Activity
From 12/26/2020 to 01/24/2021
01/24/2021
- 03:42 PM feature request #9404: Open issues for Tropicos Import
- Chuck;
Here’s the answer from Paul. We don’t plan to change the output. Web service will come later on after we ha...
01/23/2021
- 02:46 AM bug #9360: Parsed hybrids can not be persisted
- maybe a duplicate for #9149
- 02:45 AM bug #9360 (In Progress): Parsed hybrids can not be persisted
- 02:39 AM bug #9405: Fields set to irrelevant for cache should be set by state only
- The general idea of the refactoring is:
* in a first step all elements which are relevant for a cache get do regis... - 02:23 AM bug #9405 (Resolved): Fields set to irrelevant for cache should be set by state only
- This should be fixed. I moved advanced issues to new ticket #9417. Please review.
This is also related to #4944. P... - 02:19 AM bug #9405: Fields set to irrelevant for cache should be set by state only
- This is mostly fixed. Some advanced features stay:
* trigger updateCacheRelevance() with ToggledText state change ... - 02:29 AM bug #4915: Abbrev title for person should never be orange
- This should also be fully fixed with #9405 being implemented. Please review again as the frameworks has been fully re...
- 02:25 AM bug #4944: "Protected" indication for references needs to be improved
- with implementation of #9405 this should be fully fixed now. Please review with new implementation.
>The following... - 02:21 AM feature request #9417 (New): Advanced issues for cache relevance handling
- This is mostly fixed. Some advanced features stay:
* trigger updateCacheRelevance() with ToggledText state change ...
01/22/2021
- 07:38 PM bug #9290: stop setting Registration.citation as citation for TypeDesignations in all type editors by default
- Published Specimen Types which are holotypes are displayed as "designated by" in Vaadin. For new names this is now im...
- 07:23 PM bug #9290: stop setting Registration.citation as citation for TypeDesignations in all type editors by default
- Selection disabled/enabled in SpecimenTypeDesignationEditor see #9301
Selection disabled/enabled in NameTypeDesignat... - 07:10 PM bug #9290: stop setting Registration.citation as citation for TypeDesignations in all type editors by default
- re-labeled to "Designation reference": perfect
function is there but not user-friendly
Only the references in u... - 07:18 PM feature request #9301: SpecimenTypeDesignationEditor: Add fields for citation and citationDetail
- The fields are shown, if needed.
The selection of type status (all checked) in SpecimenTypDesignationEditor is fin... - 04:31 PM feature request #8554 (Duplicate): Allow drag&drop from character into FeatureTrees
- 04:26 PM bug #9365 (Feedback): Reuse taxon does not work in new Taxon dialogue
- I changed it a bit the way that first it is checked if a taxon is reused, if not a new taxon is created (with accordi...
- 09:12 AM bug #9365 (Resolved): Reuse taxon does not work in new Taxon dialogue
- Andreas Müller wrote:
> Andreas Müller wrote:
> > As you are now using a different method for createNewTaxonNode al... - 03:52 PM bug #9372 (Closed): in media details view unprotected title cache is not updated when underlying data is changed
- 11:25 AM bug #9372: in media details view unprotected title cache is not updated when underlying data is changed
- this is fixed now, please review.
- 03:47 PM bug #9412 (Closed): Fix reuse existing name in NewTaxonWizard
- 09:40 AM bug #9412 (Resolved): Fix reuse existing name in NewTaxonWizard
- please review.
- 09:33 AM bug #9412 (Closed): Fix reuse existing name in NewTaxonWizard
- I got a very similar NPE when deleting the "reuse existing name":
~~~
last remote method : http://test.e-taxono... - 03:45 PM bug #9353 (Feedback): Copy & Paste creates dirty data in term trees
- Andreas Müller wrote:
> Paste requires save first. Is this really needed? Most task are now handled without save-req... - 09:50 AM bug #9353 (Resolved): Copy & Paste creates dirty data in term trees
- Duplicates can be copied now (for trees allowing duplicates)
The problem of two error dialogs I could not reproduce. - 03:35 PM feature request #9338: Restructure term menus
- Some translations are missing.
Easy: Language, Extension-Type
Maybe also possible: Stage, Nametypedesignation S... - 03:28 PM feature request #9338 (Feedback): Restructure term menus
- There is another issue for trees:
Dna Marker is duplicated, the first is wrong. At the s... - 11:59 AM feature request #9338 (Resolved): Restructure term menus
- Adapted the menues, please have a look.
- 03:10 PM bug #9354 (Feedback): Sorting in distribution editor is broken
- Works as expected. We only could do some further improvements which I put in a new ticket #9416.
Please review my ... - 02:10 PM bug #9354: Sorting in distribution editor is broken
- I unified the 2 TaxonNodeDao.listChildrenOf(...) methods as I don't think it is good to have recursion input paramete...
- 11:37 AM bug #9354: Sorting in distribution editor is broken
- Andreas Müller wrote:
> There is an NPE issue in TaxonNodeByRankAndNameComparator if name or rank does not exist in ... - 11:36 AM bug #9354: Sorting in distribution editor is broken
- There is an NPE issue in TaxonNodeByRankAndNameComparator if name or rank does not exist in taxon. I fixed it.
- 03:10 PM feature request #4298 (New): refresh views after changing rights
- As the description is hopefully clear now we can put this back to "New" to avoid having it in the feedback tickets al...
- 03:03 PM task #9416 (New): Improve distribution editor sort methods
- Currently in TaxonNode.listChildrenOfRecursive 2 different implementations are used to compute the result (first is u...
- 12:20 PM bug #9413 (Closed): DNA details lable "Ratio of absorbance ..." corrected
- Fixed.
By the way, such label adaptations should always go into the current milestone (as they are extremely easy ... - 12:17 PM bug #9413 (Resolved): DNA details lable "Ratio of absorbance ..." corrected
- Applied in changeset commit:taxeditor|ad2d549777a2629b3ff79f663792dcc644df9f55.
- 09:38 AM bug #9413 (Closed): DNA details lable "Ratio of absorbance ..." corrected
- these two labels denote the ratio of two wavelengths therefore the numbers must be concatenated with a slash
* "R... - 12:19 PM feature request #4867 (In Progress): Add menu item for subtree cloning
- 12:16 PM bug #9142 (Closed): The Agent search dialog shows duplicated entries
- cleaned the code and close ticket.
- 12:00 PM feature request #9192 (Closed): Layout issues for source in taxonnode details
- 11:56 AM bug #9264 (Closed): Flag for toggle button for linking taxon with navigator looses/switch value without clicking the button
- Renamed parameter and close this ticket.
- 10:00 AM bug #9415 (Closed): DNA and other Derivatives missing in DerivedUnitDTO
- example:
http://int.e-taxonomy.eu/cdmserver/integration_reference/portal/occurrence/8259122c-7140-44f3-980e-1a65... - 09:42 AM bug #9414 (New): DNA details lable "Concentration" with unit
- these labels "Concentration" should include the unit:
"Concentration [ng/μl]"
- 09:37 AM bug #9393: NPE when removing parent from TaxonNode editor
- splitted the ticket: ticket #9412 handles the exception when reusing a name and this ticket the NPE when removing a p...
- 09:14 AM bug #9356 (Closed): Comparison method violates its general contract for SourceComparator and TypeDesignationComparator
- Andreas Müller wrote:
> For TypeDesignationComparator the line
>
> ~~~
> return o1.getUuid().compareTo(o2.getUui...
01/21/2021
- 08:16 PM bug #9356: Comparison method violates its general contract for SourceComparator and TypeDesignationComparator
- The SourceComparator looks fine. I only cleaned it up a bit.
- 07:34 PM bug #9356 (Feedback): Comparison method violates its general contract for SourceComparator and TypeDesignationComparator
- For TypeDesignationComparator the line
~~~
return o1.getUuid().compareTo(o2.getUuid());
~~~
will never be rea... - 06:44 PM bug #9353: Copy & Paste creates dirty data in term trees
- In general the copy&past works now.
- 06:43 PM bug #9353 (Feedback): Copy & Paste creates dirty data in term trees
- Paste requires save first. Is this really needed? Most task are now handled without save-requirement so it breaks a b...
- 06:36 PM bug #9353: Copy & Paste creates dirty data in term trees
- Andreas Müller wrote:
> There is a duplicate error message when c%p a duplicate term to a non-duplicate allowing tre... - 06:35 PM bug #9353: Copy & Paste creates dirty data in term trees
- The error message on duplicate also appears if the tree allows duplicates:
 - 06:31 PM bug #9353: Copy & Paste creates dirty data in term trees
- There is a duplicate error message when c%p a duplicate term to a non-duplicate allowing tree.
: Add "Open in RefObj view" to term editor context menu
- Looks good now.
- 02:34 PM feature request #8289 (Resolved): Add "Open in RefObj view" to term editor context menu
- Applied in changeset commit:taxeditor|9d09fe70f4a9159120f70754988dad2cf500365e.
- 02:04 PM feature request #8289 (Feedback): Add "Open in RefObj view" to term editor context menu
- Works as expected. Only issue: in other places we have the open in menu just below the New menu and also it is separa...
- 04:00 PM bug #8874 (Feedback): move taxon is reverted when taxon is edited afterwards
- Another more critical issue related to the code reviewed:
The following code:
~~~
for (Map.Entry<String, Integ... - 03:58 PM bug #8874: move taxon is reverted when taxon is edited afterwards
- I also wonder, why in the code only the UpdateResult part was adapted, but not the ImportResult. Is this specific to ...
- 03:55 PM bug #8874: move taxon is reverted when taxon is edited afterwards
- It seems to work. However, I do not fully understand, why. Don't the changes try to guarantee that all open taxa rela...
- 03:35 PM bug #8874: move taxon is reverted when taxon is edited afterwards
- I think I remember the mail discussion about this issue. There, we discussed that this happens only if the taxon was ...
- 03:28 PM task #9411 (New): use termtrees for user defined limited term lists
- this accounts for:
* nomenclatural status type terms
* ...
see `RegistrationTermLists` & an attempt to rep... - 03:22 PM bug #9344 (Closed): Datasets in Descriptive Dataset Navigator should be ordered
- looks fine
- 03:20 PM bug #7711: Bugs in media gallery
- >if a transient (id>0) media is removed all volatile (id=0) media are also removed automatically
this still happen... - 03:16 PM bug #7711 (Feedback): Bugs in media gallery
- When removing the last image of the image gallery I got:
~~~
last remote method : http://test.e-taxonomy.eu:80/cd... - 03:14 PM feature request #8981: Improve NameStatus in UI
- please review
- 03:14 PM feature request #8981 (Resolved): Improve NameStatus in UI
- Applied in changeset commit:cdm-vaadin|86550c96c1fc9e574e8dc8a9c4ae6289a47f2bd5.
- 02:29 PM feature request #8975: Name Status filtered in UI
- ready for review
- 02:27 PM feature request #8975 (Resolved): Name Status filtered in UI
- Applied in changeset commit:cdm-vaadin|d8791ff266ee1c66cdb6a0d20a57844107435294.
- 02:05 PM bug #8522: Make type status mandatory in Name type designation editor
- please review
- 02:04 PM bug #8522 (Resolved): Make type status mandatory in Name type designation editor
- Applied in changeset commit:cdm-vaadin|b892b7623a4a49d8a4e7669405b3dbe6e2dcca11.
- 01:58 PM bug #9372: in media details view unprotected title cache is not updated when underlying data is changed
- It still does not seem to work. Now, even the title in the bulk editor table does not change anymore.
Do we talk a... - 01:43 PM bug #9264 (Feedback): Flag for toggle button for linking taxon with navigator looses/switch value without clicking the button
- seems to work.
Is the parameter boolean isLinkWithTaxon really needed? it is not used. Is it only to have any para... - 01:07 PM bug #9410 (New): DNA Marker is not shown correctly on specimen page
- instead it shows only "Object":
Example: http://portal.cybertaxonomy.org/algaterra-new/cd... - 01:02 PM bug #9365 (Feedback): Reuse taxon does not work in new Taxon dialogue
- Andreas Müller wrote:
> As you are now using a different method for createNewTaxonNode all the TaxonNode data like s... - 12:22 PM bug #9365 (Resolved): Reuse taxon does not work in new Taxon dialogue
- please review.
- 11:53 AM bug #9365: Reuse taxon does not work in new Taxon dialogue
- This is fixed with the last commit for #9393
- 11:49 AM bug #9365: Reuse taxon does not work in new Taxon dialogue
- As you are now using a different method for createNewTaxonNode all the TaxonNode data like source and status are not ...
- 11:38 AM bug #9365 (Feedback): Reuse taxon does not work in new Taxon dialogue
- The disabling of the secundum is still missing.
- 12:58 PM feature request #9338: Restructure term menus
- I moved questions on unhandled term types to new ticket #9409
- 12:52 PM feature request #9338 (Feedback): Restructure term menus
- 12:51 PM feature request #9338: Restructure term menus
- The new menu looks much better now (also mentioned by AK recently). Good we changed this.
- 12:49 PM feature request #9338: Restructure term menus
- And a small change to my above description: can we put Modifier and Scope into 1 section followed by another section ...
- 12:47 PM feature request #9338: Restructure term menus
- TaxonNodeAgentRelationType should be also editable for vocabularies (sorry, my comment was maybe not clear)
Langua... - 12:57 PM feature request #9409 (New): [Decision] Which terms should be editable in term tree editor (and vocabulary editor)
- copied from #9338
Open term types:
DerivationEventType (not in use yet?) => if to use last section
DnaQualityT... - 12:52 PM feature request #9301: SpecimenTypeDesignationEditor: Add fields for citation and citationDetail
- improvements to the layout will be done in #9408
The requested fields are now added and can be tested. - 12:45 PM feature request #9301 (Resolved): SpecimenTypeDesignationEditor: Add fields for citation and citationDetail
- Applied in changeset commit:cdm-vaadin|06db1b37a7f659fb7e18079700103f41b16bfd10.
- 12:51 PM feature request #9408 (New): SpecimenTypeDesignation collection editor with grid-form per item instead of looong rows
- The SpecimenTypeDesignation collection editor the SpecimenTypeDesgnationEditor shows all fields in a very long row.
... - 12:30 PM bug #9393: NPE when removing parent from TaxonNode editor
- Shouldn't we split the ticket? This ticket is mostly on NPEs not on general problems with parent handling.
- 12:20 PM bug #9393 (In Progress): NPE when removing parent from TaxonNode editor
- The NPE when removing reused name is fixed. The problem when removing parent is a little more difficult, therefore th...
- 10:23 AM bug #9393: NPE when removing parent from TaxonNode editor
- These are different issues but very related to the given issue therefore I mention it here. If difficult to fix feel ...
- 10:17 AM bug #9393: NPE when removing parent from TaxonNode editor
- When opening the NodeEditor from classification the parent field is still empty. When selecting a parent the Labels a...
- 10:15 AM bug #9393 (Feedback): NPE when removing parent from TaxonNode editor
- I got a very similar NPE when deleting the "reuse existing name":
~~~
last remote method : http://test.e-taxono... - 12:24 PM bug #9350 (Feedback): Create new taxonnode ignores the publish flag
- Works as expeccted.
Should we check after the release that the code merge worked correctly? Or should we close tic... - 12:03 PM task #9407 (New): Reuse taxon should check classification before save
- Reusing a taxon is not allowed in the same classification. If doing so anyway in the taxon node dialogue an error is ...
- 11:37 AM bug #9369: Reference Detail is missing in MediaSpecimen details view
- Andreas Müller wrote:
> The missing reference detail is fixed.
>
> The spaces between some fields are still missi... - 11:06 AM bug #9369 (Feedback): Reference Detail is missing in MediaSpecimen details view
- The missing reference detail is fixed.
The spaces between some fields are still missing.
Moving the URI to top ... - 10:53 AM bug #9371 (Closed): Media bulk does not persist data anymore
- No it saves as expected
- 10:50 AM bug #9382 (Closed): For nomenclatural source show taxonname in referencing objects view
- Looks fine.
- 10:38 AM bug #9382: For nomenclatural source show taxonname in referencing objects view
- I dis some further changes and NPE prevention. Please have a look and close if you think it is ok.
- 10:37 AM bug #9382: For nomenclatural source show taxonname in referencing objects view
- Applied in changeset commit:taxeditor|db226011dbf5f1c7de1060d15dce17f7faaed67f.
- 10:48 AM feature request #9375 (Closed): Alphabetical order for reference type drop down
- Works as expected.
- 10:43 AM bug #9391 (Closed): If named area level does not exist remove the level information
- Looks fine
- 09:43 AM feature request #9404: Open issues for Tropicos Import
- Maybe the format will change in future:
WGB to Chuck Miller:
I see that the Tropicos Name Matching is working aga... - 09:06 AM bug #9403 (Closed): cleanup function cdm_related_taxon() from used paramerters and css class attributes
- 09:06 AM bug #9403 (Resolved): cleanup function cdm_related_taxon() from used paramerters and css class attributes
- Applied in changeset commit:cdm-dataportal|846f21e18654a33f2027824599149834c0aff88a.
01/20/2021
- 08:06 PM bug #6164: cyprus: invalid data causing crash in modifier editor
- test if this is still an open issue.
- 07:55 PM feature request #3502: extensions not yet handled in compose_cdm_specimenOrObservation()
- target version is missing! Put on current milestone like other specimen related issues?
- 07:49 PM task #3485: object graph returned by REST services can be specified by initstrategy
- target version is missing! Is this still an open issue?
- 07:48 PM bug #3480: tagged text with square bracket confuses json
- target version is missing. I put it to same milestone as related ticket. Please change if this is wrong.
- 07:40 PM feature request #3030: Jenkins php jobs: setup for code analysis, mess detection etc..
- target version is missing! Is it still an open issue?
- 07:37 PM feature request #6016: ICN rules in cdm validation framework implemented
- target version is missing! Is it still an open issue?
- 07:35 PM feature request #6598: Migrate commands and handlers
- target version is missing!
Can we assess in current milestone what still needs to be done to close this ticket. Th... - 07:30 PM task #9377: Update of other platform user documentation
- target version is missing!
- 07:27 PM feature request #8182: show blast search result
- is this still an open issue? Should it be reviewed? Should open issues be moved to new ticket?
Is there an example... - 07:25 PM bug #7829 (Closed): Improve deduplication of parsed names and references
- This has been finished (with few exceptions) in #9085.
- 07:10 PM feature request #6133 (Closed): Improve Rank Webservice
- Created follow up #9406 for open issue, close this ticket
- 07:09 PM feature request #9406: Open issue for Edaphobase rank web service
- put to low priority as edaphobase is currently not active
- 07:08 PM feature request #9406 (Rejected): Open issue for Edaphobase rank web service
- follow up for #6133
Open issue:
* representations are not mapped to a language
- 06:49 PM task #5085: Aggregate Distributions
- This is a duplicate for some other tickets: #5176, #8679, #8677 and maybe someother.
Should be tested on FauEu Data ... - 06:33 PM bug #7665 (Closed): ConcurrentModificationException when closing Editor
- If at all it happens very seldom. We should open a new ticket with a new stacktrace if it happens again.
- 06:23 PM bug #1119 (Duplicate): [PARSER] Duplicate inreferences created during parsing are NOT merged when data gets saved
- This has been fully fixed in #9085 so close this ticket as duplicate
- 06:04 PM bug #3737 (Closed): Protected caches for taxa and names behave inconsistent
- The first issue is solved. The second was improved, however, it still sometimes works inconsistent meaning that the s...
- 06:04 PM bug #9405 (In Progress): Fields set to irrelevant for cache should be set by state only
- 06:02 PM bug #9405 (Closed): Fields set to irrelevant for cache should be set by state only
- follow up from #3737
Currently this is not yet the case as they are set during UI update by calling refresh only o... - 05:52 PM feature request #6965 (Closed): Tropicos Import
- open issues copied to #9404, close this
- 05:51 PM feature request #9404 (New): Open issues for Tropicos Import
- copied from #6965
* Tests genauer
* Progressmonitor
* "Analyse" vor Import
* Klären, welche Funktionen von ... - 03:13 PM bug #7223 (Closed): ReferenceEditor: disable fields depending on the Reference type
- Andreas Müller wrote:
> Personal Communication has no DOI neither in the interfaces nor in TaxEditor. If this is ava... - 02:53 PM bug #7764 (Closed): Fix classification and synonym bug in taxon name freetext search
- works as expected, see for example the http://caucasusflora.org/ where subtree limitation, classification and `doSyno...
- 02:46 PM bug #7108 (Closed): supress unwanted sourcetypes in handle_annotations_and_sources()
- Andreas Müller wrote:
> Works fine now and ticket can be closed.
>
> I only wonder if only a citation micro refer... - 02:40 PM feature request #7720 (Closed): use new taxonRelationshipsDTO webservice for all taxon relations
- cleanup TODO copied to #9403 and now closing this ticket
- 02:38 PM bug #9403 (Closed): cleanup function cdm_related_taxon() from used paramerters and css class attributes
- 1.) remove unused parameters:
`$relsign = NULL, $reltype_representation = NULL, $doubtful=false, $doLinkTaxon = FA... - 02:03 PM feature request #7417 (Closed): Make pro parte and partial synonym relationships always visible in data portals
- this is fully implemented and also covered by the tests on the synonymy of *Miconia cubacinerea* in the reference dat...
- 01:53 PM bug #7745 (Closed): Subtree filter for dataportal services
- 01:51 PM bug #7745: Subtree filter for dataportal services
- Andreas Kohlbecker wrote:
> For the polytomous keys the following webservices need to be filtered by the subTree to ... - 01:51 PM task #9402 (New): Subtree filter for polytomousKey and polytomousKeyNode services
- For the polytomous keys the following webservices need to be filtered by the subTree to avoid unpublished taxa showin...
- 01:49 PM bug #7386 (Closed): TaxonNamePopEditor: com.vaadin.data.Property$ReadOnlyException on saving a basionym
- 01:44 PM bug #9401 (New): Name bulk editor: focus gets lost when list loading is going on
- Allerdings habe ich ein Problem damit den Fokus im Bulkeditor dauerhaft auf einen Namen zu setzten. Solange der Bulke...
- 01:38 PM bug #9290 (Resolved): stop setting Registration.citation as citation for TypeDesignations in all type editors by default
- Hi Henning, could you please make some tests in the test-server to make sure the changes are not causing problems wit...
- 12:39 PM bug #9373: In specimen details view used within specimen tree editor titleCache field is not enabled when it is protected
- I can't reproduce this. When the titlecache is protected, the field is enabled and the button shows the open lock.
!... - 11:54 AM feature request #6308 (Closed): Add configuration dialog for the deletion of synonyms in name editor
- Andreas Müller wrote:
> The 2 warnings do not show up anymore so we can close this ticket.
> However, I am a bit as... - 11:34 AM bug #9398 (In Progress): ObjectNotFoundException when removing a synonym that is used as NameInSource
- 11:33 AM bug #9398: ObjectNotFoundException when removing a synonym that is used as NameInSource
- I think the problem is that the name used as "name used in source" still have the information to be the name of the d...
- 10:41 AM bug #9393 (Resolved): NPE when removing parent from TaxonNode editor
- The newTaxon wizard does not allow deleting the parent taxon anymore. To create a orphan taxon the user should use th...
- 09:38 AM bug #9391: If named area level does not exist remove the level information
- please review
- 09:38 AM bug #9391 (Resolved): If named area level does not exist remove the level information
- Applied in changeset commit:cdmlib|6d7fe5d574d1264196441524f674c24732b248a0.
- 08:39 AM task #9400 (New): Check whether it is possible to set rights to reduce the work to descriptive datasets
- mail NK:
Deshalb schon mal die Frage: Gibt es separate Rechte ausschließlich für Arbeit mit Descriptive Data Sets,...
01/19/2021
- 04:01 PM feature request #6076 (Closed): Specimen biocase search should work on observations
- this ticket was about the filter on preservedSpecimen in the biocase search, now all records can be found. Comparing ...
- 03:32 PM feature request #7345 (Resolved): [E+M] Common name references selectable in TaxEditor
- this seems to be fixed, the preference is available and activate and deactivate the filtering for common name referen...
- 03:09 PM feature request #7810 (Closed): DB preference to make Specimen editors visible
- Changed the title of this ticket because only the editor availability was implemented in 5.4, for the other issues a ...
- 03:09 PM feature request #9399 (New): DB preference to make all Specimen functionality/menu items invisible
- the preference to hide all specimen related parts of the editor already exist (see #7810), but the implementation of ...
- 02:58 PM bug #9354: Sorting in distribution editor is broken
- please review.
- 02:57 PM bug #9354 (Resolved): Sorting in distribution editor is broken
- this is fixed now by sorting the list on server side. The sortMode is a method parameter.
- 09:08 AM bug #9354: Sorting in distribution editor is broken
- Andreas Müller wrote:
> Generally the comparator should work the same way as the taxon navigator compartor. But th... - 02:56 PM feature request #8889 (In Progress): Remaining issues for distribution editor - continue
- 12:47 PM bug #7386: TaxonNamePopEditor: com.vaadin.data.Property$ReadOnlyException on saving a basionym
- can be set to closed
- 12:11 PM task #9300: Name Page: harmonize media specimen lectotype representations
- Andreas Müller wrote:
> so should we change status to "in progress" as questions are solved?
the conclusion is only ... - 11:55 AM task #9300: Name Page: harmonize media specimen lectotype representations
- so should we change status to "in progress" as questions are solved?
- 11:49 AM task #9300: Name Page: harmonize media specimen lectotype representations
- Wolf-Henning Kusber wrote:
> Nein, stimme nicht zu
after an extensive discussion we concluded the following inter... - 10:42 AM task #9300: Name Page: harmonize media specimen lectotype representations
- Nein, stimme nicht zu
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:
- 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):
: 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...
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