I would like to generate documentation for C++ files with doxygen. Everything is good when all the *.h and *.cpp files are stored in one folder. Then I type
doxygen -g doxygenfile
and then
doxygen doxygenfile
After all this I have a latex folder and an html folder. Everything is good. The problem is when these files *.h *.cpp are stored in different locations, e.g.: *.h in H folder *.cpp in CPP folder and so on. Could somebody tell me how to generate the documentation in this case?