CRAN Package Check Results for Maintainer ‘Michael P. Fay <mfay at niaid.nih.gov>’

Last updated on 2020-09-23 16:39:17 CEST.

Package ERROR NOTE OK
asht 2 10
binseqtest 12
bpcp 12
choplump 12
exact2x2 12
exactci 1 11
hbim 12
interval 12
MChtest 12
nivm 11
perm 11
rateratio.test 11
saws 11
ssanv 11

Package asht

Current CRAN status: ERROR: 2, OK: 10

Version: 0.9.6
Check: R code for possible problems
Result: NOTE
    signTest: no visible global function definition for ‘deparse1’
    Undefined global functions or variables:
     deparse1
Flavors: r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64

Version: 0.9.6
Check: examples
Result: ERROR
    Running examples in ‘asht-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: signTest
    > ### Title: Exact Sign Test with Confidence Intervals
    > ### Aliases: signTest
    > ### Keywords: htest
    >
    > ### ** Examples
    >
    > x<-c(rep(-1,10),rep(0,60),rep(1,30))
    > signTest(x, stat='cd')
    Error in deparse1(substitute(x)) : could not find function "deparse1"
    Calls: signTest
    Execution halted
Flavors: r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64

Package binseqtest

Current CRAN status: OK: 12

Package bpcp

Current CRAN status: OK: 12

Package choplump

Current CRAN status: NOTE: 12

Version: 1.0-0.4
Check: DESCRIPTION meta-information
Result: NOTE
    Malformed Description field: should contain one or more complete sentences.
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-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.0-0.4
Check: R code for possible problems
Result: NOTE
    Qh.times.dhyper: no visible global function definition for 'var'
    Qh.times.dhyper: no visible global function definition for 'pnorm'
    Qh.times.dhyper: no visible global function definition for 'dhyper'
    TDiM: no visible global function definition for 'sd'
    choplump.default: no visible global function definition for
     'flush.console'
    choplump.formula: no visible global function definition for 'terms'
    cm.compact: no visible global function definition for 'dhyper'
    Undefined global functions or variables:
     dhyper flush.console pnorm sd terms var
    Consider adding
     importFrom("stats", "dhyper", "pnorm", "sd", "terms", "var")
     importFrom("utils", "flush.console")
    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-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64

Package exact2x2

Current CRAN status: OK: 12

Package exactci

Current CRAN status: NOTE: 1, OK: 11

Version: 1.3-3
Check: Rd cross-references
Result: NOTE
    Undeclared package ‘exact2x2’ in Rd xrefs
Flavor: r-devel-linux-x86_64-fedora-clang

Package hbim

Current CRAN status: NOTE: 12

Version: 1.0.3
Check: R code for possible problems
Result: NOTE
    calc.foldrange: no visible global function definition for 'qt'
    calc.foldrange: no visible global function definition for 'qnorm'
    equiv.ab: no visible global function definition for 'approx'
    equiv.increase: no visible global function definition for 'approx'
    hbpp.integrate1: no visible global function definition for 'pnorm'
    hbpp.integrate2 : hb.y: no visible global function definition for
     'integrate'
    hbpp.integrate2: no visible global function definition for 'integrate'
    hbpp.integrate3 : hb.z : hb.yZ: no visible global function definition
     for 'integrate'
    hbpp.integrate3 : hb.z: no visible global function definition for
     'integrate'
    hbpp.integrate3: no visible global function definition for 'integrate'
    hbpp.simulate: no visible global function definition for 'rnorm'
    hbrr.integrate1 : hb.x: no visible global function definition for
     'dnorm'
    hbrr.integrate1: no visible global function definition for 'integrate'
    hbrr.integrate2 : hb.y: no visible global function definition for
     'integrate'
    hbrr.integrate2: no visible global function definition for 'integrate'
    hbrr.integrate2.rhoeq1 : hb.x: no visible global function definition
     for 'dnorm'
    hbrr.integrate2.rhoeq1: no visible global function definition for
     'integrate'
    hbrr.integrate3 : hb.z : hb.yZ: no visible global function definition
     for 'integrate'
    hbrr.integrate3 : hb.z: no visible global function definition for
     'integrate'
    hbrr.integrate3: no visible global function definition for 'integrate'
    hbrr.integrate3.rhoeq1 : hb.x: no visible global function definition
     for 'dnorm'
    hbrr.integrate3.rhoeq1: no visible global function definition for
     'integrate'
    hbrr.simulate: no visible global function definition for 'rnorm'
    plotlogm.resp: no visible global function definition for 'axis'
    plotlogm.resp: no visible global function definition for 'box'
    plotlogm.resp: no visible global function definition for 'lines'
    plotresp.equiv : doline: no visible global function definition for
     'lines'
    plotresp.mix : doline: no visible global function definition for
     'lines'
    plotresp.mix: no visible global function definition for 'lines'
    Undefined global functions or variables:
     approx axis box dnorm integrate lines pnorm qnorm qt rnorm
    Consider adding
     importFrom("graphics", "axis", "box", "lines")
     importFrom("stats", "approx", "dnorm", "integrate", "pnorm", "qnorm",
     "qt", "rnorm")
    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-macos-x86_64, r-release-windows-ix86+x86_64

Version: 1.0.3
Check: R code for possible problems
Result: NOTE
    calc.foldrange: no visible global function definition for ‘qt’
    calc.foldrange: no visible global function definition for ‘qnorm’
    equiv.ab: no visible global function definition for ‘approx’
    equiv.increase: no visible global function definition for ‘approx’
    hbpp.integrate1: no visible global function definition for ‘pnorm’
    hbpp.integrate2 : hb.y: no visible global function definition for
     ‘integrate’
    hbpp.integrate2: no visible global function definition for ‘integrate’
    hbpp.integrate3 : hb.z : hb.yZ: no visible global function definition
     for ‘integrate’
    hbpp.integrate3 : hb.z: no visible global function definition for
     ‘integrate’
    hbpp.integrate3: no visible global function definition for ‘integrate’
    hbpp.simulate: no visible global function definition for ‘rnorm’
    hbrr.integrate1 : hb.x: no visible global function definition for
     ‘dnorm’
    hbrr.integrate1: no visible global function definition for ‘integrate’
    hbrr.integrate2 : hb.y: no visible global function definition for
     ‘integrate’
    hbrr.integrate2: no visible global function definition for ‘integrate’
    hbrr.integrate2.rhoeq1 : hb.x: no visible global function definition
     for ‘dnorm’
    hbrr.integrate2.rhoeq1: no visible global function definition for
     ‘integrate’
    hbrr.integrate3 : hb.z : hb.yZ: no visible global function definition
     for ‘integrate’
    hbrr.integrate3 : hb.z: no visible global function definition for
     ‘integrate’
    hbrr.integrate3: no visible global function definition for ‘integrate’
    hbrr.integrate3.rhoeq1 : hb.x: no visible global function definition
     for ‘dnorm’
    hbrr.integrate3.rhoeq1: no visible global function definition for
     ‘integrate’
    hbrr.simulate: no visible global function definition for ‘rnorm’
    plotlogm.resp: no visible global function definition for ‘plot’
    plotlogm.resp: no visible global function definition for ‘axis’
    plotlogm.resp: no visible global function definition for ‘box’
    plotlogm.resp: no visible global function definition for ‘lines’
    plotresp.equiv: no visible global function definition for ‘plot’
    plotresp.equiv : doline: no visible global function definition for
     ‘lines’
    plotresp.mix: no visible global function definition for ‘plot’
    plotresp.mix : doline: no visible global function definition for
     ‘lines’
    plotresp.mix: no visible global function definition for ‘lines’
    Undefined global functions or variables:
     approx axis box dnorm integrate lines plot pnorm qnorm qt rnorm
    Consider adding
     importFrom("graphics", "axis", "box", "lines", "plot")
     importFrom("stats", "approx", "dnorm", "integrate", "pnorm", "qnorm",
     "qt", "rnorm")
    to your NAMESPACE file.
Flavors: r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64

Package interval

Current CRAN status: NOTE: 12

Version: 1.1-0.1
Check: R code for possible problems
Result: NOTE
    icScoreTest: no visible global function definition for 'pnorm'
    icScoreTest: no visible global function definition for 'pchisq'
    icfit.formula: no visible global function definition for 'terms'
    icfit.formula: no visible global function definition for
     'model.extract'
    icfitBootCI: no visible global function definition for 'binom.test'
    ictest.formula: no visible global function definition for
     'model.extract'
    plot.icfit: no visible global function definition for 'gray'
    plot.icfit: no visible global function definition for 'axis'
    plot.icfit : polygon.icfit: no visible global function definition for
     'polygon'
    scoresFromFit: no visible global function definition for 'dnorm'
    scoresFromFit: no visible global function definition for 'qnorm'
    wsrHLYpclt: no visible global function definition for 'model.matrix'
    wsrHLYpclt: no visible global function definition for 'pchisq'
    wsrHLYpclt: no visible global function definition for 'pnorm'
    Undefined global functions or variables:
     axis binom.test dnorm gray model.extract model.matrix pchisq pnorm
     polygon qnorm terms
    Consider adding
     importFrom("grDevices", "gray")
     importFrom("graphics", "axis", "polygon")
     importFrom("stats", "binom.test", "dnorm", "model.extract",
     "model.matrix", "pchisq", "pnorm", "qnorm", "terms")
    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-macos-x86_64, r-release-windows-ix86+x86_64

Version: 1.1-0.1
Check: R code for possible problems
Result: NOTE
    icScoreTest: no visible global function definition for ‘pnorm’
    icScoreTest: no visible global function definition for ‘pchisq’
    icfit.formula: no visible global function definition for ‘terms’
    icfit.formula: no visible global function definition for
     ‘model.extract’
    icfitBootCI: no visible global function definition for ‘binom.test’
    ictest.formula: no visible global function definition for
     ‘model.extract’
    plot.icfit: no visible global function definition for ‘gray’
    plot.icfit: no visible global function definition for ‘plot’
    plot.icfit: no visible global function definition for ‘axis’
    plot.icfit : polygon.icfit: no visible global function definition for
     ‘polygon’
    scoresFromFit: no visible global function definition for ‘dnorm’
    scoresFromFit: no visible global function definition for ‘qnorm’
    wsrHLYpclt: no visible global function definition for ‘model.matrix’
    wsrHLYpclt: no visible global function definition for ‘pchisq’
    wsrHLYpclt: no visible global function definition for ‘pnorm’
    Undefined global functions or variables:
     axis binom.test dnorm gray model.extract model.matrix pchisq plot
     pnorm polygon qnorm terms
    Consider adding
     importFrom("grDevices", "gray")
     importFrom("graphics", "axis", "plot", "polygon")
     importFrom("stats", "binom.test", "dnorm", "model.extract",
     "model.matrix", "pchisq", "pnorm", "qnorm", "terms")
    to your NAMESPACE file.
Flavors: r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64

Package MChtest

Current CRAN status: OK: 12

Package nivm

Current CRAN status: OK: 11

Package perm

Current CRAN status: NOTE: 11

Version: 1.0-0.0
Check: DESCRIPTION meta-information
Result: NOTE
    Malformed Description field: should contain one or more complete sentences.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.0-0.0
Check: R code for possible problems
Result: NOTE
    ksample.pclt: no visible global function definition for 'pchisq'
    pCI: no visible global function definition for 'qbeta'
    permKS.formula: no visible global function definition for 'terms'
    permTREND.default: no visible global function definition for 'cor'
    permTREND.formula: no visible global function definition for 'terms'
    permTS.formula: no visible global function definition for 'terms'
    trend.pclt: no visible global function definition for 'pnorm'
    twosample.pclt: no visible global function definition for 'pnorm'
    twosample.pclt: no visible global function definition for 'pchisq'
    Undefined global functions or variables:
     cor pchisq pnorm qbeta terms
    Consider adding
     importFrom("stats", "cor", "pchisq", "pnorm", "qbeta", "terms")
    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-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64

Version: 1.0-0.0
Check: Rd line widths
Result: NOTE
    Rd file 'perm-internal.Rd':
     \usage lines wider than 90 characters:
     ksample.exact.mc(scores, group, nmc = 10^4 - 1, seed = 1234321, digits = 12, p.conf.level = 0.99, setSEED = TRUE)
     trend.exact.mc(scores, group, alternative = "two.sided", nmc = 10^3 - 1, seed = 1234321, digits = 12, p.conf.level = 0.99, setSEED = TR ... [TRUNCATED]
     twosample.exact.mc(scores, group, alternative = "two.sided", nmc = 10^4 - 1, seed = 1234321, digits = 12, p.conf.level = 0.99, setSEED ... [TRUNCATED]
    
    Rd file 'perm.Rd':
     \usage lines wider than 90 characters:
     permKS(x, g, exact = NULL, method = NULL, methodRule = methodRuleKS1, control=permControl(), ...)
     permTREND(x, y, alternative = c("two.sided", "less", "greater"), exact = NULL, method = NULL, methodRule = methodRuleTREND1, control=pe ... [TRUNCATED]
    
    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-patched-linux-x86_64, r-release-linux-x86_64

Package rateratio.test

Current CRAN status: NOTE: 11

Version: 1.0-2
Check: R code for possible problems
Result: NOTE
    rateratio.test: no visible global function definition for
     'complete.cases'
    rateratio.test: no visible global function definition for 'pbinom'
    rateratio.test : p.L: no visible global function definition for 'qbeta'
    rateratio.test : p.U: no visible global function definition for 'qbeta'
    Undefined global functions or variables:
     complete.cases pbinom qbeta
    Consider adding
     importFrom("stats", "complete.cases", "pbinom", "qbeta")
    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-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64

Package saws

Current CRAN status: OK: 11

Package ssanv

Current CRAN status: OK: 11