CRAN Package Check Results for Package laser

Last updated on 2016-12-10 18:49:34.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.4-1 1.55 21.49 23.04 ERROR
r-devel-linux-x86_64-debian-gcc 2.4-1 1.58 21.22 22.81 ERROR
r-devel-linux-x86_64-fedora-clang 2.4-1 41.15 ERROR --no-stop-on-test-error
r-devel-linux-x86_64-fedora-gcc 2.4-1 38.26 ERROR --no-stop-on-test-error
r-devel-macos-x86_64-clang 2.4-1 33.65 ERROR --no-stop-on-test-error
r-devel-windows-ix86+x86_64 2.4-1 5.00 43.00 48.00 ERROR
r-patched-linux-x86_64 2.4-1 1.33 18.41 19.75 ERROR
r-patched-solaris-sparc 2.4-1 222.90 ERROR
r-patched-solaris-x86 2.4-1 48.20 ERROR
r-release-linux-x86_64 2.4-1 1.24 18.41 19.65 ERROR
r-release-osx-x86_64-mavericks 2.4-1 NOTE
r-release-windows-ix86+x86_64 2.4-1 6.00 40.00 46.00 ERROR
r-oldrel-windows-ix86+x86_64 2.4-1 11.00 50.00 61.00 ERROR

Check Details

Version: 2.4-1
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘ape’ ‘geiger’
     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: 2.4-1
Check: R code for possible problems
Result: NOTE
    DDL: no visible global function definition for ‘nlm’
    DDX: no visible global function definition for ‘nlm’
    bd: no visible global function definition for ‘optim’
    birthdeathSim: no visible global function definition for ‘sim.bdtree’
    birthdeathSim: no visible binding for global variable ‘drop.tip’
    birthdeathSim : fx: no visible global function definition for
     ‘branching.times’
    fitBOTHVAR: no visible global function definition for ‘optim’
    fitEXVAR: no visible global function definition for ‘optim’
    fitSPVAR: no visible global function definition for ‘optim’
    gamStat: no visible global function definition for ‘pnorm’
    getBtimes: no visible global function definition for ‘read.tree’
    getBtimes: no visible global function definition for ‘is.ultrametric’
    getBtimes: no visible global function definition for ‘branching.times’
    getBtimes.batch : btfx: no visible global function definition for
     ‘branching.times’
    getBtimes.batch: no visible global function definition for ‘read.tree’
    getBtimes.batch: no visible binding for global variable
     ‘branching.times’
    lambda.stem.ml: no visible global function definition for ‘nlm’
    mccrTest: no visible global function definition for ‘sim.bdtree’
    mccrTest: no visible global function definition for ‘drop.tip’
    mccrTest: no visible global function definition for ‘read.tree’
    mccrTest: no visible binding for global variable ‘gammaStat’
    mccrTest: no visible global function definition for ‘quantile’
    pTt.BOTHVAR: no visible global function definition for ‘integrate’
    pTt.EXVAR: no visible global function definition for ‘integrate’
    pTt.SPVAR: no visible global function definition for ‘integrate’
    plotLtt: no visible global function definition for ‘plot’
    plotNodeNumbers.phylo: no visible global function definition for
     ‘plot.phylo’
    plotRate: no visible global function definition for ‘plot.new’
    plotRate: no visible global function definition for ‘plot.window’
    plotRate: no visible global function definition for ‘lines’
    plotRate: no visible global function definition for ‘axis’
    yuleSim: no visible global function definition for ‘rexp’
    Undefined global functions or variables:
     axis branching.times drop.tip gammaStat integrate is.ultrametric
     lines nlm optim plot plot.new plot.phylo plot.window pnorm quantile
     read.tree rexp sim.bdtree
    Consider adding
     importFrom("graphics", "axis", "lines", "plot", "plot.new",
     "plot.window")
     importFrom("stats", "integrate", "nlm", "optim", "pnorm", "quantile",
     "rexp")
    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: 2.4-1
Check: examples
Result: ERROR
    Running examples in ‘laser-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: agamids
    > ### Title: Ultrametric Phylogeny of Australian Agamid Lizards
    > ### Aliases: agamids
    > ### Keywords: datasets
    >
    > ### ** Examples
    >
    > data(agamids)
    > agbtimes <- getBtimes(string = agamids)
    Error in getBtimes(string = agamids) : Tree is not ultrametric!
    Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64

Version: 2.4-1
Flags: --no-stop-on-test-error
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘ape’ ‘geiger’
     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: 2.4-1
Flags: --no-stop-on-test-error
Check: R code for possible problems
Result: NOTE
    DDL: no visible global function definition for ‘nlm’
    DDX: no visible global function definition for ‘nlm’
    bd: no visible global function definition for ‘optim’
    birthdeathSim: no visible global function definition for ‘sim.bdtree’
    birthdeathSim: no visible binding for global variable ‘drop.tip’
    birthdeathSim : fx: no visible global function definition for
     ‘branching.times’
    fitBOTHVAR: no visible global function definition for ‘optim’
    fitEXVAR: no visible global function definition for ‘optim’
    fitSPVAR: no visible global function definition for ‘optim’
    gamStat: no visible global function definition for ‘pnorm’
    getBtimes: no visible global function definition for ‘read.tree’
    getBtimes: no visible global function definition for ‘is.ultrametric’
    getBtimes: no visible global function definition for ‘branching.times’
    getBtimes.batch : btfx: no visible global function definition for
     ‘branching.times’
    getBtimes.batch: no visible global function definition for ‘read.tree’
    getBtimes.batch: no visible binding for global variable
     ‘branching.times’
    lambda.stem.ml: no visible global function definition for ‘nlm’
    mccrTest: no visible global function definition for ‘sim.bdtree’
    mccrTest: no visible global function definition for ‘drop.tip’
    mccrTest: no visible global function definition for ‘read.tree’
    mccrTest: no visible binding for global variable ‘gammaStat’
    mccrTest: no visible global function definition for ‘quantile’
    pTt.BOTHVAR: no visible global function definition for ‘integrate’
    pTt.EXVAR: no visible global function definition for ‘integrate’
    pTt.SPVAR: no visible global function definition for ‘integrate’
    plotLtt: no visible global function definition for ‘plot’
    plotNodeNumbers.phylo: no visible global function definition for
     ‘plot.phylo’
    plotRate: no visible global function definition for ‘plot.new’
    plotRate: no visible global function definition for ‘plot.window’
    plotRate: no visible global function definition for ‘lines’
    plotRate: no visible global function definition for ‘axis’
    yuleSim: no visible global function definition for ‘rexp’
    Undefined global functions or variables:
     axis branching.times drop.tip gammaStat integrate is.ultrametric
     lines nlm optim plot plot.new plot.phylo plot.window pnorm quantile
     read.tree rexp sim.bdtree
    Consider adding
     importFrom("graphics", "axis", "lines", "plot", "plot.new",
     "plot.window")
     importFrom("stats", "integrate", "nlm", "optim", "pnorm", "quantile",
     "rexp")
    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: 2.4-1
Flags: --no-stop-on-test-error
Check: examples
Result: ERROR
    Running examples in ‘laser-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: agamids
    > ### Title: Ultrametric Phylogeny of Australian Agamid Lizards
    > ### Aliases: agamids
    > ### Keywords: datasets
    >
    > ### ** Examples
    >
    > data(agamids)
    > agbtimes <- getBtimes(string = agamids)
    Error in getBtimes(string = agamids) : Tree is not ultrametric!
    Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 2.4-1
Check: examples
Result: ERROR
    Running examples in 'laser-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: agamids
    > ### Title: Ultrametric Phylogeny of Australian Agamid Lizards
    > ### Aliases: agamids
    > ### Keywords: datasets
    >
    > ### ** Examples
    >
    > data(agamids)
    > agbtimes <- getBtimes(string = agamids)
    Error in getBtimes(string = agamids) : Tree is not ultrametric!
    Execution halted
Flavors: r-devel-windows-ix86+x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 2.4-1
Check: R code for possible problems
Result: NOTE
    birthdeathSim: no visible global function definition for 'sim.bdtree'
    birthdeathSim: no visible binding for global variable 'drop.tip'
    birthdeathSim : fx: no visible global function definition for
     'branching.times'
    getBtimes: no visible global function definition for 'read.tree'
    getBtimes: no visible global function definition for 'is.ultrametric'
    getBtimes: no visible global function definition for 'branching.times'
    getBtimes.batch : btfx: no visible global function definition for
     'branching.times'
    getBtimes.batch: no visible global function definition for 'read.tree'
    getBtimes.batch: no visible binding for global variable
     'branching.times'
    mccrTest: no visible global function definition for 'sim.bdtree'
    mccrTest: no visible global function definition for 'drop.tip'
    mccrTest: no visible global function definition for 'read.tree'
    mccrTest: no visible binding for global variable 'gammaStat'
    plotNodeNumbers.phylo: no visible global function definition for
     'plot.phylo'
Flavor: r-oldrel-windows-ix86+x86_64