gff_feature_length moved to GFFFeature.length
changed annotate_gff to annotate_genes
Move Transcript to transcript.py
Moved gff_gene_to_tbl and transcript_to_tbl to transcript.py
create_starts_and_stops is method on Transcript
removed tbl_writer
moved annotation_extractor.py to ipr.py
tests pass after merge
moved overlap and nested to sequtil.py
deleted types.py
fixed main.py