I'm sure your reviewer could offer additional advice as well, but first thought is are you downloading the data each time the package is run or each time a vignette or example is run? Perhaps caching the file using BiocFileCache would save some additional time (or be costly the first run but then be expedited on future runs) See https://bioconductor.org/packages/devel/bioc/vignettes/BiocFileCache/inst/doc/BiocFileCache.html#cache-to-manage-package-data
Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 ________________________________ From: Bioc-devel <bioc-devel-boun...@r-project.org> on behalf of Nuno Agostinho <nunodanielagosti...@gmail.com> Sent: Tuesday, October 9, 2018 10:51:56 AM To: bioc-devel@r-project.org Subject: [Bioc-devel] cTRAP: WARNINGS in package submission Dear all, I am the developer of cTRAP <https://github.com/nuno-agostinho/cTRAP>, a package that I recently submitted for approval to Bioconductor: https://github.com/Bioconductor/Contributions/issues/906 <https://github.com/Bioconductor/Contributions/issues/906>. The package makes use of ENCODE and L1000 datasets downloaded from the web and the examples for such functions include downloading some sample files. However, this makes R CMD check take more than 5 minutes and labels my package with WARNING. Should I simply mark the examples of "slow" functions with \dontrun? I do not think that is the optimal approach, but it is certainly the easiest solution to pass the 5 minute requirement of R CMD check. Thank you for your time! Best regards, Nuno Agostinho [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-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
