i debug my project, I start on starting script and when i call other function from other script, I appear with the debug cursor on the bad line, thus so line where is not expected php source code.

This is not a problem of PhpED or debugger.

It may happen for various undepended reasons. Among them:

a) you debug on remote site and your local copy is not in-sync with remote one. IDE shows local copy.
b) you have HEREDOC constructs in your script. Php has known bugs that lead to incorrect line numbering.
c) your file has 0xD (Mac style) of line endings. It's not supported by PHP.

To check b) and c) you can easily call trigger_error() somewhere in your file and compare actual line number where you added the call with reported one.