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(with one small bugfix in bgen/bgen/scantools.py)
This replaces string module functions with string methods
for the stuff in the Tools directory. Several uses of
string.letters etc. are still remaining.
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Fixed a few compiler warnings.
freeze.py now produces binaries which can import shared
modules (unlike before).
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directives, which is the role of CPPFLAGS. Closes SF patch #414991.
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This second problem only shows up if LDLAST is not an empty string (such
as with threads enabled on DEC Alphas).
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Also added simple "clean" target (removes *.o and executable).
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