Accepts the slash character in the project name

The command was failing when the project was actually a sub-project,
like ensembl-personal/mm14. This patch replaces '/' with '_' before
running the file-based operations.

Could be useful for people want to move their files from ensembl-personal to github (provided that they understand the limits of git when it comes to binary files, etc). I've just used it to move my files