GitLab

Added ensembl_object_type and ensembl_id methods so that IF the dbentry is connected to a specific Ensembl entity (Gene/Transcript/Translation) then we can easily find out which one it is

Asking for a a GOTerm adaptor, or a SOTerm adaptor, still works, but the
correct call to get_adaptor() should request an OntologyTerm adaptor.

  the array objects instead of dereferencing using integer indexes from
  for-loops, and use [-1] instead of [$#$ea].

the form "host:port", with ":port" being optional (default is 3306).

fixing problem reported by Mark McDowall.

automatic and curated version of HGNC and MGI have now been removed. Also display_xref+id is set in the official naming routine

addition of RFAM_transcript_name and RFAM_gene_name and the same for miRBASE. changing of priorities for HGNC and MGI source

curated transcript no longer used to get name but is used to get the transcript ext and is not transfered to the core database (hence _notransfer on the source name)