Log message:
Update all R packages to canonical form.
The canonical form [1] of an R package Makefile includes the
following:
 The first stanza includes R_PKGNAME, R_PKGVER, PKGREVISION (as
needed), and CATEGORIES.
 HOMEPAGE is not present but defined in math/R/Makefile.extension to
refer to the CRAN web page describing the package. Other relevant
web pages are often linked from there via the URL field.
This updates all current R packages to this form, which will make
regular updates _much_ easier, especially using pkgtools/R2pkg.
[1] http://mailindex.netbsd.org/techpkg/2 … 21711.html

Log message:
Update to 2.1.6
Add missing DEPENDS
Upstream changes:
Changes to Version 2.16
o Made several functions compatible with vcov() in Rdevel (3.5.0).
Changes to Version 2.15
o Fixed bug in boot.hist, and made Boot.default more general. Added a vcov \
method for boot objects
o Fixed bug in gamLine with nondentity links.
o Removed the skewPower transformation functions, and added bcnPower \
transformation family. Same transformation, new name, new computational \
algorithms, improved documentation.
o Fixed bug (reported by Bruno Hebling Vieira) in print.summary.Anova.mlm() \
that could cause adjusted pvalues to be incorrectly ordered.
Changes to Version 2.14
o The smoother functions loessLine, gamLine and quantregLine used in many car \
functions now evaluate the smoother at an equally spaced grid of points rather \
than at the observed values on the horizontal axis of a plot.
o spreadLevelPlot.lm now accepts point marking as in most other graphical \
functions in car.
o Bug fixed in one of the skewPower support functions; thans to Balazs Banfai
o Added support for lmer objects in power transformations
o Added support for skewPower family power transformations for lm and lmer objects
o Added list, data.frame, and matrix methods for Boxplot(), suggestion of \
Michael Friendly
o Added adaptiveKernel() density estimator, with option to use it in densityPlot().
Changes to Version 2.13
o Corrected documentation for mcPlots
o added id.location argument to showLabels to vary location of labels
o added fix for compatiblity with Rcmdr with missing data in several plotting \
functions.
o deltaMethod() now reports confidence intervals.
o print.summary.Anova.mlm() has new SSP and SSPE arguments to determine \
whether the corresponding matrices are printed (suggestion of Michael Friendly).
o summary() and print() methods for Anova.mlm() can now report univariate \
ANOVAs (suggestion and some code by Michael Friendly).
o added "value" and "vcov" attributes to objects returned \
by linearHypothesis() (after suggestions by Liviu Andronic and Steven Yen).
o compareCoefs() now checks classes of models.
o small fixes/changes.
Changes to Version 2.12
o Modified scatter3d() so that plots can be embedded in HTML.
Changes to Version 2.11
o influencePlot now returns Cook's distance, not its square root.
o Anova() now supports "coxme" objects (produced by coxme() in coxme \
package) (request of Philipp Sprenger).
o Anova() now works via its default method with "vglm" objects \
produced by functions in the VGAM package; and the default method of \
linearHypothesis() again works with these objects (problem reported by Michael \
Friendly).
o Fixed Anova.coxph() so that it takes account of method (ties) argument (bug \
reported by Karl Ove Hufthammer).
o Improvements to Anova.default() so that a wider variety of model classes are \
accommodated (following request of Liviu Andronic.)
o dataEllipse() now throws an error if there are too few colors for the number \
of groups (fixing bug reported by Ottorino Pantani).
o spreadLevelPlot.lm() now includes an optional smoother in addition to the \
fitted straight line (suggestion of Michael Friendly).
o No longer import methods (as opposed to generics) directly from pbkrtest.
o Added axis.ticks argument to scatter3d() (code contributed by David Winsemius).
Changes to Version 2.10
o New power family called skewPower has been added that can be used with the \
Box Cox method with a few negative responses (joint work with Doug Hawkins). \
Several functions modified to accomodate twoparameter power families.
o Fixed bug in Anova() for coxph models with clusters (reported by Jesus \
Humberto Gomez ), due apparently to a change in coxph().
Changes to Version 2.026
o Anova() Ftests for binomial and Poisson GLMs now changes \
error.estimate="dispersion" to "pearson" as advertized (bug \
reported by Will Petry).
o Improved behavior of aboveplot legends in scatterplot().
o Fixed sp() (bug reported by Cesar Rabak).
o Conforms to new CRAN requirements for package imports.
Changes to Version 2.025
o Fixed df check in linearHypothesis.default() (bug report by Pierre Chausse).
o Fixed bug when vcov. argument to Anova() is a function (reported by Liviu \
Andronic).
o Now export .carEnv to avoid problem with update() in Boot() (reported by \
Alan T. Arnholt).
Changes to Version 2.024
o Fixed broken URLs.
o Changed handling of .carEnv environment.
o Moved pbkrtest, quantreg, and mgcv from Suggests: to Imports:.
Changes to Version 2.023
o Modified ScatterplotSmoothers to add an 'offset' to the vertical axis of \
spread smooths. This is required in the marginal model plot functions.
o Fixed labels on mcPlot with overlay=FALSE
o Check for 0 residual df and 0 residual deviance (within rounding) in Anova() \
and linearHypothesis() (problem reported by Jonathan Love).
o Fixed model.matrix.lme and model.matrix.gls utility functions, and hence \
Anova and vif, respectively, to work with models specified with formulas \
supplied as objects (after problem noted by Gang Chen).
o Added Wong data set, used in mixedmodels appendix.
Changes to Version 2.022
o corrected bug in 'terms' argument in residualPlots, and other graphic \
functions with a 'terms' argument
o added residual curvature tests for glm.nb
o mcPlot and mcPlots draw 'marginal/conditional' plots for lm objects. The \
marginal plot is of the centered response versus a centered regressor; the \
conditional plot is the corresponding addedvariable plot. The plots can be \
overlaid or viewed sidebyside.
o added argument marginal.scale to avPlots to scale the addedvariable plot \
for Y on XZ using the scale from the marginal plot of Y vs X ignoring X. The \
default is FALSE, corresponding to using scaling to maximize resolution or use \
xlim and ylim to set user scaling.
o Fixed bugs in Anova.survreg() that could affect types II, II tests, both \
Wald and LR, and one similar bug in linearHypothesis.survreg().
o Replaced calls to require() with requireNamespace() where possible \
(suggestion of Brian Ripley).
o The following functions now produce warnings rather than errors when there \
are empty groups: scatterplot(), scatterplotMatrix(), scatter3d(), \
densityPlot().
o Corrected name of "Blackmoor" dataset to "Blackmore".
o Added KosteckiDillon migraines dataset (contributed by Georges Monette).
o introduced linearHypothesis.rlm() for rlm models (suggestion of Matthieu \
Stigler).
o Small bug fixes/improvements.
Changes to Version 2.021
o residualPlot error when using 'type="rstudent" has been fixed.
o Minor change to "recode" documentation; improved error checking in \
recode().
o Fixed a bug in gamLine with noncanonical links. (Thanks to Hani Christoph)
o Added has.intercept.multinom() to make Anova() work with multinom objects \
fit to a dichotomous response (after bug report by Kristian Hovde Liland).
o Replaced vif.lm() with vif.default() to cover wider variety of models (after \
question by Laura Rigg about gls models).
o Diagonal panels in scatterplotMatrix() (except for histograms) show groups \
separately when plotted by groups (suggestion by Erich Neuwirth).
o Added vcov. argument to Anova.lm().
Changes to Version 2.020
o Added new id.method="r" to showLabels for labeling plots of \
residuals; default id.method changed in residualPlots.
o Fixed handling of labels argument to outlierTest() (bug report by Stephane \
Laurent).
o Accommodate numeric variables consisting entirely of NAs in recode() \
(suggestion of Karl Ove Hufthammer).
o Prevent dataEllipse() from opening a graphics device when draw=FALSE (fixing \
bug reported by Rafael Laboissiere).
o The functions makeHypothesis() and printHypothesis(), intended for internal \
use, are exported so that they can be used in other packages (request of Arne \
Henningsen).
o Small fixes.
Changes to Version 2.019
o allow a grouping variable for color, symbol and fits in residualPlots
o fixed axis labelling probelm in influenceIndexPlot
o fixed scoping problems in Boot, bootCase, and ncvTest
o added an argument to deltaMethod for passing arguments to get scoping right \
when calling linearHypothesis in another function; other deltaMethod bugs fixed
o slight modification to documentation of Boot
o summary() method for "Anova.mlm" objects now returns an object, \
printed by a corresponding print() method (adapting code contributed by Gabriel \
BaudBovy).
o added .merMod methods to Anova(), deltaMethod(), linearHypothesis(), \
matchCoefs(), and unexported utilities df.residual() and has.intercept(); \
insured compatibility with nlme and CRAN and developments versions of lme4.
o added use argument to scatterplotMatrix() (suggestion of Antoine Lizee).
o export linearHypothesis.default() for use in other packages (suggestion of \
Achim Zeileis).
o small changes and fixes.

Log message:
Update to 2.0.18
Upstream changes:
Changes to Version 2.018
o Bug fix to boot with type="residual"
o Added densityPlot() function.
Changes to Version 2.017
o Add a variable to AMSsurvey.
o Fix to residualPlots to compute lack of fit tests with missing values and glms.
o Fix to residualPlots with a 0/1 variable not declared a factor.
o Boxplot() now works properly with at argument passed to boxplot() via ... \
(contribution of Steve Ellison).
o qqPlot.lm() now works with "aov" objects (fixing problem \
reported by Thomas Burk).
o Small fixes to code and docs.
Changes to Version 2.016
o Fixed bug in printing of hypotheses by linearHypothesis(), where numeric
constants of the form 1.* or 1.* were printed incorrectly (reported by Johannes \
Kutsam).
o Fixed a bug in showLabels() with multiple groups in the scatterplot() and \
scatterplotMatrix() function.
o linearHypothesisTest() now tolerates newlines and tabs in hypotheses \
(suggestion of David HughJones).
o two bugs fixed in Boot() (found by David Pain) changed argument f to f. in \
bootCase().
o summary.Boot(), confint.Boot() and hist.Boot() handle aliases correctly.
o Boxplot.formula() now accepts more than one conditioning variable \
(suggestion of Christina Yassouridis).
O Boxplot() now properly handles at argument passed through via ... to \
boxplot() (contribution of Steve Ellison).
o Small fixes.
Changes to Version 2.015
o Added an argument coef. to linearHypothesis so tests of the linear \
hypohtesis form can be computed without reference to a fitted model
o Added a linearHypothesis.nlsList method
o Added an nls method for Boot
o Recode() introduced as alias for recode() to avoid name clash with Hmisc.
o residualPlots for glms now ignore starting values for the computing \
algorithm when computing lack of fit tests; starting values previously caused an \
error.
o Marginal Model Plots now allow conditioning on a categorical variable.
Changes to Version 2.014
o Smoothers now given as arguments to scatterplot(), scatterplotMatrix(), \
residualPlots() and other functions; gamLine(), loessLine() (default), and \
quantregLine() smoothers provided.
o linearHypothesis.mer() and Anova.mer() now consistent with pbkrtest \
version 0.32.
o Small changes and fixes.
Changes to Version 2.013
o Added point marking (id.n, etc.) to dataEllipse
o Changed the default for id.method with the invTranPlot to "x".
o The ncvTest has been rewritten for stability, and unneeded 'data', \
'subset' and 'na.action' argument have been removed
o Added new function 'Boot' that is a simple frontend to boot::boot that \
will be useful when bootstrapping regression models. Implemented for lm and \
glm, but this is likely to work for many other S3 regression models with and \
'update' method, 'subset' argument.
o Fixed bug in 'compareCoefs' with nonfull rank models
o Modified 'bootCase' to return a matrix of class c("bootCase", \
"matrix") so generic functions can be written to summarize these \
objects.
o Minor changes to the returned value of showLabels to give both the label \
and the corresponding row number. showLabels documentation tweaked.
o Improved handling of center.pch argument to ellipse() (suggestion of Rob \
Kushler).
o New test argument for linearHypothesis.mer() and test.statistic argument \
for Anova.mer() for Ftests with Kenward/Roger df, provided by pbkrtest package.
o Anova.mlm() now will do univariate repeatedmeasures ANOVA even if the \
error SSP matrix is singular.
o hccm() will now accept a weighted linear models (suggestion of Stefan \
Holst Bache).
o deltaMethod.default() now applies coef() and vcov() to a model for which \
these are supported (generalizing a suggestion by Scott Kostyshak).
o Fixed handling of labels argument in scatterplot.formula() and \
scatterplotMatrix.formula().
o Fixed qqPlot.default() so that it honors line="none" (bug \
reported by Rob Kushler).
o Added new default method for confidenceEllipse(), which now can construct \
confidence ellipses for linear functions of coefficients.
o globalVariables() called for R 2.15.1 or later.
o Fixed bug in logit() when percents=TRUE and largest percent is 1 (reported \
by Eric Goodwin).
o Added radius argument to scatter3d() (suggestion of Antonino Messina).
o Fixed spurious errors message in scatter3d() when groups present but \
surface=FALSE (reported by David L. Carlson).
