New pluviometer

[eascarrunz]

Rewrite of the core logic of pluviometer.

• Processes the list of features of a record to create a list of genomic positions at which feature counters are to be activated or deactivated
• Implements aggregation at all levels
• Selects the transcript with the longest CDS or total exon length as the representative of a gene
• Creates chimaeric transcripts for all genes (CDS or exons)
• Separates output into feature file and aggregate file
• Implements parallelization with the multiprocessing module
• Writes out a detailed log of preprocessing steps
• Includes list of parent features in the output