R Under development (unstable) (2023-11-03 r85470 ucrt) -- "Unsuffered Consequences"
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> library(lme4)
Loading required package: Matrix
> 
> options(nwarnings = 1000)
> 
> if(getRversion() < "3.2.0") {
+     if(interactive()) break # gives an error
+     else q() # <- undesirable when interactive !
+ }
> 
> ## Try all "standard" (statistical) S3 methods:
> .S3generics <- function(class) {
+     s3m <- .S3methods(class=class)
+     ii <- attr(s3m, "info")
+     ii[!ii[, "isS4"], "generic"]
+ }
> 
> set.seed(12)
> d <- data.frame(
+   g = sample(c("A","B","C","D","E"), 250, replace=TRUE),
+   y1 = runif(250, max=100),
+   y2 = sample(c(0,1), 250, replace=TRUE)
+ )
> 
> fm3.1 <- lmList(y1 ~ 1 | g, data=d)
> fm3.2 <- lmList(y2 ~ 1 | g, data=d, family=binomial)
> 
> data(Orthodont, package="nlme")
> Orthodont <- as.data.frame(Orthodont) # no "groupedData"
> fm2 <- lmList(distance ~ age | Subject, Orthodont)
> 
> s3fn <- .S3generics(class= class(fm3.1)[1]) ## works for "old and new" class
> 
> noquote(s3fn <- s3fn[s3fn != "print"])# <-- it is show() not print() that works
 [1] coef      confint   fitted    fixef     formula   logLik    pairs    
 [8] plot      predict   qqnorm    ranef     residuals sigma     summary  
[15] update   
> ## [1] coef    confint fitted fixef     formula logLik  pairs  plot
> ## [9] predict qqnorm  ranef  residuals sigma   summary update
> 
> ## In lme4 1.1-7 (July 2014), only these worked:
> ##  coef(), confint(), formula(), logLik(), summary(), update()
> 
> ## pairs() is excluded for fm3.1 which has only intercept:
> ## no errors otherwise:
> evs <- sapply(s3fn[s3fn != "pairs"], do.call, args = list(fm3.1))
> 
> cls <- sapply(evs, function(.) class(.)[1])
> clsOk <- cls[c("confint", "fixef", "formula", "logLik",
+                "ranef", "sigma", "summary", "update")]
> stopifnot(identical(unname(clsOk),
+                     c("lmList4.confint", "numeric", "formula", "logLik",
+                       "ranef.lmList", "numeric", "summary.lmList", "lmList4")))
> 
> ## --- fm2 --- non-trivial X: can use pairs(), too:
> evs2 <- sapply(s3fn, do.call, args = list(fm2))
> 
> ## --- fm3.2 --- no failures for this "glmList" :
> ss <- function(...) suppressMessages(suppressWarnings(...))
> ss(evs3.2 <- sapply(s3fn[s3fn != "pairs"], do.call,
+                                   args = list(fm3.2)))
> 
> ## --- fm4 ---
> evs4 <- sapply(s3fn, function(fn)
+     tryCatch(do.call(fn, list(fm4)), error=function(e) e))
> length(warnings())
[1] 0
> summary(warnings()) ##  4 kinds;  glm.fit: fitted probabilities numerically 0 or 1 occurred
No warnings
> 
> str(sapply(evs4, class)) # more errors than above
 chr [1:30] "character" "call" "character" "call" "character" "call" ...
> isok4 <- !sapply(evs4, is, class2="error")
> 
> ## includes a nice pairs():
> evs4[isok4]
[[1]]
[1] "object 'fm4' not found"

[[2]]
FUN(X[[i]], ...)

[[3]]
[1] "object 'fm4' not found"

[[4]]
FUN(X[[i]], ...)

[[5]]
[1] "object 'fm4' not found"

[[6]]
FUN(X[[i]], ...)

[[7]]
[1] "object 'fm4' not found"

[[8]]
FUN(X[[i]], ...)

[[9]]
[1] "object 'fm4' not found"

[[10]]
FUN(X[[i]], ...)

[[11]]
[1] "object 'fm4' not found"

[[12]]
FUN(X[[i]], ...)

[[13]]
[1] "object 'fm4' not found"

[[14]]
FUN(X[[i]], ...)

[[15]]
[1] "object 'fm4' not found"

[[16]]
FUN(X[[i]], ...)

[[17]]
[1] "object 'fm4' not found"

[[18]]
FUN(X[[i]], ...)

[[19]]
[1] "object 'fm4' not found"

[[20]]
FUN(X[[i]], ...)

[[21]]
[1] "object 'fm4' not found"

[[22]]
FUN(X[[i]], ...)

[[23]]
[1] "object 'fm4' not found"

[[24]]
FUN(X[[i]], ...)

[[25]]
[1] "object 'fm4' not found"

[[26]]
FUN(X[[i]], ...)

[[27]]
[1] "object 'fm4' not found"

[[28]]
FUN(X[[i]], ...)

[[29]]
[1] "object 'fm4' not found"

[[30]]
FUN(X[[i]], ...)

> ## Error msgs of those with errors, first 5, now 3, then 2 :
> str(errs4 <- lapply(evs4[!isok4], conditionMessage))
 list()
> ## $ logLik : chr "log-likelihood not available with NULL fits"
> ## $ summary: chr "subscript out of bounds"
> stopifnot(length(errs4) <= 2)
> 
> 
> proc.time()
   user  system elapsed 
   1.39    0.17    1.54