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#Speci
fying-imports-and-exports
Regards,
Brian
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@braverock.
> 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
> >
> >
--
Brian G. Peterson
http://braverock.com/brian/
Ph: 773-459-4973
IM: bgpbraverock
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