Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/cache@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/cache@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

file=R/app_heatmap.R,line=108,col=81,[line_length_linter] Lines should not be more than 80 characters. This line is 99 characters.

file=R/app_heatmap.R,line=305,col=4,[indentation_linter] Indentation should be 2 spaces but is 4 spaces.

file=R/app_heatmap.R,line=318,col=4,[indentation_linter] Indentation should be 0 spaces but is 4 spaces.

file=R/app_heatmap.R,line=413,col=5,[indentation_linter] Indentation should be 4 spaces but is 5 spaces.

file=R/app_heatmap.R,line=426,col=81,[line_length_linter] Lines should not be more than 80 characters. This line is 83 characters.

file=R/app_pcs.R,line=83,col=81,[line_length_linter] Lines should not be more than 80 characters. This line is 99 characters.

file=R/data_classes.R,line=62,col=4,[indentation_linter] Indentation should be 2 spaces but is 4 spaces.

file=R/data_classes.R,line=69,col=4,[indentation_linter] Indentation should be 0 spaces but is 4 spaces.

file=R/data_classes.R,line=89,col=5,[object_usage_linter] local variable 'invalid_vars' assigned but may not be used

file=R/data_classes.R,line=137,col=6,[indentation_linter] Indentation should be 4 spaces but is 6 spaces.

unable to access index for repository https://bioconductor.org/packages/3.17/data/annotation/bin/macosx/big-sur-x86_64/contrib/4.3:

unable to access index for repository https://bioconductor.org/packages/3.17/data/experiment/bin/macosx/big-sur-x86_64/contrib/4.3: