Commits · 894b293486cc8b6a86d04019342689a30ec59003 · ensembl-gh-mirror / ensembl

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Jan 05, 2017
- [ENSCORESW-1846 ]. Should not set pr_port to port, but also use default MySQL port when not defined. · 894b2934
  Alessandro Vullo authored 8 years ago and Magali Ruffier committed 8 years ago
  
  894b2934
Jun 03, 2016
- update EBI copyright · 67e43acd
  Magali Ruffier authored 8 years ago
  
  67e43acd
- Revert "update to EBI copyright" · 65b327a6
  Magali Ruffier authored 8 years ago
```
This reverts commit 3e24194c.
```
  65b327a6
- update to EBI copyright · 3e24194c
  Magali Ruffier authored 8 years ago
  
  3e24194c
Feb 25, 2016
- clean up transcripts without translations · 2331a63c
  Magali Ruffier authored 9 years ago
  
  2331a63c
Jan 04, 2016
- annual copyright update · 7de96eee
  Magali Ruffier authored 9 years ago
  
  7de96eee
Aug 27, 2015
- ENSCORESW-1466 : GO xrefs should be on translation level · 8e275139
  Magali Ruffier authored 9 years ago
  
  8e275139
Jun 26, 2015
- there is not always an identity_xref · b55f2107
  Magali Ruffier authored 9 years ago
  
  b55f2107
Jan 09, 2015
- update annual copyright to 2015 · aa7542e7
  Magali Ruffier authored 10 years ago
  
  aa7542e7
Dec 23, 2014
- if deleting everything from the table, use truncate as it is quicker · ef95d770
  Magali Ruffier authored 10 years ago
  
  ef95d770
Jan 24, 2014
- annual copyright update for 2014 · 11c4ad4f
  Magali Ruffier authored 11 years ago
  
  11c4ad4f
Nov 25, 2013
- The Ensembl license has been changed from Apache-like to Apache 2.0 · 8f76cc83
  Andy Yates authored 11 years ago
  
  8f76cc83
Oct 08, 2013
- Turns out this class doesn't use Ensembl exceptions. · d8667067
  Kieron Taylor authored 11 years ago
  
  d8667067
- Modifications to accept non-ref alt alleles. · ec5dd2fd
  Kieron Taylor authored 11 years ago
  
  ec5dd2fd
Oct 04, 2013
- Removing now deprecated calls · 38e41680
  Andy Yates authored 11 years ago
  
  38e41680
Jul 29, 2013
- Corrected an incorrect capitalisation. · e080372a
  Kieron Taylor authored 11 years ago
  
  e080372a
- Adjusted to use ->dba call instead of dbc. · fee6a1b3
  Kieron Taylor authored 11 years ago
  
  fee6a1b3
Jul 26, 2013
- Xref->db isn't actually an ensembl dba as per convention, it's actually an... · 47cbb7cd
  Kieron Taylor authored 11 years ago
```
Xref->db isn't actually an ensembl dba as per convention, it's actually an Xref special object. Trying to spin up an adaptor manually.
```
  47cbb7cd
- Inevitable missing bits in get_alt_alleles. · 2c407294
  Kieron Taylor authored 11 years ago
  
  2c407294
- Updates to get_alt_alleles to match new schema. · 09f635c7
  Kieron Taylor authored 11 years ago
  
  09f635c7
Jun 19, 2013

: update to external_db names · 16be074a

Magali Ruffier authored 11 years ago

Uniprot_genename replaced with Uniprot_gn
_transcript_name suffix replaced with _trans_name suffix

16be074a

May 08, 2013
- remove all white spaces before and after the key/value we are reading from the config file · d1756ee3
  Magali Ruffier authored 11 years ago
  
  d1756ee3
Mar 12, 2013
- trim end of line white spaces · e7b126f5
  Magali Ruffier authored 12 years ago
```
ENSCORESW-365
```
  e7b126f5
Aug 14, 2012
- Forgot to edit the mapper to do the checksum mapping. Not good · 8e4a21e9
  Andy Yates authored 12 years ago
  
  8e4a21e9
Aug 01, 2012
- delete user and pass method calls · 36e6715c
  Monika Komorowska authored 12 years ago
  
  36e6715c
- removed user and pass methods, no longer required in DirectXrefs.pm · 2d711c28
  Monika Komorowska authored 12 years ago
  
  2d711c28
Jul 31, 2012
- delete records from display_xref_priority and gene_desc_priority when status... · 254abeb8
  Monika Komorowska authored 12 years ago
```
delete records from display_xref_priority and gene_desc_priority when status is reset to parsing_finished or mapping_finished
```
  254abeb8
Jul 30, 2012
- added methods user and pass · e1edd3df
  Monika Komorowska authored 12 years ago
  
  e1edd3df
May 03, 2012

change to allow overriding of the default exonerate method for multiple... · 0f58efd1

Monika Komorowska authored 12 years ago

change to allow overriding of the default exonerate method for multiple sources with the same name http://www.ebi.ac.uk/panda/jira/browse/ENSCORESW-134

0f58efd1

Jan 09, 2012

Don't remove core data if status is moved back to mapping_finished. Changes to... · 38f51196

Monika Komorowska authored 13 years ago

Don't remove core data if status is moved back to mapping_finished. Changes to alt_alleles: use the first non-reference gene if there is no reference gene in an alt_allele.

38f51196

Nov 23, 2011
- fixed line 513 · 7bfb857c
  Monika Komorowska authored 13 years ago
  
  7bfb857c
Oct 28, 2011
- Missed out a key to type flag change to let UniParc settings be parsed · 0001ae08
  Andy Yates authored 13 years ago
  
  0001ae08
Oct 17, 2011
- Remove alt_allele entry if reset_to_parsing_finished is used · 6e733773
  Ian Longden authored 13 years ago
  
  6e733773
Oct 12, 2011
- stable_id merge changes · 3930d05a
  Monika Komorowska authored 13 years ago
  
  3930d05a
Oct 05, 2011
- die instead of croak to get stack trace · 8c7b7895
  Ian Longden authored 13 years ago
  
  8c7b7895
Sep 29, 2011
- fixed bug where class is not found and now uses the default one · 1815fe74
  Ian Longden authored 13 years ago
  
  1815fe74
Sep 27, 2011

Merging of UniParc mapping code into the Xref system. This relies on being... · 9d80b598

Andy Yates authored 13 years ago

Merging of UniParc mapping code into the Xref system. This relies on being able to contact the EBI based UniParc readonly database.

9d80b598

Sep 07, 2011
- removed commented out code · 8242abd1
  Ian Longden authored 13 years ago
  
  8242abd1
Sep 05, 2011
- Removed official naming method into a separate module. Plus lots of tiding and more docs added · 684270d1
  Ian Longden authored 13 years ago
  
  684270d1
Jul 29, 2011
- Added previous release to xref_config.ini · e3b360a0
  Monika Komorowska authored 13 years ago
  
  e3b360a0