Timeline


and

21-01-11:

21:31 Changeset [1431] by work@…
- fixed the facebook like button
21:05 Changeset [1430] by work@…
- set keyword expansion
20:56 Changeset [1429] by work@…
- removed libraries which did not seem to be used at all, to cleanup space …
20:35 Changeset [1428] by work@…
ajaxflow up to 0.1.19 (css fix for webkit browsers)
20:25 Ticket #280 (Non-active tab buttons don't display correctly in Webkit browsers) closed by work@…
fixed
20:23 Changeset [1427] by work@…
resolved issue #280
19:37 Changeset [1426] by work@…
- Resolved part of improvement #225 - refactored the template model out of …
16:37 Changeset [1425] by s.h.sikkema@…
Rudimentary assay export functionality
16:30 Changeset [1424] by robert@…
Improved querying and created a possibility to search for assays
13:29 Changeset [1423] by work@…
ajaxflow to 0.1.18 (id support)

20-01-11:

18:32 Changeset [1422] by work@…
- fixed importer issue with the authentication service not being available …
18:13 Changeset [1421] by work@…
- fixed importer issue with the authentication service not being available …
17:56 Ticket #284 (In importer step 3, the column headers are rendered in a strange way if ...) created by business@…
In step 3 - Mappings - of the importer wizard, if you have invalid data …
17:41 Changeset [1420] by work@…
- and up to 0.6.4
16:28 Changeset [1419] by work@…
- importer title fixed - indentation fixed - all fixed time for drinks
16:17 Changeset [1418] by work@…
- enabled authentication in importer
16:10 Changeset [1417] by work@…
- did some extreme programming with Tjeerd to fix issues in the importer …
15:42 Ticket #279 (Metabolomics module forward login is framed) closed by m.s.vanvliet@…
fixed: Was a wrong configuration in the database. It was pointing to a wrong URL …
15:41 Ticket #209 (Label / reference of the study in wizard pages) closed by m.s.vanvliet@…
fixed
11:25 Ticket #258 (Module opens in very small frame) reopened by robert@…
Even though I had thought it would be ok, I keep seeing the frame as a …

19-01-11:

16:01 Changeset [1416] by t.w.abma@…
- again fixed the importer, persisting seemed to work fine, but Hibernate …
14:17 Ticket #283 (Study overview shows only 10 studies) created by robert@…
On CI, many studies are present (more than 10). When logged in as admin, …

18-01-11:

20:41 Changeset [1415] by robert@…
First version of advanced querying
16:38 Changeset [1414] by work@…
- moved the environment specific properties files to src/java to make sure …
16:22 Ticket #282 (fileFieldElement stores uploaded files in wide-open directory) created by work@…
The fileFieldElement allows ajax-upload of a file, but stores the files it …
16:07 Changeset [1413] by work@…
- removed 'tab' logic from importercontroller
15:59 Changeset [1412] by work@…
- ajaxflow up to 0.1.17
15:51 Changeset [1411] by t.w.abma@…
- cleaned up importer service and controller (and removed flow variables …
15:51 Changeset [1410] by work@…
- no clickable tabs
15:49 Changeset [1409] by work@…
- no clickable tabs
15:38 Changeset [1408] by work@…
- refactored grom plugin to be less procedural
14:45 Ticket #281 (Internationalization - make sure everything is in English) created by business@…
If gscf is viewed in a Dutch browser, some messages are in Dutch - better …
13:43 Changeset [1407] by work@…
- fixes an issue with database upgrade script
13:12 Changeset [1406] by work@…
- test fix for database upgrade script
11:09 Changeset [1405] by business@…
trigger ci
10:52 Changeset [1404] by business@…
small fix
10:46 Changeset [1403] by business@…
fix recurring issue with TEXT fields

17-01-11:

14:38 Ticket #280 (Non-active tab buttons don't display correctly in Webkit browsers) created by s.h.sikkema@…
In chrome and safari the non-active tab buttons don't display correctly; …

14-01-11:

10:47 Changeset [1402] by t.w.abma@…
- minor fix in saveDatamatrix method in ImporterService?, by adding check …
08:59 Ticket #279 (Metabolomics module forward login is framed) created by m.s.vanvliet@…
When you login to the GSCF and click on a Metabolomics assay you should go …
08:36 Ticket #278 (Allow alternative data/time formatting during import) created by e.vansomeren@…
When importing date/time information, imported values may not always …
08:08 Ticket #277 (Simpel Query does not work) created by e.vansomeren@…
Currently, the simple query (after clicking search study data) does not …
07:52 Ticket #276 (When importing studies that have values that do not match a required ...) created by e.vansomeren@…
When importing studies that have values that do not match a required …

13-01-11:

18:23 Changeset [1401] by work@…
Tagging3the 0.6.2 release of 3GSCF'
18:22 Changeset [1400] by work@…
- and up to 0.6.3!
17:31 Changeset [1399] by business@…
forgot class import
17:29 Changeset [1398] by business@…
make sure manual adding of ontologies is only done in development and test
17:23 Changeset [1397] by work@…
- disable redirect into setup wizard as there is no setup wizard yet
15:51 Changeset [1396] by work@…
Tagging the 0.6.2 release of 'GSCF'
15:49 Changeset [1395] by work@…
- and we're up to milestone 0.6.2!
15:47 Changeset [1394] by t.w.abma@…
- added JS variable te get rid of warning when wanting to leave the page …
15:45 Ticket #270 (importing subject information gives an error) closed by t.w.abma@…
fixed: Seems to work here, might be that some other issues have been solved which …
15:41 Changeset [1393] by work@…
- fixed typo's
15:39 Ticket #263 (issue with unsaved data warning with importer) closed by work@…
fixed
15:39 Ticket #261 (Importer does not give feedback when initial form left empty) closed by work@…
fixed: closing issue…
15:39 Ticket #140 (Error when importing studies that have values that do not match a required ...) closed by work@…
fixed: closing issue…
15:21 Ticket #267 (only 2011 can be selected) closed by work@…
fixed: as kees is not closing this issue, i'll do it…
15:20 Ticket #244 (Importer error after first step) closed by work@…
fixed: from the text above I assume this is resolved... closing the issue
15:19 Ticket #241 (validation of study instance show old error massages) closed by work@…
fixed: this was resolved, but not yet closed... closing issue
15:19 Ticket #168 (Import Study fails at Step 5: 0 out of 3 rows imported succesfully) closed by work@…
fixed: from the text above I assume this is resolved... closing the issue
15:16 Ticket #275 (adding an event to a study results in a hibernate exception: two ...) closed by work@…
fixed: Resolved in r1391, all study editting seems to work fine now!
15:15 Changeset [1392] by work@…
- resolves edit study wizard issues, main ticket #275
15:10 Changeset [1391] by t.w.abma@…
- added slider to mappings step in import wizard
13:03 Changeset [1390] by work@…
- quicksave sets the study page to page 7 (done) - set svn ignore
12:51 Changeset [1389] by work@…
- adding a simple edit study webtest
10:53 Changeset [1388] by t.w.abma@…
- added popup dialog with warning for first page of importer when not all …
09:45 Changeset [1387] by t.w.abma@…
- authentication check added
00:32 Ticket #268 (field types names in template) closed by business@…
fixed: Implemented this in [1385] and [1386]
00:32 Changeset [1386] by business@…
change which hopefully fixes the first time run errors about …
00:24 Changeset [1385] by business@…
changed templatefieldtype descriptions according to #268

12-01-11:

22:00 Changeset [1384] by business@…
added webtest plugin and first (working) webtest, renamed 'test' …
17:37 Changeset [1383] by work@…
- removed jquery comment from config.groovy
17:35 Changeset [1382] by work@…
- upgraded ajaxflow to 0.1.16 --> grails 1.3.4 support - upgraded jquery …
17:29 Changeset [1381] by t.w.abma@…
- removing cells, concurrentModificationException fixed?
17:14 Changeset [1380] by t.w.abma@…
- removing cells, concurrentModificationException fixed?
17:10 Changeset [1379] by t.w.abma@…
- removing cells, concurrentModificationException fixed?
16:59 Changeset [1378] by t.w.abma@…
- removing cells, concurrentModificationException fixed?
16:50 Changeset [1377] by t.w.abma@…
- removing cells, concurrentModificationException fixed?
15:59 Changeset [1376] by t.w.abma@…
- casting errors are nog being ignored, but are at least logged, errors …
15:26 Ticket #275 (adding an event to a study results in a hibernate exception: two ...) created by work@…
Steps to reproduce (on development): 1. studies -> create a new study 2. …
15:19 Ticket #272 (error after quicksave events) closed by work@…
invalid: in order to resolve an issue, we need the stept to reproduce the issue... …
15:18 Ticket #271 (storing subject info does not work) closed by work@…
invalid: I cannot do anything with this description... my clue is that this is …
15:09 Changeset [1375] by work@…
resolves issue #274
14:56 Ticket #274 (Height of the warning dialogs in the study wizard is endless) created by business@…
If you add e.g. 80 Rattus norvegicus using the Rat template in CI, not …
14:48 Changeset [1374] by work@…
workaround for #267
14:42 Changeset [1373] by business@…
added extra check in sample validation to avoid NPEs in case of broken …
14:14 Ticket #219 (Move out build scripts and secrets from GSCF repository) closed by work@…
fixed: Hi robert, I was indeed aware of that particular ticket... but as of r1364
14:13 Changeset [1372] by t.w.abma@…
- moved debug statement (locally no errors, but on CI gives NPE)
14:09 Changeset [1371] by t.w.abma@…
- moved debug statement (locally no errors, but on CI gives NPE)
13:53 Changeset [1370] by t.w.abma@…
- added debug
13:12 Ticket #273 (Application breaks after 'module notification' changes) closed by robert@…
fixed: As discussed, this change is automatically changed in the database by …
12:52 Changeset [1369] by t.w.abma@…
- added debug
12:12 Changeset [1368] by t.w.abma@…
- added debug
11:50 Changeset [1367] by t.w.abma@…
- added dialog (based on study wizard) for more detailed information what …

11-01-11:

19:18 Ticket #259 (synchronization of data between modules and gscf) closed by robert@…
fixed: This change introduced a bug (see #273) which is also fixed. Closing now
19:15 Changeset [1366] by robert@…
Fixed bug with AssayModule?.notify property (see #269)
18:42 Ticket #273 (Application breaks after 'module notification' changes) created by work@…
As of r1356, r1357 the application is unstable: - the study overview page …
18:36 Ticket #269 (description is string not text) closed by work@…
fixed
18:28 Ticket #269 (description is string not text) reopened by work@…
18:27 Ticket #269 (description is string not text) closed by work@…
fixed: resolved in r1365, assigning to Kees for code review
18:26 Changeset [1365] by work@…
- resolves issue #269, performing database upgrade if required (change …
18:19 Ticket #272 (error after quicksave events) created by jildau.bouwman@…
After including events and quicksaving the data, I get two different …
17:57 Ticket #271 (storing subject info does not work) created by jildau.bouwman@…
I am trying to store subject information in the diclofenac study (6374), …
17:38 Ticket #270 (importing subject information gives an error) created by jildau.bouwman@…
After trying to inport subject information in the diclofenac study (6374), …
17:25 Changeset [1364] by work@…
- and another one for issue #219, moved authentication to the environment …
17:21 Ticket #269 (description is string not text) created by jildau.bouwman@…
You will get an exception if the description field contains more then 255 …
17:04 Ticket #268 (field types names in template) created by jildau.bouwman@…
In the template creation the field types should be chosen. From biologists …
16:53 Ticket #267 (only 2011 can be selected) created by jildau.bouwman@…
If a study is created on ci.nmcdsp.org and a start date is being defined, …
16:08 Changeset [1363] by work@…
- and another one for issue #219
15:43 Changeset [1362] by work@…
- and another one for issue #219
15:33 Changeset [1361] by work@…
- properties were not loaded in a war, trying a different location - #219
15:14 Changeset [1360] by work@…
- moving application configuration out of Config.groovy and …
14:09 Changeset [1359] by work@…
- setting max height in error dialog
13:08 Ticket #266 (going back in the importer wizard leads to less choices in fields) created by business@…
When you use the importer (e.g. with ScenarioEugene), and you go back from …
12:46 Changeset [1358] by t.w.abma@…
- fixed study.id error when logged in as new user and trying to import a …
12:06 Ticket #265 (A new user cannot import new studies via importer) created by business@…
If you create a new user (e.g. via login as admin and then create user) …

10-01-11:

16:44 Changeset [1357] by robert@…
Implemented module notification when a study changes (#259)
12:27 Ticket #258 (Module opens in very small frame) closed by robert@…
wontfix
11:39 WikiStart edited by business@…
(diff)
11:39 WikiStart edited by business@…
(diff)
11:38 WikiStart edited by business@…
(diff)
11:38 WikiStart edited by business@…
(diff)
11:37 WikiStart edited by business@…
(diff)
11:36 WikiStart edited by business@…
(diff)
11:12 Ticket #254 (Edit wizard stops working after some time with Javassist errors) closed by business@…
fixed: This seems to be solved now by [1350]. Closing this as after some serious …
11:00 Ticket #212 (search on PubMed ID) closed by robert@…
fixed: Fixed in latest revision r1356
10:58 Changeset [1356] by robert@…
Fixed message in #212
10:58 Ticket #210 (option to copy event template fields) closed by business@…
fixed: tested, works

09-01-11:

14:18 Changeset [1355] by work@…
Automated continuous integration commit of minified JS/CSS
13:53 Changeset [1354] by work@…
Automated continuous integration commit of minified JS/CSS

07-01-11:

19:05 Ticket #264 (After importing samples into a study the Sample step in the wizard is ...) created by business@…
If you create a new study, import Samples afterwards (which then don't …
18:44 Ticket #263 (issue with unsaved data warning with importer) created by business@…
When I'm done with the importer wizard, I constantly get the warning about …
18:12 Changeset [1353] by work@…
- fixed some issues with ajaxbuttons that were still left unworking after …
16:51 Changeset [1352] by work@…
- removed the 'wait for save page' as this is already being handled by the …
16:43 Ticket #262 (When logged in as 'admin' on CI, the 'all studies' does not contain ...) created by work@…
The 'all studies' page should of course be a superset of 'my studies' and …
16:38 Ticket #261 (Importer does not give feedback when initial form left empty) created by work@…
When you open the importer (  http://localhost:8080/gscf/importer or …
16:10 Changeset [1351] by work@…
- fix for Javassist issue #254, needs some thorough testing…
16:09 Changeset [1350] by work@…
- fix for Javassist issue #254, needs some thorough testing…
16:08 Changeset [1349] by work@…
- fix for Javassist issue #254, needs some thorough testing…
14:05 Changeset [1348] by work@…
- fix for Javassist issue #254, needs some thorough testing…
13:46 Changeset [1347] by work@…
- disabled loglevel info
09:22 Changeset [1346] by m.s.vanvliet@…
Added a timer to the Filters to monitor the load of controller/view
00:11 Changeset [1345] by work@…
Automated continuous integration commit of minified JS/CSS
00:10 Changeset [1344] by work@…
- changed the default spinner to an online spinner image

06-01-11:

23:54 Changeset [1343] by work@…
- updated documentation
23:46 Changeset [1342] by work@…
- updated documentation
17:33 Changeset [1341] by business@…
fix for development environment to circumvent BioPortal? problems
14:03 Ticket #260 (in Safari the publication and people buttons are not styled properly ...) created by work@…
The issue does not happen in Firefox / Chrome, so it looks like it's a …
10:15 Ticket #245 (Add spinner or 'please wait' when waiting for ajax calls in create study ...) closed by robert@…
fixed: It's better now

05-01-11:

17:35 Changeset [1340] by work@…
- upgraded to ajaxflow 0.1.14 (bugfixes)
15:10 Changeset [1339] by work@…
- fixed spelling error - removed validation in 'add subject' logic as this …
14:49 Changeset [1338] by work@…
- must --> moet een
14:48 Changeset [1337] by work@…
- moest --> moet
14:04 Changeset [1336] by work@…
- importer used wizard.css instead of new studywizard.css
13:53 Changeset [1335] by t.w.abma@…
- added baseUrl variable to the add/modify... templateEditor selector …
13:43 Changeset [1334] by work@…
- added 'please wait' functionality to importer
13:31 Changeset [1333] by work@…
- updating to ajaxflow 0.1.12 - changed 'please wait' behaviour conform …
11:00 Changeset [1332] by t.w.abma@…
- fixed entity URL-decoding when importing the file
10:55 Changeset [1331] by t.w.abma@…
- fixed entity selection by adding URL-encoding and decoding to the …
10:34 Changeset [1330] by work@…
- temporary fix for jquery 1.4.4

04-01-11:

13:53 Changeset [1329] by work@…
- upgraded jquery to 1.4.4 - upgraded jquery-ui to 1.8.7 - upgraded mail …
11:13 Changeset [1328] by robert@…
Added metagenomics module and improved rest controller to give 404 and 401 …

03-01-11:

09:01 Ticket #259 (synchronization of data between modules and gscf) created by robert@…
GSCF contains data about studies, assays and samples, and connections …

31-12-10:

14:47 Ticket #258 (Module opens in very small frame) created by robert@…
When clicking 'view' no the assay tab of a study, the other module opens …

30-12-10:

15:55 Ticket #257 (Deleting an assay only works after two clicks) created by robert@…
If I want to delete an assay, and click the delete button, nothing …
15:43 Ticket #256 (Module-select for assays doesn't show the selected value) created by robert@…
When editing a study, you can select a module for an assay. This works …
12:50 Ticket #255 (entity tokens should be stable) created by robert@…
The studyToken, sampleToken and assayToken can be changed by the user. …
10:08 Ticket #251 (I cannot store a new study on test.dbnp.org) closed by business@…
fixed: I found the stack trace. This was caused by [1245]. The description field …
10:02 Changeset [1327] by business@…
made description field text, see [1245]
09:46 Ticket #254 (Edit wizard stops working after some time with Javassist errors) created by business@…
I still experience Javassist errors, almost always if you choose Edit a …

29-12-10:

16:39 Ticket #253 (I cannot make a new template for the general study information) created by jildau.bouwman@…
Since today (yesterday I made q new template) I cannot make a new template …
15:55 Ticket #252 (log in at two places is confusing) created by jildau.bouwman@…
Having the trac as I-frame in the dbnp.org site, results in having two …
15:53 Ticket #251 (I cannot store a new study on test.dbnp.org) created by jildau.bouwman@…
On test.dbnp.org quicksave leads to: error: exception → …

28-12-10:

09:15 Changeset [1326] by t.w.abma@…
- indendation fix

24-12-10:

12:53 Changeset [1325] by robert@…
Resolved bug in searching publications due to wizard refactoring. See #212
12:44 Ticket #250 (Implement better authentication) created by robert@…
With ticket #118, basic authentication is added to the system. However, …

23-12-10:

13:44 Changeset [1324] by t.w.abma@…
- tomcat trigger
13:07 Changeset [1323] by t.w.abma@…
- tomcat trigger
11:36 Changeset [1322] by t.w.abma@…
- fixed properties page
10:57 Ticket #249 (Make importer capable of updating records) created by robert@…
Using the importer, new data (studies, samples, subjects etc.) can be …

22-12-10:

18:46 Changeset [1321] by work@…
Automated continuous integration commit of minified JS/CSS
18:15 Changeset [1320] by work@…
Automated continuous integration commit of minified JS/CSS
17:53 Changeset [1319] by work@…
- updated ajaxflow to 0.1.10 - added spinner / please wait support to …
16:48 Ticket #248 (Searching for synonyms in ontologyterm fields when importing) created by robert@…
When importing an excel sheet, the values that go into an ontology term …
16:45 Ticket #247 (Add more results to term editor and publication chooser) created by robert@…
When I want to add a new term to an ontology, I can search for it using …
15:31 Changeset [1318] by t.w.abma@…
- removed obsolete code
15:26 Changeset [1317] by t.w.abma@…
- seems that depending on the Excel-sheet type a XSSFCell or HSSFCell is …
15:21 Changeset [1316] by t.w.abma@…
- trigger for restart (committed too fast between to commits?)
15:16 Changeset [1315] by t.w.abma@…
- replaced HSSFCell by XSSFCell-object (returned when getting a cell from …
14:42 Changeset [1314] by work@…
- fixed descriptions for Sample and Subject, see #246
14:14 Ticket #246 (Term not found in subject.species ontology chooser) closed by work@…
wontfix: NEWT does not exist in the NCBO Bioportal, so it is currently not …
14:08 Changeset [1313] by t.w.abma@…
- removed URL-encoding of encrypted "importable entities"
13:43 Changeset [1312] by work@…
- removed debug line
13:39 Changeset [1311] by t.w.abma@…
- removed parent-setters from saveDatamatrix-method in ImporterService? - …
09:57 Ticket #246 (Term not found in subject.species ontology chooser) created by robert@…
I want to add a subject with species 'groundwater metagenome'. This is a …
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