Timeline
03/09/10:
- 17:13 Changeset [22715] by contrino
- modmine meta: added reads counts to submission
- 17:02 Changeset [22714] by mnw21
- Changed xml format of multi value constraints
- 16:32 Changeset [22713] by dbutano
- The bag list is shown only if the constraint is not an attribute
- 16:23 Changeset [22712] by julie
- updated skeleton with new model
- 16:20 Changeset [22711] by contrino
- modmine meta: added experiment category and now experiment type is set by …
- 16:15 Changeset [22710] by alex
- Commented out tests on the model
- 15:59 Changeset [22709] by dbutano
- Fixed the following bug: open a template, set to ON a constraint with a …
- 15:59 Changeset [22708] by dbutano
- Fixed the following bug: open a template, set to ON a constraint with a …
- 15:34 Changeset [22707] by alex
- Changed validation for superuser field: now 30 character for the price of …
- 15:17 Changeset [22706] by fhu
- removed a copy mistake
- 15:05 Changeset [22705] by alex
- Renamed synonyms postprocesser to create-search-index
- 14:35 Changeset [22704] by alex
- Added example sources to locations to look in
- 13:48 Changeset [22703] by mnw21
- Belt and braces on the dataloader
- 13:26 Changeset [22702] by julie
- move properties from flymine.properties, these are never ever changed. …
- 13:19 Changeset [22701] by julie
- move properties from flymine.properties, these are never ever changed. …
- 13:07 Changeset [22700] by julie
- fix comment
- 13:07 Changeset [22699] by julie
- fix project dependencies
- 13:00 Changeset [22698] by julie
- update to new model
- 13:00 Changeset [22697] by mnw21
- Hold onto batches to try and avoid them going missing from garbage …
- 12:59 Changeset [22696] by julie
- checkstyle
- 12:49 Changeset [22695] by julie
- remove ensembl anopheles, alex has a script that does this
- 12:41 Changeset [22694] by alex
- Readme for intermine_updater.pl
- 12:34 Changeset [22693] by alex
- Deleted these left over scripts used to write the updater with
- 12:29 Changeset [22692] by dbutano
- Fixed following bug: if a field doesn't have possibleValue the input test …
- 12:29 Changeset [22691] by alex
- Updated versions: now prettier (with css) and including zfin
- 12:23 Changeset [22690] by dbutano
- Fixed following bug: if a field doesn't have possibleValue the input test …
- 11:59 Changeset [22689] by rns
- Align help ? better when bags are present.
- 11:58 Changeset [22688] by dbutano
- Only if the constraint has possible values, the getValidOps method returns …
- 11:57 Changeset [22687] by alex
- New example source for workshop use
- 11:55 Changeset [22686] by fhu
- --
- 11:51 Changeset [22685] by rns
- Remove some commented code.
- 11:45 Changeset [22684] by fhu
- Submission List tracks to GBrowse
- 11:42 Changeset [22683] by alex
- Changed handler to allow for namespaces at the project level (avoids Null …
- 11:39 Changeset [22682] by alex
- Check in of Richard Bower's MineManager? project into the intermine …
- 11:37 Changeset [22681] by rns
- Fix exception with null extra values in LOOKUP constraints.
- 10:58 Changeset [22680] by rns
- Fix error when editing a constraint to/ from a subclass constraint.
- 10:58 Changeset [22679] by rns
- Fix LOOKUP constraint extra values in templates.
- 10:14 Changeset [22678] by dbutano
- Fixed a javascript "is undefined " exception
- 00:50 Changeset [22677] by alex
- Changed use to require to fix compilation issue
- 00:42 Changeset [22676] by alex
- Added integration and acceptance tests
- 00:42 Changeset [22675] by alex
- Elevated ResultIterator? to a top-level class
02/09/10:
- 23:20 Changeset [22674] by alex
- Elevated ResultIterator? to top level class
- 23:09 Changeset [22673] by alex
- Added use statement for InterMine::Query::Template, so we can actually …
- 23:09 Changeset [22672] by alex
- Changed name of InterMine::Roles::CommonAttributes?
- 23:08 Changeset [22671] by alex
- Changed name of InterMine::Roles::CommonAttributes?
- 23:07 Changeset [22670] by alex
- Added a header row to a the table example in this recipe
- 23:07 Changeset [22669] by alex
- Added role from cookbook
- 23:06 Changeset [22668] by alex
- Added role from cookbook
- 23:05 Changeset [22667] by alex
- Changed name of InterMine::Roles::CommonAttributes?
- 23:05 Changeset [22666] by alex
- Promoted to top level class
- 23:04 Changeset [22665] by alex
- Moved to a top level class
- 23:03 Changeset [22664] by alex
- Changed name of InterMine::Roles::CommonAttributes?
- 23:02 Changeset [22663] by alex
- Changed name of InterMine::Roles::CommonAttributes?
- 23:01 Changeset [22662] by alex
- Fixed typo in name
- 23:01 Changeset [22661] by alex
- Added require for TemplateFactory? so we can coerce properly
- 23:00 Changeset [22660] by alex
- Added role from Cookbook
- 22:59 Changeset [22659] by alex
- Fixed aa semicolon bug, and made sure user and pass don't get passed along …
- 17:29 Changeset [22658] by julie
- remove region key, it's not in the model anymore
- 17:24 Changeset [22657] by rns
- Fix broken batch size, LOOKUP constraint wildcards work again now.
- 16:51 Changeset [22656] by rns
- MultiValue? constraints that aren't srings now create valid queries.
- 16:49 gmod2010workshop edited by julie
- (diff)
- 16:32 gmod2010workshop edited by julie
- (diff)
- 16:12 gmod2010workshop edited by julie
- (diff)
- 15:53 Changeset [22655] by rns
- Don't count subclass constraints when checking to see if constraint logic …
- 13:51 Changeset [22653] by contrino
- modmine web: object -> locatedOn
- 13:31 Changeset [22652] by rns
- Checkstyle fixes.
- 12:41 Changeset [22651] by dbutano
- the method getSelectedConstraint return "attribute" when the …
- 12:30 Changeset [22650] by mnw21
- More attempts to debug dataloader
- 12:29 Changeset [22649] by dbutano
- added a check
- 11:48 Changeset [22648] by mnw21
- More attempts to debug dataloader
- 11:34 gmod2010workshop edited by julie
- 11:24 Changeset [22647] by dbutano
- in the method onChangeAttributeOp document.getElementById() is used …
- 10:53 Changeset [22646] by julie
- eclipse warnings
- 10:33 Changeset [22645] by julie
- remove obsolete file, this should be in webapp/resources
- 10:21 Changeset [22644] by mnw21
- Solve concurrency problem
- 10:14 Changeset [22643] by julie
- formatting. the build throws an error saying that it can't find class * …
- 09:56 Changeset [22642] by dbutano
- If the operator is null, the contraint could be a lookup constraint
- 09:46 Changeset [22641] by contrino
- modmineweb: LocatedSequenceFeature? -> SequenceFeature?
- 09:40 Changeset [22640] by dbutano
- Fixed bug on pathcontraintmultivalue
- 09:33 Changeset [22639] by alex
- These tests moved into 05_constraints
- 09:31 Changeset [22638] by dbutano
- If the type is Boolean the input text (attributeValue) and the dropdown …
- 08:54 Changeset [22637] by dbutano
- Added PathConstraintMultiValue?
01/09/10:
- 21:33 Changeset [22636] by rns
- Fix DisplayConstraint? possible values. JSP cleanup.
- 20:53 Changeset [22635] by dbutano
- If the constraint is LOOKUP the input field is dispalyed
- 20:53 Changeset [22634] by dbutano
- Fixed some bugs (undefined properties)
- 20:47 Changeset [22633] by rns
- Remove some help messages, clean up JSP a little.
- 20:28 Changeset [22632] by dbutano
- Fixed some bugs (undefined properties)
- 19:40 Changeset [22631] by dbutano
- In the method setConstraint, if the constraint is a …
- 19:24 Changeset [22630] by alex
- A list of things to ignore when building the manifest
- 19:23 Changeset [22629] by alex
- the new build script, using Module::Build
- 19:22 Changeset [22628] by alex
- A place to put useful bits that are not code - eg the perldoc boilerplace
- 19:22 Changeset [22627] by alex
- Newest version
- 19:18 Changeset [22626] by alex
- Trying to fix the svn repo
- 19:17 Changeset [22625] by alex
- Trying to fix svn
- 19:09 Changeset [22624] by alex
- Trying to fix the repo
- 19:08 Changeset [22623] by alex
- trying to fix the repo
- 19:05 Changeset [22622] by alex
- Near total rewrite of the test suite
- 18:59 Changeset [22621] by alex
- Added doc boilerplate and fixed the build method so it actually provides …
- 18:57 Changeset [22620] by alex
- Now builds template factory correctly
- 18:57 Changeset [22619] by alex
- Inserted a hack to allow the Model to recognise data types as valid …
- 18:55 Changeset [22618] by alex
- Avoided use of ugly helper object for id attributes by just making an …
- 18:54 Changeset [22617] by alex
- Changed the synopsis
- 18:53 Changeset [22616] by alex
- Better illustration of results_with
- 18:52 Changeset [22615] by alex
- Defined a builder for handler
- 18:51 Changeset [22614] by alex
- Made it consume Serviced rather than defining service itself, and defined …
- 18:50 Changeset [22613] by alex
- Made logic_string an attribute, rather than storing data messily in the …
- 18:50 Changeset [22612] by alex
- Added builders for constraint_factory and handler
- 18:49 Changeset [22611] by alex
- Changed references to editable and switchable to is_editable and …
- 18:47 Changeset [22610] by alex
- Added validation for template specific needs, and changed references to …
- 18:47 Changeset [22609] by alex
- Made longDescription optional on output in the query element, and logic …
- 18:45 Changeset [22608] by alex
- Moved save and save_as_template here
- 18:44 Changeset [22607] by alex
- De-parameterised this role, now using lazy_build instead: prevents a bug …
- 18:38 Changeset [22606] by alex
- Moved save and save as template into more logical locations
- 18:37 Changeset [22605] by alex
- tyep_dict is now not an attribute, but a method that generates an …
- 18:36 Changeset [22604] by alex
- Changed names of editable and switchable to more readable 'is_editable' …
- 18:34 Changeset [22603] by alex
- Removed unused subroutine
- 18:34 Changeset [22602] by alex
- now only reports extra_value in the hash if there actually is one
- 18:33 Changeset [22601] by alex
- Changed editable to is_editable
- 18:32 Changeset [22600] by alex
- Improved message for QueryName? and coercion for TemplateFactory?
- 17:42 Changeset [22599] by rns
- Add IN and NOT_IN as constraint ops whenever there are possible values.
- 17:35 Changeset [22598] by rns
- Remove random word.
- 17:31 Changeset [22597] by mnw21
- Fix bug in data loader
- 17:12 Changeset [22596] by julie
- remove experimental dir
- 16:57 Changeset [22595] by dbutano
- Readded a missing modification (the lookup operator is not shown in the …
- 16:48 Changeset [22594] by julie
- don't write test file
- 15:35 Changeset [22593] by contrino
- modmine meta: added unit to time logs
- 15:22 Changeset [22591] by dbutano
- removed alert
- 15:22 Changeset [22590] by dbutano
- removed alert
- 15:19 Changeset [22589] by dbutano
- missing }
- 15:17 Changeset [22588] by julie
- move omim to experimental sources
- 15:11 Changeset [22586] by dbutano
- Readded a function removed by mistake
- 14:53 Changeset [22585] by dbutano
- Added methods to hide and show html components
- 14:51 Changeset [22583] by dbutano
- Added multiValueAttribute
- 14:51 Changeset [22584] by julie
- test fixes
- 14:49 Changeset [22582] by dbutano
- Added PathConstraintMultiValue?
- 14:47 Changeset [22581] by dbutano
- Removed code not used Added multivalue attribute
- 14:32 Changeset [22580] by dbutano
- Added functions for multiValue. Removed functions not used anymore
- 14:28 Changeset [22579] by julie
- test fixes, eclipse warnings
- 14:27 Changeset [22578] by dbutano
- Added PathConstraintMultiValue?
- 14:25 Changeset [22577] by dbutano
- Checkstyle
- 14:23 Changeset [22576] by dbutano
- Added some methods for MultiValueAttribute?
- 14:21 Changeset [22575] by dbutano
- Added some methods for MultiValueAttribute?
- 14:13 Changeset [22574] by rns
- Clean up links at bottom of template form. Refs #2167. Fixes #2344.
- 14:00 Changeset [22573] by dbutano
- Added PathConstraintMultiValue?
- 13:56 Changeset [22572] by julie
- set ontology term synonym.type, test fix
- 13:52 Changeset [22571] by dbutano
- Added attributes associated to the PathConstraintMultiValue?
- 13:51 Changeset [22570] by dbutano
- Added PathConstraintMultiValue?
- 13:51 Changeset [22569] by dbutano
- Added PathConstraintMultiValue?
- 13:47 Changeset [22568] by julie
- test fixes
- 13:38 Changeset [22567] by julie
- test fix
- 12:39 Changeset [22566] by julie
- updates to bulk download queries
- 12:31 Changeset [22565] by julie
- update download query
- 12:07 Changeset [22564] by julie
- more malaria updates
- 11:55 Changeset [22563] by julie
- eclipse warning
- 11:54 Changeset [22562] by julie
- update malariamine
- 11:48 Changeset [22561] by julie
- remove obsolete test
- 11:44 Changeset [22560] by julie
- load chromosome as feature instead of region.
- 11:28 Changeset [22559] by julie
- update search on modmine homepage
- 11:16 Changeset [22558] by rns
- Test isn't a struts test case.
- 11:11 Changeset [22557] by julie
- update search on modmine homepage
- 11:02 Changeset [22556] by rns
- Speed up writing resolver cache file.
- 10:44 Changeset [22555] by julie
- update test-all/dbmodel
- 10:03 Changeset [22554] by julie
- remove entry for deleted additions file
- 10:02 Changeset [22553] by julie
- remove Region
- 09:59 Changeset [22552] by julie
- remove Region
- 01:01 Changeset [22551] by rns
- Better message when lists/templates don't exist. Fixes #2315.
31/08/10:
- 23:58 Changeset [22550] by rns
- Remove log message.
- 18:54 Changeset [22549] by alex
- Implemented hid, unhide, make_required and make_optional - with a …
- 17:56 Changeset [22548] by alex
- Major rewrite of test suite
- 17:48 Changeset [22547] by alex
- Fixed bug due to wrong calling style in overridden method
- 17:47 Changeset [22546] by alex
- Added an error check to run_with to prevent changes to non-editable …
- 17:46 Changeset [22545] by alex
- Changed call to constraints to explicitly call for elements
- 17:45 Changeset [22544] by alex
- fixed a bug due to calling a method as a function.
- 17:45 Changeset [22543] by julie
- remove synonym updater
- 17:45 Changeset [22542] by mnw21
- ClassDescriptor? now caches the getType method
- 17:19 Changeset [22541] by rns
- Optional constraints now changed in constraint dialog instead of separate …
- 17:07 Changeset [22540] by rns
- Change default index directory.
- 16:55 Changeset [22539] by mnw21
- Merge model_update branch into trunk.
- 16:52 Changeset [22538] by mnw21
- Merge trunk onto branch. Again.
- 16:51 Changeset [22537] by mnw21
- Merge trunk into branch
- 16:30 Changeset [22536] by julie
- merge trunk into branch
- 16:15 Changeset [22535] by mnw21
- Synchronise the IntToIntMap? - possibly solve a bug in the data loader.
- 12:08 Changeset [22534] by alex
- Major refactoring/rewrite of pathquery perl api - please see Cookbook for …
- 11:56 Changeset [22533] by alex
- Added main factory class for gateway interaction with modules
- 11:55 Changeset [22532] by alex
- added documentation
- 11:55 Changeset [22531] by alex
- added documentation
- 11:54 Changeset [22530] by alex
- added documentation
- 11:47 Changeset [22529] by alex
- Improved formatting using pod styles
- 11:46 Changeset [22528] by alex
- changed documentation to match code-based constraint indexing rather than …
- 11:45 Changeset [22527] by alex
- added footer and footnote(1)
- 11:42 Changeset [22526] by rns
- Fix null pointer exception.
- 11:35 Changeset [22525] by rns
- Prevent some synonym creation.
- 10:57 Changeset [22524] by julie
- remove debug output
- 08:17 Changeset [22523] by rns
- Add attributes to CDNA.
29/08/10:
- 13:30 Changeset [22522] by rns
- Attempt to speed up expression level queries.
- 13:08 Changeset [22521] by rns
- Attempt to speed up expression level query.
- 11:34 Changeset [22520] by rns
- Add missing TranscriptRegions? collections.
- 11:04 Changeset [22519] by rns
- Specifically add submissions collection to CDNA, which isn't a …
28/08/10:
- 12:06 Changeset [22518] by rns
- Merge trunk onto pathquery_refactor branch.
- 11:52 Changeset [22517] by rns
- Fix compile error.
27/08/10:
- 18:00 Changeset [22516] by rns
- Prevent exception editing a constraint when not in template builder.
- 17:10 Changeset [22515] by julie
- remove link to keyword search on home page, clear example from quick …
- 16:59 Changeset [22514] by julie
- test fixes, checkstyle, eclipse warnings, don't write out test file
- 16:35 Changeset [22513] by julie
- restore optimised function
- 16:05 Changeset [22512] by rns
- Don't display LOOKUP in dropdown.
- 15:49 Changeset [22511] by julie
- more unneeded classes, add xrefs to precomputes
- 15:30 Changeset [22510] by rns
- Fix test for getBags(), use custom oss properties.
- 15:23 Changeset [22509] by julie
- remove some unneeded parent classes.
- 15:12 Changeset [22508] by julie
- remove region, we don't need it.
- 14:52 Changeset [22507] by julie
- more config update
- 14:26 Changeset [22506] by rns
- Create context sensitive help messages for constraints.
- 14:25 Changeset [22505] by rns
- Remove testmodel data objects that had multiple classes.
- 14:00 Changeset [22504] by julie
- more config changes
- 13:21 Changeset [22503] by julie
- test for null/empty values first
- 13:21 Changeset [22502] by julie
- update updater config
- 12:49 Changeset [22501] by contrino
- modminw web: corrected link to labels for embedded gbrowse images
- 11:43 Changeset [22500] by julie
- checkstyle, eclipse warnings
- 11:24 Changeset [22499] by fhu
- Galaxy - hide export feature option
- 11:02 Changeset [22498] by fhu
- SpanUpload? - minor changes on spanUploadOptions page
26/08/10:
- 17:29 Changeset [22497] by nils
- modmine submission/keyword search
- 15:47 Changeset [22496] by rns
- Comment out some code, merge didn't work correctly.
- 15:33 Changeset [22495] by rns
- Merged trunk into model_update branch;
- 15:23 Changeset [22494] by rns
- Partial update of bio/skeletons for new SO additions system.
- 15:22 Changeset [22493] by rns
- Eclipse warnings.
- 15:10 Changeset [22492] by nils
- improved list search, added index.temp.directory property
- 14:14 Changeset [22491] by julie
- eclipse warning
- 14:14 Changeset [22490] by julie
- test fix
- 14:04 Changeset [22489] by julie
- test fixes
- 13:48 Changeset [22488] by julie
- test fixes
- 13:38 Changeset [22487] by mnw21
- Removed a load of defunct logic from OptimiserCache, and switched to using …
- 13:37 Changeset [22486] by julie
- test fix
- 11:37 Changeset [22485] by julie
- add EST.overlappingESTSet to so terms. remove ESTs.overlappingESTsets …
- 11:04 Changeset [22484] by fhu
- ModMine? - changed download icon on project page as close ModMine? trac …
- 10:57 Changeset [22483] by julie
- process has_part relationship, which adds ESTs.overlappingESTsets
25/08/10:
- 18:55 Changeset [22482] by alex
- Initial checkin of API user manual
- 18:54 Changeset [22481] by alex
- Initial checkin of API user manual
- 15:40 Changeset [22480] by mnw21
- BagQueryRunner? now uses the new MultipleInBagConstraint? to improve …
- 12:29 Changeset [22479] by mnw21
- Created new MultipleInBagConstraint? for use by BagQueryRunner?. Refs #1986.
24/08/10:
- 16:37 Changeset [22478] by rns
- Ignore some more classes in index.
- 16:07 Changeset [22477] by julie
- add more to list of classes not to be indexed
- 15:01 Changeset [22476] by julie
- merge trunk into branch
- 12:56 Changeset [22475] by alex
- Version with style sheets
- 12:54 Changeset [22474] by rns
- Improved database property error message.
- 12:48 Changeset [22473] by fhu
- Galaxy - BED exporting function disabled
- 12:07 Changeset [22472] by julie
- checkstyle, but CSV reports in /build
- 12:07 Changeset [22471] by julie
- remove intron.transcript_region. we've removed this from SO, which means …
- 12:01 Changeset [22470] by mnw21
- Create new method in DynamicUtil?, and change a load of code to use it. …
- 11:50 Changeset [22469] by nils
- keyword search - more memory-efficient, list search
- 11:09 Changeset [22468] by julie
- set priority for MRNA.gene
- 11:08 Changeset [22467] by julie
- eclipse warning
- 10:47 Changeset [22466] by dbutano
- Same behavior if you select LIKE or NOT LIKE
- 10:47 Changeset [22465] by dbutano
- Same behavior if you select LIKE or NOT LIKE
- 10:35 Changeset [22464] by rns
- Some clean up of modMine SO terms.
- 10:17 Changeset [22463] by dbutano
- --
- 10:12 Changeset [22462] by dbutano
- fixed some details following unit test
- 10:06 Changeset [22461] by dbutano
- Removed a condition included in isExtraConstraint method
- 10:03 Changeset [22460] by dbutano
- Removed a condition included in isExtraConstraint method
- 10:01 Changeset [22459] by dbutano
- Unit Test for DisplayConstraint? class
23/08/10:
- 16:26 Changeset [22458] by rns
- Fade out constraint headings when disabled.
- 16:19 Changeset [22457] by julie
- checkstyle
- 16:17 Changeset [22456] by mnw21
- Stop using TypeUtil? where faster methods are available in generated …
- 16:13 Changeset [22455] by julie
- default to export headers. Refs #2217
- 16:12 Changeset [22454] by julie
- use RSS link for URL, not month/day so that news tile is valid for all RSS …
- 16:11 Changeset [22453] by julie
- example identifiers
- 16:07 Changeset [22452] by julie
- typo
- 15:32 Changeset [22451] by fhu
- Unique experiment feature count - changed font size
- 14:37 Changeset [22450] by julie
- change quicksearch to use new search
- 14:37 Changeset [22449] by julie
- fix conflicts in galaxy code when merged into branch
- 14:12 Changeset [22448] by mnw21
- Stop using TypeUtil? where faster methods are available in generated …
- 14:04 Changeset [22447] by fhu
- Galaxy - removed duplicated copyright info
- 13:55 Changeset [22446] by rns
- Case change of text.
- 13:30 Changeset [22445] by julie
- merge trunk into branch
- 13:15 Changeset [22443] by julie
- checkstyle, rename
- 13:14 Changeset [22442] by julie
- configure bag upload delimiters. Refs #2310
- 10:59 Changeset [22441] by nils
- keyword search bugfixes
22/08/10:
- 22:17 Changeset [22440] by julie
- add ensembl to feature.soterm priorities, sp
- 22:11 Changeset [22439] by julie
- update search terms for new model
- 11:45 Changeset [22438] by julie
- give uniprot priority over piano for gene.secondaryidentifier
- 11:44 Changeset [22437] by julie
- fix error msg
21/08/10:
- 09:27 Changeset [22436] by julie
- merge [21650] change into branch, I'm not sure how it was missed
- 08:38 Changeset [22435] by julie
- add protein binding site
20/08/10:
- 22:47 Changeset [22434] by julie
- reenable ensembl
- 22:03 Changeset [22433] by alex
- SO-terms now all have a reference to an Ontology item with the name …
- 18:36 Changeset [22432] by julie
- make CDNA a bioentity, key fix
- 18:12 Changeset [22431] by julie
- set priorities for soterm
- 18:10 Changeset [22430] by julie
- add interaction keys, remove ontology keys
- 18:08 Changeset [22429] by julie
- add intergenic region
- 18:07 Changeset [22428] by julie
- dataset.title to name
- 17:52 Changeset [22427] by julie
- don't create synonyms
- 17:09 Changeset [22426] by mnw21
- Move goFaster logic into ExportResultsIterator?. Refs #2330, #2334.
- 16:09 Changeset [22425] by fhu
- Galaxy - A bean for Galaxy exporter use
- 15:52 Changeset [22424] by julie
- use species and genus instead of abbreviation for organism lookup
- 15:42 Changeset [22423] by mnw21
- Removed temporary batch size matching stuff. Refs #2334.
- 15:34 Changeset [22422] by fhu
- Galaxy - bug fixed: duplication in path view
- 14:34 Changeset [22421] by mnw21
- Make results cache a little bit more intelligent. Refs #2334.
- 13:56 Changeset [22420] by julie
- ontology.title to name
- 13:30 Changeset [22419] by mnw21
- Use batches of different size when executing. Refs #2334.
- 12:46 Changeset [22418] by julie
- list to set
- 12:17 Changeset [22417] by julie
- list to set
- 12:07 Changeset [22416] by mnw21
- Limited reuse of ResultsBatches?. Refs #2334.
- 09:01 Changeset [22415] by julie
- remove organism.abbreviation
19/08/10:
- 20:53 Changeset [22414] by julie
- remove synonym updater postprocess
- 18:42 Changeset [22413] by julie
- sp
- 18:11 Changeset [22412] by julie
- sp
- 16:39 Changeset [22411] by fhu
- Experiment Feature Counts - add unique counts for features
- 16:31 Changeset [22410] by mnw21
- Make batch size certain. Refs #2334.
- 15:51 Changeset [22409] by julie
- restore deletion key, this was lost when deletions were renamed
- 14:44 Changeset [22408] by mnw21
- First stage in making results cache more intelligent - separate batches …
- 13:36 Changeset [22407] by julie
- allow config to force some collections to exist
- 12:14 Changeset [22406] by julie
- key, test fixes, checkstyle
- 11:42 Changeset [22405] by julie
- don't create synonym for identifier, remove unneeded keys, dont create …
- 11:02 Changeset [22404] by rns
- Fix generics compile error.
- 10:38 Changeset [22403] by julie
- key fix, don't create ontology
- 10:14 Changeset [22402] by julie
- dont create ontology, allow converter to overwrite ontology
- 09:31 Changeset [22401] by julie
- don't store ontology
18/08/10:
- 20:45 Changeset [22400] by julie
- disable ensembl for the moment
- 19:45 Changeset [22399] by julie
- add intergenic region
- 17:34 Changeset [22398] by mnw21
- Make GalaxyController? compile
- 16:57 Changeset [22397] by mnw21
- Merge trunk into branch
- 16:36 Changeset [22396] by mnw21
- Move GalaxyController? to bio
- 16:27 Changeset [22395] by julie
- test fixes, allow override of ontology
- 16:14 Changeset [22394] by fhu
- Galaxy - refactory
- 15:54 Changeset [22393] by julie
- set chromosome structure variation as a sequence feature because we're …
- 15:50 Changeset [22392] by julie
- don't create synonyms for identifier fields, don't create ontology unless …
- 15:11 Changeset [22391] by julie
- compile error. needs javadoc
- 15:08 Changeset [22390] by julie
- test fixes
- 14:46 Changeset [22389] by julie
- set chromosome structure variation as a sequence feature because we're …
- 14:25 Changeset [22388] by dbutano
- Use the Convert Employees to Managers template, constrain employee to be …
- 14:19 Changeset [22387] by julie
- fix compile errors temporarily, fhu is going to refactor these
- 14:17 Changeset [22386] by dbutano
- Use the Convert Employees to Managers template, constrain employee to be …
- 14:15 Changeset [22385] by julie
- merge trunk into branch
- 14:09 Changeset [22384] by julie
- test fixes
- 14:04 Changeset [22383] by dbutano
- Use the Convert Employees to Managers template, constrain employee to be …
- 14:03 Changeset [22382] by dbutano
- Use the Convert Employees to Managers template, constrain employee to be …
- 14:02 Changeset [22381] by dbutano
- Use the Convert Employees to Managers template, constrain employee to be …
- 13:56 Changeset [22380] by julie
- don't create synonyms for key fields in flybase, but create synonyms for …
- 13:48 Changeset [22379] by julie
- test fix, remove synonym.type, don't print test file
- 13:39 Changeset [22378] by julie
- test fix, add key, don't print test file
- 13:07 Changeset [22377] by julie
- remove unneeded keys, added SO and GO
- 12:55 Changeset [22376] by rns
- Fixed some Javadoc.
- 12:20 Changeset [22375] by fhu
- Galaxy - disable unchecked feature radio button while making an ajax call
- 11:52 Changeset [22374] by nils
- fixed keyword search problems with java 1.6
- 11:48 Changeset [22373] by rns
- Remove unused import.
- 11:37 Changeset [22372] by julie
- intron key
- 11:34 Changeset [22371] by julie
- test fixes, updates, checkstyle
- 11:05 Changeset [22370] by julie
- test fixes
- 10:57 Changeset [22369] by julie
- don't store synonyms for protein/gene in GO
17/08/10:
- 22:57 Changeset [22368] by julie
- add term
- 19:00 Changeset [22367] by fhu
- Galaxy - genome build changed from 'db' to 'dbkey'
- 17:42 Changeset [22366] by julie
- remove Relation from list of classes not tracked
- 17:13 Changeset [22365] by julie
- set priority for sequence feature so term for modmine
- 17:11 Changeset [22364] by julie
- sort keys file for easier reading
- 16:58 Changeset [22363] by mnw21
- Fix for bug introduced in [22295], where incorrect indexes were being …
- 16:08 Changeset [22362] by fhu
- Galaxy - trim genome build string
- 16:01 Changeset [22361] by julie
- throw an error on exception, remove obsolete map
- 16:00 Changeset [22360] by julie
- sort file for readability
- 16:00 Changeset [22359] by julie
- remove obsolete methods
- 15:23 Changeset [22358] by julie
- remove method, use static method instead
- 14:55 Changeset [22357] by julie
- remove some duplicate entries in model XML
- 14:49 Changeset [22356] by julie
- remove MicroarrayOligo? from changes list, we are leaving as-is
- 14:37 Changeset [22355] by fhu
- Galaxy - added some additional features to the webpages
- 14:22 Changeset [22354] by dbutano
- Clicking 'Edit Query' the null constraints aren't displayed in the query …
- 14:19 Changeset [22353] by dbutano
- Clicking 'Edit Query' the null constraints aren't displayed in the query …
- 14:19 Changeset [22352] by dbutano
- Clicking 'Edit Query' the null constraints aren't displayed in the query …
- 13:25 Changeset [22351] by julie
- define GO and SO keys
- 12:48 Changeset [22350] by mnw21
- Ignores
- 12:45 Changeset [22349] by mnw21
- Improve performance and correctness of data loader
- 12:43 Changeset [22348] by fhu
- Experiment feature counts duplication fixed
- 12:39 Changeset [22347] by julie
- merge trunk into branch
- 12:22 Changeset [22346] by julie
- add gene and binding_site
- 12:22 Changeset [22345] by julie
- remove duplicate key, synonym.type
- 12:03 Changeset [22344] by julie
- sort file to make it easier to read
- 12:02 Changeset [22343] by julie
- update modmine to new model
- 11:46 Changeset [22342] by julie
- set different keys for GO and SO terms. GO needs to use the identifier. …
- 10:32 Changeset [22341] by dbutano
- Clicking 'start building template query' doesn't enable …
- 10:32 Changeset [22340] by dbutano
- Clicking 'start building template query' doesn't enable …
- 10:28 Changeset [22339] by julie
- test fix, don't create duplicate ontologies
- 10:21 Changeset [22338] by fhu
- Galaxy - Bug fixed
- 10:07 Changeset [22337] by julie
- remove duplicate entry, intron is in SO
- 10:07 Changeset [22336] by julie
- test fixes
- 10:06 Changeset [22335] by julie
- set priorities to resolve some SO conflicts
16/08/10:
- 20:49 Changeset [22334] by julie
- set priority for gene.soterm
- 16:31 Changeset [22333] by julie
- remove synonym.type
- 16:13 News edited by julie
- (diff)
- 16:12 News edited by julie
- 15:59 Changeset [22332] by mnw21
- Merging keyword-search branch into trunk
- 15:18 Changeset [22331] by julie
- fix modmine SO terms - remove obsolete terms, fix spelling
- 15:05 Changeset [22330] by nils
- keyword search faceting
- 15:03 Changeset [22329] by mnw21
- Merge trunk into branch
- 14:53 Changeset [22328] by mnw21
- Merge trunk into branch
- 14:43 Changeset [22327] by nils
- updated bobo to 2.5.0, improved keyword search, added MULTI facets
- 14:42 Changeset [22326] by julie
- remove synonym.type
- 14:42 Changeset [22325] by julie
- remove so additions
- 14:31 Changeset [22324] by julie
- change default log location to be the home directory
- 14:24 Changeset [22323] by julie
- fix path
- 14:21 Changeset [22322] by julie
- fix path
- 14:07 Changeset [22321] by julie
- fix synonym key in uniprot, type has been deleted
- 13:50 Changeset [22320] by julie
- merge trunk into branch
- 13:46 Changeset [22319] by julie
- allow some config on results table - doNotTruncate. Display images too.
- 12:32 Changeset [22318] by fhu
- Galaxy - Code clean up
- 12:03 Changeset [22317] by fhu
- Galaxy - change on Welcome Message
- 10:46 Changeset [22316] by fhu
- Galaxy - export to Galaxy function
- 10:14 Changeset [22315] by fhu
- Galaxy - deprecated, replaced by galaxyExportOptions, …
- 10:03 Changeset [22314] by julie
- fix chado storing duplicate SO terms
13/08/10:
- 17:06 Changeset [22313] by julie
- update modmine SO term list
- 17:05 Changeset [22312] by julie
- update modmine SO term list
- 16:17 Changeset [22311] by julie
- so term list for modmine
- 15:43 Changeset [22310] by julie
- keep track of SO terms created so converter can overwrite the default …
- 15:18 Changeset [22309] by rns
- Optional constraint text size.
- 14:48 Changeset [22308] by rns
- Constraint titles come from DisplatConstraint?.
- 14:48 Changeset [22307] by rns
- Fix left spacing on template form.
- 14:03 Changeset [22306] by julie
- don't truncate goterm.description on report page
- 13:49 Changeset [22305] by julie
- checkstyle, generics
- 13:33 Changeset [22304] by julie
- make ontology available so converters can override default SO term
- 13:09 Changeset [22303] by julie
- generics, checkstyle
- 11:35 Changeset [22302] by julie
- update bag queries to search xrefs then synonyms, remove isPrimary
- 11:33 Changeset [22301] by rns
- State that XML parsing error is with project.xml file. Fixes #2318.
- 11:26 Changeset [22300] by julie
- config for xrefs
- 10:30 Changeset [22299] by julie
- move ontology to processor to prevent duplicate ontology objects
- 10:29 Changeset [22298] by julie
- test fix
- 10:12 Changeset [22297] by julie
- checkstyle. the file is still 1000 lines over the limit though
- 10:08 Changeset [22296] by mnw21
- Checkstyle
- 10:06 2010/08/13/10.05 edited by rns
12/08/10:
- 16:33 Changeset [22295] by mnw21
- CreateIndexesTask? now drops everything in sight, rather than just its own …
- 16:17 Changeset [22294] by rns
- Corrected anopheles expression file location.
- 16:13 Changeset [22293] by julie
- remove synonyms, test fixes
- 15:22 Changeset [22292] by julie
- checkstyle
- 15:19 Changeset [22291] by julie
- gff3 converter extends data converter, so now all objects automatically …
- 14:16 Changeset [22290] by mnw21
- Cache IQL in Query object. Refs #2346.
- 13:44 Changeset [22289] by julie
- update bio testmodel to use new SO file, updated keys
- 13:40 Changeset [22288] by mnw21
- Fix for Dataloader merging Clobs. Refs #2349.
- 13:40 Changeset [22287] by julie
- fix dataset key
- 13:06 Changeset [22286] by mnw21
- Fix fasta tests
- 12:50 Changeset [22285] by mnw21
- Fixes to Fasta
- 11:28 Changeset [22284] by mnw21
- Code review of data loading stuff
- 10:57 Changeset [22283] by julie
- allow dataset to assigned in converter
- 10:34 Changeset [22282] by julie
- remove obsolete methods
- 10:32 Changeset [22281] by julie
- use new synonym method, remove obsolete reference
- 09:54 Changeset [22280] by julie
- restore ensembl
- 09:52 Changeset [22279] by julie
- key fix
- 08:56 Changeset [22278] by rns
- Attempt to fix Fasta loading for new Clob objects.
11/08/10:
- 17:44 Changeset [22277] by alex
- Made changes to reflect changes to the model
- 17:19 Changeset [22276] by julie
- don't duplicate attributes in project files
- 16:36 Changeset [22275] by julie
- set ontology so terms merge
- 16:03 Changeset [22274] by julie
- checkstyle, generics
- 15:39 Changeset [22273] by julie
- change name to abberationSOterms
- 15:26 Changeset [22272] by julie
- generics
- 14:04 Changeset [22271] by julie
- checkstyle
- 13:58 Changeset [22270] by alex
- A role to ad the ability to output a query as an example script.
- 13:57 Changeset [22269] by alex
- Field has been abstracted out to a role so that it cannot be independently …
- 13:19 Changeset [22268] by julie
- don't create synonyms for identifier fields, remove computational …
- 11:37 Changeset [22267] by julie
- remove feature type from config
10/08/10:
- 17:21 Changeset [22266] by mnw21
- Fix major bug in data tracker - if we spot a higher version number than …
- 15:45 Changeset [22265] by julie
- add SOterm to summary config
- 15:31 Changeset [22264] by julie
- remove debug output
- 15:26 Changeset [22263] by julie
- remove synonym.isprimary
- 15:26 Changeset [22262] by julie
- revert accidental change, keep ensembl out for now
- 15:25 Changeset [22261] by julie
- move sequencefeature.symbol to bioentity
- 14:01 Changeset [22260] by mnw21
- Test for error in ticket. Refs #341.
- 13:21 Changeset [22259] by julie
- remove synonym.type
- 12:33 Changeset [22258] by julie
- sp
- 12:29 Changeset [22257] by rns
- Template constraints that are switched off don't get included in the …
- 09:47 Changeset [22256] by julie
- revert [22208], transcripts don't have UTRs
09/08/10:
- 18:47 Changeset [22255] by alex
- Now a role in Query::Roles
- 18:43 Changeset [22254] by alex
- Now a role in InterMine::Roles
- 18:33 Changeset [22253] by alex
- Changed to InterMine::LogicalSet?
- 17:58 Changeset [22252] by alex
- Fixed longDescription and title parsing
- 17:56 Changeset [22251] by alex
- Added run_with and url methods
- 17:56 Changeset [22250] by alex
- Fixed longDescription parsing
- 17:55 Changeset [22249] by alex
- Inconsequential whitespace change
- 17:54 Changeset [22248] by alex
- reformatting for legibility
- 17:53 Changeset [22247] by alex
- refactored out results methods to one
- 17:50 Changeset [22246] by alex
- Constraint classes now self-select
- 17:49 Changeset [22245] by alex
- now handles own error codes, and the three result methods have been …
- 17:48 Changeset [22244] by alex
- added method for self-selecting constraint classes
- 17:47 Changeset [22243] by alex
- now uses InterMine::TypeLibrary?
- 17:46 Changeset [22242] by alex
- elevated to a general role from a constraint-specific one
- 17:45 Changeset [22241] by alex
- replaces Constraint::LogicalSet?
- 17:44 Changeset [22240] by alex
- replaced by new code at InterMine::Query
- 17:44 Changeset [22239] by alex
- replaced by new code at Query::Template
- 17:43 Changeset [22238] by alex
- removed in advance of replacement by Query::Saved
- 17:42 Changeset [22237] by alex
- added override to to_string, and provided a query_hash method
- 17:40 Changeset [22236] by alex
- replaced by new code at InterMine::Service
- 17:40 Changeset [22235] by alex
- elevated to a general class at InterMine::LogicalSet?
- 17:38 Changeset [22234] by alex
- removed in advance of replacement by Query::Saved
- 17:37 Changeset [22233] by alex
- replaced by new code at Query::Template
- 17:37 Changeset [22232] by alex
- Delegated more responsibilities for handling responses to ResultIterator?
- 17:35 Changeset [22231] by alex
- allowed values to be edited
- 17:33 Changeset [22230] by alex
- added options so it could be consumed by Service.pm
- 17:32 Changeset [22229] by alex
- elevated to a general role from a constraint one
- 17:32 Changeset [22228] by alex
- replaced by new code at InterMine::Query
- 17:31 Changeset [22227] by alex
- added more types
- 17:31 Changeset [22226] by alex
- added url method
- 17:30 Changeset [22225] by alex
- moved to TypeLibrary?
- 17:16 Changeset [22224] by julie
- remove synonym.type
- 17:04 Changeset [22223] by julie
- don't create duplicate locations on scaffolds
- 16:57 PostProcessing edited by julie
- (diff)
- 16:51 Changeset [22222] by julie
- update overlap config
- 16:45 Changeset [22221] by julie
- set UTR.transcripts and CDS.transcript
- 16:45 Changeset [22220] by mnw21
- Fix bug where data was missing from outer joins. Bug was due to …
- 16:37 Changeset [22219] by julie
- catch error if wrong postprocess is run
- 16:35 Changeset [22218] by julie
- don't decapitalise acronyms
- 16:18 Changeset [22217] by rns
- Checkstyle fixes.
- 16:00 Changeset [22216] by nils
- keyword search moved to intermine project and made generic
- 15:31 Changeset [22215] by julie
- remove obsolete evidence collection
- 15:26 Changeset [22214] by julie
- checkstyle, eclipse warnings
- 15:23 Changeset [22213] by julie
- checkstyle
- 14:52 ComingSoonSearch edited by rns
- (diff)
- 14:50 Talks edited by rns
- (diff)
- 14:38 2010/08/09/14.35 edited by rns
- 14:35 ComingSoonSearch edited by rns
- (diff)
- 14:32 ComingSoonSearch edited by rns
- (diff)
- 14:32 ComingSoonSearch edited by rns
- (diff)
- 14:28 Changeset [22212] by mnw21
- Stop preventing people from backtracking over a reverse collection
- 14:28 ComingSoonSearch edited by rns
- (diff)
- 14:17 ComingSoonSearch edited by rns
- 12:10 Changeset [22211] by julie
- fix compile error
- 12:04 Changeset [22210] by julie
- checkstyle, generics
- 10:39 Changeset [22209] by julie
- sp
- 10:15 Changeset [22208] by julie
- change to transcript.UTRs
- 09:49 Changeset [22207] by julie
- change to transcript.UTRs
- 09:45 Changeset [22206] by julie
- remove ensembl temporarily until XML is fixed
- 09:44 Changeset [22205] by julie
- change to transcript.UTRs
07/08/10:
- 22:04 Changeset [22204] by julie
- prevent conflicts between core model and generated SO additions. …
06/08/10:
- 20:42 Changeset [22203] by alex
- stub of handler for reading in saved queries
- 20:41 Changeset [22202] by alex
- model now as an atribute, stubs of template functionality
- 20:41 Changeset [22201] by alex
- working implementation of Templates
- 20:40 Changeset [22200] by alex
- working implementation of subclass checks
- 20:39 Changeset [22199] by alex
- working implementation of a template handler for parsing templates
- 20:38 Changeset [22198] by alex
- moved from Role to Roles for consistent naming
- 20:35 Changeset [22197] by alex
- working implementation of constraint roles
- 20:34 Changeset [22196] by alex
- working implementation of basic pathquery features
- 20:33 Changeset [22195] by alex
- working implementation which coerces from a Str
- 20:33 Changeset [22194] by alex
- Consistent naming scheme for Roles (cf Query/Roles and InterMine/Roles?)
- 20:32 Changeset [22193] by alex
- better typing
- 20:31 Changeset [22192] by alex
- a better type library (better naming, less messy, more maintainable, less …
- 16:54 Changeset [22191] by julie
- put relationships right way around
- 15:53 Changeset [22190] by rns
- Change optional constraints in templates to ON | OFF buttons.
- 15:52 Changeset [22189] by rns
- Checkstyle fix.
- 14:21 Changeset [22188] by julie
- remove redundant relationships, both ends
- 13:53 Changeset [22187] by julie
- allow config to specify partOfs to be many-to-many instead of many-to-one
- 11:00 Changeset [22186] by mnw21
- Fix bug in query parser, stop generating irrelevant subclass constraints …
- 09:57 Changeset [22185] by julie
- ontology config
05/08/10:
- 19:17 Changeset [22184] by alex
- Changes to handle sub-classed template constraints
- 19:16 Changeset [22183] by alex
- initial check in of new path-description class
- 19:16 Changeset [22182] by alex
- trivial whitespace changes
- 19:15 Changeset [22181] by alex
- added functionality for dealing with subclass constraints
- 19:14 Changeset [22180] by alex
- Added subclassing template constraints
- 19:12 Changeset [22179] by alex
- added validation functions
- 19:12 Changeset [22178] by alex
- initial checkin of new join class
- 19:12 Changeset [22177] by alex
- initial checkin of new service module
- 19:10 Changeset [22176] by alex
- initial check in of sort order class
- 19:09 Changeset [22175] by alex
- added checks for subclass constraints
- 19:08 Changeset [22174] by alex
- inital check in of general path feature module
- 19:07 Changeset [22173] by alex
- initial check in of new query modules
- 19:07 Changeset [22172] by alex
- initial check in of Moose type library
- 19:06 Changeset [22171] by alex
- initial checkin of general role modules
- 19:05 Changeset [22170] by alex
- Initial check in of new constraint modules
- 19:04 Changeset [22169] by alex
- Initial check in of new service modules
- 19:03 Changeset [22168] by alex
- initial check in of new constrain modules
- 19:02 Changeset [22167] by alex
- Initial Check in of new query modules
- 17:26 Changeset [22166] by julie
- set reverse references when building so_additions.xml
- 17:25 Changeset [22165] by julie
- don't merge on location, that would take too long
- 16:12 Changeset [22164] by rns
- Layout tweaks.
- 15:46 Changeset [22163] by rns
- Show template constraint help in correct place, fetch from …
- 13:06 Changeset [22162] by julie
- set references and collections
- 12:58 Changeset [22161] by julie
- remove entries that should be in so_additions
- 12:57 Changeset [22160] by rns
- Show the constraint label for LOOKUP constraints when editing templates.
- 12:44 Changeset [22159] by julie
- rename transposition to chromosomal_transposition to match the SO term and …
- 12:42 Changeset [22158] by julie
- checkstyle, fix error msg
- 12:40 Changeset [22157] by julie
- improve error msg
- 12:40 Changeset [22156] by julie
- checkstyle
- 12:38 Changeset [22155] by julie
- rm additions file, this should all be in the core model
- 12:38 Changeset [22154] by julie
- checkstyle
- 12:35 Changeset [22153] by julie
- remove debug output
- 12:21 Changeset [22152] by rns
- Show constraint descriptions in template form.
- 12:21 Changeset [22151] by rns
- Remove some commented code.
- 12:17 Changeset [22150] by rns
- Eclipse classpath fix.
- 11:44 Changeset [22149] by mnw21
- Clobs are now used properly for sequence objects. Refs #19.
04/08/10:
- 15:47 Changeset [22148] by julie
- add location key so scaffold locations merge
- 14:42 Changeset [22147] by julie
- update uniprot to configure which xrefs to create
- 14:09 Changeset [22146] by julie
- fix gbrowse msg name
Note: See TracTimeline for information about the timeline view.
