Commits · c69cb0d18f9ff4e6e73b41a22303b394f5cc9ca0 · ensembl-gh-mirror / ensembl

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Jun 30, 2011
- allow passing of to_slice but is ignored, needed to match other map calls · c69cb0d1
  Ian Longden authored 13 years ago
  
  c69cb0d1
- better warning for projections · 62bdd49d
  Ian Longden authored 13 years ago
  
  62bdd49d
- check if defined else lots of warning later · 76a2a27d
  Ian Longden authored 13 years ago
  
  76a2a27d
- removed use of DBD::mysql which is not needed and stopped other users without this installed · 7ed65374
  Ian Longden authored 13 years ago
  
  7ed65374
- Update assembly.accession in meta table to supplied -assembly_acc. · 57f12eeb
  Susan Fairley authored 13 years ago
  
  57f12eeb
- make sure transcripts and exons are loaded before the are transformed · 22f1da40
  Ian Longden authored 13 years ago
  
  22f1da40
- Delete resource files from the current directory before generating new ones · a4763b4b
  Monika Komorowska authored 13 years ago
  
  a4763b4b
- Updated instructions for regenerating LinkOut files · c963536c
  Monika Komorowska authored 13 years ago
  
  c963536c
- Instructions on updating LinkOut files. · 582755d6
  Monika Komorowska authored 13 years ago
  
  582755d6
Jun 28, 2011
- added CADRE, AspGD, GeneDB and misc_EG::EG sources. updated TRNASCAN_SE and... · fb3941b3
  Arnaud Kerhornou authored 13 years ago
```
added CADRE, AspGD, GeneDB and misc_EG::EG sources. updated TRNASCAN_SE and RNAMMER sources; Updated species config for most of all fungi species
```
  fb3941b3
- EnsemblGenomes module, similar to ncRNA_DBParser.pm to maintain xrefs even... · 0499c888
  Arnaud Kerhornou authored 13 years ago
```
EnsemblGenomes module, similar to ncRNA_DBParser.pm to maintain xrefs even though there is no parser for them yet
```
  0499c888
- Added RNAMMER and TRANSCAN_SE to the list of sources to move to the gene level · 9873f458
  Arnaud Kerhornou authored 13 years ago
  
  9873f458
- Added RNAMMEr and TRANSCAN_SE to the list of sources for gene descriptions;... · 57f8d5e1
  Arnaud Kerhornou authored 13 years ago
```
Added RNAMMEr and TRANSCAN_SE to the list of sources for gene descriptions; added a method called set_source_id_to_external_name
```
  57f8d5e1
- Test has been testing the wrong number. Changed test 18 to expect latest stable ID of 3. · 5ae4c16f
  Kieron Taylor authored 13 years ago
  
  5ae4c16f
- Need to check aliases but no warning if first time · 95477171
  Ian Longden authored 13 years ago
  
  95477171
Jun 27, 2011
- Updated patch identifiers in the meta table. · df1115b1
  Monika Komorowska authored 13 years ago
  
  df1115b1
- Added reconnect_when_lost subroutine · 34a58512
  Monika Komorowska authored 13 years ago
  
  34a58512
- Ping the db handle on prepare and do, if reconnect_when_lost is set to 1. · c8f90a02
  Monika Komorowska authored 13 years ago
  
  c8f90a02
- Added method 'set_reconnect_when_lost' · 2236861b
  Monika Komorowska authored 13 years ago
  
  2236861b
Jun 24, 2011
- bug fix for uniprot genename having same display and accession · 3dd5f4a4
  Ian Longden authored 13 years ago
  
  3dd5f4a4
- bug fix for uniprot genename having same display and accession · 02101f1c
  Ian Longden authored 13 years ago
  
  02101f1c
- add synoyms for dependents · fb9a8697
  Ian Longden authored 13 years ago
  
  fb9a8697
- bug fix for uniprot genename having same display and accession · ed058bae
  Ian Longden authored 13 years ago
  
  ed058bae
Jun 23, 2011
- Removed temporary version of populate_production_db_tables.pl · 323f2943
  Monika Komorowska authored 13 years ago
  
  323f2943
- Dumping backup tables out to a file. · 78440c4f
  Monika Komorowska authored 13 years ago
  
  78440c4f
- Added a test for output directory · 6e5e0fb1
  Monika Komorowska authored 13 years ago
  
  6e5e0fb1
- New script for submitting density feature jobs · 80c7932e
  Monika Komorowska authored 13 years ago
  
  80c7932e
- Changes for submit_density_features.pl script · 43554d01
  Monika Komorowska authored 13 years ago
  
  43554d01
- Changed parameter names in density feature scripts · a60cc9ea
  Monika Komorowska authored 13 years ago
  
  a60cc9ea
- added POD for fetch_Iterator_by_Slice · 26ace380
  Nathan Johnson authored 13 years ago
  
  26ace380
Jun 22, 2011
- Test for dependencies on Variation, Funcgen or Compara modules in Core modules. · 5c965f5e
  Monika Komorowska authored 13 years ago
  
  5c965f5e
- Updated to load GL accession as a synonym of the patch scaffold/supercontig. · 54a327d0
  Susan Fairley authored 13 years ago
  
  54a327d0
- Added 1000genomes populations, minimumnumber of observations and also includes LRG transcripts · 35e9f364
  Pontus Larsson authored 13 years ago
  
  35e9f364
- look for assembled and component overlaps · 14066c44
  Ian Longden authored 13 years ago
  
  14066c44
- Updated store method to set stable id version to 1 if it's undefined. · 75297b92
  Monika Komorowska authored 13 years ago
  
  75297b92
- Updated store method to set stable id version to 1 if it's undefined. · 17d6bdfb
  Monika Komorowska authored 13 years ago
  
  17d6bdfb
- Fixed a HTML tag error · 86f724fb
  Laurent Gil authored 13 years ago
  
  86f724fb
- Updated store method to set stable id version to 1 if it's undefined. · 2f22d315
  Monika Komorowska authored 13 years ago
  
  2f22d315
Jun 21, 2011
- Add a link to the colour legend · c9e637c2
  Laurent Gil authored 13 years ago
  
  c9e637c2
- Remove the Variation Bio::EnsEMBL::Variation::Utils::Constants import · 60a277ec
  Laurent Gil authored 13 years ago
  
  60a277ec