• using R version 4.4.2 (2024-10-31)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-14 (Debian 14.2.0-12) 14.2.0     GNU Fortran (Debian 14.2.0-12) 14.2.0
• running under: Debian GNU/Linux trixie/sid
• using session charset: UTF-8
• checking for file ‘INCATome/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘INCATome’ version ‘1.0’
• 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 executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking serialization versions ... OK
• checking whether package ‘INCATome’ can be installed ... OK See the install log for details.
• 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 ... [8s/10s] OK
• checking whether the package can be loaded with stated dependencies ... [8s/10s] OK
• checking whether the package can be unloaded cleanly ... [8s/10s] OK
• checking whether the namespace can be loaded with stated dependencies ... [8s/9s] OK
• checking whether the namespace can be unloaded cleanly ... [8s/12s] OK
• checking loading without being on the library search path ... [8s/10s] 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 ... [38s/47s] OK
• checking Rd files ... [0s/0s] 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 ... [1s/1s] OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking examples ... [18s/30s] OK Examples with CPU (user + system) or elapsed time > 5s           user system elapsed INCA.DEG 3.366 0.062 5.34
• checking PDF version of manual ... [4s/7s] OK
• checking HTML version of manual ... [0s/1s] OK
• checking for non-standard things in the check directory ... NOTE Found the following files/directories:   ‘INCA_DEG combined table.txt’   ‘INCA_DEG_LIMMA_significant_transEff.txt’   ‘INCA_DEG_LIMMA_transEff.txt’ ‘INCA_DEG_LIMMA_volcano_transEff.jpg’   ‘INCA_DEG_RP_transEff.txt’ ‘INCA_DEG_RP_transEff_significant.txt’   ‘INCA_DEG_RP_volcano_transEff.jpg’   ‘INCA_DEG_SAM_significant_transEff.txt’ ‘INCA_DEG_SAM_transEff.txt’   ‘INCA_DEG_SAM_volcano_transEff.jpg’   ‘INCA_DEG_TTEST_significant_transEff.txt’   ‘INCA_DEG_TTEST_transEff.txt’ ‘INCA_DEG_TTEST_volcano_transEff.jpg’   ‘MAplot1.jpg’ ‘MAplot10.jpg’ ‘MAplot11.jpg’ ‘MAplot12.jpg’   ‘MAplot2.jpg’ ‘MAplot3.jpg’ ‘MAplot4.jpg’ ‘MAplot5.jpg’ ‘MAplot6.jpg’   ‘MAplot7.jpg’ ‘MAplot8.jpg’ ‘MAplot9.jpg’   ‘MAplot_post-INCANormIC_1.jpg’ ‘MAplot_post-INCANormIC_10.jpg’   ‘MAplot_post-INCANormIC_11.jpg’ ‘MAplot_post-INCANormIC_12.jpg’   ‘MAplot_post-INCANormIC_2.jpg’ ‘MAplot_post-INCANormIC_3.jpg’   ‘MAplot_post-INCANormIC_4.jpg’ ‘MAplot_post-INCANormIC_5.jpg’   ‘MAplot_post-INCANormIC_6.jpg’ ‘MAplot_post-INCANormIC_7.jpg’   ‘MAplot_post-INCANormIC_8.jpg’ ‘MAplot_post-INCANormIC_9.jpg’   ‘MAplot_post-INCANormSI_1.jpg’ ‘MAplot_post-INCANormSI_10.jpg’   ‘MAplot_post-INCANormSI_11.jpg’ ‘MAplot_post-INCANormSI_12.jpg’   ‘MAplot_post-INCANormSI_2.jpg’ ‘MAplot_post-INCANormSI_3.jpg’   ‘MAplot_post-INCANormSI_4.jpg’ ‘MAplot_post-INCANormSI_5.jpg’   ‘MAplot_post-INCANormSI_6.jpg’ ‘MAplot_post-INCANormSI_7.jpg’   ‘MAplot_post-INCANormSI_8.jpg’ ‘MAplot_post-INCANormSI_9.jpg’   ‘MAplot_pre-INCANormIC_1.jpg’ ‘MAplot_pre-INCANormIC_10.jpg’   ‘MAplot_pre-INCANormIC_11.jpg’ ‘MAplot_pre-INCANormIC_12.jpg’   ‘MAplot_pre-INCANormIC_2.jpg’ ‘MAplot_pre-INCANormIC_3.jpg’   ‘MAplot_pre-INCANormIC_4.jpg’ ‘MAplot_pre-INCANormIC_5.jpg’   ‘MAplot_pre-INCANormIC_6.jpg’ ‘MAplot_pre-INCANormIC_7.jpg’   ‘MAplot_pre-INCANormIC_8.jpg’ ‘MAplot_pre-INCANormIC_9.jpg’   ‘MAplot_pre-INCANormSI_1.jpg’ ‘MAplot_pre-INCANormSI_10.jpg’   ‘MAplot_pre-INCANormSI_11.jpg’ ‘MAplot_pre-INCANormSI_12.jpg’   ‘MAplot_pre-INCANormSI_2.jpg’ ‘MAplot_pre-INCANormSI_3.jpg’   ‘MAplot_pre-INCANormSI_4.jpg’ ‘MAplot_pre-INCANormSI_5.jpg’   ‘MAplot_pre-INCANormSI_6.jpg’ ‘MAplot_pre-INCANormSI_7.jpg’   ‘MAplot_pre-INCANormSI_8.jpg’ ‘MAplot_pre-INCANormSI_9.jpg’   ‘SpikeInPlot1.jpg’ ‘SpikeInPlot10.jpg’ ‘SpikeInPlot11.jpg’   ‘SpikeInPlot12.jpg’ ‘SpikeInPlot2.jpg’ ‘SpikeInPlot3.jpg’   ‘SpikeInPlot4.jpg’ ‘SpikeInPlot5.jpg’ ‘SpikeInPlot6.jpg’   ‘SpikeInPlot7.jpg’ ‘SpikeInPlot8.jpg’ ‘SpikeInPlot9.jpg’
• DONE

Status: 1 NOTE