Output log from calling renv::restore() on a new computer. This is testing on Ubuntu 22.04, renv 0.16.0.

renv_restore.log

> renv::restore()

Welcome to renv!

It looks like this is your first time using renv. This is a one-time message,
briefly describing some of renv's functionality.

renv maintains a local cache of data on the filesystem, located at:

  - "~/.cache/R/renv"

This path can be customized: please see the documentation in `?renv::paths`.

renv will also write to files within the active project folder, including:

  - A folder 'renv' in the project directory, and
  - A lockfile called 'renv.lock' in the project directory.

In particular, projects using renv will normally use a private, per-project
R library, in which new packages will be installed. This project library is
isolated from other R libraries on your system.

In addition, renv will update files within your project directory, including:

  - .gitignore
  - .Rbuildignore
  - .Rprofile

Please read the introduction vignette with `vignette("renv")` for more information.
You can browse the package documentation online at https://rstudio.github.io/renv/.
Do you want to proceed? [y/N]: y
* "~/.cache/R/renv" has been created.

This project has not yet been activated.
Activating this project will ensure the project library is used during restore.
Please see `?renv::activate` for more details.

Would you like to activate this project before restore? [Y/n]: y
* Project '~/GBM' loaded. [renv 0.16.0]
* The project library is out of sync with the lockfile.
* Use `renv::restore()` to install packages recorded in the lockfile.
The following package(s) will be updated:

# Bioconductor =======================
- BiocGenerics       [* -> 0.42.0]
- ComplexHeatmap     [* -> 2.12.1]
- IRanges            [* -> 2.30.1]
- S4Vectors          [* -> 0.34.0]

# CRAN ===============================
- BiocManager        [* -> 1.30.19]
- DBI                [* -> 1.1.3]
- GSA                [* -> 1.03.2]
- GetoptLong         [* -> 1.0.5]
- GlobalOptions      [* -> 0.1.2]
- KMsurv             [* -> 0.1-5]
- MASS               [* -> 7.3-58.1]
- Matrix             [* -> 1.5-3]
- MatrixModels       [* -> 0.5-1]
- R6                 [* -> 2.5.1]
- RColorBrewer       [* -> 1.1-3]
- Rcpp               [* -> 1.0.9]
- RcppEigen          [* -> 0.3.3.9.3]
- Rttf2pt1           [* -> 1.3.11]
- SparseM            [* -> 1.81]
- abind              [* -> 1.4-5]
- askpass            [* -> 1.1]
- assertthat         [* -> 0.2.1]
- backports          [* -> 1.4.1]
- base64enc          [* -> 0.1-3]
- bit                [* -> 4.0.5]
- bit64              [* -> 4.0.5]
- blob               [* -> 1.2.3]
- boot               [* -> 1.3-28.1]
- brio               [* -> 1.1.3]
- broom              [* -> 1.0.1]
- bslib              [* -> 0.4.1]
- cachem             [* -> 1.0.6]
- callr              [* -> 3.7.3]
- car                [* -> 3.1-1]
- carData            [* -> 3.0-5]
- cellranger         [* -> 1.1.0]
- circlize           [* -> 0.4.15]
- class              [* -> 7.3-20]
- cli                [* -> 3.4.1]
- clipr              [* -> 0.8.0]
- clue               [* -> 0.3-63]
- cluster            [* -> 2.1.4]
- codetools          [* -> 0.2-18]
- colorspace         [* -> 2.0-3]
- commonmark         [* -> 1.8.1]
- corrplot           [* -> 0.92]
- cowplot            [* -> 1.1.1]
- cpp11              [* -> 0.4.3]
- crayon             [* -> 1.5.2]
- curl               [* -> 4.3.3]
- data.table         [* -> 1.14.6]
- dbplyr             [* -> 2.2.1]
- desc               [* -> 1.4.2]
- diffobj            [* -> 0.3.5]
- digest             [* -> 0.6.30]
- doParallel         [* -> 1.0.17]
- dplyr              [* -> 1.0.10]
- dtplyr             [* -> 1.2.2]
- e1071              [* -> 1.7-12]
- ellipsis           [* -> 0.3.2]
- evaluate           [* -> 0.18]
- exactRankTests     [* -> 0.8-35]
- extrafont          [* -> 0.18]
- extrafontdb        [* -> 1.0]
- fansi              [* -> 1.0.3]
- farver             [* -> 2.1.1]
- fastmap            [* -> 1.1.0]
- forcats            [* -> 0.5.2]
- foreach            [* -> 1.5.2]
- fs                 [* -> 1.5.2]
- gargle             [* -> 1.2.1]
- gdata              [* -> 2.18.0.1]
- generics           [* -> 0.1.3]
- ggplot2            [* -> 3.4.0]
- ggpubr             [* -> 0.5.0]
- ggrepel            [* -> 0.9.2]
- ggsci              [* -> 2.9]
- ggsignif           [* -> 0.6.4]
- ggtext             [* -> 0.1.2]
- glue               [* -> 1.6.2]
- gmodels            [* -> 2.18.1.1]
- googledrive        [* -> 2.0.0]
- googlesheets4      [* -> 1.0.1]
- gridExtra          [* -> 2.3]
- gridtext           [* -> 0.1.5]
- gtable             [* -> 0.3.1]
- gtools             [* -> 3.9.4]
- haven              [* -> 2.5.1]
- highr              [* -> 0.9]
- hms                [* -> 1.1.2]
- htmltools          [* -> 0.5.3]
- httr               [* -> 1.4.4]
- ids                [* -> 1.0.1]
- isoband            [* -> 0.2.6]
- iterators          [* -> 1.0.14]
- jpeg               [* -> 0.1-10]
- jquerylib          [* -> 0.1.4]
- jsonlite           [* -> 1.8.3]
- km.ci              [* -> 0.5-6]
- knitr              [* -> 1.41]
- labeling           [* -> 0.4.2]
- labelled           [* -> 2.10.0]
- lifecycle          [* -> 1.0.3]
- lme4               [* -> 1.1-31]
- lubridate          [* -> 1.9.0]
- magrittr           [* -> 2.0.3]
- markdown           [* -> 1.4]
- matrixStats        [* -> 0.63.0]
- maxstat            [* -> 0.7-25]
- memoise            [* -> 2.0.1]
- mgcv               [* -> 1.8-41]
- mime               [* -> 0.12]
- minqa              [* -> 1.2.5]
- mitools            [* -> 2.4]
- modelr             [* -> 0.1.10]
- munsell            [* -> 0.5.0]
- mvtnorm            [* -> 1.1-3]
- nlme               [* -> 3.1-160]
- nloptr             [* -> 2.0.3]
- nnet               [* -> 7.3-18]
- numDeriv           [* -> 2016.8-1.1]
- openssl            [* -> 2.0.5]
- patchwork          [* -> 1.1.2]
- pbkrtest           [* -> 0.5.1]
- pillar             [* -> 1.8.1]
- pkgconfig          [* -> 2.0.3]
- pkgload            [* -> 1.3.2]
- png                [* -> 0.1-8]
- polynom            [* -> 1.4-1]
- praise             [* -> 1.0.0]
- prettyunits        [* -> 1.1.1]
- processx           [* -> 3.8.0]
- progress           [* -> 1.2.2]
- proxy              [* -> 0.4-27]
- ps                 [* -> 1.7.2]
- purrr              [* -> 0.3.5]
- quantreg           [* -> 5.94]
- rappdirs           [* -> 0.3.3]
- readr              [* -> 2.1.3]
- readxl             [* -> 1.4.1]
- rematch            [* -> 1.0.1]
- rematch2           [* -> 2.1.2]
- reprex             [* -> 2.0.2]
- rjson              [* -> 0.2.21]
- rlang              [* -> 1.0.6]
- rmarkdown          [* -> 2.18]
- rprojroot          [* -> 2.0.3]
- rstatix            [* -> 0.7.1]
- rstudioapi         [* -> 0.14]
- rvest              [* -> 1.0.3]
- sass               [* -> 0.4.4]
- scales             [* -> 1.2.1]
- selectr            [* -> 0.4-2]
- shape              [* -> 1.4.6]
- stringi            [* -> 1.7.8]
- stringr            [* -> 1.5.0]
- survMisc           [* -> 0.5.6]
- survey             [* -> 4.1-1]
- survival           [* -> 3.4-0]
- survivalAnalysis   [* -> 0.3.0]
- survminer          [* -> 0.4.9]
- sys                [* -> 3.4.1]
- tableone           [* -> 0.13.2]
- testthat           [* -> 3.1.5]
- tibble             [* -> 3.1.8]
- tidyr              [* -> 1.2.1]
- tidyselect         [* -> 1.2.0]
- tidytidbits        [* -> 0.3.2]
- tidyverse          [* -> 1.3.2]
- timechange         [* -> 0.1.1]
- tinytex            [* -> 0.42]
- tzdb               [* -> 0.3.0]
- utf8               [* -> 1.2.2]
- uuid               [* -> 1.1-0]
- vctrs              [* -> 0.5.1]
- viridisLite        [* -> 0.4.1]
- vroom              [* -> 1.6.0]
- waldo              [* -> 0.4.0]
- withr              [* -> 2.5.0]
- xfun               [* -> 0.35]
- xml2               [* -> 1.3.3]
- xtable             [* -> 1.8-4]
- yaml               [* -> 2.3.6]
- zoo                [* -> 1.8-11]

Do you want to proceed? [y/N]: y