Integrating a custom toolchain in Eclipse for multiple host systems

Question

Hey guys
I have a custom GCC toolchain that compiles binaries for my operating system project. I'm having problems with integrating this toolchain in Eclipse CDT to have proper preprocessing and error checking.
On Windows, the toolchain resides in the Cygwin directory "C:/cygwin/ghost", and on other hosts it resides in "/ghost".
Preprocessor:
I've tried to configure the project to use a "Cross compiler" toolchain and set the "Command to get compiler specs" under "C/C++ General -> Preprocessor Include... -> Providers -> CDT Cross GCC Built-in Compiler Settings" to use my compiler (namely i686-ghost-g++). This results in the include paths in my attachment being determined.
Well, this is obviously correct for the compiler but does not work on Windows, because the compiler does not emit the "C:/cygwin" part of the path. Is there a way to define a prefix for these?
Builder's environment:
I'm using plain old bash scripts to build applications; on unix-like systems they run within the normal environment, but on Windows they must be run within the Cygwin environment (so the necessary tools are properly found).
I tried setting the "C/C++ Build -> Builder Settings -> Build command" to sh build.sh to get my scripts used. This does not work with the Cross compiler toolchain setting, as they run in the Windows environment, not in the Cygwin environment. I can fix this by switching to the Cygwin toolchain configuration and setting the "C/C++ Build -> Environment -> PATH" variable properly, but this does not make sense as I also want to use the same project settings on non-Windows systems, too.
Questions:
How is it meant to be done? My goal is to have Eclipse automatically determine the include paths & therefore correctly preprocess sources; also being able to run my build scripts within the correct environment per system.
If configuration is not suitable for this: Where can I find information on how to create a custom toolchain? With that it might be possible to implement it so that it automatically determines what environment to use on each system and how to determine include paths.
Any help is greatly appreciated!
Greets

Answer 1

In order to perform what your are trying to do in CC 5.2, you will need to go to configuration and setup a logical system, such as SAP R/3 and define all the appropriate systems for the logical system.  Then, when modifying the functions, you will need to set the tcode (action) to the logical system defined, such as R/3 or APO, etc. 
The cross-system functionality only comes into play if you want to analyze the SOD where a conflict would occur if a user had access to one function in one system (for example - purchase order processing in APO) and a conflicting function in a different system (for example - Vendor Master in R/3). 
If you simply want to check who has violates a risk against multiple system - the logical system is the best way.  You can have an logical system by system type - R/3, BW, APO, SRM, etc.
To convert this over, you can export the rules and during the export you have to define the new system when exporting the file.  If that doesn't work, I'd just delete everything out, and use the upload files to reload the rules with the correct data.