Commits · 660687e6baf1a873799f140ef2860676d944971e · ensembl-gh-mirror / ensembl

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Jul 09, 2003
- Removed shout · 660687e6
  Web Admin authored 21 years ago
  
  660687e6
- enable to convert Bio::SeqFeature::FeaturePair to Bio::EnsEMBL::ProteinFeature · 0c413f87
  juguang authored 21 years ago
  
  0c413f87
Jul 07, 2003
- Now using File::Temp (tempfile). · e3bb16f0
  Andreas Kusalananda Kähäri authored 21 years ago
```
Option for keeping pmatch output added (-k).
```
  e3bb16f0
- do not assign to $_ in revcomp · b4f671b4
  Graham McVicker authored 21 years ago
  
  b4f671b4
Jul 04, 2003
- Simple command line option parsing added. · 8b70751a
  Andreas Kusalananda Kähäri authored 21 years ago
  
  8b70751a
- Fixed bug (wich gave >100% identity in some cases) by handling query · 501551d3
  Andreas Kusalananda Kähäri authored 21 years ago
```
and target independently.  Nicer output (unsorted though).
```
  501551d3
Jul 03, 2003
- Guzzle, a stand-alone Perl-based DAS client. · 232701f1
  Andreas Kusalananda Kähäri authored 21 years ago
  
  232701f1
- Yay! First commit. · c3087343
  Andreas Kusalananda Kähäri authored 21 years ago
```
Fixed comments, added gap counting.
```
  c3087343
Jul 02, 2003
- *** empty log message *** · 422fb232
  Emmanuel Mongin authored 21 years ago
  
  422fb232
- added andreas new pmatch · 0be84459
  Emmanuel Mongin authored 21 years ago
  
  0be84459
- removed gff_feature = "domain" constraint from SQL query · a3a8607a
  Graham McVicker authored 21 years ago
  
  a3a8607a
Jul 01, 2003
- blast fixes and moveing new_fast from ???DnaA... to BaseAlignFeature · cf89bb7b
  Web Admin authored 21 years ago
  
  cf89bb7b
Jun 30, 2003
- transfert · 4fd50dc9
  Emmanuel Mongin authored 21 years ago
  
  4fd50dc9
Jun 27, 2003
- return undef for unknonw stuff · fe009006
  Arne Stabenau authored 21 years ago
  
  fe009006
- Check for existence on fetch_by_stable_id_dbname · b8b3d29b
  Arne Stabenau authored 21 years ago
  
  b8b3d29b
Jun 25, 2003
- added test for fetch_all_currently_related · 2dc37293
  Arne Stabenau authored 21 years ago
  
  2dc37293
- some bug fixes · 23740658
  Arne Stabenau authored 21 years ago
  
  23740658
- Added fetch all currently related function · 5a2c15fe
  Arne Stabenau authored 21 years ago
  
  5a2c15fe
Jun 23, 2003

· 54670a16

Laura Clarke authored 21 years ago

modifications after the new build, mainly to do with schema changes

54670a16

· 402339f0
Laura Clarke authored 21 years ago
```
couple of changes from the elegans build
```
402339f0

Jun 20, 2003
- removed old systemtests - made obsolete by healthchecks · a156e347
  Graham McVicker authored 21 years ago
  
  a156e347
- Added test for slice->get_generic_features · 0712b603
  Glenn Proctor authored 21 years ago
  
  0712b603
- Added get_generic_features · c43a7310
  Glenn Proctor authored 21 years ago
  
  c43a7310
- Added new generic feature adaptor functionality. Made standard adaptors... · 08eefe2f
  Glenn Proctor authored 21 years ago
```
Added new generic feature adaptor functionality. Made standard adaptors overwriteable by user-defined modules
```
  08eefe2f
- Created · 9e093d71
  Glenn Proctor authored 21 years ago
  
  9e093d71
Jun 18, 2003
- removed after second thoughts · fc203ccc
  Eduardo Eyras authored 21 years ago
  
  fc203ccc
- module with some methods to convert gff into ensembl exons · a5c5d208
  Eduardo Eyras authored 21 years ago
  
  a5c5d208
Jun 14, 2003
- more checks · fdfd4dd6
  Emmanuel Mongin authored 21 years ago
  
  fdfd4dd6
Jun 13, 2003
- added organism specific checks · bab48e01
  Emmanuel Mongin authored 21 years ago
  
  bab48e01
- added GKB mapping · e259222a
  Emmanuel Mongin authored 21 years ago
  
  e259222a
- *** empty log message *** · 44c0c6d8
  Emmanuel Mongin authored 21 years ago
  
  44c0c6d8
- added some specific dros stuff1 · a1c490bd
  Emmanuel Mongin authored 21 years ago
  
  a1c490bd
Jun 12, 2003
- removed call to deprecated method · ba1cc76e
  Graham McVicker authored 21 years ago
  
  ba1cc76e
- dros options · 8c9c4078
  Emmanuel Mongin authored 21 years ago
  
  8c9c4078
Jun 11, 2003
- get_all_DBEntries should return [] instead of undef if there are no xrefs · 39664ac0
  Graham McVicker authored 21 years ago
  
  39664ac0
- less verbosity · 6a652e2d
  Graham McVicker authored 21 years ago
  
  6a652e2d
- small typo in sql query in store method · e1343737
  Stephen Keenan authored 21 years ago
  
  e1343737
- storing should now properly handle xrefs relating to Genes, Transcripts, Translations (untested) · 7e87c040
  Graham McVicker authored 21 years ago
  
  7e87c040
- added get_all_DBEntries methods, changed get_all_DBLinks implementation to reflect DBEntry changes · b6c11600
  Graham McVicker authored 21 years ago
  
  b6c11600
- fetch_all_by_Xxxxx methods made more sensible · 3838a456
  Graham McVicker authored 21 years ago
  
  3838a456