CRAN Package Check Results for Package BaySIC

Last updated on 2019-02-18 01:51:07 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0 4.25 38.38 42.63 NOTE
r-devel-linux-x86_64-debian-gcc 1.0 3.50 32.16 35.66 NOTE
r-devel-linux-x86_64-fedora-clang 1.0 50.87 NOTE
r-devel-linux-x86_64-fedora-gcc 1.0 46.92 NOTE
r-devel-windows-ix86+x86_64 1.0 10.00 64.00 74.00 NOTE
r-patched-linux-x86_64 1.0 2.89 34.51 37.40 NOTE
r-patched-solaris-x86 1.0 71.60 NOTE
r-release-linux-x86_64 1.0 NOTE
r-release-windows-ix86+x86_64 1.0 5.00 78.00 83.00 NOTE
r-release-osx-x86_64 1.0 NOTE
r-oldrel-windows-ix86+x86_64 1.0 8.00 66.00 74.00 NOTE
r-oldrel-osx-x86_64 1.0 NOTE

Check Details

Version: 1.0
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘fields’ ‘poibin’ ‘rjags’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
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, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.0
Check: R code for possible problems
Result: NOTE
    BMR.plot: no visible global function definition for ‘heat.colors’
    BMR.plot: no visible global function definition for ‘image.plot’
    BMR.plot: no visible global function definition for ‘title’
    BMR.plot: no visible global function definition for ‘mtext’
    BMR.plot: no visible global function definition for ‘par’
    baysic.data: no visible global function definition for ‘layout’
    baysic.data: no visible global function definition for ‘barplot’
    baysic.data: no visible global function definition for ‘rainbow’
    baysic.fit: no visible global function definition for ‘jags.model’
    baysic.fit: no visible global function definition for ‘update’
    baysic.fit: no visible global function definition for ‘coda.samples’
    baysic.test: no visible global function definition for ‘ppois’
    baysic.test : <anonymous>: no visible global function definition for
     ‘ppoibin’
    baysic.test: no visible global function definition for ‘pbinom’
    fuzzy.FDR.approx: no visible global function definition for ‘p.adjust’
    fuzzy.FDR.approx: no visible global function definition for ‘runif’
    Undefined global functions or variables:
     barplot coda.samples heat.colors image.plot jags.model layout mtext
     p.adjust par pbinom ppoibin ppois rainbow runif title update
    Consider adding
     importFrom("grDevices", "heat.colors", "rainbow")
     importFrom("graphics", "barplot", "layout", "mtext", "par", "title")
     importFrom("stats", "p.adjust", "pbinom", "ppois", "runif", "update")
    to your NAMESPACE file.
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, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.0
Check: Rd line widths
Result: NOTE
    Rd file 'baysic.fit.Rd':
     \usage lines wider than 90 characters:
     baysic.fit(dat.out, snv.cat, covar = NULL, excl.list = NULL, burn.in = 10000,n.samp = 25000, fn.jags = "baysic.jags", prior = NULL)
     \examples lines wider than 100 characters:
     snv.cat.ex[[2]]<-unique(c(grep("TC.",colnames(ccds.19)[-c(1:2)]),grep(".CG",colnames(ccds.19)[-c(1:2)])))
    
    Rd file 'baysic.test.Rd':
     \usage lines wider than 90 characters:
     baysic.test(dat.out, fit.out, fdr.level = 0.15, fuzzy.cnt = 10000, r = NULL,subtype = NULL, PB.approx = FALSE)
     \examples lines wider than 100 characters:
     snv.cat.ex[[2]]<-unique(c(grep("TC.",colnames(ccds.19)[-c(1:2)]),grep(".CG",colnames(ccds.19)[-c(1:2)])))
    
    These lines will be truncated in the PDF 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-patched-linux-x86_64, r-release-linux-x86_64