Peter Dalgaard wrote:
[EMAIL PROTECTED] writes:
Full_Name: Ed Borasky
Version: R-beta 2.1.0 2005-04-08
OS: Linux 2.6.11 GCC 3.3.5
Submission from: (NULL) (24.21.57.139)
I downloaded the latest R-beta tarball and did a build with the default
options.
OS is Linux 2.6.11 and compiler is GCC 3.3.5. "make check-all" failed with the
following message:
make[3]: Entering directory `/home/znmeb/R-beta/tests'
running code in 'reg-tests-1.R' ...make[3]: *** [reg-tests-1.Rout] Error 1
make[3]: Leaving directory `/home/znmeb/R-beta/tests'
make[2]: *** [test-Reg] Error 2
make[2]: Leaving directory `/home/znmeb/R-beta/tests'
make[1]: *** [test-all-basics] Error 1
make[1]: Leaving directory `/home/znmeb/R-beta/tests'
make: *** [check-all] Error 2
I looked at "tests/reg-tests-1.Rout.fail"; it's 1427 lines long. The error given
is
## Comments:
## PR 796 (aic in binomial models is often wrong)
##
a1 <- glm(cbind(ncases, ncontrols) ~ agegp + tobgp * alcgp,
+ data = esoph, family = binomial())$aic
a1
[1] 236.9645
a2 <- glm(ncases/(ncases+ncontrols) ~ agegp + tobgp * alcgp,
+ data = esoph, family = binomial(), weights=ncases+ncontrols)$aic
a2
[1] 236.9645
stopifnot(a1 == a2)
Error: a1 == a2 is not TRUE
Execution halted
I am running on an Athlon Thunderbird with Atlas 3.6.0 installed. If necessary,
I can back Atlas out and run this again.
Hmm, could you replace the a1 == a2 with all.equal(a1, a2) instead?
(inside reg-tests-1.R of course)
Asking for identity up to machine precision does look a bit optimistic...
That worked ... it got through reg-tests-1.R fine. However, it failed a
little further down in the NA handling tests:
running tests of NA handling functions
make[3]: Entering directory `/home/znmeb/R-beta/tests'
running code in 'nafns.R' ...make[3]: *** [nafns.Rout] Error 1
make[3]: Leaving directory `/home/znmeb/R-beta/tests'
make[2]: *** [test-Nafns] Error 2
make[2]: Leaving directory `/home/znmeb/R-beta/tests'
make[1]: *** [test-all-devel] Error 1
make[1]: Leaving directory `/home/znmeb/R-beta/tests'
make: *** [check-all] Error 2
> sm(fitted(gfit2))
length 153 with 42 NAs
> sm(resid(gfit2))
length 153 with 42 NAs
> sm(predict(gfit2))
length 153 with 42 NAs
> (pp2 <- predict(gfit2, nd))
6 25 26 27
NA -16.177404 1.688479 NA
> stopifnot(all.equal(pp, pp2))
>
> ## more precise tests.
> f1 <- fitted(gfit)
> f2 <- fitted(gfit2)
> common <- match(names(f1), names(f2))
> stopifnot(max(abs(f1 - f2[common])) < 100*.Machine$double.eps)
Error: max(abs(f1 - f2[common])) < 100 * .Machine$double.eps is not TRUE
Execution halted
"tests/nafns.Rout.fail"
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