removed current_line from gff_reader; i may live to regret this day
removed set_exon and set_cds from mrna, this ain't java
removed trim_end from gene_part; not used
removed gene... add_mrna, is_empty, contains_mrna_named because not used
removed console_controller.ducttape (RIP) and write_fasta; not used
removed former ducttape commands from console controller; not used; will eventually be implemented at the seq level
removed more ducttape functions from console controller
removed old versions of to_tbl_entries for gene and mrna
removed feature_tbl_entry.py
removed mrna.is_maker_mrna; not used