* using log directory 'd:/Rcompile/CRANpkg/local/4.3/TOmicsVis.Rcheck' * using R version 4.3.3 (2024-02-29 ucrt) * using platform: x86_64-w64-mingw32 (64-bit) * 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 'TOmicsVis/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'TOmicsVis' version '2.0.0' * package encoding: UTF-8 * 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 'TOmicsVis' can be installed ... OK * checking installed package size ... NOTE installed size is 6.4Mb sub-directories of 1Mb or more: data-tables 1.4Mb doc 1.9Mb help 1.2Mb * checking package directory ... 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 ... [15s] OK * checking whether the package can be loaded with stated dependencies ... [19s] OK * checking whether the package can be unloaded cleanly ... [31s] OK * checking whether the namespace can be loaded with stated dependencies ... [14s] OK * checking whether the namespace can be unloaded cleanly ... [81s] OK * checking loading without being on the library search path ... [51s] 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 ... [39s] OK * checking Rd files ... [1s] OK * checking Rd metadata ... 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] 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 ... [147s] OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in 'inst/doc' ... OK * checking re-building of vignette outputs ... [92s] ERROR Error(s) in re-building vignettes: --- re-building 'Tutorials.Rmd' using rmarkdown Warning: ggrepel: 6 unlabeled data points (too many overlaps). Consider increasing max.overlaps Warning: ggrepel: 1 unlabeled data points (too many overlaps). Consider increasing max.overlaps Could not fetch https://benben-miao.github.io/TOmicsVis/TOmicsVis-Shinyapp.png HttpExceptionRequest Request { host = "benben-miao.github.io" port = 443 secure = True requestHeaders = [] path = "/TOmicsVis/TOmicsVis-Shinyapp.png" queryString = "" method = "GET" proxy = Nothing rawBody = False redirectCount = 10 responseTimeout = ResponseTimeoutDefault requestVersion = HTTP/1.1 } (ConnectionFailure user error (Network.Socket.gai_strerror not supported: 11001)) Error: processing vignette 'Tutorials.Rmd' failed with diagnostics: pandoc document conversion failed with error 61 --- failed re-building 'Tutorials.Rmd' SUMMARY: processing the following file failed: 'Tutorials.Rmd' Error: Vignette re-building failed. Execution halted * checking PDF version of manual ... [13s] OK * checking HTML version of manual ... [10s] OK * DONE Status: 1 ERROR, 1 NOTE