stack_analyze quickstart

The normal use of stack_analyze is as follows:

1. Start the program and get the main screen (Fig. 1).
2. Build a stack list to define what files are in the stack (see Sec. 2.5 and Fig. 10).
3. Read the stack list file to load the stack (Fig. 8). Select a detector configuration if required.
4. Remove any bad images, and ``despike'' the stack if necessary (Fig. 3).
5. Align the stack (Fig. 11, or possibly also Fig. 12).
6. Save the updated stack list (also saves alignment info).
7. Save the autoclipped stack to remove boundaries that do not appear in all images of the stack. You can also clip to selected regions (Fig. 5) with the Clip to I region and save ``.stk'' file option (Fig. 9).
8. Use a histogram to identify the $I_{0}$ spectrum of the stack, and save its spectrum (Fig. 4).

Further analysis is then done with pca_gui as described in Sec. 3