[Robast-commits] r940 - pkg/RobAStBase/inst
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Tue May 29 21:18:00 CEST 2018
Author: stamats
Date: 2018-05-29 21:18:00 +0200 (Tue, 29 May 2018)
New Revision: 940
Modified:
pkg/RobAStBase/inst/NEWS
Log:
update of NEWS file
Modified: pkg/RobAStBase/inst/NEWS
===================================================================
--- pkg/RobAStBase/inst/NEWS 2018-05-29 19:07:51 UTC (rev 939)
+++ pkg/RobAStBase/inst/NEWS 2018-05-29 19:18:00 UTC (rev 940)
@@ -1,433 +1,438 @@
-###############################################################################
-## News: to package RobAStBase
-###############################################################################
-
-(first two numbers of package versions do not necessarily reflect
- package-individual development, but rather are chosen for the
- RobAStXXX family as a whole in order to ease updating "depends"
- information)
-
-#######################################
-version 1.0.1
-#######################################
-user-visible CHANGES:
-+ moved getFiRisk from ROptEst to RobAstBase
-
-#######################################
-version 1.0
-#######################################
-
-user-visible CHANGES:
-+ comparePlot, infoPlot, and the plot-Method for ICs gain an argument
- with.automatic.grid; if TRUE a corresponding grid oriented at tickmarks
- is produced; this also works for rescaled axes
-+ comparePlot, infoPlot, and the plot-Method for ICs gain optional
- pattern substitution (like plot) which can be switched off by
- argument withSubst
-+ arguments panel.first, panel.last for plot-methods can now be lists
-+ infoPlot and comparePlot gain an argument cex.pts.fun to enable individual
- scaling of the point sizes to be plotted onto each of the plotted curves
-+ .ddPlot.MatNtNtCoCo, and also ddPlot, outlyingnessPlot gain an
- additional argument 'doplot' defaulting to TRUE; if FALSE, no plot
- is produced and only the return value is calculated.
-+ arguments scaleY.fct and scaleY.inv in the plot-method for ICs,
- and in comparePlot und infoPlot now also may be lists of functions,
- one for each of the panels to be plot; hence scaling of the y-axis
- can now be done individually for each panel.
-+ introduce jitter for points in ddPlot for DiscreteDistributions
-+ comparePlot, infoPlot, and the plot-Method for ICs gain an argument x.vec;
- if given it is the x-grid on which to evaluate the ICs; by default this
- argument is NULL; then (as before) the grid is selected automatically
- according to the distribution of the IC. This can be useful for usage with a
- rescaling of the x-Axis to avoid that the evaluation points be selected too
- unevenly (i.e. on an equally spaced grid in the original scale, but then, after
- rescaling non-equally... The grid has to be specified in original scale; i.e.;
- when used with rescaling, should be chosen non-equally spaced...
-+ wrapper functions ICPlot, InfoPlot, and ComparePlot use refined grids, i.e.,
- the grids are plotted on user given coordinates (or rescaled coordinates)
-+ comparePlot, infoPlot, and the plot-Method for ICs now if scaleX is TRUE by
- default use an equidistant grid on the rescaled x-Axis.
-+ qqplot-method for c("ANY","InfRobModel") gains argument
- 'cex.pts.fun' to better control the scaling of points-sizes
-+ new helper function cutoff.quant() to produce cutoff from model quantiles
-
-GENERAL ENHANCEMENTS:
-
-under the hood:
-+ introduced automatic scaling of points in comparePlot.R and infoPlot.R
-+ .cexscale is now documented
-+ the argument of .fillList is now automatically cast to list (if necessary).
-+ interpolRisks gain biastype and normtype methods, as well as getRiskFctBV
- => now cniperPointPlot should work for GPD-type data
-+ added reference for copied routine stats:::format.perc
-+ in the axis annotation (after rescaling) there are checks now
- whether values +-infinity are taken at all. (This was a bug
- before for distributions passed on as cdf and quantile function
- with finite left or right endpoint.)
-+ output in kStepEstimator() and oneStepEstimator() is filtered
- by .checkEstClassForParamFamily(); this allows to return an
- object of S4 class specific to the resp. parametric family (by means of
- S4 method dispatch); this is used in pkg 'RobExtremes' to produce, e.g.,
- objects of class "GEVkStepEstimate", i.e. which inherit from both
- "kStepEstimate", so that a diag-method for "GEVEstimate" becomes
- available for this class.
-+ enhanced imports in DESCRIPTION by explicating second order imports
-
-
-BUGFIXES:
-+ two bugs in plotWrapper.R in pkgs RobAStBase and ROptEst detected by Misha
-+ bug in kStepEstimator: after evaluation of starting estimator, IC must be
- shifted to correct parameter value -> new arguments withPreModif, withPostModif
-+ in comparePlot it should be resc.Dargs instead of rescD.args
-+ fixed errors detected by Matthias / Misha, Bernhard in comparePlot.R, cutoff-class.R,
- ddPlot_utils.R, infoPlot.R, outlyingPlot.R
-+ comparePlot now plots the whole range
-+ ddPlots / outlyingPlot.R now have alpha transparency and jitter and cex.pts
-+ infoPlot plots the correct y-axis (no overplotting)
-+ minor fixes in InfoPlotWrapper.Rd, outlyingPlotIC.Rd
-+ fixed NA-buglet in plotWrapper.R (detected by Dasha Pupashenko)
-+ fixed a little bug with the use of .cexscale (with list of functions)
-+ bugfix in outlyingnessPlot: for robCov.y ==TRUE (default) the
- inverse covariance matrix was used for standardization instead
- of the original one
-
-
-#######################################
-version 0.9
-#######################################
-
-user-visible CHANGES:
-+ new wrapper function InfoPlot, ComparePlot, PlotIC
-
-
-GENERAL ENHANCEMENTS:
-
-+ RobASt-Pkgs: DESCRIPTION depends become stricter (requiring distrMod, distrEx, distr >=2.4 to be on the safe side)
-+ deleted chm folders --- they are no longer needed
-+ added argument no.readonly = TRUE in all assignments of type opar <- par();
-+ commented out all assignments of type omar$cin <- NULL
-+ removed calls to require from R sources and replaced it by directives in the NAMESPACE file
-+ all packages get a DESCRIPTION tag "ByteCompile"
-
-under the hood:
-
-+ wrapper functions use default rescaling controlled by S4-method rescaleFct
- dispatching on the respective model
-
-+ added .Rbuildignore
-
-+ cleaned DESCRIPTION and NAMESPACE file as to Imports/Depends
-
-+ created new interpolRisk-class to be able to use speed up in (new version) of roptest
-+ interpolRisks extended by slot samplesize
-
-+ implemented scale estimation on log-scale for kStepEstimator
-+ in kStepEstimator asyvar of starting estimator is no longer computed
- (unless done so anyway in the call to the starting estimator)/ as not needed
-+ in kStepEstimator one can now delay evaluations of covariance matrices,
- depending on new argument withEvalAsVar
-+ a small change in kStepEstimator -- now uses the (possibly nonlinear)
- trafo instead of the Jacobian to get the pIC-estimator from the untransformed estimator
-+ in kStepEstimator we force an argument list (to avoid an "argument missing" error)
-
-+ checkIC now also reports relative errors (has possibly already been there
- but not merged?)
-
-+ new S4methods/functions moveL2Fam2RefParam and moveICBackFromRefParam to only
- solve optimization problems for ICs at reference parameters (if these are
- available) and the to backtransform the IC to the original parameter
- (is not yet in place in optIC; still testing necessary).
-
-+ the accessor to slot Risks now checks if all items of the list are already
- evaluated or if some calls still have to be forced; to this end it uses
- new auxiliary .evalListRec
-
-+ minor Enhancements of ddPlot, changes in outlyingPlot
-+ modularized diagnostic plots; still checking + debugging necessary
-
-+ documented helper functions
-
-+ thx to hint by Matthias (NAMESPACE), and some (more specific) Rd-links to
- gettextf, now no more notes or warnings in R-2.16.0dev
-
-+ .rescalefct looses argument scaleY.inv (not needed).
-
-+ use of unit tests
-
-BUGFIXES:
-
-+ Bug in infoPlot(), detected by Nataliya Horbenko, tentatively fixed
-+ use of colnames instead of sampleNames to avoid the error on CRAN ...
-+ fixed some 1-dim vs >1-dim issues in kStepEstimator.R
-+ ...and yet some correction as to variances
-+ Removed "..." in definition of generic for "samplesize<-", this had led to a warning in R CMD check.
-+ .evalListRec was not prepared for length 0
-+ some substitute functions have not been passed as arguments...
-
-
-
-#######################################
-version 0.8
-#######################################
-
-USER-VISIBLE CHANGES
-+ new helper methods makeIC to apply to functions or list of functions
- for easily producing (suboptimal) ICs
-+ included risk computation for sin,cos-IC in makeIC-methods.Rd
-
-+ qqplot for RobModel now produces outlier adjusted CIs
-
-+ ddPlot: additional annotation parameters
- (all with reasonable defaults)
-
- -text.abline: controls whether cutoff lines get labeled
- -text.abline.x,
- -text.abline.y: text to be added as labels,
- defaults to something like "95%-cutoff = 4.32"
- 4.32 the cutoff value)
-
- -cex.abline,
- -col.abline,
- -font.abline,
- -adj.abline: respective parameters for labels
-
- -text.abline.x.x,
- -text.abline.x.y,
- -text.abline.y.x,
- -text.abline.y.y: coordinates of labels,
-
- -text.abline.x.fmt.cx,
- -text.abline.x.fmt.qx,
- -text.abline.y.fmt.cy,
- -text.abline.y.fmt.qy: format strings for cutoff quantiles
- and values in labels
-
- -arguments cex.idn and col.idn now if missing first check against arguments
- cex and col respectively before using defaults par("cex") and par("col") respectively
-
-+ for restoring old par() values, not all attributes may be set;
- hence deleted them from stored value in plot functions by something like
- opar$cin <- opar$cra <- opar$csi <- opar$cxy <- opar$din <- NULL
-
-+ infoPlot gains arguments ylab.rel and ylab.abs to set the label
- for y axis (as requested by N. Horbenko)
-
-+ DESCRIPTION files and package-help files gain a tag SVNRevision
- to be filled by get[All]RevNr.R from utils in distr
-
-BUGFIXES
-
-+ you could not place single plots where you wanted...
-+ Nataliya found yet another bug in infoPlot.R
-
-#######################################
-version 0.7
-#######################################
-
-user-visible CHANGES:
-
-+ enhanced plotting:
- * new diagnostic function qqplot to check the quality of a model fit
- + special methods for second argument of class
- "RobModel", "InfRobModel", and "kStepEstimate"
- + comes with corresponding (pointwise/simultaneous) confidence intervals
- + for "RobModel", "InfRobModel": sizing of points and labels according to
- Mahalanobis size of points / any other distance function
- + for "kStepEstimate": fading / sizing of points and labels according to
- weight of corresponding [p]IC
- * suggestions by A. Unwin, Augsburg;
- plot for ICs, infoPlot, and comparePlot may be restricted to selected subplots;
- * ylim can now be matrix-valued...
- * infoPlot and comparePlot now have a placeable legend location - argument
- * plot functions gain data argument:
- it is "y" for plot(IC, numeric) and for comparePlot,
- for infoPlot it is argument "data"
- * plot functions gain arguments
- - which.lbs : select some data indices for plotting,
- - which.Order : select some order statistics from the remaining data
- for plotting (ordered; w.r.t. norm of IC) (in descending order)
- - return.Order : shall ordering be printed out?
-+ documentation
- * added some UML class diagrams
-+ checking functions
- * checkIC gains ... argument to pass on accuracy arguments to E()
-+ estimators
- * unified treatmend of NAs:
- - class Estimate gains slot completecases to control for NA in the input
- - slot samplesize only counts remaining cases
- - samplesize accessor has argument onlycompletecases and hence can issue both remaining
- and original samplesize
- - locMEstimator gains arg na.rm
- * class kStepEstimator gains slots
- - start: argument start of kStepEstimator
- - startval:matrix of transformed starting values
- - ustarval:matrix of untransformed starting values
- - ksteps: matrix of (intermediate) transformed estimates
- - uksteps: matrix of (intermediate) untransformed estimates
- - ICList: optional: the (intermediate) (total) ICs
- - pICList: optional: the (intermediate) [p]ICs
- and corresponding accessors
- * oneStepEstimator and kStepEstimator gain an argument startArgList
-
-+ ICs
- * we now can digest case p=1, k>1 for asymmetric biastypes as well as for total variation
-
-+ new getRobAStBaseOption-s
- * "all.verbose" : globally set verbose to TRUE
- * "withUpdateInKer" --- what to do in kStep on ker(D)
- * "IC.UpdateInKer" --- IC to use in kStep on ker(D)
-
-+ utilities:
- * robModel gains trafo and trafo<- methods to access/modify
- slot trafo
- * RobAStBaseMASK for masked methods
- * replacement function radius for Neighborhood
-
-
-GENERAL ENHANCEMENTS:
-
-+ added tests/Examples folder with file RobAStBase-Ex.Rout.save to have
- some automatic testing
-+ added TOBEDONE (sic!) files; in English (for possible collaborators)
-+ added keyword robust and made some minor corrections ...
-+ added/updated NEWS files, updated CITATION files using code by A. Zeileis
-
-+ Rd-parsing:
- * patch for Brian Ripley's
- Re: [Rd] Warning: missing text for item ... in \describe?
- * fixed errors / warnings in .Rd files detected by parser 2
- (c.f. [Rd] More intensive checking of R help files, Prof Brian Ripley, 09.01.2009 10:25)
-
-+ svn-revision-tags
- * added in all DESCRIPTION files
- * added field "Encoding: latin1" to all DESCRIPTION files because
- substituting $LastChangedDate by svn would cause problems for
- packages built under Windows (German) local when checking under Linux.
-
-+ removed pdf-file from version control - Rnw-file is sufficient
-
-
-INTERNALLY:
-+ estimators
- * implementation of oneStepEstimator simplified, no longer dispatching on argument "start".
-+ plotting
- * also named parameters are used in axis annotation if available.
- * plot-methods now accept to.draw.arg no matter whether mfColRow==TRUE or FALSE
-
-+ for consistency mat item in trafo slot is now always matrix(1)
-
-+ changes for treatment of kStepEstimator with nuisance parameters...
-
-+ oneStepEstimator and kStepEstimator implemented anew
- * oneStepEstimator and kStepEstimator no longer are generic.
- * kStepEstimator
- - now only uses one function
- - works with non-trivial trafo
- - has new arguments
- withUpdateInKer : shall we update IC in ker(D)?
- IC.UpdateInKer : which is the default IC to be taken for ker(D) -- default = NULL
- in which case we use getBoundedIC
- na.rm : unified treatment of missings
- * new generic function kStepEstimatorStart to produce starting values for one/kstep
- works with
- - numeric
- - estimate
- - function (to be evaluated at data x)
- * kStepEstimatorStart-method for function now has arguments
- (start, x, nrvalues, na.rm, L2Fam, startList)
- * oneStepEstimator now basically calls kStepEstimator except for the case
- when IC is not of class "IC", in which similar code is adapted by hand
-
-+ kStepEstimator
-
- - we do update only on demand, i.e. when with.u.var is TRUE
- (which is true only in the last iteration step)
- if (! var.to.be.c), ie. if asvar information is missing in
- the optimized IC, we calculate it as
- var0 <- matrix(E(L2Fam, IC.c %*% t(IC.c)),p,p)
-
- - deletion of dim attribute (which enters after rowMean(....)
- - naming of coordinates of [untransformed.]estimate and
- [untransformed.]asvar is done consistently to slot param
- - in case no variance is computed in optIC asvar is determined
- by E() in pxp dimension (= !var.to.be.c)
-
- computations in k-Space are more problematic than thought
- if matrix D has not got full rank or nuisance parameters are present:
-
- * k-dimensional untransformed.estimate
- this was clear; no problems as to this;
- works for both options withUpdateInKer TRUE or FALSE
-
- * k-dimensional IC
-
- D^- %*% pIC is not an IC in case ker D is not trivial.
-
- two options:
- -> withUpdateInKer FALSE: be content
- with a solution in Psi^(D^-D) ...
- IC.tot = IC.tot1 = D^- %*% pIC
- -> withUpdateInKer TRUE: complete IC.tot1
- by addition of IC.tot2 = projker %*% IC2
- for projker = I - D^-D and IC2 is either
- a given IC IC.UpdateInKer or a default bounded IC gotten by getBoundedIC.
-
- * kxk dimensinoal var
- this is most problematic in case ker D is non-trivial:
- - if argument start is of class ALEstimate and has a non-NULL pIC-slot
- IC0, this one is taken for computation of untransformed.asvar, i.e.
- IC.tot.0 = projker %*% IC0 + D^- %*% pIC
- and untransformed.asvar = E(IC.tot.0 %*% IC.tot.0' )
- otherwise NULL is returned in this case
-
-
- - if argument start is of class Estimate and has a non-NULL asvar-slot
- the one is taken later
-
- - variances u.var and var0 are calculated in internal function
-
-+ new function getBoundedIC to produce (arbitrarily; in fact rather large b) bounded IC as EuclRandVariable
- used in kStepEstimator to give default IC to be projected on ker D.
-
-+ .onAttach now uses startupmessages
-+ StartClass now also contains "matrix"
-+ argument "start" in kStepEstimator and oneStepEstimator is NULL by default
- (and then replaced by L2Fam at startPar)
-+ clip and start obtain signatures acc. to graphics/stats methods
-+ introduce particular show methods for [Optional]pICList
-+ new file kStepEstimate.R (forgot to upload so far)
-+ S4 methods for masked functions in masked.R
-+ new generic radius<- for Neighborhood
-
-BUGFIXES:
-
-+ in plotting functions:
- * fixed xlim and ylim args for plots;
- * fixed some bugs with lty[I], lwd[I], col[I] in comparePlot and infoPlot
- * legend.location was missing in usage-section
- * bug(?) in plot corrected now works for trafo ...
- similar bug in plot method for L2ParamFamily?!
- * minor correction of plot title
- * infoPlot.R minor bugs corrected - seems to work now, but code has some fragile points ...
- * removed some little bug in comparePlot.R
-+ Rd docu:
- * minor documentation error in infoPlot.Rd
-+ small bug in checkIC corrected
-+ the "dim" attribute issue:
- * new kstepEstimator returned [untransformed.]estimates with dim - attribute ...
- this caused e.g. problems in RobLox, in rlsOptIC.AL.Rd, changed this;
- * yet another small change ... to eliminate non-wanted dim-attribute
-+ minor typo in kStepEstimator
-
-
-
-#######################################
-version 0.1.3
-#######################################
-+ new plotting features similar to package distr
-+ new plotting functionality: ddPlot and outlyingPlot
-+ introduced option("newDevice") to control new opening of graphic devices
-+ use of on.exit() to restore old settings for options() and par() at the end
- of functions
-+ introduction of NEWS-file
-+ update of CITATION-file (based on code provided by A. Zeileis on R help)
+###############################################################################
+## News: to package RobAStBase
+###############################################################################
+
+(first two numbers of package versions do not necessarily reflect
+ package-individual development, but rather are chosen for the
+ RobAStXXX family as a whole in order to ease updating "depends"
+ information)
+
+#######################################
+version 1.0.2
+#######################################
++ corrected to if-conditions with length > 1
+
+#######################################
+version 1.0.1
+#######################################
+user-visible CHANGES:
++ moved getFiRisk from ROptEst to RobAstBase
+
+#######################################
+version 1.0
+#######################################
+
+user-visible CHANGES:
++ comparePlot, infoPlot, and the plot-Method for ICs gain an argument
+ with.automatic.grid; if TRUE a corresponding grid oriented at tickmarks
+ is produced; this also works for rescaled axes
++ comparePlot, infoPlot, and the plot-Method for ICs gain optional
+ pattern substitution (like plot) which can be switched off by
+ argument withSubst
++ arguments panel.first, panel.last for plot-methods can now be lists
++ infoPlot and comparePlot gain an argument cex.pts.fun to enable individual
+ scaling of the point sizes to be plotted onto each of the plotted curves
++ .ddPlot.MatNtNtCoCo, and also ddPlot, outlyingnessPlot gain an
+ additional argument 'doplot' defaulting to TRUE; if FALSE, no plot
+ is produced and only the return value is calculated.
++ arguments scaleY.fct and scaleY.inv in the plot-method for ICs,
+ and in comparePlot und infoPlot now also may be lists of functions,
+ one for each of the panels to be plot; hence scaling of the y-axis
+ can now be done individually for each panel.
++ introduce jitter for points in ddPlot for DiscreteDistributions
++ comparePlot, infoPlot, and the plot-Method for ICs gain an argument x.vec;
+ if given it is the x-grid on which to evaluate the ICs; by default this
+ argument is NULL; then (as before) the grid is selected automatically
+ according to the distribution of the IC. This can be useful for usage with a
+ rescaling of the x-Axis to avoid that the evaluation points be selected too
+ unevenly (i.e. on an equally spaced grid in the original scale, but then, after
+ rescaling non-equally... The grid has to be specified in original scale; i.e.;
+ when used with rescaling, should be chosen non-equally spaced...
++ wrapper functions ICPlot, InfoPlot, and ComparePlot use refined grids, i.e.,
+ the grids are plotted on user given coordinates (or rescaled coordinates)
++ comparePlot, infoPlot, and the plot-Method for ICs now if scaleX is TRUE by
+ default use an equidistant grid on the rescaled x-Axis.
++ qqplot-method for c("ANY","InfRobModel") gains argument
+ 'cex.pts.fun' to better control the scaling of points-sizes
++ new helper function cutoff.quant() to produce cutoff from model quantiles
+
+GENERAL ENHANCEMENTS:
+
+under the hood:
++ introduced automatic scaling of points in comparePlot.R and infoPlot.R
++ .cexscale is now documented
++ the argument of .fillList is now automatically cast to list (if necessary).
++ interpolRisks gain biastype and normtype methods, as well as getRiskFctBV
+ => now cniperPointPlot should work for GPD-type data
++ added reference for copied routine stats:::format.perc
++ in the axis annotation (after rescaling) there are checks now
+ whether values +-infinity are taken at all. (This was a bug
+ before for distributions passed on as cdf and quantile function
+ with finite left or right endpoint.)
++ output in kStepEstimator() and oneStepEstimator() is filtered
+ by .checkEstClassForParamFamily(); this allows to return an
+ object of S4 class specific to the resp. parametric family (by means of
+ S4 method dispatch); this is used in pkg 'RobExtremes' to produce, e.g.,
+ objects of class "GEVkStepEstimate", i.e. which inherit from both
+ "kStepEstimate", so that a diag-method for "GEVEstimate" becomes
+ available for this class.
++ enhanced imports in DESCRIPTION by explicating second order imports
+
+
+BUGFIXES:
++ two bugs in plotWrapper.R in pkgs RobAStBase and ROptEst detected by Misha
++ bug in kStepEstimator: after evaluation of starting estimator, IC must be
+ shifted to correct parameter value -> new arguments withPreModif, withPostModif
++ in comparePlot it should be resc.Dargs instead of rescD.args
++ fixed errors detected by Matthias / Misha, Bernhard in comparePlot.R, cutoff-class.R,
+ ddPlot_utils.R, infoPlot.R, outlyingPlot.R
++ comparePlot now plots the whole range
++ ddPlots / outlyingPlot.R now have alpha transparency and jitter and cex.pts
++ infoPlot plots the correct y-axis (no overplotting)
++ minor fixes in InfoPlotWrapper.Rd, outlyingPlotIC.Rd
++ fixed NA-buglet in plotWrapper.R (detected by Dasha Pupashenko)
++ fixed a little bug with the use of .cexscale (with list of functions)
++ bugfix in outlyingnessPlot: for robCov.y ==TRUE (default) the
+ inverse covariance matrix was used for standardization instead
+ of the original one
+
+
+#######################################
+version 0.9
+#######################################
+
+user-visible CHANGES:
++ new wrapper function InfoPlot, ComparePlot, PlotIC
+
+
+GENERAL ENHANCEMENTS:
+
++ RobASt-Pkgs: DESCRIPTION depends become stricter (requiring distrMod, distrEx, distr >=2.4 to be on the safe side)
++ deleted chm folders --- they are no longer needed
++ added argument no.readonly = TRUE in all assignments of type opar <- par();
++ commented out all assignments of type omar$cin <- NULL
++ removed calls to require from R sources and replaced it by directives in the NAMESPACE file
++ all packages get a DESCRIPTION tag "ByteCompile"
+
+under the hood:
+
++ wrapper functions use default rescaling controlled by S4-method rescaleFct
+ dispatching on the respective model
+
++ added .Rbuildignore
+
++ cleaned DESCRIPTION and NAMESPACE file as to Imports/Depends
+
++ created new interpolRisk-class to be able to use speed up in (new version) of roptest
++ interpolRisks extended by slot samplesize
+
++ implemented scale estimation on log-scale for kStepEstimator
++ in kStepEstimator asyvar of starting estimator is no longer computed
+ (unless done so anyway in the call to the starting estimator)/ as not needed
++ in kStepEstimator one can now delay evaluations of covariance matrices,
+ depending on new argument withEvalAsVar
++ a small change in kStepEstimator -- now uses the (possibly nonlinear)
+ trafo instead of the Jacobian to get the pIC-estimator from the untransformed estimator
++ in kStepEstimator we force an argument list (to avoid an "argument missing" error)
+
++ checkIC now also reports relative errors (has possibly already been there
+ but not merged?)
+
++ new S4methods/functions moveL2Fam2RefParam and moveICBackFromRefParam to only
+ solve optimization problems for ICs at reference parameters (if these are
+ available) and the to backtransform the IC to the original parameter
+ (is not yet in place in optIC; still testing necessary).
+
++ the accessor to slot Risks now checks if all items of the list are already
+ evaluated or if some calls still have to be forced; to this end it uses
+ new auxiliary .evalListRec
+
++ minor Enhancements of ddPlot, changes in outlyingPlot
++ modularized diagnostic plots; still checking + debugging necessary
+
++ documented helper functions
+
++ thx to hint by Matthias (NAMESPACE), and some (more specific) Rd-links to
+ gettextf, now no more notes or warnings in R-2.16.0dev
+
++ .rescalefct looses argument scaleY.inv (not needed).
+
++ use of unit tests
+
+BUGFIXES:
+
++ Bug in infoPlot(), detected by Nataliya Horbenko, tentatively fixed
++ use of colnames instead of sampleNames to avoid the error on CRAN ...
++ fixed some 1-dim vs >1-dim issues in kStepEstimator.R
++ ...and yet some correction as to variances
++ Removed "..." in definition of generic for "samplesize<-", this had led to a warning in R CMD check.
++ .evalListRec was not prepared for length 0
++ some substitute functions have not been passed as arguments...
+
+
+
+#######################################
+version 0.8
+#######################################
+
+USER-VISIBLE CHANGES
++ new helper methods makeIC to apply to functions or list of functions
+ for easily producing (suboptimal) ICs
++ included risk computation for sin,cos-IC in makeIC-methods.Rd
+
++ qqplot for RobModel now produces outlier adjusted CIs
+
++ ddPlot: additional annotation parameters
+ (all with reasonable defaults)
+
+ -text.abline: controls whether cutoff lines get labeled
+ -text.abline.x,
+ -text.abline.y: text to be added as labels,
+ defaults to something like "95%-cutoff = 4.32"
+ 4.32 the cutoff value)
+
+ -cex.abline,
+ -col.abline,
+ -font.abline,
+ -adj.abline: respective parameters for labels
+
+ -text.abline.x.x,
+ -text.abline.x.y,
+ -text.abline.y.x,
+ -text.abline.y.y: coordinates of labels,
+
+ -text.abline.x.fmt.cx,
+ -text.abline.x.fmt.qx,
+ -text.abline.y.fmt.cy,
+ -text.abline.y.fmt.qy: format strings for cutoff quantiles
+ and values in labels
+
+ -arguments cex.idn and col.idn now if missing first check against arguments
+ cex and col respectively before using defaults par("cex") and par("col") respectively
+
++ for restoring old par() values, not all attributes may be set;
+ hence deleted them from stored value in plot functions by something like
+ opar$cin <- opar$cra <- opar$csi <- opar$cxy <- opar$din <- NULL
+
++ infoPlot gains arguments ylab.rel and ylab.abs to set the label
+ for y axis (as requested by N. Horbenko)
+
++ DESCRIPTION files and package-help files gain a tag SVNRevision
+ to be filled by get[All]RevNr.R from utils in distr
+
+BUGFIXES
+
++ you could not place single plots where you wanted...
++ Nataliya found yet another bug in infoPlot.R
+
+#######################################
+version 0.7
+#######################################
+
+user-visible CHANGES:
+
++ enhanced plotting:
+ * new diagnostic function qqplot to check the quality of a model fit
+ + special methods for second argument of class
+ "RobModel", "InfRobModel", and "kStepEstimate"
+ + comes with corresponding (pointwise/simultaneous) confidence intervals
+ + for "RobModel", "InfRobModel": sizing of points and labels according to
+ Mahalanobis size of points / any other distance function
+ + for "kStepEstimate": fading / sizing of points and labels according to
+ weight of corresponding [p]IC
+ * suggestions by A. Unwin, Augsburg;
+ plot for ICs, infoPlot, and comparePlot may be restricted to selected subplots;
+ * ylim can now be matrix-valued...
+ * infoPlot and comparePlot now have a placeable legend location - argument
+ * plot functions gain data argument:
+ it is "y" for plot(IC, numeric) and for comparePlot,
+ for infoPlot it is argument "data"
+ * plot functions gain arguments
+ - which.lbs : select some data indices for plotting,
+ - which.Order : select some order statistics from the remaining data
+ for plotting (ordered; w.r.t. norm of IC) (in descending order)
+ - return.Order : shall ordering be printed out?
++ documentation
+ * added some UML class diagrams
++ checking functions
+ * checkIC gains ... argument to pass on accuracy arguments to E()
++ estimators
+ * unified treatmend of NAs:
+ - class Estimate gains slot completecases to control for NA in the input
+ - slot samplesize only counts remaining cases
+ - samplesize accessor has argument onlycompletecases and hence can issue both remaining
+ and original samplesize
+ - locMEstimator gains arg na.rm
+ * class kStepEstimator gains slots
+ - start: argument start of kStepEstimator
+ - startval:matrix of transformed starting values
+ - ustarval:matrix of untransformed starting values
+ - ksteps: matrix of (intermediate) transformed estimates
+ - uksteps: matrix of (intermediate) untransformed estimates
+ - ICList: optional: the (intermediate) (total) ICs
+ - pICList: optional: the (intermediate) [p]ICs
+ and corresponding accessors
+ * oneStepEstimator and kStepEstimator gain an argument startArgList
+
++ ICs
+ * we now can digest case p=1, k>1 for asymmetric biastypes as well as for total variation
+
++ new getRobAStBaseOption-s
+ * "all.verbose" : globally set verbose to TRUE
+ * "withUpdateInKer" --- what to do in kStep on ker(D)
+ * "IC.UpdateInKer" --- IC to use in kStep on ker(D)
+
++ utilities:
+ * robModel gains trafo and trafo<- methods to access/modify
+ slot trafo
+ * RobAStBaseMASK for masked methods
+ * replacement function radius for Neighborhood
+
+
+GENERAL ENHANCEMENTS:
+
++ added tests/Examples folder with file RobAStBase-Ex.Rout.save to have
+ some automatic testing
++ added TOBEDONE (sic!) files; in English (for possible collaborators)
++ added keyword robust and made some minor corrections ...
++ added/updated NEWS files, updated CITATION files using code by A. Zeileis
+
++ Rd-parsing:
+ * patch for Brian Ripley's
+ Re: [Rd] Warning: missing text for item ... in \describe?
+ * fixed errors / warnings in .Rd files detected by parser 2
+ (c.f. [Rd] More intensive checking of R help files, Prof Brian Ripley, 09.01.2009 10:25)
+
++ svn-revision-tags
+ * added in all DESCRIPTION files
+ * added field "Encoding: latin1" to all DESCRIPTION files because
+ substituting $LastChangedDate by svn would cause problems for
+ packages built under Windows (German) local when checking under Linux.
+
++ removed pdf-file from version control - Rnw-file is sufficient
+
+
+INTERNALLY:
++ estimators
[TRUNCATED]
To get the complete diff run:
svnlook diff /svnroot/robast -r 940
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