CRAN Package Check Results for Package coloc

Last updated on 2014-04-25 05:47:13.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.3-1 1.50 46.27 47.77 OK
r-devel-linux-x86_64-debian-gcc 2.3-1 1.49 44.88 46.37 OK
r-devel-linux-x86_64-fedora-clang 2.3-1 100.36 OK
r-devel-linux-x86_64-fedora-gcc 2.3-1 96.91 OK
r-devel-osx-x86_64-clang 2.3-1 77.23 OK
r-devel-osx-x86_64-gcc 2.3-1 ERROR
r-devel-windows-ix86+x86_64 2.3-1 5.00 66.00 71.00 OK
r-patched-linux-x86_64 2.3-1 1.44 45.83 47.27 OK
r-patched-solaris-sparc 2.3-1 538.30 OK
r-patched-solaris-x86 2.3-1 121.20 OK
r-release-linux-ix86 2.3-1 2.00 73.00 75.00 OK
r-release-linux-x86_64 2.3-1 1.46 45.16 46.61 OK
r-release-osx-x86_64-mavericks 2.3-1 WARN
r-release-windows-ix86+x86_64 2.3-1 5.00 69.00 74.00 OK
r-oldrel-windows-ix86+x86_64 2.3-1 6.00 66.00 72.00 OK

Check Details

Version: 2.3-1
Check: package dependencies
Result: ERROR
    Package required but not available: ‘BMA’
    
    Packages suggested but not available for checking: ‘ggplot2’ ‘snpStats’
    
    See the information on DESCRIPTION files in the chapter ‘Creating R
    packages’ of the ‘Writing R Extensions’ manual.
Flavor: r-devel-osx-x86_64-gcc

Version: 2.3-1
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘snpStats’
Flavor: r-release-osx-x86_64-mavericks

Version: 2.3-1
Check: R code for possible problems
Result: NOTE
    coloc.abf.snpStats: no visible global function definition for
     ‘single.snp.tests’
    coloc.abf.snpStats: no visible global function definition for
     ‘col.summary’
    fillin: no visible global function definition for ‘col.summary’
    fillin: no visible global function definition for ‘snp.imputation’
    fillin: no visible global function definition for ‘impute.snps’
Flavor: r-release-osx-x86_64-mavericks

Version: 2.3-1
Check: running R code from vignettes
Result: WARNING
    Errors in running code in vignettes:
    when running code in ‘vignette.Rnw’
     ...
     values.against
    values.for c(-0.1, 1) c(0.9, 1.1)
     c(-0.1, 1) 1.00000 0.05150753
     c(0.9, 1.1) 19.41464 1.00000000
    
    > library(snpStats)
    
     When sourcing ‘vignette.R’:
    Error: there is no package called ‘snpStats’
    Execution halted
Flavor: r-release-osx-x86_64-mavericks

Version: 2.3-1
Check: re-building of vignette outputs
Result: NOTE
    Error in re-building vignettes:
     ...
    Loading required package: colorspace
    Loading required package: MASS
    Loading required package: BMA
    Loading required package: survival
    Loading required package: splines
    Loading required package: leaps
    Loading required package: robustbase
    
    Attaching package: ‘robustbase’
    
    The following object is masked from ‘package:survival’:
    
     heart
    
    
    Error: processing vignette 'vignette.Rnw' failed with diagnostics:
     chunk 7
    Error in library(snpStats) : there is no package called ‘snpStats’
    Execution halted
Flavor: r-release-osx-x86_64-mavericks

Version: 2.3-1
Check: PDF version of manual
Result: WARNING
    LaTeX errors when creating PDF version.
    This typically indicates Rd problems.
    LaTeX errors found:
    ! LaTeX Error: File `upquote.sty' not found.
    
    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: sty)
    
    22b98b1/Rd2.tex:8: ==> Fatal error occurred, no output PDF file produced!
Flavor: r-release-osx-x86_64-mavericks