* using log directory 'd:/RCompile/CRANincoming/R-devel/kmeRtone.Rcheck'
* using R Under development (unstable) (2024-07-18 r86905 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'kmeRtone/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'kmeRtone' version '1.0'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Aleksandr Sahakyan <sahakyanlab@cantab.net>'

New submission

Possibly misspelled words in DESCRIPTION:
  Abdullah (24:13)
  Adib (24:5)
  Aleksandr (24:57)
  Bioinformatics (24:86)
  Feng (24:51)
  KmeRtone (7:5, 13:64, 18:66)
  Meric (5:37)
  Pflughaupt (24:31)
  Sahakyan (24:70)
  TT (23:12)
  deviced (8:46)
  encirhment (7:27)
  genomic (15:63, 22:64)
  mer (19:70, 20:38)
  meric (6:45, 17:62)
  mers (7:43, 8:7, 9:28, 14:74)
* 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 'kmeRtone' can be installed ... OK
* used C++ compiler: 'g++.exe (GCC) 13.2.0'
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code 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 whether startup messages can be suppressed ... 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 ... [19s] OK
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [202s] OK
  Running 'testthat.R' [202s]
* checking PDF version of manual ... [16s] OK
* checking HTML version of manual ... [12s] NOTE
Found the following HTML validation problems:
Coordinate.html:83:9 (Coordinate.Rd:53): Warning: <a> illegal characters found in URI
NCBI_Genome.html:81:9 (NCBI_Genome.Rd:48): Warning: <a> illegal characters found in URI
UCSC_Genome.html:69:9 (UCSC_Genome.Rd:39): Warning: <a> illegal characters found in URI
* DONE
Status: 2 NOTEs