Skip to content
Snippets Groups Projects
Select Git revision
  • 101_provider_metakeyupdate
  • 102
  • 102_provider_metakeyupdate
  • 102_testdbpatching
  • 102_versionbump
  • 103_provider_metakeyupdate
  • 103_testdbpatch
  • 103_versionbump
  • 104_testdbpatch
  • 104_versionbump
  • 105_version_bump
  • 108_schema_patch
  • 108_versionbump
  • 109_versionbump
  • Bugfix/ComparaTest
  • Bugfix/CompressedHexDb
  • Bugfix/CompressedHexDb_103
  • Bugfix/Null_translation_id
  • Bugfix/PingErrorMsg
  • Bugfix/TestDbs
  • cpan/113.0.0
  • cpan/112.0.0
  • cvs/release/ensembl/74
  • cvs/release/ensembl/73
  • cvs/attic/branch-e73-db-portability
  • cvs/attic/tag-ensemblgenomes-20-73
  • cvs/release/ensemblgenomes/20-73
  • cvs/attic/unconventional_removal_branch
  • cvs/attic/api_cleanup
  • cvs/attic/unconventional_removal
  • cvs/attic/api_removal
  • cvs/attic/remove_dnac
  • cvs/attic/branch-switchable_adaptors
  • cvs/attic/branch-additional_id_cache
  • cvs/attic/branch-e72-db-portability
  • cvs/attic/branch-e71-db-portability
  • cvs/release/ensembl/72
  • cvs/attic/ensembl_all_alleles
  • cvs/attic/branch-expression_data
  • cvs/release/ensemblgenomes/19-72
40 results
You can move around the graph by using the arrow keys.
Created with Raphaël 2.2.09Feb8762131Jan3025242319181716131211109654323Dec22212019141312987652130Nov292524232221181715121110987432131Oct28272625242120191817141312111076543230Sep29282726232221201615141312987652131Aug302625242322add dnadb to vega_update database typesupport for vega_update database typeFixing an error with common namesMaking sure we're not leaking readonly variablesAdded Broad source BROAD_Magnaporthe_DB]Added Broad_MagnaportheDB to the listModule associated with the Broad Magnaporthe Comparative DB; inherits fro mthe generic broad parser, Broad_GenericParser.pmBroad generic parser; needs to be superseded by another module in order to get the right source_idShortcut method call for the current species name from the backing DBAdaptorMaking sure delegating calls work as expectedProxy resolver not quite rightAdding the padded slice code & test casesAdded a method to fetch the StructuralVariationFeature from a Slice, using the VariationSetOptional gzip supportDownload release version from public FTP. Also do checks for the other Ensembl modules which isn't a total failure but can trip people upBug found by kb3 about always throwing an error from the load from URL methodchanged deprecated fetch_by_MethodLinkSpeciesSet_DnaFrag to fetch_all_by_MethodLinkSpeciesSet_DnaFragAdded a section which does checks to make sure we have the executables available & if not then use locate to find alternatives.New version to use locations for flagging identical exonsOnly allow a biotype if it had coding in there & not non_ which would negate the codingfirst pass at helper object to be used to construct and parse common sets of command line options for misc_scripts (e.g. -dbname etc.)Adding coelacanth projections and setting the required version to the current API versiondon't lazy load transcripts if requested not to; can pass param hash to create_commandline_optionsdon't set params value to 1 by defaultEnsure that output is written to screen as it is done. Makes for a more confident copy runUpdated logic_name XrefExeonerateProtein and XrefExeonerateDNA to all lower cases to match the production databaseRemoving source GO::mus_musculus#01 as it causes issues with the assignment of GO terms in mouseAdding an optional trailing / as per RFC for URLs flagged up by John MarshallTidied up script.Switching to using patternsBad & naughty hardcoded API versionProgram is now executable and also attempts to diagnose the issues a user can face when setting up the API.forgot to make it executableA ping program for users to see if they can access Ensembl.Added custom header override method. Updated documentation to reflect this.Missing a comma in the docs & updating the example to repeat types which are currently in usemoving from ensembl-personaluse gene names from core instead if vega to populate alt_allele tableAdding in methods to retrieve repeat types from repeat_consensus. Also increased the number of types we can limit by at onceUpping the version number