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assembly tables, fundamental tables and feature tables
also added meta keys for 73 patches

Removed methods get_all_(Genes|Transcripts|Exons|Attributes) which weren't doing the correct thing in case of slices and features spanning the origin of replication

[ENSCORESW-550]. Made the pipeline run on the new farm infrastructure by editting memory requirements.

The original version had memory requirements in KB. New farm infrastructure says we
specify in MB. This is good so now all memory requirement params are all in the
same order of magnitude. The final collection job now specifies its memory
requirements. This is a good thing again. Currently this is set to 5MB.

Introduced a new method to supply a proper DBAdaptor for when we're not writing raw SQL copies everywhere.

Xref->db isn't actually an ensembl dba as per convention, it's actually an Xref special object. Trying to spin up an adaptor manually.

splitting up step by step

all ensembl species should now have the same list of 14 sources, + any species-specific ones they may have

tested on GRCh37 to GRCh38 mappings, where patch fixes in GRCh37 have been integrated into the reference assembly in GRCh38

using current_schema_no_cvs everywhere now

[ENSCORESW-385]. The go statement handle was missing the binding of external db id. This was a bug introduced in 1.36 due to re-appropriated execute call

when running stable id mapping, exons are projected onto reference chromosome
added method in GeneScoreBuilder and EnsemblGeneGeneric to distinguish genes depending on their initial slice
added method in EnsemblExonGeneric to distinguish exons according to the mapped transcript they belong to

The big post-merge alt allele commit. Changes to alt_allele table, new tests, and a couple of new objects.