CRAN Package Check Results for Package mmod

Last updated on 2015-07-07 17:47:42.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.2.1 1.87 32.83 34.70 ERROR
r-devel-linux-x86_64-debian-gcc 1.2.1 2.39 30.51 32.90 ERROR
r-devel-linux-x86_64-fedora-clang 1.2.1 66.64 ERROR
r-devel-linux-x86_64-fedora-gcc 1.2.1 63.88 ERROR
r-devel-osx-x86_64-clang 1.2.1 62.88 ERROR
r-devel-windows-ix86+x86_64 1.2.1 9.00 54.00 63.00 ERROR
r-patched-linux-x86_64 1.2.1 1.82 48.35 50.18 NOTE
r-patched-solaris-sparc 1.2.1 682.70 NOTE
r-patched-solaris-x86 1.2.1 142.30 NOTE
r-release-linux-x86_64 1.2.1 1.83 50.18 52.01 NOTE
r-release-osx-x86_64-mavericks 1.2.1 NOTE
r-release-windows-ix86+x86_64 1.2.1 7.00 79.00 86.00 NOTE
r-oldrel-windows-ix86+x86_64 1.2.1 14.00 129.00 143.00 OK

Check Details

Version: 1.2.1
Check: DESCRIPTION meta-information
Result: NOTE
    Malformed Description field: should contain one or more complete sentences.
Flavors: r-devel-linux-x86_64-debian-clang, 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, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64

Version: 1.2.1
Check: R code for possible problems
Result: NOTE
    diff_test : per.locus: no visible global function definition for
     ‘complete.cases’
    diff_test : per.locus: no visible global function definition for
     ‘fisher.test’
    dist.codom : per.loc: no visible global function definition for
     ‘na.omit’
    dist.codom : per.loc: no visible global function definition for ‘dist’
    dist.codom: no visible global function definition for ‘na.omit’
    rgenotypes: no visible global function definition for ‘rmultinom’
    summarise_bootstrap : summarise: no visible global function definition
     for ‘quantile’
    summarise_bootstrap : summarise: no visible global function definition
     for ‘var’
    Undefined global functions or variables:
     complete.cases dist fisher.test na.omit quantile rmultinom var
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64

Version: 1.2.1
Check: examples
Result: ERROR
    Running examples in ‘mmod-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: pairwise_D
    > ### Title: Calculates pairwise values of Jost's D
    > ### Aliases: pairwise_D
    >
    > ### ** Examples
    >
    > data(nancycats)
    > pairwise_D(nancycats[1:26,])
    Error in while (keepCheck) { : missing value where TRUE/FALSE needed
    Calls: pairwise_D ... lapply -> FUN -> pair -> repool -> df2genind -> fillWithZero
    Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, 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

Version: 1.2.1
Check: running R code from vignettes
Result: ERROR
    Errors in running code in vignettes:
    when running code in ‘mmod-demo.Rnw’
     ...
    P03 391.1050 254.70148
    P04 458.6121 41.72336
    
    > nc.pop_dists <- dist(nancycats@other$xy, method = "euclidean")
    
    > nc.pw_D <- pairwise_D(nancycats, linearized = TRUE)
    
     When sourcing ‘mmod-demo.R’:
    Error: missing value where TRUE/FALSE needed
    Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, 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

Version: 1.2.1
Check: re-building of vignette outputs
Result: NOTE
    Error in re-building vignettes:
     ...
     - to post questions/comments: adegenet-forum@lists.r-forge.r-project.org
    
    
    Loading required package: pegas
    Loading required package: ape
    
    Attaching package: ‘pegas’
    
    The following object is masked from ‘package:ape’:
    
     mst
    
    The following object is masked from ‘package:ade4’:
    
     amova
    
    Warning in dist.codom(x) :
     removing all individuals with NAs for global estimate
    Warning in dist.codom(x) :
     removing all individuals with NAs for global estimate
    
    Error: processing vignette ‘mmod-demo.Rnw’ failed with diagnostics:
     chunk 7 (label = pw)
    Error in while (keepCheck) { : missing value where TRUE/FALSE needed
    Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, 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