* using log directory 'd:/RCompile/CRANincoming/R-devel/mlsubtyping.Rcheck'
* using R Under development (unstable) (2024-03-20 r86162 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 'mlsubtyping/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'mlsubtyping' version '1.0.0'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Dadong Zhang <dadong.zhang.shared@gmail.com>'

New submission

Possibly misspelled words in DESCRIPTION:
  TCGA (3:41, 8:118)
  centroids (8:71)
  subtypes (3:23)
  subtyping (8:47)

Found the following (possibly) invalid URLs:
  URL: https://clincancerres.aacrjournals.org/content/16/19/4864 (moved to https://aacrjournals.org/clincancerres/article/16/19/4864/75620/Lung-Squamous-Cell-Carcinoma-mRNA-Expression)
    From: inst/doc/mlsubtyping.html
          README.md
    Status: 301
    Message: Moved Permanently
  URL: https://dgit.eacc.ds.quintiles.com/u1072932/mlsubtyping
    From: DESCRIPTION
    Status: Error
    Message: Could not resolve host: dgit.eacc.ds.quintiles.com
  URL: https://dgit.eacc.ds.quintiles.com/u1072932/mlsubtyping/issues
    From: DESCRIPTION
          README.md
    Status: Error
    Message: Could not resolve host: dgit.eacc.ds.quintiles.com
  For content that is 'Moved Permanently', please change http to https,
  add trailing slashes, or replace the old by the new URL.

The Title field should be in title case. Current version is:
'Predict cancer subtypes based on TCGA data using machine learning method'
In title case that is:
'Predict Cancer Subtypes Based on TCGA Data using Machine Learning Method'
* 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 'mlsubtyping' 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 ... 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 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 ... [29s] 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [65s] NOTE
Examples with CPU (user + system) or elapsed time > 10s
           user system elapsed
PlotHeat  38.39   0.20   38.76
MLSubtype 15.00   0.39   15.61
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [46s] OK
  Running 'testthat.R' [45s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... [13s] OK
* checking HTML version of manual ... OK
* DONE
Status: 2 NOTEs