lein run: don't catch app errors as require errors

closes #1469

`lein run` currently has some special error handling around
FileNotFoundException which helps it decide what exactly it should
do. Unfortunately if the actual running of the given main function
itself throws a FileNotFoundException this is currently caught by
Leiningen and assumed to be a require error.

The simple solution is to run the main method outside of that error
handling block.

Regression test provided.
Slightly more homogeneous test project names
Merge pull request #1470 from fredericksgary/issue-1469

lein run: don't catch app errors as require errors
Clarify credential prompt message in deploy task. Fixes #1435.
Failing test for #1409.
Tell Bultitude not to ignore unreadable namespaces in test/check.

Fixes #1409.
Adapt template template so that the #1409 fix doesn't break new templates.