Timeline


and .

05/05/09:

16:02 Changeset [7652] by dragisak
Fix bug introduced in r7651. Escaped a wrong string in
15:22 Changeset [7651] by dragisak
Special characters used in Lucene need to be escaped in query strings. Use …
13:47 Changeset [7650] by dragisak
Add info log with duration it takes to finish cross ref call. Addresses …
12:41 Ticket #1301 (removing crosspubbed article doesn't clean up after itself) created by russ
crosspublish an article into your journal add your crosspubbed article to …
12:25 Ticket #1283 (Simple Search colon character causes Site Error) reopened by npeterson
12:24 Ticket #1281 (Competing Interests Sequence Error) reopened by npeterson
This is fixed for Notes but not Comments. Tested again at: …
12:23 Ticket #1296 (Author Contributions not appearing in article 'jump to' list) reopened by npeterson
Author Contributions are now annotatable. Unfortunately the annotation is …
12:18 Ticket #1300 (Add INFO logging for remote procedure call to CrossRef in Publish ...) created by npeterson
Add some logging to measure the time it is taking to call CrossRef? in the …
12:14 Changeset [7649] by dragisak
Remove permission checks from annotation feed. Results shouldn't depend if …
12:01 Changeset [7648] by dragisak
Gracefully handle null bodies in annotation feed.
10:54 Ticket #1299 (Annotation Feed - Null Pointer Exception) created by npeterson
When viewing the PLoS One feed there is a null pointer exception …

05/04/09:

17:38 Ticket #1284 (Ratings not showing in Annotation Feed) reopened by rcave
Ratings only show up in the article annotation feed if you're logged in to …
17:15 Ticket #1284 (Ratings not showing in Annotation Feed) closed by rcave
fixed: Verified that ratings are displayed in the article annotation feed.
16:50 Ticket #1283 (Simple Search colon character causes Site Error) closed by rcave
fixed: Verified that special characters in search are forwarded to search error …
16:47 Ticket #1294 (Error in Genetics Template for Simple Search) closed by rcave
fixed: Verified that the search results appear correctly.
13:37 Changeset [7647] by josowski
Adding Mendeley as a social bookmarking link
12:29 Changeset [7646] by josowski
Improved the simple search form validation. If bad control characters are …
10:58 Changeset [7645] by josowski
If there is no search abstract we are still returning a blank string …
10:01 Ticket #1277 (Report a Concern / Respond to this Posting Bug) closed by rcave
fixed: Verified that canceling the Report a concern or Respond to this …
09:54 Ticket #1290 (Typo on Advanced Search page) closed by rcave
fixed: Categorically verified that the typo has been fixed.
09:32 Changeset [7644] by dragisak
Add ratings and trackbacks to annotation feed. Addresses #1284 and #1288

05/01/09:

16:34 Ticket #1264 (ArticleAnnotationCache does not respect TTL) closed by russ
fixed: confirmed
14:19 Ticket #1298 (Cannot access install scripts for ambra) created by clipo
According to the SingleBoxInstall? page …
12:42 Changeset [7643] by josowski
Correcting Typo. Catogories was mispelled. References #1290
08:56 Ticket #1293 (Right Nav Bar Breaking on Second Line) closed by rcave
fixed: Verified that the jump to links display 25 characters which keeps …
08:53 Ticket #1297 (Author Contributions section not appearing in article 'jump to' list) closed by rcave
fixed: Verified that 'Author Contributions' is appearing correctly in the jump to …

04/30/09:

17:31 Changeset [7642] by josowski
This improves how the responsePanel cleans up after itself. It will no …
17:07 Changeset [7641] by josowski
Further testing of the article page showed that the max width of the right …
16:34 Changeset [7640] by josowski
Correcting typo in the testing framework. This should have been part of …
15:44 Changeset [7639] by josowski
Added the 'author contribution' section to the article jump to list. …
15:28 Ticket #1287 (User First and Last Name do not show in the feed.) closed by npeterson
invalid: FireFox? Feed View does not show all the fields. To verify the User Name, …
15:27 Ticket #1289 (Formal Corrections and Minor Corrections not appearing in Annotation Feed.) closed by npeterson
worksforme
15:25 Ticket #1285 (Note Across the DOI at the Bottom of Figure and Text Below Figure Cause ...) closed by rcave
fixed: Verified that a user cannot select the figure text and figure DOI. This …
15:23 Ticket #1296 (Author Contributions not appearing in article 'jump to' list) closed by rcave
fixed: Verified that the text after the Author Contributions section can be …
15:22 Ticket #1297 (Author Contributions section not appearing in article 'jump to' list) created by rcave
Author Contributions is a section header and should appear in the article …
15:15 Ticket #1295 (Note Disappearing when selection starts at the end of the Figure Text ...) closed by rcave
fixed: Verified that a user cannot select text that spans different sections of …
13:48 Ticket #1280 (Report a Concern on a Comment Input Validation Fails) closed by rcave
fixed: Verified that the report a concern, reply to comment, rating and note body …
13:45 Ticket #1292 (Input Size message and incorrect Competing Interests message) closed by rcave
fixed: Verified that the error message is correctly indicating the missing text, …
13:44 Ticket #1279 (Create Annotation Body Validation Fails) closed by rcave
fixed: Verified that the error message is correctly indicating the missing text, …
12:27 Ticket #1282 (Pop-ups showing in right hand column) closed by rcave
fixed: Verified that selecting text in the article RHC doesn't display the …
12:23 Ticket #1281 (Competing Interests Sequence Error) closed by rcave
fixed: Verified that the competing interest statement text is not saved when the …
12:21 Ticket #1276 (Double Annotation Bug) closed by rcave
fixed: Verified that the competing interest statement text is not saved when the …
12:07 Ticket #1275 (Trap currentIssue in browseVolume.ftl) closed by rcave
fixed: Verified that currentIssue is trapped. Added to the plosone …
09:34 Changeset [7638] by josowski
Annotating text of author contributions allows you to select text; when …

04/29/09:

16:27 Ticket #1296 (Author Contributions not appearing in article 'jump to' list) created by npeterson
Annotating text of author contributions allows you to select text; when …
16:25 Ticket #1295 (Note Disappearing when selection starts at the end of the Figure Text ...) created by npeterson
Note disappearing. Added a note spanning the end of the figure legend text …
16:23 Ticket #1294 (Error in Genetics Template for Simple Search) created by npeterson
When I use simple search, each entry has an ellipsis (...) underneath, …
15:49 Changeset [7637] by josowski
Fixing the ArticleXMLUtilsTest. This should have been included in r7632
15:44 Changeset [7636] by josowski
Reducing the maximum width of the items listed in the article table of …
15:07 Changeset [7635] by josowski
Improved annotation dialog initlization. Competing Interest statements …
14:45 Changeset [7634] by josowski
Adding length input verification to the create flag action. References …
14:39 Changeset [7633] by josowski
Changed the logic of the annotation context menu. Now when the selection …
14:33 Ticket #1293 (Right Nav Bar Breaking on Second Line) created by npeterson
Some of the links in the Right Nav Bar are breaking on the second line, …
14:28 Ticket #1292 (Input Size message and incorrect Competing Interests message) created by npeterson
When entering more than 64,000 characters in the body field of an …
14:25 Ticket #1291 (Wrong selection error in Authors list and References list) created by npeterson
Attempting to annotate text in the References list brings up the wrong (I …
14:14 Ticket #1290 (Typo on Advanced Search page) created by npeterson
I spotted a typo on the Advanced Search: Under Subject Categories: …
14:11 Changeset [7632] by josowski
There are a number of issues surrpounding annotations created around …
14:03 Ticket #1289 (Formal Corrections and Minor Corrections not appearing in Annotation Feed.) created by npeterson
Formal corrections and minor corrections do not appear in the annotation …
13:58 Changeset [7631] by josowski
Fixes a small issue related where the competing interest statement field …
13:56 Ticket #1288 (Trackbacks not showing in the feed) created by npeterson
Trackbacks aren't showing up in the annotation feed for PLoS ONE. Tested …
13:54 Ticket #1287 (User First and Last Name do not show in the feed.) created by npeterson
Name of user does not appear next to any of the notes/comments/replies …
13:51 Ticket #1286 (Notes Across Different Sections of Text Should Not Be Allowed) created by npeterson
Adding a note across different sections of text is allowed: should not be …
13:46 Ticket #1285 (Note Across the DOI at the Bottom of Figure and Text Below Figure Cause ...) created by npeterson
Select the any text below a figure, and take the selection area up to the …
13:36 Ticket #1284 (Ratings not showing in Annotation Feed) created by npeterson
Ratings aren't showing up in the annotation feed page …
13:13 Ticket #1283 (Simple Search colon character causes Site Error) created by npeterson
If you include a colon in the search string there is a site error. …
13:10 Ticket #1282 (Pop-ups showing in right hand column) created by npeterson
Remove any pop-ups showing in the right hand column. Nothing may be …
13:03 Ticket #1281 (Competing Interests Sequence Error) created by npeterson
When posting a comment or note, if I select the "Yes I have competing …
13:01 Ticket #1280 (Report a Concern on a Comment Input Validation Fails) created by npeterson
When "reporting a concern" about a posted comment, I entered more than …
12:59 Ticket #1279 (Create Annotation Body Validation Fails) created by npeterson
When verifying that error messages appear correctly when each of the …
11:46 Ticket #1215 (Move addArticle and removeArticle methods into a service class) closed by rcave
fixed: Confirmed that the addArticle and removeArticle methods were made private …
11:26 Ticket #1265 (Admin Panel Site Error when creating Biology Issues) closed by rcave
fixed: Verified that bad URIs are trapped correctly for volumes, issues and …
10:28 Ticket #1178 (simpleSearch.action search results include incorrect HTML) closed by rcave
fixed: Confirmed that the search results are displayed correctly.

04/28/09:

17:11 Ticket #1046 (Remove obsolete migration) closed by rcave
fixed: Confirmed that the search and citation migrations aren't running at …
17:00 Ticket #1278 (Google Scholar: change author list format in extended feed) created by russ
currently, in the extended feed, we list all authors like so: […] …
15:55 Ticket #1277 (Report a Concern / Respond to this Posting Bug) created by josowski
If the user clicks on Report a Concern or Respond to this Posting. …
15:46 Ticket #1276 (Double Annotation Bug) created by josowski
If you create an annotation with a competing interest statement and then …
13:52 Ticket #1270 (freemarker.cache using incorrect directory) closed by rcave
wontfix: Closing ticket as won't fix.
13:30 Ticket #1273 (Serialization error on Results class during a search) closed by rcave
fixed: Verified that the search results are returning properly.
13:25 Changeset [7630] by josowski
If currentIssue is undefined, this page would error out. This resolves …
13:18 Ticket #1245 (Error parsing query) closed by rcave
fixed: Verified that the URI is being validated: […]
12:23 Ticket #1275 (Trap currentIssue in browseVolume.ftl) created by rcave
If the current issue isn't defined for a journal, it shouldn't throw an …
12:21 Ticket #1271 (Expression field is undefined in plosone global_head.ftl) closed by rcave
wontfix: Fixed with a template merge.
11:58 Ticket #1268 (Can't page through search results - key not Serializable) closed by rcave
duplicate: Duplicate of #1273
11:52 Changeset [7629] by wtoconnor
EhCache? throws an exception from getValue for items that are not …
09:59 Changeset [7628] by dragisak
Fix unit test. Should have been part of r7625
09:54 Ticket #1274 (serialization errors in ambra.log) created by russ
seen on demo.live.093 ec2 instance - is this a BrowseCache? key? […]

04/27/09:

18:18 Ticket #1273 (Serialization error on Results class during a search) created by ssterling
The org.topazproject.ambra.search.service.Results class has never been …
16:05 Ticket #1272 (After ingest and shutdown of embedded mulgara in topazproject mulgara ...) created by wtoconnor
[…]
15:46 Changeset [7627] by wtoconnor
Added additional logging info of null object lookups when allowsNulls = …
15:03 Ticket #1163 (Expression thisPage is undefined on first view of article) closed by rcave
fixed: Verified that the problem doesn't occur for the following action: * A …
15:01 Ticket #1271 (Expression field is undefined in plosone global_head.ftl) created by rcave
[…]
14:50 Changeset [7626] by wtoconnor
Added logging of null object lookups when allowsNulls = false.
14:43 Ticket #1270 (freemarker.cache using incorrect directory) created by rcave
On startup, freemarker cache is looking for a directory …
14:11 Changeset [7625] by dragisak
Bug fix. Change ordering of feed entries. It was showing 30 oldest entries …
14:00 Changeset [7624] by dragisak
Remove JDK 1.6 methods. Build has to work on Java 1.5
11:24 Ticket #1266 (Broken template display for invalid static pages instead of 404) closed by rcave
fixed: Verified that 404 is displayed for incorrect actions.
11:20 Changeset [7623] by dragisak
Truncate annotation body to 512 characters and display author's first and …

04/23/09:

17:39 Ticket #1269 (publishing articles is slow) created by russ
publishArchives.action became slow in version 0.9.1 (or maybe 0.9.0?) up …
17:20 Changeset [7622] by dragisak
Javadoc change that should have been part of r7621
17:17 Changeset [7621] by dragisak
Rename annotation feed types. References #814
13:53 Changeset [7620] by wtoconnor
-Removed old migrators -browseCache bean initialized to restrict cache …

04/22/09:

14:43 Changeset [7619] by wtoconnor
There were numerous places where we allow correctly formed URIs to be …
14:36 Changeset [7618] by wtoconnor
Formatting change.
14:31 Changeset [7617] by wtoconnor
For some reason articleInfoX is being cached with a null value. It is not …
14:20 Changeset [7616] by josowski
This adds various limits to the lenth of a number of form fields. …

04/21/09:

15:54 Changeset [7615] by josowski
Fixes the pageNotFound issue introduced in r6553. Now if a page fails …

04/20/09:

11:03 Ticket #1268 (Can't page through search results - key not Serializable) created by rcave
Search on a query (e.g. 'gene') that returns multiple search result …
10:51 Ticket #1258 (UI Nav Bar reduce list length) closed by rcave
fixed: Confirmed that the 'ToC Jump to' links are truncated at 30 characters.
10:45 Ticket #1257 (UI Messaging when no Blog entries are found in ALM) closed by rcave
fixed: Confirmed that the text has been removed if no blog entries are found.

04/19/09:

13:22 Changeset [7614] by dragisak
Clean up the code clean-up. Fix some stuff done in r7600

04/17/09:

16:42 Changeset [7613] by dragisak
Redesign annotation feeds to include replies. - Cache annotation feeds …
16:17 Ticket #1267 (CODE_ARTICLE_TITLE: pmed.1000053, pmed.1000055) created by npeterson
CODE_ARTICLE_TITLE string shows in the browser header bar two more …
16:14 Ticket #1266 (Broken template display for invalid static pages instead of 404) created by npeterson
When viewing a page that doesn't exist, the template display is broken. It …
16:07 Ticket #1265 (Admin Panel Site Error when creating Biology Issues) created by npeterson
creating back issues for Bio, I accidentally hit enter far too early, …
14:07 Changeset [7612] by dragisak
Remove unused class.
13:14 Ticket #1264 (ArticleAnnotationCache does not respect TTL) created by russ
when we upgraded to 0.9.2, some changes were made to the article XSL …
12:33 Changeset [7611] by dragisak
Use unmanaged blobs to store annotation bodies. Unmanaged blobs are …
10:07 Ticket #1126 (add plos article type to extended feed) closed by russ
fixed: verified!

04/16/09:

16:38 Changeset [7610] by wtoconnor
VJMF is an eternal cache. It will cache the error that results from trying …
16:38 Changeset [7609] by wtoconnor
Removed second article type that was showing up in the extended feed. …

04/14/09:

15:31 Changeset [7608] by josowski
A bug was introducted in r7604. The flushStore method needs to be public …
09:57 Changeset [7607] by stoomey
Reduced and adjusted the margin and padding on ordered and unordered lists …
09:53 Changeset [7606] by josowski
The textual part of links in the table of contents of articles were …

04/13/09:

14:13 Changeset [7605] by russ
update releaseNotes.ftl for 0.9.3 with new stanza, and expected changes. …
11:58 Changeset [7604] by josowski
Moving the addArticle and removeArticle methods into a service class and …

04/10/09:

15:39 Changeset [7603] by dragisak
Replace deprecated getCurrentJournal() method.
15:32 Changeset [7602] by josowski
Suppressing the "There are no blog entries" text when there are no blog …
11:39 Changeset [7601] by josowski
Moving some variable definitions templates to be included into templates …
10:15 Changeset [7600] by dragisak
Code cleanup: - Use StringBuilder? instead of String concatenation for …

04/08/09:

19:50 Changeset [7599] by pradeep
Somewhat major update to cache management. I) Altered cache management …
15:47 Changeset [7598] by dragisak
rome-1.0 final is out. We can stop using RC1. Note: We should eventually …
15:33 Changeset [7597] by dragisak
Code cleanup: Remove TextUtilsExtended?. Only few of it's methods were used …
15:22 Changeset [7596] by dragisak
Validate URIs in action before passing them to low-level routines. …
13:29 Changeset [7595] by dragisak
[maven-release-plugin] prepare for next development iteration
13:29 Changeset [7594] by dragisak
[maven-release-plugin] copy for tag the-whole-shebang-0.9.2
13:28 Changeset [7593] by dragisak
[maven-release-plugin] prepare release the-whole-shebang-0.9.2
11:50 Changeset [7592] by josowski
When lucene returned a search result without a complete hightlight, we …
11:44 Changeset [7591] by wtoconnor
Spelling correction.
11:43 Changeset [7590] by wtoconnor
Removed second article type that was showing up in the extended feed. …
10:08 Milestone 0.9.2 completed
Minor release for new Ambra features = Ambra = * Update to handle NLM …

04/07/09:

13:42 Changeset [7589] by josowski
Correction of a spelling mistake made in a comment.

04/06/09:

22:32 Changeset [7588] by dragisak
Update ProcessFlagActionTest? to work after changes in r7587
18:41 Changeset [7587] by pradeep
On #1108 trail - perhaps there is another object that has this as an …
18:41 Changeset [7586] by pradeep
Speed up the isEntityLoaded() check by caching entity predicates in an …
18:41 Changeset [7585] by pradeep
Entry immutability now enforced by making the set(...) private. Also …
17:27 Ticket #1262 (Article Annotation Notification Feed) closed by npeterson
duplicate
16:29 Ticket #1263 (UI Implementation for Biology Launch) created by npeterson
PLoS Biology journal on Ambra * UI mockups. * Build PLoS Biology homepage …
16:25 Ticket #1262 (Article Annotation Notification Feed) created by npeterson
A new annotation feed including new parent and child annotions per journal …
16:25 Ticket #1261 (Standardized Performance Testing) created by npeterson
Standardize Benchmarks and Environments for Performance Testing * …
16:22 Changeset [7584] by dragisak
At the end of the processing, check if body of annotations that has just …
16:21 Ticket #1260 (Multiple Scopus Citations in Cited By Links) created by npeterson
Display multiple Scopus Cited By links * If an article has two Scopus …
16:03 Ticket #1259 (Google Scholar link returning incorrect result set) created by npeterson
When I select the GS links (either the related articles or look for …
16:00 Ticket #1258 (UI Nav Bar reduce list length) created by npeterson
The nav bar on front matter articles picks up all subject heads -- which …
15:54 Ticket #1257 (UI Messaging when no Blog entries are found in ALM) created by npeterson
Blog postings are odd, eg …
15:32 Changeset [7583] by dragisak
Remove entities set that can cause serialization problems.isEntityLoaded …
12:55 Changeset [7582] by dragisak
Add checks to prevent loosing annotation body during conversion. Addresses …
12:02 Ticket #1175 (Adding a note to a hyperlink removes the hyperlink.) closed by rcave
duplicate: Duplicate of #859
10:06 Ticket #1232 (Article URL encoding changing when returning from General Comment form.) closed by rcave
fixed: Verified that the URL encoding is correct after canceling a general …
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