Dear Bioconductor community, One of the oldest requirements of Bioconductor is a vignette with some executed code.
Recently I found some packages that do not have examples for some functions and vignettes with executed code in the current release while they did some versions ago. The vignette was replaced with a link to resources outside the Bioconductor repository. These resources might not be in sync with the released code of the package or might not work. Users, as I did, might get confused if code linked from the vignette does not work or is not found in the package. This is possible because submitted packages need to pass all checks specified by R CMD check and by BioCheck() in the BiocCheck package. However, once accepted, checks are no longer done with BiocCheck() and just with R CMD check. I think it would be desirable to keep the initial high quality of the packages after the peer review and with the BiocCheck. If authors need to move their code to a book they can use the book infrastructure set up by Bioconductor too. Perhaps Bioconductor checks on existing packages could use the same version of BiocCheck that was initially used or some specific tests to ensure that documentation is not dismissed. I would appreciate your thoughts on this. Best, Lluís _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel