* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/neurocInstall.Rcheck’ * using R Under development (unstable) (2024-03-16 r86144) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (GCC) 13.2.1 20231011 (Red Hat 13.2.1-4) GNU Fortran (GCC) 13.2.1 20231011 (Red Hat 13.2.1-4) * running under: Fedora Linux 38 (Workstation Edition) * using session charset: UTF-8 * checking for file ‘neurocInstall/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘neurocInstall’ version ‘0.12.0’ * 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 executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘neurocInstall’ can be installed ... 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 loading without being on the library search path ... 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 ... [11s/11s] OK * checking Rd files ... 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 LazyData ... NOTE 'LazyData' is specified without a 'data' directory * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking examples with --run-donttest ... ERROR Running examples in ‘neurocInstall-Ex.R’ failed The error most likely occurred in: > ### Name: neuro_install > ### Title: Neuroconductor Installer > ### Aliases: neuro_install neuroc_install neurocLite > > ### ** Examples > > ## No test: > tlib = tempfile() > dir.create(tlib, showWarnings = FALSE) > system.time({ + install.packages("oro.asl", + lib = tlib, + repos = "https://neuroconductor.org/releases/2019/12/") + }) Warning: unable to access index for repository https://neuroconductor.org/releases/2019/12/src/contrib: cannot open URL 'https://neuroconductor.org/releases/2019/12/src/contrib/PACKAGES' Warning: package ‘oro.asl’ is not available for this version of R A version of this package for your version of R might be available elsewhere, see the ideas at https://cran.r-project.org/doc/manuals/r-devel/R-admin.html#Installing-packages user system elapsed 0.212 0.003 0.602 > repos = getOption("repos") > print(repos) CRAN "@CRAN@" > #if (repos["CRAN"] == "@CRAN@") { > # repos["CRAN"] = "https://cloud.r-project.org" > # options(repos = repos) > #} > options(repos = NULL) > print(getOption("repos")) NULL > neuro_install("oro.asl", lib = tlib, + release_repo = "https://neuroconductor.org/releases/2019/12") Warning: unable to access index for repository https://neuroconductor.org/releases/2019/12/src/contrib: cannot open URL 'https://neuroconductor.org/releases/2019/12/src/contrib/PACKAGES' Warning: package ‘oro.asl’ is not available for this version of R A version of this package for your version of R might be available elsewhere, see the ideas at https://cran.r-project.org/doc/manuals/r-devel/R-admin.html#Installing-packages Warning in neuro_install("oro.asl", lib = tlib, release_repo = "https://neuroconductor.org/releases/2019/12") : Package(s): oro.asl released binaries/sources were not installed, please try to install with release_repo = "github" > options(repos = repos) > > ## End(No test) > ## No test: > neuro_install("cifti", type = "source", lib = tlib) Warning in download.file(url = url, destfile = destfile, quiet = TRUE) : URL 'https://neuroconductor.org/api/releases/': status was 'SSL peer certificate or SSH remote key was not OK' Warning in release_versions() : Releases did not download, may be error with downloading https://neuroconductor.org/api/releases/ Error in utils::contrib.url(repos, type) : trying to use CRAN without setting a mirror Calls: neuro_install -> Execution halted * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [12s/12s] OK * checking PDF version of manual ... OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * checking for new files in some other directories ... OK * DONE Status: 1 ERROR, 1 NOTE See ‘/data/blackswan/ripley/R/packages/tests-devel/neurocInstall.Rcheck/00check.log’ for details. Command exited with non-zero status 1 Time 1:45.14, 83.32 + 11.04