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Created with Raphaël 2.2.02May28Apr2423221614987428Mar2524211914131110327Feb26252119181714131210765431Jan302928272423222120181715131097318Dec171211109654328Nov26252322181514121187531Oct302925242321181715121110987432130Sep27262523191817131211109653230Aug29272322201916151298765231Jul302926252423221918171615Removing the compression script as dnac has been retired long agoSQLite does not understand SUBSTRING as a function. SUBSTR is okSupport alternative methods of sequence storage & indexing.remove license declaration in test database files[ENSCORESW-827] GFF key IDs must be capitalised to be spec-compliant.[ENSCORESW-827] Switch to a consistently lower case ID fieldadded get_all_Exons test for slice_mask_features method expanded to allow masking of non-repeat featuresadded tests for get_all_Genes_by_source, is_chromosome, has_karyotype, karyotype_rank and forced expand methodstest reformatting, replacing a number of ok tests with isget_all_Introns method also available on gene levelspliced_seq method in Transcript can have soft_mask argumentreformatting test cases, replacing 'ok' tests with 'is'Merge pull request #13 from ens-st3/masterMerge pull request #11 from ens-st3/release/75merged from release/75(i) vega prod db details as part of parse_common_optionsMerge pull request #10 from thomasmaurel/masterAdded missing patch_75_76_c.sql into the meta tableadded remove_feature_type methoddo not specify coord_system version if undefinedRevert "when removing features, update meta_coord accordingly"Revert "when running remove method, run _pre_remove method to update meta_coord table"[ENSCORESW-868] Eliminating all evidence of SplicingEvent objects. Ensembl no longer uses them.ENSCORESW-888: version increment for transcripts if there is a changedbass download csv comes with quotesENSCORESW-883: url updated for DBASS ressourcesSplit FTP get method into one that dumps to memory, and the other that dumps to a file explicitly. This is to avoid ambiguity in downloading and to aid code readability.duplicated declarationENSCORESW-854: added lookup for refseq and ccds models in otherfeatures databaseENSCORESW-882: consistent archiving, archive if there has been a changeENSCORESW-888: transcript version number increment if number of exons changePropagated fix [ENSCORESW-840].Propagated fix [ENSCORESW-840]Merge pull request #8 from danstaines/hotfix/multispecies_genome_statisticsMerge pull request #8 from danstaines/hotfix/multispecies_genome_statisticsMerge pull request #9 from dbolser-ebi/masterAdding a fix for Chromosome 0, makeing code more robust[ENSCORESW-885] fix for get and update to support multispecies databases[ENSCORESW-884]. Code did not check for errors or undefs before passing