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Created with Raphaël 2.2.010Apr543130Mar29282724232221201916151462129Feb282726242322212017161514131098762131Jan3025242319181716131211109654323Dec22212019141312987652130Nov292524232221181715121110987432131Oct282726252421201918171413121110Testing if avoiding formatted writer speeds up our serialiserRemoved problematic (!defined $release_file) test.Updates for VectorBase speciesextended memory limit for exonerate jobsadded config for turkeyAdding the method is_chromosome to the Slice object. This kind of method is not nice but does deal with a lot of issues with seq_regions being attached to chromosome coordinate systems which are infact unassembled regions.Setting small start to 0. This should be a safe thing to do looking at the currently logic usage.Header function should not be responsbile for the addition of a > for the FASTA header. That's the serailisers responsiblity. Also removed major DB dependencyHeader function should not be responsbile for the addition of a > for the FASTA header. That's the serailisers responsiblityCleaning up methodAdding a method to ignore cache warningsChanging the casing of these groupings & making sure that error messages are more informativeThis is an Ensembl script; defaults should reflect this & not other team's defaultsadded messages on how long each script takes to run on averagecopy user and password from the first host, add memory limit of 2GbAdded memory requirements and added the Nile tilapia to the projection species list.printd()?Taking out subgenus as well since this again was not part of the originalExclude the subgroup and group to get closer to our original classificationFix for trinomialsOnly remove tables which are bak and backup to avoid untintentional removal of temp tables like tmp_individual_genotypeSystem name was not a core oneAllowing species as a rankSetting up defaultsAdding an option to remove meta keys which are deprecatedmaking the patch idiot proof (and idiotic\?)Adding in more excluded namesRank not tankbad default for userWe don't store the connection internally so watch out otherwise SqlHelper will loose it's DBConncetion instanceChanged what $core wasIncrement before skippingDebugSkip if we had dataTables not databasesBad DDLWrong db usedUse taxon not dbnameMove tables and viewsDo not add views to tables