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:
Remove MASTER_SITES= from individual R package Makefiles.
Each R package should include ../../math/R/Makefile.extension, which also
defines MASTER_SITES. Consequently, it is redundant for the individual
packages to do the same. Packagespecific definitions also prevent
redefining MASTER_SITES in a single common place.

Log message:
Update to 1.0.5
Upstream changes:
CHANGES IN VGAM VERSION 1.05
NEW FEATURES
o extlogit() now handles 'deriv = 3'.
o Generic function hdeff() implements an analytic solution
for the following families: borel.tanner(), felix(), lindley().
For almost all other families, finitedifference approximations
to derivatives means that first and second derivatives can be
computed, even with models with 'xij' terms.
o Generic function wald.stat() implements Wald tests with SEs evaluated
at the null values, not at the original MLE, so do not suffer from the
HauckDonner effect.
o "vglm" objects have a new "charfun" slot, for the
characteristic function.
o "summary.vglm" and "summary.vlm" objects have new
"coef4lrt0", "coef4score0", "coef4wald0" \
slots, for
storing the 'Wald table' equivalent of LRTs, score tests and
modified Wald tests.
The latter has its SEs computed at the null values with the
other coefficients obtained by further IRLS iterations, etc.
Function summaryvglm() has arguments 'lrt0.arg', 'score0.arg',
'wald0.arg'.
o TIC() is new, for the Takeuchi's Information Criterion.
Thanks to Khedhaouiria Dikra for suggesting this.
o mills.ratio() and mills.ratio2() are exported.
o New functions: lrt.stat(), score.stat(), wald.stat(),
which.etas(), which.xij().
o cauchy1() and cauchy() handle multiple responses and have
been modernized a bit.
o Tested okay on R 3.4.3.
BUG FIXES and CHANGES
o Setting 'deriv.arg' a positive value in plotvgam() when there
are no s() terms results in a warning.
Thanks to Barry Goodwin for detecting this.
o cens.poisson() can better handle large lambda values, at least for
left and right censored data (but not for intervalcensored data yet).
Thanks to Eugenie Hunsicker for picking up deficiencies in the code.
o In multinomial.Rd, it was stated that setting parallel = TRUE
did not make the intercepts the same. It does make them the same.
Thanks to Stuart Coles for picking this up.
o binomialff(multiple.responses = TRUE) returned an incorrect deviance.
o bilogistic() uses SFS rather than BFGS as its algorithm.
o Deprecated: lrp(), normal1() [use uninormal() instead].

Log message:
math/RVGAM: Import version 1.04 from pkgsrcwip
Vector generalized linear and additive models, and associated models
(ReducedRank VGLMs, Quadratic RRVGLMs, ReducedRank VGAMs). This
package fits many models and distribution by maximum likelihood
estimation (MLE) or penalized MLE. Also fits constrained ordination
models in ecology.
Packaged by Mike M. Volokhov, and updated by Kamil Rytarowski and me.
