Eventually it is useful to copy a full aplication of Mohid but without the output (the hdf5 files).
To do so is fairly easy from the command line and with the addition of an exclude file types file. Here's what you should type:
xcopy /C /E .\CurrAplication\*.* .\NewAplication /EXCLUDE:exclude.txt
That command will create a duplicata of folder CurrAplication but without the files whose extensions are cited in exclude.txt. The exclude.txt file should contain the following text:
.hdf5 .srh .bmp .fin .srw .ppt .jpg .gif .pdf .ps .eps .doc .log .zip
Now you need to configure your project so it can run from Mohid GUI. To do so you need to edit the .moh file and replace all the references to CurrAplication with NewAplication.