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Ticket Summary Status Owner Type Priority Milestone
410REST based interface for Annotations, Users, Journals, Issues.newenhancementcritical--
515develop a proper way to include freemarker templates on a per virtual journal basisnewdefectcritical--
538Text for copyright statement associated with PLoS feeds in the publishing applicaiton.newrichtaskcritical
653trackback spam filter is too conservativenewenhancementcritical
675Admin application needs to handle journals better.assignedjsuttorenhancementcritical
724automate volume/issue collections on ingestnewjsuttortaskcritical
744Advanced Search - Lucene / Mulgaranewtaskcritical
780Support for Java 'generics'.newpradeepenhancementcritical0.9.1
854Ambra Webapp Integration Testsnewdefectcritical
910Fix and rework user handlingnewdefectcritical
919support external template setsnewamitenhancementcritical
926global default journal - get rid of requirement to configure overlay journalnewpradeepenhancementcritical
972standardize parameter names for actionsnewtaskcritical
995article-state cache key is not cleared when article is publishednewrussclarificationcritical0.9.1
1004related articles not displaying in plosgeneticsnewrichdefectcritical0.9.1
57Create a group profile service. get/set/list profile info for user groups.newpradeeptaskhigh--
66Wiki page to articles for various interesting applications (RDF Abstract, language translation, etc.)newrichenhancementhigh--
69Provide more info to policy in article access-controlnewronaldenhancementhigh--
175ensure uniqueness of display-namesnewpradeepdefecthigh--
345Move Plos Registration database to Mulgaranewamitenhancementhigh--
407push email change through to mulgara in emailConfirmationSuccess.action - do not require user to logout and then log back in to propagate change to mulgaranewdefecthigh
418Update Annotation data model (After #357 is done)newrichdefecthigh0.9.1
440Rating content model need fixing.newronalddefecthigh0.9.1
441Replies content model needs fixing.newpradeepdefecthigh0.9.1
467Remove Publishing application RDF dependency on Topaz URI RDF namespace.newamitdefecthigh--
605return user to origination journal after createNewUser or editProfileassignedjsuttorenhancementhigh--
614Email address(es) specified for correspondence with article's creators is not being migrated or ingestednewrichtaskhigh
630Masthead questionsnewrichenhancementhigh
640annotations in the paragraphs following equations are placed incorrectlynewdefecthigh
690pull image attribution info from the cover image article and display on TOC pagenewrichenhancementhigh
717add plos article type, related articles to feed, add group by article type sorting optionnewjsuttorenhancementhigh
725configurable rating categories by article typenewjsuttorenhancementhigh
729article is missing from feed, but shows up in browse listnewjkirtonclarificationhigh0.9.1
765Change name and usage from 'model' to graph name and similar attribute for blob.newpradeepclarificationhigh0.9.1
783Correction annotations outside of <body> element.newjkirtontaskhigh
818Change the Embedded class concept: instead of treating them as values ala Hibernate, treat them as Entities too.newpradeepenhancementhigh0.9.1
819Criteria should allow childCriteria() creation for embedded classes in addition to using '.' as a separator.newpradeepenhancementhigh0.9.1
820Use ontologies to store content model info and have references to them from ClassMetadata etc.newpradeepenhancementhigh
842Download Citation page citation need better formattingassignedjkirtondefecthigh
869Browse by Date: use most recent pub date as the endDate for "past week", "past month", and "past 3 months"newtaskhigh
870annotation in numbered list messes up formattingassignedjkirtondefecthigh
916Define a naming convention for Model classes and rename all Model classesnewtaskhigh
931extend cascading file lookup filter to freemarker templatesnewenhancementhigh
945support article packages >4GB in sizenewamitenhancementhigh
981'see all ratings' needs pagingassignedstoomeyenhancementhigh
989Add an @Reference or @Predicate(ref=...) annotation to denote references for "usage-models"newpradeepenhancementhigh
996disallow text selection based article annotations for text adjacent to figures and tablesnewjkirtondefecthigh
104Handling different forms of copyrightnewrichdefectmedium--
150Need to track licenses.newtaskmedium--
171Future of standalone libraries within Topaznewamittaskmedium--
420logging: bad article ID should give 404, not site errornewjsuttorenhancementmedium--
421Upgrade CAS to 3.1newpradeeptaskmedium--
462Create a filter framework to allow for 'smart' collection of objects.newronaldenhancementmedium
502Add references (cited articles etc.) to the article feed dataassignedjsuttorenhancementmedium
509footnote links for figures with footnotes don't work (also, footnote links are showing the rid instead of the footnote)newrichdefectmedium--
517group author name missing from "email this article" templatenewjsuttordefectmedium--
520Line wrap for lengthy gene sequencesnewalexenhancementmedium--
539Journal definition via a XML file.newrichtaskmedium--
565browse pages should have a feedicon and link to the feed as well as a feed link in <head>assignedrussenhancementmedium
593group authors do not show up in feednewalexdefectmedium
600handle multiple abstracts correctly on ingestnewrichtaskmedium
641bad behavior when user tries to annotate in acknowledgement section illegal areanewjsuttordefectmedium
715group author name missing from citation downloadreopenedjkirtondefectmedium
718PLoS webapp should register a TemplateExceptionHandler to avoid Exception traces as Results in Templatesnewjsuttordefectmedium
745caching improvements for feedsnewrichclarificationmedium0.9.1
771Add new built-in function for 'type' in OQL and Criteria queries.newronaldunassignedmedium
778Developer friendly mechanism for discovering annotated classes.newpradeepenhancementmedium
785Migrate Formal Correction Header HTML markup assembly from javascript to viewnlm-v2.xslnewjkirtontaskmedium
787retraction annotationnewjkirtontaskmedium
821Restrictions as sub-classesnewpradeepenhancementmedium
823Support tx recovery in OTM for local transactionsnewronaldenhancementmedium
858cache searchassignedjsuttorenhancementmedium
859placing a note directly on a reference link breaks the linknewjkirtondefectmedium
875RH nav bar too long for page if article contains many sectionsnewamitdefectmedium
913odd behavior in admin on deleting/readding issuesnewrusstaskmedium0.9.1
930handle site-wide overridesnewenhancementmedium
932Roll back r5648 after move to JDK 1.6newtaskmedium0.9.1
934admin/findUser.action "Find User by Id" form needs updatingnewalextaskmedium0.9.1
939New tests in OTM needed for Interceptornewpradeeptaskmedium0.9.1
940Verify that ambra-theme is up to date and also only maintain copies of what we changed,newalextaskmedium
946support very large assets (supporting info, etc.)newamitenhancementmedium
971there are "note" annotations in production with state 0newpradeepdefectmedium0.9.1
976IE6: Login page is too wide - missing fixed widthnewjkirtondefectmedium
979display total number of search resultsnewtaskmedium
982Add HTTP exires header to served static resourcesnewrussenhancementmedium
990Invalid annotation URI supplied to listReplyActionassignedjkirtondefectmedium
1007article "linkback" URL on listThread.action uses deprecated fetchArticle.action formatnewrichdefectmedium
402XSL transform of RA abstracts with subsectionsassignedstoomeyenhancementlow
512Publishing Application does not create deceased footnote when <contrib> element has deceased="yes" attributenewalexenhancementlow--
531redirect to login page at https://cas-FQDN/assignedrussdefectlow--
564browse by subject pages should include the main feed as well as the subject feed in the <head> sectionnewjsuttorenhancementlow
567add 'delete' button to editAnnotation pagenewjsuttorenhancementlow
719dynamic title for browseIssuenewalextasklow
741Struts 2 URLHelper bugnewjkirtondefectlow
746fix lazy loading browse cache without losing related performance gainsnewamitenhancementlow
775mulgara connects to pub-app on random high port for ehcache, should use specified port 8111newronaldtasklow0.9.1
929move freemarker templates out of WEB-INF/pagesnewrusstasklow0.9.1
997Update javascript [dojo] in the ambra/registration/webapp projectnewjkirtondefectlow
89Prevent as far as possible automated registration of users.newrichtaskunassigned--
111Define user roles to simplify access control managementnewenhancementunassigned--
124Write a new alert servicenewjsuttordefectunassigned--
145Implement profile access-control testsnewalexdefectunassigned
159xmlns(x=foo) is broken in xpointer libnewrichdefectunassigned--
182CAS email lookup service needs to be securednewrichdefectunassigned--
186Topaz should handle users authenticated from multiple signon registriesnewdefectunassigned--
191Fix handling of fedora exceptionsnewdefectunassigned--
225Support different languages in searchnewrichdefectunassigned--
492should configure struts2 http (and https) port propertiesnewalexenhancementunassigned--
494Need to get author affiliations into mulgaranewamitdefectunassigned--
516update XSL file to 2.0newrichenhancementunassigned--
698Need a way to return the language tag associated with an RDF string literal.newpradeepenhancementunassigned
781findArticle.action constructs invalid pubmed search URLs in some casesnewjsuttordefectunassigned
824Support tx recovery in OTM for global transactionsnewronaldunassignedunassigned0.9.1
832Make ItqlStore.createModel/dropModel session awarenewronaldunassignedunassigned0.9.1
840Mapper selection needs to be revisitednewenhancementunassigned0.9.1
867provide a link to annotated article in admin list of flagged commentsnewjsuttorunassignedunassigned
871Admin interface to change a user's passwordnewjsuttorenhancementunassigned
872discussion thread: too many RE:'snewjsuttorenhancementunassigned
883View Projection var serialization is POJO specific.newronaldenhancementunassigned
884@PredicateMap improvementsnewronaldenhancementunassigned
885Definition updates as an undoable setnewronaldenhancementunassigned
886@Predicate must be present to mark a persisted field. The rest are considered transient.newronaldenhancementunassigned0.9.1
889allow admin to set volume and issue of formal correction notenewrichenhancementunassigned
899extend DOI resolver to handle supplementary-materialnewjsuttorenhancementunassigned
911"First" concept for representations is bogus. Replace with something else.newdefectunassigned0.9.1
921Remove CitationInfo and use Citation insteadnewronaldunassignedunassigned0.9.1
927use overlay journal name as title of admin pagesnewrusstaskunassigned
949Create and publish rdfs/owl description of our content modelnewamitunassignedunassigned
974dummy/login page has incorrect help textnewpradeeptaskunassigned
985it is impossible to remove all issues from a volumenewrichdefectunassigned
987Annotation display messed upnewjkirtondefectunassigned
1001AllegroGraph connector?newronaldenhancementunassigned
1006it's bad to have ambra.virtualJournals.JournalName.url defined in templatenewrussdefectunassigned
1009add PMC article-type to extended feednewrichtaskunassigned
1010add article type restriction to home page recent article blocknewrichtaskunassigned
1013cas login page is wide in IE6newstoomeydefectunassigned
1014correction citation format should match article citation formatnewrichdefectunassigned0.9.1
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