Activity
From 09/17/2018 to 10/16/2018
10/16/2018
- 06:02 PM bug #7829 (In Progress): Improve deduplication of parsed names and references
- 06:01 PM bug #7829 (Closed): Improve deduplication of parsed names and references
- The default matching strategies are to strict for data name and nom. ref. data created by a parser. Also there are so...
- 05:51 PM bug #7828 (In Progress): Remove date published from journals in E+M
- >1200 journals from the initial import in 2004 do have a date published. Journals generally should not have a date pu...
- 03:22 PM bug #7827 (Closed): LazyInitializationException when saving term editor (named areas)
- This happens when dragging a term on at least level 2 to another term on at least level 2
~~~ text
login : admin
... - 02:06 PM bug #7826: NPE after saving groupbulkeditor
- please review
- 02:05 PM bug #7826 (Resolved): NPE after saving groupbulkeditor
- Applied in changeset commit:taxeditor|782e447962cac9eef6e2e7f9c1a394ad8657c1c8.
- 01:38 PM bug #7826 (Closed): NPE after saving groupbulkeditor
- ~~~ text
!ENTRY org.eclipse.core.jobs 4 2 2018-10-16 13:37:28.658
!MESSAGE An internal error occurred during: "Lade... - 01:36 PM bug #7699: NPE in CdmTransientEntityCacher.getCacheElement()
- I also had it today in the Users Bulkeditor:
~~~
login :
editor version : 5.4.0.201810151448
server : ()
sch... - 12:40 PM feature request #3989: [DISCUSS] Allow defining the vocabularies to be offered in the select dialogs
- in admin preferences now there is the possibility to define the vocabularies for common name area selection, distribu...
- 12:38 PM feature request #7283: Improvements for alternative identifier search
- the search for identifier and titleCache is implemented as well.
- 09:19 AM feature request #7809: Improve namerelationship handling in editor
- jenkins failed because of download problems, but the nightly build of this night contains the implementation, now.
- 09:06 AM feature request #7809 (Feedback): Improve namerelationship handling in editor
- In yesterday evenings nightly the invers direction still is not available so I can't test.
10/15/2018
- 07:08 PM bug #7825 (New): NPE in eu.etaxonomy.taxeditor.bulkeditor.input.sortprovider.GroupNameComparator after editing GrantedAuthorityies of Group
- after editing the Group "Curator" in edit-test/phycobank
~~~
login :
editor version : 5.4.0.201810151448
serve... - 04:43 PM feature request #7809 (Resolved): Improve namerelationship handling in editor
- please review. I adapted the wizard like it is descriped in ticket description. Maybe the text should be different??
- 03:45 PM feature request #7800 (In Progress): Parse preliminary RefDetails
- 03:44 PM feature request #7801 (In Progress): AM: Deduplicate references
- 12:55 PM task #7785: CdmUserHelper caches permission information
- Implemented and description updated.
- 12:05 PM task #7785 (Resolved): CdmUserHelper caches permission information
- Applied in changeset commit:cdmlib|8bbd4f27e47a00d244480b4f5a01056d415bda27.
10/14/2018
- 08:09 PM bug #7709: CdmTransientEntityCacher cannot handle multiple unpersisted entities of the same type
- Andreas Müller wrote:
> * the eu.etaxonomy.taxeditor.remoting.cache.ConversationalTransientEntityCacher transform... - 07:45 PM bug #7824 (Resolved): PopupViewRegistration not removing registered views causes memleak
- Applied in changeset commit:cdm-vaadin|bba202394eb654dfbdba5a8e7feeda461635157e.
- 07:16 PM bug #7824 (Closed): PopupViewRegistration not removing registered views causes memleak
- The PopupViewRegistration registers `ApplicationView`s and PopupViews. Alt least the `ApplicationView` are not remove...
- 02:57 PM feature request #7801: AM: Deduplicate references
- Find deduplicated records in CDM
~~~ sql
SELECT osb.id, ref.id, osb.idInSource, osb.idNamespace, ref.refType, ref... - 02:56 PM bug #7823 (In Progress): User Persons are not deduplicated
- 02:55 PM bug #7823 (Closed): User Persons are not deduplicated
- Persons related to users are often the same as they are only for different sec's.
We may want to deduplicate them....
10/12/2018
- 10:43 PM task #7758: Manual cleanup after E+M import
- Clean up Agent duplicates:
~~~ sql
SELECT osb.id, ab.id, ab.DTYPE, osb.idInSource, osb.idNamespace, ab.titleC... - 10:25 PM bug #7814 (Resolved): Section in Name and section in Basionym, usability
- Applied in changeset commit:cdm-vaadin|23cee55fd9f05d189974daa67201c0f552c216d3.
- 06:10 PM feature request #7648: Create taxonrelation to genus or species when subordinate names are created
- now the expected functionality I implemented, but we could think about refactoring the `TaxonGraphHibernateListener` ...
- 04:34 PM bug #7822 (Duplicate): RegistrationUI potentially causes memory problems or deadlocks
- Currently users complain about very slow response time of the edit-production server.
In order to verify the presu... - 01:58 PM bug #7818: TaxonRelationshipsDTOTest leaves test environment in unpredictable state
- > Also the TermLoader has an unloadAllTerms method. We could call this in the AfterClass method, but ONLY if the term...
- 11:15 AM feature request #7821 (Duplicate): Use log4j2 for cdmserver logging to avoid having a separate cron job for deleting log files
- Have a look at:
https://logging.apache.org/log4j/2.x/manual/appenders.html#RollingFileAppender
In this case an ... - 11:06 AM bug #6287 (Closed): Rolling cdmserver.log file only contains entries from startup phase
- This is fixed by fixing #7085
- 11:03 AM bug #7085 (Resolved): cdmserver logfiles getting too big, use RollingFileAppender
- The logging is now configured to daily logging i.e. every day a new log file is generated.
The change was done man... - 11:03 AM feature request #7820 (Rejected): Add cron job for deleting cdmserver log files after a specified time period
- By fixing #7085 the log files are now generated on a daily base. A cron job should delete the old log files, e.g. aft...
- 10:58 AM feature request #7819 (New): Log4j.properties file is not properly packaged by the cdmserver install script
- Changes applied to the log4j.properties file in the cdm-server project resources are not reflected in the installed c...
- 10:24 AM feature request #7793 (In Progress): Master ticket for E+M editor issues
- 09:08 AM task #7796 (In Progress): [CHECK] Handle Bibliography Name Facts correctly
10/11/2018
- 09:39 PM bug #7818: TaxonRelationshipsDTOTest leaves test environment in unpredictable state
- There are multiple possibilities.
The simplest is to add a logger saying that this test should not run as first whi... - 06:30 PM bug #7818 (Feedback): TaxonRelationshipsDTOTest leaves test environment in unpredictable state
- 04:04 PM bug #7818 (Feedback): TaxonRelationshipsDTOTest leaves test environment in unpredictable state
- as stated in #7648#note-14 the `TaxonRelationshipsDTOTest` causes problems for other tests.
e.g.: Running the foll... - 06:39 PM feature request #7648: Create taxonrelation to genus or species when subordinate names are created
- The problem described in #7818 was not the actual cause for the test failing in the full suite, another candidate is ...
- 04:08 PM feature request #7648: Create taxonrelation to genus or species when subordinate names are created
- Since this is not a problem with the `TaxonGraphHibernateListenerTest` I am creating a new issue: #7818
- 03:10 PM feature request #7648: Create taxonrelation to genus or species when subordinate names are created
- After moving the `TaxonGraphHibernateListenerTest` into `cdmlib-services` we are again facing problems with test bein...
- 11:45 AM bug #7817 (Duplicate): Team caches should not show '& al.'
- If a team is fully defined with all members of the team the caches should not show "at al." if the team is larger the...
- 10:14 AM feature request #7799: AM: Parse authorteams
- Useful scripts
~~~ sql
DECLARE @authorId as int;
Set @authorId = 3395
;
SELECT *
FROM Name n INNER JOIN dbo...
10/10/2018
- 01:58 PM feature request #7648 (Feedback): Create taxonrelation to genus or species when subordinate names are created
- The `RunAsAuthenticator` is in cdmlib-service and `TaxonGraphBeforeTransactionCompleteProcess` in cdmlib-persistence....
- 01:49 PM feature request #7648 (In Progress): Create taxonrelation to genus or species when subordinate names are created
- The taxon graph management processes are currently run in with the current authentication, this causes problems if a...
- 12:03 PM bug #7813 (Duplicate): Basionym without journal
- 09:45 AM task #7816 (New): Handle nomStatus references correctly
- In E+M most nomenclatural status have a reference. In most cases it is one of the references 7000000, 7100000, 720000...
- 08:42 AM task #7785: CdmUserHelper caches permission information
- Answer is in the updated description.
10/09/2018
- 06:26 PM task #7785: CdmUserHelper caches permission information
- Can you define what functionality is exactly needed from the CdmTransientEntityCacher and why #7709 needs to be fixed...
- 05:58 PM bug #7222: Phycobank UI improve labels
- To "Start a new registration process either for a name or typification."
Suggestion:
* "Start registering scien... - 05:54 PM bug #7222: Phycobank UI improve labels
- This issue is almost complete, please see the two open TODOs in the issue description.
- 05:51 PM task #7796: [CHECK] Handle Bibliography Name Facts correctly
- ERS: probably not to be imported at all
- 05:40 PM feature request #7815 (New): TaxonNameEditor: Hint user on missing citation detail for nomenclatural reference
- Reference detail, wenn NULL bei Speicherversuch: warning “Please insert the reference page and of figure of the nomen...
- 03:40 PM feature request #7799 (In Progress): AM: Parse authorteams
- 02:00 PM bug #7814: Section in Name and section in Basionym, usability
- Es funktioniert nur die erste Version, die für User etwas fehlerhaft wirkt.
Ich kann bei der Basionym-Referenz mit... - 01:23 PM bug #7814: Section in Name and section in Basionym, usability
- 2. Screenshot sollte zeigen:
You, Q. & Kociolek, J.P. - in You, Q., Kociolek, J.P. & Wang, X., New Gomphoneis Cleve ... - 01:22 PM bug #7814 (Closed): Section in Name and section in Basionym, usability
- Bedienungsfehler möglich, wenn neuer Name und Basionym jeweils eine In-Zitierung haben.
Vorgehen: Referenz eingebe... - 12:55 PM bug #7813 (Duplicate): Basionym without journal
- When a new name has a basionym, the basionym reference can be selected or be new.
If the reference is a new article ...
10/08/2018
- 03:00 PM task #7420 (Closed): Import for higher taxon graph for phycobank
- new ticket for the actual import tasks created: #7811
- 11:21 AM task #7420: Import for higher taxon graph for phycobank
- Ok, can you close the ticket and open a ticket for what ever you stil need?
- 11:04 AM task #7420 (Feedback): Import for higher taxon graph for phycobank
- I reviewed the imported taxon graph relations. The resulting graph exactly matches the expectations.
The implementat... - 08:54 AM task #7420: Import for higher taxon graph for phycobank
- all other data import and data cleaning issues are copied to #7808
- 08:31 AM task #7420: Import for higher taxon graph for phycobank
- Andreas Müller wrote:
> You should check by
>
> ~~~ sql
> SELECT titleCache, count(*) as n
> FROM TaxonName tn... - 02:59 PM task #7811 (In Progress): Import higher classifications
- 02:59 PM task #7811 (Feedback): Import higher classifications
- The following classifications need to be imported using the import created for #7420
* Frey W. 2015: Syllabus of t... - 02:36 PM bug #7777 (Resolved): NPE on login attempt after logout
- Applied in changeset commit:cdm-vaadin|3363dabd63329f2f2fd160f5a6c5107ba10a9d2e.
- 01:30 PM feature request #7810 (In Progress): DB preference to make Specimen editors visible
- 01:29 PM feature request #7810 (Closed): DB preference to make Specimen editors visible
- if the preference is set to false everything concerning specimen should be disabled:
* imports
* Specimen Type... - 01:08 PM feature request #7809 (In Progress): Improve namerelationship handling in editor
- 01:08 PM feature request #7809 (Feedback): Improve namerelationship handling in editor
- copied from #7793:
Namerelationships should be available for both directions in name editor details view.
We sh... - 11:36 AM feature request #3990: [DISCUSS] How to implement citation suggestion to each taxon
- Andreas Kohlbecker wrote:
> Do you want me to do something about this issue? I think my task was the according imple... - 08:23 AM feature request #3990 (Feedback): [DISCUSS] How to implement citation suggestion to each taxon
- Do you want me to do something about this issue? I think my task was the according implementation in the data-portal.
- 07:57 AM bug #7807 (New): Multiple mobile Usability issues
- The new google webmasters console reports multiple mobile Usability issues:
* Text too small to read
* Viewport n...
10/05/2018
- 06:34 PM feature request #7648: Create taxonrelation to genus or species when subordinate names are created
- implementation complete!
- 12:32 PM bug #3276 (Closed): NPE for "Move Elements" context menu option
- works fine
- 10:14 AM bug #3276: NPE for "Move Elements" context menu option
- The NPE I could not reproduce. The menu entry for move factual data is displayed only for descritions, now.
Why the... - 09:17 AM bug #3276 (Feedback): NPE for "Move Elements" context menu option
- I could not reproduce this exception how described above but there is another one.
Now there is also the context m... - 12:28 PM feature request #7502 (Resolved): Add further columns to bulk editor
- I implemented all of the mentioned properties as columns.
Please check all types of bulk editors. - 08:43 AM feature request #7806 (Resolved): GfBio Term Search issues
10/04/2018
- 09:53 PM feature request #7648: Create taxonrelation to genus or species when subordinate names are created
- "Session is closed!"-problem is solved now.
- 05:44 PM feature request #7648: Create taxonrelation to genus or species when subordinate names are created
- There is a problem when running the test in the maven test suite. The `TaxonGraphHibernateListenerTest` fails when it...
- 07:54 PM bug #6303 (Closed): distribution map is moving too fast
- 03:31 PM bug #6303 (Worksforme): distribution map is moving too fast
- Works for me, thanks!
- 02:23 PM feature request #7438: implement citation suggestion in dataportal
- done! the E+M portal is already configured accordingly
- 02:17 PM feature request #7438 (Resolved): implement citation suggestion in dataportal
- Applied in changeset commit:cdm-dataportal|1cda248cd9db631b3fd3b34c519f85a820283514.
- 11:34 AM feature request #7806 (Closed): GfBio Term Search issues
- * Only use "search" endpoint
* Use interal_only flag
* Allow wildcard (*) search
* Move ontology abbreviation to t... - 11:29 AM feature request #7805 (Duplicate): GfBio Term Search issues
- * use only "search" endpoint and not the "suggest" endpoint
* use "interal_only" ontologies
* Allow '*' wildcard se... - 09:45 AM feature request #7660 (Resolved): Indicate the row state in a NAT table via symbols
- Applied in changeset commit:taxeditor|1f677abd3ea026eab1835f317828d8be5ad6bd65.
10/03/2018
- 12:32 PM feature request #7804 (New): add names of concept relationships as mouse over to synonymy tab
- It is hard to remember meanings of all signs of the concept relations. Would be of great help if the name of the rela...
10/02/2018
- 06:20 PM feature request #7648 (Resolved): Create taxonrelation to genus or species when subordinate names are created
- please review commit:335d7c23
especially
* `PreferencePredicate.TaxonGraphSecRefUuid` predicate ok?
* `Cdm... - 06:05 PM task #7798: [AM, ERS]: Import (freetext) nameInSource correctly
- All names imported only by occurrences: (n=1435)
~~~ sql
SELECT n.nameId, n.nameCache, n.FullNameCache, n.uuid,... - 08:51 AM feature request #7803 (New): Add possibility to change feature of a fact
- It should be possible to change the feature of a fact.
This could be done by drag & drop into another group of facts...
10/01/2018
- 05:31 PM bug #7676 (Closed): Suchfunktionalität in Registration UI Dateneingabe
- Das war ein Problem mit der Verwechslung von TestProduktions und Test-System, guter Hinweis. Ticket geschlossen.
- 05:25 PM feature request #7802 (Duplicate): Portal-Info when an http-identifier "in preparation" is requested
- Ein heikeler Punkt ist, dass im editorial process, spätestens beim Proof-Reading Gutachter*innen oder Herausgeber*inn...
09/29/2018
- 06:14 PM task #7798 (In Progress): [AM, ERS]: Import (freetext) nameInSource correctly
- 04:35 PM task #7798: [AM, ERS]: Import (freetext) nameInSource correctly
- In einer nicht ganz kleinen Anzahl Fälle, für die der Name NUR als Freitext vorliegt, nicht als Link, wurde ein entsp...
- 03:39 PM task #7798: [AM, ERS]: Import (freetext) nameInSource correctly
- im Berlin Model gibt es ja 2 Felder in die man den Namen, der in der Quelle für eine Verbreitungsangabe verwendet wur...
- 11:40 AM task #7798 (Resolved): [AM, ERS]: Import (freetext) nameInSource correctly
- For occurrence sources and maybe also for common names and facts.
Occurrences:
1. case: freetext exists parall... - 12:32 PM feature request #7801 (Closed): AM: Deduplicate references
- Many references are duplicates. We could try to deduplicate them during import.
TODO:
* check for parameters l... - 12:30 PM feature request #7800 (Closed): Parse preliminary RefDetails
- There are >40000 RefDetails imported as the are preliminary. We could try to parse them during import.
- 12:04 PM feature request #7799 (Resolved): AM: Parse authorteams
- many of them are single persons and also the resulting persons/teams could be parsed probably
- 01:26 AM task #7369: Handle taxonomically valueless taxa correctly
- ERS (2015-08-15):
zum Thema Rubus lässt sich sagen:
die 19 Taxa, die im Baum direkt unter Plantae included sind... - 01:20 AM task #7796: [CHECK] Handle Bibliography Name Facts correctly
- ERS: (2014-11-08)
diese Angaben in eckigen Klammern hinter der eigentlichen nom.ref. stammen aus dem ILDIS-Import.... - 12:48 AM task #7435: Handle also published in correctly
- We keep it as a name fact for now.
- 12:47 AM task #7435 (In Progress): Handle also published in correctly
- Only the remaining 2 comments need to be handled by ERS (see mail). Maybe also some name notes in CDM.
The issue ... - 12:41 AM feature request #7797: Second nomenclatural reference
- ein Einzelfall:
Reynoutria sachalinensis (F. Schmidt) Nakai (7300000): hier steht in den Detail notes
„in T. Mor... - 12:14 AM feature request #7797: Second nomenclatural reference
- Auräumen von E+M:
Daher einige Fragen:
* Können wir bei denen mit Klammern und & die Klammer und das & löschen?...
09/28/2018
- 11:57 PM bug #7456 (Duplicate): E+M: NameFacts von ILDIS Daten
- Duplicates #7435, #7437 and #7796
- 11:48 PM feature request #7797 (New): Second nomenclatural reference
- In E+M and other databases second or even more nomenclatural references exist or are required.
This is currently h... - 08:51 PM task #7435: Handle also published in correctly
- ... achso, und es gibt auch noch einige, die nicht mit „&“ oder „=“ oder „or“ anfangen, wie die meisten anderen. Ist ...
- 08:18 PM task #7796: [CHECK] Handle Bibliography Name Facts correctly
- ~~~ sql
SELECT n.NameCache, n.FullNameCache, n.NomRefFk, pt.PTRefFk, fact.NameFactId, fact.PTNameFk, fact.NameFact, ... - 08:01 PM task #7796 (Resolved): [CHECK] Handle Bibliography Name Facts correctly
- There are 13568 name facts of type "Bibliography" (Cat=3).
These are currently attached to the according names as ... - 06:41 PM feature request #7345: [E+M] Common name references selectable in TaxEditor
- now the selection dialog searches only for references with marker of markerType commonNameReference and when creating...
- 06:15 PM feature request #7440 (Resolved): E+M mark common name reference with according marker
- The markers were imported
- 04:18 PM feature request #6554: The details views are newly created with every change of the focus
- The count cache might be also something for the data portals
- 04:17 PM feature request #6554: The details views are newly created with every change of the focus
- Patrick Plitzner wrote:
> Another bottleneck is
>
> ~~~
> org.hibernate.collection.internal.PersistentSet.size(... - 02:45 PM feature request #6554: The details views are newly created with every change of the focus
- Another bottleneck is
~~~
org.hibernate.collection.internal.PersistentSet.size()
org.hibernate.collection.inter... - 11:20 AM task #7795: untilis xml DataSets creation without "[NULL]" values
- now that we can create datasets without "[NULL]"s we can clean up the test datasets if needed.
If you don't feel lik... - 11:14 AM task #7795 (Resolved): untilis xml DataSets creation without "[NULL]" values
- Applied in changeset commit:cdmlib|a400c76fcbbe92ca47c01798c378a44bf73a3e4d.
- 11:13 AM task #7795 (Closed): untilis xml DataSets creation without "[NULL]" values
- After upgrading to Unitils 3.x it was needed to add "[NULL]" values to the attributed in the xml datasets since the `...
09/27/2018
- 03:47 PM task #7455: [Check] Check all markers for correctnes
- The publish flag (=false) is related to distributions with no status in BM. This is handled now in #2764 and #4822
- 03:44 PM feature request #7063: Improve the area selection wizard for distribution editor
- now the admin can define the vocabulary and in the distribution editor itself the shown areas can be defined.
- 03:05 PM task #7420: Import for higher taxon graph for phycobank
- You should check by
~~~ sql
SELECT titleCache, count(*) as n
FROM TaxonName tn
GROUP BY tn.titleCache
Having ... - 02:59 PM task #7420 (Resolved): Import for higher taxon graph for phycobank
- I did run a new import to test.cdm_phycobank. Please check the results.
One issue I can see is that the existing I... - 02:24 PM task #7420: Import for higher taxon graph for phycobank
- Andreas Kohlbecker wrote:
> Hi Andreas,
>
> a small change of the strategy: All Taxa and TaxonRelations which bel... - 12:17 PM bug #7794 (Closed): Update TaxonNodeWizard
- The taxonnode wizard needs to be updated, the taxon, parent and classification should not be editable and the "open i...
- 11:20 AM feature request #7793 (Closed): Master ticket for E+M editor issues
- Following issues should be solved for E+M migration:
Perspectives:
* start perspective with reduced number of w...
09/26/2018
- 05:43 PM task #7420: Import for higher taxon graph for phycobank
- Hi Andreas,
a small change of the strategy: All Taxa and TaxonRelations which belong to the classifications-graph ... - 11:35 AM feature request #6554 (In Progress): The details views are newly created with every change of the focus
- 11:34 AM feature request #6554: The details views are newly created with every change of the focus
- The performance loss is separated in two areas:
1. SWT/UI rendering
* can be optimized by caching the UI widgets...
09/25/2018
- 01:49 PM bug #7792 (Resolved): Rendering of context menu of factual data view is super slow
- Applied in changeset commit:taxeditor|2a6e2626fddd5f6637955f7f7479468c03767929.
- 01:48 PM bug #7792 (Closed): Rendering of context menu of factual data view is super slow
- 12:31 PM feature request #7791 (Closed): Visualize the phycobank higher taxon graph
Visualization as a layered graph which allows to explore the graph interactively
Current concept:
* potenti...- 11:09 AM bug #7447: ERS: Fix misapplied name issues for E+M common names.
- AM:
...
Lediglich für den letzten Fall „Hieracium glaucinum subsp. glaucinum“ bräuchte ich noch Feedback von di... - 11:07 AM feature request #7788 (In Progress): Registration page shows registration date and office
- 09:59 AM bug #7783 (Resolved): NamePopupEditor new buttons for genus and species
- completed now, please review
- 09:58 AM bug #7630 (Resolved): blocking registration relations get lost after saving adding a typedesignation to a newly created "typification only" registration
- fixed, please review
- 09:30 AM task #7346 (In Progress): [CHECK] Use separate area vocabulary for common names
09/24/2018
- 03:30 PM feature request #7790 (New): [DISCUSS] E+M: Language-Area Mapping
- E+M in BM allows a mapping for all languages to the available area (or the other way round - need to check in BM edit...
- 03:04 PM task #7789: redirect URIs referencing Drupal nodes to lowercase URI
- This could be implemented by adding an according redirect rule to the Drupal `.htaccess` file with the following dire...
- 02:59 PM task #7789 (New): redirect URIs referencing Drupal nodes to lowercase URI
- Ich habe mich also nochmals eingehender mit diesem Thema beschäftigt:
Nach dem was in https://stackoverflow.com/q... - 02:48 PM bug #7745: Subtree filter for dataportal services
- For the polytomous keys the following webservices need to be filtered by the subTree to avoid unpublished taxa showin...
- 02:48 PM bug #7745: Subtree filter for dataportal services
- Andreas Müller wrote:
> So can we close the ticket?
You were too fast ;-)
- 02:44 PM bug #7745: Subtree filter for dataportal services
- So can we close the ticket?
- 02:33 PM bug #7745: Subtree filter for dataportal services
- To the issues 1) - 3) reported in #7745#note-17:
1) You are right, this web service behaves ok.
2) I reported t... - 12:29 PM feature request #7502 (In Progress): Add further columns to bulk editor
- Patrick Plitzner wrote:
> @Andreas: Please review the first implementation of this for id and uuid
Looks ok.
... - 11:51 AM feature request #7775 (Resolved): Factual Data label issue
- Applied in changeset commit:cdmlib|3c0cadbbcdb4d44a395a6ab3131090ef811eac3f.
- 11:45 AM feature request #7788 (Closed): Registration page shows registration date and office
- Registration page needs to show the registration date and office
- 08:08 AM bug #7787: default occurrence view shows media also in expanded state
- Vielleicht sollte man das per java-script machen, das Bild ist auf der Seite schon vorhanden und müsste nur an eine a...
- 08:08 AM bug #7787: default occurrence view shows media also in expanded state
- [Katja]:
ich hatte mir das ja auch mal angesehen und soweit ich das verstanden habe, sind die Bilder sozusagen die... - 08:07 AM bug #7787 (New): default occurrence view shows media also in expanded state
- Bilder werden nur im collapsten Zustand angezeigt werden, expanded kann man sie nicht sehen.
: E+M mark common name reference with according marker
- Done. Still needs to be tested.
- 02:20 PM feature request #7769: E+M: Handle postulated parental species as taxon extensions
- Applied in changeset commit:cdmlib-apps|59d588d3618128a6980f1d9bbf10e840f23e049c.
- 01:24 PM bug #7786: ERS: Try to solve those occurrence sources for which the reference number can not be resolved
- ~~~
SELECT DISTINCT SourceNumber2Ref.*, r.*
FROM SourceNumber2Ref INNER JOIN
Reference r ON SourceNumber2Re... - 08:26 AM bug #7786: ERS: Try to solve those occurrence sources for which the reference number can not be resolved
- bei den OccurrenceSources sind ein paar kaputt gegangen, vermutlich weil die Identifier hier nicht als Zahlen sondern...
- 08:25 AM bug #7786: ERS: Try to solve those occurrence sources for which the reference number can not be resolved
- irgendwas ist auch noch seltsam bei folgenden Taxa:
Juncus acutiflorus Hoffm.
Juncus acutus L.
Juncus anceps Lah...
09/21/2018
- 05:36 PM bug #7786 (In Progress): ERS: Try to solve those occurrence sources for which the reference number can not be resolved
- 05:35 PM bug #7786 (Resolved): ERS: Try to solve those occurrence sources for which the reference number can not be resolved
- Some of them only have a trailing whitespace problem and can be found by
~~~
SELECT *
FROM emOccurrenceSource
... - 04:33 PM task #7785: CdmUserHelper caches permission information
- Can the cache of the presenter be used in the CdmUserHelper to avoid loading the entities again?
- 04:25 PM task #7785 (Closed): CdmUserHelper caches permission information
- CdmUserHelper has been identified being hostspot in the cpu time analysis:
Caching entit... - 03:45 PM task #7784 (Closed): deduplicate and harmonize ClassificationController methods
- 03:45 PM task #7784 (Resolved): deduplicate and harmonize ClassificationController methods
- Applied in changeset commit:cdmlib|c3be000f7a4dee3e84481b0d1a020109cdf9ad59.
- 03:45 PM task #7784 (Closed): deduplicate and harmonize ClassificationController methods
- * ClassificationPortalController needs to be a subclass of ClassificationController
* duplicate and deprecated metho... - 01:25 PM bug #7783 (Closed): NamePopupEditor new buttons for genus and species
- For species the genus can only be selected from existing genera. In order to use a not existing genus it is currently...
- 01:17 PM feature request #7782 (New): for a new synonym it should be possible to change it to missaplied name without saving
- As comfortable way to create a MAN it would be good that changeToMisappliedName can be done for not persisted synonym...
- 01:10 PM bug #7424: right click menu does not show up in name editor
- the problem appears because the menu is set to disposed when a groupContainer is removed.
- 01:01 PM feature request #7594 (Closed): RegistrationWorkingsetEditor click on new serveral times
- problem solved, please review.
- 01:00 PM feature request #7594 (Resolved): RegistrationWorkingsetEditor click on new serveral times
- Applied in changeset commit:cdm-vaadin|edce7749ded3f3f7f3860106f45235532afe09a2.
- 11:45 AM bug #7187: ReferenceEditor: saving with DOI casues exception
- bitte review
- 11:44 AM feature request #3234 (Closed): implement cdm service method to collect SpecimensAndObservations via taxon
- 11:42 AM bug #7723 (Resolved): PhycoBank unpublished data must not be visible in Portal
- Issue fixed, only PUBLISHED registrations are visible now, please review.
- 10:40 AM bug #7781 (In Progress): original spelling is missing for accepted taxon in taxon page
- Hallo,
im Portal wird das “as ....“ nicht angezeigt
Beispiel:
http://caryophyllale... - 09:37 AM feature request #7780 (New): improve order of nomenclatural status types
- the order of nomenclatural status type should represent the importance of the type. Types used often, should be at th...
- 08:50 AM bug #7779 (Closed): swagger UI broken after springfox-swagger2 upgrade
- after upgrading springfox-swagger2 to version 2.6.1 (commit:4518f4b) the swagger UI is broken.
Presumably an upgrad... - 12:10 AM bug #7449 (Resolved): E+M: Import common names with no regionFk correctly
- The empty ones are all common names for ILDIS taxa:
~~~
SELECT n.FullNameCache, n.NameCache, cn.*
FROM emCommonN...
09/20/2018
- 11:44 PM feature request #7769 (Resolved): E+M: Handle postulated parental species as taxon extensions
- Ticket is fixed. Remaining issue is a data issue. Needs to be fixed by ERS.
- 11:43 PM feature request #7769: E+M: Handle postulated parental species as taxon extensions
- der Import für die postulated … ist fertig. Es gibt ein paar Fälle, bei denen die Namen nicht kursiv gesetzt sind. We...
- 03:57 PM feature request #7769 (In Progress): E+M: Handle postulated parental species as taxon extensions
- 11:39 PM bug #7424: right click menu does not show up in name editor
- Add this to current milestone as it is critical (often mentioned by users)
- 03:58 PM task #7455 (In Progress): [Check] Check all markers for correctnes
- 01:56 PM bug #7778 (Closed): identifier links missing in taxon relations footnotes
- 01:56 PM bug #7778 (Resolved): identifier links missing in taxon relations footnotes
- Applied in changeset commit:cdm-dataportal|c714960cc180ca547c9a9ddb25776c48e06f6141.
- 12:12 PM bug #7778 (Closed): identifier links missing in taxon relations footnotes
- identifier links missing when a footnote is created for taxon relations
see e.g.: http://caryophyllales.org/nepe... - 12:27 PM bug #3276: NPE for "Move Elements" context menu option
- please review
- 12:26 PM bug #3276 (Resolved): NPE for "Move Elements" context menu option
- Applied in changeset commit:taxeditor|90f49fe41d5816b7fce308a5200a950550758e1e.
- 11:27 AM bug #7773 (Resolved): when changing rank the hybrid section is empty
- 11:27 AM bug #7773 (Closed): when changing rank the hybrid section is empty
- please review
- 11:25 AM bug #7773 (Resolved): when changing rank the hybrid section is empty
- Applied in changeset commit:taxeditor|2e765343e89b57f860f7661ad06385608b991d94.
- 11:26 AM feature request #2444 (Resolved): Disable binom and trinom hybrid flag when epithets are not available
- the problem of disappearing hybrid section is solved, so we can close this ticket as well.
please review - 11:14 AM bug #7777 (Closed): NPE on login attempt after logout
- login attempt after logging out
~~~
Caused by: java.lang.NullPointerException
at eu.etaxonomy.cdm.vaadin.view.L... - 09:41 AM feature request #7776 (Resolved): Add source of descriptive data set to SpecimenDescriptions added to it
- Applied in changeset commit:cdmlib|74ab8c12e9283ca97969609df026ec62708aa9f5.
- 08:12 AM feature request #7776 (Resolved): Add source of descriptive data set to SpecimenDescriptions added to it
- If a SpecimenDescription is added to the descriptive data set the source of the data set should be copied to the spec...
- 08:44 AM feature request #7599: treeView for specimen data in dataportal
- Andreas Kohlbecker wrote:
> 2)
>
> diese neue Funktionalität in `modules/cdm_dataportal/includes/pre-drupal8.inc... - 08:10 AM feature request #7775 (Closed): Factual Data label issue
- * ~~change context menu entry for creation of a new description to "New Factual Data Set"~~
* ~~add alternative for ... - 07:54 AM feature request #7774 (Closed): Show description source for description elements
- In the details view the list of sources of description elements should contain the source of the description but it s...
09/19/2018
- 04:24 PM feature request #7502 (Feedback): Add further columns to bulk editor
- @Andreas: Please review the first implementation of this for id and uuid
- 04:18 PM feature request #2444 (In Progress): Disable binom and trinom hybrid flag when epithets are not available
- this is implemented now, but there is still a bug see #7773
- 04:12 PM bug #7773 (Closed): when changing rank the hybrid section is empty
- When changing the rank the hybrid section is updated, but after this the section is empty. Resize or close and open t...
- 03:14 PM task #2406: DeterminationEventElement is lacking references
- Now, you can select the determination event to edit its supplemental data.
However, it is not possible anymore to se... - 03:07 PM task #2406 (Resolved): DeterminationEventElement is lacking references
- Applied in changeset commit:taxeditor|097d348b1b100faae233b8574a4a090de48fdbdd.
- 02:27 PM feature request #7674 (Resolved): Show taxon descriptions in character matrix editor
- 02:16 PM bug #7772: Rename TermBase_inverseRepresentation to DefinedTermBase_InverseRepresentation
- also rename attribute "term_id"
- 02:15 PM bug #7772 (Closed): Rename TermBase_inverseRepresentation to DefinedTermBase_InverseRepresentation
- to be consistent. If other TermBase classes are relevant they need an own table anyway, similar to the handling of (d...
- 02:00 PM feature request #7771 (Feedback): Format Misapplication search results as MAN, not as accepted taxa
- If a search result contains a misapplication only as a taxon related to an accepted taxon in the search filter it sho...
- 10:41 AM bug #7424 (In Progress): right click menu does not show up in name editor
- this problem appears only for synonyms and the accepted taxon, for missapplied names and pro parte synonyms the menu ...
- 10:15 AM bug #7541 (In Progress): Insufficient rights lead to missing focus in name editor
- 10:14 AM bug #7541: Insufficient rights lead to missing focus in name editor
- the missing possibility to set the focus on the name editor was because of a wrong permission check.
09/18/2018
- 03:37 PM feature request #7770 (New): E+M: Handle extensions like "postulated parental species" in data portal
- for details see #7769.
Postulated parental species are now implemented as TaxonBase Extensions of ExtensionType "p... - 03:28 PM feature request #7769 (Resolved): E+M: Handle postulated parental species as taxon extensions
- Postulated parental species are Name.Notes in BM. They should become Extensions of respective type, to be shown behin...
- 01:57 PM feature request #4129: Allow filtering by OriginalSourceType
- KL an ERS:
parallel zu den Import Issues für Euro+Med arbeiten wir auch die Editor Tickets ab, die Euro+Med betref... - 12:48 PM feature request #7283: Improvements for alternative identifier search
- ~~In search result the alternative identifier and the titlecache of the reference should be displayed (behind titleCa...
- 12:43 PM feature request #7283 (In Progress): Improvements for alternative identifier search
- 11:36 AM feature request #7345 (Resolved): [E+M] Common name references selectable in TaxEditor
- added a new markerType 'common name reference' and everytime a reference is added as source reference a marker of thi...
09/17/2018
- 10:09 PM bug #5868: re-establish support for wildcard at start of query string (includes the query string '*' )
- I will try to write tests for the remaining issues and move them to a new ticket.
- 04:42 AM bug #5868: re-establish support for wildcard at start of query string (includes the query string '*' )
- I moved synonym search and classification/subtree filters to new ticket #7764 as it is not really related to the topi...
- 03:22 AM bug #5868: re-establish support for wildcard at start of query string (includes the query string '*' )
- The classification filter does NOT have any effect in the webservice (1). But it has in the service(2)!
I tested (... - 10:03 PM bug #7745 (Resolved): Subtree filter for dataportal services
- By the way there might be not implemented webservices that need to be protected, e.g. for PolytomousKeys. I think the...
- 10:02 PM bug #7745: Subtree filter for dataportal services
- Andreas Kohlbecker wrote:
> Open issues:
>
> 3) http://api.cybertaxonomy.org/caryophyllales_spp/portal/taxon/7114... - 09:57 PM bug #7745: Subtree filter for dataportal services
- Andreas Kohlbecker wrote:
> Open issues:
>
>
> 2) http://api.cybertaxonomy.org/caryophyllales_spp/portal/taxon/... - 04:53 PM bug #7745: Subtree filter for dataportal services
- Andreas Kohlbecker wrote:
> Open issues:
>
> tested with subtree filter `Plumbaginaceae Juss. [#t10#1986#28#] uui... - 02:59 PM bug #7745 (Feedback): Subtree filter for dataportal services
- Open issues:
tested with subtree filter `Plumbaginaceae Juss. [#t10#1986#28#] uuid=0ad45274-c5cf-4a95-aa1b-dc698e7... - 01:33 PM bug #7745 (Resolved): Subtree filter for dataportal services
- Can you please do the final review and close if everything works as expected (but we will probably get user feedback ...
- 09:01 AM bug #7745 (Feedback): Subtree filter for dataportal services
- Have to reopen. Freetext search on context does not yet work as expected. Searching for "All" returns no result with ...
- 08:48 AM bug #7745 (Closed): Subtree filter for dataportal services
- From all what I tested it works. I never got an "external" taxon.
- 08:01 PM feature request #7720: use new taxonRelationshipsDTO webservice for all taxon relations
- Remaining issues handled in #7766
- 07:52 PM feature request #7720 (Resolved): use new taxonRelationshipsDTO webservice for all taxon relations
- I think this was already done in 5.3. Maybe we can close **this** ticket as duplicate as #7658 includes by title all ...
- 08:00 PM feature request #7658 (Closed): use new taxon relationship DTO webservice in portal
- Close this ticket. Remaining (and new) issues moved to #7766
- 04:33 PM bug #7768 (Duplicate): wrong tag type for secReference microcitation
- duplicates #7767
- 04:32 PM bug #7768 (Duplicate): wrong tag type for secReference microcitation
- 04:32 PM bug #7767 (Resolved): Incorrect handling of secundum detail reference in formatter
- Applied in changeset commit:cdmlib|0ef1a15ed1a417160deec0b112f36a12de7363dc.
- 04:29 PM bug #7767 (Closed): Incorrect handling of secundum detail reference in formatter
- The sec detail is formatted as TagEnum.secundum not TagEnum.secMicroRef. This results in strange behavior on data por...
- 03:57 PM bug #7656 (Duplicate): Adapt inverse symbol for MisappliedName relationship type
- 03:56 PM bug #7514: Change direct and inverse symbol for pro parte synonym and misapplied name relationship types.
- AM an WGB:
die MANs sollten jetzt auch sichtbar sein und hoffentlich besser formatiert. Ein Problem ist noch, welc... - 12:33 PM bug #7514: Change direct and inverse symbol for pro parte synonym and misapplied name relationship types.
- ... and don't forget to adapt csv files.
- 12:32 PM bug #7514: Change direct and inverse symbol for pro parte synonym and misapplied name relationship types.
- ... and for pp Synonyms
~~~
UPDATE DefinedTermBase
SET symbol='⊃p.p.' , inverseSymbol = 'p.p.'
WHERE uuid= '8... - 12:17 PM bug #7514 (In Progress): Change direct and inverse symbol for pro parte synonym and misapplied name relationship types.
- Critical because in use already
- 12:17 PM bug #7514: Change direct and inverse symbol for pro parte synonym and misapplied name relationship types.
- For misapplied names (we may think about using a larger dash, also maybe change idInVocabulary)
~~~
UPDATE Define... - 03:27 PM bug #7766 (Closed): Remaining issues for using relationship DTO webservice in portal
- for details see #7658
* taxonrelation footnotes missing (see #7658#note-51 for details)
* sort order of the rel... - 03:04 PM bug #7047: Vaadin UI and View scope beans are not always destroyed correctly
- Andreas Kohlbecker wrote:
> The `RegistrationWorkingsetPresenter`, `LoginPresenter` and `RegistationUI` still are no... - 01:44 PM bug #7047 (In Progress): Vaadin UI and View scope beans are not always destroyed correctly
- 01:44 PM bug #7047: Vaadin UI and View scope beans are not always destroyed correctly
- The `RegistrationWorkingsetPresenter`, `LoginPresenter` and `RegistationUI` still are not destroyed correctly. At lea...
- 11:39 AM bug #7047 (Resolved): Vaadin UI and View scope beans are not always destroyed correctly
- 02:22 PM task #7757 (Closed): Replace deprecated hibernate @Index annotation
- The creation of a new database works as expected, the creation of the index works without exception and the search wo...
- 01:28 PM task #7757: Replace deprecated hibernate @Index annotation
- Please review, e.g. by creating a new database with the new code and compare if all table names and indexes work simi...
- 02:14 PM bug #7638 (Resolved): problem with media data missing meta data
- 01:50 PM feature request #7644 (Closed): Add "continued" flag to (Verbatim)Timeperiod
- 01:23 PM feature request #7644: Add "continued" flag to (Verbatim)Timeperiod
- The code changes look ok.
- 01:42 PM bug #7686 (Feedback): Specimen title cache issues in data portal specimen table
- There is still a comma missing beetween the types if there are >1 types.
- 01:30 PM bug #7709: CdmTransientEntityCacher cannot handle multiple unpersisted entities of the same type
- We should think about throwing an exception in the moment when the cacher is used incorrectly (e.g. for volatile obje...
- 01:25 PM feature request #7765 (New): Advanced UI to define the subtree filter in data portal
- Follow up from #7759
- 01:23 PM bug #7759 (Closed): classification subtreefilter settings in portal
- Yes we can close this ticket. But maybe we should create a follow up ticket for easier defining the subtree? Knowing ...
- 12:53 PM bug #7294 (Closed): keys block can not be disabled in tabless taxon page
- this obviously works now
- 12:36 PM bug #7691 (Closed): Empty "Bibliography" section
- *Nepenthes ampullacea* is now without the empty Bibliography section, so this works now!
- 11:43 AM feature request #7408: [E+M] Support for preferred common names in data portal
- This is soon required for E+M
- 11:33 AM task #7420 (Feedback): Import for higher taxon graph for phycobank
- Needs to be adapted
- 11:20 AM bug #7085 (New): cdmserver logfiles getting too big, use RollingFileAppender
- 11:11 AM bug #7756: org.hibernate.QueryException in portal/taxon/{uuid}/subtree/media.json webservice related to relation direction param in prepareTaxonRelationshipQuery()
- Andreas Müller wrote:
> Unfortunately the solution is not complete for includeUnpublished = true.
>
> In this cas... - 04:41 AM bug #7764: Fix classification and synonym bug in taxon name freetext search
- The bug introduced by #5890 and the synonym search bug should now be fixed. Please review.
- 04:39 AM bug #7764 (Resolved): Fix classification and synonym bug in taxon name freetext search
- Applied in changeset commit:cdmlib|0c3d038322ffb0292ef44c461391233c20785cec.
- 04:25 AM bug #7764 (Closed): Fix classification and synonym bug in taxon name freetext search
- The bug is described in #5868#note-20 and previous.
* synonym search does not work with classification or subtree ...
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