Last updated on 2025-11-06 05:50:45 CET.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| CohortAlgebra | 2 | 11 | |
| CohortExplorer | 2 | 8 | 3 |
| CohortPathways | 2 | 11 |
Current CRAN status: ERROR: 2, OK: 11
Version: 0.3.1
Check: tests
Result: ERROR
Running ‘testOracle.R’
Running ‘testPostgres.R’ [5s/87s]
Running ‘testRedshift.R’
Running ‘testSqlServer.R’ [5s/83s]
Running the tests in ‘tests/testPostgres.R’ failed.
Complete output:
> library(testthat)
> options(dbms = "postgresql")
> test_check("CohortAlgebra")
Loading required package: CohortAlgebra
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/RtmpGfTxbd/working_dir/RtmpAg4bpu/file1b1fd144319b00/jdbcDrivers'` 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/CohortAlgebra.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("CohortAlgebra")
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]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(path, env = env, chdir = chdir, wrap = wrap)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─DatabaseConnector::downloadJdbcDrivers("postgresql", pathToDriver = jdbcDriverFolder) at tests/testthat/setup.R:18:3
15. │ └─utils::download.file(...)
16. └─base::.handleSimpleError(...)
17. └─testthat (local) h(simpleError(msg, call))
18. └─rlang::abort(...)
Warning messages:
1: The folder location '/tmp/RtmpGfTxbd/working_dir/RtmpAg4bpu/file1b1fd144319b00/jdbcDrivers' does not exist. Attempting to create.
2: In download.file(url = paste0(driverSource$baseUrl, driverSource$fileName), :
URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar': Timeout of 60 seconds was reached
Execution halted
Running the tests in ‘tests/testSqlServer.R’ failed.
Complete output:
> library(testthat)
> options(dbms = "sql server")
> test_check("CohortAlgebra")
Loading required package: CohortAlgebra
Loading required package: DatabaseConnector
Attaching package: 'dplyr'
The following object is masked from 'package:testthat':
matches
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
************* Testing on sql server *************
Consider adding `DATABASECONNECTOR_JAR_FOLDER='/tmp/RtmpGfTxbd/working_dir/RtmpNjpeGn/file1b71105f70c891/jdbcDrivers'` to /data/gannet/ripley/.Renviron and restarting R.
trying URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Error in `FUN()`:
! In path: "/data/gannet/ripley/R/packages/tests-clang/CohortAlgebra.Rcheck/tests/testthat/setup.R"
Caused by error in `download.file()`:
! cannot open URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Backtrace:
▆
1. ├─testthat::test_check("CohortAlgebra")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", 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("postgresql", pathToDriver = jdbcDriverFolder) at tests/testthat/setup.R:18:3
15. │ └─utils::download.file(...)
16. └─base::.handleSimpleError(...)
17. └─testthat (local) h(simpleError(msg, call))
18. └─rlang::abort(...)
Warning messages:
1: The folder location '/tmp/RtmpGfTxbd/working_dir/RtmpNjpeGn/file1b71105f70c891/jdbcDrivers' does not exist. Attempting to create.
2: 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
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.3.1
Check: tests
Result: ERROR
Running ‘testOracle.R’
Running ‘testPostgres.R’ [4s/69s]
Running ‘testRedshift.R’
Running ‘testSqlServer.R’ [4s/66s]
Running the tests in ‘tests/testPostgres.R’ failed.
Complete output:
> library(testthat)
> options(dbms = "postgresql")
> test_check("CohortAlgebra")
Loading required package: CohortAlgebra
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/Rtmp6TlhON/working_dir/RtmpuQYdmm/file1ae9515f471d45/jdbcDrivers'` 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-devel/CohortAlgebra.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("CohortAlgebra")
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]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(path, env = env, chdir = chdir, wrap = wrap)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─DatabaseConnector::downloadJdbcDrivers("postgresql", pathToDriver = jdbcDriverFolder) at tests/testthat/setup.R:18:3
15. │ └─utils::download.file(...)
16. └─base::.handleSimpleError(...)
17. └─testthat (local) h(simpleError(msg, call))
18. └─rlang::abort(...)
Warning messages:
1: The folder location '/tmp/Rtmp6TlhON/working_dir/RtmpuQYdmm/file1ae9515f471d45/jdbcDrivers' does not exist. Attempting to create.
2: In download.file(url = paste0(driverSource$baseUrl, driverSource$fileName), :
URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar': Timeout of 60 seconds was reached
Execution halted
Running the tests in ‘tests/testSqlServer.R’ failed.
Complete output:
> library(testthat)
> options(dbms = "sql server")
> test_check("CohortAlgebra")
Loading required package: CohortAlgebra
Loading required package: DatabaseConnector
Attaching package: 'dplyr'
The following object is masked from 'package:testthat':
matches
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
************* Testing on sql server *************
Consider adding `DATABASECONNECTOR_JAR_FOLDER='/tmp/Rtmp6TlhON/working_dir/RtmpMKXim7/file1b1b09611c2c2a/jdbcDrivers'` to /data/gannet/ripley/.Renviron and restarting R.
trying URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Error in `FUN()`:
! In path: "/data/gannet/ripley/R/packages/tests-devel/CohortAlgebra.Rcheck/tests/testthat/setup.R"
Caused by error in `download.file()`:
! cannot open URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Backtrace:
▆
1. ├─testthat::test_check("CohortAlgebra")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", 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("postgresql", pathToDriver = jdbcDriverFolder) at tests/testthat/setup.R:18:3
15. │ └─utils::download.file(...)
16. └─base::.handleSimpleError(...)
17. └─testthat (local) h(simpleError(msg, call))
18. └─rlang::abort(...)
Warning messages:
1: The folder location '/tmp/Rtmp6TlhON/working_dir/RtmpMKXim7/file1b1b09611c2c2a/jdbcDrivers' does not exist. Attempting to create.
2: 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
Flavor: r-devel-linux-x86_64-fedora-gcc
Current CRAN status: ERROR: 2, NOTE: 8, OK: 3
Version: 0.1.0
Check: DESCRIPTION meta-information
Result: 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’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64
Version: 0.1.0
Check: tests
Result: 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$fileName), :
URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar': Timeout of 60 seconds was reached
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.1.0
Check: tests
Result: ERROR
Running ‘testOracle.R’ [5s/13s]
Running ‘testPostgres.R’ [4s/68s]
Running ‘testRedshift.R’
Running ‘testSqlServer.R’ [5s/10s]
Running the tests in ‘tests/testPostgres.R’ failed.
Complete output:
> library(testthat)
> options(dbms = "postgresql")
> test_check("CohortExplorer")
Loading required package: CohortExplorer
Loading required package: DatabaseConnector
Attaching package: 'dplyr'
The following object is masked from 'package:testthat':
matches
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
************* Testing on postgresql *************
Consider adding `DATABASECONNECTOR_JAR_FOLDER='/tmp/Rtmp3UAC5Y/working_dir/RtmpsDVTfB/jdbcDrivers1af985361849e4'` to /data/gannet/ripley/.Renviron and restarting R.
trying URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Error in `FUN()`:
! In path: "/data/gannet/ripley/R/packages/tests-devel/CohortExplorer.Rcheck/tests/testthat/setup.R"
Caused by error in `download.file()`:
! cannot open URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Backtrace:
▆
1. ├─testthat::test_check("CohortExplorer")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", 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
Flavor: r-devel-linux-x86_64-fedora-gcc
Current CRAN status: ERROR: 2, OK: 11
Version: 0.0.1
Check: tests
Result: ERROR
Running ‘testOracle.R’ [5s/87s]
Running ‘testPostgres.R’ [5s/78s]
Running ‘testRedshift.R’
Running ‘testSqlServer.R’ [5s/78s]
Running the tests in ‘tests/testOracle.R’ failed.
Complete output:
> library(testthat)
> options(dbms = "oracle")
> test_check("CohortPathways")
Loading required package: CohortPathways
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 oracle *************
Consider adding `DATABASECONNECTOR_JAR_FOLDER='/tmp/RtmpwZsOD7/working_dir/Rtmpkafy2z/jdbcDrivers1b20fa29f2be56'` 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/CohortPathways.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("CohortPathways")
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]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(path, env = env, chdir = chdir, wrap = wrap)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─DatabaseConnector::downloadJdbcDrivers("postgresql", pathToDriver = jdbcDriverFolder) at tests/testthat/setup.R:18:3
15. │ └─utils::download.file(...)
16. └─base::.handleSimpleError(...)
17. └─testthat (local) h(simpleError(msg, call))
18. └─rlang::abort(...)
Warning message:
In download.file(url = paste0(driverSource$baseUrl, driverSource$fileName), :
URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar': Timeout of 60 seconds was reached
Execution halted
Running the tests in ‘tests/testPostgres.R’ failed.
Complete output:
> library(testthat)
> options(dbms = "postgresql")
> test_check("CohortPathways")
Loading required package: CohortPathways
Loading required package: DatabaseConnector
Attaching package: 'dplyr'
The following object is masked from 'package:testthat':
matches
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
************* Testing on postgresql *************
Consider adding `DATABASECONNECTOR_JAR_FOLDER='/tmp/RtmpwZsOD7/working_dir/RtmpjzL9pn/jdbcDrivers1b6d0e66968682'` to /data/gannet/ripley/.Renviron and restarting R.
trying URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Error in `FUN()`:
! In path: "/data/gannet/ripley/R/packages/tests-clang/CohortPathways.Rcheck/tests/testthat/setup.R"
Caused by error in `download.file()`:
! cannot open URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Backtrace:
▆
1. ├─testthat::test_check("CohortPathways")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", 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("postgresql", pathToDriver = jdbcDriverFolder) at tests/testthat/setup.R:18:3
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
Running the tests in ‘tests/testSqlServer.R’ failed.
Complete output:
> library(testthat)
> options(dbms = "sql server")
> test_check("CohortPathways")
Loading required package: CohortPathways
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 sql server *************
Consider adding `DATABASECONNECTOR_JAR_FOLDER='/tmp/RtmpwZsOD7/working_dir/Rtmp1TLfJA/jdbcDrivers1bc31c55aa089d'` 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/CohortPathways.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("CohortPathways")
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]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(path, env = env, chdir = chdir, wrap = wrap)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─DatabaseConnector::downloadJdbcDrivers("postgresql", pathToDriver = jdbcDriverFolder) at tests/testthat/setup.R:18:3
15. │ └─utils::download.file(...)
16. └─base::.handleSimpleError(...)
17. └─testthat (local) h(simpleError(msg, call))
18. └─rlang::abort(...)
Warning message:
In download.file(url = paste0(driverSource$baseUrl, driverSource$fileName), :
URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar': Timeout of 60 seconds was reached
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.0.1
Check: tests
Result: ERROR
Running ‘testOracle.R’ [4s/68s]
Running ‘testPostgres.R’ [4s/67s]
Running ‘testRedshift.R’
Running ‘testSqlServer.R’ [4s/66s]
Running the tests in ‘tests/testOracle.R’ failed.
Complete output:
> library(testthat)
> options(dbms = "oracle")
> test_check("CohortPathways")
Loading required package: CohortPathways
Loading required package: DatabaseConnector
Attaching package: 'dplyr'
The following object is masked from 'package:testthat':
matches
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
************* Testing on oracle *************
Consider adding `DATABASECONNECTOR_JAR_FOLDER='/tmp/RtmpbBGImr/working_dir/RtmpQs8FvB/jdbcDrivers1aef5b4a4c8124'` to /data/gannet/ripley/.Renviron and restarting R.
trying URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Error in `FUN()`:
! In path: "/data/gannet/ripley/R/packages/tests-devel/CohortPathways.Rcheck/tests/testthat/setup.R"
Caused by error in `download.file()`:
! cannot open URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Backtrace:
▆
1. ├─testthat::test_check("CohortPathways")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", 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("postgresql", pathToDriver = jdbcDriverFolder) at tests/testthat/setup.R:18:3
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
Running the tests in ‘tests/testPostgres.R’ failed.
Complete output:
> library(testthat)
> options(dbms = "postgresql")
> test_check("CohortPathways")
Loading required package: CohortPathways
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/RtmpbBGImr/working_dir/Rtmp1IFlaB/jdbcDrivers1b1d982e0f51e3'` 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-devel/CohortPathways.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("CohortPathways")
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]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(path, env = env, chdir = chdir, wrap = wrap)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ └─DatabaseConnector::downloadJdbcDrivers("postgresql", pathToDriver = jdbcDriverFolder) at tests/testthat/setup.R:18:3
15. │ └─utils::download.file(...)
16. └─base::.handleSimpleError(...)
17. └─testthat (local) h(simpleError(msg, call))
18. └─rlang::abort(...)
Warning message:
In download.file(url = paste0(driverSource$baseUrl, driverSource$fileName), :
URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar': Timeout of 60 seconds was reached
Execution halted
Running the tests in ‘tests/testSqlServer.R’ failed.
Complete output:
> library(testthat)
> options(dbms = "sql server")
> test_check("CohortPathways")
Loading required package: CohortPathways
Loading required package: DatabaseConnector
Attaching package: 'dplyr'
The following object is masked from 'package:testthat':
matches
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
************* Testing on sql server *************
Consider adding `DATABASECONNECTOR_JAR_FOLDER='/tmp/RtmpbBGImr/working_dir/Rtmp43cyDg/jdbcDrivers1b53df3e7b587d'` to /data/gannet/ripley/.Renviron and restarting R.
trying URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Error in `FUN()`:
! In path: "/data/gannet/ripley/R/packages/tests-devel/CohortPathways.Rcheck/tests/testthat/setup.R"
Caused by error in `download.file()`:
! cannot open URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
Backtrace:
▆
1. ├─testthat::test_check("CohortPathways")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", 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("postgresql", pathToDriver = jdbcDriverFolder) at tests/testthat/setup.R:18:3
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
Flavor: r-devel-linux-x86_64-fedora-gcc