On Fri, Dec 1, 2017 at 11:16 AM, Shepherd, Lori < lori.sheph...@roswellpark.org> wrote:
> So having a user argument might be best. Or defining a unique cache > location for your package would be another option. > The R package development policies actually has a statement that may be helpful in thinking about this. Your mileage may vary in the interpretation.... > - - Packages should not write in the users’ home filespace, nor > anywhere else on the file system apart from the R session’s temporary > directory (or during installation in the location pointed to by TMPDIR: > and such usage should be cleaned up). Installing into the system’s R > installation (e.g., scripts to its bin directory) is not allowed. > > Limited exceptions may be allowed in interactive sessions if the > package obtains confirmation from the user. > > https://cran.r-project.org/web/packages/policies.html Sean > > 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 Sean > Davis <seand...@gmail.com> > *Sent:* Friday, December 1, 2017 11:06:39 AM > *To:* Michael Love > *Cc:* bioc-devel@r-project.org > *Subject:* Re: [Bioc-devel] BiocFileCache for developers > > On Fri, Dec 1, 2017 at 10:28 AM, Michael Love <michaelisaiahl...@gmail.com > > > wrote: > > > hi, > > > > I'm writing a function which currently uses BiocFileCache to store a > > small data.frame and one or more TxDb objects, so that these objects > > are persistent and available across sessions (or possible available to > > multiple users). > > > > In the simplest case, I would call > > > > bfc <- BiocFileCache() > > > > inside my function, which will check the default location: > > > > user_cache_dir(appname = "BiocFileCache") > > > > In general, should developers also support the user specifying a > > specific location for the BiocFileCache? So functions using > > BiocFileCache should have an argument that overrides the above > > location? > > > > On some systems, the user home directory is not large (such as on HPC > systems) or has strong quotas. The default user_cache_dir may not be the > best choice there. > > Sean > > > > > > thanks, > > Mike > > > > _______________________________________________ > > Bioc-devel@r-project.org mailing list > > https://stat.ethz.ch/mailman/listinfo/bioc-devel > > > > > > -- > Sean Davis, MD, PhD > Center for Cancer Research > National Cancer Institute > National Institutes of Health > Bethesda, MD 20892 > https://seandavi.github.io/ > https://twitter.com/seandavis12 > > [[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. > -- Sean Davis, MD, PhD Center for Cancer Research National Cancer Institute National Institutes of Health Bethesda, MD 20892 https://seandavi.github.io/ https://twitter.com/seandavis12 [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
