Activity
From 12/20/2020 to 01/18/2021
01/18/2021
- 03:54 PM bug #9354: Sorting in distribution editor is broken
- Andreas Müller wrote:
> There are still open issues as the comparator does not follow the comparator contract and ha... - 09:35 AM bug #9354: Sorting in distribution editor is broken
- I put this to critical as it is a requirement the E+M Bratislava team to edit disttribution data for CZ and SK which ...
- 02:21 PM bug #9398 (Closed): ObjectNotFoundException when removing a synonym that is used as NameInSource
- Either this is a problem on the order of operations during save. Or it is a general issue with merge where it could b...
- 02:18 PM bug #9397 (Closed): Derivate tree view must show DerivedUnits even if the FieldUnit is missing
- see also #7704 for the same problem in the specimen table
- 01:41 PM bug #9396 (In Progress): nomenclatural status missing in typedesignations shown in synonymy
- Example:
http://portal.cybertaxonomy.org/flora-cuba/cdm_dataportal/taxon/64e9f775-79fc-41cf-b154-225e8a4bc7d1
T... - 01:08 PM feature request #6308 (Feedback): Add configuration dialog for the deletion of synonyms in name editor
- The 2 warnings do not show up anymore so we can close this ticket.
However, I am a bit astonished that no warning ex... - 12:21 PM bug #9395: DerivedUnit.collectFieldUnits() and findFieldUnitDTOByAssociatedTaxon() and findByAccessionNumber() in OccurrenceService to return all root units
- Hi, for your information:
to solve this ticket I renamed and extended DerivedUnit.collectFieldUnits() as DerivedUn... - 12:17 PM bug #9395 (Resolved): DerivedUnit.collectFieldUnits() and findFieldUnitDTOByAssociatedTaxon() and findByAccessionNumber() in OccurrenceService to return all root units
- Applied in changeset commit:cdmlib|485da8a92ae3a4c4c51e5631561d368de0915206.
- 11:57 AM bug #9395 (Closed): DerivedUnit.collectFieldUnits() and findFieldUnitDTOByAssociatedTaxon() and findByAccessionNumber() in OccurrenceService to return all root units
- DerivedUnit.collectFieldUnits() needs to returns also DerivedUnits as root unit which do not have a FieldUnit. This i...
- 11:37 AM feature request #7886 (Closed): Divide local preferences to db dependend local preferences
- The open issue was moved to new ticket #9394.
This ticket can be closed. - 11:36 AM bug #9394 (New): Local preferences can not be edited if no database connection exists
- All database dependend preferences should be disabled in this case
- 11:31 AM bug #7236 (Closed): Make available distribution status a database preference for TaxEditor distribution editor
- This seems to be fixed. Open a new ticket if something does not work yet as expected.
- 11:15 AM feature request #4363 (Resolved): Show more informative message for unsupported specimen structures in specimen bulk editor
- 11:11 AM bug #4362 (Closed): Some File->New dialogs do not work
- 11:10 AM bug #4362: Some File->New dialogs do not work
- >Name cache fields behave strange as even with protected title cache they are not completely disabled.
This seems... - 11:05 AM bug #9393 (In Progress): NPE when removing parent from TaxonNode editor
- ~~~
last remote method : http://test.e-taxonomy.eu:80/cdmserver/rem_conf_am/remoting/taxonnode.service
last remote ... - 11:05 AM feature request #9392 (New): File -> new for specimen and taxa should be available again
- With fixing #4362 specimen and taxa were removed, this should be reverted.
The creation of empty specimen should n... - 10:50 AM bug #6955 (Closed): NamedAreaSelection Dialog needs to be adapted to filtered getUuidAndTitleCache loading
- This is fixed. The open issue is moved to a follow up ticket: #9391
- 10:50 AM bug #9391 (Closed): If named area level does not exist remove the level information
- from #6955:
in NamedArea selection dialog:
As #7144 is solved now, we should remove the showing of the class name... - 10:45 AM feature request #7121 (Closed): adapt remaining UuidAndTitleCache methods to use filter
- As this is too long ago we close the ticket without linking to the revert.
- 10:43 AM bug #7124 (Closed): Avoiding multiple repesentation exceptions by removing the conversation from selection dialogs
- This seems to be fixed.
- 10:38 AM feature request #6076 (Feedback): Specimen biocase search should work on observations
- 10:37 AM feature request #6076 (Resolved): Specimen biocase search should work on observations
- 10:34 AM feature request #6076 (Feedback): Specimen biocase search should work on observations
- 10:26 AM feature request #6315 (Closed): Implement setSecundumForSubtree in TaxEditor
- 10:25 AM feature request #6315: Implement setSecundumForSubtree in TaxEditor
- Andreas Müller wrote:
> There is also a lot of space between label "New secundum reference" and the text box for the... - 10:23 AM bug #9390 (In Progress): Remaining issues for set secundum dialog
- follow up from #6315
1. ~~there is too much space between label "If no reference is chosen ... " and the checkboxe... - 08:47 AM bug #9245: Creating derived units from existing derived unit is not possible in specimen tree editor
- Keep it in 5.18 for check whether it is already fixed.
01/15/2021
- 04:00 PM bug #9379 (Closed): exclude disabled classifications from advanced taxon search form
- 03:59 PM bug #9379 (Resolved): exclude disabled classifications from advanced taxon search form
- Applied in changeset commit:cdm-dataportal|5f5db6555726b52d86587db4c3834f8130d75011.
- 02:00 PM feature request #7599: treeView for specimen data in dataportal
- Ahh, ich sehe gerade, dass in #9216 schon die finale Lösung hinterlegt ist.
- 01:58 PM feature request #7599: treeView for specimen data in dataportal
- Andreas Kohlbecker wrote:
> [Andreas Müller wrote:]
>
> wenn ich es richtig verstehe bezieht sich das auf die De... - 01:31 PM bug #9386: orthographic variants should not be symmetrical
- Hallo,
ich denke mittlerweile, dass wir zwei Beziehungen brauche wie schon von Andreas Müller vorgeschlagen:
>... - 01:21 PM bug #9386: orthographic variants should not be symmetrical
- [Eckhard wrote]
Hallo,
nach neuerlichem Lesen des At. 61 gebe ich dir recht, Walter: die gültige orthographisch... - 12:29 PM bug #9386: orthographic variants should not be symmetrical
- Ich möchte nochmal explizit auf die Probleme hinweisen, die sich datenverabeitungsseitig aus symmetrischen Beziehunge...
- 12:17 PM bug #9386: orthographic variants should not be symmetrical
- Wolf-Henning Kusber wrote:
> What is about data exports? Isn't it maybe more problematic if the relation symetrical ... - 12:10 PM bug #9386: orthographic variants should not be symmetrical
- Andreas Kohlbecker wrote:
> auch wenn diese Beziehung zwischen zwei Namen im Modell als ungerichtet definiert ist, b... - 12:07 PM bug #9386: orthographic variants should not be symmetrical
- Andreas Kohlbecker wrote:
> Ich würde dafür plädieren die Benennung der Relation beizubehalten, sie aber im Modell a... - 11:54 AM bug #9386: orthographic variants should not be symmetrical
- Andreas Kohlbecker wrote:
> auch wenn diese Beziehung zwischen zwei Namen im Modell als ungerichtet definiert ist, b... - 11:23 AM bug #9386: orthographic variants should not be symmetrical
- Das Datum sollte die meisten Fälle korrekt einsammeln. Wie Andreas sagt, sollte eine Richtung erkennbar sein. Ausnahm...
- 11:00 AM bug #9386: orthographic variants should not be symmetrical
- Hallo,
auch wenn diese Beziehung zwischen zwei Namen im Modell als ungerichtet definiert ist, besteht dennoch eige... - 10:46 AM bug #9386: orthographic variants should not be symmetrical
- What is about data exports? Isn't it maybe more problematic if the relation symetrical in EDIT?
- 10:36 AM bug #9386: orthographic variants should not be symmetrical
- > WGB:
>
> richtig, Art. 61.1 sagt, dass es nur eine gültige („valid“, nicht „correct“) Variante gibt, aber er spr... - 09:50 AM bug #9386: orthographic variants should not be symmetrical
- ERS:
ja, es kann nur eine korrekte orthographische Variante geben, und daher ist die Richtung nicht symmetrisch: s... - 12:11 PM bug #9257 (Closed): revise filtering in OccurrenceServiceImpl.assembleFieldUnitDTO(FieldUnit fieldUnit) by SpecimenOrObservationType.PreservedSpecimen
- can be closed as open taks are copied to #9389
- 12:11 PM task #9389 (Closed): further improvement and revision of derivative filtering by type and DerivedUnitDTO
- this is a follow-up ticket of #9257
see the comments in commit:aa52b6f0 for more details.
FieldUnitDTO.java:
... - 10:25 AM bug #8874 (Resolved): move taxon is reverted when taxon is edited afterwards
- this ticket was solved and assigned to you for review, sorry forgot to set to resolved.
- 10:12 AM bug #9356 (Resolved): Comparison method violates its general contract for SourceComparator and TypeDesignationComparator
- adapted the comparator in cdmlib and removed hotfix workaround, please review.
- 09:44 AM bug #9365: Reuse taxon does not work in new Taxon dialogue
- please review
- 09:43 AM bug #9365 (Resolved): Reuse taxon does not work in new Taxon dialogue
- Applied in changeset commit:taxeditor|de6b6edbe71e3f03039fbc6436ad7edba7651e3b.
01/14/2021
- 01:27 PM feature request #9388 (New): show media specimen source in all pages
- By now the `MediaSpecimen.media.souces.citation` is only shown in the registration page:
Registration page for
... - 12:11 PM bug #7699: NPE in CdmTransientEntityCacher.getCacheElement()
- There was the same issue while working with character matrix:
mail NK:
hm, es scheint aber doch noch ein Proble... - 11:55 AM bug #7699: NPE in CdmTransientEntityCacher.getCacheElement()
- This way is would be more concise:
~~~java
boolean isCanceled = false;
while (true){
... - 11:41 AM bug #7699: NPE in CdmTransientEntityCacher.getCacheElement()
- Andreas Kohlbecker wrote:
> As far as I am understanding this problem it is the bulk editors which can be saves or c... - 11:12 AM bug #7711 (Resolved): Bugs in media gallery
- The issues mentioned above are solved except that deleting takes extremely long, I could not reproduce it anymore.
... - 10:16 AM bug #9386: orthographic variants should not be symmetrical
- Wolf-Henning Kusber wrote:
> It is correct that there is only one correct spelling. In PhycoBank, we need to registe... - 10:12 AM bug #9386: orthographic variants should not be symmetrical
- WGB:
richtig, Art. 61.1 sagt, dass es nur eine gültige („valid“, nicht „correct“) Variante gibt, aber er spricht a... - 08:50 AM bug #9387 (Closed): LazyInitializationException (LIE) in NameController.doGetTypeDesignationsInHomotypicalGroup()
- 08:49 AM bug #9387 (Resolved): LazyInitializationException (LIE) in NameController.doGetTypeDesignationsInHomotypicalGroup()
- Applied in changeset commit:cdmlib|f836859b0030a90cd789ea4e4fd1d24440293bcb.
- 08:31 AM bug #9387 (Closed): LazyInitializationException (LIE) in NameController.doGetTypeDesignationsInHomotypicalGroup()
- doGetTypeDesignationsInHomotypicalGroup()GET: /cdmserver/greece_bupleurum_01_with_onthology/name/b0372cc9-cc9e-46c8-a...
01/13/2021
- 06:29 PM bug #9386: orthographic variants should not be symmetrical
- It is correct that there is only one correct spelling. In PhycoBank, we need to register the published name "as is" =...
- 06:12 PM bug #9386 (New): orthographic variants should not be symmetrical
- According to the nomenclatural code there is always only 1 valid orthographic variant so the name relationship should...
- 05:29 PM task #8455: Show specimen preferredStableURL as external link icon?
- Screenshot for long URI in typification:
![](picture429-1.png)
- 05:16 PM task #8455: Show specimen preferredStableURL as external link icon?
- Detail screenshot from the Derivate tree view (the derivate path view looks quite the same):
![](picture859-1.pn... - 04:26 PM task #8455: Show specimen preferredStableURL as external link icon?
- example for ugly linking: http://ws2.cybertaxonomy.org/dataportal/greece_bupleurum_01_with_onthology/?q=cdm_dataporta...
- 05:26 PM bug #9384 (Closed): DefaultReferenceCacheStrategy.createShortCitation() working not correctly for Teams with two members
- as we talk about bibliographic references here the ICN (or any other code) is not relevant here. It is the rule I hav...
- 04:44 PM bug #9384: DefaultReferenceCacheStrategy.createShortCitation() working not correctly for Teams with two members
- The implementation is correct as far as the the implemented formatting rule for more than two authors is holding true...
- 04:18 PM bug #9384: DefaultReferenceCacheStrategy.createShortCitation() working not correctly for Teams with two members
- The fix was not fully correct as it created teams like Name1, Name2 & al. but there should be always a maximum number...
- 02:47 PM bug #7711 (In Progress): Bugs in media gallery
- 12:08 PM bug #9369 (Resolved): Reference Detail is missing in MediaSpecimen details view
- please review
- 12:07 PM bug #9372 (Resolved): in media details view unprotected title cache is not updated when underlying data is changed
- this ios fixed, please review
- 11:41 AM bug #9371: Media bulk does not persist data anymore
- please review
- 11:36 AM bug #9371 (Resolved): Media bulk does not persist data anymore
- Applied in changeset commit:taxeditor|0ef0103a664888c0e398b9ab5f83b0c170c5a599.
- 09:58 AM task #9385 (New): Simplyfy boundingbox setting for user fixed map clipping
- Problem:
The settings in `admin/config/cdm_dataportal/settings/geo` for the **Bounding box** needs to be complian...
01/12/2021
- 04:33 PM bug #9384: DefaultReferenceCacheStrategy.createShortCitation() working not correctly for Teams with two members
- please review
Tests for this method are missing and should be implemented asap. Please could you open a new ticke... - 04:32 PM bug #9384 (Resolved): DefaultReferenceCacheStrategy.createShortCitation() working not correctly for Teams with two members
- Applied in changeset commit:cdmlib|854244ff90c5ff67a0b30a3cee7f1d49e7623cc5.
- 04:30 PM bug #9384: DefaultReferenceCacheStrategy.createShortCitation() working not correctly for Teams with two members
- 04:29 PM bug #9384 (Closed): DefaultReferenceCacheStrategy.createShortCitation() working not correctly for Teams with two members
- see https://api.phycobank.org/phycobank/registrationDTO.json?identifier=http://phycobank.org/102662
The Team "Mo... - 03:19 PM bug #9383 (Closed): Adapt apache configuration to modified dataportal registration page URL pattern
- 02:57 PM bug #9383 (Closed): Adapt apache configuration to modified dataportal registration page URL pattern
- the apache configuration of edit-community needs to be adapted to the changes made for #9220
- 11:55 AM bug #9174: After longer inactivity NPE for cache
- Andreas Müller wrote:
> This is maybe the same as #7699
?? - 11:16 AM bug #9382 (Resolved): For nomenclatural source show taxonname in referencing objects view
- 11:15 AM bug #9382 (Closed): For nomenclatural source show taxonname in referencing objects view
- In referencing objects view the taxon name of a nomenclatural source is not shown, only 'sourced object not available'
- 09:34 AM feature request #9381 (New): Refresh button for character matrix
- After adding new characters the matrix needs to be closed and reopened to get the changes. To optimize the workflow a...
01/11/2021
- 10:13 PM feature request #9380 (New): It is not possible to show MediaRepresentation(Part) supplemental data
- ... as they can not be explicitly selected in the details view. This should be possible (e.g. for showing id and uuid)
- 05:20 PM bug #8760: Presentation and linking of molecular data in specimen table too unclear
- another example: http://caryophyllales.org/cactaceae/cdm_dataportal/taxon/d7bb858b-d8e0-4f9a-8a47-081d1cb740e9
- 02:37 PM bug #9379 (Closed): exclude disabled classifications from advanced taxon search form
- Classifications which are disabled in the `admin/config/cdm_dataportal/settings` are to be excluded from the advanced...
- 11:53 AM EDIT Platform Etablierung report #9378 (Closed): Meeting EDIT Platform documentation 2021-02-22
- WebEx Meeting: https://fu-berlin.webex.com/fu-berlin/j.php?MTID=ma3d5a3cfabd30fbfdccb11e37122a1e4
## Teilnehmer:
... - 11:45 AM EDIT Platform Etablierung task #8580 (Closed): Update documentation to latest revision of the Taxeditor
- all Taxeditor documentation has been updates in Okt 2019, other activities are subject of #9377
- 11:44 AM task #9377 (In Progress): Update of other platform user documentation
Documents to check:
* Manual-EDIT-Platform-01-INSTALL.docx **DONE** in #8580
* Manual-EDIT-Platform-02-DEMO.doc...- 11:41 AM EDIT Platform Etablierung task #9108 (Closed): Prepare Kurs Borsch
- completed
- 11:39 AM task #9376 (New): git checkout of datportal module fails with locally modified files
- locally modified files prevent from updating the local git clone to the required version of the dataportal module.
... - 11:09 AM feature request #9375 (Resolved): Alphabetical order for reference type drop down
- 11:09 AM feature request #9375 (Closed): Alphabetical order for reference type drop down
- mail AM:
weißt du, ob es einen Grund gibt, dass Section in der RefType Auswahl ganz oben steht, während alle ander... - 09:51 AM bug #9374 (Closed): ClassCastException when switching between media
- When switching between media of one taxon following CCE is thrown:
~~~ text
last remote method : http://api.cyber...
01/09/2021
- 11:24 AM feature request #5575 (In Progress): DNA Sample requires CacheStrategy
- I added a very first version for DNASample cache strategy to avoid the -titleCache not availble- messages
- 01:36 AM feature request #7612: CacheStrategy for MediaSpecimens
- I implemented now a very basic version of the cache strategy to avoid -titleCache not yet implemented- messages
- 01:34 AM feature request #7612 (In Progress): CacheStrategy for MediaSpecimens
- To me it is a bit unclear what the suggestion is how the MediaSpecimen cache strategy should be implemented.
01/08/2021
- 07:52 PM bug #9373 (Closed): In specimen details view used within specimen tree editor titleCache field is not enabled when it is protected
- instead you first have to click on the protected button which does not change the button but the text field gets enabled
- 07:49 PM bug #9371: Media bulk does not persist data anymore
- See also related tickets when fixing this.
- 07:38 PM bug #9371 (Closed): Media bulk does not persist data anymore
- except for create and delete
I tested for title, description, uri, supplemental data = > nothing worked
This is... - 07:48 PM bug #9372 (Closed): in media details view unprotected title cache is not updated when underlying data is changed
- e.g. when only URI exists usually the title is the file name but changing the URI does not change the title field.
H... - 07:32 PM feature request #9370 (New): Search in media bulk editor should include search on URI
- there are multiple usecases for this
- 07:17 PM bug #9369 (Closed): Reference Detail is missing in MediaSpecimen details view
- but the detail often is important. In general we could also implement as like a (single) source but there is some mor...
- 03:56 PM bug #9368 (Closed): NullPointerException (NPE) in ManifestComposer.representationPartsToImageContent()
- ~~~
15:51:31.562 [cichorieae] [qtp990416209-33917] INFO e.e.c.r.c.iiif.ManifestController - doGetMedia() GET: /cich... - 02:51 PM task #9132: Update cyprus images to Scaler default API and add thumbnails
- Hi Andreas,
ich bin ja gerade dabei #9132 auch für Cichorieae zu machen. Die Links habe ich bereits alle umgestel... - 12:36 PM task #9132: Update cyprus images to Scaler default API and add thumbnails
- Links in the Cichorieae database have all be updated to use the scaler API.
Only open issue is now to reload metad...
01/07/2021
- 01:16 PM bug #9367: E+M shapefile Baltic subarea borders always visible and remove Georgian subdivisions
- This may require to modify the SLD file for the euromed layer
- 01:15 PM bug #9367 (New): E+M shapefile Baltic subarea borders always visible and remove Georgian subdivisions
- ERS:
gerade fällt mir auf, dass die Arealgrenzen innerhalb des Baltikums seltsamerweise nicht angezeigt werden, we...
01/06/2021
- 02:27 PM feature request #9114: Handle malformed URIs in user type
- In #9111#note-1 AK suggests to also encode fragment and query parts. This has **not** been implemented in the origina...
- 02:15 PM feature request #9114: Handle malformed URIs in user type
- Katja, can you please check if you can find out what the httpinvoker problem is. I currently can't start the TaxEdito...
- 12:08 PM feature request #9114 (In Progress): Handle malformed URIs in user type
- I implemented a new class eu.etaxonomy.cdm.common.URI and use this in model but also at other places like import sour...
- 02:20 PM feature request #9111 (Resolved): Handle Malformed URIs
- I removed the related code again as #9114 is now more or less implemented and URI encoding is now done in cdmlib. Ple...
01/04/2021
- 07:17 PM bug #9366: Specimen type designation with specimen having only collection name but not collection code does not show collection information
- Please review
- 07:14 PM bug #9366 (Resolved): Specimen type designation with specimen having only collection name but not collection code does not show collection information
- Applied in changeset commit:cdmlib|99d3463856a840dd42c0532791b67b299b7b7fed.
- 07:08 PM bug #9366 (Closed): Specimen type designation with specimen having only collection name but not collection code does not show collection information
- e.g. Scorzonera kurtii Yıld. in Ot Sist. Bot. Dergisi 18(2): 15. 2012 in Cichorieae DB
The holotype collection inf...
12/22/2020
- 09:09 PM bug #9365 (Closed): Reuse taxon does not work in new Taxon dialogue
- partly copied from #5114.
If reuse taxon is selected still a new taxon is created.
Also the secundum field shou... - 08:52 PM feature request #4896 (Closed): Bulkeditor: deduplication of objects of different type
- Generally this works. Open issue is handled in #9361
- 08:37 PM task #9364 (In Progress): Cleanup authors with multiple & and protected names and teams
- 07:29 PM task #9364: Cleanup authors with multiple & and protected names and teams
- Protected Teams(nomenclaturalTitle):
AlgaTerra: >14000
Cichorieae: 8487
Cuba: 14
Campanula: 1171
Caryo_amarant... - 03:56 PM task #9364: Cleanup authors with multiple & and protected names and teams
- Protected Names (still without fulltitlecache and authorshipcache):
Bromeliaceae: 584
Cichorieae: 476
Cuba: 567
... - 03:17 PM task #9364 (Closed): Cleanup authors with multiple & and protected names and teams
- (high priority only to first issue as it is related to #2200)
In context of #2200 I already checked names with >1 ... - 08:16 PM feature request #2200 (Closed): Handle multiple authors for names correctly when caching
- This can be closed as it works now as expected. Open data issues are handled in #9364
The only directly related is... - 09:59 AM bug #5163 (Closed): Converting persons to team members may result in "-empty team-"
- The "empty team" issue has been solved. The handling of team members has been moved to follow up ticket #9363 as it i...
- 09:56 AM feature request #9363 (New): Allow to parse the new team when converting person to team
- copied from #5163
When converting a person to a team does not get team members by default. We could add a configur... - 12:14 AM bug #2578 (Closed): Improve "move synonym"
- Now we always move the full homotypical group to the other taxon, so this is fixed.
The check that the synonym is ...
12/21/2020
- 11:39 PM bug #9362 (New): Convert Team to Person and vice versa saves immediately
- When converting a team to a person or converting a person to a team the operation is immediately executed and not wai...
- 11:32 PM feature request #4908 (Closed): adding convert Team to Person and Person to Team to the bulk editor
- Open issues fixed or moved to new ticket.
- 11:27 PM feature request #9361 (New): Give more specific information why person can not be converted to team
- copied from #4908 and #4896 (says that current implementation is only a workaround as a suitable return type for isMe...
- 10:46 PM feature request #4770 (Closed): Allow convert person to team
- the open issue is fixed now. We can close the ticket
- 01:36 PM feature request #4769 (Closed): Allow convert team to person
- I used this intensively for deduplicating authors in cyprus DB and problems never occured. So I guess we can close th...
- 01:26 PM bug #9360 (Feedback): Parsed hybrids can not be persisted
- In Flora of Cyprus I tried to persist a hybrid formula (Aegilops biuncialis × geniculata) but got an NPE in TaxonName...
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