CRAN Package Check Results for Package haploR

Last updated on 2017-07-26 01:56:16.

Check Details

Version: 1.5.1
Check: tests
Result: ERROR
     Running ‘runTests.R’ [6s/33s]
    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)) {
     + 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/ripley/R/packages/tests32/haploR.Rcheck/tests"
    
     $pathToUnitTests
     [1] "/tmp/RtmpusaO.W/RLIBS_61f5541e34e1/haploR/unitTests"
    
    
    
     Executing test function test_queryHaploreg ... done successfully.
    
    
    
     Executing test function test_queryRegulome ... <simpleError in curl::curl_fetch_memory(url, handle = handle): Timeout was reached: Resolving timed out after 10000 milliseconds>
     Timing stopped at: 0.553 0.005 11.88
     Error in checkEqualsNumeric(dim(x$res.table)[1], 2) :
     Mean absolute difference: 2
    
     In addition: Warning messages:
     1: In deparse(object[[i]], nlines = 1L) :
     it is not known that wchar_t is Unicode on this platform
     2: In deparse(object[[i]], nlines = 1L) :
     it is not known that wchar_t is Unicode on this platform
     3: In deparse(object[[i]], nlines = 1L) :
     it is not known that wchar_t is Unicode on this platform
     4: In deparse(object[[i]], nlines = 1L) :
     it is not known that wchar_t is Unicode on this platform
     done successfully.
    
     RUNIT TEST PROTOCOL -- Sun Jul 23 06:36:55 2017
     ***********************************************
     Number of test functions: 2
     Number of errors: 0
     Number of failures: 1
    
    
     1 Test Suite :
     haploR unit testing - 2 test functions, 0 errors, 1 failure
     FAILURE in test_queryRegulome: Error in checkEqualsNumeric(dim(x$res.table)[1], 2) :
     Mean absolute difference: 2
    
     Error:
    
     Unit testing failed (#test failures: 1,
     #R errors: 0)
    
     Execution halted
Flavor: r-patched-solaris-x86

Version: 1.5.1
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    Quitting from lines 153-156 (haplor-vignette.Rmd)
    Error: processing vignette 'haplor-vignette.Rmd' failed with diagnostics:
    undefined columns selected
    Execution halted
Flavor: r-patched-solaris-x86