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Update 26 packages#3

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stulacy merged 1 commit into
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update/packages
Jun 8, 2026
Merged

Update 26 packages#3
stulacy merged 1 commit into
mainfrom
update/packages

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@stulacy

@stulacy stulacy commented Jun 8, 2026

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🤖 This is an automated build

This will update 26 packages in your lesson with the following versions:

The following 11 packages failed to restore:

base64enc
bslib
cachem
fontawesome
htmltools
jquerylib
lifecycle
memoise
rlang
rmarkdown
sass

Attempting to update these packages to the latest CRAN versions.

Repaired 26 packages successfully.

The following package(s) will be installed:
- base64enc   [0.1-6]
- bslib       [0.11.0]
- cachem      [1.1.0]
- cli         [3.6.6]
- digest      [0.6.39]
- evaluate    [1.0.5]
- fastmap     [1.2.0]
- fontawesome [0.5.3]
- fs          [2.1.0]
- highr       [0.12]
- htmltools   [0.5.9]
- jquerylib   [0.1.4]
- jsonlite    [2.0.0]
- knitr       [1.51]
- lifecycle   [1.0.5]
- memoise     [2.0.1]
- mime        [0.13]
- R6          [2.6.1]
- rappdirs    [0.3.4]
- renv        [1.2.3]
- rlang       [1.2.0]
- rmarkdown   [2.31]
- sass        [0.4.10]
- tinytex     [0.59]
- xfun        [0.58]
- yaml        [2.3.12]
# CRAN -----------------------------------------------------------------------
- base64enc     [0.1-3 -> *]
- bslib         [0.9.0 -> *]
- cachem        [1.1.0 -> *]
- cli           [3.6.5 -> *]
- digest        [0.6.39 -> *]
- evaluate      [1.0.5 -> *]
- fastmap       [1.2.0 -> *]
- fontawesome   [0.5.3 -> *]
- fs            [1.6.6 -> *]
- highr         [0.11 -> *]
- htmltools     [0.5.9 -> *]
- jquerylib     [0.1.4 -> *]
- jsonlite      [2.0.0 -> *]
- knitr         [1.51 -> *]
- lifecycle     [1.0.5 -> *]
- memoise       [2.0.1 -> *]
- mime          [0.13 -> *]
- R6            [2.6.1 -> *]
- rappdirs      [0.3.3 -> *]
- renv          [1.1.5 -> 1.2.3]
- rlang         [1.1.7 -> *]
- rmarkdown     [2.30 -> *]
- sass          [0.4.10 -> *]
- tinytex       [0.58 -> *]
- xfun          [0.55 -> *]
- yaml          [2.3.12 -> *]

The version of R recorded in the lockfile will be updated:
- R             [4.5.3 -> 4.6.0]

⏱️ In a few minutes, a comment will appear that will show you how the output has changed based on these updates.

If you want to inspect these changes locally, you can use the following code to check out a new branch:

git fetch origin update/packages
git checkout update/packages

@github-actions

github-actions Bot commented Jun 8, 2026

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Thank you!

Thank you for your pull request 😃

🤖 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:

  • 🎯 correct output
  • 🖼️ correct figures
  • ❓ new warnings
  • ‼️ new errors

Rendered Changes

🔍 Inspect the changes: https://github.com/ResearchCodingClub/FAIR4RS-Packaging/compare/md-outputs..md-outputs-PR-3

The following changes were observed in the rendered markdown documents:

 01_introduction.md (new)             | 196 +++++++++++++++
 02_accessing_packages.md (new)       | 270 +++++++++++++++++++++
 03_creating_python_packages.md (new) | 446 +++++++++++++++++++++++++++++++++++
 04_creating_r_packages.md (new)      | 388 ++++++++++++++++++++++++++++++
 05_versioning.md (new)               | 156 ++++++++++++
 06_publishing.md (new)               | 300 +++++++++++++++++++++++
 fig/SemanticVersioning.png (new)     | Bin 0 -> 4986 bytes
 fig/figshare-upload.png (new)        | Bin 0 -> 26749 bytes
 fig/figshare.png (new)               | Bin 0 -> 1500059 bytes
 fig/git-release.png (new)            | Bin 0 -> 92221 bytes
 fig/package.png (new)                | Bin 0 -> 259459 bytes
 fig/pypi.png (new)                   | Bin 0 -> 46587 bytes
 instructor-notes.md (new)            |   9 +
 learner-profiles.md (new)            |   5 +
 md5sum.txt (new)                     |  19 ++
 reference.md (new)                   |   8 +
 renv.lock                            |   8 +-
 setup.md (new)                       |  65 +++++
 slides.pdf (new)                     | Bin 0 -> 506200 bytes
 19 files changed, 1868 insertions(+), 2 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.

⏱️ Updated at 2026-06-08 12:23:43 +0000

@stulacy stulacy merged commit d603213 into main Jun 8, 2026
5 checks passed
github-actions Bot pushed a commit that referenced this pull request Jun 8, 2026
Auto-generated via `{sandpaper}`
Source  : d603213
Branch  : main
Author  : Stuart Lacy <stuart.lacy@york.ac.uk>
Time    : 2026-06-08 12:24:33 +0000
Message : Merge pull request #3 from ResearchCodingClub/update/packages

Update 26 packages
github-actions Bot pushed a commit that referenced this pull request Jun 8, 2026
Auto-generated via `{sandpaper}`
Source  : 5e03e44
Branch  : md-outputs
Author  : GitHub Actions <actions@github.com>
Time    : 2026-06-08 12:29:32 +0000
Message : markdown source builds

Auto-generated via `{sandpaper}`
Source  : d603213
Branch  : main
Author  : Stuart Lacy <stuart.lacy@york.ac.uk>
Time    : 2026-06-08 12:24:33 +0000
Message : Merge pull request #3 from ResearchCodingClub/update/packages

Update 26 packages
github-actions Bot pushed a commit that referenced this pull request Jun 9, 2026
Auto-generated via `{sandpaper}`
Source  : 5e03e44
Branch  : md-outputs
Author  : GitHub Actions <actions@github.com>
Time    : 2026-06-08 12:29:32 +0000
Message : markdown source builds

Auto-generated via `{sandpaper}`
Source  : d603213
Branch  : main
Author  : Stuart Lacy <stuart.lacy@york.ac.uk>
Time    : 2026-06-08 12:24:33 +0000
Message : Merge pull request #3 from ResearchCodingClub/update/packages

Update 26 packages
github-actions Bot pushed a commit that referenced this pull request Jun 16, 2026
Auto-generated via `{sandpaper}`
Source  : 5e03e44
Branch  : md-outputs
Author  : GitHub Actions <actions@github.com>
Time    : 2026-06-08 12:29:32 +0000
Message : markdown source builds

Auto-generated via `{sandpaper}`
Source  : d603213
Branch  : main
Author  : Stuart Lacy <stuart.lacy@york.ac.uk>
Time    : 2026-06-08 12:24:33 +0000
Message : Merge pull request #3 from ResearchCodingClub/update/packages

Update 26 packages
github-actions Bot pushed a commit that referenced this pull request Jun 23, 2026
Auto-generated via `{sandpaper}`
Source  : 5e03e44
Branch  : md-outputs
Author  : GitHub Actions <actions@github.com>
Time    : 2026-06-08 12:29:32 +0000
Message : markdown source builds

Auto-generated via `{sandpaper}`
Source  : d603213
Branch  : main
Author  : Stuart Lacy <stuart.lacy@york.ac.uk>
Time    : 2026-06-08 12:24:33 +0000
Message : Merge pull request #3 from ResearchCodingClub/update/packages

Update 26 packages
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