Even though you did not make any changes to your package, a dependency you use has changed. This currently requires attention by you (and any other package / package maintainer affected) to make appropriate changes in your package code and to push up to bioconductor.org
The changes comes from an update in CRAN package knitr version 1.33. See https://github.com/yihui/knitr/issues/1864 regarding the change. The ERROR is very informative and following its advice by updating the Suggest of the package DESCRIPTION should remedy. If your vignette is based on the vignette engine knitr::rmarkdown, you have to declare the dependency on rmarkdown, e.g., Suggests: rmarkdown VignetteBuilder: knitr If your vignette is based on the vignette engine knitr::markdown, you have to declare the dependency on markdown, e.g., Suggests: markdown VignetteBuilder: knitr For quick reference, here is a useful help page on fixing bugs in release and devel for Bioconductor. bioconductor.org/developers/how-to/git/bug-fix-in-release-and-devel/ We are exploring other options for fixing this issue since it affects hundreds of Bioconductor package but currently if you would like to follow the above instructions it is greatly appreciated. Cheers, Lori Shepherd Bioconductor Core Team Roswell Park Comprehensive Cancer Center Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 ________________________________ From: Bioc-devel <bioc-devel-boun...@r-project.org> on behalf of alan murphy <alanmurp...@hotmail.com> Sent: Saturday, April 17, 2021 4:52 AM To: ELENI ADAM <eadam...@odu.edu> Cc: bioc-devel@r-project.org <bioc-devel@r-project.org> Subject: Re: [Bioc-devel] Error building package _______________________________________________ Bioc-devel@r-project.org mailing list https://secure-web.cisco.com/1wU9NHjSrv-PW4vXomr3nbTfLlNrpYcAdIXDKF9IJwD_30nfUqXWry9jLafvge770Btz8rqwoqcGM7vvaSr2phWVirmkMR_dDW4c9EA3ddTbEd7-sCu3xxR-_OFWI7jeYGomVtJk74L6CQbCQT2LNSSfboIU_Sxj7jvfmxbEeOTz-HRLJ3ZrBfzlRGSq8RooD1Pz3BkwnJXcQuPiMwg3s_O4B-Jvi6WO5rRjH5L_-ihzGePUJIZVZzOI8NAos9XPYOmHmvWjXJIZ3p_nCDcjnvtHOVJzHyE9jP7PV3b0VSz8WQMeRCs40fbaSM-3SPI86CcZRIzXyxjFgvbzMCUdSig/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel This email message may contain legally privileged and/or confidential information. If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited. If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you. [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
