The https://builder.r-hub.io/advanced provides an 'R CMD check --as-cran' for 'Debian Linux, R-devel, GCC ASAN/UBSAN'. You can either upload it there or launch it from you local R prompt;
> rhub::check() ── Choose build platform ... 10: Debian Linux, R-devel, GCC ASAN/UBSAN (linux-x86_64-rocker-gcc-san) ... 20: Windows Server 2008 R2 SP1, R-release, 32/64 bit (windows-x86_64-release) With some luck, you might be able to reproduce those CRAN sanity checks there. /Henrik On Wed, Jul 24, 2019 at 9:21 AM pete mohanty <pete.moha...@gmail.com> wrote: > > Dear all, > > bigKRLS, which has been on CRAN for a couple of years, had to be pulled > recently due to what seems to be a sanitizer issue stemming from its use of > bigmemory. bigKRLS works fine (we’ve used it ourselves on many different > platforms and have had over 15,000 downloads without an end user reporting > difficulties because of this issue). Unfortunately, we have been unable to > reproduce the UndefinedBehaviorSanitizer error locally, and are unsure how > to proceed. We corresponded with Michael Kane, author of bigmemory, who > seems to think the issue may be on the CRAN side. At his suggestion, we > switched to filebacked big matrices, which didn’t resolve the issue. We > also tried adding MAIN_LDFLAGS = -fsanitize=undefined,address to the > MAKEVARS, which didn’t do the trick either. > > Here are some links: > > > 1. > > bigKRLS repo: https://github.com/rdrr1990/bigKRLS > 2. > > bigKRLS file backs all big matrices with a helper function called > ‘to.big.matrix’ found starting on line 116 of > bigKRLS/bigKRLS_Rcpp_functions.R: > https://github.com/rdrr1990/bigKRLS/blob/master/R/bigKRLS_Rcpp_functions.R > 3. > > Discussion with Michael Kane: > https://github.com/kaneplusplus/bigmemory/issues/73#issuecomment-330543207 > > > > And here is the main error itself: > > package bigKRLS_3.0.5.tar.gz has been auto-processed. > > The auto-check found additional issues for the *last* version released on > CRAN: > > clang-UBSAN < > https://www.stats.ox.ac.uk/pub/bdr/memtests/clang-UBSAN/bigKRLS> > > gcc-UBSAN <https://www.stats.ox.ac.uk/pub/bdr/memtests/gcc-UBSAN/bigKRLS> > > Clicking through, you find that > > > test_check("bigKRLS") > > gauss_kernel.cpp:38:40: runtime error: member call on address > 0x6120001f2c40 which does not point to an object of type 'BigMatrix' > > 0x6120001f2c40: note: object is of type 'FileBackedBigMatrix' > > [details omitted] > > SUMMARY: UndefinedBehaviorSanitizer: undefined-behavior > gauss_kernel.cpp:38:40 in > > /data/gannet/ripley/R/test-clang/bigmemory/include/bigmemory/BigMatrix.h:41:28: > runtime error: member access within address 0x6120001f2c40 which does not > point to an object of type 'BigMatrix' > > 0x6120001f2c40: note: object is of type 'FileBackedBigMatrix' > > But FileBackedBigMatrix are BigMatrix objects and earlier versions of the > package which did not file back generated similar errors. (R CMD check > --as-cran does not yield these errors on Ubuntu 16.04 or MacOS Sierra, > which has made it particularly tricky to work on.) > > Any and all help would be greatly appreciated!! > > Best, > > Pete Mohanty and Robert Shaffer > > > -- > Pete Mohanty, PhD > Science, Engineering & Education Fellow > Stanford University > Department of Statistics > https://sites.google.com/site/petemohanty/ > > [[alternative HTML version deleted]] > > ______________________________________________ > R-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-devel ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
