Thank you. That will be why I didn't see them previously. Helps my sanity ;-)
Sent from my iPhone > On Jan 30, 2017, at 8:58 PM, Kevin Ushey <kevinus...@gmail.com> wrote: > > Most importantly, this _is_ a recent-ish change in R CMD check. Previously, R > CMD check did not warn about missing imports from 'base' R packages (that is, > R packages distributed with R, having priority 'base'); now it correctly > does. While packages with priority 'base' are loaded by default in most R > installations, it's possible for the user to customize that behavior, and so > packages that don't import the functions they use from these packages will > break if they are detached (or their order on the search path is changed). > > The correct thing to do is indeed import any functions from any R packages > you use, base or otherwise. The simplest fix, if you don't want to > selectively import such a large range of functions, is to simply add e.g. > > import(utils) > import(stats) > ... etc ... > > to your NAMESPACE file. > > Best, > Kevin > >> On Mon, Jan 30, 2017 at 9:21 AM, Brian G. Peterson <br...@braverock.com> >> wrote: >> See the link in my email below. It says: >> "Packages implicitly import the base namespace. Variables exported from >> other packages with namespaces need to be imported explicitly using the >> directives import and importFrom." >> >> Regards, >> >> Brian >> >> On Mon, 2017-01-30 at 11:04 -0600, Cathy Lee Gierke wrote: >> > That is the obvious solution, but it doesn't seem correct: I have >> > pdf included in the description, and namespace files, yet it is being >> > called out. Additionally, aren't most of these pkgs in the packages >> > included by default? >> > >> > And up until yesterday, I didn't have any of these problems. I've >> > been compiling and running this for several years. But now I want to >> > release to CRAN, so I've been fixing minor issues....and suddenly >> > this mass of Notes. >> > >> > Thank you, >> > >> > Cathy Lee Gierke >> > >> > “Darkness cannot drive out darkness: only light can do that. Hate >> > cannot drive out hate: only love can do that.” >> > >> > “The arc of the moral universe is long, but it bends towards >> > justice.” >> > “Nothing in the world is more dangerous than sincere ignorance and >> > conscientious stupidity.” >> > “Never forget that everything Hitler did in Germany was legal.” >> > “Forgiveness is not an occasional act, it is a constant attitude.” >> > “Injustice anywhere is a threat to justice everywhere.” >> > >> > ― Martin Luther King Jr. >> > >> > >> > On Mon, Jan 30, 2017 at 10:52 AM, Brian G. Peterson <brian@braverock. >> > com> wrote: >> > > The error you reference below is pretty clear, I think. >> > > >> > > You need to add imports for all the functions you're using from >> > > other packages. >> > > >> > > See: https://cran.r-project.org/doc/manuals/r-release/R-exts.html#S >> > > pecifying-imports-and-exports >> > > >> > > Regards, >> > > >> > > Brian >> > > >> > > >> > > -- >> > > Brian G. Peterson >> > > http://braverock.com/brian/ >> > > Ph: 773-459-4973 >> > > IM: bgpbraverock >> > > >> > > On Mon, 2017-01-30 at 10:39 -0600, Cathy Lee Gierke wrote: >> > > > Yes, that seemed to get rid of the NOTE....but it doesn't seem to >> > > > make much difference other than that. i.e., it seems to process >> > > > the same using CATkit vs CATkit_2.06.tar.gz! >> > > > >> > > > Here is the main error that I am getting. I just upgraded to the >> > > > latest R version, fyi. >> > > > >> > > > Everything was fine, a few minor warnings...now this. >> > > > Description and namespace are proper. These pkgs should all be >> > > > part of the R base, aren't they? Anyone know why I should get >> > > > these errors? Thanks! >> > > > >> > > > * checking R code for possible problems ... NOTE >> > > > Actogram: no visible global function definition for ‘par’ >> > > > Actogram: no visible global function definition for ‘barplot’ >> > > > Actogram: no visible global function definition for ‘box’ >> > > > Actogram: no visible global function definition for ‘text’ >> > > > Actogram: no visible global function definition for ‘mtext’ >> > > > Actogram: no visible binding for global variable ‘end’ >> > > > AutoCorr: no visible global function definition for ‘par’ >> > > > AutoCorr: no visible global function definition for ‘layout’ >> > > > AutoCorr: no visible global function definition for ‘acf’ >> > > > AutoCorr: no visible global function definition for ‘abline’ >> > > > AutoCorr: no visible global function definition for ‘title’ >> > > > AutoCorr: no visible global function definition for ‘mtext’ >> > > > AutoCorr: no visible global function definition for ‘var’ >> > > > AutoCorr: no visible binding for global variable ‘end’ >> > > > CATCosinor: no visible global function definition for ‘par’ >> > > > CATCosinor: no visible global function definition for ‘pdf’ >> > > > CATCosinor: no visible global function definition for ‘jpeg’ >> > > > CATCosinor: no visible global function definition for ‘png’ >> > > > CATCosinor: no visible global function definition for ‘tiff’ >> > > > ......... A zillion more for every function I have...... >> > > > periCosinor: no visible global function definition for ‘par’ >> > > > periCosinor: no visible global function definition for ‘fft’ >> > > > Undefined global functions or variables: >> > > > TukeyHSD abline acf aov as.raster axis barplot box boxplot ccf >> > > > coefficients dev.cur dev.off drop1 end fft gray heat.colors >> > > > image >> > > > jpeg layout legend lines median model.tables mtext na.action >> > > > na.omit >> > > > palette par pdf pf plot plot.new png points rainbow rasterImage >> > > > read.table str strwidth tail terrain.colors text tiff title ts >> > > > var >> > > > write.table >> > > > Consider adding >> > > > importFrom("grDevices", "as.raster", "dev.cur", "dev.off", >> > > > "gray", >> > > > "heat.colors", "jpeg", "palette", "pdf", "png", >> > > > "rainbow", >> > > > "terrain.colors", "tiff") >> > > > importFrom("graphics", "abline", "axis", "barplot", "box", >> > > > "boxplot", >> > > > "image", "layout", "legend", "lines", "mtext", >> > > > "par", >> > > > "plot", "plot.new", "points", "rasterImage", >> > > > "strwidth", >> > > > "text", "title") >> > > > importFrom("stats", "TukeyHSD", "acf", "aov", "ccf", >> > > > "coefficients", >> > > > "drop1", "end", "fft", "median", "model.tables", >> > > > "na.action", "na.omit", "pf", "ts", "var") >> > > > importFrom("utils", "read.table", "str", "tail", "write.table") >> > > > to your NAMESPACE file. >> > > > >> > > > >> > > > Cathy Lee Gierke >> > > > >> > > > “Darkness cannot drive out darkness: only light can do that. Hate >> > > > cannot drive out hate: only love can do that.” >> > > > >> > > > “The arc of the moral universe is long, but it bends towards >> > > > justice.” >> > > > “Nothing in the world is more dangerous than sincere ignorance >> > > > and conscientious stupidity.” >> > > > “Never forget that everything Hitler did in Germany was legal.” >> > > > >> > > > “Forgiveness is not an occasional act, it is a constant >> > > > attitude.” >> > > > “Injustice anywhere is a threat to justice everywhere.” >> > > > >> > > > ― Martin Luther King Jr. >> > > > >> > > > >> > > > On Mon, Jan 30, 2017 at 10:05 AM, Brian G. Peterson <brian@braver >> > > > ock.com> wrote: >> > > > > On Mon, 2017-01-30 at 09:45 -0600, Cathy Lee Gierke wrote: >> > > > > > building ‘CATkit_2.06.tar.gz’ >> > > > > >> > > > > R CMD build creates a tarball >> > > > > >> > > > > > x-134-84-0-217:CATkit user$ *R CMD check CATkit* >> > > > > >> > > > > but you are checknig the directory, not the tarball. >> > > > > >> > > > > do >> > > > > >> > > > > R CMD check CATkit_2.06.tar.gz >> > > > > >> > > > > instead. >> > > > > >> > > > > Regards, >> > > > > >> > > > > Brian >> > > > > >> >> ______________________________________________ >> R-package-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/r-package-devel > [[alternative HTML version deleted]] ______________________________________________ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
