CRAN Package Check Results for Package diseasemapping

Last updated on 2015-03-28 09:48:13.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.2.0 1.20 61.38 62.58 NOTE
r-devel-linux-x86_64-debian-gcc 1.2.0 1.19 41.17 42.36 NOTE
r-devel-linux-x86_64-fedora-clang 1.2.0 39.55 OK
r-devel-linux-x86_64-fedora-gcc 1.2.0 37.44 OK
r-devel-osx-x86_64-clang 1.2.0 70.18 OK
r-prerel-windows-ix86+x86_64 1.2.0 5.00 60.00 65.00 OK
r-prerel-linux-x86_64 1.1.7 1.21 33.61 34.82 ERROR
r-prerel-solaris-sparc 1.2.0 393.80 NOTE
r-prerel-solaris-x86 1.2.0 105.60 NOTE
r-release-linux-x86_64 1.2.0 1.33 80.43 81.76 NOTE
r-release-osx-x86_64-mavericks 1.2.0 NOTE
r-release-osx-x86_64-snowleopard 1.2.0 NOTE
r-release-windows-ix86+x86_64 1.2.0 5.00 64.00 69.00 OK
r-oldrel-windows-ix86+x86_64 1.2.0 5.00 92.00 97.00 OK

Check Details

Version: 1.2.0
Check: package dependencies
Result: NOTE
    Package which this enhances but not available for checking: ‘INLA’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-prerel-solaris-sparc, r-prerel-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard

Version: 1.2.0
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: ‘INLA’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-prerel-solaris-sparc, r-prerel-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-osx-x86_64-snowleopard

Version: 1.1.7
Check: package dependencies
Result: NOTE
    Package which this enhances but not available for checking: ‘INLA’
Flavor: r-prerel-linux-x86_64

Version: 1.1.7
Check: Rd cross-references
Result: NOTE
    Package unavailable to check Rd xrefs: ‘INLA’
Flavor: r-prerel-linux-x86_64

Version: 1.1.7
Check: examples
Result: ERROR
    Running examples in ‘diseasemapping-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: cancerRates
    > ### Title: Download cancer incidence rates from the International Agency
    > ### for Research on Cancer (IARC)
    > ### Aliases: cancerRates
    >
    > ### ** Examples
    >
    >
    > # won't work if offline or if the iarc web site is down
    >
    > if(interactive() | Sys.info()['user'] =='patrick') {
    + qcLungF=cancerRates(area="canada", year=2001:2002, site="lung", sex="F")
    + } else {
    + qcLungF = structure(c(0, 5e-06, 0, 0, 5e-06, 1e-05, 0, 3.4e-05, 9.6e-05,
    + 0.000211, 0.000559, 0.001289, 0.002003, 0.002508, 0.002728, 0.003189,
    + 0.002792, 0.001905), .Names = c("F_0", "F_5", "F_10", "F_15",
    + "F_20", "F_25", "F_30", "F_35", "F_40", "F_45", "F_50", "F_55",
    + "F_60", "F_65", "F_70", "F_75", "F_80", "F_85"), site = "Lung",
    + area = "Canada", year = "2001-2002")
    + }
    > qcLungF
     F_0 F_5 F_10 F_15 F_20 F_25 F_30 F_35
    0.000000 0.000005 0.000000 0.000000 0.000005 0.000010 0.000000 0.000034
     F_40 F_45 F_50 F_55 F_60 F_65 F_70 F_75
    0.000096 0.000211 0.000559 0.001289 0.002003 0.002508 0.002728 0.003189
     F_80 F_85
    0.002792 0.001905
    attr(,"site")
    [1] "Lung"
    attr(,"area")
    [1] "Canada"
    attr(,"year")
    [1] "2001-2002"
    >
    > data('popdata')
    >
    > qcLungExp = getSMR(popdata, qcLungF)
    >
    > names(qcLungExp)
     [1] "CSDUID" "CSDNAME"
     [3] "CSDTYPE" "PRUID"
     [5] "PRNAME" "CDUID"
     [7] "CDNAME" "CDTYPE"
     [9] "SACTYPE" "ERUID"
    [11] "ERNAME" "TotPop2001"
    [13] "TotPop2006" "TotPopPerc"
    [15] "TotPop" "AreaSqKm20"
    [17] "TotPop_x_A" "MaleTot"
    [19] "M0_4" "M5_9"
    [21] "M10_14" "M15_19"
    [23] "M20_24" "M25_29"
    [25] "M30_34" "M35_39"
    [27] "M40_44" "M45_49"
    [29] "M50_54" "M55_59"
    [31] "M60_64" "M65_69"
    [33] "M70_74" "M75_79"
    [35] "M80_84" "M85plus"
    [37] "FemaleTot" "F0_4"
    [39] "F5_9" "F10_14"
    [41] "F15_19" "F20_24"
    [43] "F25_29" "F30_34"
    [45] "F35_39" "F40_44"
    [47] "F45_49" "F50_54"
    [49] "F55_59" "F60_64"
    [51] "F65_69" "F70_74"
    [53] "F75_79" "F80_84"
    [55] "F85plus" "MaxSimpTol"
    [57] "MinSimpTol" "medIncome"
    [59] "surfaceArea" "expected"
    [61] "expected_surfaceArea" "logExpected_surfaceArea"
    [63] "logExpected"
    >
    > if(require('mapmisc', quietly=TRUE)) {
    +
    + mycol = colourScale(qcLungExp$expected,
    + breaks=9, dec=0, transform='log', style='equal')
    + map.new(
    + popdata[grep("Stormont|Thunder Bay|Lambton", popdata$CDNAME),]
    + )
    + plot(qcLungExp, col=mycol$plot, border='#00000040',add=TRUE)
    + legendBreaks('topright', mycol)
    + scaleBar(qcLungExp,"bottomleft")
    + }
    Error: identicalCRS(dots) is not TRUE
    Execution halted
Flavor: r-prerel-linux-x86_64

Version: 1.1.7
Check: tests
Result: ERROR
    Running the tests in ‘tests/cancerRates.R’ failed.
    Last 13 lines of output:
     + kentucky2 = getSMR(kentucky, larynxRates, larynx,
     + regionCode="County")
     +
     + if(require('mapmisc', quietly=TRUE)) {
     + mycol = colourScale(kentucky2$SMR, breaks=9,
     + dec=-log10(0.5), style='equal', transform='sqrt')
     + plot(kentucky2, col=mycol$plot)
     + legendBreaks('topleft', mycol)
     + scaleBar(kentucky2,"topright")
     + }
     + }
     Error: identicalCRS(dots) is not TRUE
     Execution halted
Flavor: r-prerel-linux-x86_64