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From 12/01/2019 to 12/30/2019

12/27/2019

04:48 PM task #8796 (New): [PESI][DW] Handling of Taxon.SourceFk
In SQL Script the Taxon.SourceFk was filled the following way:
* for taxa from ERMS, FauEU and IF it was filled by...
Andreas Müller
11:09 AM bug #8508 (In Progress): [PESI][ERMS] ERMS import pipeline validation
Andreas Müller
09:31 AM task #8795 (New): [PESI][DW] CHECK all fields on correct handling of merged data in PESI export
Sometimes merged data needs to be pipe separated or something else. All fields need to be checked if they handle this... Andreas Müller

12/26/2019

11:33 PM task #8794 (New): [PESI][Merge]+[DW] Check all SQL scripts related to merging
Check all SQL script which are not single DB specific on Y:\BDI\PESI\sh\DBs2PESI\vCDM Andreas Müller
08:07 PM bug #8793 (New): [E+M] In-Ref authors should have full (non-abbreviated) author title without ini...
This is a E+M requirement for nom. ref. formatting Andreas Müller
06:41 PM task #7976 (Closed): [PESI][ERMS] Erms taxon import
Andreas Müller
05:02 PM task #8792: Issues to have in mind for ERMS import
Open issues from comparing SQL scripts (Y:\BDI\PESI\sh\DBs2PESI\vCDM\):
!!!! Do check again because maybe I checke...
Andreas Müller
12:06 PM task #8792 (New): Issues to have in mind for ERMS import
The functioning of the ERMS import (and PESI export) is explained at: [[Erms_mapping]]
## General information
O...
Andreas Müller

12/23/2019

12:09 PM feature request #8441 (Closed): Add FeatureState class
I think we can close this ticket. Andreas Müller

12/20/2019

04:28 PM bug #8791: Measurement units are not assigned to quantitative data in matrix
This urgent as the current implementation creates incomplete data that needs to be repaired manually (see #8790) Andreas Müller
04:17 PM bug #8791 (Closed): Measurement units are not assigned to quantitative data in matrix
In a first quick fix we should implement it such that if the feature has exactly 1 recommended measurment unit this u... Andreas Müller
04:16 PM bug #8790 (Closed): Update measurement units for existing quantitative data missing a unit
This is how to find them:
~~~
SELECT f.id featureId, f.titleCache, mu.id unitId, mu.titleCache unit, deb.*
FROM...
Andreas Müller
03:55 PM feature request #8789 (New): How can we semantically handle characters like "partial inflorescenc...
This is currently a quantitative character in Cactaceae which uses
structure: partial inflorescence
Property: arr...
Andreas Müller
03:26 PM bug #8788 (Feedback): Cloned descriptions do not show up in dataportal anymore
Problem description:
Das Problem ist, dass hier auf die geclonten (archivierten) Specimen Descriptions verlinkt wi...
Andreas Müller
03:01 PM feature request #8787: Improve layout for ExactValue on Description Pages
This should only be applicable for the specimen pages themselves: http://test.e-taxonomy.eu/dataportal/preview/greece... Andreas Müller
03:00 PM feature request #8787: Improve layout for ExactValue on Description Pages
A maybe temporary example ist http://test.e-taxonomy.eu/dataportal/preview/greece_bupleurum/cdm_dataportal/descriptio... Andreas Müller
02:56 PM feature request #8787 (Resolved): Improve layout for ExactValue on Description Pages
Currently formatting is not nice:
![](picture908-1.png)
A first suggestion from an Email:
Da sollten wir uns...
Andreas Müller
02:59 PM bug #8766: Aggregated Descriptions: show Sample size as [$SAMPLE_SIZE]
Handling for Exact Value is still open, but handled now in own ticket #8787 Andreas Müller

12/19/2019

05:14 PM bug #8739 (Resolved): remaining issues for description detail page
AS far as I see, this ticket is either solved or remaining issues are copied to new tickets.
Therefore I suggest c...
Andreas Kohlbecker
05:08 PM task #8786 (Feedback): Display of mean value with min max
Andreas Kohlbecker
05:08 PM task #8786 (Resolved): Display of mean value with min max

> abgesehen davon, dass die Mittelwertangabe zwischen Min und Max unüblich ist, ... Eine bessere Darstellung wär...
Andreas Kohlbecker
03:00 PM feature request #8769 (New): Biocase import configuration should be shown when clicking on import...
Andreas Kohlbecker wrote:
> I fear that just opening the import config dialog does not really help.
> I suggest to ...
Andreas Müller
02:59 PM feature request #8471: Computed descriptions should be disabled in TaxEditor
Andreas Müller wrote:
> Andreas Kohlbecker wrote:
> > I find it very useful for debugging that computed description...
Andreas Kohlbecker
02:28 PM feature request #8471: Computed descriptions should be disabled in TaxEditor
Andreas Kohlbecker wrote:
> I find it very useful for debugging that computed descriptions can be viewed and modifie...
Andreas Müller
02:40 PM bug #8785: Move functionality of buttons to context menu of the character matrix
Katja Luther wrote:
> this should be possible in character matrix. I have to test this.
yes, it should be handled...
Andreas Müller
02:35 PM bug #8785 (In Progress): Move functionality of buttons to context menu of the character matrix
this should be possible in character matrix. I have to test this. Katja Luther
11:58 AM bug #8785: Move functionality of buttons to context menu of the character matrix
Also this one I put to current milestone for same reason as #8784 Andreas Müller
11:58 AM bug #8785 (Resolved): Move functionality of buttons to context menu of the character matrix
The issue is described in #8784 but I created a new ticket as it is as deleting a specimen description (which is hand... Andreas Müller
02:30 PM bug #8783: Massive Heap consumption in server instance opening the Description-Matrix editor
As this is a critical issue I suggest to put it into 5.13. (5.12 is probably not possible as the task is difficult). ... Andreas Müller
02:23 PM bug #8784: Deleting a specimen description not possible
fixing the delete handling in deletehandler of the factual data view. Now the deletion of descriptions and descriptio... Katja Luther
11:57 AM bug #8784 (In Progress): Deleting a specimen description not possible
this is already in process because I already found this problem while working on #8782 Katja Luther
11:54 AM bug #8784: Deleting a specimen description not possible
I put this into the current milestone because it is a blocker for undoing incorrect/unwanted data entries. Andreas Müller
11:53 AM bug #8784 (Closed): Deleting a specimen description not possible
Currently it seems to be impossible to delete a specimen description.
In the specimen LIST editor specimen descrip...
Andreas Müller
02:21 PM feature request #8781 (Closed): Descriptions (aggregated): futher improvements
Looks fine now Andreas Müller
01:51 PM feature request #8781 (Resolved): Descriptions (aggregated): futher improvements
Andreas Müller wrote:
> Now the semicolon is missing everywhere, it should be removed ONLY at the end:
>
Proble...
Andreas Kohlbecker
01:19 PM feature request #8781: Descriptions (aggregated): futher improvements
An example can be found here: http://test.e-taxonomy.eu/dataportal/preview/greece_bupleurum/cdm_dataportal/taxon/8718... Andreas Müller
01:19 PM feature request #8781 (Feedback): Descriptions (aggregated): futher improvements
Andreas Müller
01:19 PM feature request #8781: Descriptions (aggregated): futher improvements
Now the semicolon is missing everywhere, it should be removed ONLY at the end:
![](picture967-1.png)
The capita...
Andreas Müller

12/18/2019

04:38 PM feature request #8471: Computed descriptions should be disabled in TaxEditor
I find it very useful for debugging that computed descriptions can be viewed and modified in the editor. Can't we all... Andreas Kohlbecker
02:43 PM bug #8783 (Closed): Massive Heap consumption in server instance opening the Description-Matrix ed...

This was observed with a locally running cdmlib-remote-webapp instance configured with 700 MB of Heap:
![](pic...
Andreas Kohlbecker
01:39 PM bug #8782 (Closed): Delete a description included in a CdmSource should not be possible
mail AM:
ich habe gerade DescriptionBase gelöscht (aus dem Facts View heraus), die noch verlinkt waren über eine C...
Katja Luther
01:24 PM bug #8780: Repair sortindex does not work on TermTree index
This should be fixed. Please review. Andreas Müller
11:57 AM bug #8780 (Resolved): Repair sortindex does not work on TermTree index
Applied in changeset commit:cdmlib|dad659722b698863a2dee711782748b0de216a71. Andreas Müller
09:16 AM bug #8780 (Closed): Repair sortindex does not work on TermTree index
Andreas Müller
12:21 PM feature request #8781 (Resolved): Descriptions (aggregated): futher improvements
ticket complete Andreas Kohlbecker
12:08 PM feature request #8781 (Closed): Descriptions (aggregated): futher improvements
Hallo Andreas,
1. am Ende der aggregated descriptions gibt es derzeit im noch ein überflüssiges Komma. Könntest du...
Andreas Kohlbecker
11:22 AM feature request #7981 (In Progress): Add configuration UI for matrix description aggregation
Katja Luther

12/17/2019

03:55 PM bug #8566 (Rejected): Recursive aggregation for common parent taxon does not work if not in data set
This is expected behavior, not a bug IMO. However, with the UI aggregation trigger we may have more possibilities to ... Andreas Müller
03:47 PM feature request #8686: Support CdmLink sources in bibliography
An example could be shown here: http://test.e-taxonomy.eu/dataportal/preview/caryophyllales_spp/cdm_dataportal/taxon/... Andreas Müller
03:46 PM feature request #8686 (Feedback): Support CdmLink sources in bibliography
Andreas Kohlbecker wrote:
> **Note**: The links to the taxa are having a fragment which directly focuses on the "Agg...
Andreas Müller
03:40 PM bug #8779 (Resolved): Description page: use render_taxon_or_name() for creating the page and desc...
after harmonization the top of the page now looks like
![](picture451-1.png)
If more detailed display of the ta...
Andreas Kohlbecker
03:20 PM bug #8779 (Closed): Description page: use render_taxon_or_name() for creating the page and descri...
in `compose_description_table()` the `render_taxon_or_name()` method must be used for portal wide consistend display ... Andreas Kohlbecker
03:35 PM feature request #8777: Make visiblity of CDM Source configurable
Andreas Müller wrote:
> ... hmm, maybe an even better solution is to show the field only if data exists. Is this pos...
Andreas Müller
03:08 PM feature request #8777: Make visiblity of CDM Source configurable
... hmm, maybe an even better solution is to show the field only if data exists. Is this possible? Andreas Müller
03:00 PM feature request #8777 (New): Make visiblity of CDM Source configurable
see #8688, for some projects the CDM Source should not be visible (because not used). This is similar to ID in Source... Andreas Müller
03:15 PM feature request #8688 (Feedback): Make OriginalSourceBase.cdmSource visible in TaxEditor
The current solution shows titleCache+uuid for identifiable entities. This is too much. For now we need only the titl... Andreas Müller
03:12 PM feature request #8778 (New): Have explicit subclass for CdmSourceLink sources
copied from #8688: Possible open questions related: do we want to have a new subclass for OriginalSourceBase which on... Andreas Müller
02:27 PM feature request #8724 (Closed): Allow OriginalSource to link to Taxon
I think we can close this. If problems occurr we may reopen or immediately fix. Andreas Müller
02:14 PM feature request #8044 (Feedback): Add "Move to..." menu to term editor
* For this usecase the title and the description in the term selection wizard needs to be adapted. It should be somet... Andreas Müller
01:56 PM bug #7994 (Duplicate): Implement allowDuplicates for term trees in TaxEditor
This is a duplicate for #8477, #8776 Andreas Müller
01:53 PM feature request #8476: Implement support for TermCollection.isFlat in TaxEditor
Note: saving often does not work due to issues to be solved in #8774 Andreas Müller
01:47 PM feature request #8476 (In Progress): Implement support for TermCollection.isFlat in TaxEditor
Only the flag is editable until now so I put this back to InProgress. Andreas Müller
01:53 PM feature request #8474: Make TermCollection.orderRelevant usable for TermTrees
Note: saving often does not work due to issues to be solved in #8774 Andreas Müller
01:50 PM feature request #8474 (In Progress): Make TermCollection.orderRelevant usable for TermTrees
Only editing the flag is implemented until now so I put it back to InProgress Andreas Müller
01:52 PM bug #8776: Open issues for TermCollection.allowDuplicates handling in TaxEditor
Note: saving often does not work due to issues to be solved in #8774 Andreas Müller
01:25 PM bug #8776 (New): Open issues for TermCollection.allowDuplicates handling in TaxEditor
* The error message currently looks like an unhandled error. The message should only inform about the fact that dupli... Andreas Müller
01:41 PM feature request #8477 (Closed): Implement support for TermCollection.allowDuplicates in TaxEditor
Generally this works but there are some open issues. I moved them all to a new ticket: #8776 Andreas Müller
12:19 PM feature request #8242 (Closed): Implement filtered combo boxes for state selection in CharacterMa...
This is generally implemented. There are follow up tickets like #8254 and #8775 Andreas Müller
12:14 PM bug #8313 (Closed): Multiple categorical data get deleted when clicked on in Character Matrix
This seems to work now. There are issues with the general (rapid) data entry of categorical data into the matrix. The... Andreas Müller
12:12 PM feature request #8775 (New): Improve (rapid) data entry into characater matrix for categorical data
Quantitative data can be entered into the matrix very fast by only using the keyboard via return, left, right and num... Andreas Müller
11:50 AM feature request #8665 (Closed): Rename "New" to "New Tree" in Term Tree editors
Andreas Müller
11:44 AM bug #8751: Replace saveOrUpdate() in AbstractTermTreeEditor
This is probably more or less a duplicate for #8774 and will be fixed by #8774 Andreas Müller
11:41 AM bug #8663 (Duplicate): LIE when trying to save a tree node
This is probably a duplicate for #8744 Andreas Müller
11:38 AM bug #8744 (Closed): LazyInitializationException (LIE) saving the Character Editor
The LIE itself seems to be fixed by switching to merge() but there are still very serious issues related to saving of... Andreas Müller
11:28 AM bug #8744: LazyInitializationException (LIE) saving the Character Editor
Andreas Müller wrote:
> hmm, it does not really seem to be the problem, but I found that there seems no session to b...
Andreas Müller
11:36 AM bug #8774 (Feedback): Reimplement term tree editors to implement the general save strategy
Currently term trees save changes in the hierarchy (including new terms/nodes) immediately in the DB. This is against... Andreas Müller
11:24 AM bug #8748 (Closed): Supported state vocabularies should be ordered
This is fixed and is a very nice and important feature. Andreas Müller
11:22 AM feature request #8755 (Closed): Show all structure/property trees in CharacterEditor
Follow up issues are moved to extra tickets so we can close this one. Andreas Müller
11:20 AM feature request #8773 (New): [DISCUSS] Allow editing structure and properties tree in Character E...
copied from #8755#note-3:
"with the current state of the structure tree it is sometimes wanted to extend this tree...
Andreas Müller
10:23 AM feature request #8772 (New): Recognize Character duplicates
Characters constructed from structure and property (and structural modifier) can be recognized as duplicates by this ... Andreas Müller
09:10 AM feature request #8771 (Feedback): display of average value with precision so that it differs from...
do you agree with my suggestion? Andreas Kohlbecker
09:07 AM feature request #8771 (Resolved): display of average value with precision so that it differs from...
The display of decimal place for average value should be adjusted so that it differs from the values on min and max (... Andreas Kohlbecker

12/16/2019

05:05 PM feature request #8769 (Feedback): Biocase import configuration should be shown when clicking on i...
I fear that just opening the import config dialog does not really help.
I suggest to solve this problem differently:...
Andreas Kohlbecker
02:11 PM feature request #8769 (New): Biocase import configuration should be shown when clicking on import...
The configuration dialog should be opened everytime the import button is clicked.
At the moment the configuration ...
Katja Luther
04:58 PM bug #8766: Aggregated Descriptions: show Sample size as [$SAMPLE_SIZE]
ready for review Andreas Kohlbecker
01:41 PM bug #8766 (Resolved): Aggregated Descriptions: show Sample size as [$SAMPLE_SIZE]
Applied in changeset commit:cdm-dataportal|f63479aed323653e11922bb4dc3865537c5904cb. Andreas Kohlbecker
04:33 PM bug #8770 (Closed): NameControllers responds with all entities when name uuid is not found
fixed Andreas Kohlbecker
04:33 PM bug #8770 (Resolved): NameControllers responds with all entities when name uuid is not found
Applied in changeset commit:cdmlib|cc3ce6e30c74308b6697f6007d03d37b00cce8ff. Andreas Kohlbecker
04:25 PM bug #8770 (Closed): NameControllers responds with all entities when name uuid is not found
When the uuid in `portal/name/c0b7aa13-301d-4a0c-a8c6-843e96c34ba8/taxonNameDescriptions.json` is not found in the db... Andreas Kohlbecker

12/13/2019

03:47 PM bug #8739: remaining issues for description detail page
removing obsolete conversation records from the issue description since these points are already handled in other iss... Andreas Kohlbecker
03:40 PM bug #8739 (In Progress): remaining issues for description detail page
Andreas Kohlbecker
03:32 PM bug #8766: Aggregated Descriptions: show Sample size as [$SAMPLE_SIZE]
Hallo Andreas,
erstmal zu Extrems und so. Eigentlich sind min und max die Extremwerte. TypicalXXXBoundary sind die...
Andreas Kohlbecker
03:32 PM bug #8766: Aggregated Descriptions: show Sample size as [$SAMPLE_SIZE]
Hallo,
ich habe eine Verständnisfrage zur Ausgabe Quantitativer Daten mit Min, Max und Exact values.
Beispiel w...
Andreas Kohlbecker
08:15 AM bug #8766 (Closed): Aggregated Descriptions: show Sample size as [$SAMPLE_SIZE]
1. nur [27],
2. das sollte dann irgendwo generell erklärt werden.
Übrigens sollten die anderen counts dann auch...
Andreas Kohlbecker
02:14 PM task #8768 (New): DISCUSS: place CdmLinks in a separate pseudo feature block?
Norbert [Freitag, 22. November 2019 10:22]
sorry, nee, das gefällt mir überhaupt nicht!!
Einmal schon nicht weg...
Andreas Kohlbecker
02:07 PM feature request #8686 (Resolved): Support CdmLink sources in bibliography
**Note**: The links to the taxa are having a fragment which directly focuses on the "Aggregation Description"
As ...
Andreas Kohlbecker
02:03 PM feature request #8686: Support CdmLink sources in bibliography
Andreas Müller wrote:
> Support for link to taxa has been added in #8724. So we need to check or implement that also...
Andreas Kohlbecker
01:04 PM bug #8687: Description page must show all DescriptionElement subclasses
Assigning AK because it is a dataportal ticket Patrick Plitzner
01:02 PM feature request #8655 (Duplicate): Handle duplicates in term tree editor
Patrick Plitzner
12:47 PM bug #7994 (Resolved): Implement allowDuplicates for term trees in TaxEditor
Patrick Plitzner
09:54 AM bug #7994 (In Progress): Implement allowDuplicates for term trees in TaxEditor
Patrick Plitzner
12:46 PM feature request #8474 (Resolved): Make TermCollection.orderRelevant usable for TermTrees
Patrick Plitzner
09:54 AM feature request #8474 (In Progress): Make TermCollection.orderRelevant usable for TermTrees
Patrick Plitzner
12:44 PM feature request #8476 (Resolved): Implement support for TermCollection.isFlat in TaxEditor
Patrick Plitzner
12:42 PM feature request #8477 (Resolved): Implement support for TermCollection.allowDuplicates in TaxEditor
Patrick Plitzner
09:54 AM feature request #8477 (In Progress): Implement support for TermCollection.allowDuplicates in TaxE...
Patrick Plitzner
08:52 AM bug #8767 (New): Change Synonym to Misapplied Name handles publish flag not correctly
When changing an unpublished synonym to a MAN aftwards the MAN is published. This is not correct. The publish flag sh... Andreas Müller

12/12/2019

06:11 PM bug #8718 (Closed): polytomousKey page: better handling of invalid uuids
"Named area" is the term being used in general in the dataportal, but this is another issue - closing this ticket. Andreas Kohlbecker
06:00 PM bug #8718 (Feedback): polytomousKey page: better handling of invalid uuids
Yes it seems to work now.
Only minor issue: instead of Named Area we could say simply "Area". Named area is a bit ...
Andreas Müller
06:07 PM feature request #8758: Aggregated Descriptions: order states by frequency
please review or pass to someone else of the additivity team. Andreas Kohlbecker
06:06 PM feature request #8758 (Resolved): Aggregated Descriptions: order states by frequency
Applied in changeset commit:cdm-dataportal|4c9d7e324d3c0e2795465c774284abb0704c7e7c. Andreas Kohlbecker
03:56 PM bug #8765 (Resolved): defined weight for feature and pseudo feature blocks and position "Descript...
This is now implemented for all pseudo feature blocks. The position of the blocks can be configured in the setting in... Andreas Kohlbecker
03:45 PM bug #8765 (Resolved): defined weight for feature and pseudo feature blocks and position "Descript...
*recovery from accidentally deleted previous ticket #8658*
----
copied from #8596#note-8
* weight value for ...
Andreas Kohlbecker
02:47 PM bug #8313 (Resolved): Multiple categorical data get deleted when clicked on in Character Matrix
Patrick Plitzner
01:15 PM bug #8764 (New): moving subtree results in NPE
Moving a subtree in character editor results in NullPointerException.
This problem again comes with null values in...
Katja Luther
11:28 AM bug #8735 (Duplicate): Character Node Editor: allow line breaks at slashes in structure represent...
Andreas Müller
10:52 AM task #8716: Configure taxeditor to run with GTK2 in linux
Andreas Kohlbecker wrote:
> Patrick Plitzner wrote:
> > On my home desktop PC with Linux Mint, Cinnamon desktop I h...
Patrick Plitzner
10:12 AM task #8716: Configure taxeditor to run with GTK2 in linux
Patrick Plitzner wrote:
> On my home desktop PC with Linux Mint, Cinnamon desktop I have no problems but I also did ...
Andreas Kohlbecker
10:26 AM bug #8511: The structure path in the character details view should have a line break
please also close the duplicate if this issue is fixed Patrick Plitzner
10:25 AM bug #8511 (Resolved): The structure path in the character details view should have a line break
Applied in changeset commit:taxeditor|f8139f49d666289b10c06aa59d09986adebfe258. Patrick Plitzner
10:17 AM bug #8511: The structure path in the character details view should have a line break
This issue has a duplicate #8735
please see this ticket for ideas on handling this issue
Andreas Kohlbecker
09:18 AM bug #8511 (In Progress): The structure path in the character details view should have a line break
Patrick Plitzner
10:04 AM bug #8757 (Closed): ArrayIndexOutOfBoundsException in term combo
Seems to work as expected. Andreas Müller
09:41 AM feature request #8756 (Feedback): Refresh button for structure tree and property tree in Characte...
It does not work. I changed the order of the properties tree in demo bupleurum 01. After saving an pushing refresh bu... Andreas Müller

12/11/2019

09:54 PM bug #8511: The structure path in the character details view should have a line break
.. and this is probably a no-brainer? Andreas Müller
09:52 PM bug #8338: Newly created structural modifier terms are not available in details view
This is also a bit annoying, therefore I move it to 5.12 in case time is there to fix it. Andreas Müller
06:19 PM bug #8736 (Resolved): LazyInitializationException (LIE) during adding Specimens to Matrix Editor
Applied in changeset commit:cdmlib|9e89976076d8a735426f40e4cebb49c42bd5ab33. Patrick Plitzner
06:09 PM feature request #8688: Make OriginalSourceBase.cdmSource visible in TaxEditor
Current implementation shows the titleCache if it is an IdentifiableEntity. It shows the UUID if it is a CdmBase. Oth... Patrick Plitzner
06:08 PM feature request #8688 (Resolved): Make OriginalSourceBase.cdmSource visible in TaxEditor
Applied in changeset commit:taxeditor|5d945a6ece2394f970845815a0dc7f08bb70e1b4. Patrick Plitzner
05:43 PM task #8716 (Feedback): Configure taxeditor to run with GTK2 in linux
On my home desktop PC with Linux Mint, Cinnamon desktop I have no problems but I also did not have any problems befor... Patrick Plitzner
05:26 PM feature request #8044: Add "Move to..." menu to term editor
This is not not experimental anymore.
Known issues when reviewing:
* It is still possible to select multiple te...
Patrick Plitzner
05:25 PM bug #8763 (Duplicate): Remaining issues for "Move term" in term editor
Known issues:
* ~~It is still possible to select multiple terms in the term search dialog but a warning will appea...
Patrick Plitzner
05:07 PM feature request #8755: Show all structure/property trees in CharacterEditor
Andreas Müller wrote:
> We tested intensively today during the integrated taxonomy course. It worked fine.
>
> 2 ...
Patrick Plitzner
12:36 PM feature request #8755 (Feedback): Show all structure/property trees in CharacterEditor
I am passing this ticket to you since the questions in comment 3 are addressed to the implementer. Andreas Kohlbecker
03:36 PM feature request #8762 (New): [DISCUSS] Do we need/want to report a count for missing data in aggr...
... for reasons why this could be useful see #8759#note-4 Andreas Müller
03:33 PM feature request #8759: Description aggregation : suppress state present when more details are ava...
This case usually is dirty or incomplete data. Dirty data should be shown on the portal to make it findable (correcta... Andreas Müller
03:00 PM feature request #8759 (Feedback): Description aggregation : suppress state present when more deta...
I adapted the description to avoid misunderstandings
In your comment you seem to suggest to show the following si...
Andreas Kohlbecker
02:43 PM feature request #8759: Description aggregation : suppress state present when more details are ava...
No this is a misunderstanding. The requirement is:
Do not show character and value for characters of property pres...
Andreas Müller
01:19 PM feature request #8759: Description aggregation : suppress state present when more details are ava...
This should be handled already during the aggregation process. Andreas Kohlbecker
01:18 PM feature request #8759 (Resolved): Description aggregation : suppress state present when more deta...
In character trees frequently a parent character is being used to determine the presence or absence of subordinate ch... Andreas Kohlbecker
03:17 PM bug #8718 (Resolved): polytomousKey page: better handling of invalid uuids
Andreas Müller wrote:
> Instead of saying "page not found" can't we do the same as for taxa and say "xxx does not ex...
Andreas Kohlbecker
02:49 PM bug #8718 (Feedback): polytomousKey page: better handling of invalid uuids
Instead of saying "page not found" can't we do the same as for taxa and say "xxx does not exist". This sounds a bit m... Andreas Müller
02:41 PM bug #8718: polytomousKey page: better handling of invalid uuids
done
please review I you have time to:
http://test.e-taxonomy.eu/dataportal/preview/cichorieae/cdm_dataportal/n...
Andreas Kohlbecker
01:58 PM bug #8718 (Resolved): polytomousKey page: better handling of invalid uuids
Applied in changeset commit:cdm-dataportal|4d9660ef5a78a9d741385db13549716889ceabb1. Andreas Kohlbecker
02:24 PM feature request #8756 (Resolved): Refresh button for structure tree and property tree in Characte...
Applied in changeset commit:taxeditor|a0f4664b4135fac8549cf6a0b0836acb248abbb8. Patrick Plitzner
01:46 PM feature request #8756 (In Progress): Refresh button for structure tree and property tree in Chara...
Patrick Plitzner
02:13 PM feature request #8761 (New): Remove TaxonName_NomenclaturalStatus MN table
As a status belongs always to exactly 1 name an MN table is not necessary Andreas Müller
01:41 PM bug #8760 (New): No provider für Molecular Data
Hallo,
mir ist auf http://test.e-taxonomy.eu/dataportal/preview/campanulaceae/cdm_dataportal/taxon/48249487-e921...
Patrick Plitzner
01:10 PM feature request #8758 (Closed): Aggregated Descriptions: order states by frequency
Most frequent states should be displayed first.
Another option to order the stated would be the term order as defi...
Andreas Kohlbecker
10:36 AM bug #8757 (Resolved): ArrayIndexOutOfBoundsException in term combo
Katja Luther
10:34 AM bug #8757 (Closed): ArrayIndexOutOfBoundsException in term combo
… im Details View, beim Versuch Leaf length über Facts View einzugeben. Leaf length hat recommendedMeasurementUnit „... Katja Luther

12/10/2019

11:56 PM feature request #8028: DISCUSS better representation of web app media in the image gallery
AM:
Grundsätzlich sollten wir zwischen wirklichen Media und ExternalLinks unterscheiden. Das sind 2 Dinge, Media k...
Andreas Müller
05:25 PM feature request #8028 (New): DISCUSS better representation of web app media in the image gallery
Andreas Kohlbecker
05:24 PM feature request #8028: DISCUSS better representation of web app media in the image gallery
Alternative suggestion from Walter [06.12.19]:
Am wichtigsten wäre es mir, den grauen Kasten loszuwerden (das find...
Andreas Kohlbecker
06:57 PM feature request #8755: Show all structure/property trees in CharacterEditor
We tested intensively today during the integrated taxonomy course. It worked fine.
2 questions:
1) with the cu...
Andreas Müller
06:57 PM feature request #8756: Refresh button for structure tree and property tree in Character Editor
I assigned this to KL for now. PP if you think it is a no-brainer and you can immediately do it please feel free to t... Andreas Müller
06:55 PM feature request #8756 (Resolved): Refresh button for structure tree and property tree in Characte...
copied from #8755, explanations see there Andreas Müller
05:36 PM task #8741 (Closed): Create test for MapServices to test if they support https
done, see https://dev.e-taxonomy.eu/gitweb/edit-map-service-test.git/commit/9603e65de34cde146ba1020f0ed5e1290bf558c7 Andreas Kohlbecker
11:00 AM bug #8747: Matrix Editor: Can not unset categorical data
Sorry, but I consider the priority of this ticket here as being much higher than the priority of #8755. #8755 does no... Andreas Kohlbecker
09:59 AM bug #8747 (New): Matrix Editor: Can not unset categorical data
This should be done sooner or later but it has not highest priority so not a task for PP anymore. Change user and ver... Andreas Müller
09:15 AM bug #8747 (In Progress): Matrix Editor: Can not unset categorical data
Please change it so that checkbox state is toggled each time when being clicked. Andreas Kohlbecker

12/09/2019

06:16 PM feature request #8755 (Resolved): Show all structure/property trees in CharacterEditor
Applied in changeset commit:taxeditor|6803fca4a0c8065b5c4227de7ee853b7969e5332. Patrick Plitzner
03:55 PM feature request #8755 (Closed): Show all structure/property trees in CharacterEditor
Currently you can only choose one tree for each term type Patrick Plitzner
04:08 PM bug #8663 (Feedback): LIE when trying to save a tree node
I cannot reproduce this. I also tested saving some changes for this character tree on rem_conf_am.
If you cannot r...
Patrick Plitzner
01:38 PM bug #8663 (New): LIE when trying to save a tree node
No this is not a duplicate. It looks like it happened in the term tree editor, not in the Character editor. Andreas Müller
12:57 PM bug #8663 (In Progress): LIE when trying to save a tree node
Is this a duplicate for 8744? Andreas Müller
04:03 PM bug #8747 (Feedback): Matrix Editor: Can not unset categorical data
Andreas Kohlbecker wrote:
> I don't consider this as user friendly. Is this default behavior of the nattable?
>
>...
Patrick Plitzner
03:27 PM bug #8748 (Resolved): Supported state vocabularies should be ordered
This should be fixed now, please review. Katja Luther
12:51 PM bug #8748: Supported state vocabularies should be ordered
This is handled by KL as far as I know. Andreas Müller
01:59 PM bug #8746: Multiple representations problem on saving Matrix Editor
Is this reproducable? Otherwise I would close this ticket because MRE occurr everywhere from time to time. Andreas Müller
01:30 PM feature request #8656 (Resolved): [DISCUSS] Should only characters be allowed for DescriptiveData...
Andreas Müller
01:19 PM bug #7990: Moving a feature via d&d does not make the Feature Tree Editor dirty
In general the feature tree editor should persist data only after pushing save and therefore needs to be refactored. ... Andreas Müller
01:03 PM bug #7994: Implement allowDuplicates for term trees in TaxEditor
There is a flag now for term trees which defines if duplicates are allowed: "allowDuplicates"
But the according fu...
Andreas Müller
12:42 PM feature request #7701 (Resolved): Add link to typified name on specimen page of data portal
So I put this to resolved in current milestone so it can be reviewed. Please change back if not yet solved. Andreas Müller
12:40 PM feature request #7701: Add link to typified name on specimen page of data portal
maybe this is already solved Katja Luther

12/07/2019

06:11 PM bug #8312 (In Progress): Test, fix, improve and run Transmission engine for E+M
Andreas Müller
06:07 PM feature request #6352 (Duplicate): Add Transmission Engine trigger to Admin menu
Andreas Müller

12/06/2019

10:04 PM bug #8754 (Resolved): DescriptionElements are not deleted with the Descriptive Data Set
Based on the dump and situation in #8752:
* deleted both descriptive datasets
* delete the Character trees (for p...
Andreas Kohlbecker
09:53 PM bug #8753 (Closed): EagerLoadingException on opening Character Tree Editor after deleting all Des...
Based on the dump and situation in #8752:
* deleted both descriptive datasets
* Immediately open the Character T...
Andreas Kohlbecker
09:44 PM bug #8752 (Worksforme): Matrix Editor: Can fail showing all SpecimenDescriptions in the dataset
It seems as if the DescriptiveDataset has been corrupted somehow.
1. I removed all "specimens" from the matrix at ...
Andreas Kohlbecker
06:19 PM bug #8747 (New): Matrix Editor: Can not unset categorical data
I don't consider this as user friendly. Is this default behavior of the nattable?
Since there are check boxes in t...
Andreas Kohlbecker
12:21 PM bug #8747 (Resolved): Matrix Editor: Can not unset categorical data
You have to hold CTRL and select the chosen state again to de-select. Patrick Plitzner
06:16 PM bug #8746: Multiple representations problem on saving Matrix Editor
Patrick Plitzner wrote:
> Did you just enter categorical and quantitative data?
> Did you only enter data for this...
Andreas Kohlbecker
12:23 PM bug #8746 (Feedback): Multiple representations problem on saving Matrix Editor
Did you just enter categorical and quantitative data?
Did you only enter data for this one specimen?
Did you edit a...
Patrick Plitzner
03:44 PM bug #8744 (Resolved): LazyInitializationException (LIE) saving the Character Editor
This seems to be fixed now by using merge(). We still have to have a look at TermTreeEditor which currently still use... Patrick Plitzner
02:05 PM bug #8744: LazyInitializationException (LIE) saving the Character Editor
hmm, it does not really seem to be the problem, but I found that there seems no session to be defined
![](picture1...
Andreas Müller
01:25 PM bug #8744: LazyInitializationException (LIE) saving the Character Editor
After changing the users such that only 1 user was attached to all data like TermRelation, DefinedTermBase, TermVocab... Andreas Müller
01:13 PM bug #8744: LazyInitializationException (LIE) saving the Character Editor
We need to test the behavior if data is edited with different users, it seems like at least one user (former user - u... Andreas Müller
01:11 PM bug #8744: LazyInitializationException (LIE) saving the Character Editor
I do not understand how we can have a LIE within a save. With save all objects should be within the session by Merge.... Andreas Müller
03:42 PM bug #8751 (Rejected): Replace saveOrUpdate() in AbstractTermTreeEditor
Unexpectedly saveOrUpdate() is used instead of merge().
Currently, if you change to merge() an exception is thrown...
Patrick Plitzner
01:41 PM feature request #8750 (New): Write tests for service layer methods getting the specimens for an a...
The service method for getting all specimen for an associated taxon needs tests:
The method should return all spec...
Katja Luther
01:18 PM bug #8748 (In Progress): Supported state vocabularies should be ordered
Now there is a filter for the combo boxes. Katja Luther
11:17 AM bug #8748 (Closed): Supported state vocabularies should be ordered
For characters there is a long list of state vocabularies now. Therefore they are difficult to find in the dropdown. ... Andreas Müller
01:17 PM feature request #8749 (Duplicate): Add proposalProvider to AbstractComboElement
Katja Luther
01:15 PM feature request #8749 (Closed): Add proposalProvider to AbstractComboElement
To provide the filter to all combo elements add the proposalProvider to the AbstractComboElement.
This is used for...
Katja Luther
11:59 AM feature request #7071: Reenable restore functionality
Idea:
* After CdmStore has connected invoke "open Part" command on saved editors.
* EditorInput/UUID can be sav...
Patrick Plitzner

12/05/2019

05:20 PM bug #8747 (New): Matrix Editor: Can not unset categorical data
Once categorical data state has been set in a cell this cell can not be made blank Andreas Kohlbecker
05:01 PM bug #8744 (In Progress): LazyInitializationException (LIE) saving the Character Editor
Patrick Plitzner
04:59 PM bug #8744 (Resolved): LazyInitializationException (LIE) saving the Character Editor
Applied in changeset commit:taxeditor|5fa6172961481d22d6282abc10b4c350fe1c8bce. Patrick Plitzner
04:38 PM bug #8746 (Rejected): Multiple representations problem on saving Matrix Editor

we did several edits in the matrix for multiple specimens.
Last edit was setting the the state for leave architect...
Andreas Kohlbecker
04:33 PM bug #8745 (Resolved): Type designations of synonyms missing on specimen page
please review Katja Luther
04:31 PM bug #8745 (Closed): Type designations of synonyms missing on specimen page
Type designations of synonyms are missing in the compressed specimen page.
mail NK:
Es geht darum, dass von den...
Katja Luther
02:20 PM feature request #8677 (In Progress): Add distribution aggregation to set subtree menu
Open issues:
* ~~highest rank should include the rank of the selected taxon~~
* ~~lowest rank should inlcude th...
Andreas Müller

12/04/2019

10:40 PM bug #6629 (Closed): TransmissionEngineDistribution misses aggregating Uzebkistan (UZB-OO) to high...
NK: Ist jetzt OK. Andreas Müller
02:34 PM bug #6629 (Resolved): TransmissionEngineDistribution misses aggregating Uzebkistan (UZB-OO) to hi...
For Acanthoscephalus, Heteroderis, Crepis and Lagoseriopsis the aggregation seems to work now. For Cichorium intybus ... Andreas Müller
06:57 PM bug #8744 (Closed): LazyInitializationException (LIE) saving the Character Editor
saving the Character Editor after changing the Character Node details causes an LazyInitializationException every tim... Andreas Kohlbecker
05:29 PM bug #8743 (New): BioCASE specimen import: ignore invalid biocase accesspoint urls
This is especially important for the DNA import. If an URL is specified which is not pointing to a BioCase provider t... Andreas Kohlbecker
02:50 PM feature request #8742 (New): Allow deleting vocabularies
Currently it is not possible to delete a vocabulary if it contains terms.
With OWL import (additivity) it is now pos...
Andreas Müller
10:12 AM task #8741 (Closed): Create test for MapServices to test if they support https
This especially tests if the existing certificate is still valid. Andreas Müller

12/03/2019

06:37 PM feature request #8721: Use webservice to get all biocase provider listed by gbif
I agree with the above. Maybe the title is enough. Users usually recognize a collection by its title not it's service... Andreas Müller
06:24 PM feature request #8721: Use webservice to get all biocase provider listed by gbif
The access points should be searchable also by the accesspoint title, For the BGBM Herbarium the webservice lists th... Andreas Kohlbecker
06:32 PM feature request #8740 (New): BioCASE specimen import: implement data set filter in specimen impor...
once an access point has been selected in the fist step it should be possible to limit the search to a specific data ... Andreas Kohlbecker
04:35 PM feature request #8657: Order description element in portal according to CharacterTree
Can you provide an example url? Andreas Müller
12:14 PM feature request #8657: Order description element in portal according to CharacterTree
Assignin to you Andreas M.
But maybe also Andreas K. needs to look at the code
Patrick Plitzner
03:15 PM feature request #8713 (Resolved): Improve structured descriptive data aggregation
At least tests exist now and also base class algorithm is used. Can you please review and put open issues into a foll... Andreas Müller
02:15 PM bug #8670: Unwanted distribution aggregation/display on 2 levels
Auch hier bitte einen letzten Check ob noch was offen ist.
Anschließend können wir das Ticket schließen.
Andreas Müller
02:14 PM bug #4134: Transmissionengine Distribution seems to miss distributions for higher Taxa
I think this is fully fixed with the new implementation of the transmission engine (which allows the user to decide t... Andreas Müller
02:08 PM feature request #5176 (Closed): TransmissionEngineDistribution can run on selected taxa
This should be fully fixed. As it has been used already and also a TaxEditor UI for using it has been developped I cl... Andreas Müller
01:49 PM feature request #8472 (Closed): Transmission engine for distribution aggregation needs to be adap...
Andreas Müller
01:41 PM task #8468 (Closed): Remove old InapplicableIf tables
Andreas Müller
01:40 PM bug #8738 (Closed): CdmLink.startPos and .endPos should allow Null
Andreas Müller
01:40 PM bug #8702 (Closed): Remove Not null constraint for uuid in AUD tables
Andreas Müller
12:21 PM feature request #8714: description page: Show multiple datasets per description as list of links
To review you would have to manually add a description to multiple datasets in the database. There is no test data li... Patrick Plitzner
12:19 PM feature request #8595: Create description detail page
created new ticket for remaining issues and discussion -> #8739
Patrick Plitzner
12:17 PM bug #8739 (Closed): remaining issues for description detail page
Copied from #8595
* Evtl. will man auf aggr. Description von höheren Taxa nicht die Specimen als Quellen anzeigen,...
Patrick Plitzner

12/02/2019

12:31 PM feature request #8433 (Duplicate): Disallow user names with whitespace
This is a duplicate for #8454 and has been fixed in CDM UML 5.8 Andreas Müller
12:26 PM task #8468 (Resolved): Remove old InapplicableIf tables
Applied in changeset commit:cdmlib|73391892ccf6af23d1f83357e460ea9b55df4e2d. Andreas Müller
12:12 PM bug #8702 (Resolved): Remove Not null constraint for uuid in AUD tables
Andreas Müller
12:12 PM bug #8738 (Resolved): CdmLink.startPos and .endPos should allow Null
Andreas Müller
10:55 AM bug #8738 (Closed): CdmLink.startPos and .endPos should allow Null
The table was IntextReference before. After using it for class CdmLinkSource also the originally NOT NULL columns mus... Andreas Müller
11:32 AM bug #8737 (Resolved): delete taxon included in two classifications deletes taxonname
Now there is also the possibility to set the taxonnode configurator to deletetaxon = false. This was missing in the d... Katja Luther
09:42 AM bug #8737: delete taxon included in two classifications deletes taxonname
please review. Katja Luther
09:35 AM bug #8737 (Closed): delete taxon included in two classifications deletes taxonname
when deleting a taxon used in two classifications, the taxon still exist, but the name is deleted. This is because of... Katja Luther
10:35 AM bug #8733: Descriptive data set: Specimens of a newly added taxon are not listed in Select Specim...
This ticket is complex. In the ticket description is not written HOW the taxon is added. In general the underlying se... Andreas Müller
08:24 AM bug #8733 (Feedback): Descriptive data set: Specimens of a newly added taxon are not listed in Se...
Currently the specimens listed in the specimen selection dialog are cached after the first time opening the dialog be... Patrick Plitzner
08:40 AM feature request #8665 (Resolved): Rename "New" to "New Tree" in Term Tree editors
Applied in changeset commit:taxeditor|210af90ccae0c45e1234bdb8fe216285293546c6. Patrick Plitzner
08:37 AM bug #8732 (Duplicate): Descriptive Data Set Navigator: label not refreshed after change in Descri...
This is already solved for release 5.12 with #8661
Please validate with the current nightly build.
Patrick Plitzner
 

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