Updated annotation.reformat.atg_name() to make use of RegExp to
efficiently parse locus identifiers. Added two new options `reindex()` and
`publocus()` to annnotation.reformat which work on lists of gene model
identifiers. Updated utils.sybase.get_config() to properly get the name
of the sybase server. Separated the connect() and the execute() to allow
reuse of the db cursor. Added a new option `query()` which accepts
queries with(out) placeholders; these placeholders are filled up with
data coming from tab-delimited input file(s)