I new as soon as I ask the question I'd find an answer. Getting rid of the quotes worked surprisingly

Update: I'm full of whatever.. after looking at what the code did it just dumped every thing in the wrong dir.. grrr going to try the open 3.

Yet another update:
Gotta love the camel I ran the $file =~ s#^(\s)#./$1#; against it and it solved the prob.