Vince Carey

Addressed in git.bioconductor.org devel branch with e3103a

also in github ... presumably this change should be ported back to RELEASE_3_18? @mtmorgan ?

I'd suggest you look at your vignettes, which do not use BiocStyle, and compare them to others in the ecosystem. The early screens of NSCLC-clustering-SingleCellExperiment-vignette.html are dominated by loading messages...

``` Quitting from lines 363-365 (CytoPipeline.Rmd) Error: processing vignette 'CytoPipeline.Rmd' failed with diagnostics: 'gate_tail' is not an exported object from 'namespace:openCyto' --- failed re-building ‘CytoPipeline.Rmd’ SUMMARY: processing the following file...

Do not close issues on contributions unless you are withdrawing the submission.

Vignette has ``` # Load the data load("Data/example_betas.Rdata") # Extract matrix of beta values beta_matrix

No. You used "Data" to name your data folder. This is nonconformant with R Package format. Please ensure the folder is named in lower case in your git repo.

Are you running R CMD check in a clean system? ``` * checking examples ... ERROR Running examples in 'DunedinPACE-Ex.R' failed The error most likely occurred in: > ### Name:...

``` > source("DunedinPACE.R", echo=TRUE) > ## ----------------------------------------------------------------------------- > #Load the library > library(DunedinPACE) 1/0 packages newly attached/loaded, see sessionInfo() for details. > ## ----------------------------------------------------------------------------- > # Load the data >...

That's from purling your vignette and sourcing the R because R CMD check fails.