Thanks a lot Xavier! This solved my issue. Best, Miguel.
-- Luis M. Rodriguez-R, Ph.D. [ https://rodriguez-r.com ] --------------------------------- Research Engineer Georgia Institute of Technology 311 Ferst Drive, ES&T, Room 3324 Atlanta, GA 30332, USA [ http://enve-omics.gatech.edu/ ] On Sun, Oct 27, 2019 at 3:09 AM Xavier Robin <Xavier.Robin@sib.swiss> wrote: > Hi, > > It seems you have LazyLoad in your DESCRIPTION: > > LazyLoad: yes > > I ran into the same warning a few months ago and realized that LazyLoad > has been ignored since R 2.14.0. As a consequence your dataset is not > actually loaded lazily, which triggers the warning. > > Apparently the new way to lazy load a dataset is to use LazyData in the > DESCRIPTION: > > LazyData: yes > > I don't know in which R version LazyData was introduced, but I expect > around the same time. > > > https://cran.r-project.org/doc/manuals/r-release/R-exts.html#The-DESCRIPTION-file > > I ended up making the following change, and the warning disappeared: > > > https://github.com/xrobin/pROC/commit/77bbb151412643628f2549868700325c8e47cad4 > > I hope it helps. > Xavier > > > On 27.10.19 02:14, Duncan Murdoch wrote: > > I think this is a bug. It starts to appear in R-devel revision 76780, > > ------------------------------------------------------------------------ > r76780 | hornik | 2019-07-04 14:55:52 -0400 (Thu, 04 Jul 2019) | 1 line > > Tweaks for c76774. > ------------------------------------------------------------------------ > > where the default for a new test is set to TRUE. The new test was > introduced in 76774, > > ------------------------------------------------------------------------ > r76774 | hornik | 2019-07-03 05:02:40 -0400 (Wed, 03 Jul 2019) | 2 lines > > Have codoc() report variables in usages not in the code. > (Optionally for now). > ------------------------------------------------------------------------ > > Duncan Murdoch > > > On 26/10/2019 4:54 p.m., Luis-Miguel Rodríguez Rojas wrote: > > Hello Duncan, > > Thanks for your quick response! > > I tried re-building and re-submitting and I'm still getting the same > error: > > https://win-builder.r-project.org/incoming_pretest/enveomics.R_1.5.0_20191026_224156/Windows/00check.log > > https://win-builder.r-project.org/incoming_pretest/enveomics.R_1.5.0_20191026_224156/Debian/00check.log > > I've made the tarball temporarily available directly in the repository in > case that helps at all: > > https://github.com/lmrodriguezr/enveomics/blob/master/enveomics.R_1.5.0.tar.gz > > Thanks a lot! > Miguel. > > -- > Luis M. Rodriguez-R, Ph.D. > [ https://rodriguez-r.com <https://rodriguez-r.com/> > <https://rodriguez-r.com/> ] > --------------------------------- > Research Engineer > Georgia Institute of Technology > 311 Ferst Drive, ES&T, Room 3324 > Atlanta, GA 30332, USA > [ http://enve-omics.gatech.edu/ ] > > > > On Sat, Oct 26, 2019 at 1:39 PM Duncan Murdoch <murdoch.dun...@gmail.com > *MailScanner > has detected a possible fraud attempt from "gmail.com" claiming to be* > <mailto:murdoch.dun...@gmail.com> <murdoch.dun...@gmail.com>> wrote: > > On 26/10/2019 11:39 a.m., Luis-Miguel Rodríguez Rojas wrote: > > Dear all, > > > > I maintain a package that has data fields, and didn't have any > problems > > with this before. However, in my latest update, I'm getting the > following > > error message from the CRAN tests: > > > > Flavor: r-devel-linux-x86_64-debian-gcc, > r-devel-windows-ix86+x86_64 > > Check: for code/documentation mismatches, Result: WARNING > > Variables with usage in documentation object 'growth.curves' > but not in > > code: > > 'growth.curves' > > > > Variables with usage in documentation object 'phyla.counts' > but not in > > code: > > 'phyla.counts' > > I'm not seeing those messages when testing your package in the same R > version as win-builder used, so it could be a transient issue, or a > problem with the tarball that you submitted. In either case, I'd > suggest just trying again: rebuild and submit. > > Duncan Murdoch > > > > > The variables are indeed NOT in the code, because they're only to > be used > > in the examples. In this version I moved my documentation from > the old (now > > defunct) inlinedocs to ROxygen2. In the previous form, I had to > define a > > structure in the code including both the function and the example, > so > > technically the code was using the variables. In the new form, I > simply > > define the examples with the @examples tag (that ends up in the > .rd file > > within an \examples{} block). > > > > Does anyone have any idea on how I should define data in the code > to avoid > > this issue? I could simply add the example lines after the return > (so > > they're never reached), but that sounds like a horrible hack. > > > > Just in case it's useful: > > GitHub repository (inside the enveomics.R folder): > > https://github.com/lmrodriguezr/enveomics/ > > Full test output: > > > > https://win-builder.r-project.org/incoming_pretest/enveomics.R_1.5.0_20191026_032029/Windows/00check.log > > > > Thanks! > > Miguel. > > > > > > -- > > Luis M. Rodriguez-R, Ph.D. > > [ https://rodriguez-r.com ] > > --------------------------------- > > Research Engineer > > Georgia Institute of Technology > > 311 Ferst Drive, ES&T, Room 3324 > > Atlanta, GA 30332, USA > > [ http://enve-omics.gatech.edu/ ] > > > > [[alternative HTML version deleted]] > > > > ______________________________________________ > > R-package-devel@r-project.org > *MailScanner has detected a possible fraud attempt from > "r-project.org" claiming to be* <mailto:R-package-devel@r-project.org> > <R-package-devel@r-project.org> mailing list > > https://stat.ethz.ch/mailman/listinfo/r-package-devel > > > > > ______________________________________________ > R-package-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-package-devel > > -- > Xavier Robin, PhD > University of Basel | Swiss Institute of Bioinformatics > Biozentrum - Klingelbergstrasse 50/70 - 4056 Basel > t: +41 61 207 18 77 | m: +41 78 865 09 01Xavier.Robin@sib.swiss - > http://www.sib.swiss > > [[alternative HTML version deleted]] ______________________________________________ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
