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Created with Raphaël 2.2.09Aug6331Jul2724201817131211109543229Jun2827262521201815141312876543131May302925242322211716151411987432127Apr2625232019181716131211543230Mar2927252423222120191615141312987652128Feb27262322212019161514131211987652131Jan2926252423221917161512111098543221Dec201918161513128765130Nov2928Remove 'exit' left from development.DensityCalc.sh is a convinience script that will run the five Perlmodified get_all_VariationFeatures to add the coverage filter optionadded filtering by coverageWrong place. Now moved to right placeXref Parser for Interpro2Go filechange in server and script names for hgncAdd more informative error message.Added support for secondary_db_name, secondary_db_table fields in external_db.Added extra columns for secondary_db_name, secondary_db_table.Clarify commentsNo need to do macaque twice ...removed second go source for mouseuse the latest version of exonerateremoved go stuff from process_priority_xrefs as go xrefs cannot be priority xrefs. This is becouse with priority xrefs we just find the best match and ignore the others. For Go terms this is not appropriate as they should match many ensembl entrieswhen getting go source ids get these as hash as there are lots of themcorrect erroradd a proper tab after last line 143additional refseq typesnew vega attribcommit Abel's change on key_value_exists*** empty log message ***Added secondary_db_* columns to external_dbResolved naming conflictresolve conflictnow gResolve conflict - two patch_45_46e.sql had been independently added.Was acting on the wrong table!a little more loggingadded new type column entry to platypus exonaded platypus exon array 3299added cache_and_load method to prevent memory errors with unmapped object cacheadded gene mappingminor fixes for loglevelminor improvementsbugfix for get_all_Exonsadded more attributesinherit from Serialisable, fixes to merge()added create_shrinked_matrix(), use BaseObjectadded biotype_gene_rescore(), internal_id_gene_rescore(), various little fixes