CRAN Package Check Results for Package TimeMachine

Last updated on 2017-03-24 23:56:16.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.2 1.27 31.52 32.79 NOTE
r-devel-linux-x86_64-debian-gcc 1.2 1.32 28.54 29.86 NOTE
r-devel-linux-x86_64-fedora-clang 1.2 57.18 NOTE --no-stop-on-test-error
r-devel-linux-x86_64-fedora-gcc 1.2 59.30 NOTE --no-stop-on-test-error
r-devel-macos-x86_64-clang 1.2 45.95 NOTE --no-stop-on-test-error
r-devel-windows-ix86+x86_64 1.2 9.00 89.00 98.00 NOTE
r-patched-linux-x86_64 1.2 1.41 26.12 27.53 NOTE
r-patched-solaris-sparc 1.2 362.80 NOTE
r-patched-solaris-x86 1.2 42.80 ERROR
r-release-linux-x86_64 1.2 1.07 26.14 27.21 NOTE
r-release-osx-x86_64-mavericks 1.2 NOTE
r-release-windows-ix86+x86_64 1.2 7.00 86.00 93.00 NOTE
r-oldrel-windows-ix86+x86_64 1.2 8.00 82.00 90.00 NOTE

Check Details

Version: 1.2
Check: dependencies in R code
Result: NOTE
    Package in Depends field not imported from: ‘methods’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.2
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     density.tm mean.tm print.tm quantile.tm summary.tm
    See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
    manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64

Version: 1.2
Check: R code for possible problems
Result: NOTE
    density.tm: no visible global function definition for ‘density’
    mu.mle: no visible global function definition for ‘optimize’
    pophistory.tm: no visible binding for global variable ‘quantile’
    quantile.tm: no visible global function definition for ‘quantile’
    sample.pop: no visible global function definition for ‘runif’
    summary.tm: no visible global function definition for ‘quantile’
    Undefined global functions or variables:
     density optimize quantile runif
    Consider adding
     importFrom("stats", "density", "optimize", "quantile", "runif")
    to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64

Version: 1.2
Check: compiled code
Result: NOTE
    File ‘TimeMachine/libs/TimeMachine.so’:
     Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
    
    It is good practice to register native routines and to disable symbol
    search.
    
    See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Version: 1.2
Flags: --no-stop-on-test-error
Check: dependencies in R code
Result: NOTE
    Package in Depends field not imported from: ‘methods’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 1.2
Flags: --no-stop-on-test-error
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     density.tm mean.tm print.tm quantile.tm summary.tm
    See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
    manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 1.2
Flags: --no-stop-on-test-error
Check: R code for possible problems
Result: NOTE
    density.tm: no visible global function definition for ‘density’
    mu.mle: no visible global function definition for ‘optimize’
    pophistory.tm: no visible binding for global variable ‘quantile’
    quantile.tm: no visible global function definition for ‘quantile’
    sample.pop: no visible global function definition for ‘runif’
    summary.tm: no visible global function definition for ‘quantile’
    Undefined global functions or variables:
     density optimize quantile runif
    Consider adding
     importFrom("stats", "density", "optimize", "quantile", "runif")
    to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 1.2
Flags: --no-stop-on-test-error
Check: compiled code
Result: NOTE
    File ‘TimeMachine/libs/TimeMachine.so’:
     Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
    
    It is good practice to register native routines and to disable symbol
    search.
    
    See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 1.2
Check: examples
Result: ERROR
    Running examples in ‘TimeMachine-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: mu.mle
    > ### Title: Maximum-Likelihood Estimation of the Mutation Rate
    > ### Aliases: mu.mle
    >
    > ### ** Examples
    >
    > # Load example dataset
    > data(pdm)
    > transitions <- full.transitions(pdm$unitary.transitions, pdm$loci)
    > pi <- stationary.dist(transitions)
    >
    > mu.int <- c(0.1, 10)
    > samples <- 10
    >
    > # MLE of the mutation rate for a single target population size
    > n <- 10
    > mle.res <- mu.mle(transitions, pi, pdm$population, n, mu.int, samples)
    Error: C stack usage 189030512 is too close to the limit
    Execution halted
Flavor: r-patched-solaris-x86