Commits · c1ddaaa65ae3082db082b6ff67bb6d30d9831c60 · ensembl-gh-mirror / ensembl

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Sep 01, 2004
- xref.sql AGAIN empty, fixed · c1ddaaa6
  Arne Stabenau authored 20 years ago
  
  c1ddaaa6
Aug 31, 2004
- send reference not list frow DBAdaptor get_available_adaptors · cee5e639
  Ian Longden authored 20 years ago
  
  cee5e639
Aug 27, 2004
- pairs no longer hard coded here but got from DBAdaptor with get_available_adaptors call · 1e3b6c2a
  Ian Longden authored 20 years ago
  
  1e3b6c2a
- removed unused sub _add_new_track · 27cdca2e
  Ian Longden authored 20 years ago
  
  27cdca2e
- Added get_available_adaptors to get the pairs of name / adaptor modules. This... · 8d5a9b9a
  Ian Longden authored 20 years ago
```
Added get_available_adaptors to get the pairs of name / adaptor modules. This should make it easier to read etc
```
  8d5a9b9a
Aug 25, 2004
- store attributes when storing translations and transcripts · 447dd803
  Graham McVicker authored 20 years ago
  
  447dd803
- added tests for storing of attributes on the Transcript and Translation adaptors · 3ba5ca87
  Graham McVicker authored 20 years ago
  
  3ba5ca87
Aug 24, 2004
- remove yo postfix on names · dfab2ade
  Ian Longden authored 20 years ago
  
  dfab2ade
- add core to the estgene,vega etc automatically if the core exists · ecfbe585
  Ian Longden authored 20 years ago
  
  ecfbe585
- dbc should be used not db now · 7b1f078d
  Ian Longden authored 20 years ago
  
  7b1f078d
- allow DBConnection, needed for BlastAdaptor · 2004f854
  Ian Longden authored 20 years ago
  
  2004f854
- add_tracks changes mostly · 9d4245db
  Ian Longden authored 20 years ago
  
  9d4245db
- changed throws to warns · ee37fb57
  Graham McVicker authored 20 years ago
  
  ee37fb57
Aug 20, 2004
- updated more, added sections · 30f6d9e0
  Graham McVicker authored 20 years ago
  
  30f6d9e0
Aug 19, 2004

Added $subname in the key of the DEPRECATED hash. Useful when calling several... · 32c599be

Javier Herrero authored 20 years ago

Added $subname in the key of the DEPRECATED hash. Useful when calling several methods from the same line like when using the Bio::EnsEMBL::Test::TestUtils::test_getter_setter method.

32c599be

Aug 18, 2004
- updated tutorial with v24, changed some formatting, added a bit · 83d66c53
  Graham McVicker authored 20 years ago
  
  83d66c53
- README describing how to use the human2chimp.pl program · 99547289
  Graham McVicker authored 20 years ago
  
  99547289
- added more usage information · abc5014e
  Graham McVicker authored 20 years ago
  
  abc5014e
Aug 16, 2004
- Entire diagnostic execute function should be commented out. Statement... · 4f1a35bc
  Graham McVicker authored 20 years ago
```
Entire diagnostic execute function should be commented out.  Statement execution slightly slower otherwise.
```
  4f1a35bc
- throw method was not imported · 4ee56432
  Graham McVicker authored 20 years ago
  
  4ee56432
- db->prepare() => db->dbc()->prepare() · 692b4494
  Graham McVicker authored 20 years ago
  
  692b4494
- updated documentation · 8ef93d46
  Graham McVicker authored 20 years ago
  
  8ef93d46
- more indexes on align feature tables so range queries are still quick when no... · 3b2f7f6f
  Graham McVicker authored 20 years ago
```
more indexes on align feature tables so range queries are still quick when no logic name is provided
```
  3b2f7f6f
- additions for copying from ia64 nodes · be6ff206
  Damian Keefe authored 20 years ago
  
  be6ff206
Aug 15, 2004
- Commented annoying STDERR debug messages · 1948fcbe
  Abel Ureta-Vidal authored 20 years ago
  
  1948fcbe
Aug 13, 2004
- fetch_attributes only needs to come from SNP if possible · e2143b19
  Ensembl Account authored 20 years ago
  
  e2143b19
- max feature length can be overridden, allows optimization for misc feature retrieval · a032c47c
  Graham McVicker authored 20 years ago
  
  a032c47c
- no longer needed · 71ca02a8
  Graham McVicker authored 20 years ago
  
  71ca02a8
- Avoid using bioperl before adaptors are requested from registry · 7cacc925
  Ensembl Account authored 20 years ago
  
  7cacc925
- changed display_id to display_name as this call was deprecated · e3fbf042
  Fiona Cunningham authored 20 years ago
  
  e3fbf042
Aug 12, 2004
- readded align feature indexes changed · b2f60c3f
  Graham McVicker authored 20 years ago
  
  b2f60c3f
- Populate max_length in meta_coord table now. Additionally, meta coord is... · da614ed5
  Graham McVicker authored 20 years ago
```
Populate max_length in meta_coord table now.  Additionally, meta coord is automatically populated now and no longer needs hardcoding for each species.
```
  da614ed5
- corrected typo · 418b693c
  Graham McVicker authored 20 years ago
  
  418b693c
- Added expand function to expand sequences in the (AC)5 format · 147268a0
  Daniel Rios authored 20 years ago
  
  147268a0
- make use of meta_coord.max_length to further optomize generated feature queries · 016d40c8
  Graham McVicker authored 20 years ago
  
  016d40c8
- added max_length to meta_coord table in test db · 552faa71
  Graham McVicker authored 20 years ago
  
  552faa71
- changed dna/protein_align_feature table indexes, added max_length to meta_coord table · 67f0ec65
  Graham McVicker authored 20 years ago
  
  67f0ec65
- Added functionality to get_SimpleAlign method such as translated and uc flags. Added pod doc · 8a513ee7
  Abel Ureta-Vidal authored 20 years ago
  
  8a513ee7
Aug 11, 2004
- now correctly replaces all 1-2bp introns with frameshifts · 05219a6a
  Graham McVicker authored 20 years ago
  
  05219a6a
- Added 3 Genoscope entries (2900,2910,2920) from tetraodon. · 8152d12a
  Glenn Proctor authored 20 years ago
  
  8152d12a