CRAN Package Check Results for Package MIfuns

Last updated on 2014-08-22 03:48:01.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 5.1 3.83 44.82 48.66 NOTE
r-devel-linux-x86_64-debian-gcc 5.1 3.61 45.30 48.91 NOTE
r-devel-linux-x86_64-fedora-clang 5.1 102.09 NOTE
r-devel-linux-x86_64-fedora-gcc 5.1 98.87 NOTE
r-devel-osx-x86_64-clang 5.1 85.26 NOTE
r-devel-windows-ix86+x86_64 5.1 13.00 68.00 81.00 NOTE
r-patched-linux-x86_64 5.1 3.66 45.55 49.22 NOTE
r-patched-solaris-sparc 5.1 607.00 NOTE
r-patched-solaris-x86 5.1 124.80 NOTE
r-release-linux-ix86 5.1 4.71 57.73 62.44 NOTE
r-release-linux-x86_64 5.1 3.72 45.79 49.52 NOTE
r-release-osx-x86_64-mavericks 5.1 NOTE
r-release-osx-x86_64-snowleopard 5.1 NOTE
r-release-windows-ix86+x86_64 5.1 12.00 69.00 81.00 NOTE
r-oldrel-windows-ix86+x86_64 5.1 13.00 64.00 77.00 NOTE

Check Details

Version: 5.1
Check: installed package size
Result: NOTE
     installed size is 6.3Mb
     sub-directories of 1Mb or more:
     sample 5.3Mb
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-ix86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 5.1
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘MASS’ ‘XML’ ‘grid’ ‘lattice’ ‘methods’ ‘reshape’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
    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: 5.1
Check: R code for possible problems
Result: NOTE
    File ‘MIfuns/R/zzz.R’:
     .onLoad calls:
     cat("MIfuns", utils::packageDescription("MIfuns", fields = "Version"), "\n")
    
    Package startup functions should use ‘packageStartupMessage’ to
     generate messages.
    See section ‘Good practice’ in '?.onAttach'.
    
    aggregate.keyed: warning in cast(molten, formula = ... ~
     aggregate.keyed.variable, fun = FUN, ...): partial argument match of
     'fun' to 'fun.aggregate'
    read.cwres.data: warning in read.table(filename, skip = 1, h = TRUE):
     partial argument match of 'h' to 'header'
    read.cwres.data: warning in read.table(tempfile, skip = 2, h = TRUE):
     partial argument match of 'h' to 'header'
    read.cwres.data: warning in read.table(deriv.file, skip = 1, h = TRUE):
     partial argument match of 'h' to 'header'
    summary.hidden.data.frame: warning in cast(molten, fun = sum): partial
     argument match of 'fun' to 'fun.aggregate'
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-ix86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard

Version: 5.1
Check: R code for possible problems
Result: NOTE
    File ‘MIfuns/R/zzz.R’:
     .onLoad calls:
     cat("MIfuns", utils::packageDescription("MIfuns", fields = "Version"), "\n")
    
    Package startup functions should use ‘packageStartupMessage’ to
     generate messages.
    See section ‘Good practice’ in '?.onAttach'.
    
    MIfuns 5.1
    read.cwres.data: warning in read.table(filename, skip = 1, h = TRUE):
     partial argument match of 'h' to 'header'
    read.cwres.data: warning in read.table(tempfile, skip = 2, h = TRUE):
     partial argument match of 'h' to 'header'
    read.cwres.data: warning in read.table(deriv.file, skip = 1, h = TRUE):
     partial argument match of 'h' to 'header'
    NONR: no visible global function definition for ‘handleSIGCLD’
    NONR: no visible global function definition for ‘fork’
    NONR: no visible global function definition for ‘exit’
    PLOTR: no visible global function definition for ‘melt’
    PLOTR: no visible global function definition for ‘xyplot’
    PLOTR : <anonymous>: no visible global function definition for
     ‘panel.abline’
    PLOTR : <anonymous>: no visible global function definition for
     ‘panel.xyplot’
    accept : as.XMLNode.XMLDocument: no visible global function definition
     for ‘xmlTreeParse’
    accept : as.XMLNode.character: no visible global function definition
     for ‘xmlTreeParse’
    accept: no visible global function definition for ‘newXMLNode’
    accept: no visible global function definition for ‘addChildren’
    accept: no visible global function definition for ‘saveXML’
    acceptance : as.XMLNode.XMLDocument: no visible global function
     definition for ‘xmlTreeParse’
    acceptance : as.XMLNode.character: no visible global function
     definition for ‘xmlTreeParse’
    aggregate.keyed: no visible global function definition for ‘melt’
    aggregate.keyed: no visible global function definition for ‘cast’
    as.runlog.unilog: no visible global function definition for ‘cast’
    as.unilog.pxml: no visible global function definition for ‘xmlParse’
    as.unilog.pxml: no visible global function definition for ‘xpathApply’
    as.unilog.pxml : <anonymous>: no visible global function definition for
     ‘xmlName’
    as.unilog.pxml : <anonymous>: no visible global function definition for
     ‘xmlValue’
    as.unilog.pxml : <anonymous>: no visible global function definition for
     ‘getNodeSet’
    as.unilog.pxml: no visible global function definition for ‘free’
    as.unilog.pxml: no visible global function definition for ‘melt’
    as.unilog.runlog: no visible global function definition for ‘melt’
    compiler: no visible global function definition for ‘xmlParse’
    compiler: no visible global function definition for ‘xmlValue’
    compiler: no visible global function definition for ‘getNodeSet’
    covariatePlots: no visible global function definition for ‘splom’
    covariatePlots : <anonymous>: no visible global function definition for
     ‘panel.splom’
    covariatePlots : <anonymous>: no visible global function definition for
     ‘panel.lines’
    covariatePlots: no visible global function definition for ‘melt’
    covariatePlots: no visible global function definition for ‘bwplot’
    covariatePlots : <anonymous>: no visible global function definition for
     ‘prepanel.default.bwplot’
    covariatePlots : <anonymous>: no visible global function definition for
     ‘panel.bwplot’
    covariatePlots: no visible global function definition for ‘histogram’
    covariatePlots: no visible global function definition for ‘densityplot’
    covariatePlots: no visible global function definition for ‘xyplot’
    covariatePlots : <anonymous>: no visible global function definition for
     ‘panel.xyplot’
    covariatePlots : <anonymous>: no visible global function definition for
     ‘panel.abline’
    cwresPlots: no visible global function definition for ‘melt’
    cwresPlots: no visible global function definition for ‘bwplot’
    cwresPlots : <anonymous>: no visible global function definition for
     ‘prepanel.default.bwplot’
    cwresPlots : <anonymous>: no visible global function definition for
     ‘panel.bwplot’
    cwresPlots: no visible global function definition for ‘xyplot’
    cwresPlots : <anonymous>: no visible global function definition for
     ‘panel.xyplot’
    cwresPlots : <anonymous>: no visible global function definition for
     ‘panel.abline’
    cwresPlots : <anonymous>: no visible global function definition for
     ‘panel.lines’
    diagnosticPlots: no visible global function definition for ‘melt’
    diagnosticPlots: no visible global function definition for ‘xyplot’
    diagnosticPlots : <anonymous>: no visible global function definition
     for ‘panel.xyplot’
    diagnosticPlots : <anonymous>: no visible global function definition
     for ‘panel.abline’
    diagnosticPlots : <anonymous>: no visible global function definition
     for ‘panel.loess’
    diagnosticPlots: no visible global function definition for ‘qqmath’
    diagnosticPlots : <anonymous>: no visible global function definition
     for ‘panel.qqmathline’
    diagnosticPlots : <anonymous>: no visible global function definition
     for ‘panel.qqmath’
    diagnosticPlots: no visible global function definition for ‘qq’
    diagnosticPlots : <anonymous>: no visible global function definition
     for ‘panel.qq’
    diagnosticPlots: no visible global function definition for ‘bwplot’
    inner.data.frame: no visible global function definition for ‘melt’
    inner.data.frame: no visible global function definition for ‘cast’
    lookup.one: no visible global function definition for ‘xmlParse’
    lookup.one: no visible global function definition for ‘xpathSApply’
    lookup.one: no visible binding for global variable ‘xmlValue’
    lookup.one: no visible global function definition for ‘free’
    nmVersion: no visible global function definition for ‘xmlParse’
    nmVersion: no visible global function definition for ‘getNodeSet’
    panel.bar: no visible global function definition for ‘panel.segments’
    panel.covplot: no visible binding for global variable ‘panel.abline’
    panel.cuts: no visible global function definition for ‘ltext’
    panel.densitystrip: no visible global function definition for
     ‘panel.polygon’
    panel.hist: no visible global function definition for ‘panel.rect’
    panel.ref: no visible global function definition for ‘panel.rect’
    panel.stratify: no visible global function definition for
     ‘trellis.par.get’
    panel.stratify: no visible global function definition for
     ‘panel.superpose’
    params: no visible global function definition for ‘xmlParse’
    params: no visible global function definition for ‘xpathSApply’
    params: no visible global function definition for ‘free’
    partab: no visible global function definition for ‘cast’
    plot.nm: no visible global function definition for ‘cast’
    plot.nm: no visible global function definition for ‘melt’
    simpar: no visible global function definition for ‘mvrnorm’
    summary.hidden.data.frame: no visible global function definition for
     ‘melt’
    summary.hidden.data.frame: no visible global function definition for
     ‘cast’
    unilogcor: no visible global function definition for ‘cast’
    wikitab: no visible global function definition for ‘cast’
    xyplot.ext: no visible binding for global variable ‘panel.superpose’
    xyplot.ext : <anonymous>: no visible global function definition for
     ‘panel.xyplot’
    xyplot.ext: no visible global function definition for ‘melt’
    xyplot.ext: no visible global function definition for ‘cast’
    xyplot.ext: no visible global function definition for ‘xyplot’
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang

Version: 5.1
Check: Rd line widths
Result: NOTE
    Rd file 'as.pxml.Rd':
     \examples lines wider than 100 characters:
     ' 0 1.70000E+00 1.02000E-01 2.90000E+01 0.00000E+00 1.17001E+00 11.570086639848398',
     ' 2 1.78158E+00 1.06239E-01 3.05314E+01 0.00000E+00 1.08862E+00 9.377909428896904',
     ' 4 1.91182E+00 1.05179E-01 3.14289E+01 0.00000E+00 8.96680E-01 8.983605357031118',
     ' 6 1.94836E+00 1.01426E-01 3.20728E+01 0.00000E+00 9.06374E-01 8.940731060922468',
     ' 8 1.93983E+00 1.01742E-01 3.20128E+01 0.00000E+00 8.99988E-01 8.940110966224346',
     ' 10 1.94057E+00 1.01681E-01 3.20217E+01 0.00000E+00 8.99322E-01 8.940101673144566',
     ' 11 1.94057E+00 1.01681E-01 3.20217E+01 0.00000E+00 8.99322E-01 8.940101673144566',
     ' -1000000000 1.94057E+00 1.01681E-01 3.20217E+01 0.00000E+00 8.99322E-01 8.940101673144566',
    
    Rd file 'electronicAppendix.Rd':
     \usage lines wider than 90 characters:
     electronicAppendix(x, as, pattern = NULL, recursive = TRUE, ignore.case = TRUE, zip = FALSE, ...)
    
    Rd file 'extensions.Rd':
     \usage lines wider than 90 characters:
     moot(x, scope = x$EVID == 2, disregard = c('TIME', 'DATETIME', 'DATE', 'TAFD', 'TAD','HOUR'), ...)
    
    Rd file 'inner.data.frame.Rd':
     \examples lines wider than 100 characters:
     inner(x,measure.var=c('Ozone','Solar.R','Wind','Temp'),na.rm=TRUE)#like previous, but dropping Month, Day
    
    Rd file 'iterations.Rd':
     \examples lines wider than 100 characters:
     ' PARAMETER: 1.0000E-01 1.0000E-01 1.0000E-01 1.0000E-01 1.0000E-01 1.0000E-01 1.0000E-01 1.0000E-01 1.0000E-01 1.0000E-01',
     ' GRADIENT: 3.9317E+00 -4.0782E+02 7.1408E+02 1.8310E+01 -1.6763E+02 6.9517E-01 -8.4428E+00 -7.5683E+01 -2.1314E+02 -6.6351E+02',
     ' PARAMETER: 6.2289E-02 1.1384E+00 -1.0060E+00 -1.1735E+00 4.2648E-01 1.2235E-01 2.7340E-01 7.1404E-01 3.0674E-01 1.3337E-01',
     ' GRADIENT: 8.6318E+00 5.1291E+01 2.9047E+01 -3.5090E+01 1.2660E+01 2.2857E+00 -2.5195E+00 1.9660E+01 -1.1005E+01 -4.1891E+00',
     ' PARAMETER: -1.2851E-01 9.9652E-01 -1.1333E+00 -1.2965E+00 1.9849E-01 1.6383E-01 1.7455E+00 5.0881E-01 3.3873E-01 1.2843E-01',
     ' GRADIENT: 1.2016E+01 3.1625E+01 -3.1473E+01 -1.5576E+01 1.9959E-01 5.3062E+00 3.2026E+00 4.0190E-01 -3.6134E+00 -3.3637E+00',
     ' PARAMETER: -9.0277E-02 9.8751E-01 -1.0251E+00 -1.0561E+00 1.8848E-01 1.0188E-01 1.3933E+00 4.9185E-01 2.8957E-01 1.8878E-01',
     ' GRADIENT: -5.0246E-01 2.2589E-01 -1.7718E+00 7.8352E-01 6.4402E-01 -1.3915E-01 -1.1238E-01 1.7533E-01 1.7068E-01 1.4890E+00',
     ' PARAMETER: -8.8682E-02 9.8198E-01 -1.0240E+00 -1.0659E+00 1.7898E-01 1.0123E-01 1.3935E+00 4.9043E-01 2.8974E-01 1.7010E-01',
     ' GRADIENT: -5.8862E-01 -1.1992E+00 -4.6879E+00 -4.7829E-01 -2.2729E-01 -1.2550E-01 -2.9251E-01 4.8799E-02 1.5060E-01 -5.1096E-01',
     ' PARAMETER: -8.8040E-02 1.0105E+00 -9.9958E-01 -1.0162E+00 1.7939E-01 9.7973E-02 1.4278E+00 4.8858E-01 2.7835E-01 1.8430E-01',
     ' GRADIENT: -9.4356E-03 8.1782E-03 4.5771E-02 -1.9044E-02 -7.8125E-04 -1.0624E-03 -7.2147E-04 3.5290E-03 -2.6681E-03 1.1598E-02',
     xyplot(value~iteration|variable,it.dat[it.dat$course=='parameter',],type='l',ylab='scaled parameter',as.table=TRUE,scales=list(y=list(r ... [TRUNCATED]
     xyplot(value~iteration|variable,it.dat[it.dat$course=='gradient',] ,type='l',ylab='gradient',as.table=TRUE,scales=list(y=list(relation= ... [TRUNCATED]
    
    Rd file 'lookup.Rd':
     \examples lines wider than 100 characters:
     '; etc <parameter name="THETA1" lattice="TH1" latex="\\Theta_1">effect of weight on clearance</parameter>',
     ';<parameter name="OMEGA1" lattice="OM1" latex="\\Omega_1">interindivdual variance on volume</parameter>',
    
    Rd file 'panel.hist.Rd':
     \usage lines wider than 90 characters:
     panel.hist(x,y,level,horizontal,col.line,fill,factor,border=col.line,col=fill,offset=-0.5,font,fontface,...)
    
    Rd file 'panel.stratify.Rd':
     \usage lines wider than 90 characters:
     fontfamily = if (is.null(groups)) plot.symbol$fontfamily else superpose.symbol$fontfamily,
     fontface = if (is.null(groups)) plot.symbol$fontface else superpose.symbol$fontface,
    
    Rd file 'qsub.Rd':
     \examples lines wider than 100 characters:
     qsub('nm.pl',`@`='options',hard='',i='stdin',soft='',hard='',N=c('Run3c','Run3e'),hold_jid=c(NA,'Run3c'))
    
    Rd file 'runCommand.Rd':
     \usage lines wider than 90 characters:
     perl = if (nix()) 'perl -S' else if (!invisible) 'cmd /K perl -S' else 'cmd /C perl -S',
     L=if(split & interface=='nm.pl')c(compileflag(compiler(config(dirname(command)))),NA)else NA,
    
    Rd file 'runlog.Rd':
     \examples lines wider than 100 characters:
     ' 0 1.70000E+00 1.02000E-01 2.90000E+01 0.00000E+00 1.17001E+00 11.570086639848398',
     ' 2 1.78158E+00 1.06239E-01 3.05314E+01 0.00000E+00 1.08862E+00 9.377909428896904',
     ' 4 1.91182E+00 1.05179E-01 3.14289E+01 0.00000E+00 8.96680E-01 8.983605357031118',
     ' 6 1.94836E+00 1.01426E-01 3.20728E+01 0.00000E+00 9.06374E-01 8.940731060922468',
     ' 8 1.93983E+00 1.01742E-01 3.20128E+01 0.00000E+00 8.99988E-01 8.940110966224346',
     ' 10 1.94057E+00 1.01681E-01 3.20217E+01 0.00000E+00 8.99322E-01 8.940101673144566',
     ' 11 1.94057E+00 1.01681E-01 3.20217E+01 0.00000E+00 8.99322E-01 8.940101673144566',
     ' -1000000000 1.94057E+00 1.01681E-01 3.20217E+01 0.00000E+00 8.99322E-01 8.940101673144566',
     '1001 2 compartment base,, 0, 1, 0.1439772E+05, 0.2813E+01, 0.4840E+01, 0.2814E+01, 0.5440E+01, 0.1284E+01, 0.0000E+0 ... [TRUNCATED]
     '1001 2 compartment base,RSE,,,,0,0,0,0,0,0,0,0,0,0, 0.0000E+00,0,0,0,0,0,0,0,0,0,0,0,0,0,0, 0.0000E+00, 0.0000E+00,0,0, ,'
    
    Rd file 'wikiparse.Rd':
     \usage lines wider than 90 characters:
     wikiparse(x, sim = "~", dot = "*", pregreek = "", sup = "^", openSup = "{", closeSup = "}", sub = "_", openSub = "{", closeSub = "}", w ... [TRUNCATED]
    
    Rd file 'xyplot.ext.Rd':
     \examples lines wider than 100 characters:
     ' 0 1.70000E+00 1.02000E-01 2.90000E+01 0.00000E+00 1.17001E+00 11.570086639848398',
     ' 2 1.78158E+00 1.06239E-01 3.05314E+01 0.00000E+00 1.08862E+00 9.377909428896904',
     ' 4 1.91182E+00 1.05179E-01 3.14289E+01 0.00000E+00 8.96680E-01 8.983605357031118',
     ' 6 1.94836E+00 1.01426E-01 3.20728E+01 0.00000E+00 9.06374E-01 8.940731060922468',
     ' 8 1.93983E+00 1.01742E-01 3.20128E+01 0.00000E+00 8.99988E-01 8.940110966224346',
     ' 10 1.94057E+00 1.01681E-01 3.20217E+01 0.00000E+00 8.99322E-01 8.940101673144566',
     ' 11 1.94057E+00 1.01681E-01 3.20217E+01 0.00000E+00 8.99322E-01 8.940101673144566',
     ' -1000000000 1.94057E+00 1.01681E-01 3.20217E+01 0.00000E+00 8.99322E-01 8.940101673144566',
    
    These lines will be truncated in the PDF manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 5.1
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: 'fork'
Flavors: r-devel-windows-ix86+x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 5.1
Check: R code for possible problems
Result: NOTE
    File 'MIfuns/R/zzz.R':
     .onLoad calls:
     cat("MIfuns", utils::packageDescription("MIfuns", fields = "Version"), "\n")
    
    Package startup functions should use 'packageStartupMessage' to
     generate messages.
    See section 'Good practice' in '?.onAttach'.
    
    aggregate.keyed: warning in cast(molten, formula = ... ~
     aggregate.keyed.variable, fun = FUN, ...): partial argument match of
     'fun' to 'fun.aggregate'
    read.cwres.data: warning in read.table(filename, skip = 1, h = TRUE):
     partial argument match of 'h' to 'header'
    read.cwres.data: warning in read.table(tempfile, skip = 2, h = TRUE):
     partial argument match of 'h' to 'header'
    read.cwres.data: warning in read.table(deriv.file, skip = 1, h = TRUE):
     partial argument match of 'h' to 'header'
    summary.hidden.data.frame: warning in cast(molten, fun = sum): partial
     argument match of 'fun' to 'fun.aggregate'
    NONR: no visible global function definition for 'handleSIGCLD'
    NONR: no visible global function definition for 'fork'
    NONR: no visible global function definition for 'exit'
Flavors: r-devel-windows-ix86+x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 5.1
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘MASS’ ‘XML’ ‘lattice’ ‘methods’ ‘reshape’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
    See the information on DESCRIPTION files in the chapter ‘Creating R
    packages’ of the ‘Writing R Extensions’ manual.
Flavors: r-release-linux-ix86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 5.1
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     'MASS' 'XML' 'lattice' 'methods' 'reshape'
     These packages need to be imported from for the case when
     this namespace is loaded but not attached.
    See the information on DESCRIPTION files in the chapter 'Creating R
    packages' of the 'Writing R Extensions' manual.
Flavor: r-release-osx-x86_64-snowleopard