clang: Enable compiling gem5 using clang 2.9 and 3.0

This patch adds the necessary flags to the SConstruct and SConscript
files for compiling using clang 2.9 and later (on Ubuntu et al and OSX
XCode 4.2), and also cleans up a bunch of compiler warnings found by
clang. Most of the warnings are related to hidden virtual functions,
comparisons with unsigneds >= 0, and if-statements with empty
bodies. A number of mismatches between struct and class are also
fixed. clang 2.8 is not working as it has problems with class names
that occur in multiple namespaces (e.g. Statistics in
kernel_stats.hh).

clang has a bug (http://llvm.org/bugs/show_bug.cgi?id=7247) which
causes confusion between the container std::set and the function
Packet::set, and this is currently addressed by not including the
entire namespace std, but rather selecting e.g. "using std::vector" in
the appropriate places.

Make commenting on close namespace brackets consistent.

Ran all the source files through 'perl -pi' with this script:

s|\s*(};?\s*)?/\*\s*(end\s*)?namespace\s*(\S+)\s*\*/(\s*})?|} // namespace $3|;
s|\s*};?\s*//\s*(end\s*)?namespace\s*(\S+)\s*|} // namespace $2\n|;
s|\s*};?\s*//\s*(\S+)\s*namespace\s*|} // namespace $1\n|;

Also did a little manual editing on some of the arch/*/isa_traits.hh files
and src/SConscript.

ruby: get rid of the Map class

ruby: get rid of Vector and use STL
add a couple of helper functions to base for deleteing all pointers in
a container and outputting containers to a stream