R-beta: patch 2

[Larry P Ammann]

Perhaps I missed something obvious, but when I applied patch 2 and then
recompiled R-0.49, I found that the objects such as glm.fit that were
supposed to be updated still had their original definitions. After some
hair-pulling, I remembered that patch saves a backup copy of the original
files it changes. Because of the way the makefile for the system database
is structured, both the new files and the original files in
$R_HOME/src/library/base/funs were being read into the system base file,
$R_HOME/library/base. Since, for example, glm.orig is listed after glm,
then all the original definitions superceded the new definitions.

After moving all the *.orig files out of $R_HOME/library/base/funs and
re-making the system database, the new object definitions were activated.

L. Ammann
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