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Created with Raphaël 2.2.06Jan54323Dec22212019141312987652130Nov292524232221181715121110987432131Oct28272625242120191817141312111076543230Sep29282726232221201615141312987652131Aug302625242322191817161512111098542129Jul28272625222120141312118654130Jun282724Adding in a patch which synchronises the state of default values between core like DBs and their master DBsModification to bring the dropping of bak tables back in since they cause a large number of issues with the HCs & are not normally removed before the databases are moved to staging/live. We force table backup to disk now to make sure we do not loose this dataadd patch_65_66_efix external_db_id definition in xref tableUpdate to description line parsing by EG's request. Seaprate multiple description lines with ; rather than concatenating them together into an un-fathomable string.Selenoprotein QC fixes for vega.Fix check_for_stops to cope with multiple adjacent internal stops without a loss of codon to AA sync.Added code to load variation multispecies databasesDubious method name markedwrong parameter name, was master_xref, should be master_xrefs to pass to process_dependents methodFurther spelling and grammar adjustmentsSpelling correctionsupdated LRG import instructionsupdated schema for rel 66added &&sql to get xrefs with failed priority produces duplicate xref_ids, added IGNORE to INSERT statement for xrefFiltering more GO annotations associated with SGD ncRNA transcriptsadded patch identifiernew index on object_xref_id in ontology_xref tableFilter out SGD ncRNA GO associations to simplify the maintenancecommented source UniProt::DIRECT for S.cer and updated SGD mapping file URLadded method fetch_alladded method fetch_allFixed bug when a column description content is missing.Corrected description of canonical_translation_id in the transcript table.delete unnecessary commadelete unnecessary commaminor typodefault dir is dumps when version isn't givenRelaxing rules WRT not requiring -version when using -defaultschange to usage sectionAdding a check in here to highlight when a regular expression failed to match meaning we've found a corrupted schema patch identifier which should be removedBit more info in the docsLetting the config file specify just SQL dumpsDocumentation updatesCommit of the core DB populator scriptfix usage of dry_run parameterDon't pass null into a column that is not allowed to have null as value,don't use TYPE= that has been deprecated years ago and doesn't work anymoreAdded new species, gaeumannomyces_graminis