Hi Dirk, Thanks for the solution. Now I know the work-arounds, but still don't quite get it. Why does R_DEFAULT_PACKAGES has anything to do with library(methods)? If library(h5) works, it should just work, not depend on an environment variable. Rscript is not consistent with R, that's my confusion.
Steve 2017-12-26 20:46 GMT+08:00 Dirk Eddelbuettel <e...@debian.org>: > > On 26 December 2017 at 15:24, Sun Yijiang wrote: > | After looking into C source code, I found that Rscript by default fills > | environment variable R_DEFAULT_PACKAGES with > | "datasets,utils,grDevices,graphics,stats", and it somehow fails some > | package like h5. > | > | The problem here is, not setting R_DEFAULT_PACKAGES is equivalent to > | setting it to a magic value, it's really confusing. I suggest remove > this > | feature. > > The more confusing part is that "methods" is missing 'by design' (as > loading > methods is marginally more expensive that other packages). Ie for your > script > > edd@bud:/tmp$ cat h5ex.R > library(methods) > library(h5) > name <- tempfile() > f <- h5file(name) > file.remove(name) > edd@bud:/tmp$ Rscript h5ex.R > [1] TRUE > edd@bud:/tmp$ > > it all works if you just add `library(methods)` as seen in the first line. > > For what it is worth, littler's r does not need that as it loads methods > just > like R itself does avoiding the confusion: > > edd@bud:/tmp$ cat h5ex2.R > library(h5) > name <- tempfile() > f <- h5file(name) > file.remove(name) > edd@bud:/tmp$ r h5ex2.R > edd@bud:/tmp$ > > Dirk > > -- > http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org > [[alternative HTML version deleted]] ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
