CRAN Package Check Results for Package krm

Last updated on 2022-08-14 13:51:03 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2020.5-20 13.57 42.19 55.76 WARN
r-devel-linux-x86_64-debian-gcc 2020.5-20 9.58 32.20 41.78 OK
r-devel-linux-x86_64-fedora-clang 2020.5-20 87.32 WARN
r-devel-linux-x86_64-fedora-gcc 2020.5-20 76.70 OK
r-devel-windows-x86_64 2020.5-20 33.00 83.00 116.00 ERROR
r-patched-linux-x86_64 2020.5-20 11.11 41.69 52.80 OK
r-release-linux-x86_64 2020.5-20 11.69 40.61 52.30 OK
r-release-macos-arm64 2020.5-20 30.00 OK
r-release-macos-x86_64 2020.5-20 34.00 OK
r-release-windows-x86_64 2020.5-20 30.00 88.00 118.00 OK
r-oldrel-macos-arm64 2020.5-20 36.00 OK
r-oldrel-macos-x86_64 2020.5-20 54.00 OK
r-oldrel-windows-ix86+x86_64 2020.5-20 34.00 93.00 127.00 OK

Additional issues

clang14

Check Details

Version: 2020.5-20
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     ProteinSequence.cpp:347:7: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical]
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-fedora-clang

Version: 2020.5-20
Check: tests
Result: ERROR
     Running 'doRUnit.R' [7s]
    Running the tests in 'tests/doRUnit.R' failed.
    Complete output:
     > ## unit tests will not be done if RUnit is not available
     > if(require("RUnit", quietly=TRUE)) {
     +
     + ## --- Setup ---
     +
     + pkg <- "krm" # <-- Change to package name!
     + if(Sys.getenv("RCMDCHECK") == "FALSE") {
     + ## Path to unit tests for standalone running under Makefile (not R CMD check)
     + ## PKG/tests/../inst/unitTests
     + path <- file.path(getwd(), "unitTests")
     + } else {
     + ## Path to unit tests for R CMD check
     + ## PKG.Rcheck/tests/../PKG/unitTests
     + path <- system.file("unitTests", package=pkg)
     + }
     + cat("\nRunning unit tests\n")
     + print(list(pkg=pkg, getwd=getwd(), pathToUnitTests=path))
     +
     + library(package=pkg, character.only=TRUE)
     +
     + ## If desired, load the name space to allow testing of private functions
     + ## if (is.element(pkg, loadedNamespaces()))
     + ## attach(loadNamespace(pkg), name=paste("namespace", pkg, sep=":"), pos=3)
     + ##
     + ## or simply call PKG:::myPrivateFunction() in tests
     +
     + ## --- Testing ---
     +
     + ## Define tests
     + testSuite <- defineTestSuite(name=paste(pkg, "unit testing"),
     + dirs=path)
     + ## Run
     + tests <- runTestSuite(testSuite)
     +
     + ## Default report name
     + pathReport <- tempdir()
     +
     +
     + ## Report to stdout and text files
     + cat("------------------- UNIT TEST SUMMARY ---------------------\n\n")
     + printTextProtocol(tests, showDetails=FALSE)
     + # printTextProtocol(tests, showDetails=FALSE,
     + # fileName=paste(pathReport, "Summary.txt", sep=""))
     + # printTextProtocol(tests, showDetails=TRUE,
     + # fileName=paste(pathReport, ".txt", sep=""))
     + #
     + # ## Report to HTML file
     + # printHTMLProtocol(tests, fileName=paste(pathReport, ".html", sep=""))
     +
     + ## 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 {
     + warning("cannot run unit tests -- package RUnit is not available")
     + }
    
     Running unit tests
     $pkg
     [1] "krm"
    
     $getwd
     [1] "d:/Rcompile/CRANpkg/local/4.3/krm.Rcheck/tests"
    
     $pathToUnitTests
     [1] "D:/temp/RtmpiI0Y0E/RLIBS_dc04439e53ad/krm/unitTests"
    
     Loading required package: kyotil
    
    
     Executing test function test.getSeqKernel ... done successfully.
    
    
    
     Executing test function test.krm.mos.test ... Loading required namespace: MASS
     Total time passed: Time difference of 3.641244 secs
     num [1:100, 1:100] 1 0.01383 0.03779 0.00277 0.00143 ...
     - attr(*, "dimnames")=List of 2
     ..$ : chr [1:100] "1" "2" "3" "4" ...
     ..$ : chr [1:100] "1" "2" "3" "4" ...
     num [1:100, 1:100] 0.97747 -0.02172 0.0023 -0.00945 -0.01565 ...
     num [1:100, 1:100] 1 0.996 0.997 0.994 0.994 ...
     - attr(*, "dimnames")=List of 2
     ..$ : chr [1:100] "1" "2" "3" "4" ...
     ..$ : chr [1:100] "1" "2" "3" "4" ...
     num [1:100, 1:100] 0.97747 -0.02172 0.0023 -0.00945 -0.01565 ...
     Total time passed: Time difference of 1.185989 secs
     Timing stopped at: 4.57 0.33 4.91
     Error in checkEqualsNumeric(test$p.values, c(0.87, NA, 0.89, NA), tolerance = tolerance) :
     Mean relative difference: 0.04142012
    
     In addition: Warning messages:
     1: In RNGkind(kind = testSuite$rngKind, normal.kind = testSuite$rngNormalKind) :
     RNGkind: Marsaglia-Multicarry has poor statistical properties
     2: In RNGkind(kind = testSuite$rngKind, normal.kind = testSuite$rngNormalKind) :
     RNGkind: severe deviations from normality for Kinderman-Ramage + Marsaglia-Multicarry
     3: In RNGkind(kind = testSuite$rngKind, normal.kind = testSuite$rngNormalKind) :
     RNGkind: Marsaglia-Multicarry has poor statistical properties
     4: In RNGkind(kind = testSuite$rngKind, normal.kind = testSuite$rngNormalKind) :
     RNGkind: severe deviations from normality for Kinderman-Ramage + Marsaglia-Multicarry
     done successfully.
    
    
    
     Executing test function test.krm.score.test ... done successfully.
    
     ------------------- UNIT TEST SUMMARY ---------------------
    
     RUNIT TEST PROTOCOL -- Sat Aug 13 16:14:19 2022
     ***********************************************
     Number of test functions: 3
     Number of errors: 0
     Number of failures: 1
    
    
     1 Test Suite :
     krm unit testing - 3 test functions, 0 errors, 1 failure
     FAILURE in test.krm.mos.test: Error in checkEqualsNumeric(test$p.values, c(0.87, NA, 0.89, NA), tolerance = tolerance) :
     Mean relative difference: 0.04142012
    
     Error:
    
     unit testing failed (#test failures: 1, #R errors: 0)
    
     In addition: Warning messages:
     1: In RNGkind(kind = testSuite$rngKind, normal.kind = testSuite$rngNormalKind) :
     RNGkind: Marsaglia-Multicarry has poor statistical properties
     2: In RNGkind(kind = testSuite$rngKind, normal.kind = testSuite$rngNormalKind) :
     RNGkind: severe deviations from normality for Kinderman-Ramage + Marsaglia-Multicarry
     Execution halted
Flavor: r-devel-windows-x86_64