CRAN Package Check Results for Package MCMCpack

Last updated on 2015-07-06 19:47:41.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.3-3 182.48 41.11 223.60 NOTE
r-devel-linux-x86_64-debian-gcc 1.3-3 145.93 40.31 186.24 NOTE
r-devel-linux-x86_64-fedora-clang 1.3-3 511.53 NOTE
r-devel-linux-x86_64-fedora-gcc 1.3-3 365.93 NOTE
r-devel-osx-x86_64-clang 1.3-3 324.59 NOTE
r-devel-windows-ix86+x86_64 1.3-3 464.00 129.00 593.00 NOTE
r-patched-linux-x86_64 1.3-3 145.16 40.85 186.00 NOTE
r-patched-solaris-sparc 1.3-3 2574.90 NOTE
r-patched-solaris-x86 1.3-3 493.30 NOTE
r-release-linux-x86_64 1.3-3 145.74 41.48 187.23 NOTE
r-release-osx-x86_64-mavericks 1.3-3 NOTE
r-release-windows-ix86+x86_64 1.3-3 453.00 115.00 568.00 NOTE
r-oldrel-windows-ix86+x86_64 1.3-3 476.00 132.00 608.00 NOTE

Check Details

Version: 1.3-3
Check: installed package size
Result: NOTE
     installed size is 29.2Mb
     sub-directories of 1Mb or more:
     libs 28.4Mb
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-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.3-3
Check: top-level files
Result: NOTE
    Non-standard file/directory found at top level:
     ‘HISTORY’
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

Version: 1.3-3
Check: dependencies in R code
Result: NOTE
    There are ::: calls to the package's namespace in its code. A package
     almost never needs to use ::: for its own objects:
     ‘MCMCresidualBreakAnalysis’
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, r-oldrel-windows-ix86+x86_64

Version: 1.3-3
Check: R code for possible problems
Result: NOTE
    dtomogplot: no visible binding for global variable ‘heat.colors’
    dtomogplot: no visible global function definition for ‘par’
    dtomogplot: no visible global function definition for ‘layout’
    dtomogplot: no visible global function definition for ‘lcm’
    dtomogplot: no visible global function definition for ‘plot.new’
    dtomogplot: no visible global function definition for ‘plot.window’
    dtomogplot: no visible global function definition for ‘rect’
    dtomogplot: no visible global function definition for ‘axis’
    dtomogplot: no visible global function definition for ‘box’
    dtomogplot: no visible global function definition for ‘plot’
    dtomogplot: no visible global function definition for ‘abline’
    mptable: no visible global function definition for ‘is’
    plot.qrssvs: no visible global function definition for ‘dotplot’
    plot.qrssvs : <anonymous>: no visible global function definition for
     ‘panel.abline’
    plot.qrssvs : <anonymous>: no visible global function definition for
     ‘panel.dotplot’
    plotChangepoint: no visible global function definition for ‘par’
    plotChangepoint: no visible global function definition for ‘plot’
    plotChangepoint: no visible global function definition for ‘axis’
    plotChangepoint: no visible global function definition for ‘axTicks’
    plotChangepoint: no visible global function definition for ‘lines’
    plotIntervention: no visible global function definition for ‘plot’
    plotIntervention: no visible global function definition for ‘abline’
    plotIntervention: no visible global function definition for ‘lines’
    plotState: no visible global function definition for ‘plot’
    plotState: no visible global function definition for ‘axis’
    plotState: no visible global function definition for ‘axTicks’
    plotState: no visible global function definition for ‘lines’
    plotState: no visible global function definition for ‘points’
    plotState: no visible global function definition for ‘legend’
    tomogplot: no visible global function definition for ‘par’
    tomogplot: no visible global function definition for ‘plot’
    tomogplot: no visible global function definition for ‘rect’
    tomogplot: no visible global function definition for ‘abline’
    tomogplot: no visible global function definition for ‘box’
    topmodels: no visible global function definition for ‘is’
    write.Scythe: no visible global function definition for ‘write.table’
    Undefined global functions or variables:
     abline axTicks axis box dotplot heat.colors is layout lcm legend
     lines panel.abline panel.dotplot par plot plot.new plot.window points
     rect write.table
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

Version: 1.3-3
Check: Rd line widths
Result: NOTE
    Rd file 'HMMpanelFE.Rd':
     \examples lines wider than 100 characters:
     y[j:(j+T-1)] <- ((1-weight)*true.mean + (1-weight)*rnorm(T, 0, true.sigma) + (1-weight)*true.alpha1[i]) +
    
    Rd file 'MCMCbinaryChange.Rd':
     \examples lines wider than 100 characters:
     model0 <- MCMCbinaryChange(y, m=0, c0=2, d0=2, mcmc=1000, burnin=1000, verbose=500, marginal.likelihood = "Chib95")
     model1 <- MCMCbinaryChange(y, m=1, c0=2, d0=2, mcmc=1000, burnin=1000, verbose=500, marginal.likelihood = "Chib95")
     model2 <- MCMCbinaryChange(y, m=2, c0=2, d0=2, mcmc=1000, burnin=1000, verbose=500, marginal.likelihood = "Chib95")
     model3 <- MCMCbinaryChange(y, m=3, c0=2, d0=2, mcmc=1000, burnin=1000, verbose=500, marginal.likelihood = "Chib95")
     model4 <- MCMCbinaryChange(y, m=4, c0=2, d0=2, mcmc=1000, burnin=1000, verbose=500, marginal.likelihood = "Chib95")
     model5 <- MCMCbinaryChange(y, m=5, c0=2, d0=2, mcmc=1000, burnin=1000, verbose=500, marginal.likelihood = "Chib95")
    
    Rd file 'MCMCintervention.Rd':
     \usage lines wider than 90 characters:
     prediction.type=c("trend","ar"), change.type=c("fixed", "random", "all"),
     \examples lines wider than 100 characters:
     plotIntervention(ar1fixed, start=1871, main="Forward Analysis", alpha= 0.5, ylab="Nile River flow", xlab="Year")
     plotIntervention(ar1fixed, forward=FALSE, start=1871, main="Backward Analysis", alpha= 0.5, ylab="Nile River flow", xlab="Year")
    
    Rd file 'MCMCirtHier1d.Rd':
     \examples lines wider than 100 characters:
     scMiss[matrix(as.logical(rbinom(nrow(SupremeCourt)*ncol(SupremeCourt), 1, .1)), dim(SupremeCourt))] <- NA
    
    Rd file 'MCMCirtKdHet.Rd':
     \examples lines wider than 100 characters:
     "deviations from the party line are attributable","to idiosyncrasy rather than moderation."),cex=0.5)
    
    Rd file 'MCMCregress.Rd':
     \examples lines wider than 100 characters:
     posterior <- MCMCregress(Y~X, b0=0, B0 = 0.1, sigma.mu = 5, sigma.var = 25, data=line, verbose=1000)
    
    Rd file 'MCMCregressChange.Rd':
     \examples lines wider than 100 characters:
     model1 <- MCMCregressChange(formula, m=1, b0=b0, B0=B0, sigma.mu=sigma.mu, sigma.var=sigma.var, marginal.likelihood="Chib95")
     model2 <- MCMCregressChange(formula, m=2, b0=b0, B0=B0, sigma.mu=sigma.mu, sigma.var=sigma.var, marginal.likelihood="Chib95")
     model3 <- MCMCregressChange(formula, m=3, b0=b0, B0=B0, sigma.mu=sigma.mu, sigma.var=sigma.var, marginal.likelihood="Chib95")
     model4 <- MCMCregressChange(formula, m=4, b0=b0, B0=B0, sigma.mu=sigma.mu, sigma.var=sigma.var, marginal.likelihood="Chib95")
     model5 <- MCMCregressChange(formula, m=5, b0=b0, B0=B0, sigma.mu=sigma.mu, sigma.var=sigma.var, marginal.likelihood="Chib95")
    
    Rd file 'plotState.Rd':
     \usage lines wider than 90 characters:
     plotState(mcmcout, main="Posterior Regime Probability", ylab=expression(paste("Pr(", S[t], "= k |", Y[t], ")")),
    
    Rd file 'testpanelSubjectBreak.Rd':
     \examples lines wider than 100 characters:
     y[j:(j+T-1)] <- ((1-weight)*true.mean + (1-weight)*rnorm(T, 0, true.sigma) + (1-weight)*true.alpha1[i]) +
    
    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

Version: 1.3-3
Check: compilation flags in Makevars
Result: NOTE
    Package has both ‘src/Makevars.in’ and ‘src/Makevars’.
    Installation with --no-configure' is unlikely to work. If you intended
    ‘src/Makevars’ to be used on Windows, rename it to ‘src/Makevars.win’
    otherwise remove it. If ‘configure’ created ‘src/Makevars’, you need a
    ‘cleanup’ script.
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, r-oldrel-windows-ix86+x86_64

Version: 1.3-3
Check: R code for possible problems
Result: NOTE
    plot.qrssvs: no visible global function definition for ‘dotplot’
    plot.qrssvs : <anonymous>: no visible global function definition for
     ‘panel.abline’
    plot.qrssvs : <anonymous>: no visible global function definition for
     ‘panel.dotplot’
    Undefined global functions or variables:
     dotplot panel.abline panel.dotplot
Flavor: r-devel-osx-x86_64-clang

Version: 1.3-3
Check: R code for possible problems
Result: NOTE
    MCMCdynamicIRT1d: no visible binding for global variable 'probit'
    MCMCdynamicIRT1d_b: no visible binding for global variable 'probit'
    MCMCirt1d: no visible binding for global variable 'probit'
    MCMCirtHier1d: no visible binding for global variable 'probit'
    MCMCirtKdHet: no visible binding for global variable 'probit'
    MCMCirtKdRob: no visible binding for global variable 'logit'
    MCMCmixfactanal: no visible binding for global variable 'probit'
    MCMCordfactanal: no visible binding for global variable 'probit'
    MCMCprobit: no visible binding for global variable 'probit'
    dtomogplot: no visible binding for global variable 'heat.colors'
    dtomogplot: no visible global function definition for 'par'
    dtomogplot: no visible global function definition for 'layout'
    dtomogplot: no visible global function definition for 'lcm'
    dtomogplot: no visible global function definition for 'plot.new'
    dtomogplot: no visible global function definition for 'plot.window'
    dtomogplot: no visible global function definition for 'rect'
    dtomogplot: no visible global function definition for 'axis'
    dtomogplot: no visible global function definition for 'box'
    dtomogplot: no visible global function definition for 'plot'
    dtomogplot: no visible global function definition for 'abline'
    mptable: no visible global function definition for 'is'
    plot.qrssvs: no visible global function definition for 'dotplot'
    plot.qrssvs : <anonymous>: no visible global function definition for
     'panel.abline'
    plot.qrssvs : <anonymous>: no visible global function definition for
     'panel.dotplot'
    plotChangepoint: no visible global function definition for 'par'
    plotChangepoint: no visible global function definition for 'plot'
    plotChangepoint: no visible global function definition for 'axis'
    plotChangepoint: no visible global function definition for 'axTicks'
    plotChangepoint: no visible global function definition for 'lines'
    plotIntervention: no visible global function definition for 'plot'
    plotIntervention: no visible global function definition for 'abline'
    plotIntervention: no visible global function definition for 'lines'
    plotState: no visible global function definition for 'plot'
    plotState: no visible global function definition for 'axis'
    plotState: no visible global function definition for 'axTicks'
    plotState: no visible global function definition for 'lines'
    plotState: no visible global function definition for 'points'
    plotState: no visible global function definition for 'legend'
    tomogplot: no visible global function definition for 'par'
    tomogplot: no visible global function definition for 'plot'
    tomogplot: no visible global function definition for 'rect'
    tomogplot: no visible global function definition for 'abline'
    tomogplot: no visible global function definition for 'box'
    topmodels: no visible global function definition for 'is'
    write.Scythe: no visible global function definition for 'write.table'
    Undefined global functions or variables:
     abline axTicks axis box dotplot heat.colors is layout lcm legend
     lines logit panel.abline panel.dotplot par plot plot.new plot.window
     points probit rect write.table
Flavor: r-devel-windows-ix86+x86_64

Version: 1.3-3
Check: R code for possible problems
Result: NOTE
    plot.qrssvs: no visible global function definition for ‘dotplot’
    plot.qrssvs : <anonymous>: no visible global function definition for
     ‘panel.abline’
    plot.qrssvs : <anonymous>: no visible global function definition for
     ‘panel.dotplot’
Flavors: 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, r-oldrel-windows-ix86+x86_64