* using log directory 'd:/RCompile/CRANincoming/R-devel/RFlocalfdr.Rcheck'
* using R Under development (unstable) (2023-08-05 r84874 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 12.2.0
    GNU Fortran (GCC) 12.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'RFlocalfdr/DESCRIPTION' ... OK
* this is package 'RFlocalfdr' version '0.2.0'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Robert Dunne <rob.dunne@csiro.au>'

New submission

Possibly misspelled words in DESCRIPTION:
  al (12:27)
  et (12:24)

Size of tarball: 15176024 bytes
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'RFlocalfdr' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... NOTE
Non-standard files/directories found at top level:
  'RFlocalfdr-Ex.pdf' 'aa'
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
Found if() conditions comparing class() to string:
File 'RFlocalfdr/R/fit.to.data.set.R': if (class(mm1.df) == "try-error" & try.counter == 0) ...
File 'RFlocalfdr/R/fit.to.data.set.R': if (class(mm1.df) == "try-error" & (try.counter < 2)) ...
File 'RFlocalfdr/R/fit.to.data.set.R': if (class(mm1.df) == "try-error" & try.counter == 3) ...
File 'RFlocalfdr/R/fit.to.data.set.wrapper.R': if (class(mm.df3) == "try-error") ...
File 'RFlocalfdr/R/fit.to.data.set.wrapper.R': if (class(mm.df1) == "try-error") ...
File 'RFlocalfdr/R/fit.to.data.set.wrapper.R': if (class(mm.df2) == "try-error") ...
File 'RFlocalfdr/R/plotQ.R': if (class(qq) == "numeric") ...
File 'RFlocalfdr/R/plotQ.R': if (class(final.estimates_cc) != "character") ...
File 'RFlocalfdr/R/plotQ.R': if (class(qq) == "numeric") ...
Use inherits() (or maybe is()) instead.
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [14m] NOTE
Examples with CPU (user + system) or elapsed time > 10s
                      user system elapsed
imp1               1050.76   2.05   42.28
run.it.importances  425.88  40.72  466.59
determine.C         147.14  12.86  245.79
fit.to.data.set      38.58   3.28   41.86
local.fdr            33.56   4.15   37.71
determine_cutoff     16.33   0.49    4.50
plotQ                13.84   0.52    4.66
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... OK
  Running 'testthat.R'
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... [13s] OK
* checking HTML version of manual ... OK
* DONE
Status: 4 NOTEs