64:amd64. 362s Preparing to unpack .../064-libgeos3.12.1t64_3.12.1-3build1_amd64.deb ... 362s Unpacking libgeos3.12.1t64:amd64 (3.12.1-3build1) ... 362s Selecting previously unselected package libgeos-c1t64:amd64. 362s Preparing to unpack .../065-libgeos-c1t64_3.12.1-3build1_amd64.deb ... 362s Unpacking libgeos-c1t64:amd64 (3.12.1-3build1) ... 362s Selecting previously unselected package proj-data. 362s Preparing to unpack .../066-proj-data_9.4.0-1build2_all.deb ... 362s Unpacking proj-data (9.4.0-1build2) ... 362s Selecting previously unselected package libproj25:amd64. 362s Preparing to unpack .../067-libproj25_9.4.0-1build2_amd64.deb ... 362s Unpacking libproj25:amd64 (9.4.0-1build2) ... 362s Selecting previously unselected package libgeotiff5:amd64. 362s Preparing to unpack .../068-libgeotiff5_1.7.1-5build1_amd64.deb ... 362s Unpacking libgeotiff5:amd64 (1.7.1-5build1) ... 362s Selecting previously unselected package libgif7:amd64. 362s Preparing to unpack .../069-libgif7_5.2.2-1ubuntu1_amd64.deb ... 362s Unpacking libgif7:amd64 (5.2.2-1ubuntu1) ... 362s Selecting previously unselected package libsz2:amd64. 362s Preparing to unpack .../070-libsz2_1.1.3-1_amd64.deb ... 362s Unpacking libsz2:amd64 (1.1.3-1) ... 362s Selecting previously unselected package libhdf4-0-alt:amd64. 362s Preparing to unpack .../071-libhdf4-0-alt_4.3.0-1_amd64.deb ... 362s Unpacking libhdf4-0-alt:amd64 (4.3.0-1) ... 362s Selecting previously unselected package libhdf5-103-1t64:amd64. 362s Preparing to unpack .../072-libhdf5-103-1t64_1.10.10+repack-3.1ubuntu4_amd64.deb ... 362s Unpacking libhdf5-103-1t64:amd64 (1.10.10+repack-3.1ubuntu4) ... 362s Selecting previously unselected package liburiparser1:amd64. 362s Preparing to unpack .../073-liburiparser1_0.9.7+dfsg-2build1_amd64.deb ... 362s Unpacking liburiparser1:amd64 (0.9.7+dfsg-2build1) ... 363s Selecting previously unselected package libkmlbase1t64:amd64. 363s Preparing to unpack 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package libjs-bootstrap4. 364s Preparing to unpack .../105-libjs-bootstrap4_4.6.1+dfsg1-4_all.deb ... 364s Unpacking libjs-bootstrap4 (4.6.1+dfsg1-4) ... 364s Selecting previously unselected package libjs-d3. 364s Preparing to unpack .../106-libjs-d3_3.5.17-4_all.deb ... 364s Unpacking libjs-d3 (3.5.17-4) ... 364s Selecting previously unselected package libjs-es5-shim. 364s Preparing to unpack .../107-libjs-es5-shim_4.6.7-2_all.deb ... 364s Unpacking libjs-es5-shim (4.6.7-2) ... 364s Selecting previously unselected package libjs-highlight.js. 364s Preparing to unpack .../108-libjs-highlight.js_9.18.5+dfsg1-2_all.deb ... 364s Unpacking libjs-highlight.js (9.18.5+dfsg1-2) ... 364s Selecting previously unselected package libjs-jquery. 364s Preparing to unpack .../109-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... 364s Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... 364s Selecting previously unselected package libjs-jquery-datatables. 364s Preparing to unpack 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libudunits2-data (2.2.28-7build1) ... 366s Selecting previously unselected package libudunits2-0. 366s Preparing to unpack .../141-libudunits2-0_2.2.28-7build1_amd64.deb ... 366s Unpacking libudunits2-0 (2.2.28-7build1) ... 366s Selecting previously unselected package libxt6t64:amd64. 366s Preparing to unpack .../142-libxt6t64_1%3a1.2.1-1.2build1_amd64.deb ... 366s Unpacking libxt6t64:amd64 (1:1.2.1-1.2build1) ... 366s Selecting previously unselected package zip. 366s Preparing to unpack .../143-zip_3.0-13build1_amd64.deb ... 366s Unpacking zip (3.0-13build1) ... 366s Selecting previously unselected package unzip. 366s Preparing to unpack .../144-unzip_6.0-28ubuntu4_amd64.deb ... 366s Unpacking unzip (6.0-28ubuntu4) ... 366s Selecting previously unselected package xdg-utils. 366s Preparing to unpack .../145-xdg-utils_1.1.3-4.1ubuntu3_all.deb ... 366s Unpacking xdg-utils (1.1.3-4.1ubuntu3) ... 366s Selecting previously unselected package r-base-core. 366s Preparing to unpack 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unselected package pandoc-data. 366s Preparing to unpack .../152-pandoc-data_3.1.3-2build2_all.deb ... 366s Unpacking pandoc-data (3.1.3-2build2) ... 366s Selecting previously unselected package pandoc. 366s Preparing to unpack .../153-pandoc_3.1.3+ds-3build1_amd64.deb ... 366s Unpacking pandoc (3.1.3+ds-3build1) ... 367s Selecting previously unselected package liblzma-dev:amd64. 367s Preparing to unpack .../154-liblzma-dev_5.6.1+really5.4.5-1_amd64.deb ... 367s Unpacking liblzma-dev:amd64 (5.6.1+really5.4.5-1) ... 367s Selecting previously unselected package pkgconf-bin. 367s Preparing to unpack .../155-pkgconf-bin_1.8.1-2build1_amd64.deb ... 367s Unpacking pkgconf-bin (1.8.1-2build1) ... 367s Selecting previously unselected package pkgconf:amd64. 367s Preparing to unpack .../156-pkgconf_1.8.1-2build1_amd64.deb ... 367s Unpacking pkgconf:amd64 (1.8.1-2build1) ... 367s Selecting previously unselected package libtirpc-dev:amd64. 367s Preparing to unpack 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unselected package r-cran-glue. 367s Preparing to unpack .../163-r-cran-glue_1.7.0-1_amd64.deb ... 367s Unpacking r-cran-glue (1.7.0-1) ... 367s Selecting previously unselected package r-cran-rlang. 367s Preparing to unpack .../164-r-cran-rlang_1.1.3-1_amd64.deb ... 367s Unpacking r-cran-rlang (1.1.3-1) ... 367s Selecting previously unselected package r-cran-lifecycle. 368s Preparing to unpack .../165-r-cran-lifecycle_1.0.4+dfsg-1_all.deb ... 368s Unpacking r-cran-lifecycle (1.0.4+dfsg-1) ... 368s Selecting previously unselected package r-cran-magrittr. 368s Preparing to unpack .../166-r-cran-magrittr_2.0.3-1_amd64.deb ... 368s Unpacking r-cran-magrittr (2.0.3-1) ... 368s Selecting previously unselected package r-cran-fansi. 368s Preparing to unpack .../167-r-cran-fansi_1.0.5-1_amd64.deb ... 368s Unpacking r-cran-fansi (1.0.5-1) ... 368s Selecting previously unselected package r-cran-utf8. 368s Preparing to unpack .../168-r-cran-utf8_1.2.4-1_amd64.deb ... 368s Unpacking r-cran-utf8 (1.2.4-1) ... 368s Selecting previously unselected package r-cran-vctrs. 368s Preparing to unpack .../169-r-cran-vctrs_0.6.5-1_amd64.deb ... 368s Unpacking r-cran-vctrs (0.6.5-1) ... 368s Selecting previously unselected package r-cran-pillar. 368s Preparing to unpack .../170-r-cran-pillar_1.9.0+dfsg-1_all.deb ... 368s Unpacking r-cran-pillar (1.9.0+dfsg-1) ... 368s Selecting previously unselected package r-cran-r6. 368s Preparing to unpack .../171-r-cran-r6_2.5.1-1_all.deb ... 368s Unpacking r-cran-r6 (2.5.1-1) ... 368s Selecting previously unselected package r-cran-pkgconfig. 368s Preparing to unpack .../172-r-cran-pkgconfig_2.0.3-2build1_all.deb ... 368s Unpacking r-cran-pkgconfig (2.0.3-2build1) ... 368s Selecting previously unselected package r-cran-tibble. 368s Preparing to unpack .../173-r-cran-tibble_3.2.1+dfsg-2_amd64.deb ... 368s Unpacking r-cran-tibble (3.2.1+dfsg-2) ... 368s Selecting previously unselected package r-cran-withr. 368s Preparing to unpack .../174-r-cran-withr_2.5.0-1_all.deb ... 368s Unpacking r-cran-withr (2.5.0-1) ... 368s Selecting previously unselected package r-cran-tidyselect. 368s Preparing to unpack .../175-r-cran-tidyselect_1.2.0+dfsg-1_amd64.deb ... 368s Unpacking r-cran-tidyselect (1.2.0+dfsg-1) ... 368s Selecting previously unselected package r-cran-dplyr. 368s Preparing to unpack .../176-r-cran-dplyr_1.1.4-1_amd64.deb ... 368s Unpacking r-cran-dplyr (1.1.4-1) ... 368s Selecting previously unselected package r-cran-purrr. 368s Preparing to unpack .../177-r-cran-purrr_1.0.2-1_amd64.deb ... 368s Unpacking r-cran-purrr (1.0.2-1) ... 368s Selecting previously unselected package r-cran-mass. 368s Preparing to unpack .../178-r-cran-mass_7.3-60.2-1_amd64.deb ... 368s Unpacking r-cran-mass (7.3-60.2-1) ... 368s Selecting previously unselected package r-cran-class. 368s Preparing to unpack .../179-r-cran-class_7.3-22-2build1_amd64.deb ... 368s Unpacking r-cran-class (7.3-22-2build1) ... 368s Selecting previously unselected package r-cran-proxy. 368s Preparing to unpack .../180-r-cran-proxy_0.4-27-1_amd64.deb ... 368s Unpacking r-cran-proxy (0.4-27-1) ... 368s Selecting previously unselected package r-cran-e1071. 368s Preparing to unpack .../181-r-cran-e1071_1.7-14-1_amd64.deb ... 368s Unpacking r-cran-e1071 (1.7-14-1) ... 368s Selecting previously unselected package r-cran-kernsmooth. 368s Preparing to unpack .../182-r-cran-kernsmooth_2.23-24-1_amd64.deb ... 368s Unpacking r-cran-kernsmooth (2.23-24-1) ... 368s Selecting previously unselected package r-cran-classint. 368s Preparing to unpack .../183-r-cran-classint_0.4-10+dfsg-1_amd64.deb ... 368s Unpacking r-cran-classint (0.4-10+dfsg-1) ... 368s Selecting previously unselected package r-cran-dbi. 368s Preparing to unpack .../184-r-cran-dbi_1.2.2-1_all.deb ... 368s Unpacking r-cran-dbi (1.2.2-1) ... 368s Selecting previously unselected package r-cran-pkgkitten. 368s Preparing to unpack .../185-r-cran-pkgkitten_0.2.3-1_all.deb ... 368s Unpacking r-cran-pkgkitten (0.2.3-1) ... 368s Selecting previously unselected package r-cran-rcpp. 368s Preparing to unpack .../186-r-cran-rcpp_1.0.12-1_amd64.deb ... 368s Unpacking r-cran-rcpp (1.0.12-1) ... 369s Selecting previously unselected package r-cran-wk. 369s Preparing to unpack .../187-r-cran-wk_0.9.1-1_amd64.deb ... 369s Unpacking r-cran-wk (0.9.1-1) ... 369s Selecting previously unselected package r-cran-s2. 369s Preparing to unpack .../188-r-cran-s2_1.1.6-1build2_amd64.deb ... 369s Unpacking r-cran-s2 (1.1.6-1build2) ... 369s Selecting previously unselected package r-cran-units. 369s Preparing to unpack .../189-r-cran-units_0.8-5+dfsg-1_amd64.deb ... 369s Unpacking r-cran-units (0.8-5+dfsg-1) ... 369s Selecting previously unselected package r-cran-sf. 369s Preparing to unpack .../190-r-cran-sf_1.0-16+dfsg-1_amd64.deb ... 369s Unpacking r-cran-sf (1.0-16+dfsg-1) ... 369s Selecting previously unselected package r-cran-areal. 369s Preparing to unpack .../191-r-cran-areal_0.1.8+dfsg-2_all.deb ... 369s Unpacking r-cran-areal (0.1.8+dfsg-2) ... 369s Selecting previously unselected package r-cran-sys. 369s Preparing to unpack .../192-r-cran-sys_3.4.2-1_amd64.deb ... 369s Unpacking r-cran-sys (3.4.2-1) ... 369s Selecting previously unselected package r-cran-askpass. 369s Preparing to unpack .../193-r-cran-askpass_1.2.0-1_amd64.deb ... 369s Unpacking r-cran-askpass (1.2.0-1) ... 369s Selecting previously unselected package r-cran-base64enc. 369s Preparing to unpack .../194-r-cran-base64enc_0.1-3-3_amd64.deb ... 369s Unpacking r-cran-base64enc (0.1-3-3) ... 369s Selecting previously unselected package r-cran-bdsmatrix. 369s Preparing to unpack .../195-r-cran-bdsmatrix_1.3-7-1_amd64.deb ... 369s Unpacking r-cran-bdsmatrix (1.3-7-1) ... 369s Selecting previously unselected package r-cran-brio. 369s Preparing to unpack .../196-r-cran-brio_1.1.5-1_amd64.deb ... 369s Unpacking r-cran-brio (1.1.5-1) ... 369s Selecting previously unselected package r-cran-fastmap. 369s Preparing to unpack .../197-r-cran-fastmap_1.1.1-1_amd64.deb ... 369s Unpacking r-cran-fastmap (1.1.1-1) ... 369s Selecting previously unselected package r-cran-cachem. 369s Preparing to unpack .../198-r-cran-cachem_1.0.8-1_amd64.deb ... 369s Unpacking r-cran-cachem (1.0.8-1) ... 369s Selecting previously unselected package r-cran-digest. 369s Preparing to unpack .../199-r-cran-digest_0.6.35-1_amd64.deb ... 369s Unpacking r-cran-digest (0.6.35-1) ... 369s Selecting previously unselected package r-cran-htmltools. 369s Preparing to unpack .../200-r-cran-htmltools_0.5.8.1-1_amd64.deb ... 369s Unpacking r-cran-htmltools (0.5.8.1-1) ... 369s Selecting previously unselected package r-cran-jquerylib. 369s Preparing to unpack .../201-r-cran-jquerylib_0.1.4+dfsg-4_all.deb ... 369s Unpacking r-cran-jquerylib (0.1.4+dfsg-4) ... 369s Selecting previously unselected package r-cran-jsonlite. 369s Preparing to unpack .../202-r-cran-jsonlite_1.8.8+dfsg-1_amd64.deb ... 369s Unpacking r-cran-jsonlite (1.8.8+dfsg-1) ... 369s Selecting previously unselected package r-cran-memoise. 369s Preparing to unpack .../203-r-cran-memoise_2.0.1-1_all.deb ... 369s Unpacking r-cran-memoise (2.0.1-1) ... 369s Selecting previously unselected package r-cran-mime. 369s Preparing to unpack .../204-r-cran-mime_0.12-2_amd64.deb ... 369s Unpacking r-cran-mime (0.12-2) ... 369s Selecting previously unselected package r-cran-fs. 369s Preparing to unpack .../205-r-cran-fs_1.6.3+dfsg-1build2_amd64.deb ... 369s Unpacking r-cran-fs (1.6.3+dfsg-1build2) ... 369s Selecting previously unselected package r-cran-rappdirs. 369s Preparing to unpack .../206-r-cran-rappdirs_0.3.3-1_amd64.deb ... 369s Unpacking r-cran-rappdirs (0.3.3-1) ... 369s Selecting previously unselected package r-cran-sass. 369s Preparing to unpack .../207-r-cran-sass_0.4.9+dfsg-1_amd64.deb ... 369s Unpacking r-cran-sass (0.4.9+dfsg-1) ... 369s Selecting previously unselected package r-cran-bslib. 369s Preparing to unpack .../208-r-cran-bslib_0.7.0+dfsg-1_all.deb ... 369s Unpacking r-cran-bslib (0.7.0+dfsg-1) ... 370s Selecting previously unselected package r-cran-cairo. 370s Preparing to unpack .../209-r-cran-cairo_1.6-2-1_amd64.deb ... 370s Unpacking r-cran-cairo (1.6-2-1) ... 370s Selecting previously unselected package r-cran-ps. 370s Preparing to unpack .../210-r-cran-ps_1.7.6-1_amd64.deb ... 370s Unpacking r-cran-ps (1.7.6-1) ... 370s Selecting previously unselected package r-cran-processx. 370s Preparing to unpack .../211-r-cran-processx_3.8.3-1_amd64.deb ... 370s Unpacking r-cran-processx (3.8.3-1) ... 370s Selecting previously unselected package r-cran-callr. 370s Preparing to unpack .../212-r-cran-callr_3.7.6-1_all.deb ... 370s Unpacking r-cran-callr (3.7.6-1) ... 370s Selecting previously unselected package r-cran-cluster. 370s Preparing to unpack .../213-r-cran-cluster_2.1.6-1build1_amd64.deb ... 370s Unpacking r-cran-cluster (2.1.6-1build1) ... 370s Selecting previously unselected package r-cran-clue. 370s Preparing to unpack .../214-r-cran-clue_0.3-65-1_amd64.deb ... 370s Unpacking r-cran-clue (0.3-65-1) ... 370s Selecting previously unselected package r-cran-codetools. 370s Preparing to unpack .../215-r-cran-codetools_0.2-20-1_all.deb ... 370s Unpacking r-cran-codetools (0.2-20-1) ... 370s Selecting previously unselected package r-cran-collapse. 370s Preparing to unpack .../216-r-cran-collapse_2.0.13-1_amd64.deb ... 370s Unpacking r-cran-collapse (2.0.13-1) ... 370s Selecting previously unselected package r-cran-colorspace. 370s Preparing to unpack .../217-r-cran-colorspace_2.1-0+dfsg-1_amd64.deb ... 370s Unpacking r-cran-colorspace (2.1-0+dfsg-1) ... 370s Selecting previously unselected package r-cran-commonmark. 370s Preparing to unpack .../218-r-cran-commonmark_1.9.1-1_amd64.deb ... 370s Unpacking r-cran-commonmark (1.9.1-1) ... 370s Selecting previously unselected package r-cran-lazyeval. 370s Preparing to unpack .../219-r-cran-lazyeval_0.2.2-1build1_amd64.deb ... 370s Unpacking r-cran-lazyeval (0.2.2-1build1) ... 370s Selecting previously unselected package r-cran-rex. 370s Preparing to unpack .../220-r-cran-rex_1.2.1-1_all.deb ... 370s Unpacking r-cran-rex (1.2.1-1) ... 370s Selecting previously unselected package r-cran-curl. 370s Preparing to unpack .../221-r-cran-curl_5.2.0+dfsg-1build2_amd64.deb ... 370s Unpacking r-cran-curl (5.2.0+dfsg-1build2) ... 370s Selecting previously unselected package r-cran-openssl. 370s Preparing to unpack .../222-r-cran-openssl_2.1.1+dfsg-2build2_amd64.deb ... 370s Unpacking r-cran-openssl (2.1.1+dfsg-2build2) ... 370s Selecting previously unselected package r-cran-httr. 370s Preparing to unpack .../223-r-cran-httr_1.4.7+dfsg-1_all.deb ... 370s Unpacking r-cran-httr (1.4.7+dfsg-1) ... 370s Selecting previously unselected package r-cran-crayon. 370s Preparing to unpack .../224-r-cran-crayon_1.5.2-1_all.deb ... 370s Unpacking r-cran-crayon (1.5.2-1) ... 370s Selecting previously unselected package r-cran-yaml. 370s Preparing to unpack .../225-r-cran-yaml_2.3.8-2_amd64.deb ... 370s Unpacking r-cran-yaml (2.3.8-2) ... 370s Selecting previously unselected package r-cran-covr. 370s Preparing to unpack .../226-r-cran-covr_3.6.4+dfsg-1_amd64.deb ... 370s Unpacking r-cran-covr (3.6.4+dfsg-1) ... 370s Selecting previously unselected package r-cran-cpp11. 370s Preparing to unpack .../227-r-cran-cpp11_0.4.7-1_all.deb ... 370s Unpacking r-cran-cpp11 (0.4.7-1) ... 370s Selecting previously unselected package r-cran-deldir. 370s Preparing to unpack .../228-r-cran-deldir_2.0-4-1build1_amd64.deb ... 370s Unpacking r-cran-deldir (2.0-4-1build1) ... 370s Selecting previously unselected package r-cran-desc. 370s Preparing to unpack .../229-r-cran-desc_1.4.3-1_all.deb ... 370s Unpacking r-cran-desc (1.4.3-1) ... 370s Selecting previously unselected package r-cran-diffobj. 370s Preparing to unpack .../230-r-cran-diffobj_0.3.5-1_amd64.deb ... 370s Unpacking r-cran-diffobj (0.3.5-1) ... 371s Selecting previously unselected package r-cran-evaluate. 371s Preparing to unpack .../231-r-cran-evaluate_0.23-1_all.deb ... 371s Unpacking r-cran-evaluate (0.23-1) ... 371s Selecting previously unselected package r-cran-farver. 371s Preparing to unpack .../232-r-cran-farver_2.1.1-2_amd64.deb ... 371s Unpacking r-cran-farver (2.1.1-2) ... 371s Selecting previously unselected package r-cran-fnn. 371s Preparing to unpack .../233-r-cran-fnn_1.1.4-1_amd64.deb ... 371s Unpacking r-cran-fnn (1.1.4-1) ... 371s Selecting previously unselected package r-cran-fontawesome. 371s Preparing to unpack .../234-r-cran-fontawesome_0.5.2-1_all.deb ... 371s Unpacking r-cran-fontawesome (0.5.2-1) ... 371s Selecting previously unselected package r-cran-formula. 371s Preparing to unpack .../235-r-cran-formula_1.2-5-1_all.deb ... 371s Unpacking r-cran-formula (1.2-5-1) ... 371s Selecting previously unselected package r-cran-globals. 371s Preparing to unpack .../236-r-cran-globals_0.16.3-1_all.deb ... 371s Unpacking r-cran-globals (0.16.3-1) ... 371s Selecting previously unselected package r-cran-listenv. 371s Preparing to unpack .../237-r-cran-listenv_0.9.1+dfsg-1_all.deb ... 371s Unpacking r-cran-listenv (0.9.1+dfsg-1) ... 371s Selecting previously unselected package r-cran-parallelly. 371s Preparing to unpack .../238-r-cran-parallelly_1.37.1-1build1_amd64.deb ... 371s Unpacking r-cran-parallelly (1.37.1-1build1) ... 371s Selecting previously unselected package r-cran-future. 371s Preparing to unpack .../239-r-cran-future_1.33.1+dfsg-1_all.deb ... 371s Unpacking r-cran-future (1.33.1+dfsg-1) ... 371s Selecting previously unselected package r-cran-future.apply. 371s Preparing to unpack .../240-r-cran-future.apply_1.11.2+dfsg-1_all.deb ... 371s Unpacking r-cran-future.apply (1.11.2+dfsg-1) ... 371s Selecting previously unselected package r-cran-gtable. 371s Preparing to unpack .../241-r-cran-gtable_0.3.4+dfsg-1_all.deb ... 371s Unpacking r-cran-gtable (0.3.4+dfsg-1) ... 371s Selecting previously unselected package r-cran-isoband. 371s Preparing to unpack .../242-r-cran-isoband_0.2.7-1_amd64.deb ... 371s Unpacking r-cran-isoband (0.2.7-1) ... 371s Selecting previously unselected package r-cran-lattice. 371s Preparing to unpack .../243-r-cran-lattice_0.22-6-1_amd64.deb ... 371s Unpacking r-cran-lattice (0.22-6-1) ... 371s Selecting previously unselected package r-cran-nlme. 371s Preparing to unpack .../244-r-cran-nlme_3.1.164-1build1_amd64.deb ... 371s Unpacking r-cran-nlme (3.1.164-1build1) ... 371s Selecting previously unselected package r-cran-matrix. 371s Preparing to unpack .../245-r-cran-matrix_1.6-5-1_amd64.deb ... 371s Unpacking r-cran-matrix (1.6-5-1) ... 371s Selecting previously unselected package r-cran-mgcv. 371s Preparing to unpack .../246-r-cran-mgcv_1.9-1-1_amd64.deb ... 371s Unpacking r-cran-mgcv (1.9-1-1) ... 371s Selecting previously unselected package r-cran-labeling. 371s Preparing to unpack .../247-r-cran-labeling_0.4.3-1_all.deb ... 371s Unpacking r-cran-labeling (0.4.3-1) ... 371s Selecting previously unselected package r-cran-munsell. 371s Preparing to unpack .../248-r-cran-munsell_0.5.0-2build1_all.deb ... 371s Unpacking r-cran-munsell (0.5.0-2build1) ... 371s Selecting previously unselected package r-cran-rcolorbrewer. 371s Preparing to unpack .../249-r-cran-rcolorbrewer_1.1-3-1build1_all.deb ... 371s Unpacking r-cran-rcolorbrewer (1.1-3-1build1) ... 371s Selecting previously unselected package r-cran-viridislite. 371s Preparing to unpack .../250-r-cran-viridislite_0.4.2-2_all.deb ... 371s Unpacking r-cran-viridislite (0.4.2-2) ... 371s Selecting previously unselected package r-cran-scales. 371s Preparing to unpack .../251-r-cran-scales_1.3.0-1_all.deb ... 371s Unpacking r-cran-scales (1.3.0-1) ... 371s Selecting previously unselected package r-cran-ggplot2. 371s Preparing to unpack .../252-r-cran-ggplot2_3.5.1+dfsg-1_all.deb ... 371s Unpacking r-cran-ggplot2 (3.5.1+dfsg-1) ... 371s Selecting previously unselected package r-cran-tweenr. 371s Preparing to unpack .../253-r-cran-tweenr_2.0.3-1_amd64.deb ... 371s Unpacking r-cran-tweenr (2.0.3-1) ... 372s Selecting previously unselected package r-cran-polyclip. 372s Preparing to unpack .../254-r-cran-polyclip_1.10-6-1_amd64.deb ... 372s Unpacking r-cran-polyclip (1.10-6-1) ... 372s Selecting previously unselected package r-cran-systemfonts. 372s Preparing to unpack .../255-r-cran-systemfonts_1.0.5-1_amd64.deb ... 372s Unpacking r-cran-systemfonts (1.0.5-1) ... 372s Selecting previously unselected package r-cran-rcppeigen. 372s Preparing to unpack .../256-r-cran-rcppeigen_0.3.4.0.0-1build1_amd64.deb ... 372s Unpacking r-cran-rcppeigen (0.3.4.0.0-1build1) ... 372s Selecting previously unselected package r-cran-ggforce. 372s Preparing to unpack .../257-r-cran-ggforce_0.4.2-1_amd64.deb ... 372s Unpacking r-cran-ggforce (0.4.2-1) ... 372s Selecting previously unselected package r-cran-stringi. 372s Preparing to unpack .../258-r-cran-stringi_1.8.3-1_amd64.deb ... 372s Unpacking r-cran-stringi (1.8.3-1) ... 372s Selecting previously unselected package r-cran-stringr. 372s Preparing to unpack .../259-r-cran-stringr_1.5.1-1_all.deb ... 372s Unpacking r-cran-stringr (1.5.1-1) ... 372s Selecting previously unselected package r-cran-ggthemes. 372s Preparing to unpack .../260-r-cran-ggthemes_5.1.0-1_all.deb ... 372s Unpacking r-cran-ggthemes (5.1.0-1) ... 372s Selecting previously unselected package r-cran-goftest. 372s Preparing to unpack .../261-r-cran-goftest_1.2-3-1_amd64.deb ... 372s Unpacking r-cran-goftest (1.2-3-1) ... 372s Selecting previously unselected package r-cran-gridextra. 372s Preparing to unpack .../262-r-cran-gridextra_2.3-3build1_all.deb ... 372s Unpacking r-cran-gridextra (2.3-3build1) ... 372s Selecting previously unselected package r-cran-xfun. 372s Preparing to unpack .../263-r-cran-xfun_0.44+dfsg-1_amd64.deb ... 372s Unpacking r-cran-xfun (0.44+dfsg-1) ... 372s Selecting previously unselected package r-cran-highr. 372s Preparing to unpack .../264-r-cran-highr_0.10+dfsg-2_all.deb ... 372s Unpacking r-cran-highr (0.10+dfsg-2) ... 372s Selecting previously unselected package r-cran-later. 372s Preparing to unpack .../265-r-cran-later_1.3.2+dfsg-1_amd64.deb ... 372s Unpacking r-cran-later (1.3.2+dfsg-1) ... 372s Selecting previously unselected package r-cran-promises. 372s Preparing to unpack .../266-r-cran-promises_1.3.0+dfsg-1_amd64.deb ... 372s Unpacking r-cran-promises (1.3.0+dfsg-1) ... 372s Selecting previously unselected package r-cran-httpuv. 372s Preparing to unpack .../267-r-cran-httpuv_1.6.15+dfsg-1_amd64.deb ... 372s Unpacking r-cran-httpuv (1.6.15+dfsg-1) ... 372s Selecting previously unselected package r-cran-intervals. 372s Preparing to unpack .../268-r-cran-intervals_0.15.4-1_amd64.deb ... 372s Unpacking r-cran-intervals (0.15.4-1) ... 372s Selecting previously unselected package libjs-mathjax. 372s Preparing to unpack .../269-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 372s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 373s Selecting previously unselected package r-cran-knitr. 373s Preparing to unpack .../270-r-cran-knitr_1.46+dfsg-1_all.deb ... 373s Unpacking r-cran-knitr (1.46+dfsg-1) ... 373s Selecting previously unselected package r-cran-zoo. 373s Preparing to unpack .../271-r-cran-zoo_1.8-12-2_amd64.deb ... 373s Unpacking r-cran-zoo (1.8-12-2) ... 373s Selecting previously unselected package r-cran-lmtest. 373s Preparing to unpack .../272-r-cran-lmtest_0.9.40-1_amd64.deb ... 373s Unpacking r-cran-lmtest (0.9.40-1) ... 373s Selecting previously unselected package r-cran-lwgeom. 373s Preparing to unpack .../273-r-cran-lwgeom_0.2-13-3build2_amd64.deb ... 373s Unpacking r-cran-lwgeom (0.2-13-3build2) ... 373s Selecting previously unselected package r-cran-maps. 373s Preparing to unpack .../274-r-cran-maps_3.4.2-1_amd64.deb ... 373s Unpacking r-cran-maps (3.4.2-1) ... 373s Selecting previously unselected package r-cran-mapdata. 373s Preparing to unpack .../275-r-cran-mapdata_2.3.1-1_amd64.deb ... 373s Unpacking r-cran-mapdata (2.3.1-1) ... 374s Selecting previously unselected package r-cran-misctools. 374s Preparing to unpack .../276-r-cran-misctools_0.6-28-1_all.deb ... 374s Unpacking r-cran-misctools (0.6-28-1) ... 374s Selecting previously unselected package r-cran-sandwich. 374s Preparing to unpack .../277-r-cran-sandwich_3.1-0-1_all.deb ... 374s Unpacking r-cran-sandwich (3.1-0-1) ... 374s Selecting previously unselected package r-cran-maxlik. 374s Preparing to unpack .../278-r-cran-maxlik_1.5-2-1_all.deb ... 374s Unpacking r-cran-maxlik (1.5-2-1) ... 374s Selecting previously unselected package r-cran-rnetcdf. 374s Preparing to unpack .../279-r-cran-rnetcdf_2.9-1-1build2_amd64.deb ... 374s Unpacking r-cran-rnetcdf (2.9-1-1build2) ... 374s Selecting previously unselected package r-cran-tidyr. 374s Preparing to unpack .../280-r-cran-tidyr_1.3.1-1_amd64.deb ... 374s Unpacking r-cran-tidyr (1.3.1-1) ... 374s Selecting previously unselected package r-cran-ncmeta. 374s Preparing to unpack .../281-r-cran-ncmeta_0.3.6-1_all.deb ... 374s Unpacking r-cran-ncmeta (0.3.6-1) ... 374s Selecting previously unselected package r-cran-stars. 374s Preparing to unpack .../282-r-cran-stars_0.6-4-1_all.deb ... 374s Unpacking r-cran-stars (0.6-4-1) ... 374s Selecting previously unselected package r-cran-ncdfgeom. 374s Preparing to unpack .../283-r-cran-ncdfgeom_1.1.6+dfsg-1_all.deb ... 374s Unpacking r-cran-ncdfgeom (1.1.6+dfsg-1) ... 374s Selecting previously unselected package r-cran-pbapply. 374s Preparing to unpack .../284-r-cran-pbapply_1.7-2-1_all.deb ... 374s Unpacking r-cran-pbapply (1.7-2-1) ... 374s Selecting previously unselected package r-cran-pcict. 374s Preparing to unpack .../285-r-cran-pcict_0.5-4.4-1_amd64.deb ... 374s Unpacking r-cran-pcict (0.5-4.4-1) ... 374s Selecting previously unselected package r-cran-pkgbuild. 374s Preparing to unpack .../286-r-cran-pkgbuild_1.4.3-1_all.deb ... 374s Unpacking r-cran-pkgbuild (1.4.3-1) ... 374s Selecting previously unselected package r-cran-rprojroot. 374s Preparing to unpack .../287-r-cran-rprojroot_2.0.4-1_all.deb ... 374s Unpacking r-cran-rprojroot (2.0.4-1) ... 374s Selecting previously unselected package r-cran-pkgload. 374s Preparing to unpack .../288-r-cran-pkgload_1.3.4-1_all.deb ... 374s Unpacking r-cran-pkgload (1.3.4-1) ... 374s Selecting previously unselected package r-cran-rbibutils. 374s Preparing to unpack .../289-r-cran-rbibutils_2.2.16-1_amd64.deb ... 374s Unpacking r-cran-rbibutils (2.2.16-1) ... 374s Selecting previously unselected package r-cran-rdpack. 374s Preparing to unpack .../290-r-cran-rdpack_2.6-1_all.deb ... 374s Unpacking r-cran-rdpack (2.6-1) ... 374s Selecting previously unselected package r-cran-plm. 374s Preparing to unpack .../291-r-cran-plm_2.6-4-1_all.deb ... 374s Unpacking r-cran-plm (2.6-4-1) ... 374s Selecting previously unselected package r-cran-praise. 375s Preparing to unpack .../292-r-cran-praise_1.0.0-4build1_all.deb ... 375s Unpacking r-cran-praise (1.0.0-4build1) ... 375s Selecting previously unselected package r-cran-randomforest. 375s Preparing to unpack .../293-r-cran-randomforest_4.7-1.1-1_amd64.deb ... 375s Unpacking r-cran-randomforest (4.7-1.1-1) ... 375s Selecting previously unselected package r-cran-sp. 375s Preparing to unpack .../294-r-cran-sp_1%3a2.1-2+dfsg-1_amd64.deb ... 375s Unpacking r-cran-sp (1:2.1-2+dfsg-1) ... 375s Selecting previously unselected package r-cran-terra. 375s Preparing to unpack .../295-r-cran-terra_1.7-65-1build2_amd64.deb ... 375s Unpacking r-cran-terra (1.7-65-1build2) ... 375s Selecting previously unselected package r-cran-raster. 375s Preparing to unpack .../296-r-cran-raster_3.6-26-1_amd64.deb ... 375s Unpacking r-cran-raster (3.6-26-1) ... 375s Selecting previously unselected package r-cran-rematch2. 375s Preparing to unpack .../297-r-cran-rematch2_2.1.2-2build1_all.deb ... 375s Unpacking r-cran-rematch2 (2.1.2-2build1) ... 375s Selecting previously unselected package r-cran-tinytex. 375s Preparing to unpack .../298-r-cran-tinytex_0.49-1_all.deb ... 375s Unpacking r-cran-tinytex (0.49-1) ... 375s Selecting previously unselected package libjs-modernizr. 375s Preparing to unpack .../299-libjs-modernizr_3.13.0-0.1_all.deb ... 375s Unpacking libjs-modernizr (3.13.0-0.1) ... 375s Selecting previously unselected package r-cran-xtable. 375s Preparing to unpack .../300-r-cran-xtable_1%3a1.8-4-2_all.deb ... 375s Unpacking r-cran-xtable (1:1.8-4-2) ... 375s Selecting previously unselected package r-cran-sourcetools. 375s Preparing to unpack .../301-r-cran-sourcetools_0.1.7-1-1_amd64.deb ... 375s Unpacking r-cran-sourcetools (0.1.7-1-1) ... 375s Selecting previously unselected package libjs-twitter-bootstrap-datepicker. 375s Preparing to unpack .../302-libjs-twitter-bootstrap-datepicker_1.3.1+dfsg1-4.1_all.deb ... 375s Unpacking libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... 375s Selecting previously unselected package r-cran-shiny. 375s Preparing to unpack .../303-r-cran-shiny_1.8.1.1+dfsg-1_all.deb ... 375s Unpacking r-cran-shiny (1.8.1.1+dfsg-1) ... 375s Selecting previously unselected package r-cran-rmarkdown. 375s Preparing to unpack .../304-r-cran-rmarkdown_2.25+dfsg-3_all.deb ... 375s Unpacking r-cran-rmarkdown (2.25+dfsg-3) ... 375s Selecting previously unselected package r-cran-survival. 375s Preparing to unpack .../305-r-cran-survival_3.5-8-1_amd64.deb ... 375s Unpacking r-cran-survival (3.5-8-1) ... 375s Selecting previously unselected package r-cran-rpart. 375s Preparing to unpack .../306-r-cran-rpart_4.1.23-1build1_amd64.deb ... 375s Unpacking r-cran-rpart (4.1.23-1build1) ... 375s Selecting previously unselected package r-cran-xts. 375s Preparing to unpack .../307-r-cran-xts_0.13.2-1_amd64.deb ... 375s Unpacking r-cran-xts (0.13.2-1) ... 375s Selecting previously unselected package r-cran-spacetime. 375s Preparing to unpack .../308-r-cran-spacetime_1.3-1-1_all.deb ... 375s Unpacking r-cran-spacetime (1.3-1-1) ... 375s Selecting previously unselected package r-cran-spatstat.utils. 375s Preparing to unpack .../309-r-cran-spatstat.utils_3.0-4-1_amd64.deb ... 375s Unpacking r-cran-spatstat.utils (3.0-4-1) ... 375s Selecting previously unselected package r-cran-spatstat.data. 375s Preparing to unpack .../310-r-cran-spatstat.data_3.0-4-1_all.deb ... 375s Unpacking r-cran-spatstat.data (3.0-4-1) ... 376s Selecting previously unselected package r-cran-spatstat.geom. 376s Preparing to unpack .../311-r-cran-spatstat.geom_3.2-9-1_amd64.deb ... 376s Unpacking r-cran-spatstat.geom (3.2-9-1) ... 376s Selecting previously unselected package r-cran-spatstat.random. 376s Preparing to unpack .../312-r-cran-spatstat.random_3.2-3-1_amd64.deb ... 376s Unpacking r-cran-spatstat.random (3.2-3-1) ... 376s Selecting previously unselected package r-cran-tensor. 376s Preparing to unpack .../313-r-cran-tensor_1.5-4_all.deb 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up libaec0:amd64 (1.1.3-1) ... 379s Setting up gdal-data (3.8.5+dfsg-1) ... 379s Setting up libgeotiff5:amd64 (1.7.1-5build1) ... 379s Setting up libsnappy1v5:amd64 (1.2.1-1) ... 379s Setting up libjs-es5-shim (4.6.7-2) ... 379s Setting up zip (3.0-13build1) ... 379s Setting up libpcre2-32-0:amd64 (10.42-4ubuntu2) ... 379s Setting up libblas3:amd64 (3.12.0-3build1) ... 379s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode 379s Setting up libtirpc-dev:amd64 (1.3.4+ds-1.3) ... 379s Setting up libpkgconf3:amd64 (1.8.1-2build1) ... 379s Setting up gcc-13-base:amd64 (13.2.0-23ubuntu4) ... 379s Setting up libcfitsio10t64:amd64 (4.3.1-1.1build2) ... 379s Setting up libquadmath0:amd64 (14.1.0-1ubuntu1) ... 379s Setting up libjs-d3 (3.5.17-4) ... 379s Setting up libmpc3:amd64 (1.3.1-1build1) ... 379s Setting up libatomic1:amd64 (14.1.0-1ubuntu1) ... 379s Setting up 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installed.) 392s Removing autopkgtest-satdep (0) ... 393s autopkgtest [10:45:18]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest 393s autopkgtest [10:45:18]: test pkg-r-autopkgtest: [----------------------- 393s Test: Try to load the R library stars 393s 393s R version 4.4.0 (2024-04-24) -- "Puppy Cup" 393s Copyright (C) 2024 The R Foundation for Statistical Computing 393s Platform: x86_64-pc-linux-gnu 393s 393s R is free software and comes with ABSOLUTELY NO WARRANTY. 393s You are welcome to redistribute it under certain conditions. 393s Type 'license()' or 'licence()' for distribution details. 393s 393s R is a collaborative project with many contributors. 393s Type 'contributors()' for more information and 393s 'citation()' on how to cite R or R packages in publications. 393s 393s Type 'demo()' for some demos, 'help()' for on-line help, or 393s 'help.start()' for an HTML browser interface to help. 393s Type 'q()' to quit R. 393s 393s > library('stars') 393s Loading required package: abind 393s Loading required package: sf 393s Linking to GEOS 3.12.1, GDAL 3.8.5, PROJ 9.4.0; sf_use_s2() is TRUE 394s > 394s > 394s Other tests are currently unsupported! 394s They will be progressively added. 394s autopkgtest [10:45:19]: test pkg-r-autopkgtest: -----------------------] 394s pkg-r-autopkgtest PASS 394s autopkgtest [10:45:19]: test pkg-r-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 394s autopkgtest [10:45:19]: @@@@@@@@@@@@@@@@@@@@ summary 394s run-unit-test PASS 394s pkg-r-autopkgtest PASS 412s HttpException: 500: Server Error for url: https://glance.ps5.canonical.com:9292/v2/images/bfc0849f-cb68-4883-a64a-ae724e062cdb, Internal Server Error 412s Creating nova instance adt-oracular-amd64-r-cran-stars-20240524-094623-juju-7f2275-prod-proposed-migration-environment-2-a8fc73d8-b8c2-4c64-87ab-3300fe6d8cef from image adt/ubuntu-oracular-amd64-server-20240524.img (UUID bfc0849f-cb68-4883-a64a-ae724e062cdb)... 412s flock: timeout while waiting to get lock 412s Creating nova instance adt-oracular-amd64-r-cran-stars-20240524-094623-juju-7f2275-prod-proposed-migration-environment-2-a8fc73d8-b8c2-4c64-87ab-3300fe6d8cef from image adt/ubuntu-oracular-amd64-server-20240524.img (UUID bfc0849f-cb68-4883-a64a-ae724e062cdb)...