CRAN Package Check Results for Package PVR

Last updated on 2016-05-03 23:47:00.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-gcc 0.2.1 1.05 21.66 22.72 ERROR
r-devel-linux-x86_64-fedora-clang 0.2.1 32.80 ERROR
r-devel-linux-x86_64-fedora-gcc 0.2.1 30.90 ERROR
r-devel-osx-x86_64-clang 0.2.1 36.99 ERROR
r-devel-windows-ix86+x86_64 0.2.1 5.00 40.00 45.00 NOTE
r-patched-linux-x86_64 0.2.1 1.17 22.50 23.67 NOTE
r-patched-solaris-sparc 0.2.1 245.40 NOTE
r-patched-solaris-x86 0.2.1 49.30 NOTE
r-release-linux-x86_64 0.2.1 1.30 25.49 26.79 NOTE
r-release-osx-x86_64-mavericks 0.2.1 NOTE
r-release-windows-ix86+x86_64 0.2.1 4.00 58.00 62.00 NOTE
r-oldrel-windows-ix86+x86_64 0.2.1 8.00 45.00 53.00 NOTE

Check Details

Version: 0.2.1
Check: R code for possible problems
Result: NOTE
    File ‘PVR/R/zzz.R’:
     .onLoad calls:
     packageStartupMessage("PVR ", ver, " loaded\n")
    
    See section ‘Good practice’ in '?.onAttach'.
    
    .Area: no visible global function definition for ‘na.exclude’
    .Intersect: no visible global function definition for ‘lm’
    PSR: no visible global function definition for ‘read.table’
    PSR: no visible global function definition for ‘lm’
    PSR: no visible global function definition for ‘ecdf’
    PSR: no visible global function definition for ‘var’
    PSRplot: no visible global function definition for ‘par’
    PSRplot: no visible global function definition for ‘segments’
    PSRplot: no visible binding for global variable ‘sd’
    PSRplot: no visible global function definition for ‘polygon’
    PSRplot: no visible global function definition for ‘points’
    PSRplot: no visible global function definition for ‘lines’
    PSRplot: no visible binding for global variable ‘var’
    PVR: no visible global function definition for ‘lm’
    PVR: no visible global function definition for ‘glm’
    PVR: no visible global function definition for ‘as.formula’
    PVR: no visible global function definition for ‘update.formula’
    PVR: no visible global function definition for ‘stepAIC’
    PVR: no visible global function definition for ‘terms’
    PVRdecomp: no visible global function definition for ‘read.table’
    VarPartplot: no visible global function definition for ‘segments’
    VarPartplot: no visible global function definition for ‘polygon’
    VarPartplot: no visible global function definition for ‘text’
    VarPartplot: no visible global function definition for ‘lines’
    plot,PSR-ANY: no visible global function definition for ‘segments’
    Undefined global functions or variables:
     as.formula ecdf glm lines lm na.exclude par points polygon read.table
     sd segments stepAIC terms text update.formula var
    Consider adding
     importFrom("graphics", "lines", "par", "points", "polygon", "segments",
     "text")
     importFrom("stats", "as.formula", "ecdf", "glm", "lm", "na.exclude",
     "sd", "terms", "update.formula", "var")
     importFrom("utils", "read.table")
    to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86

Version: 0.2.1
Check: Rd line widths
Result: NOTE
    Rd file 'PVR.Rd':
     \usage lines wider than 90 characters:
     PVR(x, phy = NULL, trait = NULL, envVar = NULL, method = "moran", weights = NULL, scaled = FALSE, significance = TRUE, alternative = "t ... [TRUNCATED]
    
    These lines will be truncated in the PDF manual.
Flavors: r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-release-linux-x86_64

Version: 0.2.1
Check: examples
Result: ERROR
    Running examples in ‘PVR-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: PSR
    > ### Title: Creates a phylogenetic signal-representation (PSR) curve for a
    > ### given phylogeny and trait set and computes its area.
    > ### Aliases: PSR
    > ### Keywords: phylogenetic signal phylogeny
    >
    > ### ** Examples
    >
    > library(splancs)
    > #Creating a 10 tips ultrametric random phylogeny
    > library(ape)
    > tree <- rcoal(10)
    > #Decomposing phylogenetic distance matrix derived from tree into a set of orthogonal vectors
    > x <- PVRdecomp(tree)
    Error in (function (cl, name, valueClass) :
     assignment of an object of class “eigen” is not valid for @‘Eigen’ in an object of class “PVR”; is(value, "list") is not TRUE
    Calls: PVRdecomp -> <Anonymous>
    Execution halted
Flavors: r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang

Version: 0.2.1
Check: R code for possible problems
Result: NOTE
    File ‘PVR/R/zzz.R’:
     .onLoad calls:
     packageStartupMessage("PVR ", ver, " loaded\n")
    
    See section ‘Good practice’ in '?.onAttach'.
    
    PVR: no visible global function definition for ‘stepAIC’
Flavors: r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 0.2.1
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘picante’
Flavor: r-release-osx-x86_64-mavericks