* using log directory 'd:/RCompile/CRANincoming/R-devel/coxmeg.Rcheck' * using R Under development (unstable) (2024-03-11 r86098 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 12.3.0 GNU Fortran (GCC) 12.3.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * checking for file 'coxmeg/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'coxmeg' version '1.1.5' * package encoding: UTF-8 * checking CRAN incoming feasibility ... NOTE Maintainer: 'Liang He ' New submission Package was archived on CRAN Possibly misspelled words in DESCRIPTION: Kulminski (8:138) Liang (8:115) CRAN repository db overrides: X-CRAN-Comment: Archived on 2023-11-05 as installation issues were not addressed. Requires BioC package 'SeqArray' which is not C++17. * 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 'coxmeg' 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 '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 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 ... [20s] OK * checking Rd files ... NOTE checkRd: (-1) coxmeg.Rd:79: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg.Rd:80: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg.Rd:81: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg.Rd:94: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg.Rd:95: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg.Rd:103: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg.Rd:104: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg.Rd:105: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg.Rd:106: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_gds.Rd:98: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_gds.Rd:99: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_gds.Rd:100: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_gds.Rd:113: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_gds.Rd:114: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_gds.Rd:122: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_gds.Rd:123: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_gds.Rd:124: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_gds.Rd:125: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_m.Rd:85: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_m.Rd:86: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_m.Rd:87: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_m.Rd:100: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_m.Rd:101: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_m.Rd:109: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_m.Rd:110: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_m.Rd:111: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_m.Rd:112: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_plink.Rd:108: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_plink.Rd:109: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_plink.Rd:110: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_plink.Rd:123: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_plink.Rd:124: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_plink.Rd:132: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_plink.Rd:133: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_plink.Rd:134: Lost braces in \itemize; meant \describe ? checkRd: (-1) coxmeg_plink.Rd:135: Lost braces in \itemize; meant \describe ? checkRd: (-1) fit_ppl.Rd:61: Lost braces in \itemize; meant \describe ? checkRd: (-1) fit_ppl.Rd:62: Lost braces in \itemize; meant \describe ? checkRd: (-1) fit_ppl.Rd:63: Lost braces in \itemize; meant \describe ? checkRd: (-1) fit_ppl.Rd:76: Lost braces in \itemize; meant \describe ? checkRd: (-1) fit_ppl.Rd:77: Lost braces in \itemize; meant \describe ? * 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 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 installed files from 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... [14s] OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... [19s] OK Running 'testthat.R' [19s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [37s] OK * checking PDF version of manual ... [13s] OK * checking HTML version of manual ... OK * DONE Status: 2 NOTEs