* using log directory 'd:/Rcompile/CRANpkg/local/4.1/SCpubr.Rcheck' * using R version 4.1.3 (2022-03-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * checking for file 'SCpubr/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'SCpubr' version '1.1.2' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... NOTE Package suggested but not available for checking: 'UCell' * 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 'SCpubr' can be installed ... OK * checking installed package size ... OK * 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 ... 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 ... WARNING Missing or unexported object: 'AUCell::AUCell_run' * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [26s] OK * checking Rd files ... [2s] OK * checking Rd metadata ... OK * checking Rd cross-references ... NOTE Unknown package 'UCell' in Rd xrefs * 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 ... [6s] OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... [206s] ERROR Running 'testthat.R' [205s] Running the tests in 'tests/testthat.R' failed. Complete output: > library(testthat) > library(SCpubr) --------------------------------------------------------------- SCpubr If you use SCpubr in your research, please cite it accordingly: Blanco-Carmona, E. Generating publication ready visualizations for Single Cell transcriptomics using SCpubr. bioRxiv (2022) doi:10.1101/2022.02.28.482303. If the package is useful to you, consider leaving a Star in the GitHub repo: https://github.com/enblacar/SCpubr/stargazers Keep track of the package updates on Twitter (@Enblacar) or in https://github.com/enblacar/SCpubr/blob/main/NEWS.md To suppress this startup message, use: suppressPackageStartupMessages(library('SCpubr')) --------------------------------------------------------------- > test_check("SCpubr") [ FAIL 1 | WARN 0 | SKIP 440 | PASS 90 ] == Skipped tests =============================================================== * On CRAN (440) == Failed tests ================================================================ -- Error ('test-do_FunctionalAnnotationPlot.R:5:5'): do_FunctionalAnnotationPlot: CRAN essential tests -- Error in ``[.data.frame`(p.build$data[[7]], c("label", "node"))`: undefined columns selected Backtrace: x 1. \-SCpubr::do_FunctionalAnnotationPlot(...) at test-do_FunctionalAnnotationPlot.R:5:4 2. \-SCpubr:::do_EnrichedTermTreePlot(...) 3. +-p.build$data[[7]][c("label", "node")] 4. \-base::`[.data.frame`(p.build$data[[7]], c("label", "node")) [ FAIL 1 | WARN 0 | SKIP 440 | PASS 90 ] Error: Test failures Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes in 'inst/doc' ... OK * checking re-building of vignette outputs ... [2s] OK * checking PDF version of manual ... OK * DONE Status: 1 ERROR, 1 WARNING, 2 NOTEs