swh:1:snp:13ceaf33a0cf03b54a9c83ec2c853f3c4226f6da
Tip revision: 56fab60a17018704a5d1dbef00693cef9e7619f2 authored by Ben Bolker on 03 November 2010, 00:00:00 UTC
version 0.9.7
version 0.9.7
Tip revision: 56fab60
NEWS
0.9.8
* require data= argument when using formula interface
* turn off hessian computation in profile
* allow use of MASS::ginv
0.9.7
* bug fix in calc_mle2_function for no-intercept models
(thanks to Colin Kremer)
* fixed optimx, added 'user' option
0.9.6
* changed hessian calculation to use numDeriv code (causes tiny
changes to hessian results that could matter in edge cases)
too lazy to provide a backward compatibility mode ...
* documented optimizer= choices in ?mle2
0.9.5.1
* fixed bug in AICc (David Harris)
0.9.5
too many changes!
* added NAMESPACE, various fixes to go with that
* beginnings of an RUnit testing framework
* tweaked vignette
* added prof.lower, prof.upper to profile()
* added "optimize" to list of allowed optimizers, some
bug fixes
0.9.4.1
* tweaked par() resetting in profile plots
0.9.4
* more qAICc fixing
0.9.3 (version bump from previous) 18/09/2009
* tweaked handling of bounds: profile now succeeds
on some 1D problems where it didn't before
15/08/2009
* added deviance, residuals methods
* added newparams argument to predict, simulate;
newdata argument to simulate
* added vignette (stub)
* added explicit params argument, to help sort out
full parameter specifications when parameters is
non-NULL
0.9.2 10/08/2009
* fixed predict() for case with parameters
* added snorm
* changed ICtab defaults to weight=TRUE, base=FALSE, sort=TRUE
0.9.1
added simulate method (formula interface only)
fix AICctab bug
remove spurious cat/print in profile
fix qAIC bug
0.9.0 26/08/2008
* fix Tom Hobbs bug: named lower/upper/parscale/ndeps
get rearranged properly, otherwise rearrange in order
of "start" and issue a warning
* documentation tweak for S4 as.data.frame
* added sbeta to list of known distributions
* removed nlme requirement & auto-loading
0.8.9 04/08/2008
* version bump, submit to CRAN
* added predict method
0.8.8 10/07/2008
* added flexibility for profile plotting (main, x labels etc.);
added examples
* added an instance of "namedrop" to fix naming problem
* added tol.newmin to slice etc.
* added check for numeric return from profile within confint
* fixed bugs in profile plotting when profile is restricted
to a subset of variables
* added tests for par() to reset to original on exit
* improved profile documentation
* replicate std.err if specified in profile
* add as.data.frame
* tweak tol.newmin (better fit found during profile) code
0.8.7 12/05/2008
* version bump, moved to R-forge.
* reordered NEWS file (most recent first)
0.8.6.1 22/03/2008:
tweaked stop-on-better-fit code
fixed (?) qAIC(c) methods
26/03/2008:
tweak/fix to ICtab documentation (thanks to Tom Hobbs)
0.8.6 added qAIC(c) methods (not working yet!)
0.8.5.1 oops. Fixed infelicity (bug?) in new
environment manipulation
0.8.5 tweaked environment/data assignment to preserve
original minuslogl environment better
0.8.4 changed plot.profile.mle2 options (added onepage etc.,
made plot.confstr=TRUE by default)
0.8.3 added warning about too-short lower/upper
added documentation
0.8.2 fixed bug in AICctab
cosmetic change to printing -- save call.orig
moved ChangeLog to NEWS
0.8.1 fixed (?) environment bug
tried to use built-in relist, but failed: renamed relist
to "relist2" (try again later)
documented get.mnames (auxiliary function for ICtabs)
started to add gr (gradient) capability -- NOT TESTED
0.8 changed ICtab to allow either ICtab(x,y,z) or ICtab(list(x,y,z))
(L <- list(...); if is.list(L[[1]]) && length(L)==1)
0.7.7 fix bug in profiling: all optim() methods EXCEPT L-BFGS-B
return the value of the objective function if given a function
with no arguments/zero-length starting parameter vector
(this is the situation with "profiling" a 1-D function).
L-BFGS-B gives funky answers. added a check for this case.
(may need to check behavior for alternate optimizers (nlm etc))
[this behavior triggered a "found better fit" error when profiling
1D functions with L-BFGS-B]
changed behavior when finding better fit during profiling
to return new parameters
0.7.6 tweak vignette
fixed second major AICc bug (was fixed in mle2 method,
but not in logLik method)
0.7.5 change "ll" to "LL" in examples for clarity
tweaked anova reporting of models (wrap instead of truncating)
added (undocumented) show.points option to profile plot
to display actual locations of profile evaluation
tweaked profile to behave better when profiling variables
with constraints (upper, lower)
moved vignette to inst/doc where it belongs
ICtab hack to protect against package:aod definition of AIC(logLik)
added submit stub
tweaked slice.mle2-class docs for consistency
fiddled with vignette
preliminary code to allow non-monotonic profiles
preliminary add nlm to list of optimizers (untested)
add aod, Hmisc, emdbook to VignetteDepends and Suggests:
0.7 better df extraction in ICtab
minor bug fix for AICc (allows AICc of nls objects)
handle models with -1 in formula better:
starting values set "all equal"
made ANOVA formula line-length accessible
added skip.hessian and trace arguments to mle2
messed around with BIC definition -- attempt at consistency with nlme
added rudimentary support for nlminb, constrOptim
nlme now required for fdHess (which is required for
nlminb since it doesn't compute a finite-diff
Hessian)
0.6 add experimental formula interface
change all names from mle to mle2 to avoid confusion/conflicts
with stats4 version of mle
change internal structure of data evaluation
worked on vignette
added optimizer slot (stub)
0.5 fix AICc bug! (was deviance+2*k*(k+1)/(n-k-1), not AIC+2*k*(k+1)/(n-k-1)
0.4 change AIC to AICc for corrections
add AICtab for weights, delta, sort ... options
expose error messages occuring within profile()
uniroot tries harder to find a valid endpoint
truncate terms in anova.mle at 80 characters
0.3: enhanced anova method, works with print.anova
tweaked namedrop() code -- ??
0.2: added parnames, parnames<-
minor fix to allow "profiles" of 1-parameter models
(skip fdHess call)
minor change to print method for mle results
tweaking "vecpar" (to allow parameter vectors in objective function)
removed fdHess/nlme dependency