Pathogen does not work for me. I am following Adam Lowe\'s hints posted here (and few more) without any success...
My vimrc:
filetype off call pathogen
Instead of call pathogen#runtime_append_all_bundles(), I used call pathogen#infect('~/.vim/bundle') and it worked for me.
call pathogen#runtime_append_all_bundles()
call pathogen#infect('~/.vim/bundle')