Commits · 3cf869301c0a967f1f2eb2305ec9d909db09d804 · ensembl-gh-mirror / ensembl

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Apr 26, 2012
- Adding a test case mode for quickly generating sets of ensembl-test compatible dumps · 3cf86930
  Andy Yates authored 12 years ago
  
  3cf86930
- Added link to AGP spec · 796d54e0
  Daniel Barrell authored 12 years ago
  
  796d54e0
Apr 25, 2012
- cleanup imports · 7c829baa
  Andy Yates authored 12 years ago
  
  7c829baa
- fixing dependencies.t test case. Now works no matter where you run the test cases from · 67643176
  Andy Yates authored 12 years ago
  
  67643176
- minor changes to regexes and layout · 227fe686
  Daniel Barrell authored 12 years ago
  
  227fe686
- Now handles all component_type contigs which are not gaps · 7c94d80b
  Daniel Barrell authored 12 years ago
  
  7c94d80b
- Added support for 'Active finishing' contigs. Removed hack for HG1211_PATCH... · 29f8c453
  Daniel Barrell authored 12 years ago
```
Added support for 'Active finishing' contigs. Removed hack for HG1211_PATCH unknown orientation (although GRC have bot provided a solution as yet) BUT added in a new hack for contig FP700111.21 which had to be retrieved from SVA (current version is FP700111.23).
```
  29f8c453
Apr 24, 2012
- Note better than diag as otherwise we get whingy warnings all the time · 95009ed9
  Andy Yates authored 12 years ago
  
  95009ed9
- Missed a WU · f1294c0f
  Andy Yates authored 12 years ago
  
  f1294c0f
- Module locations not updated · a5e56398
  Andy Yates authored 12 years ago
  
  a5e56398
- Package was wrong · b22804ef
  Andy Yates authored 12 years ago
  
  b22804ef
- Forgot the environment variables which is always needed · 089afc92
  Andy Yates authored 12 years ago
  
  089afc92
- Forgot about the registry option given to the command line · 3163615b
  Andy Yates authored 12 years ago
  
  3163615b
- Adding base_path as a reminder that we need to specify this otherwise everything goes pop! · 737a041c
  Andy Yates authored 12 years ago
  
  737a041c
- First pass documentation · bfa05e64
  Andy Yates authored 12 years ago
  
  bfa05e64
- POD corrections · ceba1e0a
  Kieron Taylor authored 12 years ago
  
  ceba1e0a
- POD corrections · de55403a
  Kieron Taylor authored 12 years ago
  
  de55403a
- Leaving lots of parameters empty. The pipeline can deal with this now and will... · d260210b
  Andy Yates authored 12 years ago
```
Leaving lots of parameters empty. The pipeline can deal with this now and will use the correct defaults
```
  d260210b
- Better target server empty detection · 61041490
  Andy Yates authored 12 years ago
  
  61041490
- Supporting empty array specification and using the value specified in the param_defaults · 62f0a16f
  Andy Yates authored 12 years ago
  
  62f0a16f
- POD corrections · 59414cf7
  Kieron Taylor authored 12 years ago
  
  59414cf7
- POD corrections · 375bccae
  Kieron Taylor authored 12 years ago
  
  375bccae
- FASTA dumper pipeline transfer from personal workspace. Consult the personal... · 6053497d
  Andy Yates authored 12 years ago
```
FASTA dumper pipeline transfer from personal workspace. Consult the personal kt7 workspace for more detailed development notes.
```
  6053497d
- Update test count because I am too lazy to update it to use Test::More · d2377aa2
  Kieron Taylor authored 12 years ago
  
  d2377aa2
- Copied fetch_all_by_biotype from GeneAdaptor to TranscriptAdaptor. · a85f6b1e
  Kieron Taylor authored 12 years ago
  
  a85f6b1e
Apr 23, 2012
- Added support for SEE ALSO and further cleaned up code and text samples prior... · f99c5816
  Kieron Taylor authored 12 years ago
```
Added support for SEE ALSO and further cleaned up code and text samples prior to doxygen processing.
```
  f99c5816
Apr 20, 2012
- POD corrections · 0bd42aee
  Kieron Taylor authored 12 years ago
  
  0bd42aee
- *** empty log message *** · f592a1fe
  Monika Komorowska authored 12 years ago
  
  f592a1fe
- correcting "End coord + 1 is less then start coord" error messages · e038494a
  Stephen Keenan authored 12 years ago
  
  e038494a
- API version up · b0ca23d3
  Andy Yates authored 12 years ago
  
  b0ca23d3
- Allowing the API call to fetch back terms which have a distance of 0 i.e.... · e47c80d5
  Andy Yates authored 12 years ago
```
Allowing the API call to fetch back terms which have a distance of 0 i.e. linked at the current level. This is to be used with caution
```
  e47c80d5
- POD corrections · 9f81aae8
  Kieron Taylor authored 12 years ago
  
  9f81aae8
- Allowing people to comment on web data · 8b6b2cb0
  Andy Yates authored 12 years ago
  
  8b6b2cb0
- Added the method "get_all_somatic_StructuralVariationFeatures" · 0a010596
  Laurent Gil authored 12 years ago
  
  0a010596
Apr 19, 2012
- Cleaned up overly escaped code examples. · 6e45cbeb
  Kieron Taylor authored 12 years ago
  
  6e45cbeb
- Spelling of environment corrected in POD. · 47addc4b
  Kieron Taylor authored 12 years ago
  
  47addc4b
Apr 18, 2012
- In initial_stable_id(): · 4e3fc21a
  Andreas Kusalananda Kähäri authored 12 years ago
```
  Do not try to use ${type}_stable_id tables that do not any longer exist.

  Reformat.
```
  4e3fc21a
- Really the user does not need to be able to do select into outfile. copy paste error · d2743a85
  Andy Yates authored 12 years ago
  
  d2743a85
- Append accession number to the display label. · 15e78dcf
  Monika Komorowska authored 12 years ago
```
JIRA ticket: http://www.ebi.ac.uk/panda/jira/browse/ENSCORESW-117
```
  15e78dcf
Apr 17, 2012
- Bug created and I didn't run the test cases. · f50b9edf
  Andy Yates authored 12 years ago
  
  f50b9edf