CRAN Package Check Results for Package rcdk

Last updated on 2017-09-24 00:51:29.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 3.4.3 2.05 49.46 51.51 OK
r-devel-linux-x86_64-debian-gcc 3.4.3 1.99 49.36 51.35 OK
r-devel-linux-x86_64-fedora-clang 3.4.3 120.26 OK
r-devel-linux-x86_64-fedora-gcc 3.4.3 116.63 OK
r-devel-windows-ix86+x86_64 3.4.3 6.00 88.00 94.00 OK
r-patched-linux-x86_64 3.4.3 2.18 49.53 51.71 OK
r-patched-solaris-x86 3.4.3 88.30 ERROR
r-release-linux-x86_64 3.4.3 2.08 49.43 51.51 OK
r-release-windows-ix86+x86_64 3.4.3 7.00 88.00 95.00 OK
r-release-osx-x86_64 3.4.3 OK
r-oldrel-windows-ix86+x86_64 3.4.3 7.00 83.00 90.00 OK
r-oldrel-osx-x86_64 3.4.3 ERROR

Check Details

Version: 3.4.3
Check: examples
Result: ERROR
    Running examples in ‘rcdk-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: eval.desc
    > ### Title: Evaluate a Molecular Descriptor
    > ### Aliases: eval.desc
    > ### Keywords: programming
    >
    > ### ** Examples
    >
    > smiles <- c('CCC', 'c1ccccc1', 'CC(=O)C')
    > mols <- sapply(smiles, parse.smiles)
    >
    > dnames <- get.desc.names('constitutional')
    Error in .jcall("org/guha/rcdk/descriptors/DescriptorUtilities", "[Ljava/lang/String;", :
     RcallMethod: cannot determine object class
    Calls: get.desc.names -> .jcall
    Execution halted
Flavor: r-patched-solaris-x86

Version: 3.4.3
Check: tests
Result: ERROR
     Running ‘doRUnit.R’
    Running the tests in ‘tests/doRUnit.R’ failed.
    Complete output:
     > if(require("RUnit", quietly=TRUE)) {
     +
     + library(rJava)
     + library(fingerprint)
     +
     + print(ls())
     + ## --- Setup ---
     +
     + pkg <- "rcdk" # <-- 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(), "..", "inst", "unitTests")
     + } else {
     + ## Path to unit tests for R CMD check
     + ## PKG.Rcheck/tests/../PKG/unitTests
     + 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)
     +
     + ## 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, "rcdk Unit Tests"),
     + dirs=path)
     + ## Run
     + tests <- runTestSuite(testSuite)
     +
     + ## Default report name
     + pathReport <- file.path(path, "report")
     +
     + ## 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")
     + }
     character(0)
    
     Running unit tests
     $pkg
     [1] "rcdk"
    
     $getwd
     [1] "/home/ripley/R/packages/tests32/rcdk.Rcheck/tests"
    
     $pathToUnitTests
     [1] "/tmp/RtmptSaqRE/RLIBS_3d5a552345c0/rcdk/unitTests"
    
     Loading required package: rcdklibs
    
    
     Executing test function test.charges ... done successfully.
    
    
    
     Executing test function test.get.hcount ... done successfully.
    
    
    
     Executing test function test.is.aromatic ... done successfully.
    
    
    
     Executing test function test.depictiongenerator ... done successfully.
    
    
    
     Executing test function test.frag1 ... done successfully.
    
    
    
     Executing test function test.frag2 ... done successfully.
    
    
    
     Executing test function test.frag3 ... done successfully.
    
    
    
     Executing test function test.aromaticity.match ... done successfully.
    
    
    
     Executing test function test.match1 ... done successfully.
    
    
    
     Executing test function test.match2 ... done successfully.
    
    
    
     Executing test function test.match3 ... done successfully.
    
    
    
     Executing test function test.match4 ... done successfully.
    
    
    
     Executing test function test.mcs1 ... Timing stopped at: 0.009 0.001 0.007
     Error in .jcall("org.guha.rcdk.util.Misc", "Lorg/openscience/cdk/interfaces/IAtomContainer;", :
     RcallMethod: cannot determine object class
     done successfully.
    
    
    
     Executing test function test.mcs2 ... Timing stopped at: 0.001 0 0.001
     Error in .jcall("org/openscience/cdk/DefaultChemObjectBuilder", "Lorg/openscience/cdk/interfaces/IChemObjectBuilder;", :
     java.lang.UnsupportedClassVersionError: org/guha/rcdk/util/Misc : Unsupported major.minor version 52.0
     done successfully.
    
    
    
     Executing test function test.mcs3 ... Timing stopped at: 0.014 0.001 0.012
     Error in .jcall("org.guha.rcdk.util.Misc", "Lorg/openscience/cdk/interfaces/IAtomContainer;", :
     RcallMethod: cannot determine object class
     done successfully.
    
    
    
     Executing test function test.get.properties ... Timing stopped at: 0.001 0 0.001
     Error in .jcall("org/openscience/cdk/DefaultChemObjectBuilder", "Lorg/openscience/cdk/interfaces/IChemObjectBuilder;", :
     java.lang.UnsupportedClassVersionError: org/guha/rcdk/util/Misc : Unsupported major.minor version 52.0
     done successfully.
    
    
    
     Executing test function test.set.props ... Timing stopped at: 0.004 0 0.004
     Error in .jcall("org/guha/rcdk/util/Misc", "V", "setProperty", molecule, :
     RcallMethod: cannot determine object class
     done successfully.
    
    
    
     Executing test function test.atom.count ... Timing stopped at: 0 0 0.001
     Error in .jcall("org/openscience/cdk/DefaultChemObjectBuilder", "Lorg/openscience/cdk/interfaces/IChemObjectBuilder;", :
     java.lang.UnsupportedClassVersionError: org/guha/rcdk/util/Misc : Unsupported major.minor version 52.0
     done successfully.
    
    
    
     Executing test function test.desc.calc ... Timing stopped at: 0.001 0.001 0.002
     Error in .jcall("org/guha/rcdk/descriptors/DescriptorUtilities", "[Ljava/lang/String;", :
     RcallMethod: cannot determine object class
     done successfully.
    
    
    
     Executing test function test.desc.cats ... Timing stopped at: 0.001 0 0.001
     Error in .jcall("org/guha/rcdk/descriptors/DescriptorUtilities", "[Ljava/lang/String;", :
     java.lang.UnsupportedClassVersionError: org/guha/rcdk/descriptors/DescriptorUtilities : Unsupported major.minor version 52.0
     done successfully.
    
    
    
     Executing test function test.desc.names ... Timing stopped at: 0.001 0 0.001
     Error in .jcall("org/guha/rcdk/descriptors/DescriptorUtilities", "[Ljava/lang/String;", :
     RcallMethod: cannot determine object class
     done successfully.
    
    
    
     Executing test function test.formula ... done successfully.
    
    
    
     Executing test function test.fp ... Timing stopped at: 0 0 0.001
     Error in .jcall("org/openscience/cdk/DefaultChemObjectBuilder", "Lorg/openscience/cdk/interfaces/IChemObjectBuilder;", :
     java.lang.UnsupportedClassVersionError: org/guha/rcdk/descriptors/DescriptorUtilities : Unsupported major.minor version 52.0
     done successfully.
    
    
    
     Executing test function test.get.largest ... done successfully.
    
    
    
     Executing test function test.is.connected ... done successfully.
    
    
    
     Executing test function test.is.neutral ... done successfully.
    
    
    
     Executing test function test.get.smiles ... done successfully.
    
    
    
     Executing test function test.get.smiles2 ... Timing stopped at: 0.005 0.001 0.005
     Error in .jcall("org.guha.rcdk.util.Misc", "Lorg/openscience/cdk/interfaces/IAtomContainer;", :
     RcallMethod: cannot determine object class
     done successfully.
    
     ------------------- UNIT TEST SUMMARY ---------------------
    
     RUNIT TEST PROTOCOL -- Tue Sep 12 05:31:42 2017
     ***********************************************
     Number of test functions: 28
     Number of errors: 11
     Number of failures: 0
    
    
     1 Test Suite :
     rcdk rcdk Unit Tests - 28 test functions, 11 errors, 0 failures
     ERROR in test.mcs1: Error in .jcall("org.guha.rcdk.util.Misc", "Lorg/openscience/cdk/interfaces/IAtomContainer;", :
     RcallMethod: cannot determine object class
     ERROR in test.mcs2: Error in .jcall("org/openscience/cdk/DefaultChemObjectBuilder", "Lorg/openscience/cdk/interfaces/IChemObjectBuilder;", :
     java.lang.UnsupportedClassVersionError: org/guha/rcdk/util/Misc : Unsupported major.minor version 52.0
     ERROR in test.mcs3: Error in .jcall("org.guha.rcdk.util.Misc", "Lorg/openscience/cdk/interfaces/IAtomContainer;", :
     RcallMethod: cannot determine object class
     ERROR in test.get.properties: Error in .jcall("org/openscience/cdk/DefaultChemObjectBuilder", "Lorg/openscience/cdk/interfaces/IChemObjectBuilder;", :
     java.lang.UnsupportedClassVersionError: org/guha/rcdk/util/Misc : Unsupported major.minor version 52.0
     ERROR in test.set.props: Error in .jcall("org/guha/rcdk/util/Misc", "V", "setProperty", molecule, :
     RcallMethod: cannot determine object class
     ERROR in test.atom.count: Error in .jcall("org/openscience/cdk/DefaultChemObjectBuilder", "Lorg/openscience/cdk/interfaces/IChemObjectBuilder;", :
     java.lang.UnsupportedClassVersionError: org/guha/rcdk/util/Misc : Unsupported major.minor version 52.0
     ERROR in test.desc.calc: Error in .jcall("org/guha/rcdk/descriptors/DescriptorUtilities", "[Ljava/lang/String;", :
     RcallMethod: cannot determine object class
     ERROR in test.desc.cats: Error in .jcall("org/guha/rcdk/descriptors/DescriptorUtilities", "[Ljava/lang/String;", :
     java.lang.UnsupportedClassVersionError: org/guha/rcdk/descriptors/DescriptorUtilities : Unsupported major.minor version 52.0
     ERROR in test.desc.names: Error in .jcall("org/guha/rcdk/descriptors/DescriptorUtilities", "[Ljava/lang/String;", :
     RcallMethod: cannot determine object class
     ERROR in test.fp: Error in .jcall("org/openscience/cdk/DefaultChemObjectBuilder", "Lorg/openscience/cdk/interfaces/IChemObjectBuilder;", :
     java.lang.UnsupportedClassVersionError: org/guha/rcdk/descriptors/DescriptorUtilities : Unsupported major.minor version 52.0
     ERROR in test.get.smiles2: Error in .jcall("org.guha.rcdk.util.Misc", "Lorg/openscience/cdk/interfaces/IAtomContainer;", :
     RcallMethod: cannot determine object class
     Error:
    
     unit testing failed (#test failures: 0, #R errors: 11)
    
     Execution halted
Flavor: r-patched-solaris-x86

Version: 3.4.3
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    Loading required package: rcdklibs
    Loading required package: rJava
    
    Error: processing vignette 'rcdk.Rnw' failed with diagnostics:
     chunk 14
    Error in .jcall("org/guha/rcdk/util/Misc", "V", "setProperty", molecule, :
     RcallMethod: cannot determine object class
    Execution halted
Flavor: r-patched-solaris-x86

Version: 3.4.3
Check: whether package can be installed
Result: ERROR
    Installation failed.
Flavor: r-oldrel-osx-x86_64