I just recently installed Pyflakes Vim plugin. It works very fine and is very helpful. Unfortunately it uses the error list in case there is an error. So if I make a search-in-files using Vimgrep or Grep, then after using :cnext to show the next error, the error list will most probably be replaced with the list of errors generated by Pyflakes automatically.
Any idea how this can be solved?
You could use :lvimgrep (abbreviated :lv) to use the location list instead of the quickfix list. Both work the same way, but the c* commands are replaced with l*. See :help quickfix.txt for more details