concatenate files script
added check for mismatched file name foramts
added code for oldsplice (jxn-based splicing measures) and a miso output parser
fixed setup.py
added another version of qtools with extended automatic features
added oldsplice summarizer
turned off oldsplice debugging mode (which was on by default)
Added command-line miso pipeline execution (uses a sample_info.txt file like RNA-SeQC) and qtools.Submitter now properly adds the job dependencies using the `wait_for` argument