## import(boot, RColorBrewer)
importFrom("graphics", "abline", "arrows", "axis", "barplot", "box", "bxp", "hist", "layout", "legend", "lines", "mtext", "par", "plot", "plot.new", "points", "polygon", "rect", "segments", "strwidth", "text", "title")
importFrom("grDevices", "col2rgb", "colorRamp", "dev.off", "rgb")
importFrom("stats", "as.dist", "chisq.test", "coef", "cor", "complete.cases", "density", "dnorm", "dunif", "fitted", "formula", "lm", "loglin", "median", "model.frame", "model.matrix", "na.omit", "na.pass", "pchisq", "pnorm", "qnorm", "quantile", "reshape", "runif", "terms", "var", "weighted.mean", "xtabs",
 "cmdscale", "cutree", "fivenum", "hclust", "pf")
importFrom("utils", "combn", "download.file", "read.table", "read.csv", "packageDescription")
importFrom("cluster", "daisy")
importFrom("colorspace", "qualitative_hcl")
##importFrom("weights", "wtd.cor")
importFrom("RColorBrewer", "brewer.pal")
importFrom("boot", "boot")
importFrom("vegan","wcmdscale")
##importFrom("WeightedCluster","wcClusterQuality")

export(
  alphabet,
  "alphabet<-",
  cpal,
  "cpal<-",
  is.stslist,
  read.tda.mdist,
  recodef,
  seqalign,
  seqcomp,
  seqconc,
  seqcost,
  seqdecomp,
  seqdef,
  seqdiff,
  seqdim,
  seqdist,
  seqdistmc, ##obsolete
  seqdomassoc,
  seqdplot,
  seqdHplot,
  seqdss,
  seqdur,
  seqfcheck,
  seqfind,
  seqformat,
  seqfplot,
  seqfpos,
  seqfposend,
  seqgen,
  seqhasmiss,
  seqHtplot,
  seqibad,
  seqici,
  seqidegrad,
  seqient,
  seqindic,
  seqintegr,
  seqintegration,
   seqinsecurity,
  seqiplot,
  seqIplot,
  seqipos,
  seqistatd,
  seqivardur,
  seqivolatility,
  seqlegend,
  seqlength,
  seqlength.align,
  seqLLCP,
  seqLLCS,
  seqlogp,
  seqmaintokens,
  seqMD,
  seqmeant,
  seqmodst,
  seqmpos,
  seqmsplot,
  seqmtplot,
  seqnum,
  seqpcfilter,
  seqpcplot,
  seqplot,
  seqplotMD,
  seqpm,
    seqprecarity,
    seqprecorr,
    seqprecstart,
  seqrecode,
  seqrep,
  seqrf,
  seqrfplot,
  seqrplot,
  seqsep,
  seqstatd,
  seqstatf,
  seqstatl,
  seqST,
  seqsubm,
  seqsubsn,
  seqtab,
  seqtransn,
  seqtrate,
  stlab,
  "stlab<-",
  TraMineR.check.depr.args,
  TraMineRInternalLayout,
  TraMineRInternalLegend,
  TraMineRInternalNodeInit,
  TraMineRInternalSeqeage,
  TraMineRInternalSeqgbar,
  TraMineRInternalSplitInit,
  TraMineRInternalWeightedInertiaDist
  )

## stslist methods
S3method(summary, stslist)
S3method(print, stslist)
S3method("[", stslist)
S3method(plot, stslist)
S3method(rbind, stslist)

## seqalign methods
S3method(plot, seqalign)
S3method(print, seqalign)

## seqpcplot methods
S3method(plot, seqpcplot)
S3method(summary , seqpcplot)

## seqrf methods
S3method(plot, seqrf)
S3method(print, seqrf)
S3method(summary, seqrf)

## stslist.stad methods
S3method(plot, stslist.statd)
S3method(print, stslist.statd)
S3method("[", stslist.statd)

## stslist.freq methods
S3method(plot, stslist.freq)
S3method(print, stslist.freq)
S3method("[", stslist.freq)

## stslist.meant methods
S3method(plot, stslist.meant)
S3method(print, stslist.meant)

## stslist.rep methods
S3method(plot, stslist.rep)
S3method(print, stslist.rep)
S3method(summary, stslist.rep)

## stslist.modst methods
S3method(plot, stslist.modst)
S3method(print, stslist.modst)
S3method("[", stslist.modst)

## TraMineRPermut methods
S3method(print ,TraMineRPermut)
S3method(summary ,TraMineRPermut)
S3method(hist ,TraMineRPermut)

## seqprecarity methods
S3method(print , seqidegrad)
S3method(print , seqprec)

## seqipos methods
S3method(print , seqipos)

## seqivardur methods
S3method(print , seqivardur)

## sdomassoc methods
S3method(print , sdomassoc)

## diss module
export(
    dissassoc,
    disscenter,
    dissdomassoc,
    dissmergegroups,
    dissrep,
    dissrf,
    dissmfacw,
    disstreedisplay,
    disstree2dot,
    disstree2dotp,
    disstreeleaf,
    disstree.get.rules,
    disstree.assign,
    disstree,
    dissvar,
    gower_matrix,
    seqtree2dot,
    seqtree,
    seqtreedisplay
)
S3method(hist,dissassoc)
S3method(print,dissassoc)
S3method(print,dissmultifactor)
S3method(print,disstree)
S3method(print,seqtree)
S3method(print,seqdiff)
S3method(plot,seqdiff)
S3method(print,diss.rep)
S3method(print,dissrf)
S3method(summary,dissrf)
S3method(summary,diss.rep)
S3method(summary,ddomassoc)



## Event subsequence module
S3method(plot,subseqelistchisq)
S3method(plot,subseqelist)
S3method("[",seqelist)
S3method(Math,seqelist)
S3method(Ops,seqelist)
S3method(plot,seqelist)
S3method(Summary,seqelist)
S3method(Math,eseq)
S3method(Ops,eseq)
S3method(plot,eseq)
S3method(Summary,eseq)
S3method(levels,eseq)
S3method(levels,seqelist)
S3method(str,seqelist)
S3method(str,eseq)
S3method(as.character,eseq)
S3method(as.character,seqelist)
S3method(print,eseq)
S3method(print,seqelist)
S3method(print,seqeconstraint)
S3method(print,subseqelist)
S3method("[",subseqelist)
S3method(plot,subseqelist)

export(
    seqeapplysub,
    seqecmpgroup,
    seqeconstraint,
    seqecontain,
    seqecreate,
    seqefsub,
    seqeid,
    seqelength,
    "seqelength<-",
    seqeweight,
    "seqeweight<-",
    is.eseq,
    is.seqelist,
    seqetm
)

useDynLib(TraMineR, .registration = TRUE, .fixes = "C_")
