Last updated on 2019-04-28 08:47:42 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2.0.9 | 4.45 | 47.65 | 52.10 | OK | |
| r-devel-linux-x86_64-debian-gcc | 2.0.9 | 3.66 | 37.29 | 40.95 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 2.0.9 | 61.23 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 2.0.9 | 59.20 | OK | |||
| r-patched-linux-x86_64 | 2.0.9 | 4.46 | 46.73 | 51.19 | ERROR | |
| r-patched-solaris-x86 | 2.0.9 | 82.20 | OK | |||
| r-release-linux-x86_64 | 2.0.9 | 4.78 | 47.81 | 52.59 | ERROR | |
| r-release-windows-ix86+x86_64 | 2.0.9 | 19.00 | 93.00 | 112.00 | OK | |
| r-release-osx-x86_64 | 2.0.9 | OK | ||||
| r-oldrel-windows-ix86+x86_64 | 2.0.9 | 10.00 | 86.00 | 96.00 | OK | |
| r-oldrel-osx-x86_64 | 2.0.9 | OK |
Version: 2.0.9
Check: tests
Result: ERROR
Running ‘runTests.R’ [1s/5s]
Running the tests in ‘tests/runTests.R’ failed.
Complete output:
> # Adapted from: http://rwiki.sciviews.org/doku.php?id=developers:runit
>
> if( identical( .Platform$OS.type, "windows" ) &&
+ identical( .Platform$r_arch, "x64" ) ){
+ print( "unit tests not run on windows 64 (workaround alert)" )
+ } else {
+ if(require("RUnit", quietly = TRUE)) {
+ require("RCurl", quietly = TRUE)
+ pkg <- "haploR"
+ if(Sys.getenv("RCMDCHECK") == "FALSE") {
+ path <- file.path(getwd(), "..", "inst", "unitTests")
+ } else {
+ path <- system.file(package=pkg, "unitTests")
+ }
+
+ cat("\nRunning unit tests:\n")
+ print(list(pkg=pkg, getwd=getwd(), pathToUnitTests=path))
+
+ library(package=pkg, character.only=TRUE)
+
+ # Define tests
+ testSuite <- defineTestSuite(name=paste(pkg, "unit testing"),
+ dirs=path,
+ testFuncRegexp = "^test_+",
+ testFileRegexp = "^test_+")
+
+ # Run
+ tests <- runTestSuite(testSuite)
+
+ # Default report name
+ pathReport <- file.path(path, "report")
+
+ # Report to stdout
+ printTextProtocol(tests, showDetails=FALSE)
+
+ # Return stop() to cause R CMD check stop in case of
+ # - failures i.e. FALSE to unit tests or
+ # - errors i.e. R errors
+ tmp <- getErrors(tests)
+ if(tmp$nFail > 0 | tmp$nErr > 0) {
+ stop(paste("\n\nUnit testing failed (#test failures: ", tmp$nFail, ",
+ #R errors: ", tmp$nErr, ")\n\n", sep=""))
+ }
+
+ } else {
+ print( "package RUnit not available, cannot run unit tests" )
+ }
+ }
Running unit tests:
$pkg
[1] "haploR"
$getwd
[1] "/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/haploR.Rcheck/tests"
$pathToUnitTests
[1] "/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/haploR/unitTests"
Executing test function test_LDlink.LDmatrix ... Timing stopped at: 0.159 0.02 1.991
Error in file(file, "rt") :
cannot open the connection to 'https://ldlink.nci.nih.gov/tmp/r2_2193.txt'
In addition: Warning message:
In file(file, "rt") :
cannot open URL 'https://ldlink.nci.nih.gov/tmp/r2_2193.txt': HTTP status was '404 Not Found'
done successfully.
Executing test function test_queryHaploreg ... done successfully.
Executing test function test_queryRegulome ... done successfully.
RUNIT TEST PROTOCOL -- Sat Apr 27 20:07:38 2019
***********************************************
Number of test functions: 3
Number of errors: 1
Number of failures: 0
1 Test Suite :
haploR unit testing - 3 test functions, 1 error, 0 failures
ERROR in test_LDlink.LDmatrix: Error in file(file, "rt") :
cannot open the connection to 'https://ldlink.nci.nih.gov/tmp/r2_2193.txt'
Error:
Unit testing failed (#test failures: 0,
#R errors: 1)
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.0.9
Check: tests
Result: ERROR
Running ‘runTests.R’
Running the tests in ‘tests/runTests.R’ failed.
Complete output:
> # Adapted from: http://rwiki.sciviews.org/doku.php?id=developers:runit
>
> if( identical( .Platform$OS.type, "windows" ) &&
+ identical( .Platform$r_arch, "x64" ) ){
+ print( "unit tests not run on windows 64 (workaround alert)" )
+ } else {
+ if(require("RUnit", quietly = TRUE)) {
+ require("RCurl", quietly = TRUE)
+ pkg <- "haploR"
+ if(Sys.getenv("RCMDCHECK") == "FALSE") {
+ path <- file.path(getwd(), "..", "inst", "unitTests")
+ } else {
+ path <- system.file(package=pkg, "unitTests")
+ }
+
+ cat("\nRunning unit tests:\n")
+ print(list(pkg=pkg, getwd=getwd(), pathToUnitTests=path))
+
+ library(package=pkg, character.only=TRUE)
+
+ # Define tests
+ testSuite <- defineTestSuite(name=paste(pkg, "unit testing"),
+ dirs=path,
+ testFuncRegexp = "^test_+",
+ testFileRegexp = "^test_+")
+
+ # Run
+ tests <- runTestSuite(testSuite)
+
+ # Default report name
+ pathReport <- file.path(path, "report")
+
+ # Report to stdout
+ printTextProtocol(tests, showDetails=FALSE)
+
+ # Return stop() to cause R CMD check stop in case of
+ # - failures i.e. FALSE to unit tests or
+ # - errors i.e. R errors
+ tmp <- getErrors(tests)
+ if(tmp$nFail > 0 | tmp$nErr > 0) {
+ stop(paste("\n\nUnit testing failed (#test failures: ", tmp$nFail, ",
+ #R errors: ", tmp$nErr, ")\n\n", sep=""))
+ }
+
+ } else {
+ print( "package RUnit not available, cannot run unit tests" )
+ }
+ }
Running unit tests:
$pkg
[1] "haploR"
$getwd
[1] "/data/gannet/ripley/R/packages/tests-clang/haploR.Rcheck/tests"
$pathToUnitTests
[1] "/data/gannet/ripley/R/packages/tests-clang/haploR.Rcheck/haploR/unitTests"
Executing test function test_LDlink.LDmatrix ... Timing stopped at: 0.094 0.005 1.917
Error in file(file, "rt") :
cannot open the connection to 'https://ldlink.nci.nih.gov/tmp/r2_32078.txt'
In addition: Warning message:
In file(file, "rt") :
cannot open URL 'https://ldlink.nci.nih.gov/tmp/r2_32078.txt': HTTP status was '404 Not Found'
done successfully.
Executing test function test_queryHaploreg ... done successfully.
Executing test function test_queryRegulome ... done successfully.
RUNIT TEST PROTOCOL -- Sat Apr 27 18:04:32 2019
***********************************************
Number of test functions: 3
Number of errors: 1
Number of failures: 0
1 Test Suite :
haploR unit testing - 3 test functions, 1 error, 0 failures
ERROR in test_LDlink.LDmatrix: Error in file(file, "rt") :
cannot open the connection to 'https://ldlink.nci.nih.gov/tmp/r2_32078.txt'
Error:
Unit testing failed (#test failures: 0,
#R errors: 1)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 2.0.9
Check: tests
Result: ERROR
Running ‘runTests.R’ [1s/5s]
Running the tests in ‘tests/runTests.R’ failed.
Complete output:
> # Adapted from: http://rwiki.sciviews.org/doku.php?id=developers:runit
>
> if( identical( .Platform$OS.type, "windows" ) &&
+ identical( .Platform$r_arch, "x64" ) ){
+ print( "unit tests not run on windows 64 (workaround alert)" )
+ } else {
+ if(require("RUnit", quietly = TRUE)) {
+ require("RCurl", quietly = TRUE)
+ pkg <- "haploR"
+ if(Sys.getenv("RCMDCHECK") == "FALSE") {
+ path <- file.path(getwd(), "..", "inst", "unitTests")
+ } else {
+ path <- system.file(package=pkg, "unitTests")
+ }
+
+ cat("\nRunning unit tests:\n")
+ print(list(pkg=pkg, getwd=getwd(), pathToUnitTests=path))
+
+ library(package=pkg, character.only=TRUE)
+
+ # Define tests
+ testSuite <- defineTestSuite(name=paste(pkg, "unit testing"),
+ dirs=path,
+ testFuncRegexp = "^test_+",
+ testFileRegexp = "^test_+")
+
+ # Run
+ tests <- runTestSuite(testSuite)
+
+ # Default report name
+ pathReport <- file.path(path, "report")
+
+ # Report to stdout
+ printTextProtocol(tests, showDetails=FALSE)
+
+ # Return stop() to cause R CMD check stop in case of
+ # - failures i.e. FALSE to unit tests or
+ # - errors i.e. R errors
+ tmp <- getErrors(tests)
+ if(tmp$nFail > 0 | tmp$nErr > 0) {
+ stop(paste("\n\nUnit testing failed (#test failures: ", tmp$nFail, ",
+ #R errors: ", tmp$nErr, ")\n\n", sep=""))
+ }
+
+ } else {
+ print( "package RUnit not available, cannot run unit tests" )
+ }
+ }
Running unit tests:
$pkg
[1] "haploR"
$getwd
[1] "/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/haploR.Rcheck/tests"
$pathToUnitTests
[1] "/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/haploR/unitTests"
Executing test function test_LDlink.LDmatrix ... Timing stopped at: 0.185 0.017 2.145
Error in file(file, "rt") :
cannot open the connection to 'https://ldlink.nci.nih.gov/tmp/r2_16848.txt'
In addition: Warning message:
In file(file, "rt") :
cannot open URL 'https://ldlink.nci.nih.gov/tmp/r2_16848.txt': HTTP status was '404 Not Found'
done successfully.
Executing test function test_queryHaploreg ... done successfully.
Executing test function test_queryRegulome ... done successfully.
RUNIT TEST PROTOCOL -- Fri Apr 26 21:47:15 2019
***********************************************
Number of test functions: 3
Number of errors: 1
Number of failures: 0
1 Test Suite :
haploR unit testing - 3 test functions, 1 error, 0 failures
ERROR in test_LDlink.LDmatrix: Error in file(file, "rt") :
cannot open the connection to 'https://ldlink.nci.nih.gov/tmp/r2_16848.txt'
Error:
Unit testing failed (#test failures: 0,
#R errors: 1)
Execution halted
Flavor: r-patched-linux-x86_64
Version: 2.0.9
Check: tests
Result: ERROR
Running ‘runTests.R’ [2s/5s]
Running the tests in ‘tests/runTests.R’ failed.
Complete output:
> # Adapted from: http://rwiki.sciviews.org/doku.php?id=developers:runit
>
> if( identical( .Platform$OS.type, "windows" ) &&
+ identical( .Platform$r_arch, "x64" ) ){
+ print( "unit tests not run on windows 64 (workaround alert)" )
+ } else {
+ if(require("RUnit", quietly = TRUE)) {
+ require("RCurl", quietly = TRUE)
+ pkg <- "haploR"
+ if(Sys.getenv("RCMDCHECK") == "FALSE") {
+ path <- file.path(getwd(), "..", "inst", "unitTests")
+ } else {
+ path <- system.file(package=pkg, "unitTests")
+ }
+
+ cat("\nRunning unit tests:\n")
+ print(list(pkg=pkg, getwd=getwd(), pathToUnitTests=path))
+
+ library(package=pkg, character.only=TRUE)
+
+ # Define tests
+ testSuite <- defineTestSuite(name=paste(pkg, "unit testing"),
+ dirs=path,
+ testFuncRegexp = "^test_+",
+ testFileRegexp = "^test_+")
+
+ # Run
+ tests <- runTestSuite(testSuite)
+
+ # Default report name
+ pathReport <- file.path(path, "report")
+
+ # Report to stdout
+ printTextProtocol(tests, showDetails=FALSE)
+
+ # Return stop() to cause R CMD check stop in case of
+ # - failures i.e. FALSE to unit tests or
+ # - errors i.e. R errors
+ tmp <- getErrors(tests)
+ if(tmp$nFail > 0 | tmp$nErr > 0) {
+ stop(paste("\n\nUnit testing failed (#test failures: ", tmp$nFail, ",
+ #R errors: ", tmp$nErr, ")\n\n", sep=""))
+ }
+
+ } else {
+ print( "package RUnit not available, cannot run unit tests" )
+ }
+ }
Running unit tests:
$pkg
[1] "haploR"
$getwd
[1] "/home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/haploR.Rcheck/tests"
$pathToUnitTests
[1] "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/haploR/unitTests"
Executing test function test_LDlink.LDmatrix ... Timing stopped at: 0.207 0.012 2.07
Error in file(file, "rt") :
cannot open the connection to 'https://ldlink.nci.nih.gov/tmp/r2_1678.txt'
In addition: Warning message:
In file(file, "rt") :
cannot open URL 'https://ldlink.nci.nih.gov/tmp/r2_1678.txt': HTTP status was '404 Not Found'
done successfully.
Executing test function test_queryHaploreg ... done successfully.
Executing test function test_queryRegulome ... done successfully.
RUNIT TEST PROTOCOL -- Sat Apr 27 09:49:18 2019
***********************************************
Number of test functions: 3
Number of errors: 1
Number of failures: 0
1 Test Suite :
haploR unit testing - 3 test functions, 1 error, 0 failures
ERROR in test_LDlink.LDmatrix: Error in file(file, "rt") :
cannot open the connection to 'https://ldlink.nci.nih.gov/tmp/r2_1678.txt'
Error:
Unit testing failed (#test failures: 0,
#R errors: 1)
Execution halted
Flavor: r-release-linux-x86_64