############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:Qtlizer.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings Qtlizer_1.20.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/Qtlizer.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.6.7 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘Qtlizer/DESCRIPTION’ ... OK * this is package ‘Qtlizer’ version ‘1.20.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' 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 for sufficient/correct file permissions ... OK * checking whether package ‘Qtlizer’ 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 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 whether startup messages can be suppressed ... 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 ... NOTE File ‘Qtlizer/R/zzz.R’: .onLoad calls: packageStartupMessage("\n ---------\n \n For example usage please run: vignette('Qtlizer')\n \n Web-based GUI: http://genehopper.de/qtlizer\n Documentation: http://genehopper.de/help#qtlizer_docu\n Github Repo: https://github.com/matmu/Qtlizer\n \n Citation appreciated:\n Munz M, Wohlers I, Simon E, Reinberger T, Busch H, Schaefer A and Erdmann J (2020) Qtlizer: comprehensive QTL annotation of GWAS results. Scientific Reports. doi:10.1038/s41598-020-75770-7\n \n ---------", domain = NULL, appendLF = TRUE) See section ‘Good practice’ in '?.onAttach'. * checking Rd files ... 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 files in ‘vignettes’ ... OK * checking examples ... ERROR Running examples in ‘Qtlizer-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: get_qtls > ### Title: Query Qtlizer > ### Aliases: get_qtls > > ### ** Examples > > get_qtls("rs4284742") 1 unique query term(s) found Retrieving QTL information from Qtlizer... Error in FUN(X[[i]], ...) : Web server seems to be down. Try again later! Calls: get_qtls -> lapply -> FUN Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 ERROR, 1 NOTE See ‘/Users/biocbuild/bbs-3.20-bioc/meat/Qtlizer.Rcheck/00check.log’ for details.