NAMESPACE

import(methods, stats4, Matrix, PolynomF, zoo, xts, lagged, sarima) # BB

importFrom(gbutils,shiftright,shiftleft)
importFrom(gbutils,myouter)
importFrom(gbutils,nposargs,isargunnamed,isNA)

importFrom(graphics, boxplot, layout, par, points, lines, axis, mtext)
importFrom(utils, capture.output, str)
importFrom(stats, complete.cases, ARMAacf, Box.test, C, as.formula,
           frequency, start, end, cycle, deltat, time, window, "window<-",
           lm, na.exclude, nls, optim,
           pchisq, pnorm, qnorm, rnorm, runif,
           residuals, fitted, predict, printCoefmat, weighted.residuals,
           ts, as.ts, monthplot)

importFrom(lubridate, minutes, hm, ymd,  is.Date, weeks, days,  period,
           date, "date<-", as_datetime, as_date)

importFrom(BB, BBoptim)

import(sarima)

importFrom(mcompanion, chain_ind, mf_VSform, null_complement, sim_pcfilter)
importFrom(Rdpack, reprompt)

S3method(as.matrix, PeriodicMTS)
S3method(as.Date, PeriodicTimeSeries)
S3method(as.Date, Cyclic)
S3method(as.POSIXct, Cyclic)
S3method(as.POSIXct, PeriodicTimeSeries)

S3method(date, Cyclic)
S3method(date, PeriodicTimeSeries)



S3method(as_Pctime, Cyclic)
## S3method(as_Pctime, PeriodicTimeSeries)

S3method(format, Pctime)
S3method(str, Pctime)
S3method(seq, Pctime)
S3method(as.POSIXct, Pctime)
S3method("[", Pctime)
S3method("[[", Pctime)

S3method(cycle, Pctime)


# S3method(as.matrix, slMatrix)
# S3method(as.matrix, PeriodicAutocovariance)
# S3method(as.matrix, PeriodicAutocorrelation)

#S3method(head, PeriodicTimeSeries)
#S3method(tail, PeriodicTimeSeries)

# S3method("[", "sVector")

S3method(monthplot, PeriodicTimeSeries)
S3method(boxplot, PeriodicTimeSeries)

S3method(as.ts, PeriodicTimeSeries)

S3method(start, Cyclic)
S3method(end,   Cyclic)
S3method(frequency, PeriodicTimeSeries)
S3method(deltat,    PeriodicTimeSeries)
S3method(cycle,     PeriodicTimeSeries)
S3method(time,      PeriodicTimeSeries)
S3method(window, PeriodicTS)
S3method(window, PeriodicMTS)
S3method("window<-", PeriodicTS)
S3method("window<-", PeriodicMTS)

S3method(availStart, default)
S3method(availStart, matrix)
S3method(availEnd, default)
S3method(availEnd, matrix)

## zoo::na.trim
S3method(na.trim, PeriodicTS)
S3method(na.trim, PeriodicMTS)


S3method(residuals, FittedPeriodicArModel)

S3method(residuals, FittedPM)
S3method(fitted, FittedPM)
S3method(predict, FittedPM)

S3method(predict, SubsetPM)


exportMethods(
    plot,
    head,
    tail,
    "[",        # are these necessary for primitive functions?
    "[<-",      # the methods (at least for "[<-") seem to work without this
        # show,   # 2019-06-10 for pkgdown, error in PeriodicBJFilter and PeriodicSPFilter
                  #     didn't resolve the problem, so commenting out.
                  #     Explicit show() is ok.
                  #     TODO: could this be related to unexported show() methods from 'sarima'?
    filterCoef,
    filterOrder,
    ## nSeasons,
    autocorrelations,
    autocovariances,
    sigmaSq,

    as_date,
    as_datetime,

    coef,
    residuals,
    fitted,
    vcov
)

# exportClassPattern("^[^\\.]")

exportClasses(
  BareCycle,
  BasicCycle,
  BuiltinCycle,
  Cyclic,
  DayWeekCycle,
  PartialCycle,
  Every30MinutesCycle,
  FittedPeriodicArModel,
  FittedPeriodicArmaModel,
  FiveDayWeekCycle, # deprecated
  LegacyPeriodicFilterModel,
  mcOptimCore,
  ModelCycleSpec,
  MonthYearCycle,
  OpenCloseCycle,
  PartialPeriodicAutocorrelations,
  PeriodicArFilter,
  PeriodicArmaFilter,
  PeriodicArmaModel,
  PeriodicArmaSpec,
  PeriodicArModel,
  PeriodicAutocorrelations,
  PeriodicAutocovariances,
  PeriodicBJFilter,
  PeriodicFilterModel,
  PeriodicIntegratedArmaSpec,
  PeriodicInterceptSpec,
  PeriodicMaFilter,
  PeriodicMaModel,
  PeriodicMonicFilterSpec,
  PeriodicMTS,
  PeriodicMTS_ts,
  PeriodicMTS_zooreg,
  PeriodicSPFilter,
  PeriodicTimeSeries,
  PeriodicTS,
  PeriodicTS_ts,
  PeriodicTS_zooreg,
  PeriodicVector,
  PiPeriodicArmaModel,
  PiPeriodicArModel,
  PiPeriodicMaModel,
  QuarterYearCycle,
  SamplePeriodicAutocorrelations,
  SamplePeriodicAutocovariances,
  SimpleCycle,
  SiPeriodicArmaModel,
  SiPeriodicArModel,
  SiPeriodicMaModel,
  SLTypeMatrix,
  VirtualPeriodicArmaModel,
  VirtualPeriodicArModel,
  VirtualPeriodicAutocorrelations,
  VirtualPeriodicAutocovarianceModel,
  VirtualPeriodicAutocovariances,
  VirtualPeriodicFilterModel,
  VirtualPeriodicMaModel,
  VirtualPeriodicMeanModel,
  VirtualPeriodicModel,
  VirtualPeriodicMonicFilter,
  VirtualPeriodicStationaryModel,
  VirtualPeriodicWhiteNoiseModel,
  zoo,
  zooreg,

  SubsetPM
)


# exportPattern("^[[:alpha:]]+")
export(
    # [.sVector
      alg1
    , alg1util
    # , as.matrix.pcAcvf       # S3 methods, declared above; no need to export
    # , as.matrix.slMatrix    #     todo: document somehow?
    # , fill.slMatrix
    , fitPM # fitPerModel
    , mC.ss
  , sim_parCoef


    , num2pcpar
    , parcovmatlist
    # , parModel
    # , pc.acf
    , pc.acf.parModel
    , pcarma_acvf2model
    # , pc.acrf
    # , pc.acrftoacf
    # , pc.acsum
    # , pc.argmin
    ####, pc.arith.ceiling
    ####, pc.arith.floor

    , pcarma_acvf_system
    # , pc.arma.algBosh0
    # , pc.arma.algBoshTh2
    # , pc.arma.getpq
    , pcarma_param_system
    # , pc.arma.setpq
    ####, pc.arma.sim
    # 09/02/2014 , pc.armafilter
    # , pc.armaPQ
    # , pc.armapq.aic
    # , pc.armapq.bic
    # , pc.armaPQ.index
    # , pc.armaPQ.index.replace

    # , pc.bcoeffs
    # , pc.bU
    # , pc.bvars
    # , pc.ccf
    # , pc.cconesidedsum
    # , pc.ccsum

    # , pc.est.arma
    # , pc.est.arma.0

    # , pc.f.index.replace
    # , pc.fcoeffs
    , pc.filter
    # 09/02/2014 , pc.filter.arma
    , pc.filter.xarma
    # , pc.fit.arma.Bosh0
    # , pc.fit.arma.BoshTh2
    # , pc.fL
    # , pc.fvars
    , pc.hat.h
    # , pc.internal.checksigma2
    # , pc.internal.checkv2
    , pcarma_acvf_lazy
    , pcarma_h_lazy
    , maxLag # pc.maxlag
    , pcarma_prepare
    , pcarma_tovec
    , pcarma_unvec
    , pcarma_h
    ## , pc.omitneg
    # , pc.pacf
    # , pc.pacrf
    # , pc.par.argmin
    # , pc.phis2
    # , pc.pqapply
    # , pc.printarmapqelem
    , sim_pwn # 2016-03-29 was: pc.rand
    # 09/02/2014 , pc.read.franses96
    , pc.sdfactor # deprecated
    , pc_sdfactor
    , sim_pc # 2016-03-29 was: pc.sim
    , pwn_McLeodLjungBox_test # pc.test.LjungBox
    , periodic_acf1_test #pc.test.periodicity
    # , pc.var
    # , pc.vf.index   # 2014-06-22
    , pcacf_pwn_var  # pc.wn.var.acrf
    #, pcAcvf
    , pcacfMat
    , pcAr.ss
    , pcAR2acf

    , pcts
    # , perFilterModel
  , permean2intercept
  , intercept2permean

    # , perModel
    , permodelmf
  , pdSafeParOrder
    , sim_parAcvf
    ####, rsum
    # , siParModel
    , slMatrix # now in 'lagged' but export it anyway !!
    ####, sumafr
    , PeriodicVector # sVector
    , toSeason
    , toSeasonPair
    , ttmatToslPairs
    , ttTosl
    # , which.minaic
    , xx.ss

    , pcTest

    # , pcDst
    # , pcDummy
    # , pcX
    , pclsdf
    , pclspiar
    , pi1ar2par
    # , piParModel

  , test_piar

  , nVariables
  , nTicks
  #, nSeasons
  , nCycles

  , pcCycle
  , BuiltinCycle
  , unitSeason
  , "unitSeason<-"
  , unitCycle
  , "unitCycle<-"
  , allSeasons
  , "allSeasons<-"
  , seqSeasons

      , Vec
      , tsMatrix
      , tsVector
      , tsVec
      , pcArray
      , pctsArray
      , pcMatrix

  ## , pcBoxplot
  ## , pcPlot

  # , autocovariances   # don't reexport while 'sarima' is in 'Depends'
  # , autocorrelations

  #, PeriodicFilterModel

  #, acfbase2sl  # now in lagged; for export see \docType{import} and
  #, sl2vecacf   #    https://github.com/klutometis/roxygen/issues/408
  #, sl2acfbase  # for a way to avoid documenting if re-exported.
                 # (and maybe use lagged::sl2acfbase for re-export)
                 # However, expoting these seems an overkill (but TODO: think about it).

  #, innovationVariances

  , PeriodicArModel

  , availStart
  , availEnd

  , modelCycle
  , "modelCycle<-"
  , meancovmat
  , meanvarcheck

  , Cyclic
    ## these don't get registered without exporting                   
    ## something related to base:as.Date being masked by zoo::as.Date?
    ##    I am importing zoo and zoo::as.Date, hence calls from inside the package use that.
    ##    However, if I don't reexport zoo::as.Date, then calls outside the package will be to    ##    base::as.Date.
    ## So, reexport zoo::as.Date().    
    ## TODO: selectively import from zoo?
  , as.Date
  , as.Date.Cyclic            
  , as.Date.PeriodicTimeSeries
    
  , as_Pctime
  , date     # lubridate::date
  , "date<-" # lubridate::`date<-`
  , date.Cyclic
  , Pctime
  , "[.Pctime"
  , "[[.Pctime"


  ## reexports from sarima
 ,  nSeasons
 ,  
    filterCoef,
    filterOrder,
    filterPoly,
    filterPolyCoef,


    autocovariances,
    autocorrelations,
    partialAutocovariances,
    partialAutocorrelations,
    partialVariances,
    backwardPartialVariances,
    partialCoefficients,
    backwardPartialCoefficients,

    sigmaSq,
    modelCenter,
    modelIntercept,
    nUnitRoots,
    isStationaryModel,

    modelOrder,
    modelPoly,
    modelPolyCoef,

    modelCoef

, fit_trigPAR_optim
, pcts_exdata
, na.trim # from zoo
, pcMean
, pcApply  
)