Before this commit, many files are using std::string without including
<string>. It can work accidentally but causes issues when refactoring,
especially if using operator <<() which is included implicitly by some
compilers.

To find guilty header files, I used:

    grep -l "^ *std::string" $(grep -L "#include <string>" $(find . -type f -name "*.h"))

which finds all files containing "std::string" at the beginning of a line
(usually a member or variable declaration), but not "#include <string>".
And then this script to add the includes (plus some manual ediing):

    #!/usr/bin/env python3

    import re
    import argparse

    def fix_file(filename, header):

        with open(filename, "r") as f:
            content = f.read()

        matches = list(re.finditer(r"(#include .*\n)\n", content))
        if len(matches) == 0:
            print("no include!")
            sys.exit(-1)

        pos = matches[-1].end(1)
        open(filename, "w").write(content[:pos] + "#include <{}>\n".format(header) + content[pos:])

    if __name__ == "__main__":
        parser = argparse.ArgumentParser()
        parser.add_argument('--header', type=str, required=True)
        parser.add_argument('files', type=str, nargs='+')
        args = parser.parse_args()

        for filename in args.files:
            fix_file(filename, args.header)

STY: Change ITK_OVERRIDE for override in whole code (find Modules -type f -exec sed -i 's/ITK_OVERRIDE/override/g' {} +)

Used the following command:

find . \( -iname *.txx -and ! -path *ThirdParty* \) -exec perl -pi -w -e 's/__otb(.*)_txx/otb$1_txx/g;' {} \;
find . \( -iname *.h -and ! -path *ThirdParty* \) -exec perl -pi -w -e 's/__otb(.*)_h/otb$1_h/g;' {} \;

Fixes many, but not all, clang -Wreserved-id-macro warnings.

    clang-tidy tool can insert missing override keyword as a macro so that missing [optional] virtual identifiers can be easily added.

    build otb with clang 3.8 and use cmake option CMAKE_EXPORT_COMPILE_COMMANDS=ON. Most modules and third parties have been activated.

    #Save override occurences in otb code
    cd src/Modules ; grep -nR "override" * > ~/temporary/override_otb.txt

    #Run clang modernize check using utility script which allow to process the code in parallel
    python run-clang-tidy.py -clang-tidy-binary ~/software/clang+llvm-3.8.0-x86_64-linux-gnu-ubuntu-14.04/bin/clang-tidy -checks=-*,modernize-use-override -header-filter=/home/grizonnetm/projets/otb/src/OTB/Modules/.*/.*/include/.* -j8 -fix -p ~/projets/otb/bin/release/OTB-clang3.8/ ~/projets/otb/src/OTB/Modules/*/*/src/*.cxx ~/projets/otb/src/OTB/Examples/*/*.cxx ~/projets/otb/src/OTB/Modules/*/*/test/*.cxx > ~/temporary/run-clang-tidy-log.txt

    #Replace override by ITK macro (to maintain compat with c++98)
    find . -type f -print -name "*.h" -o -name "*.txx" |xargs perl -pi -e 's/\ override/\ ITK_OVERRIDE/g'