store version for ontology

Replaced hardcoded ensadmin with a user command line parameter. If user is not defined then the script will use ensadmin. The script is not dying anymore if the user connected to the MySQL server is not mysqlens but it will throw a warning. This is to be able to run the script outside the Sanger infrastructure...

Remove variation_feature_bak

Test/transcript mapper

Fix the transcript editing test to properly use the coordinates of the first exon when doing the edit and genomic to peptide coordinate mapping

Retain the backslash on escaped single quotes when generating a hash from a flattened string.

[ENSCORESW-1688] Add connection FAQ to docs, to illustrate best practices when long-running connections drop.

the check is redundant in the context of the fetch_by_location calling
method, since it already performs the same check.

Stop fetch_all_Transcripts returning an empty list when there aren't any transcripts. The old behaviour was to return undef

store ontology term synonym xref separately from name

- Shortcut to only checkout the bioperl release we want and not pull the whole git tree