CRAN Package Check Results for Package amei

Last updated on 2017-02-24 23:52:14.

Flavor	Version	T_install	T_check	T_total	Status	Flags
r-devel-linux-x86_64-debian-clang	1.0-7	2.27	354.38	356.65	NOTE
r-devel-linux-x86_64-debian-gcc	1.0-7	2.06	365.94	368.00	NOTE
r-devel-linux-x86_64-fedora-clang	1.0-7			746.73	NOTE	--no-stop-on-test-error
r-devel-linux-x86_64-fedora-gcc	1.0-7			722.67	NOTE	--no-stop-on-test-error
r-devel-macos-x86_64-clang	1.0-7			495.54	NOTE	--no-stop-on-test-error
r-devel-windows-ix86+x86_64	1.0-7	8.00	50.00	58.00	NOTE	--no-vignettes
r-patched-linux-x86_64	1.0-7	1.73	371.40	373.14	NOTE
r-patched-solaris-sparc	1.0-7			247.80	NOTE	--no-vignettes
r-patched-solaris-x86	1.0-7			768.90	NOTE	--no-build-vignettes
r-release-linux-x86_64	1.0-7	1.74	372.50	374.24	NOTE
r-release-osx-x86_64-mavericks	1.0-7				NOTE
r-release-windows-ix86+x86_64	1.0-7	8.00	55.00	63.00	NOTE	--no-vignettes
r-oldrel-windows-ix86+x86_64	1.0-7	10.00	65.00	75.00	OK	--no-vignettes

Check Details

Version: 1.0-7
Check: DESCRIPTION meta-information
Result: NOTE
Checking should be performed on sources prepared by ‘R CMD build’.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-osx-x86_64-mavericks

Version: 1.0-7
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     plot.MCepi plot.epiman plot.optvac print.MCepi print.epiman
     print.optvac print.summary.MCepi print.summary.epiman
     print.summary.optvac summary.MCepi summary.epiman summary.optvac
    See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
    manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64

Version: 1.0-7
Check: R code for possible problems
Result: NOTE
    PlotCosts: no visible global function definition for ‘lines’
    PlotCosts: no visible global function definition for ‘plot’
    PlotEpi: no visible global function definition for ‘rgb’
    PlotEpi: no visible global function definition for ‘lines’
    PlotEpi: no visible global function definition for ‘plot’
    PlotEpi: no visible global function definition for ‘legend’
    PlotParams: no visible global function definition for ‘par’
    PlotParams: no visible global function definition for ‘density’
    PlotParams: no visible global function definition for ‘rgamma’
    PlotParams: no visible global function definition for ‘rbeta’
    PlotParams: no visible global function definition for ‘plot’
    PlotParams: no visible global function definition for ‘quantile’
    PlotParams: no visible global function definition for ‘polygon’
    PlotParams: no visible global function definition for ‘rgb’
    PlotParams: no visible global function definition for ‘lines’
    PlotParams: no visible global function definition for ‘points’
    SimulateEpidemicQuantiles: no visible binding for global variable
     ‘quantile’
    SimulateEpidemicQuantiles: no visible binding for global variable
     ‘median’
    SimulateManagementQuantiles: no visible binding for global variable
     ‘quantile’
    SimulateManagementQuantiles: no visible binding for global variable
     ‘median’
    TimeSeriesOfDensities: no visible global function definition for
     ‘density’
    TimeSeriesOfDensities: no visible global function definition for ‘plot’
    TimeSeriesOfDensities: no visible global function definition for
     ‘lines’
    TimeSeriesOfDensities: no visible global function definition for ‘rgb’
    TimeSeriesOfDensities: no visible global function definition for ‘axis’
    TimeSeriesOfDensities: no visible global function definition for ‘box’
    epi.gibbs.mu: no visible global function definition for ‘rbeta’
    epi.gibbs.nu: no visible global function definition for ‘rbeta’
    epi.log.post.b: no visible global function definition for ‘dbinom’
    epi.log.post.b: no visible global function definition for ‘dgamma’
    epi.log.post.k: no visible global function definition for ‘dbinom’
    epi.log.post.k: no visible global function definition for ‘dgamma’
    epistep: no visible global function definition for ‘rbinom’
    mcmc.bknumu: no visible global function definition for ‘runif’
    plot.MCepi: no visible global function definition for ‘plot’
    plot.MCepi: no visible global function definition for ‘lines’
    plot.epiman: no visible global function definition for ‘title’
    plot.optvac: no visible global function definition for ‘layout’
    plot.optvac: no visible global function definition for ‘image’
    plot.optvac: no visible global function definition for ‘heat.colors’
    plot.optvac: no visible global function definition for ‘grid’
    plot.optvac: no visible global function definition for ‘text’
    plot.optvac: no visible global function definition for ‘axis’
    plot.optvac: no visible global function definition for ‘mtext’
    propose: no visible global function definition for ‘runif’
    propose: no visible global function definition for ‘dunif’
    Undefined global functions or variables:
     axis box dbinom density dgamma dunif grid heat.colors image layout
     legend lines median mtext par plot points polygon quantile rbeta
     rbinom rgamma rgb runif text title
    Consider adding
     importFrom("grDevices", "heat.colors", "rgb")
     importFrom("graphics", "axis", "box", "grid", "image", "layout",
     "legend", "lines", "mtext", "par", "plot", "points",
     "polygon", "text", "title")
     importFrom("stats", "dbinom", "density", "dgamma", "dunif", "median",
     "quantile", "rbeta", "rbinom", "rgamma", "runif")
    to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-osx-x86_64-mavericks

Version: 1.0-7
Check: compiled code
Result: NOTE
    File ‘amei/libs/amei.so’:
     Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

    It is good practice to register native routines and to disable symbol
    search.

    See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Version: 1.0-7
Flags: --no-stop-on-test-error
Check: DESCRIPTION meta-information
Result: NOTE
Checking should be performed on sources prepared by ‘R CMD build’.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 1.0-7
Flags: --no-stop-on-test-error
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     plot.MCepi plot.epiman plot.optvac print.MCepi print.epiman
     print.optvac print.summary.MCepi print.summary.epiman
     print.summary.optvac summary.MCepi summary.epiman summary.optvac
    See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
    manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 1.0-7
Flags: --no-stop-on-test-error
Check: R code for possible problems
Result: NOTE
    PlotCosts: no visible global function definition for ‘lines’
    PlotCosts: no visible global function definition for ‘plot’
    PlotEpi: no visible global function definition for ‘rgb’
    PlotEpi: no visible global function definition for ‘lines’
    PlotEpi: no visible global function definition for ‘plot’
    PlotEpi: no visible global function definition for ‘legend’
    PlotParams: no visible global function definition for ‘par’
    PlotParams: no visible global function definition for ‘density’
    PlotParams: no visible global function definition for ‘rgamma’
    PlotParams: no visible global function definition for ‘rbeta’
    PlotParams: no visible global function definition for ‘plot’
    PlotParams: no visible global function definition for ‘quantile’
    PlotParams: no visible global function definition for ‘polygon’
    PlotParams: no visible global function definition for ‘rgb’
    PlotParams: no visible global function definition for ‘lines’
    PlotParams: no visible global function definition for ‘points’
    SimulateEpidemicQuantiles: no visible binding for global variable
     ‘quantile’
    SimulateEpidemicQuantiles: no visible binding for global variable
     ‘median’
    SimulateManagementQuantiles: no visible binding for global variable
     ‘quantile’
    SimulateManagementQuantiles: no visible binding for global variable
     ‘median’
    TimeSeriesOfDensities: no visible global function definition for
     ‘density’
    TimeSeriesOfDensities: no visible global function definition for ‘plot’
    TimeSeriesOfDensities: no visible global function definition for
     ‘lines’
    TimeSeriesOfDensities: no visible global function definition for ‘rgb’
    TimeSeriesOfDensities: no visible global function definition for ‘axis’
    TimeSeriesOfDensities: no visible global function definition for ‘box’
    epi.gibbs.mu: no visible global function definition for ‘rbeta’
    epi.gibbs.nu: no visible global function definition for ‘rbeta’
    epi.log.post.b: no visible global function definition for ‘dbinom’
    epi.log.post.b: no visible global function definition for ‘dgamma’
    epi.log.post.k: no visible global function definition for ‘dbinom’
    epi.log.post.k: no visible global function definition for ‘dgamma’
    epistep: no visible global function definition for ‘rbinom’
    mcmc.bknumu: no visible global function definition for ‘runif’
    plot.MCepi: no visible global function definition for ‘plot’
    plot.MCepi: no visible global function definition for ‘lines’
    plot.epiman: no visible global function definition for ‘title’
    plot.optvac: no visible global function definition for ‘layout’
    plot.optvac: no visible global function definition for ‘image’
    plot.optvac: no visible global function definition for ‘heat.colors’
    plot.optvac: no visible global function definition for ‘grid’
    plot.optvac: no visible global function definition for ‘text’
    plot.optvac: no visible global function definition for ‘axis’
    plot.optvac: no visible global function definition for ‘mtext’
    propose: no visible global function definition for ‘runif’
    propose: no visible global function definition for ‘dunif’
    Undefined global functions or variables:
     axis box dbinom density dgamma dunif grid heat.colors image layout
     legend lines median mtext par plot points polygon quantile rbeta
     rbinom rgamma rgb runif text title
    Consider adding
     importFrom("grDevices", "heat.colors", "rgb")
     importFrom("graphics", "axis", "box", "grid", "image", "layout",
     "legend", "lines", "mtext", "par", "plot", "points",
     "polygon", "text", "title")
     importFrom("stats", "dbinom", "density", "dgamma", "dunif", "median",
     "quantile", "rbeta", "rbinom", "rgamma", "runif")
    to your NAMESPACE file.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 1.0-7
Flags: --no-stop-on-test-error
Check: compiled code
Result: NOTE
    File ‘amei/libs/amei.so’:
     Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

    It is good practice to register native routines and to disable symbol
    search.

    See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64-clang

Version: 1.0-7
Flags: --no-vignettes
Check: DESCRIPTION meta-information
Result: NOTE
Checking should be performed on sources prepared by 'R CMD build'.
Flavors: r-devel-windows-ix86+x86_64, r-patched-solaris-sparc, r-release-windows-ix86+x86_64

Version: 1.0-7
Flags: --no-vignettes
Check: R code for possible problems
Result: NOTE
    PlotCosts: no visible global function definition for 'lines'
    PlotCosts: no visible global function definition for 'plot'
    PlotEpi: no visible global function definition for 'rgb'
    PlotEpi: no visible global function definition for 'lines'
    PlotEpi: no visible global function definition for 'plot'
    PlotEpi: no visible global function definition for 'legend'
    PlotParams: no visible global function definition for 'par'
    PlotParams: no visible global function definition for 'density'
    PlotParams: no visible global function definition for 'rgamma'
    PlotParams: no visible global function definition for 'rbeta'
    PlotParams: no visible global function definition for 'plot'
    PlotParams: no visible global function definition for 'quantile'
    PlotParams: no visible global function definition for 'polygon'
    PlotParams: no visible global function definition for 'rgb'
    PlotParams: no visible global function definition for 'lines'
    PlotParams: no visible global function definition for 'points'
    SimulateEpidemicQuantiles: no visible binding for global variable
     'quantile'
    SimulateEpidemicQuantiles: no visible binding for global variable
     'median'
    SimulateManagementQuantiles: no visible binding for global variable
     'quantile'
    SimulateManagementQuantiles: no visible binding for global variable
     'median'
    TimeSeriesOfDensities: no visible global function definition for
     'density'
    TimeSeriesOfDensities: no visible global function definition for 'plot'
    TimeSeriesOfDensities: no visible global function definition for
     'lines'
    TimeSeriesOfDensities: no visible global function definition for 'rgb'
    TimeSeriesOfDensities: no visible global function definition for 'axis'
    TimeSeriesOfDensities: no visible global function definition for 'box'
    epi.gibbs.mu: no visible global function definition for 'rbeta'
    epi.gibbs.nu: no visible global function definition for 'rbeta'
    epi.log.post.b: no visible global function definition for 'dbinom'
    epi.log.post.b: no visible global function definition for 'dgamma'
    epi.log.post.k: no visible global function definition for 'dbinom'
    epi.log.post.k: no visible global function definition for 'dgamma'
    epistep: no visible global function definition for 'rbinom'
    mcmc.bknumu: no visible global function definition for 'runif'
    plot.MCepi: no visible global function definition for 'plot'
    plot.MCepi: no visible global function definition for 'lines'
    plot.epiman: no visible global function definition for 'title'
    plot.optvac: no visible global function definition for 'layout'
    plot.optvac: no visible global function definition for 'image'
    plot.optvac: no visible global function definition for 'heat.colors'
    plot.optvac: no visible global function definition for 'grid'
    plot.optvac: no visible global function definition for 'text'
    plot.optvac: no visible global function definition for 'axis'
    plot.optvac: no visible global function definition for 'mtext'
    propose: no visible global function definition for 'runif'
    propose: no visible global function definition for 'dunif'
    Undefined global functions or variables:
     axis box dbinom density dgamma dunif grid heat.colors image layout
     legend lines median mtext par plot points polygon quantile rbeta
     rbinom rgamma rgb runif text title
    Consider adding
     importFrom("grDevices", "heat.colors", "rgb")
     importFrom("graphics", "axis", "box", "grid", "image", "layout",
     "legend", "lines", "mtext", "par", "plot", "points",
     "polygon", "text", "title")
     importFrom("stats", "dbinom", "density", "dgamma", "dunif", "median",
     "quantile", "rbeta", "rbinom", "rgamma", "runif")
    to your NAMESPACE file.
Flavors: r-devel-windows-ix86+x86_64, r-patched-solaris-sparc, r-release-windows-ix86+x86_64

Version: 1.0-7
Flags: --no-vignettes
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     plot.MCepi plot.epiman plot.optvac print.MCepi print.epiman
     print.optvac print.summary.MCepi print.summary.epiman
     print.summary.optvac summary.MCepi summary.epiman summary.optvac
    See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
    manual.
Flavor: r-patched-solaris-sparc

Version: 1.0-7
Flags: --no-build-vignettes
Check: DESCRIPTION meta-information
Result: NOTE
Checking should be performed on sources prepared by ‘R CMD build’.
Flavor: r-patched-solaris-x86

Version: 1.0-7
Flags: --no-build-vignettes
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     plot.MCepi plot.epiman plot.optvac print.MCepi print.epiman
     print.optvac print.summary.MCepi print.summary.epiman
     print.summary.optvac summary.MCepi summary.epiman summary.optvac
    See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
    manual.
Flavor: r-patched-solaris-x86

Version: 1.0-7
Flags: --no-build-vignettes
Check: R code for possible problems
Result: NOTE
    PlotCosts: no visible global function definition for ‘lines’
    PlotCosts: no visible global function definition for ‘plot’
    PlotEpi: no visible global function definition for ‘rgb’
    PlotEpi: no visible global function definition for ‘lines’
    PlotEpi: no visible global function definition for ‘plot’
    PlotEpi: no visible global function definition for ‘legend’
    PlotParams: no visible global function definition for ‘par’
    PlotParams: no visible global function definition for ‘density’
    PlotParams: no visible global function definition for ‘rgamma’
    PlotParams: no visible global function definition for ‘rbeta’
    PlotParams: no visible global function definition for ‘plot’
    PlotParams: no visible global function definition for ‘quantile’
    PlotParams: no visible global function definition for ‘polygon’
    PlotParams: no visible global function definition for ‘rgb’
    PlotParams: no visible global function definition for ‘lines’
    PlotParams: no visible global function definition for ‘points’
    SimulateEpidemicQuantiles: no visible binding for global variable
     ‘quantile’
    SimulateEpidemicQuantiles: no visible binding for global variable
     ‘median’
    SimulateManagementQuantiles: no visible binding for global variable
     ‘quantile’
    SimulateManagementQuantiles: no visible binding for global variable
     ‘median’
    TimeSeriesOfDensities: no visible global function definition for
     ‘density’
    TimeSeriesOfDensities: no visible global function definition for ‘plot’
    TimeSeriesOfDensities: no visible global function definition for
     ‘lines’
    TimeSeriesOfDensities: no visible global function definition for ‘rgb’
    TimeSeriesOfDensities: no visible global function definition for ‘axis’
    TimeSeriesOfDensities: no visible global function definition for ‘box’
    epi.gibbs.mu: no visible global function definition for ‘rbeta’
    epi.gibbs.nu: no visible global function definition for ‘rbeta’
    epi.log.post.b: no visible global function definition for ‘dbinom’
    epi.log.post.b: no visible global function definition for ‘dgamma’
    epi.log.post.k: no visible global function definition for ‘dbinom’
    epi.log.post.k: no visible global function definition for ‘dgamma’
    epistep: no visible global function definition for ‘rbinom’
    mcmc.bknumu: no visible global function definition for ‘runif’
    plot.MCepi: no visible global function definition for ‘plot’
    plot.MCepi: no visible global function definition for ‘lines’
    plot.epiman: no visible global function definition for ‘title’
    plot.optvac: no visible global function definition for ‘layout’
    plot.optvac: no visible global function definition for ‘image’
    plot.optvac: no visible global function definition for ‘heat.colors’
    plot.optvac: no visible global function definition for ‘grid’
    plot.optvac: no visible global function definition for ‘text’
    plot.optvac: no visible global function definition for ‘axis’
    plot.optvac: no visible global function definition for ‘mtext’
    propose: no visible global function definition for ‘runif’
    propose: no visible global function definition for ‘dunif’
    Undefined global functions or variables:
     axis box dbinom density dgamma dunif grid heat.colors image layout
     legend lines median mtext par plot points polygon quantile rbeta
     rbinom rgamma rgb runif text title
    Consider adding
     importFrom("grDevices", "heat.colors", "rgb")
     importFrom("graphics", "axis", "box", "grid", "image", "layout",
     "legend", "lines", "mtext", "par", "plot", "points",
     "polygon", "text", "title")
     importFrom("stats", "dbinom", "density", "dgamma", "dunif", "median",
     "quantile", "rbeta", "rbinom", "rgamma", "runif")
    to your NAMESPACE file.
Flavor: r-patched-solaris-x86

Version: 1.0-7
Check: re-building of vignette outputs
Result: NOTE
    Error in re-building vignettes:
     ...
     input string 342 is invalid in this locale
    Warning in grepl("(Rerun to get|biblatex.*\\(re\\)run)", readLines(log, :
     input string 350 is invalid in this locale
    Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
     Running 'texi2dvi' on 'amei.tex' failed.
    LaTeX errors:
    ! Undefined control sequence.
    l.15 ...߾<8d><c6>L&<c3>9<ff><ee><bb><ef>^^Xc_~<f9><e5><f5><eb><d7>s<b9>^^\<ba>q<ce><ef>޽<fb><c5>^^W_\<bc>
     xq~~~aa!<9b><cd><ce><ce><ce>b<e4>\.W<af><d7><c7><c7><c7>^^Y...
    The control sequence at the end of the top line
    of your error message was never \def'ed. If you have
    ! Undefined control sequence.
    l.20 ...<9b>^^L<c7>0<8f>Z<ad><86><bb><b2><85><88>8<e7>^^@<92><aa><aa><a6>i<a2><b1>X,<fa><be><8f>G<d0><e2><fb>~4|Å\D
     Ƙ<bc><85><b7><d4>j<b5>v<e6><dc>^^Y8;<c5>ի<8d>ȨSp^^...
    The control sequence at the end of the top line
    of your error message was never \def'ed. If you have
    ! Undefined control sequence.
    l.23 <c3>0<96><97><97><af>\<b9>
     <e2><ba>.F+^^T^^J
    The control sequence at the end of the top line
    of your error message was never \def'ed. If you have
    ! Undefined control sequence.
    l.24
    Calls: buildVignettes -> texi2pdf -> texi2dvi
    Execution halted
Flavor: r-release-osx-x86_64-mavericks