CRAN Package Check Results for Package ibdreg

Last updated on 2020-08-07 01:49:48 CEST.

Check Details

Version: 0.2.5
Check: top-level files
Result: NOTE
    Non-standard file/directory found at top level:
     'perl'
Flavors: r-devel-linux-x86_64-debian-clang, r-patched-linux-x86_64

Version: 0.2.5
Check: R code for possible problems
Result: NOTE
    create.ibd.dat: no visible global function definition for 'read.table'
    create.pairs.frame: no visible global function definition for 'terms'
    ibd.moments: no visible global function definition for 'var'
    ibdreg: no visible global function definition for 'terms'
    ibdreg: no visible global function definition for 'as.formula'
    linkage.tests: no visible global function definition for 'pchisq'
    pchibar: no visible global function definition for 'pchisq'
    plot.linkage.all: no visible global function definition for 'title'
    plotpval: no visible global function definition for 'lines'
    sim.ibd.var: no visible global function definition for 'read.table'
    sim.mark.prop: no visible global function definition for 'runif'
    Undefined global functions or variables:
     as.formula lines pchisq read.table runif terms title var
    Consider adding
     importFrom("graphics", "lines", "title")
     importFrom("stats", "as.formula", "pchisq", "runif", "terms", "var")
     importFrom("utils", "read.table")
    to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-debian-clang, r-patched-linux-x86_64, r-release-macos-x86_64

Version: 0.2.5
Check: examples
Result: ERROR
    Running examples in 'ibdreg-Ex.R' failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: Ginv
    > ### Title: Compute Generalized Inverse of Input Matrix
    > ### Aliases: Ginv
    >
    > ### ** Examples
    >
    > # for matrix x, extract the generalized inverse and
    > # rank of x as follows
    > x <- matrix(c(1,2,1,2,3,2),ncol=3)
    > save <- Ginv(x)
    Error in svd(x, LINPACK = FALSE) :
     the LINPACK argument has been defunct since R 3.1.0
    Calls: Ginv -> svd
    Execution halted
Flavor: r-devel-linux-x86_64-debian-clang

Version: 0.3.1
Check: compiled code
Result: NOTE
    File ‘ibdreg/libs/ibdreg.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

Version: 0.2.5
Check: for non-standard things in the check directory
Result: NOTE
    Found the following files/directories:
     ‘ped7.pre’
Flavor: r-patched-linux-x86_64

Version: 0.2.5
Check: R code for possible problems
Result: NOTE
    create.ibd.dat: no visible global function definition for 'read.table'
    create.pairs.frame: no visible global function definition for 'terms'
    ibd.moments: no visible global function definition for 'var'
    ibdreg: no visible global function definition for 'terms'
    ibdreg: no visible global function definition for 'as.formula'
    linkage.tests: no visible global function definition for 'pchisq'
    pchibar: no visible global function definition for 'pchisq'
    plot.linkage.all: no visible global function definition for 'plot'
    plot.linkage.all: no visible global function definition for 'title'
    plotpval: no visible global function definition for 'plot'
    plotpval: no visible global function definition for 'lines'
    sim.ibd.var: no visible global function definition for 'read.table'
    sim.mark.prop: no visible global function definition for 'runif'
    Undefined global functions or variables:
     as.formula lines pchisq plot read.table runif terms title var
    Consider adding
     importFrom("graphics", "lines", "plot", "title")
     importFrom("stats", "as.formula", "pchisq", "runif", "terms", "var")
     importFrom("utils", "read.table")
    to your NAMESPACE file.
Flavor: r-oldrel-windows-ix86+x86_64