Commits · 5e04b1fca8b40a38fb6291bc2133b8b4c62fb56b · ensembl-gh-mirror / ensembl

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Dec 09, 2004
- added .0 to exonerate exe name · 5e04b1fc
  Ian Longden authored 20 years ago
  
  5e04b1fc
- peptide file now not prot · 75cf38aa
  Ian Longden authored 20 years ago
  
  75cf38aa
- Tidied up error message. · e2df72bb
  Glenn Proctor authored 20 years ago
  
  e2df72bb
- Added support for setting release. · ee4dc586
  Glenn Proctor authored 20 years ago
  
  ee4dc586
- Added -setrelease parameter. · 137de37c
  Glenn Proctor authored 20 years ago
```
Improved usage docs.
```
  137de37c
- Simplified synonym selection SQL due to table structure change. · 3d1c581a
  Glenn Proctor authored 20 years ago
  
  3d1c581a
- Synonym loading is simplified now that synonyms are stored as strings rather than xrefs. · 14a9cba9
  Glenn Proctor authored 20 years ago
  
  14a9cba9
- Changed synonym table to store synonyms as strings, not as "whole" xrefs. · f3c857c9
  Glenn Proctor authored 20 years ago
  
  f3c857c9
- Join description line components with a space 'cos that's how SP splits them. · ada092c0
  Glenn Proctor authored 20 years ago
  
  ada092c0
- Now deals correctly with multi-line AC and DE blocks. · a0e9d8f3
  Glenn Proctor authored 20 years ago
  
  a0e9d8f3
- Corrected bug that was resulting in old files not being deleted for first source downloaded. · 70cbf28e
  Glenn Proctor authored 20 years ago
  
  70cbf28e
- 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
- tidy up of code · fd07aeca
  Ian Longden authored 20 years ago
  
  fd07aeca
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
- Updated to use exonerate 0.9 · 838c24fa
  Glenn Proctor authored 20 years ago
  
  838c24fa
- change source_id -> linkage_source_id · 2239b76c
  Ian Longden authored 20 years ago
  
  2239b76c
- set_list to use all primary xrefs for humans as default · 64b9b0e1
  Ian Longden authored 20 years ago
  
  64b9b0e1
- source_id removed from synonym,dependent_xref and primary_xref this... · b0b66b4d
  Ian Longden authored 20 years ago
```
source_id removed from synonym,dependent_xref and primary_xref this information is available via the xref. linkage_source_id added to dependent xref. create_xrefs now also returns a hashref
```
  b0b66b4d
- 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
Dec 07, 2004
- make get_valid_codes - return hashref · 5004b72c
  Ian Longden authored 20 years ago
  
  5004b72c
- Renamed upload_xrefs to more descriptive upload_xref_object_graphs · a32280aa
  Glenn Proctor authored 20 years ago
  
  a32280aa
Dec 06, 2004
- Added monodelphis domestica and xenopus tropicalis. · e952912d
  Glenn Proctor authored 20 years ago
  
  e952912d
Dec 03, 2004
- sources added etc · 1a7d9645
  Ian Longden authored 20 years ago
  
  1a7d9645
Nov 30, 2004
- type fix. · ab18e771
  Ian Longden authored 20 years ago
  
  ab18e771
Nov 26, 2004
- Spelling & typos · 20b98632
  Glenn Proctor authored 20 years ago
  
  20b98632
- Added xref_mapper.pl usage information · f99d02ed
  Glenn Proctor authored 20 years ago
  
  f99d02ed
- Added section about mapping. · 0015ef03
  Glenn Proctor authored 20 years ago
  
  0015ef03
- Added stuff about xref holding db · d11f1748
  Glenn Proctor authored 20 years ago
  
  d11f1748
Nov 25, 2004
- Previous README in OpenOffice format; reformatted and started adding more content · b6c606aa
  Glenn Proctor authored 20 years ago
  
  b6c606aa
- Bit of structure; will probably have this in OpenOffice format in future since... · baeb79d6
  Glenn Proctor authored 20 years ago
```
Bit of structure; will probably have this in OpenOffice format in future since it's turning into quite a complicated document.
```
  baeb79d6
Nov 24, 2004
- typo, protein not rna forgot to change when cut-paste · 9a44e0d1
  Ian Longden authored 20 years ago
  
  9a44e0d1
- okay go back to original down load files for human refseq as this is now... · c7036df6
  Ian Longden authored 20 years ago
```
okay go back to original down load files for human refseq as this is now newer. May need to do similar for other species
```
  c7036df6
Nov 23, 2004
- sort out synonym and deleted accession entrys · c6cbd736
  Ian Longden authored 20 years ago
  
  c6cbd736
Nov 18, 2004
- change FAILED to ignored in count messages. · 30401e60
  Ian Longden authored 20 years ago
  
  30401e60
Nov 17, 2004
- zebrafish and chicken have no species specific .SPC uniprot file so use the all entries copy · 6ac0297b
  Ian Longden authored 20 years ago
  
  6ac0297b
- check for correct species · 5bf17195
  Ian Longden authored 20 years ago
  
  5bf17195
- failed id description started with [. now fixed · 63611418
  Ian Longden authored 20 years ago
  
  63611418
- get sql directory from the executables directory · 95d5a370
  Ian Longden authored 20 years ago
  
  95d5a370