CRAN Package Check Results for Package mlmm.gwas

Last updated on 2019-01-11 06:46:58 CET.

Check Details

Version: 1.0.4
Check: examples
Result: ERROR
    Running examples in ‘mlmm.gwas-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: mlmm_allmodels
    > ### Title: Multi-Locus Mixed-Model
    > ### Aliases: mlmm_allmodels
    >
    > ### ** Examples
    >
    > ### Data for additive and additive+dominance models
    >
    > data("mlmm.gwas.AD")
    >
    > ### Additive model ###
    >
    > XX = list(Xa)
    > KK = list(K.add)
    >
    > # GWAS
    > res_mlmm <- mlmm_allmodels(floweringDateAD, XX, KK)
    Error in sommer::mmer2(fixed, random, data = data, G = KK.proj, silent = TRUE) :
     unused arguments (G = KK.proj, silent = TRUE)
    Calls: mlmm_allmodels -> mixedModelWithSommer
    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: 1.0.4
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘gwas-manual.Rmd’ using rmarkdown
    Quitting from lines 130-131 (gwas-manual.Rmd)
    Error: processing vignette 'gwas-manual.Rmd' failed with diagnostics:
    unused arguments (G = KK.proj, silent = TRUE)
    --- failed re-building ‘gwas-manual.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘gwas-manual.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Version: 1.0.4
Check: examples
Result: ERROR
    Running examples in ‘mlmm.gwas-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: mlmm_allmodels
    > ### Title: Multi-Locus Mixed-Model
    > ### Aliases: mlmm_allmodels
    >
    > ### ** Examples
    >
    > ### Data for additive and additive+dominance models
    >
    > data("mlmm.gwas.AD")
    >
    > ### Additive model ###
    >
    > XX = list(Xa)
    > KK = list(K.add)
    >
    > # GWAS
    > res_mlmm <- mlmm_allmodels(floweringDateAD, XX, KK)
    Error in sommer::mmer2(fixed, random, data = data, G = KK.proj, silent = TRUE) :
     unused arguments (G = KK.proj, silent = TRUE)
    Calls: mlmm_allmodels -> mixedModelWithSommer
    Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-solaris-x86, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.0.4
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building ‘gwas-manual.Rmd’ using rmarkdown
    Quitting from lines 130-131 (gwas-manual.Rmd)
    Error: processing vignette 'gwas-manual.Rmd' failed with diagnostics:
    unused arguments (G = KK.proj, silent = TRUE)
    --- failed re-building ‘gwas-manual.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘gwas-manual.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64

Version: 1.0.4
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    Quitting from lines 130-131 (gwas-manual.Rmd)
    Error: processing vignette ‘gwas-manual.Rmd’ failed with diagnostics:
    unused arguments (G = KK.proj, silent = TRUE)
    Execution halted
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.0.4
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    Quitting from lines 130-131 (gwas-manual.Rmd)
    Error: processing vignette 'gwas-manual.Rmd' failed with diagnostics:
    unused arguments (G = KK.proj, silent = TRUE)
    Execution halted
Flavor: r-patched-solaris-x86