Commits · e15f6d4cd34a7bd958a1107df86cad534a6f0d05 · ensembl-gh-mirror / ensembl

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Oct 28, 2009
- *** empty log message *** · e15f6d4c
  William McLaren authored 15 years ago
  
  e15f6d4c
- Removed references to Oligo and Affy as now in efg · d1a7d97d
  Nathan Johnson authored 15 years ago
  
  d1a7d97d
- removed old Affy classes modules as these are now in efg · a3d4c21a
  Nathan Johnson authored 15 years ago
  
  a3d4c21a
- The list of command line switches was inconsistent. · 2a6eee42
  Andreas Kusalananda Kähäri authored 15 years ago
  
  2a6eee42
Oct 27, 2009
- Removed Oligo Classes and Adaptors · ce87f468
  Nathan Johnson authored 15 years ago
  
  ce87f468
- Removed old probe mapping scripts · 9072f20c
  Nathan Johnson authored 15 years ago
  
  9072f20c
- Changed StructuralVariationFeature to StructuralVariation · 830757f3
  William McLaren authored 15 years ago
  
  830757f3
- removed data patches · 69be0ab2
  Nathan Johnson authored 15 years ago
  
  69be0ab2
- Added patch_56_57c, which adds ALT_GENE to the external_db.type enumeration. · 105a0526
  Michael Schuster authored 15 years ago
  
  105a0526
- updated with affy tidy patch details · b9dc5742
  Nathan Johnson authored 15 years ago
  
  b9dc5742
- added affy tidy patch · cec0e1af
  Nathan Johnson authored 15 years ago
  
  cec0e1af
- Subroutine store() formatted for readability. · 304738db
  Andreas Kusalananda Kähäri authored 15 years ago
  
  304738db
- removed AffyAlign from core entries as this is now in efg · 6896b18e
  Nathan Johnson authored 15 years ago
  
  6896b18e
Oct 23, 2009
- Added check for stop codons so transcripts with stops in the translation are ignored · a9d4f478
  Julio Fernandez Banet authored 15 years ago
  
  a9d4f478
Oct 21, 2009
- Added danio->stickleback GO term projection. · c9ee626c
  Glenn Proctor authored 15 years ago
  
  c9ee626c
Oct 20, 2009
- Avoiding global variables when sorting the translation lengths, · 92eb77c5
  Amonida Zadissa authored 15 years ago
```
instead saving the transcripts and their lengths separately and then
sorting their lengths.
```
  92eb77c5
- More air in the usage info. · ac3ecb59
  Andreas Kusalananda Kähäri authored 15 years ago
  
  ac3ecb59
- Properly qute strings and variables. Fix documentation. · 13f7b192
  Andreas Kusalananda Kähäri authored 15 years ago
  
  13f7b192
- Added a simple to use wrapper script for "run.pl". · 61e8df1a
  Andreas Kusalananda Kähäri authored 15 years ago
  
  61e8df1a
- Modified for difference between real KSH and pd-KSH. · ca62e7ed
  Andreas Kusalananda Kähäri authored 15 years ago
  
  ca62e7ed
- Add a simple to use wrapper script for "manage_id_mapping_tables.pl". · f2574a32
  Andreas Kusalananda Kähäri authored 15 years ago
  
  f2574a32
- Formatting. · 018250d3
  Andreas Kusalananda Kähäri authored 15 years ago
  
  018250d3
- Add additional info to the documentation. · 03d5544c
  Andreas Kusalananda Kähäri authored 15 years ago
  
  03d5544c
- Added "ALT_GENE" value to attribute "type" in external_db table (jb16) · ad75c56f
  Amy Tang authored 15 years ago
  
  ad75c56f
- This patchfile is confused as to what version it applies to. Now corrected. · 0bd0e743
  Andreas Kusalananda Kähäri authored 15 years ago
  
  0bd0e743
Oct 19, 2009
- Added get_all_StructuralVariationFeatures method · 5cebf8d4
  William McLaren authored 15 years ago
  
  5cebf8d4
- gorilla_protein added. · aa95c303
  Amy Tang authored 15 years ago
  
  aa95c303
Oct 16, 2009
- Added gorilla_cdna · 450efdd5
  Amy Tang authored 15 years ago
  
  450efdd5
- Added in new type field "ALT_GENE" to match the latest external_dbs.txt · a6f6a2b1
  Amy Tang authored 15 years ago
```
file (version 1.203)
```
  a6f6a2b1
- Added 8 Aspergillus species; also added a RNAMMER and TRNASCAN Sources · 997a67f4
  Arnaud Kerhornou authored 15 years ago
  
  997a67f4
Oct 15, 2009
- Fixed OTTG type to ALT_GENE · 13999312
  Julio Fernandez Banet authored 15 years ago
  
  13999312
Oct 14, 2009
- fixed a few minor problems with names etc. · 68b9ced2
  Dan Staines authored 15 years ago
  
  68b9ced2
- added external_dbs used by the Ensembl Genomes project · de115093
  Dan Staines authored 15 years ago
  
  de115093
Oct 13, 2009
- *** empty log message *** · bad8b790
  Andreas Kusalananda Kähäri authored 15 years ago
  
  bad8b790
Oct 09, 2009
- Now checks DB name for core/otherfeatures/cdna only if the -pattern option is used. · 3e61a445
  Amy Tang authored 15 years ago
```
Script also checks that either -dbname or -dbpattern is used on the commandline,
but not both, or else it'll throw an error.
```
  3e61a445
Oct 07, 2009
- bug fix to stop blast going bad · ca4996ad
  Steve Trevanion authored 15 years ago
  
  ca4996ad
- Comment out the last remaining mentionings of Uniprot/Varsplic. · acdb6fbf
  Andreas Kusalananda Kähäri authored 15 years ago
  
  acdb6fbf
- Change schema version in meta table. · 5f86aad5
  Glenn Proctor authored 15 years ago
  
  5f86aad5
- Updated for version 57 - no schema changes, just change version number in meta table. · 6df1c209
  Glenn Proctor authored 15 years ago
  
  6df1c209
- Updated to version 57. · 50f4a77d
  Glenn Proctor authored 15 years ago
  
  50f4a77d