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Created with Raphaël 2.2.010Sep9653230Aug29272322201916151298765231Jul302926252423221918171615111043228Jun27262421201918171312111065331May302928232221171514131098732130Apr2927262423221918171615121110953227Mar26252221201918151211654128Feb27262522212019181514131211754130Jan29252422211716151410987421Dec201917141312111076543230Nov2928272623Debugged problem with writing EMBL/Genbank files when opened multiplemethod takes in more than one argument, replaced shift with @_Correction to schema_patcher.pl argumentsreplaced shift with @_ when more than one arguments are read in[ENSCORESW-667]. Return empty anonymous array in case _ise_array attribute is undefined.Tests for subroutines in the Bio::EnsEMBL::Utils::IO module.[ENSCORESW-658]. Added subroutine filter_dir to get the lexicographically sorted and filtered[ENSCORESW-634]. Memory efficient version for dumping Genbank format files.Debugged method dump_embl, wasn't seeking EOF after writing the sequence, hence[ENSCORESW-634]. Memory efficient version for writing EMBL format files.ENSCORESW-544: updated lookup methodENSCORESW-544: updated schema with added archive_id_lookupupdated test cases to check integrity of api once deprecated tables, columns and methods have been removedENSCORESW-554: API updates for release 74set of patches for release 74added test database regular expression to detect species stringallow more than one digit in the auto-incrementrevert changes for metacontainer supportcvs/release/ens…cvs/release/ensemblgenomes/20-73ENSCORESW-611: do not run Orphanet sources for human (ie no species)[ENSCORESW-647]. Porting fix to branch from HEAD.[ENSCORESW-647]. Added OntologyDBAdaptor as a known type.added MetaContainer adaptor for ontology databasesadded correct patch for meta table[ENSCORESW-635]. Merge from HEAD. Code now supports karyotype retrieval and display.[ENSCORESW-635]. Code now supports karyotype retrieval and display.[ENSCORESW-577]. Supporting the FullIdCaching by alternative keys.removed dnac data, tests, adaptorscvs/attic/api_c…cvs/attic/api_cleanup cvs/attic/unconventional_removalwe are in the karyotype feature module, we are talking about karyotype strand (not qtl)cvs/attic/api_r…cvs/attic/api_removal cvs/attic/remove_dnacENSCORESW-633: added MetaContainer adaptorENSCORESW-633 species_id column to meta tableadded species_id column in meta tableadded schema_version information to meta tableusing more recent and supported exonerate version, 2.2removed unused queryrepeat feature now has its own summary_as_hash methodrepeat feature specific summary_as_hash methodadded fetch_stable_id_event and get_event methods for archivestableid, in adaptor and object modules respectivelyadded tests on stable id event for a given archive stable id and stable id[ENSCORESW-609]. BiotypeMapper was lowercasing an undef.ENSCORESW-393: added biotype check