The Problem

Possible Tasks

Random ideas from Jan Aerts

Mind that this is *very* incomplete. Just to help my really bad memory. As the issue is interoperability of the Bio* toolkits, we don't have to synchronize the toolkits at the object level, but rather at the interface level.

First thing to check: what types of objects do we want to synchronize? Of course sequence objects; but what else? The results of a BLAST parsing?

For sequences

Check if each toolkit reads and writes a GenBank/Fasta/... serialization in the same way. Input can either be an original GenBank/Fasta/... file or a dbfetch from any database.

• What should be conserved:
  • Tags
  • for a sequence: lower/uppercase

• What not necessarily should be conserved:
  • for a sequence over multiple lines: length of each line

Task achieved

Back to ListOfTopics