openvax / pyensembl / 24727621145

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Fix #176: coding_sequence_position_ranges includes stop codon (#330)

len(Transcript.coding_sequence) exceeded the total length of
coding_sequence_position_ranges by exactly 3 because Ensembl GTF writes
the stop codon as a separate "stop_codon" feature, not part of the CDS
ranges — while coding_sequence is computed from start_codon to
stop_codon spliced offsets.

Now extend coding_sequence_position_ranges to include the stop codon
positions and merge adjacent ranges, so the lengths agree. A new
_merge_ranges helper handles the typical case where the stop codon
abuts the last CDS exon.

Bumps to 2.6.6.

15 of 16 new or added lines in 2 files covered. (93.75%)

1333 of 1602 relevant lines covered (83.21%)

3.33 hits per line