devel: fix AICctab bug remove spurious cat/print in profile 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