datacarpentry / R-ecology-lesson

Data Analysis and Visualization in R for Ecologists
https://datacarpentry.org/R-ecology-lesson/
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update 44 packages #875

Closed zkamvar closed 1 year ago

zkamvar commented 1 year ago

I've run the package update manually because the automated workflow was having trouble after the release of {renv} 1.0.0.

This brings in updates to 44 packages. Please wait for the output to run and then check for any new errors, warnings or surprising output changes.

# CRAN -----------------------------------------------------------------------
- askpass         [1.1 -> 1.2.0]
- broom           [1.0.4 -> 1.0.5]
- bslib           [repo: RSPM -> CRAN; ver: 0.4.2 -> 0.5.1]
- cpp11           [0.4.3 -> 0.4.6]
- curl            [repo: RSPM -> CRAN; ver: 5.0.0 -> 5.0.2]
- dbplyr          [2.3.2 -> 2.3.3]
- digest          [repo: RSPM -> CRAN; ver: 0.6.31 -> 0.6.33]
- dplyr           [1.1.2 -> 1.1.3]
- evaluate        [repo: RSPM -> CRAN; ver: 0.20 -> 0.21]
- fontawesome     [0.5.1 -> 0.5.2]
- fs              [1.6.2 -> 1.6.3]
- gargle          [1.4.0 -> 1.5.2]
- ggplot2         [3.4.2 -> 3.4.3]
- googledrive     [2.1.0 -> 2.1.1]
- googlesheets4   [1.1.0 -> 1.1.1]
- gtable          [0.3.3 -> 0.3.4]
- haven           [2.5.2 -> 2.5.3]
- htmltools       [repo: RSPM -> CRAN; ver: 0.5.5 -> 0.5.6]
- httr            [repo: RSPM -> CRAN; ver: 1.4.5 -> 1.4.7]
- jsonlite        [repo: RSPM -> CRAN; ver: 1.8.4 -> 1.8.7]
- knitr           [repo: RSPM -> CRAN; ver: 1.42 -> 1.43]
- labeling        [0.4.2 -> 0.4.3]
- MASS            [7.3-59 -> 7.3-60]
- Matrix          [1.5-4 -> 1.6-1]
- mgcv            [1.8-42 -> 1.9-0]
- nlme            [3.1-162 -> 3.1-163]
- openssl         [2.0.6 -> 2.1.0]
- patchwork       [1.1.2 -> 1.1.3]
- processx        [3.8.1 -> 3.8.2]
- purrr           [repo: RSPM -> CRAN; ver: 1.0.1 -> 1.0.2]
- Rcpp            [repo: RSPM -> CRAN; ver: 1.0.10 -> 1.0.11]
- readxl          [1.4.2 -> 1.4.3]
- rematch         [1.0.1 -> 2.0.0]
- renv            [0.17.3 -> 1.0.2]
- rmarkdown       [2.21 -> 2.24]
- rstudioapi      [0.14 -> 0.15.0]
- sass            [0.4.5 -> 0.4.7]
- sys             [3.4.1 -> 3.4.2]
- tinytex         [0.45 -> 0.46]
- tzdb            [0.3.0 -> 0.4.0]
- uuid            [1.1-0 -> 1.1-1]
- vctrs           [0.6.2 -> 0.6.3]
- xfun            [0.39 -> 0.40]

# carpentries ----------------------------------------------------------------
- xml2            [repo: CRAN -> carpentries; ver: 1.3.4 -> 1.3.5]
github-actions[bot] commented 1 year ago

Thank you!

Thank you for your pull request :smiley:

:robot: This automated message can help you check the rendered files in your submission for clarity. If you have any questions, please feel free to open an issue in {sandpaper}.

If you have files that automatically render output (e.g. R Markdown), then you should check for the following:

Rendered Changes

:mag: Inspect the changes: https://github.com/datacarpentry/R-ecology-lesson/compare/md-outputs..md-outputs-PR-875

The following changes were observed in the rendered markdown documents:

 00-before-we-start.md                              |   24 +-
 config.yaml (gone)                                 |   86 --
 ...tion-ggplot2-rendered-boxplot-with-points-1.png |  Bin 78634 -> 79808 bytes
 ...ization-ggplot2-rendered-unnamed-chunk-10-1.png |  Bin 97667 -> 97551 bytes
 ...ization-ggplot2-rendered-unnamed-chunk-11-1.png |  Bin 64667 -> 64507 bytes
 ...lization-ggplot2-rendered-unnamed-chunk-9-1.png |  Bin 82379 -> 82364 bytes
 md5sum.txt                                         |   34 +-
 renv.lock (gone)                                   | 1575 --------------------
 8 files changed, 29 insertions(+), 1690 deletions(-)
What does this mean? If you have source files that require output and figures to be generated (e.g. R Markdown), then it is important to make sure the generated figures and output are reproducible. This output provides a way for you to inspect the output in a diff-friendly manner so that it's easy to see the changes that occur due to new software versions or randomisation.

:stopwatch: Updated at 2023-09-05 14:18:22 +0000

tobyhodges commented 1 year ago

The changes to the Markdown seem to be limited to minor (to my eye, invisible) modifications to the plots generated in the lesson, so I am going ahead and merging this. Thanks @zkamvar