Timeline


and

Oct 3, 2012:

10:32 PM Changeset [1013] by freek.de.bruijn@…
* Added three unit tests for the ValidationInterceptor? class. * Added …
10:26 PM Changeset [1012] by freek.de.bruijn@…
Some reformatting of the code and removed some whitespace.
10:22 PM Changeset [1011] by freek.de.bruijn@…
Added @SuppressWarnings?("unused") for private constructor and removed …
10:02 PM Changeset [1010] by freek.de.bruijn@…
Added Eclipse project files to the svn:ignore properties for five …
9:35 AM Ticket #39 (Takedown message) closed by kees.burger@…
fixed: Added the takedown message as provided by Christine. The email address …
9:33 AM Changeset [1009] by kees.burger@…
OPS takedown message (might need another email address)
8:16 AM WikiStart edited by rob.hooft@…
(diff)
6:39 AM Ticket #115 (Add apache2 license reference to all source files) created by rob.hooft@…
Needs a (possibly small) discussion about the license header format, …
12:03 AM Changeset [1008] by freek.de.bruijn@…
Added simple unit tests for BootstrapConceptEnvelopImpl?.

Sep 28, 2012:

10:40 AM Changeset [1007] by kees.burger@…
tweaked the search limit modification updated unit test
10:34 AM Ticket #114 (Redundant deployment) created by rob.hooft@…
We have to make sure that "switchover" is quick in case of a server …
9:16 AM Changeset [1006] by kees.burger@…
Added checkstyle compliance restriction on build

Sep 27, 2012:

9:46 AM Ticket #113 (Refactor neo4j usage from embedded to server) created by kees.burger@…
For the ease of deployment/maintenance, the standalone version of …
9:19 AM Ticket #112 (Test virtuoso jdbc driver) created by kees.burger@…
Try to use the virtuoso (open source version?) jdbc driver to …

Sep 26, 2012:

1:39 PM Ticket #34 (Make appointment with hosting party) closed by kees.burger@…
fixed: Appointment is planned.
1:37 PM Ticket #30 (Configure deployment to deploy as root application) closed by kees.burger@…
wontfix: Since it is our internal testing deployment, we are happy with a …
1:23 PM Changeset [1005] by freek.de.bruijn@…
Improved unit test for generateLinksets with more URLs and checks of …
1:05 AM Changeset [1004] by freek.de.bruijn@…
Added overloaded version of generateLinksets: public static void …
12:51 AM Changeset [1003] by freek.de.bruijn@…
Added initial version of unit test for generateLinksets.

Sep 25, 2012:

11:26 PM Changeset [1002] by freek.de.bruijn@…
* Added unit test for solrReindexDatabase (including …

Sep 24, 2012:

8:41 AM Changeset [1001] by freek.de.bruijn@…
Added normal node and empty node to testFindEncodingErrorStrings.
12:25 AM Changeset [1000] by freek.de.bruijn@…
Added common-util dependency for tests.
12:08 AM Changeset [999] by freek.de.bruijn@…
* Added Mockito 1.9 dependency. * Changed JUnit version from 3.8.1 to …

Sep 23, 2012:

11:47 PM Changeset [998] by freek.de.bruijn@…
Created a first version of UtilRunner? unit tests (the famous class …

Sep 21, 2012:

2:45 PM Ticket #111 (Fill language table) created by rob.hooft@…
2:45 PM Ticket #110 (User table) created by rob.hooft@…
2:44 PM Ticket #109 (User Class) created by rob.hooft@…
2:44 PM Ticket #108 (Branch Table) created by rob.hooft@…
Get all the information together that is needed about a Branch Needs …
2:43 PM Ticket #107 (Access Rights) created by rob.hooft@…
Create a list of access rights needed for ConceptWiki?
2:42 PM Ticket #106 (UI: Add label) created by rob.hooft@…
2:42 PM Ticket #105 (Block users) created by rob.hooft@…
2:41 PM Ticket #104 (Block IP) created by rob.hooft@…
2:41 PM Ticket #103 (Stresstest) created by rob.hooft@…
A clear definition of ‘fast enough’ is still pending.
2:40 PM Ticket #102 (Thesaurus generation) created by rob.hooft@…
As a user of the machine usable resource, I want to be able to …
2:40 PM Ticket #101 (RDF output) created by rob.hooft@…
As a user of the machine readable resource, I want an RDF output for …
2:39 PM Ticket #100 (OPS branch) created by rob.hooft@…
This customer needs to use the conceptwiki to model his RDF for his …
2:38 PM Ticket #99 (Term to url) created by rob.hooft@…
2:38 PM Ticket #98 (OPS vocabulary import) created by rob.hooft@…
2:38 PM Ticket #97 (OPS updating concepts) created by rob.hooft@…
Adding concept definitely, updating existing concepts probably.
2:37 PM Ticket #96 (Merge concepts) created by rob.hooft@…

Sep 20, 2012:

10:19 AM Ticket #95 (Split merged concepts) created by rob.hooft@…
10:19 AM Ticket #94 (Predicate constraints) created by rob.hooft@…
10:18 AM Ticket #93 (Display numeric ambiguity next to each term) created by rob.hooft@…
10:18 AM Ticket #92 (Semi-non-opaque identifiers) created by rob.hooft@…
The product owner sees this feature as very important
10:16 AM Ticket #91 (Imported homologene) created by rob.hooft@…
The script that reads the Homologene database for homologous genes can …
10:14 AM Ticket #90 (Genomic location triples) created by rob.hooft@…
Erik van Mulligen uses the structure of a variant as developed in …
10:14 AM Ticket #89 (Import ENSEMBL) created by rob.hooft@…
10:13 AM Ticket #88 (meaning multiplicity) created by rob.hooft@…
10:13 AM Ticket #87 (Mark or avoid "april fools" articles.) created by rob.hooft@…
10:10 AM Ticket #86 (generic export interface) created by rob.hooft@…
10:10 AM Ticket #85 (Deletion of a concept in a branch) created by rob.hooft@…
Remove duplication of history in the graph
10:09 AM Ticket #84 (Correct language) created by rob.hooft@…
As a conceptwiki user, I would like to see species names having the …
10:08 AM Ticket #83 (Hide a person) created by rob.hooft@…
10:01 AM Ticket #82 (Separate person from class of person) created by rob.hooft@…
A profession or other class of person should be separate from a …
9:59 AM Ticket #81 (Alert community owners) created by rob.hooft@…
Alert community owners if one of their concepts has been changed.
9:58 AM Ticket #80 (Change preferred term) created by rob.hooft@…
9:58 AM Ticket #79 (sub-thesaurus Extractor) created by rob.hooft@…
Use case from Barend for Thompson: They would like to have all …
9:57 AM Ticket #78 (Add wikipathways) created by rob.hooft@…
9:57 AM Ticket #77 (Un-claim ownership) created by rob.hooft@…
9:57 AM Ticket #76 (Import neurolex data) created by rob.hooft@…
9:56 AM Ticket #75 (License selection) created by rob.hooft@…
It needs a license: choose it, add a reference to the code, and open …
9:18 AM Ticket #74 (Add relationship concept) created by rob.hooft@…
ice#134
9:17 AM Ticket #73 (Change relationships in storage layer) created by rob.hooft@…
ice#133
9:16 AM Ticket #72 (lark / OPS integration) created by rob.hooft@…
ice#110
9:15 AM Ticket #71 (triple history) created by rob.hooft@…
ice#62, 5 points
9:15 AM Ticket #70 (Update the update script to be able to go to the latest UMLS release, ...) created by hailiang.mei@…
refactor the existing UMLS import script to handle updates
9:14 AM Ticket #69 (Editing concepts) created by rob.hooft@…
ice#47
9:10 AM Ticket #68 (API: Revert history) created by rob.hooft@…
ice#28
9:09 AM Ticket #67 (History Table) created by rob.hooft@…
ice#8, 3 points
9:08 AM Ticket #66 (Define concept as relationship/predicate) created by rob.hooft@…
ice#137
9:07 AM Ticket #65 (Replay History) created by rob.hooft@…
ice#18, 3 points
9:07 AM Ticket #64 (Define relationship restrictions) created by rob.hooft@…
ice#138
9:05 AM Ticket #63 (Add relationships to concepts) created by rob.hooft@…
ice#140
9:03 AM Ticket #62 (Edit concept relations) created by rob.hooft@…
ice#141
9:03 AM Ticket #61 (Show relationship with species) created by rob.hooft@…
ice#142
9:02 AM Ticket #60 (SP import merge problem) created by rob.hooft@…
SP imports do not always merge with existing UMLS concepts ice#107, 3 …
9:01 AM Ticket #59 (Concept merging) created by rob.hooft@…
SP concepts are not being merged with UMLS: e.g.: …

Sep 19, 2012:

5:37 PM Ticket #58 (when a SP concept is merged with a UMLS concept, it should also ...) created by rob.hooft@…
ice#114, 1 point
5:36 PM Ticket #57 (after fixing the import problems: rebuild the CW database) created by rob.hooft@…
ice#115, 2 points
5:34 PM Ticket #56 (resolve CW URI / UUID) created by rob.hooft@…
ice#99, 2 points
5:33 PM Ticket #55 (Revert history) created by rob.hooft@…
ice#25, 3 points
5:31 PM Ticket #54 (functional test of CW plugin) created by rob.hooft@…
ice#109, 2 points
5:30 PM Ticket #53 (separate search from existing service) created by rob.hooft@…
ice#118, 3 points
5:29 PM Ticket #52 (lucene search service) created by rob.hooft@…
ice#117, 2 points
5:28 PM Ticket #51 (github branch merge) created by rob.hooft@…
ice#123, 1 point
5:27 PM Ticket #50 (export mappings) created by rob.hooft@…
ice#120, 1 point
5:27 PM Ticket #49 (automatically create void descriptor) created by rob.hooft@…
ice#121, 1 point
5:26 PM Ticket #48 (Handle branch id through the service layers) created by rob.hooft@…
The highest level service layer exposes methods that accept the branch …
5:25 PM Ticket #47 (update sp import with mappings) created by rob.hooft@…
ice#119, 2 points
5:24 PM Ticket #46 (sp generic protein to umls mapping) created by rob.hooft@…
ice#125, 1 point
5:23 PM Ticket #45 (sp to umls gene mapping) created by rob.hooft@…
ice#124, 1 point
5:22 PM Ticket #44 (preferred term should be based on branch hierarchy) created by rob.hooft@…
base the preferred term on a (hard coded) hierarchy of branches, …
5:20 PM Ticket #43 (Show triple history) created by rob.hooft@…
A user should be able to see in the website when a triple was created …
9:52 AM Ticket #42 (revive PubMed preprocessing scripts) created by hailiang.mei@…
1:47 AM Changeset [997] by freek.de.bruijn@…
Moved MAX_BRANCH_ID from ValidationUtilityImpl? to ValidationUtility?.
1:35 AM Changeset [996] by freek.de.bruijn@…
Added 6 unit tests: testNotationForValidStringWithoutSources, …

Sep 18, 2012:

2:45 PM Changeset [995] by kees.burger@…
Disabled security since it is not used
2:11 PM Changeset [994] by kees.burger@…
Reformatted paragraphs and added link to the ws description
1:23 PM Changeset [993] by freek.de.bruijn@…
Added testGetPreferredLabelFromWithValidInput and testChangeSetIsEmpty.
1:22 PM Changeset [992] by freek.de.bruijn@…
Minor change to changeSetIsEmpty return statement.

Sep 17, 2012:

11:51 PM Changeset [991] by freek.de.bruijn@…
Expanded test to increase Branch Coverage (Conditionals).
4:51 PM Changeset [990] by kees.burger@…
Draft API description page
4:50 PM Changeset [989] by kees.burger@…
Quick change for welcome-file, changed servlet path to /concept/ since …
4:48 PM Changeset [988] by david.vanenckevort@…
* Added stub License and Take down pages.
3:52 PM Changeset [987] by david.vanenckevort@…
* Removed unused classes from old experimental code * Enabled both the …
10:11 AM Changeset [986] by david.vanenckevort@…
* Removed deprecated LiteConcept?
12:14 AM Changeset [985] by freek.de.bruijn@…
Added unit tests for UrlImpl?.
12:06 AM Changeset [984] by freek.de.bruijn@…
Added unit tests for equals, hashCode and toString methods.

Sep 16, 2012:

11:57 PM Changeset [983] by freek.de.bruijn@…
Added unit tests for NoteImpl?.
11:27 PM Changeset [982] by freek.de.bruijn@…
Added unit tests for NotationImpl?.
11:12 PM Changeset [981] by freek.de.bruijn@…
Added unit tests for LanguageImpl?.
11:47 AM Changeset [980] by freek.de.bruijn@…
Added unit test for TripleChangesetImpl?.

Sep 15, 2012:

11:50 PM Changeset [979] by freek.de.bruijn@…
Added unit tests for BranchImpl? and LabelImpl?.
11:00 PM Changeset [978] by freek.de.bruijn@…
Added unit tests for SearchResultImpl?.

Sep 13, 2012:

11:10 PM Changeset [977] by freek.de.bruijn@…
Fixed testEqualsAndHashCode test.
10:34 PM Changeset [976] by freek.de.bruijn@…
Added unit tests for QueryScopeImpl?.
10:34 PM Changeset [975] by freek.de.bruijn@…
Added unit tests for ConceptChangesetImpl?.
10:34 PM Changeset [974] by freek.de.bruijn@…
Added tests for isDeleted, equals and hashCode methods.
10:34 PM Changeset [973] by freek.de.bruijn@…
Added guava-testlib for EqualsTester? utility class used in …

Sep 12, 2012:

10:29 PM Changeset [972] by freek.de.bruijn@…
Split off code from the getConcept and getBootstrapTag methods to fix …
9:06 PM Changeset [971] by freek.de.bruijn@…
Added a unit test for ConceptImpl?.
5:21 PM Changeset [970] by david.vanenckevort@…
* reverted finalName since it doesn't work with the automatic …
4:43 PM Changeset [969] by david.vanenckevort@…
* set finalName to root in order to deploy to the root context in …
3:43 PM Changeset [968] by david.vanenckevort@…
* Add a context.xml with the default path (attempt at solving #30)
2:08 PM Changeset [967] by freek.de.bruijn@…
* Reduced number of return statements to fix Checkstyle warnings: …
1:58 PM Changeset [966] by kees.burger@…
added findbugs check again, bound to compile phase for now
9:54 AM Ticket #41 (Figure out the proper way to do AJAX in Wicket.) created by rob.hooft@…
9:17 AM Changeset [965] by kees.burger@…
changed general exception to more specific
9:00 AM Changeset [964] by kees.burger@…
quickfix for cyc complexity
1:33 AM Changeset [963] by kees.burger@…
Fixed imports and class references

Sep 11, 2012:

11:46 PM Changeset [962] by freek.de.bruijn@…
Removed unused method: isDeleted.
11:46 PM Changeset [961] by freek.de.bruijn@…
Made a local variable final to fix Checkstyle warning.
11:38 PM Changeset [960] by freek.de.bruijn@…
Removed some spaces to makeCheckstyle happy.
11:37 PM Changeset [959] by freek.de.bruijn@…
Split off getBestLabel from the getHardcodedPreferredLabel method.
11:26 PM Changeset [958] by freek.de.bruijn@…
Split off getAddedNotations from the internalAddNotations method.
11:15 PM Changeset [957] by freek.de.bruijn@…
Split off addPreferredLabelToConcept and addLabelsToConcept from the …
10:36 PM Changeset [956] by freek.de.bruijn@…
Minor changes to fix 3 Checkstyle warnings.
10:16 PM Changeset [955] by freek.de.bruijn@…
Renamed classes setResultsCallbackClass and getResultsCallback to …
10:16 PM Changeset [954] by freek.de.bruijn@…
Made conceptService a transient field to fix FindBugs? warning.
5:44 PM Changeset [953] by freek.de.bruijn@…
* Split off addNotationsNotesTagsUrlsToConcept from the toConcept …
5:38 PM Changeset [952] by david.vanenckevort@…
* Fix some checkstyle issues.
5:32 PM Changeset [951] by david.vanenckevort@…
* Fix a checkstyle issue.
5:30 PM Changeset [950] by david.vanenckevort@…
* Fix a checkstyle issue.
5:25 PM Changeset [949] by david.vanenckevort@…
* Fix missing equals and hashcode.
5:20 PM Changeset [948] by david.vanenckevort@…
* Fix some checkstyle issues
5:08 PM Changeset [947] by david.vanenckevort@…
* Fix a checkstyle issue
5:07 PM Changeset [946] by david.vanenckevort@…
* Fix several checkstyle issues.
5:01 PM Changeset [945] by freek.de.bruijn@…
Introduced a map of all the regular expressions used to recognize …
4:47 PM Changeset [944] by david.vanenckevort@…
* Fix several checkstyle issues.
4:40 PM Changeset [943] by david.vanenckevort@…
* Fix a checkstyle issue.
4:38 PM Changeset [942] by david.vanenckevort@…
* Fix two checkstyle issues.
4:22 PM Changeset [941] by david.vanenckevort@…
* Fix a checkstyle issue.
4:19 PM Changeset [940] by david.vanenckevort@…
* Fix most checkstyle warnings. * Fix usage of generics so less casts …
2:41 PM Changeset [939] by david.vanenckevort@…
* Exclude icu4j dependency because it fails deployment (and is not …
2:39 PM Changeset [938] by freek.de.bruijn@…
Changed determineDataSourceOfNotation to match regular expressions …
1:34 PM Changeset [937] by david.vanenckevort@…
* Fix most checkstyle warnings.
1:09 PM Changeset [936] by david.vanenckevort@…
* Fix checkstyle warnings.
1:02 PM Changeset [935] by david.vanenckevort@…
* Resolve findbug warnings in service-impl.
12:04 PM Changeset [934] by david.vanenckevort@…
* Add findbugs dependencies for annotation support * Resolve findbugs …
11:51 AM Changeset [933] by freek.de.bruijn@…
Changed RDFiable into a static inner class (instead of an inner class) …
11:30 AM Changeset [932] by freek.de.bruijn@…
Changed JsonpResponseWrapper? into a static inner class (instead of an …
10:34 AM Changeset [931] by david.vanenckevort@…
* Resolve findbug warning about resources not being closed.
10:16 AM Changeset [930] by david.vanenckevort@…
* Resolve some checkstyle warnings and fixed logging style.
9:47 AM Changeset [929] by david.vanenckevort@…
* commit one findbug problem (?)
9:41 AM Changeset [928] by david.vanenckevort@…
* Resolve some checkstyle issues
9:27 AM Changeset [927] by david.vanenckevort@…
* Resolve some checkstyle issues * Resolve two findbug issues
9:16 AM Changeset [926] by david.vanenckevort@…
* Removed redundant null check.
9:12 AM Changeset [925] by david.vanenckevort@…
* Resolve some findbug errors.

Sep 10, 2012:

5:40 PM Changeset [924] by david.vanenckevort@…
* Resolve checkstyle warnings. * Initial version of an editable …
3:56 PM Changeset [923] by freek.de.bruijn@…
Fixed FindBugs? warning.
3:41 PM Changeset [922] by freek.de.bruijn@…
Removed eventBus field to fix FindBugd? warning.
3:07 PM Changeset [921] by freek.de.bruijn@…
Added explicit encoding (UTF-8) in findEncodingErrorStrings and …

Sep 7, 2012:

9:51 AM Changeset [920] by david.vanenckevort@…
Use a local charset object to work around GWT issue

Sep 6, 2012:

9:41 AM Changeset [919] by freek.de.bruijn@…
* Create the debug writer with the default encoding …

Sep 5, 2012:

4:55 PM Changeset [918] by david.vanenckevort@…
* Resolve checkstyle warnings (but not the GWT compile issue, see: …
3:41 PM Changeset [917] by david.vanenckevort@…
* Resolve checkstyle warnings.
3:33 PM Changeset [916] by freek.de.bruijn@…
Added explicit encoding for two additional calls to getBytes …
3:30 PM Changeset [915] by freek.de.bruijn@…
Fixed encoding by using the new Encoding.DEFAULT_ENCODING (which …
3:27 PM Changeset [914] by freek.de.bruijn@…
Added Encoding class with DEFAULT_ENCODING field which equals the …
2:54 PM Ticket #40 (License agreement for edits at registration) created by christine.chichester@…
Whenever someone first logins (therefore registers?), they must read …
2:51 PM Ticket #39 (Takedown message) created by christine.chichester@…
In a visible place, there needs to be a message explaining how a …
2:51 PM Changeset [913] by freek.de.bruijn@…
Added explicit charset (Charsets.ISO_8859_1) in doFilter and in …
10:34 AM Changeset [912] by freek.de.bruijn@…
* Fixed FindBug? issue: removed the match field from the RDFiable inner …
9:59 AM Ticket #38 (Fix the SwissProt update: missing generic protein tags) created by hailiang.mei@…
In the current update run, some generic mappings are not handled …

Sep 4, 2012:

2:39 PM Changeset [911] by david.vanenckevort@…
* Resolve checkstyle warnings.
2:04 PM Changeset [910] by david.vanenckevort@…
* Missing commit of the changed HTML belonging to the refactored …
1:55 PM Changeset [909] by freek.de.bruijn@…
Added class with unit test for SearchResultsPage?.
1:54 PM Changeset [908] by freek.de.bruijn@…
Added application context mock.
1:53 PM Changeset [907] by freek.de.bruijn@…
Minor formatting changes.
1:27 PM Changeset [906] by freek.de.bruijn@…
Small refactorings and added Javadoc descriptions.
10:38 AM Changeset [905] by david.vanenckevort@…
* Refactoring of the ConceptPage? to be more modular in preparation of …

Sep 3, 2012:

5:01 PM Ticket #26 (Search results should show the matched text.) closed by david.vanenckevort@…
fixed: Changed the ConceptLink? to use use a UUID and a display text.
4:59 PM Ticket #27 (Search should work on all data) closed by david.vanenckevort@…
fixed: Changed the API called to ConceptService?.searchConcept() so it uses …
4:45 PM Changeset [904] by david.vanenckevort@…
* Change the search to use the searchConcepts API (resolves #27) * …
3:13 PM Ticket #37 (Import PubMed) created by david.vanenckevort@…
3:10 PM Ticket #36 (Import ChEBI) created by david.vanenckevort@…
3:09 PM Ticket #35 (Make an appointment with the hosting party to discuss the documentation) created by david.vanenckevort@…
After the documentation (ticket:33) has been transferred we should …
3:06 PM Ticket #34 (Make appointment with hosting party) created by david.vanenckevort@…
Make a appointment with the hosting party for ConceptWiki so we can …
3:03 PM Ticket #33 (Document installation and monitoring of ConceptWiki for the hosting party) created by david.vanenckevort@…
We need to create a document that details how the hosting party for …
1:29 PM Changeset [903] by david.vanenckevort@…
* Upgraded wicket artifacts to 6.0.0
1:27 PM Ticket #32 (Update wicket to 6.0) closed by david.vanenckevort@…
fixed: The 6.0.0 artifacts are in Maven central. Updated the pom.xml and …
11:58 AM Ticket #32 (Update wicket to 6.0) created by david.vanenckevort@…
Reinout told me that Wicket 6.0 has been approved, so it should be …
11:54 AM Ticket #31 (Create user registration page) created by david.vanenckevort@…
After the user logs in for the first time he should be directed to a …
11:45 AM Ticket #30 (Configure deployment to deploy as root application) created by david.vanenckevort@…
The web application should deploy as the root application so the …
11:34 AM Ticket #29 (Unit tests for rendering) created by david.vanenckevort@…
All web pages and components should have unit tests that verify that …
11:31 AM Ticket #28 (Web pages should have proper styling) created by david.vanenckevort@…
The web pages should have proper styling through CSS and HTML.
11:31 AM Ticket #27 (Search should work on all data) created by david.vanenckevort@…
The search currently only works on labels and is case sensitive. It …
11:29 AM Ticket #26 (Search results should show the matched text.) created by david.vanenckevort@…
When you search conceptwiki the search results should show the matched …
11:28 AM Ticket #25 (Return to your previous page after login) created by david.vanenckevort@…
After you login you should return to the page from which you came.
11:26 AM Ticket #24 (Make the concept page editable) created by david.vanenckevort@…
The concept page should be editable once you are logged in. If you …
9:49 AM Changeset [902] by david.vanenckevort@…
* Moved Pages to a separate package * First go at ajax driven change …
Note: See TracTimeline for information about the timeline view.