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CVS log for pkgsrc/math/R-VGAM/Makefile

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Default branch: MAIN


Revision 1.5 / (download) - annotate - [select for diffs], Thu Aug 8 19:53:46 2019 UTC (8 days, 15 hours ago) by brook
Branch: MAIN
CVS Tags: HEAD
Changes since 1.4: +4 -6 lines
Diff to previous 1.4 (colored)

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://mail-index.netbsd.org/tech-pkg/2019/08/02/msg021711.html

Revision 1.4 / (download) - annotate - [select for diffs], Wed Jul 31 18:45:22 2019 UTC (2 weeks, 2 days ago) by brook
Branch: MAIN
Changes since 1.3: +5 -7 lines
Diff to previous 1.3 (colored)

R-VGAM: update to version 1.1.1.

Update to the canonical form of an R package and fix the LICENSE
field.

Revision 1.3 / (download) - annotate - [select for diffs], Sat Jul 28 14:40:46 2018 UTC (12 months, 2 weeks ago) by brook
Branch: MAIN
CVS Tags: pkgsrc-2019Q2-base, pkgsrc-2019Q2, pkgsrc-2019Q1-base, pkgsrc-2019Q1, pkgsrc-2018Q4-base, pkgsrc-2018Q4, pkgsrc-2018Q3-base, pkgsrc-2018Q3
Changes since 1.2: +1 -2 lines
Diff to previous 1.2 (colored)

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.  Package-specific definitions also prevent
redefining MASTER_SITES in a single common place.

Revision 1.2 / (download) - annotate - [select for diffs], Fri Jun 1 07:10:54 2018 UTC (14 months, 2 weeks ago) by wen
Branch: MAIN
CVS Tags: pkgsrc-2018Q2-base, pkgsrc-2018Q2
Changes since 1.1: +2 -2 lines
Diff to previous 1.1 (colored)

Update to 1.0.5

Upstream changes:
CHANGES IN VGAM VERSION 1.0-5

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, finite-difference 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
        Hauck-Donner 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 interval-censored 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].

Revision 1.1 / (download) - annotate - [select for diffs], Mon Jan 22 19:22:44 2018 UTC (18 months, 3 weeks ago) by minskim
Branch: MAIN
CVS Tags: pkgsrc-2018Q1-base, pkgsrc-2018Q1

math/R-VGAM: Import version 1.0-4 from pkgsrc-wip

Vector generalized linear and additive models, and associated models
(Reduced-Rank VGLMs, Quadratic RR-VGLMs, Reduced-Rank 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.

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