Commits · 5e04b1fca8b40a38fb6291bc2133b8b4c62fb56b · 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 6 months ago.

Dec 09, 2004
- peptide file now not prot · 75cf38aa
  Ian Longden authored 20 years ago
  
  75cf38aa
- Simplified synonym selection SQL due to table structure change. · 3d1c581a
  Glenn Proctor authored 20 years ago
  
  3d1c581a
- Renamed dump_xrefs to dump_core_xrefs to avoid conflict with similarly-named... · 85ce2e7f
  Glenn Proctor authored 20 years ago
```
Renamed dump_xrefs to dump_core_xrefs to avoid conflict with similarly-named but differntly-functioning dump_xref
```
  85ce2e7f
Dec 08, 2004
- Removed debug and spurious exit() ... · 700ac809
  Glenn Proctor authored 20 years ago
  
  700ac809
- Changed xref dumping to generate SQL to retrieve only those xrefs we need. · a1411221
  Glenn Proctor authored 20 years ago
  
  a1411221
- set_list to use all primary xrefs for humans as default · 64b9b0e1
  Ian Longden authored 20 years ago
  
  64b9b0e1
- Re-factored gene display xref calculation to make it clearer. · 620200c3
  Glenn Proctor authored 20 years ago
  
  620200c3
- Added gene display_xref calculation (not fully tested yet). · c58e700e
  Glenn Proctor authored 20 years ago
  
  c58e700e
Nov 12, 2004
- Changed Uniprot source names. · 58422e42
  Glenn Proctor authored 20 years ago
  
  58422e42
Nov 11, 2004
- Removed notification on parsing of each file - was producing too much output. · b694193a
  Glenn Proctor authored 20 years ago
  
  b694193a
Nov 10, 2004
- Print header for xrefs as well. · 47f9f5ca
  Glenn Proctor authored 20 years ago
  
  47f9f5ca
Nov 03, 2004

Added dumping of external_synonym. · 241f20ef

Glenn Proctor authored 20 years ago

Temporarily removed filtering out of low-identity mappings (to allow comparison with current human SwissProt mappings).

241f20ef

Oct 22, 2004
- Now properly calculates identities and filters on them. · fe1898cf
  Glenn Proctor authored 20 years ago
  
  fe1898cf
Oct 20, 2004
- Fixes to xref dumping. · b8a73799
  Glenn Proctor authored 20 years ago
  
  b8a73799
Oct 19, 2004
- removed debug messages and added maxdump to only dump a certain number of seqs · c1f528ff
  Ian Longden authored 20 years ago
  
  c1f528ff
- method missed if dumpcheck set · db6402d1
  Ian Longden authored 20 years ago
  
  db6402d1
Oct 18, 2004
- -dumpcheck option added which will not dump out the fasta files if they already exist · 82c1d3a1
  Ian Longden authored 20 years ago
  
  82c1d3a1
Oct 15, 2004
- Added storing of ensembl object types for dependent xrefs. · f3955264
  Glenn Proctor authored 20 years ago
  
  f3955264
- Added dumping of object_xref entries for dependent xrefs. · 087be40d
  Glenn Proctor authored 20 years ago
  
  087be40d
Oct 13, 2004
- Removed debug. · 96f6e54b
  Glenn Proctor authored 20 years ago
  
  96f6e54b
- Removed debug. · 3457b792
  Glenn Proctor authored 20 years ago
  
  3457b792
- Fixed dependent xref dumping SQL. · f693f3b3
  Glenn Proctor authored 20 years ago
  
  f693f3b3
- add method to access xref obj instead of passing it around all over the place · 9dda83a5
  Ian Longden authored 20 years ago
  
  9dda83a5
- Various changes to integrate better with config system. · 78b6a763
  Glenn Proctor authored 20 years ago
  
  78b6a763
Oct 12, 2004
- store() now looks in correct directory for exonerate output files. · bd8a7bc6
  Glenn Proctor authored 20 years ago
```
Documentation.
```
  bd8a7bc6
Oct 11, 2004
- Added mapping stuff from old exonerate_prototype.pl · bc80daea
  Glenn Proctor authored 20 years ago
  
  bc80daea
- documentation and tidy up · 3bc4c26c
  Ian Longden authored 20 years ago
  
  3bc4c26c
Oct 07, 2004
- xref sequence dumps are now configurable. See get_set_lists method · 2bf1df17
  Ian Longden authored 20 years ago
  
  2bf1df17
Oct 06, 2004
- removed hard coded xref database stuff amd added use . for directory if none specified · 325dca7e
  Ian Longden authored 20 years ago
  
  325dca7e
- small fixes for new input format · 853c2dd9
  Ian Longden authored 20 years ago
  
  853c2dd9
- made db.pm do the database type stuff · 20d0e4fd
  Ian Longden authored 20 years ago
  
  20d0e4fd
- gen tidy · ec9c7394
  Ian Longden authored 20 years ago
  
  ec9c7394
Oct 04, 2004
- first draft release · 1d338160
  Ian Longden authored 20 years ago
  
  1d338160
- NOT ready yet just making sure i have safe copy for now · 3b005faf
  Ian Longden authored 20 years ago
  
  3b005faf