R CMD check found ERRORs

Test failures

Process completed with exit code 1.

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, r-lib/actions/setup-r@v1, r-lib/actions/setup-tinytex@v1, r-lib/actions/setup-pandoc@v1, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

r-lib/actions/setup-r@v1 is deprecated. Please update your workflow to use the 'v2' version. Also look at the examples at https://github.com/r-lib/actions/tree/v2/examples because '@v2' workflows are much simpler than 'v1' workflows.

The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/

file 'Cyclops/cleanup' did not have execute permissions: corrected

file 'Cyclops/configure' did not have execute permissions: corrected

Undocumented code objects:

Undocumented arguments in documentation object 'convertToCyclopsData'

Undocumented code objects:

Undocumented arguments in documentation object 'convertToCyclopsData'

r-lib/actions/setup-pandoc@v1 is deprecated. Please update your workflow to use the 'v2' version.