Subject: CVS commit: pkgsrc/math/R-lme4
From: Wen Heping
Date: 2018-12-21 13:53:49
Message id: 20181221125349.E0A92FB16@cvs.NetBSD.org

Log Message:
Update to 1.1.19

Upstream changes:
CHANGES IN VERSION 1.1-19
NEW FEATURES

    influence measure code from car rolled in (see ?influence.merMod)

    mkReTrm gets new arguments reorder.terms, reorder.vars to control \ 
arrangement of RE terms and individual effects with RE terms within model \ 
structures

    adding material from the RePsychLing package (on GitHub; see Bates et al \ 
2015 arXiv:1506.04967) to show orthogonal variance components.

USER-VISIBLE CHANGES

    as.data.frame.merMod finds conditional variance information stored either as \ 
attr(.,"postVar") or attr(.,"condVar") (for glmmTMB \ 
compatibility)

    change to defaults of [g]lmerControl to print a message when fits are singular

    new utility isSingular() function for detecting singular fits; by default a \ 
message is printed for singular fits

    allFit function/methods have been moved to the main package, rather than \ 
being included in an auxiliary source file

    post-fitting convergence checks based on estimated gradient and Hessian (see \ 
troubleshooting) are no longer performed for (nearly-)singular fits (see \ 
isSingular)

CHANGES IN VERSION 1.1-18-1 (2018-08-17)

    This is a minor release; the only change is to roll back (unexport) the \ 
influence.merMod method, pending resolution of conflicts with the car package

CHANGES IN VERSION 1.1-18 ((2018-08-16)
USER-VISIBLE CHANGES

    ranef(.,condVar=TRUE) now works when there are multiple random effects terms \ 
per factor

NEW FEATURES

    rstudent and influence methods are available for merMod objects

    devfun2 function (for generating a deviance function that works on the \ 
standard deviation/correlation scale) is now exported

BUG FIXES

    lmList now obeys its pool argument (instead of always using what currently \ 
is the default, GH #476)

CHANGES IN VERSION 1.1-17 (2018-04-03)

    This is a maintenance release only (fixes CRAN problems with cross-platform \ 
tests and examples)

CHANGES IN VERSION 1.1-16 (2018-03-28)
BUG FIXES

    lmList no longer ignores the subset argument (John Fox)

    fixed several minor issues with predicting when (1) grouping variables have \ 
different levels from original model (e.g. missing levels/factor levels not \ 
explicitly specified in newdata) or (2) re.form is a subset of the original RE \ 
formula and some (unused) grouping variables are omitted from newdata (GH #452, \ 
#457)

USER-VISIBLE CHANGES

    lmList tries harder to collect errors and pass them on as warnings

    documented as.function method (given a merMod object, returns a function \ 
that computes the deviance/REML criterion for specified parameters)

    print method for summary.merMod objects no longer collapses small values of \ 
the t-statistic to zero

Files:
RevisionActionfile
1.4modifypkgsrc/math/R-lme4/Makefile
1.2modifypkgsrc/math/R-lme4/distinfo