* using log directory 'd:/RCompile/CRANincoming/R-devel/EMTscore.Rcheck'
* using R Under development (unstable) (2025-04-10 r88129 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'EMTscore/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'EMTscore' version '0.1.1'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Haimei Wen <hudie.luoluo@gmail.com>'

New submission

Possibly misspelled words in DESCRIPTION:
  EMTscore (7:1051, 7:1495)
  Omics (3:38)
  mesenchymal (7:25)
  omics (7:611, 7:1325, 7:1588)

Unknown, possibly misspelled, fields in DESCRIPTION:
  'Comment'

Size of tarball: 8063429 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 'EMTscore' can be installed ... OK
* 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 ... [10s] OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... WARNING
'::' or ':::' import not declared from: 'paletteer'
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [35s] NOTE
plot_heatmap_function: warning in Heatmap(result_plot, color =
  expr_colors, cluster_rows = FALSE, top_annotation = ha,
  right_annotation = row_ha, left_annotation = row_label_annotation,
  show_column_names = FALSE, name = "Gene Expr", ): partial argument
  match of 'color' to 'color_space'
Execute_E_M_plot: no visible global function definition for
  'geom_errorbar'
Execute_E_M_plot: no visible global function definition for
  'geom_errorbarh'
Execute_E_M_plot: no visible global function definition for
  'scale_fill_manual'
Execute_E_M_plot: no visible global function definition for 'unit'
Execute_M_dimension_plot: no visible global function definition for
  'geom_errorbar'
Execute_M_dimension_plot: no visible global function definition for
  'geom_errorbarh'
Execute_M_dimension_plot: no visible global function definition for
  'scale_fill_manual'
Execute_M_dimension_plot: no visible global function definition for
  'unit'
Execute_nnPCA: no visible global function definition for 'nsprcomp'
plot_heatmap_function: no visible global function definition for
  'nsprcomp'
Undefined global functions or variables:
  geom_errorbar geom_errorbarh nsprcomp scale_fill_manual unit
* 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 ... WARNING
'library' or 'require' calls not declared from:
  'ggthemes' 'nsprcomp' 'paletteer' 'pheatmap'
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [11s] ERROR
Running examples in 'EMTscore-Ex.R' failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: Execute_E_M_plot
> ### Title: present EMT score result
> ### Aliases: Execute_E_M_plot
> 
> ### ** Examples
> 
> library(nsprcomp)
Error in library(nsprcomp) : there is no package called 'nsprcomp'
Execution halted
* checking PDF version of manual ... [12s] OK
* checking HTML version of manual ... OK
* DONE
Status: 1 ERROR, 2 WARNINGs, 2 NOTEs