• using R Under development (unstable) (2025-11-05 r88988)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 21.1.5     flang version 21.1.5
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘CohortExplorer/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘CohortExplorer’ version ‘0.1.0’
• 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 ‘CohortExplorer’ can be installed ... [14s/65s] OK See the install log for details.
• checking installed package size ... OK
• checking package directory ... OK
• checking ‘build’ directory ... OK
• checking DESCRIPTION meta-information ... NOTE   Missing dependency on R >= 4.1.0 because package code uses the pipe   |> or function shorthand \(...) syntax added in R 4.1.0.   File(s) using such syntax:     ‘CreateCohortExplorerApp.R’
• 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 ... [4s/19s] OK
• checking whether the package can be loaded with stated dependencies ... [3s/14s] OK
• checking whether the package can be unloaded cleanly ... [3s/13s] OK
• checking whether the namespace can be loaded with stated dependencies ... [3s/20s] OK
• checking whether the namespace can be unloaded cleanly ... [4s/24s] OK
• checking loading without being on the library search path ... [4s/20s] 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 ... [19s/110s] 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 installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [4s/25s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [16s/133s] ERROR   Running ‘testOracle.R’ [5s/22s]   Running ‘testPostgres.R’ [5s/80s]   Running ‘testRedshift.R’   Running ‘testSqlServer.R’ [5s/25s] Running the tests in ‘tests/testPostgres.R’ failed. Complete output:   > library(testthat)   > options(dbms = "postgresql")   > test_check("CohortExplorer")   Loading required package: CohortExplorer   Loading required package: DatabaseConnector      Attaching package: 'dplyr'      The following object is masked from 'package:testthat':          matches      The following objects are masked from 'package:stats':          filter, lag      The following objects are masked from 'package:base':          intersect, setdiff, setequal, union      ************* Testing on postgresql *************   Consider adding `DATABASECONNECTOR_JAR_FOLDER='/tmp/RtmpZNVmkw/working_dir/RtmpoMxv15/jdbcDrivers1b419a4a14e9ce'` to /data/gannet/ripley/.Renviron and restarting R.   trying URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'   Error in `FUN()`:   ! In path: "/data/gannet/ripley/R/packages/tests-clang/CohortExplorer.Rcheck/tests/testthat/setup.R"   Caused by error in `download.file()`:   ! cannot open URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'   Backtrace:        ▆     1. ├─testthat::test_check("CohortExplorer")     2. │ └─testthat::test_dir(...)     3. │ └─testthat:::test_files(...)     4. │ └─testthat:::test_files_serial(...)     5. │ └─testthat:::test_files_setup_state(...)     6. │ └─testthat::source_test_setup(".", env)     7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)     8. │ └─base::lapply(...)     9. │ └─testthat (local) FUN(X[[i]], ...)    10. │ └─testthat::source_file(path, env = env, chdir = chdir, wrap = wrap)    11. │ ├─base::withCallingHandlers(...)    12. │ └─base::eval(exprs, env)    13. │ └─base::eval(exprs, env)    14. │ └─DatabaseConnector::downloadJdbcDrivers(dbms, pathToDriver = jdbcDriverFolder) at tests/testthat/setup.R:13:3    15. │ └─utils::download.file(...)    16. └─base::.handleSimpleError(...)    17. └─testthat (local) h(simpleError(msg, call))    18. └─rlang::abort(...)   Warning message:   In download.file(url = paste0(driverSource$baseUrl, driverSource$fileName), :     URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar': Timeout of 60 seconds was reached   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... OK
• checking PDF version of manual ... [7s/22s] 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, 1 NOTE