* using log directory ‘/data/gannet/ripley/R/packages/tests-ATLAS/red.Rcheck’ * using R Under development (unstable) (2025-04-25 r88178) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc-15 (GCC) 15.1.0 GNU Fortran (GCC) 15.1.0 * running under: Fedora Linux 40 (Workstation Edition) * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘red/DESCRIPTION’ ... OK * this is package ‘red’ version ‘1.6.1’ * 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 ‘red’ can be installed ... [93s/369s] OK * checking package 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 ... [27s/74s] OK * checking whether the package can be loaded with stated dependencies ... [28s/47s] OK * checking whether the package can be unloaded cleanly ... [26s/51s] OK * checking whether the namespace can be loaded with stated dependencies ... [25s/47s] OK * checking whether the namespace can be unloaded cleanly ... [27s/66s] OK * checking loading without being on the library search path ... [27s/56s] 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 ... [120s/362s] 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 examples ... [41s/146s] ERROR Running examples in ‘red-Ex.R’ failed The error most likely occurred in: > ### Name: records > ### Title: Download taxon records from GBIF. > ### Aliases: records > > ### ** Examples > > rec = records("Nephila senegalensis") 55 records found 0-Warning in download.file(aurl, tmpfile, quiet = TRUE) : downloaded length 0 != reported length 286 Warning in download.file(aurl, tmpfile, quiet = TRUE) : cannot open URL 'https://api.gbif.org/v1/occurrence/search?scientificname=Nephila+senegalensis*&limit=300&coordinatestatus=true&offset=0': HTTP status was '503 Service Unavailable' Error in download.file(aurl, tmpfile, quiet = TRUE) : cannot open URL 'https://api.gbif.org/v1/occurrence/search?scientificname=Nephila+senegalensis*&limit=300&coordinatestatus=true&offset=0' [1] "download failure, trying again..." Warning in download.file(aurl, tmpfile, quiet = TRUE) : downloaded length 0 != reported length 286 Warning in download.file(aurl, tmpfile, quiet = TRUE) : cannot open URL 'https://api.gbif.org/v1/occurrence/search?scientificname=Nephila+senegalensis*&limit=300&coordinatestatus=true&offset=0': HTTP status was '503 Service Unavailable' Error in download.file(aurl, tmpfile, quiet = TRUE) : cannot open URL 'https://api.gbif.org/v1/occurrence/search?scientificname=Nephila+senegalensis*&limit=300&coordinatestatus=true&offset=0' [1] "download failure, trying again..." Warning in download.file(aurl, tmpfile, quiet = TRUE) : downloaded length 0 != reported length 286 Warning in download.file(aurl, tmpfile, quiet = TRUE) : cannot open URL 'https://api.gbif.org/v1/occurrence/search?scientificname=Nephila+senegalensis*&limit=300&coordinatestatus=true&offset=0': HTTP status was '503 Service Unavailable' Error in download.file(aurl, tmpfile, quiet = TRUE) : cannot open URL 'https://api.gbif.org/v1/occurrence/search?scientificname=Nephila+senegalensis*&limit=300&coordinatestatus=true&offset=0' [1] "download failure, trying again..." Warning in download.file(aurl, tmpfile, quiet = TRUE) : downloaded length 0 != reported length 286 Warning in download.file(aurl, tmpfile, quiet = TRUE) : cannot open URL 'https://api.gbif.org/v1/occurrence/search?scientificname=Nephila+senegalensis*&limit=300&coordinatestatus=true&offset=0': HTTP status was '503 Service Unavailable' Error in download.file(aurl, tmpfile, quiet = TRUE) : cannot open URL 'https://api.gbif.org/v1/occurrence/search?scientificname=Nephila+senegalensis*&limit=300&coordinatestatus=true&offset=0' [1] "download failure, trying again..." Warning in download.file(aurl, tmpfile, quiet = TRUE) : downloaded length 0 != reported length 286 Warning in download.file(aurl, tmpfile, quiet = TRUE) : cannot open URL 'https://api.gbif.org/v1/occurrence/search?scientificname=Nephila+senegalensis*&limit=300&coordinatestatus=true&offset=0': HTTP status was '503 Service Unavailable' Error in download.file(aurl, tmpfile, quiet = TRUE) : cannot open URL 'https://api.gbif.org/v1/occurrence/search?scientificname=Nephila+senegalensis*&limit=300&coordinatestatus=true&offset=0' [1] "download failure, trying again..." Warning in dismo::gbif(taxon[1], paste(taxon[2], "*", sep = "")) : GBIF did not return the data in 5 tries for: [1] "https://api.gbif.org/v1/occurrence/search?scientificname=Nephila+senegalensis*&limit=300&coordinatestatus=true&offset=0" 55 records downloaded Error in `colnames<-`(`*tmp*`, value = c("Species", "long", "lat")) : attempt to set 'colnames' on an object with less than two dimensions Calls: records -> colnames<- Execution halted * checking PDF version of manual ... [8s/32s] OK * checking HTML version of manual ... OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 ERROR See ‘/data/gannet/ripley/R/packages/tests-ATLAS/red.Rcheck/00check.log’ for details. Command exited with non-zero status 1 Time 34:39.64, 684.14 + 50.96