If you are using the Windows version i.e. FastHenry2, FastCap2 and/or FasterCap, you can use Automation to control and export data. There is no need to parse the output files.
You can find the details on how to control the solvers via Automation in the embedded help text (Help menù, select "Help Topics"), and many samples in the 'Samples' directory in the installation paths.
You can also search this forum for the keyword "Matlab" (see the upper right corner for the 'search' option), as this question has been dealt with already in the past.