my @edits = ('initial_met', '_selenocysteine', 'amino_acid_sub');
for Drosophila.  (Like Selenocysteine, but any amino acid including '*' can be substituted.)

added -nonreleasemode to the list of options. This means the update does not require the master schema database and if automatically forced

$do_upload is true.

TODO: testing

of the cases when an appropriate analysis_id does not exist (create a
new analysis).

TODO: Upload.

Add "Was not best match" to unmapped reasons.
Sort unmapped reasons.

TODO:

  1. Pick only the best Xrefs of those that pass the thresholds.
  2. Store new analysis (if needed).
  3. Do the upload of the tables.

Slight formatting.

Still to do:

  1. Write 'unmapped_reason'.
  2. Write 'unmapped_object'.
  3. Upload.

All output to screen for now.

Only contains stubs at the moment.

Add hooks into coordinate mapping code.

standard option names added