Fixed the resulted files naming, Add time measuring code.

Hi,

I have been trying to run the bio2rdf scripts and I noticed that the naming of the resulted files for most of the scripts was not taking account of the presence or absence of the graph_uri property. Which means that most of the resulted files would be called *.nt even when the content was actually n-quads. Furthermore Some files were called *.ttl when the content was clearly n-triples or n-quads in case of presence of the graph_uri.

I also added time measuring for each of the scripts as they helped me monitoring how much time each script individually needs.

I hope this commit is helpful for you too.
Gabi