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Created with Raphaël 2.2.024Jan2320191817161312119654323Dec2221201917161514131298652130Nov2928242322211817161514111098743131Oct282726252421201918171514131210765430Sep292827262322212019161513987231Aug262322191716151211985432129Jul282725222018141387654130Jun29272422212017161514131098732131May2726252420191817161210954329Apr282726252221201918171514121187654131Mar30TypoAdded correct username/passwordremoved ensembl-otter from @INCadded some new attributes for VegaAdded correct location of compara dbsmall addtional check in error catchingno extra data obtained from MIM file compared to the refseq/uniprot so removed for neatness and less things to go wrong.Set the correct order so that MIM are done after HUGO which are needed for the parsingMIM should be downloadable. Most xrefs are obtained via the refseq files but still parse to get more infoMIM source id wrong. now fixedSmall typo with serious effects i.e. should be Gene not gene etc. Now fixed as used as keys for hashes in the mapperuse md5 to get file name and not the time so that it is reproducableAllow direct xrefs to be used for display_xref_ids and gene descriptionsUpdated the get_all_compara_Syntenies to use the SyntenyRegionAdaptor, rather than SyntenyAdaptorreplaced spaces with tabsNew module to allow align strain slices for web purposesadded method map_indel that allows to map an indelonly submit to bc_hosts stops problems with trying to submit jobs to itself which it does not likeadded ncRNA type to gene description sourcesncRNA noew considered part of xref system so special case checks removed. Also only check for external_db's that are in the the xref systemadded ncRNA urls for mouse, rat and humanadded summary at the end to make it clearer which parsers have failed etc. Each Parser now must retrun 0 for successfull completion and 1 for an error.Draft config file for xref projections, should also be OK for compara.added method to get the strain name from the object#gene attribute schema and APIFixed collation for new table.option -delete_external_db editedoption -delete_external_db editedremoved spaces and replace with tabs fro a few entreis as this stopped the updateAdded patch for Arne's gene & peptide changes.changed type to biotype