You better make sure that scripts do not call each other in two directions. Also, you should not make the tree of scripts that call each other deeper than four calls. This file should hold the names of PDB files, including the full path. Use only one file name per line. WHAT IF's internal database of 300 well-refined protein structures.
Graphical script related commands Several commands are very handy in conjunction with scripts.
For example the command-renaming options can be very useful, because they can almost be used as subroutines in script files. The following options were made for scripts, but are sometimes also useful during interactive operation. The command WAIT will cause WHAT IF to prompt you for the duration of a pause. Nothing will happen during this pause. This option of course only makes sense as option in a script.