Small changes to allow compilation (with GCC 4.9.3).

[mastbaum]

• Added several missing std:: qualifiers
• Fixed a few redefinitions of loop variables (i) inside for loops (this should be checked).
• Protect the NUANCE input-related code with #ifdef __NUANCE_ENABLED__ to avoid using undefined type NuanceEvent when NUANCE support is disabled.

Environment:

$ cmake --version
cmake version 3.7.1

CMake suite maintained and supported by Kitware (kitware.com/cmake).
$ gcc -v
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=<...>
Target: x86_64-unknown-linux-gnu
Configured with: ./configure --prefix=<...> --disable-libgcj --enable-threads=posix --enable-__cxa_atexit --enable-languages=c,c++,fortran --with-system-zlib --enable-libstdcxx-time=rt --enable-stage1-checking --enable-checking=release --enable-lto --enable-plugin
Thread model: posix
gcc version 4.9.3 (GCC)