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greenbrown log file (check_x86_64_windows)

* using log directory 'R:/run/building/build_2017-03-06-10-24/RF_PKG_CHECK/PKGS/greenbrown.Rcheck'
* using R version 3.3.3 RC (2017-02-28 r72303)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using options '--no-examples --no-tests --no-vignettes --as-cran'
* checking for file 'greenbrown/DESCRIPTION' ... OK
* this is package 'greenbrown' version '2.4.3'
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Matthias Forkel , Thomas Wutzler '

New submission

Strong dependencies not in mainstream repositories:
  phenopix
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'greenbrown' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... NOTE
Non-standard file/directory found at top level:
  'trigger'
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... WARNING
'::' or ':::' imports not declared from:
  'Rssa' 'ncdf'
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
AccuracyAssessment: no visible global function definition for
  'addmargins'
AllEqual: no visible global function definition for 'na.omit'
AllTsteps: no visible global function definition for 'time'
AnomaliesFiltersLags: no visible binding for global variable 'median'
AnomaliesFiltersLags: no visible global function definition for
  'ts.union'
AnomaliesFiltersLags : .Filter: no visible global function definition
  for 'ts.union'
AnomaliesFiltersLags : .Lags: no visible global function definition for
  'ts.union'
AnomaliesFiltersLags : .Lags: no visible global function definition for
  'lag'
ColorMatrix: no visible global function definition for 'median'
ColorMatrix: no visible global function definition for 'col2rgb'
ColorMatrix: no visible global function definition for 'rgb'
CompareClassification: no visible global function definition for
  'na.omit'
CorrectDOY: no visible global function definition for 'na.omit'
CorrectDOY: no visible global function definition for 'median'
CorrectDOY: no visible global function definition for 'IQR'
Decompose: no visible global function definition for 'cycle'
Decompose: no visible global function definition for 'frequency'
Decompose: no visible global function definition for 'ts'
FillPermanentGaps: no visible global function definition for
  'frequency'
FitDoubleLogBeck : : no visible global function definition
  for 'rnorm'
FitDoubleLogBeck : : no visible global function definition
  for 'sd'
FitDoubleLogBeck: no visible binding for global variable 'optim'
FitDoubleLogBeck: no visible global function definition for 'optim'
FitDoubleLogBeck: no visible global function definition for 'lm'
FitDoubleLogBeck: no visible global function definition for 'coef'
FitDoubleLogBeck: no visible binding for global variable 'var'
FitDoubleLogElmore : : no visible global function definition
  for 'rnorm'
FitDoubleLogElmore : : no visible global function definition
  for 'sd'
FitDoubleLogElmore: no visible binding for global variable 'optim'
FitDoubleLogElmore: no visible global function definition for 'optim'
FitDoubleLogElmore: no visible binding for global variable 'var'
GetTsStatisticsRaster : GetTsStatistics: no visible global function
  definition for 'lm'
GetTsStatisticsRaster : GetTsStatistics: no visible global function
  definition for 'sd'
InterpolateMatrix: no visible global function definition for 'lm'
IsPermanentGap: no visible global function definition for 'frequency'
IsPermanentGap: no visible global function definition for 'ts'
IsPermanentGap: no visible global function definition for 'runmed'
IsPermanentGap: no visible global function definition for 'stl'
IsPermanentGap: no visible global function definition for 'tsp<-'
IsPermanentGap: no visible global function definition for 'cycle'
KGE: no visible global function definition for 'frequency'
KGE: no visible global function definition for 'ts.union'
KGE: no visible global function definition for 'na.omit'
KGE: no visible global function definition for 'sd'
KGE: no visible global function definition for 'cor'
KGERaster: no visible binding for global variable 'sd'
KGETrendUncertainty: no visible global function definition for
  'ts.intersect'
KGETrendUncertainty: no visible global function definition for
  'frequency'
KGETrendUncertainty : : no visible global function
  definition for 'window'
LmSeasonalCycle: no visible global function definition for 'lm'
LmSeasonalCycle: no visible global function definition for 'tsp<-'
LmSeasonalCycle: no visible global function definition for 'tsp'
MannKendallSeg : : no visible global function definition for
  'time'
MannKendallSeg : : no visible global function definition for
  'ts'
MannKendallSeg : : no visible global function definition for
  'frequency'
MannKendallSeg : : no visible global function definition for
  'lm'
MannKendallSeg : : no visible global function definition for
  'coef'
MapBreakpoints: no visible global function definition for 'hasArg'
MapBreakpoints: no visible global function definition for
  'colorRampPalette'
MapBreakpoints: no visible global function definition for 'kmeans'
MapBreakpoints: no visible binding for global variable 'median'
MeanSeasonalCycle: no visible global function definition for 'cycle'
MeanSeasonalCycle: no visible global function definition for 'start'
MeanSeasonalCycle: no visible global function definition for
  'frequency'
NoTrend: no visible global function definition for 'time'
PhenoDeriv: no visible global function definition for 'na.omit'
PhenoDeriv: no visible global function definition for 'median'
PhenoTrs: no visible global function definition for 'na.omit'
PhenoTrs: no visible global function definition for 'median'
Phenology: no visible global function definition for 'frequency'
Phenology: no visible global function definition for 'ts'
PhenologyNCDF : : no visible global function definition for
  'ts'
PhenologyNCDF: no visible global function definition for 'ts'
PhenologyRaster : .funForRaster: no visible global function definition
  for 'ts'
PhenopixMY: no visible global function definition for 'time'
PhenopixMY: no visible global function definition for 'cycle'
PhenopixMY: no visible global function definition for 'frequency'
PhenopixMY: no visible global function definition for 'na.omit'
PhenopixMY : : no visible global function definition for
  'time'
PlotPhenCycle: no visible global function definition for 'abline'
PlotPhenCycle: no visible global function definition for 'segments'
PolygonNA: no visible global function definition for 'median'
PolygonNA: no visible global function definition for 'na.omit'
PolygonNA: no visible global function definition for 'polygon'
SSASeasonalCycle: no visible global function definition for 'start'
SSASeasonalCycle: no visible global function definition for 'frequency'
SSASeasonalCycle: no visible global function definition for 'approx'
SSASeasonalCycle: no visible global function definition for 'time'
Seasonality: no visible global function definition for 'par'
Seasonality: no visible global function definition for 'spec.pgram'
Seasonality: no visible global function definition for 'mtext'
Seasonality: no visible global function definition for 'stl'
Seasonality: no visible global function definition for 'cycle'
Seasonality: no visible global function definition for 'time'
Seasonality: no visible global function definition for 'lm'
Seasonality: no visible global function definition for 'BIC'
Seasonality: no visible global function definition for 'points'
Seasonality: no visible global function definition for 'legend'
SimIAV: no visible global function definition for 'rnorm'
SimIAV: no visible global function definition for 'ts'
SimIAV: no visible global function definition for 'median'
SimRem: no visible global function definition for 'rnorm'
SimRem: no visible global function definition for 'median'
SimRem: no visible global function definition for 'ts'
SimSeas: no visible global function definition for 'ts'
SimTrend: no visible global function definition for 'ts'
SimTs: no visible global function definition for 'ts'
SplitRasterEqually: no visible global function definition for 'na.omit'
TSGFdoublelog: no visible global function definition for 'frequency'
TSGFdoublelog: no visible global function definition for 'ts'
TSGFlinear: no visible global function definition for 'frequency'
TSGFlinear: no visible global function definition for 'ts'
TSGFlinear: no visible global function definition for 'runmed'
TSGFlinear: no visible global function definition for 'window'
TSGFlinear: no visible global function definition for 'approx'
TSGFlinear: no visible global function definition for 'time'
TSGFphenopix: no visible global function definition for 'frequency'
TSGFphenopix: no visible global function definition for 'time'
TSGFphenopix: no visible global function definition for 'window'
TSGFphenopix: no visible global function definition for 'ts'
TSGFspline: no visible global function definition for 'frequency'
TSGFspline: no visible global function definition for 'ts'
TSGFspline: no visible global function definition for 'smooth.spline'
TSGFspline: no visible global function definition for 'time'
TSGFspline: no visible global function definition for 'window'
TSGFssa: no visible global function definition for 'frequency'
TSGFssa: no visible global function definition for 'ts'
TSGFssa: no visible global function definition for 'time'
TSGFssa: no visible global function definition for 'rnorm'
TSGFstm: no visible global function definition for 'frequency'
TSGFstm: no visible global function definition for 'ts'
TSGFstm: no visible global function definition for 'time'
Trend: no visible global function definition for 'frequency'
TrendAAT: no visible global function definition for 'frequency'
TrendAAT: no visible global function definition for 'ts'
TrendAAT: no visible global function definition for 'lm'
TrendAAT: no visible global function definition for 'approx'
TrendAAT: no visible global function definition for 'start'
TrendGradient: no visible global function definition for 'na.omit'
TrendGradient : : no visible global function definition for
  'ts'
TrendPoly: no visible global function definition for 'frequency'
TrendPoly: no visible global function definition for 'ts'
TrendPoly: no visible global function definition for 'lm'
TrendRQ: no visible global function definition for 'approx'
TrendRQ: no visible global function definition for 'ts'
TrendRQ: no visible global function definition for 'start'
TrendRQ: no visible global function definition for 'frequency'
TrendRQ: no visible global function definition for 'coef'
TrendRaster : .funForRaster: no visible global function definition for
  'ts'
TrendRunmed: no visible global function definition for 'frequency'
TrendRunmed: no visible global function definition for 'ts'
TrendRunmed: no visible global function definition for 'runmed'
TrendSSA: no visible global function definition for 'frequency'
TrendSSA: no visible global function definition for 'ts'
TrendSSA: no visible global function definition for 'rnorm'
TrendSTL: no visible global function definition for 'ts'
TrendSTL: no visible global function definition for 'start'
TrendSTL: no visible global function definition for 'end'
TrendSTL: no visible global function definition for 'frequency'
TrendSTL: no visible global function definition for 'rnorm'
TrendSTM: no visible global function definition for 'lm'
TrendSTM: no visible global function definition for 'BIC'
TrendSTM: no visible binding for global variable 'na.pass'
TrendSTM: no visible global function definition for 'ts'
TrendSTM: no visible global function definition for 'start'
TrendSTM: no visible global function definition for 'frequency'
TrendSTM: no visible global function definition for 'approx'
TrendSTM: no visible global function definition for 'time'
TrendSample: no visible global function definition for 'frequency'
TrendSample : : no visible global function definition for
  'frequency'
TrendSample : : no visible global function definition for
  'window'
TrendSample: no visible global function definition for 'wilcox.test'
TrendSeasonalAdjusted: no visible global function definition for 'lm'
TrendSeasonalAdjusted: no visible global function definition for
  'approx'
TrendSeasonalAdjusted: no visible global function definition for 'ts'
TrendSeasonalAdjusted: no visible global function definition for
  'start'
TrendSeasonalAdjusted: no visible global function definition for
  'frequency'
TrendSegmentsRaster: no visible global function definition for 'ts'
TrendSegmentsRaster: no visible global function definition for 'time'
TrendSegmentsRaster : .funForRaster: no visible global function
  definition for 'na.omit'
TrendSpline: no visible global function definition for 'frequency'
TrendSpline: no visible global function definition for 'ts'
TrendSpline: no visible global function definition for 'rnorm'
TrendSpline: no visible global function definition for 'smooth.spline'
TrendUncertainty : : no visible global function definition
  for 'time'
TrendUncertainty : : no visible global function definition
  for 'ts'
TrendUncertainty : : no visible global function definition
  for 'frequency'
TsPP : : no visible global function definition for 'ts'
TsPP : : no visible global function definition for
  'frequency'
WriteNCDF4: no visible global function definition for 'nc_create'
brgr.colors: no visible global function definition for
  'colorRampPalette'
plot.CompareClassification: no visible global function definition for
  'par'
plot.CompareClassification: no visible global function definition for
  'legend'
plot.Phenology: no visible global function definition for 'frequency'
plot.PhenopixMY: no visible global function definition for 'time'
plot.PhenopixMY: no visible global function definition for 'palette'
plot.PhenopixMY: no visible global function definition for 'abline'
plot.Trend: no visible global function definition for 'axis'
plot.Trend: no visible global function definition for 'points'
plot.Trend: no visible global function definition for 'abline'
plot.Trend: no visible global function definition for 'confint'
plot.Trend: no visible global function definition for 'symnum'
plot.TrendGradient: no visible global function definition for 'col2rgb'
plot.TrendGradient: no visible global function definition for 'rgb'
plot.TrendGradient: no visible global function definition for 'abline'
plot.TrendGradient: no visible global function definition for 'polygon'
plot.TrendGradient: no visible global function definition for 'symnum'
plot.TrendGradient: no visible global function definition for 'points'
plot.TrendSample: no visible global function definition for 'par'
plot.TrendSample: no visible global function definition for 'segments'
plot.TrendSample: no visible global function definition for 'abline'
plot.TrendSample: no visible global function definition for 'points'
plot.TrendSample: no visible global function definition for 'box'
plot.TrendSample: no visible global function definition for 'symnum'
plot.TrendSample: no visible global function definition for 'median'
print.Phenology: no visible global function definition for 'sd'
print.Trend: no visible global function definition for 'start'
print.Trend: no visible global function definition for 'end'
Undefined global functions or variables:
  BIC IQR abline addmargins approx axis box coef col2rgb
  colorRampPalette confint cor cycle end frequency hasArg kmeans lag
  legend lm median mtext na.omit na.pass nc_create optim palette par
  points polygon rgb rnorm runmed sd segments smooth.spline spec.pgram
  start stl symnum time ts ts.intersect ts.union tsp tsp<- var
  wilcox.test window
Consider adding
  importFrom("grDevices", "col2rgb", "colorRampPalette", "palette",
             "rgb")
  importFrom("graphics", "abline", "axis", "box", "legend", "mtext",
             "par", "points", "polygon", "segments")
  importFrom("methods", "hasArg")
  importFrom("stats", "BIC", "IQR", "addmargins", "approx", "coef",
             "confint", "cor", "cycle", "end", "frequency", "kmeans",
             "lag", "lm", "median", "na.omit", "na.pass", "optim",
             "rnorm", "runmed", "sd", "smooth.spline", "spec.pgram",
             "start", "stl", "symnum", "time", "ts", "ts.intersect",
             "ts.union", "tsp", "tsp<-", "var", "wilcox.test", "window")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').

Found the following calls to data() loading into the global environment:
File 'greenbrown/R/AnomaliesFiltersLags.R':
  data(ndvi)
File 'greenbrown/R/CompareClassification.R':
  data(ndvimap)
File 'greenbrown/R/Decompose.R':
  data(ndvi)
File 'greenbrown/R/FillPermanentGap.R':
  data(ndvi)
  data(ndvi)
File 'greenbrown/R/FitDoubleLogBeck.R':
  data(ndvi)
File 'greenbrown/R/FitDoubleLogElmore.R':
  data(ndvi)
File 'greenbrown/R/GetTsStatistics.R':
  data(ndvimap)
File 'greenbrown/R/KGE.R':
  data(ndvi)
File 'greenbrown/R/KGETrendUncertainty.R':
  data(ndvi)
File 'greenbrown/R/LmSeasonalCycle.R':
  data(ndvi)
File 'greenbrown/R/MannKendallSeg.R':
  data(ndvi)
File 'greenbrown/R/MapBreakpoints.R':
  data(ndvimap)
File 'greenbrown/R/MeanSeasonalCycle.R':
  data(ndvi)
File 'greenbrown/R/NamesTrendRaster.R':
  data(ndvimap)
File 'greenbrown/R/PhenoDeriv.R':
  data(ndvi)
File 'greenbrown/R/PhenoTrs.R':
  data(ndvi)
File 'greenbrown/R/Phenology.R':
  data(ndvi)
File 'greenbrown/R/PhenologyRaster.R':
  data(ndvimap)
File 'greenbrown/R/PlotPhenCycle.R':
  data(ndvi)
File 'greenbrown/R/TSGFdoublelog.R':
  data(ndvi)
File 'greenbrown/R/TSGFlinear.R':
  data(ndvi)
File 'greenbrown/R/TSGFphenopix.R':
  data(ndvi)
File 'greenbrown/R/TSGFspline.R':
  data(ndvi)
File 'greenbrown/R/TSGFstm.R':
  data(ndvi)
File 'greenbrown/R/Trend.R':
  data(ndvi)
File 'greenbrown/R/TrendAAT.R':
  data(ndvi)
File 'greenbrown/R/TrendClassification.R':
  data(ndvimap)
File 'greenbrown/R/TrendGradient.R':
  data(ndvimap)
File 'greenbrown/R/TrendLongestSEG.R':
  data(ndvimap)
File 'greenbrown/R/TrendPoly.R':
  data(ndvi)
File 'greenbrown/R/TrendRQ.R':
  data(ndvi)
File 'greenbrown/R/TrendRaster.R':
  data(ndvimap)
File 'greenbrown/R/TrendRunmed.R':
  data(ndvi)
File 'greenbrown/R/TrendSTL.R':
  data(ndvi)
File 'greenbrown/R/TrendSTM.R':
  data(ndvi)
File 'greenbrown/R/TrendSample.R':
  data(ndvi)
File 'greenbrown/R/TrendSeasonalAdjusted.R':
  data(ndvi)
File 'greenbrown/R/TrendSegmentsRaster.R':
  data(ndvimap)
File 'greenbrown/R/TrendSpline.R':
  data(ndvi)
File 'greenbrown/R/TrendUncertainty.R':
  data(ndvi)
File 'greenbrown/R/TsPP.R':
  data(ndvi)
File 'greenbrown/R/brgr.colors.R':
  data(ndvimap)
File 'greenbrown/R/phenopixMY.R':
  data(ndvi)
File 'greenbrown/R/plot.CompareClassification.R':
  data(ndvimap)
File 'greenbrown/R/plot.Phenology.R':
  data(ndvi)
  data(ndvi)
File 'greenbrown/R/plot.PhenopixMY.R':
  data(ndvi)
File 'greenbrown/R/plot.Trend.R':
  data(ndvi)
  data(ndvi)
File 'greenbrown/R/plot.TrendGradient.R':
  data(ndvimap)
File 'greenbrown/R/plot.TrendSample.R':
  data(ndvi)
See section 'Good practice' in '?data'.
* checking Rd files ... WARNING
greenbrown-package.Rd: non-ASCII input and no declared encoding
problem found in 'greenbrown-package.Rd'
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... WARNING
Missing link or links in documentation object 'TrendSSA.Rd':
  'ssa'

See section 'Cross-references' in the 'Writing R Extensions' manual.

* checking for missing documentation entries ... WARNING
Undocumented code objects:
  'MannKendallSeg' 'NoUnc'
All user-level objects in a package should have documentation entries.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 4 WARNINGs, 3 NOTEs
See
  'R:/run/building/build_2017-03-06-10-24/RF_PKG_CHECK/PKGS/greenbrown.Rcheck/00check.log'
for details.


Run time: 134.44 seconds.

Additional Logs:   00install.out
Thanks to:
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