CRAN Package Check Results for Maintainer ‘Emmanuel Paradis <Emmanuel.Paradis at ird.fr>’

Last updated on 2014-10-10 15:49:48.

Package ERROR WARN NOTE OK
ape 1 9 1 4
coalescentMCMC 1 12 2
pegas 15

Package ape

Current CRAN status: ERROR: 1, WARN: 9, NOTE: 1, OK: 4

Version: 3.1-4
Check: dependencies in R code
Result: WARN
    'library' or 'require' call not declared from: ‘parallel’
    See the information on DESCRIPTION files in the chapter ‘Creating R
    packages’ of the ‘Writing R Extensions’ manual.
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

Version: 3.1-4
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: ‘phangorn’
Flavor: r-release-linux-ix86

Version: 3.1-4
Check: running examples for arch 'x64'
Result: ERROR
    Running examples in 'ape-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: bd.time
    > ### Title: Time-Dependent Birth-Death Models
    > ### Aliases: bd.time
    > ### Keywords: models
    >
    > ### ** Examples
    >
    > set.seed(3)
    > tr <- rbdtree(0.1, 0.02)
    > bd.time(tr, 0, 0) # fits a simple BD model
Flavor: r-release-windows-ix86+x86_64

Package coalescentMCMC

Current CRAN status: ERROR: 1, NOTE: 12, OK: 2

Version: 0.4
Check: foreign function calls
Result: NOTE
    Calls with DUP:
     .C(get_single_index_integer, as.integer(edge[, 2L]), as.integer(tip),
     integer(1L), NAOK = TRUE, DUP = FALSE)
     .C(get_two_index_integer, as.integer(edge[, 1L]), as.integer(node),
     integer(2L), NAOK = TRUE, DUP = FALSE)
    DUP is no longer supported and will be ignored.
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: 0.4
Check: foreign function calls
Result: NOTE
    Calls with DUP != TRUE:
     .C(get_single_index_integer, as.integer(edge[, 2L]), as.integer(tip),
     integer(1L), NAOK = TRUE, DUP = FALSE)
     .C(get_two_index_integer, as.integer(edge[, 1L]), as.integer(node),
     integer(2L), NAOK = TRUE, DUP = FALSE)
    DUP = FALSE is deprecated and will be disabled in future versions of R.
Flavors: r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86

Version: 0.4
Check: package dependencies
Result: ERROR
    Package required but not available: ‘phangorn’
    
    See the information on DESCRIPTION files in the chapter ‘Creating R
    packages’ of the ‘Writing R Extensions’ manual.
Flavor: r-release-linux-ix86

Version: 0.4
Check: foreign function calls
Result: NOTE
    Calls with DUP = FALSE:
     .C(get_single_index_integer, as.integer(edge[, 2L]), as.integer(tip),
     integer(1L), NAOK = TRUE, DUP = FALSE)
     .C(get_two_index_integer, as.integer(edge[, 1L]), as.integer(node),
     integer(2L), NAOK = TRUE, DUP = FALSE)
    DUP = FALSE is deprecated and may be disabled in future versions of R.
Flavors: r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64

Package pegas

Current CRAN status: OK: 15