INFER SEQ.LIBRARY.

- Added a new step after the first mapping to infer the sequencing library type from the
bam file generated in the first mapping.

- Sequencing library type is not a mandatory argument anymore. It is optional and if it
is not set ChimPipe will try to infer this information.
INFER LIBRARY. I forgot to add to the tracking system a bash script
MERGE WITH SARAH'S VERSION + LITTLE EDITS ChimPipe.sh
DOCUMENTATION. Added make file