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A general description is here.
print.htest() lost output when used within sink(file, split=TRUE).
Setting par(col.main=) also set par("col") to the same colour.
strptime() crashed under certain locales on Mac OS X.
gregexpr() no longer segfaults when "" is given as the search pattern. Thanks to Hervé Pagès for the bug report.
as.complex(), as.double(), as.integer(), as.logical() and as.raw() are now primitive and internally generic for efficiency. They no longer dispatch on S3 methods for as.vector() (which was never documented). as.real() and as.numeric() remain as alternative names for as.double().
expm1(), log(), log1p(), log2(), log10(), gamma(), lgamma(), digamma() and trigamma() are now primitive. (Note that logb() is not.)
The Math2 and Summary groups (round, signif, all, any, max, min, summ, prod, range) are now primitive.
See under METHODS PACKAGE below for some consequences for S4 methods.