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If you want to change working directory, you can either use the GUI available in the 'File' menu or you can change the default directory in the 'config.txt' file on the first line. If you set 0, the default directory will be the installation directory.
The best way to use Sofmea is to create a directory per project. When you are working on a project, you can select the default directory in the 'config.txt' in order to access directly to your files.
Very important : don't use special character in the path of the working directory otherwise the software will not have access to the files correctly...