Commits · 3905af511b8edbd31f9db8f7bb6b9094a6d4605e · ensembl-gh-mirror / ensembl

This project is mirrored from https://:*****@github.com/Ensembl/ensembl.git. Pull mirroring failed 2 months ago.
Repository mirroring has been paused due to too many failed attempts. It can be resumed by a project maintainer or owner.
Last successful update 5 months ago.

Aug 04, 2004
- get_ad and ad_db changed slightly · 3905af51
  Ian Longden authored 20 years ago
  
  3905af51
- In _bases_to_trim, initialised number of bases to trim. · cd217e6c
  Dan T Andrews authored 20 years ago
  
  cd217e6c
- removed deleteObj methods which were formerly called by the Container · 2a541cb4
  Graham McVicker authored 20 years ago
  
  2a541cb4
- added get _all_genotyped SNPs · f70f2c45
  Fiona Cunningham authored 20 years ago
  
  f70f2c45
Aug 03, 2004
- removed extra ->db in lines getting species and group · 6f8e9484
  Web Admin authored 20 years ago
  
  6f8e9484
- updated test count · 1b0dda41
  Graham McVicker authored 20 years ago
  
  1b0dda41
- added code for new display_label attribute of PredictionTranscripts · 7a20a5ca
  Graham McVicker authored 20 years ago
  
  7a20a5ca
- added POD for constructor · 2de7eb2c
  Graham McVicker authored 20 years ago
  
  2de7eb2c
- added display_label column to prediction_transcript table · f02bfea5
  Graham McVicker authored 20 years ago
  
  f02bfea5
- updated prediction transcript tests to check new display_label attribute · f5b0e360
  Graham McVicker authored 20 years ago
  
  f5b0e360
- get_all_Genes fixed · 9cb4eea0
  Ian Longden authored 20 years ago
  
  9cb4eea0
- updated test db prediction transcript table with new display_label column · c85e27ee
  Graham McVicker authored 20 years ago
  
  c85e27ee
- removed Chromosome, ChromosomeAdaptor, RawContig, RawContigAdaptor, Clone, CloneAdaptor modules · 262e9999
  Graham McVicker authored 20 years ago
  
  262e9999
- removed obsolete Protein and ProteinAdaptor modules · 01772475
  Graham McVicker authored 20 years ago
  
  01772475
- das feature cache clearer · e29ebcfb
  Web Admin authored 20 years ago
  
  e29ebcfb
- removed obsolete MapFrag/MapSet modules · 66274425
  Graham McVicker authored 20 years ago
  
  66274425
Aug 02, 2004
- added MetaContainer adaptor to load_hive · f88d0065
  Jessica Severin authored 20 years ago
  
  f88d0065
- removed obsolete Bio::EnsEMBL::Tile module · 70c11cf3
  Graham McVicker authored 20 years ago
  
  70c11cf3
- removed obsolete StickyExon module · 17009ada
  Graham McVicker authored 20 years ago
  
  17009ada
- obsolete · e5ecc2b8
  Graham McVicker authored 20 years ago
  
  e5ecc2b8
- removed Bio::EnsEMBL::Container module · b8d0c2db
  Graham McVicker authored 20 years ago
  
  b8d0c2db
- updated usage · c8c4d317
  Graham McVicker authored 20 years ago
  
  c8c4d317
- script to convert alignment feature coordinates to toplevel in a speedy way · 1243ad7b
  Graham McVicker authored 20 years ago
  
  1243ad7b
- deprecated messages changed · b859caaf
  Ian Longden authored 20 years ago
  
  b859caaf
- dbc needed for equals · 4f49f8e2
  Ian Longden authored 20 years ago
  
  4f49f8e2
- dnadb taken out of dbconnection · dbd88e32
  Ian Longden authored 20 years ago
  
  dbd88e32
- changed AnalysisAdaptor alias to just Analysis in load_compara · 8cfc4d03
  Jessica Severin authored 20 years ago
  
  8cfc4d03
Jul 30, 2004
- moving around of code elements for reg stuff · 008321d0
  Ian Longden authored 20 years ago
  
  008321d0
- number of test change · 277f5fc6
  Ian Longden authored 20 years ago
  
  277f5fc6
- Accommodated change of SWISSPROT and SPTREMBL to Uniprot/SWISSPROT and · 92a81fba
  Kevin Howe authored 20 years ago
```
Uniprot/SPTREMBL and added support for tetraodon. For what it's worth.
```
  92a81fba
- changed ID line format so that it is not too long in some cases · a1524b4e
  Graham McVicker authored 20 years ago
  
  a1524b4e
- DBAdaptor method db renamed dbc to stop confusion so all references to this have been changed · c8fcd6c2
  Ian Longden authored 20 years ago
  
  c8fcd6c2
Jul 29, 2004
- adjusted some tests to account for addition of mitochondrial chromosome to test db · 8aaaba21
  Graham McVicker authored 20 years ago
  
  8aaaba21
- Surprisingly, MultiTestDB.t test depends on number of rows in gene table. ... · 41b1d1c1
  Graham McVicker authored 20 years ago
```
Surprisingly, MultiTestDB.t test depends on number of rows in gene table.  Updated due to extra gene added to db.
```
  41b1d1c1
- fixed test db xref table definition which somehow got erased · 4e7af2a5
  Graham McVicker authored 20 years ago
  
  4e7af2a5
- added test for use of alternate codon (e.g. vertebrate mitochondrial) table · 91a3817f
  Graham McVicker authored 20 years ago
  
  91a3817f
- added mitochondrial chromosome and test transcript to test database · d59faae7
  Graham McVicker authored 20 years ago
  
  d59faae7
- Sequence retrieved from the database is now uppercased. This is so that... · 9ec594d2
  Graham McVicker authored 20 years ago
```
Sequence retrieved from the database is now uppercased.  This is so that softmasking can still be performed correctly when mixed/lower case sequence is stored in the database.
```
  9ec594d2
- remove deprecated calls · 689ab11f
  Ian Longden authored 20 years ago
  
  689ab11f
- Comments and error messages were inconsistent with the way the file is... · b830f3fd
  Glenn Proctor authored 20 years ago
```
Comments and error messages were inconsistent with the way the file is actually supposed to be formatted.
```
  b830f3fd