Timeline


and .

10/15/09:

16:52 Ticket #1500 (Science Commons and UL logos missing from bottom of homepages) closed by npeterson
16:51 Ticket #1457 (MED & BIO journals have large number of broken links in the journal ...) closed by npeterson
16:50 Ticket #1488 (Need SQL Delete statements for PDF and XML from July 2005) closed by npeterson
16:12 Ticket #1508 (XmlTagStripper adds extra spaces) created by ssterling
There are two issues here: First, …
11:47 Ticket #1355 (when an author doesn't have given names defined, bibtex freemarker script ...) closed by npeterson
11:46 Ticket #1354 (jsessionid in query string is not stripped from cache keys?) closed by npeterson
11:46 Ticket #1354 (jsessionid in query string is not stripped from cache keys?) reopened by npeterson
11:45 Ticket #1353 (unhandled exception: uri must be a valid absolute URI) reopened by npeterson
11:40 Ticket #1354 (jsessionid in query string is not stripped from cache keys?) closed by npeterson
11:40 Ticket #1353 (unhandled exception: uri must be a valid absolute URI) closed by npeterson
11:39 Ticket #1352 (not Serializable errors in ambra.log) closed by npeterson
11:36 Ticket #1342 (remove plos-specific configuration from ambra svn) closed by npeterson
11:32 Ticket #1330 (Site Error when no Current Issue is set in Admin Panel) closed by npeterson
11:31 Ticket #1329 (Null Pointer Exception on browseVolume when no existing volumes) closed by npeterson
11:27 Ticket #1304 (UnhandledException(PLoSMedicine)> max(1, startPage - 9) is undefined) closed by npeterson
11:22 Ticket #1298 (Cannot access install scripts for ambra) closed by npeterson
11:20 Ticket #1286 (Notes Across Different Sections of Text Should Not Be Allowed) closed by npeterson
11:14 Ticket #1241 (Competing Interest Statement Radio button text) closed by npeterson
10:39 Ticket #1506 (Blog Coverage - Bloglines is not listed on demo) closed by npeterson
09:43 Ticket #1433 (RSS feeds currently include HTML tags in titles which are not processed by ...) closed by zmclaughlin
09:43 Ticket #1433 (RSS feeds currently include HTML tags in titles which are not processed by ...) reopened by zmclaughlin
09:39 Ticket #1487 (Edit Rating default title) closed by zmclaughlin
fixed.
09:27 Ticket #1490 (Formal corrections in Issues seems misaligned) closed by zmclaughlin
Checked on FF 3.0 and IE 8 and it looks good.
09:16 Ticket #1494 (Larget Competing Interest statements break formating...) closed by zmclaughlin
09:12 Ticket #1500 (Science Commons and UL logos missing from bottom of homepages) reopened by zmclaughlin
09:04 Ticket #1503 (stumbleupon bookmarklet not passing proper URL) closed by zmclaughlin
Correct link is now being sent to stumbleupon Decoded link sent: …
08:54 Ticket #1507 (Change 'collections' to 'collection' where it says 'Included in the ...) closed by zmclaughlin
Verified collection is now singular

10/14/09:

16:42 Ticket #1506 (Blog Coverage - Bloglines is not listed on demo) reopened by josowski
I just was investigating this a bit more. Turns out that if a retrieval …
16:21 Ticket #1496 (Saf 3.x: Trackback URL overlaps rhc) closed by stoomey
15:16 Ticket #1506 (Blog Coverage - Bloglines is not listed on demo) closed by josowski
15:00 Ticket #1507 (Change 'collections' to 'collection' where it says 'Included in the ...) created by zmclaughlin
To reproduce go to an article included in a collections, but view it in …
14:01 Ticket #1506 (Blog Coverage - Bloglines is not listed on demo) created by zmclaughlin
Go to any article Go to metrics page At the bottom of the page it is …
13:43 Changeset [7916] by dragisak
Upgrade Topaz dependency to 0.9.5 release.
13:35 Ticket #1448 (Invalid URI - duplicate article DOIs) closed by npeterson
13:32 Ticket #1505 (ALM - display message changes on refresh for newly published article on ...) created by npeterson
When you click on Related Content for a newly published paper is displays …
12:18 Changeset [7915] by dragisak
If copying of body from source to destination fails first time with …
12:11 Ticket #1502 (IE7 Not rendering the article) closed by josowski
12:04 Ticket #1448 (Invalid URI - duplicate article DOIs) reopened by npeterson
12:03 Ticket #1448 (Invalid URI - duplicate article DOIs) closed by npeterson
11:59 Ticket #1504 (Empty H3 headers in some articles) created by npeterson
Some article types, particularly essays and editorials, begin with an …
11:48 Ticket #1503 (stumbleupon bookmarklet not passing proper URL) created by zmclaughlin
This is similiar to #1317 Go to any article: …
10:46 Ticket #1492 (PLoS Reports - member history doesn't reflect data range) closed by npeterson
Maybe we should disable
10:45 Ticket #1484 (PLoS Reports - not counting AWStats data source) closed by npeterson
10:44 Ticket #1482 (PLoS Reports - unable to View or Edit IP Ranges) closed by npeterson
10:07 Ticket #1502 (IE7 Not rendering the article) created by josowski
This occurs on this article: …
09:34 Ticket #1501 (ambra-cas no longer works under java 1.5) created by russ
we get a class version error of some kind […]

10/13/09:

17:18 Ticket #1489 (Can't browse by collection) closed by josowski
17:05 Ticket #1486 (Change of Email address notification) closed by josowski
Nevermind, found the mail in my spam folder.
16:34 Ticket #1500 (Science Commons and UL logos missing from bottom of homepages) created by stoomey
On Demo, the Science Commons and UL logos are missing from the bottom of …
15:40 Ticket #1499 (Display annotation bug) created by josowski
If you display an annotation, and then click on another annotation to …
15:38 Ticket #1498 (New Annotation popup z order) created by josowski
If you display an annotation, then select text to create a new annotation, …
15:30 Ticket #1485 (Articles which have the 'info' link in their parent journal do not have ...) closed by zmclaughlin
Since there are multiple articles from different journals under the same …
15:23 Ticket #1483 (The bar around search in adv search is highlighted in pink on PLoS ...) closed by zmclaughlin
Verified in demo
15:22 Ticket #1479 (PLoS Reports tables with data that contains large numbers overlaps the ...) closed by zmclaughlin
Verified on demo
15:20 Ticket #1497 (Use same "Back to Article" link on email form as on other pages) created by stoomey
On the email article form, the "Back to Article" link should look the same …
15:08 Changeset [7914] by stoomey
Added new div and class to article_related.ftl and screen.css to fix …
15:01 Changeset [7913] by josowski
Updated the display of competing interest statments in the annoation popup …
14:42 Ticket #1496 (Saf 3.x: Trackback URL overlaps rhc) created by stoomey
In Safari 3.x, on the Related Content tab, a long trackback url will …
11:21 Ticket #1495 (Annotation Feed) created by josowski
Note author is not included in the feed. RE: "#2 - Editorial User Gets …
11:00 Ticket #1494 (Larget Competing Interest statements break formating...) created by josowski
When entering a large competing interest statement on an article …
10:45 Ticket #1493 (RSS Feed formating incorrect) created by josowski
Article titles have "<italic>" in their names. …
10:18 Changeset [7912] by josowski
When creating a rating where no title was entered for the comment, when …

10/12/09:

17:58 Ticket #1481 (The Wrong link from article to collection) closed by npeterson
17:12 Ticket #1492 (PLoS Reports - member history doesn't reflect data range) created by npeterson
 http://plosreports-demo.plos.org/ Log in as User22 Select My Account, at …
17:00 Ticket #1491 (Advanced Search by Subject) created by josowski
When I click on advanced search: …
16:38 Changeset [7911] by dragisak
Change Dublin Core namespace to recommended default. See …
16:35 Ticket #1490 (Formal corrections in Issues seems misaligned) created by josowski
 http://plosgenetics-demo.plos.org/article/browseIssue.action?issue=info%3Ad
16:21 Ticket #1489 (Can't browse by collection) created by josowski
Clicking on Browse Articles and then collections takes you to the …
16:13 Changeset [7910] by dragisak
Add datatype="" to dc:description and dc:title to strip it from HTML tags.
15:51 Ticket #1488 (Need SQL Delete statements for PDF and XML from July 2005) created by npeterson
For those articles published pre-Aug 1st 2005, it looks like we have …
15:50 Ticket #1487 (Edit Rating default title) created by josowski
When creating a rating where no title was entered for the comment, when …
15:38 Ticket #1486 (Change of Email address notification) created by josowski
When I attempted to change my email address. I never received an email to …
15:38 Ticket #1485 (Articles which have the 'info' link in their parent journal do not have ...) created by zmclaughlin
Go to: …
15:30 Ticket #1484 (PLoS Reports - not counting AWStats data source) created by npeterson
Go to site:  http://plosreports-demo.plos.org/ Login for any user, then …
15:21 Changeset [7909] by dragisak
Fix datatype for dc:date. Namespace was wrong and @datatype was missing …
15:12 Ticket #1481 (The Wrong link from article to collection) reopened by zmclaughlin
Nick restarted demo but the links still link to production links.
14:10 Ticket #1483 (The bar around search in adv search is highlighted in pink on PLoS ...) created by zmclaughlin
Go to Clinical Trials and select Adv Search. Scroll down to the search …
13:24 Ticket #1482 (PLoS Reports - unable to View or Edit IP Ranges) created by npeterson
Go to PLoS Reports Demo site:  http://plosreports-demo.plos.org/ Login as …
10:08 Ticket #1481 (The Wrong link from article to collection) created by zmclaughlin
On the individual article, in the right hand column menu, the link to the …

10/09/09:

15:24 Ticket #1446 (No result defined for action org.topazproject.ambra. ...) closed by zmclaughlin
Verified that  http://plosone-demo.plos.org/static/zoe.action?request=33
15:09 Ticket #1474 (CODE_ARTICLE_TITLE error on four articles) closed by zmclaughlin
14:37 Ticket #1480 (The PLoS Reports drop downs do not include the updated data that is now ...) closed by zmclaughlin
14:14 Ticket #1480 (The PLoS Reports drop downs do not include the updated data that is now ...) created by zmclaughlin
There is more data available than is being made available through PLoS …
14:02 Ticket #1479 (PLoS Reports tables with data that contains large numbers overlaps the ...) created by zmclaughlin
Go to:  http://plosreports-demo.plos.org/plosreports Select: User: …
13:54 Ticket #1478 (PLoS Reports - There is an extra option in the Journal Dropdown 'PLoS ...) closed by zmclaughlin
the drop down 'PLoS Journals' was removed.
13:05 Changeset [7908] by dragisak
Handle situation when Article.publisher field is null.
13:00 Ticket #1477 (The antibodies online ad is not showing up in the top left hand banner ad ...) closed by zmclaughlin
12:26 Ticket #1478 (PLoS Reports - There is an extra option in the Journal Dropdown 'PLoS ...) reopened by russ
12:17 Ticket #1478 (PLoS Reports - There is an extra option in the Journal Dropdown 'PLoS ...) created by zmclaughlin
The PLoS Journals listing does not appear to have much data associated …
12:14 Ticket #1158 (IE6 - Advanced search form date range calendar position is wrong) closed by zmclaughlin
12:13 Ticket #1158 (IE6 - Advanced search form date range calendar position is wrong) reopened by stoomey
12:12 Ticket #1158 (IE6 - Advanced search form date range calendar position is wrong) reopened by stoomey
12:00 Changeset [7907] by stoomey
Revised correctons.js to use a span inside of correction list items …
10:58 Ticket #515 (develop a proper way to include freemarker templates on a per virtual ...) closed by npeterson
10:51 Ticket #1450 (On articles that we should be suppressing Counter metrics for (those ...) closed by zmclaughlin
Data is now displaying for all articles.
10:50 Ticket #1442 (Custom Google Scholar XSL) closed by npeterson
10:12 Ticket #1463 (Using IE 8 the metrics graph is pushed down on the page) closed by zmclaughlin
09:57 Ticket #1471 (Rendering issue on I.E. 6 caused by code on every page <?xml version="1.0" ...) closed by zmclaughlin
Tested on I.E. 6.0 and the issue has been resolved.
09:14 Ticket #1475 (Journal information is no longer displaying below the article titles in ...) closed by zmclaughlin
Also cannot reproduce. Verifying.
08:47 Ticket #1463 (Using IE 8 the metrics graph is pushed down on the page) reopened by zmclaughlin
Tested again on i.e. 8. On initial view the graph came up fine. I …

10/08/09:

16:57 Changeset [7906] by dragisak
Upgrade to Mulgara 2.1.4
16:37 Ticket #1477 (The antibodies online ad is not showing up in the top left hand banner ad ...) created by zmclaughlin
The antibodies online ad displayed in the top left hand banner ad is not …
16:16 Changeset [7905] by dragisak
Nullable property in view will cause whole entity object to not got loaded …
13:01 Ticket #1444 (templates from other journal contexts are displayed if ...) closed by zmclaughlin
12:17 Changeset [7904] by josowski
The private class TemplateKey? didn't handle nulls well. It shouldn't ever …
10:20 Ticket #1019 (note range select bug in firefox 3.0) closed by zmclaughlin
Checked on FF3.0.6 on Windows XP Checked on 3.0.14 on Linux both look …
10:09 Ticket #1476 (Ambra not returning 404 on invalid static pages) created by josowski
When a request is made for a URL in the "/static" namespace that does not …
10:06 Changeset [7903] by josowski
Switching the static/NoOpAction namespace to use the minimal stack of …
09:37 Ticket #1475 (Journal information is no longer displaying below the article titles in ...) created by zmclaughlin
If you go to the new collections page: …
09:25 Ticket #1474 (CODE_ARTICLE_TITLE error on four articles) created by zmclaughlin
From Web Production: On demo, these articles ingested with …
09:08 Ticket #1019 (note range select bug in firefox 3.0) reopened by zmclaughlin
Is the note supposed to have that little white area to the right of it? …

10/07/09:

16:31 Ticket #1446 (No result defined for action org.topazproject.ambra. ...) reopened by zmclaughlin
16:01 Ticket #1469 (Remove links from journal names in collection issue ToC) closed by zmclaughlin
Verified.
16:01 Ticket #1460 (Collections) closed by zmclaughlin
Verified. The publication info appears below the article: Example: …
15:55 Ticket #1473 (When elevating a note to a correction, sometimes the object cache object ...) created by zmclaughlin
When elevating a note to a correction, sometimes the object cache object …
15:47 Ticket #1446 (No result defined for action org.topazproject.ambra. ...) reopened by zmclaughlin
Checked using  http://www.plosone.org/static/zoe.action?request=33 but …
15:14 Ticket #1468 (RHC menu link to the collection has the wrong label) closed by zmclaughlin
extra xml will be removed by web production. Verified and issue has been …
14:14 Changeset [7902] by dragisak
Remove unnecessary XML declaration that is causing browser problems.
13:46 Ticket #1463 (Using IE 8 the metrics graph is pushed down on the page) reopened by zmclaughlin
13:22 Ticket #1466 (NPE in admin panel) closed by zmclaughlin
12:20 Ticket #1472 (Admin Panel Delete and reingestion of articles not behaving correctly - ...) created by zmclaughlin
If an article is deleted the listing still appears in the browse by …
11:42 Ticket #1015 (include issn in extended feed) closed by npeterson
11:41 Ticket #1009 (add PMC article-type to extended feed) closed by npeterson
11:38 Ticket #981 ('see all ratings' needs paging) closed by npeterson
11:35 Ticket #940 (Verify that ambra-theme is up to date and also only maintain copies of ...) closed by npeterson
11:21 Ticket #1471 (Rendering issue on I.E. 6 caused by code on every page <?xml version="1.0" ...) created by zmclaughlin
This: <?xml version="1.0" encoding="UTF-8"?> appears at the top of every …
09:20 Ticket #1470 (Package Ambra into a single VMWare Virtual Appliance) created by rcave
Package Ambra/Topaz into a single VMWare virtual appliance with some …

10/06/09:

16:32 Changeset [7901] by dragisak
RDFa: add dc:description information to article page.
16:14 Ticket #1469 (Remove links from journal names in collection issue ToC) created by zmclaughlin
 http://ploscollections-demo.plos.org/article/browseIssue.action?issue=info% …
16:03 Ticket #1468 (RHC menu link to the collection has the wrong label) created by zmclaughlin
 http://ploscollections-demo.plos.org/article/info%3Adoi%2F10.1371%2Fjournal
16:00 Changeset [7900] by dragisak
RDFa: add dc:subject information to article page.
13:44 Changeset [7899] by wtoconnor
Added check for null objects before they are used. Addresses #1466
12:52 Changeset [7898] by stoomey
Added property overflow:hidden to both .loadingCycler and .loadingCycler …
09:39 Ticket #1467 (Backspacing over an Author name in advanced search rather than using the ...) created by zmclaughlin
When I deleted an author name from the list by backspacing the search ran …
08:25 Ticket #1465 (The message on the article that says "Published in the September 2008 ...) closed by zmclaughlin
Verified. The year is now displaying on the link to the journal archive.

10/05/09:

16:22 Ticket #1466 (NPE in admin panel) created by npeterson
 http://ploscollections-demo.plos.org/admin/adminTop.action Errors …
15:31 Changeset [7897] by josowski
I created a new interceptor stack for struts actions that don't really …
13:02 Ticket #1465 (The message on the article that says "Published in the September 2008 ...) created by zmclaughlin
Compare: …
12:13 Changeset [7896] by josowski
Upgrading Dojo to 1.3.2 Dojo 1.3.2 includes a number of fixes for IE8, …
12:01 Ticket #1464 (If a complex advanced search is edited and made even more complex and run ...) created by zmclaughlin
Example search: […] Error: Bad Request Your browser sent a request …
11:34 Ticket #1449 (Error in article feed for categories with single quotes (character escape ...) closed by zmclaughlin
Verified Did a comparison of Demo vs Stage (because production redirects …
10:09 Ticket #1461 (Setting the browser language to French (and possibly other languages) will ...) closed by zmclaughlin
Verified on Demo - issue is fixed
09:32 Ticket #1463 (Using IE 8 the metrics graph is pushed down on the page) created by zmclaughlin
Using I.E 8 on Windows XP (and reported on Windows Vista) the metric graph …
08:41 Ticket #1453 (Javascript does not complete when alm is unavailable) closed by zmclaughlin

10/02/09:

13:58 Ticket #1462 (ambra init script fails to stop ambra) created by russ
howdy! when i run /etc/init.d/ambra stop on branch, i get a bash error …
09:56 Changeset [7895] by dragisak
Make sure we check for updated Topaz snapshots in every build (default is …

10/01/09:

16:40 Ticket #539 (Journal definition via a XML file.) closed by npeterson
13:55 Changeset [7894] by josowski
This forces our freemarker templates to run under the "en_US" locale. …
11:24 Changeset [7893] by josowski
Moving the template cache config settings to the …
11:22 Changeset [7892] by josowski
Moving the template cache config settings to the …
11:21 Ticket #516 (update XSL file to 2.0) closed by npeterson
10:44 Ticket #502 (Add references (cited articles etc.) to the article feed data) closed by npeterson
10:32 Ticket #159 (xmlns(x=foo) is broken in xpointer lib) closed by npeterson

09/30/09:

18:04 Changeset [7891] by josowski
The cache_storage option has been moved to the ambra configuration xml …
18:01 Changeset [7890] by josowski
By default the freemarker cache stores templates using just their filename …
14:30 Ticket #1461 (Setting the browser language to French (and possibly other languages) will ...) created by zmclaughlin
If you set the browser language to French On Firefox go to >Edit …

09/29/09:

14:59 Changeset [7889] by josowski
Implementation of the collection journal list feature in the UI. …
14:50 Ticket #1460 (Collections) created by josowski
Articles that have been cross published should have a listing of journal …
12:24 Changeset [7888] by josowski
Adding parameter to the browseService bean to avoid Intellij warnings
12:04 Ticket #1094 (mulgara doesn't start on boot) reopened by rcave
11:59 Ticket #1350 (COUNTER Data Migration and Data Collection System) closed by rcave
11:58 Ticket #1094 (mulgara doesn't start on boot) closed by rcave
11:51 Ticket #1114 (Upgrade Groovy to 1.5.8 (when available)) closed by rcave
11:45 Ticket #1260 (Multiple Scopus Citations in Cited By Links) closed by rcave
10:48 Ticket #1459 (error page for dx.plos.org is branded PLoS ONE but should be ...) created by zmclaughlin
If you are using the dx.plos.org resolver (which is used by PMC, PubMed?, …

09/28/09:

16:52 Changeset [7887] by josowski
Renaming a function to improve code readability
10:43 Changeset [7886] by dragisak
Upgrade to Mulgara 2.1.4-SNAPSHOT

09/25/09:

16:34 Changeset [7885] by josowski
Strings were not being escaped when being passed in as search parameters …
12:26 Ticket #1458 (query string is preserved when clicking links in admin panel) created by russ
so, let's say i need to delete a cache key, with a URL like: […] …
11:20 Ticket #1457 (MED & BIO journals have large number of broken links in the journal ...) created by zmclaughlin
Example Medicine - Dec 2008 - …
10:27 Changeset [7884] by dragisak
Fix quote characters.
10:18 Changeset [7883] by dragisak
Add DOI namespace to common header.
08:58 Ticket #1443 ("without the words" option in advanced search does not affect search ...) closed by zmclaughlin
Made a mistake in opening bug.

09/24/09:

17:59 Ticket #1417 (unfamiliar ingest errors for pone.0006676.zip) closed by russ
15:58 Ticket #1456 (Search is inconsistent when searching strings with symbols) created by zmclaughlin
Use simple search to search for two different article titles without any …
15:22 Ticket #1455 (Several fields in Research Article (including abstract) are not searchable) created by zmclaughlin
Research article journal.pmed.1000047 used as an example: …
13:54 Ticket #1454 (Bug: DNA sequence not wrapping within margins of the paragraph.) created by zmclaughlin
 http://plosone-stage.plos.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0
13:24 Ticket #1453 (Javascript does not complete when alm is unavailable) created by zmclaughlin
ALM system is down i/o error in the javascript because of the timeout. …
12:04 Changeset [7882] by dragisak
RDFa: change dc:identifier and dc:publisher * dc:identifier is now URI to …

09/23/09:

12:51 Changeset [7881] by dragisak
Upgarde to Freemarker 2.3.15

09/22/09:

15:43 Ticket #1452 (Inline artitcle text sizing) created by josowski
There is a handy feature on this website that allows the end user to …
14:27 Changeset [7880] by dragisak
Add Dublin Core RDFa to article page. Included elements in every page: * …

09/21/09:

15:20 Ticket #1451 (Ambra memory leak) created by rcave
There's a memory leak in Ambra. Heap memory usage and the memory pool "PS …
14:46 Changeset [7879] by rcave
Updated the release notes to correct a feature list item.
11:28 Ticket #1450 (On articles that we should be suppressing Counter metrics for (those ...) created by zmclaughlin
Example: …

09/17/09:

16:16 Ticket #1449 (Error in article feed for categories with single quotes (character escape ...) created by rcave
Error occurs for categories with a single quote in the category: […]
08:42 Ticket #1448 (Invalid URI - duplicate article DOIs) created by rcave
There are a lot of the following errors in the log file. Given the …

09/16/09:

14:57 Changeset [7878] by russ
get as much plos-specific config as possible out of packages …
14:51 Ticket #1447 (annotation popup does not move if another annotation is clicked) created by russ
1. view an article with multiple note annotations 1. click on one note, …
13:07 Ticket #1446 (No result defined for action org.topazproject.ambra. ...) created by rcave
The code in struts.xml […] […]
11:54 Ticket #1445 (Doing an advanced search for a word and specify "In the abstract" for ...) created by zmclaughlin
Example: Go to:  http://plosmedicine-demo.plos.org Do an advanced search: …
11:45 Ticket #1444 (templates from other journal contexts are displayed if ...) created by russ
freemarker has a template cache - the HTML that templates compile into is …
10:29 Ticket #1443 ("without the words" option in advanced search does not affect search ...) created by zmclaughlin
Example search on:  http://plosmedicine-demo.plos.org ( thailand ) AND ( …
10:02 Changeset [7877] by dragisak
Save archive name during ingest to Article entity

09/15/09:

09:32 Changeset [7876] by josowski
Refactoring how we handle XSL style sheets a bit to make things a little …
Note: See TracTimeline for information about the timeline view.