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Created with Raphaël 2.2.05Jan423Dec2117161514131098765432130Nov292524232219181615121110985432129Oct2726252221191815141312118654130Sep292724212017161513109872131Aug2726252423201918171613121195429Jul27262322212019161413128762129Jun282524222118171615141110987432128May272421201917141211765423Apr222120191615141312876Remove the --dbport argument and instead allow host specifications onSort out formatting of add_Exon() and use assert_ref() too, beforeIncrease of length of term.accession from 32 to 64.fixed bug with missing stop codonsLIKE and = the wrong way round in the testLIKE and = the wrong way round in the testAdd and update VectorBase stuffAdd a VectorBase specific parserVectorBase RNA description parserVectorBase Ribo.Prot.Gen DB parserVectorBase PubMed parseruse db display name + remove synonim duplicatesuse db display name + remove synonim duplicatesUniprot_genename source addedadded pattern option so more than one db can be done at a time (st3)added pattern option so more than one db can be done at a timeset label to be label and accessionadded code for automated vega QC. Does not effect anything else!New offical naming method due to changes in priorities of the HGNC and MGI sourcesautomatic and curated version of HGNC and MGI have now been removed. Also display_xref+id is set in the official naming routineadd more info to processingset as default uniprot to be mapped at 100 percentignore those source that end in _notransferUniprot to all be done at 100 percent overlap.add job id to file so that multiple map files do not over wrtie each otheraddition of RFAM_transcript_name and RFAM_gene_name and the same for miRBASE. changing of priorities for HGNC and MGI sourcecurated 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)name change for source havana -> vegamade addition of synonyms a method instead of multiple lines all the sametypo in nameget the transcript prefix and set defualt hostdo not die but just give warning if accession not foundadd flag for description set and add new status of MULTI_DELETE to object_xrefReplace indexes on term table:Remove all "DROP TABLE IF EXISTS" statements.lowercase logicnamebug fixAvoid deleting projected GO terms when deleting projected display names.Add projected xrefs to genes rather than transcripts by default if there is no equivalent type in the target database.remove the constrain on the ontology name - all ontologies should be handled by the same adaptor