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From 11/10/2019 to 12/09/2019

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 DescriptiveDataSets/Character Matrix?
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 Desciptive Data Sets
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 (Duplicate): 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 assiociated taxon
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 higher rank levels
NK: Ist jetzt OK. Andreas Müller
02:34 PM bug #6629 (Resolved): TransmissionEngineDistribution misses aggregating Uzebkistan (UZB-OO) to higher rank levels
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 import dialog page 2
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 adapted to new DescriptionBase.types
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 Specimen dialog of the matrix editor
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 Select Specimen dialog of the matrix editor
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 Descriptive Dataset Editor
This is already solved for release 5.12 with #8661
Please validate with the current nightly build.
Patrick Plitzner

11/29/2019

05:17 PM bug #8736 (Closed): LazyInitializationException (LIE) during adding Specimens to Matrix Editor
To reproduce:
* use database: caryophyllales_spp (cactaceae)
* create new Descriptive Dataset (non specimens so f...
Andreas Kohlbecker
04:09 PM task #7976 (In Progress): [PESI][ERMS] Erms taxon import
Andreas Müller
04:09 PM task #8509 (In Progress): [PESI][ERMS] Export ERMS data to PESI
Andreas Müller
04:06 PM task #8577 (In Progress): [PESI][E+M] Validation for E+M export
Andreas Müller
03:35 PM bug #8735 (Duplicate): Character Node Editor: allow line breaks at slashes in structure representation

The line wrapping does not work for long structure representation. Breaks only happen where the term labels contain...
Andreas Kohlbecker
11:28 AM task #8734 (Closed): Update distributions from TDWG-L4 to TDWG-L3 where L4=L3
Andreas Müller
10:34 AM task #8734 (In Progress): Update distributions from TDWG-L4 to TDWG-L3 where L4=L3
SQL to use
~~~
UPDATE DescriptionElementBase deb
INNER JOIN DefinedTermBase a ON deb.area_id = a.id
INNER JOIN ...
Andreas Müller
10:33 AM task #8734 (Closed): Update distributions from TDWG-L4 to TDWG-L3 where L4=L3
This will shorten the textuell representations of distribution data in the data portal Andreas Müller
01:49 AM bug #8731 (Resolved): BioCase Specimenimport: empty result list and SWTException:Invalid thread access in search results
now it works again with the nightly build. Katja Luther
12:47 AM bug #8731 (In Progress): BioCase Specimenimport: empty result list and SWTException:Invalid thread access in search results
This is strange, I can not reproduce this with an editor started from the workspace, also when using the actual git d... Katja Luther

11/28/2019

06:57 PM bug #8733 (Closed): Descriptive data set: Specimens of a newly added taxon are not listed in Select Specimen dialog of the matrix editor
to reproduce
1. create Descriptive data set in caryophyllales_spp
* adding *Rhipsalis pilocarpa* by drag and dro...
Andreas Kohlbecker
06:33 PM bug #8732 (Duplicate): Descriptive Data Set Navigator: label not refreshed after change in Descriptive Dataset Editor
just exactly what is written in the subject.
Andreas Kohlbecker
03:45 PM bug #8731: BioCase Specimenimport: empty result list and SWTException:Invalid thread access in search results
An import of specimens is not possible wit the current code base in the development branch. Andreas Kohlbecker
03:40 PM bug #8731 (Closed): BioCase Specimenimport: empty result list and SWTException:Invalid thread access in search results
I am not sure about the timing of the situation in which this exception occurred.
I was searching the `http://ww3....
Andreas Kohlbecker
03:23 PM bug #8730 (New): OWL Term export progress monitor reports wrong process percentage
The initial percentage is really funny:
![](picture396-1.png)
Andreas Kohlbecker
12:29 PM bug #8720: blank perspective after using "Switch User"
the perspective looked like this:
![](picture283-1.png)
today is the first day this is not happening for quite ...
Andreas Kohlbecker
12:05 PM bug #8720: blank perspective after using "Switch User"
I am not sure if I fully understand the problem. When I try to change the user I get the "Taxonomic" perspective but ... Andreas Müller
11:51 AM bug #8729: Refresh Taxon Navigator after Specimen import
Seems to be very similar to #8659. So we may think about putting it also to 5.12. Katja, what do you think? Andreas Müller
10:54 AM bug #8729 (New): Refresh Taxon Navigator after Specimen import
After a successful specimen import vi BioCASE Provider the Taxon Navigator is not being refreshed.
New created Clas...
Andreas Kohlbecker
09:34 AM bug #8728: Specimen import via BioCASE silently fails
Andreas Kohlbecker wrote:
> The problem in one specific case was that the user was not permitted to update a person:...
Andreas Müller
09:26 AM bug #8728: Specimen import via BioCASE silently fails
Next Problem:
~~~
[CREATE] not permitted for 'kurs1' on TaxonNode[uuid:79c3deac-ee1d-4622-91fa-746be0894161', toS...
Andreas Kohlbecker
08:51 AM bug #8728: Specimen import via BioCASE silently fails
The problem in one specific case was that the user was not permitted to update a person:
~~~
[UPDATE] not permitt...
Andreas Kohlbecker

11/27/2019

04:42 PM bug #8728: Specimen import via BioCASE silently fails
As the import works without problems with the `admin` user, it seems as if this is a permission problem.
@Katja: 1...
Andreas Kohlbecker
04:24 PM bug #8728: Specimen import via BioCASE silently fails
this is reproducible
once this error has occurred the taxeditor has to be restarted, otherwise further import atte...
Andreas Kohlbecker
04:15 PM bug #8728 (New): Specimen import via BioCASE silently fails
ABCD Specimen import via BioCASE provider silently fails
Logged in as user with GAs: `Editor` + `TAXONNODE.[CREATE...
Andreas Kohlbecker
03:39 PM EDIT Platform Etablierung task #8727 (In Progress): Test Workshop workflow
Andreas Kohlbecker
03:21 PM EDIT Platform Etablierung task #8727 (Closed): Test Workshop workflow
**Use the simple editor user accounts: kurs1..5**
The section of taxa to test the workflow with is based in the ...
Andreas Kohlbecker
02:39 PM feature request #8686: Support CdmLink sources in bibliography
Further more there is a discussion if links to taxa should be direct links from the description(element) to the taxon... Andreas Müller
02:38 PM feature request #8686: Support CdmLink sources in bibliography
Support for link to taxa has been added in #8724. So we need to check or implement that also links to taxa are handle... Andreas Müller
02:36 PM feature request #8724 (Resolved): Allow OriginalSource to link to Taxon
Andreas Müller
02:25 PM feature request #8724 (Closed): Allow OriginalSource to link to Taxon
When aggregating (or moving) data one may want to link to the taxon the data originally comes from so we need a possi... Andreas Müller
02:35 PM feature request #8726 (New): the search preference search field should be a list
The preference defining the search field should be not a single value, but a list of fields on which the seach should... Katja Luther
02:34 PM feature request #8725 (Feedback): Add abbreviation to namedArea text field in distribution details view
Some named areas have the same label therefore it would be nice to show an abbreviation like idInVoc. This should be ... Katja Luther
09:41 AM feature request #8721 (In Progress): Use webservice to get all biocase provider listed by gbif
The prefilled combo and the filtering for entered text is implemented in the specimen dialog now. Katja Luther
09:11 AM bug #8723 (Worksforme): Distribution detailsview: changing the area removes the state
When changing the area of a distribution the status is not displayed anymore. But the distribution still has the stat... Katja Luther

11/26/2019

04:09 PM EDIT Platform Etablierung task #8722 (Closed): Provide Manuals and Dokumentation for the Kurs „Integrated Taxonomy“ WiSe 2019/20
Documentation needed for the Kurs:
* Matrix-Editor manual - is being prepared ...
* List of user accounts for dem...
Andreas Kohlbecker
03:59 PM EDIT Platform Etablierung task #8712 (Closed): Kurs "Integrated Taxonomy" : prepare setup for workshop computers
Andreas Kohlbecker
02:53 PM feature request #8721 (Closed): Use webservice to get all biocase provider listed by gbif
For the specimen search it would be nice to have a list of all biocase provider. (Jörg provided us a webservice)
W...
Katja Luther
10:43 AM bug #8720 (New): blank perspective after using "Switch User"
When switching the user *General > Switch User* all views and editors are closed, making the perspective blank. After... Andreas Kohlbecker
09:19 AM bug #8719 (Resolved): installation profile 'CDM_Portal' causes Integrity constraint violation: 1048 Column 'pages' cannot be null
Applied in changeset commit:cdm-dataportal|56d39875a598bad7e9c7591d5436b0ac63160cae. Andreas Kohlbecker
08:23 AM bug #8719 (Closed): installation profile 'CDM_Portal' causes Integrity constraint violation: 1048 Column 'pages' cannot be null
this bug has been discovered in the process of automatic creation of workshop servers (`server-scripts/workshop-setup... Andreas Kohlbecker

11/25/2019

02:51 PM feature request #8460: Show examples in text field
Try to implement a base functionality.
This is already implemented in taxon search.
Andreas Müller

11/22/2019

01:27 PM bug #8718: polytomousKey page: better handling of invalid uuids
Patrick, this is relevant for additivity (currently PKs get a new uuid with every generation) so we may think about m... Andreas Müller
12:53 PM bug #8718 (Closed): polytomousKey page: better handling of invalid uuids
ich habe gerade gesehen, dass ein PolyKey, wenn dessen uuid nicht stimmt unschöne Fehler schmeißt:
http://test.e-t...
Andreas Kohlbecker

11/21/2019

04:16 PM task #8716 (Resolved): Configure taxeditor to run with GTK2 in linux
please report if you are having any problems due to the switch to GTK2 Andreas Kohlbecker
04:09 PM task #8716: Configure taxeditor to run with GTK2 in linux
Andreas Kohlbecker wrote:
> as documented in https://wiki.eclipse.org/SWT/Devel/Gtk/GtkVersion the gtk version can b...
Andreas Kohlbecker
04:03 PM task #8716 (In Progress): Configure taxeditor to run with GTK2 in linux
as documented in https://wiki.eclipse.org/SWT/Devel/Gtk/GtkVersion the gtk version can be set via
~~~
--launcher...
Andreas Kohlbecker
01:12 PM task #8716 (Closed): Configure taxeditor to run with GTK2 in linux
Der Taxeditor verwendet SWT in der Version 3.105.3.v20170228-0512 (Id: org.eclipse.swt, Version: 3.105.3.v20170228-05... Andreas Kohlbecker
03:58 PM bug #8717 (New): Improve display of PolytomousKey nodes which have a feature
If a PKN has a feature and not a statement it is repeated multiple times for the child alternatives. A better layout ... Andreas Müller
03:29 PM bug #8313 (Feedback): Multiple categorical data get deleted when clicked on in Character Matrix
Reopen as it happens again.
How to reproduce: in any categorical cell select 2 states. Leafe the cell (it shows bo...
Andreas Müller
03:21 PM feature request #8714 (Resolved): description page: Show multiple datasets per description as list of links
Applied in changeset commit:cdm-dataportal|cf89f7e20f7cbd623d7d373bbf9061003f175179. Patrick Plitzner
11:42 AM feature request #8714 (Resolved): description page: Show multiple datasets per description as list of links
A description can have multiple descriptive data sets. These define which features are displayed and in which order.
...
Patrick Plitzner
02:38 PM feature request #8595 (Resolved): Create description detail page
Patrick Plitzner
12:35 PM task #8468 (In Progress): Remove old InapplicableIf tables
Andreas Müller
12:21 PM feature request #8715: Make 'delete Taxonnode' a lonrunning task
Deleting nodes can take some time and results in connection warnings or timeouts. This can be solved by running the d... Katja Luther
12:16 PM feature request #8715 (New): Make 'delete Taxonnode' a lonrunning task
Katja Luther
08:19 AM feature request #8713 (Closed): Improve structured descriptive data aggregation
* Tests
* Remove empty categorical data creation
* use base class algorithm from #8679
* TBC
Andreas Müller

11/20/2019

05:11 PM EDIT Platform Etablierung task #8689: Export Flora of Greece Bupleurum using Cdm2Cdm export
I change Project and milestone as it is mostly data related. Andreas Müller
03:37 PM EDIT Platform Etablierung task #8689 (Closed): Export Flora of Greece Bupleurum using Cdm2Cdm export
The data looks complete and did not cause any errors when opening the taxa in the editor.
I consider this issue as...
Andreas Kohlbecker
05:01 PM feature request #8281 (Closed): Doubtful flag for TaxonNode
E+M data updated
~~~
UPDATE TaxonNode
Set unplaced = 0, doubtful = 1
WHERE unplaced = 1
~~~
also for _AUD
Andreas Müller
05:00 PM feature request #8686 (In Progress): Support CdmLink sources in bibliography
Andreas Kohlbecker
04:51 PM EDIT Platform Etablierung task #8711 (Closed): add additivity ontologies to the bupleurum database
completed a dump is stored at edit-test:/root/cdm_test_bupleurum-2019-11-20-001.sql.bz2 Andreas Kohlbecker
01:25 PM EDIT Platform Etablierung task #8711 (Closed): add additivity ontologies to the bupleurum database
the ontology can be downloaded from https://cybertaxonomy.eu/download/data/ontology/additivity/
the characters mus...
Andreas Kohlbecker
04:24 PM feature request #8657 (Resolved): Order description element in portal according to CharacterTree
Patrick Plitzner
01:32 PM EDIT Platform Etablierung task #8712 (Closed): Kurs "Integrated Taxonomy" : prepare setup for workshop computers

* We will be using the edit-demo-2 server for the Kurs "Integrated Taxonomy"
* prepare database: - **DONE**
...
Andreas Kohlbecker
12:58 PM task #8710: Decide if sub-area Preference and/or status order preference rule
relevant code:
~~~
define('CDM_DISTRIBUTION_FILTER_DEFAULT', serialize(
array(
'filter_rules' => array(
'statu...
Andreas Müller
12:57 PM task #8710: Decide if sub-area Preference and/or status order preference rule
Probably needs discussion with users. Andreas Müller
12:56 PM task #8710 (New): Decide if sub-area Preference and/or status order preference rule
Currently they are switched of in default dataportals.
The setting can be found in the portal settings on the genera...
Andreas Müller
12:10 PM feature request #8709 (New): Show last selected name in selection dialog of name in source
mail Eckhard v. Raab-Straube:
was auch nett wäre: wenn sich der Editor bei der Auswahl des „name in source“ an die...
Katja Luther
12:05 PM feature request #8708 (Duplicate): Sort taxa in distribution editor same as in navigator
mail Eckhard v. Raab-Straube:
Hallo,
zum Verbreitungseditor:
wenn man den Verbreitungseditor von einem höher...
Katja Luther
12:03 PM feature request #8707 (New): Use NAT Table for specimen search result
The search result for the specimen search contains not all informations needed. Therefore it should be shown in a NAT... Katja Luther
11:45 AM feature request #8706 (Closed): taxeditor error report with timestamps
Wie wäre es wenn wir dem Fehlerprotokoll mal einen Timestamp spendierten? Damit wäre es leichter den Fehler einem bes... Andreas Kohlbecker
01:35 AM bug #8670 (Resolved): Unwanted distribution aggregation/display on 2 levels
Dieses Ticket hat primär mit der Kartenanzeige und nicht mit der Aggregation zu tun. Bei der Kartenanzeige gibt es di... Andreas Müller

11/19/2019

11:12 PM task #8671: Distribution in E+M (BM) on different levels
AM
Die Regel klingt erstmal sinnig und einfach. Ich habe allerdings gerade mal eine DB Abfrage gestartet, wie viel...
Andreas Müller
11:05 PM task #8671: Distribution in E+M (BM) on different levels
ERS:
die Anzeige ist so korrekt. Wenn ein Unterareal vorhanden ist, soll das höhere Areal nicht angezeigt werden, ...
Andreas Müller
05:16 PM task #8671 (In Progress): Distribution in E+M (BM) on different levels
Andreas Müller
05:38 PM bug #6629 (In Progress): TransmissionEngineDistribution misses aggregating Uzebkistan (UZB-OO) to higher rank levels
Andreas Müller
05:31 PM feature request #8661 (Closed): "New DataSet" should ask for label and then open the dataset
Works fine Andreas Müller
05:28 PM feature request #8703 (Closed): Move TermSearch and Specimen(Import)Search to editor area of taxeditor
Works fine. Thanks. Andreas Müller
02:46 PM feature request #8703 (Resolved): Move TermSearch and Specimen(Import)Search to editor area of taxeditor
Applied in changeset commit:taxeditor|0b7e08834f03d3e7ce2ea6c1f55c908a14d76758. Patrick Plitzner
02:28 PM feature request #8703 (Closed): Move TermSearch and Specimen(Import)Search to editor area of taxeditor
Patrick Plitzner
05:27 PM bug #8705 (New): While specimen are loaded from provider the specimen list in specimen search should show "loading"
to indicate that the search is not yet ready. Andreas Müller
05:25 PM feature request #8665 (Feedback): Rename "New" to "New Tree" in Term Tree editors
The problem in the ticket description is solved. Ticket can be closed.
Something I found when testing:
Can we u...
Andreas Müller
05:18 PM bug #8670 (In Progress): Unwanted distribution aggregation/display on 2 levels
Andreas Müller
05:15 PM task #8672 (In Progress): Source handling during (distribution) aggregation
Andreas Müller
04:59 PM bug #7665: ConcurrentModificationException when closing Editor
I think it happens still from time to time. Andreas Müller
04:57 PM feature request #3836 (Closed): Implement modifiers and modifying text for Description Elements in TaxEditor
I think I tested this in the context of #8226 and I think it worked. Andreas Müller
04:54 PM EDIT Platform Etablierung task #8704 (In Progress): Test specimen import via BioCase and write documentation
Andreas Kohlbecker
04:52 PM EDIT Platform Etablierung task #8704 (Closed): Test specimen import via BioCase and write documentation

**TODO:**
* test specimen import via BioCase in taxeditor - **DONE and succesful**
* documentation **DONE**
Andreas Kohlbecker
04:46 PM bug #8517 (Resolved): SpecimenOrObservation: data from protected titleCache missig in portal pages
Sorry, I was not exact in my comment. I meant to move it from DerivedUnitFacadeCacheStrategy to DerivedUnitFacadeFiel... Andreas Müller
04:18 PM EDIT Platform Etablierung report #8556 (Closed): sifting of existing documentation
Andreas Kohlbecker
04:16 PM EDIT Platform Etablierung task #8578 (Closed): Discuss and find appropriate terms for major editor parts (window, view, editor, panel, pane)
This task in complete since we have now a good naming strategy which should be acceptable for almost anybody:
"....
Andreas Kohlbecker
04:08 PM bug #8243: Cdm Cache uses a lot of disk space
The description states that the increase of diskspace usage happened in seconds "*free disk space to 100% full in sec... Andreas Kohlbecker
03:59 PM bug #8702: Remove Not null constraint for uuid in AUD tables
query in information_schema to find such columns
~~~
SELECT *
FROM COLUMNS c
WHERE c.COLUMN_NAME = 'uuid' AND ...
Andreas Müller
03:21 PM bug #8702: Remove Not null constraint for uuid in AUD tables
I updated most production DBs manually already. Andreas Müller
01:47 PM bug #8702 (Closed): Remove Not null constraint for uuid in AUD tables
Some databases do have uuid NOT NULL contraints in some _AUD tables. In caryo_spp I found the following tables with t... Andreas Müller
03:24 PM feature request #8694 (Closed): Specimen online import - Specimen Search: import button layout problem on linux KDE
perfectly solved! Andreas Kohlbecker
02:42 PM feature request #8694 (Resolved): Specimen online import - Specimen Search: import button layout problem on linux KDE
Andreas Müller
01:54 PM bug #7683: external links Audit table should allow uuid to be null
We need an update script for all cases where AUD tables still have uuid NOT NULL: #8702 Andreas Müller
12:40 PM bug #8621: Do not save empty sources
the same should be implemented for identifiers and others Katja Luther
12:32 PM bug #8701 (New): Toggle button in GBIF Specimen import does not toggle but is select all/none
Toggle usually inverts the current selection. But the toggle button in the specimen import does either select all or ... Andreas Müller
12:07 PM feature request #8700: Geofilter for DescriptiveDataSets should be used for taxon nodes AND specimens
This needs to be configurable.
One issue to solve is that specimen data often use other area vocabularies then ta...
Andreas Müller
11:27 AM feature request #8700 (New): Geofilter for DescriptiveDataSets should be used for taxon nodes AND specimens
Currently only the taxon nodes are filtered with a TaxonNodeFilter Patrick Plitzner
11:08 AM bug #8699 (New): Add menu item to accepted name to set as basionym
mail Eckhard von Raab-Struabe:
wie kann man eigentlich im Freitext-Editor den akzeptierten Namen als Basionym der ...
Katja Luther
10:30 AM feature request #8698: Sort order in status drop down of distribution editor
Es sollte auf jeden Fall neben einer alphabetischen Sortierung auch eine geben, die sich an der Sortierung im Vokabul... Andreas Müller
09:56 AM feature request #8698 (New): Sort order in status drop down of distribution editor
Mail Eckhard von Raab-Straube:
Hallo,
eine weitere Sache:
kann ich die Reihenfolge der Statusangaben im Drop...
Katja Luther
01:09 AM EDIT Platform Etablierung task #8689 (Resolved): Export Flora of Greece Bupleurum using Cdm2Cdm export
This should be ready. Database is stored at cdm_test_bupleurum on edit-test. Please review. Andreas Müller

11/18/2019

10:07 PM bug #8696 (New): ehcahe discstore conflict when using the taxeditor with multiple users on the same system
The diskstore must be created in user specific subfolders of the system temp folder.
We should consider creating a...
Andreas Kohlbecker
06:33 PM feature request #8695 (New): Specimen online import - provider selection should remember last choise
During the specimen online import the choice made in the provider selection always is reset to GBIF.
If the custom p...
Andreas Kohlbecker
05:39 PM feature request #8694 (Closed): Specimen online import - Specimen Search: import button layout problem on linux KDE
The import button seems to have a negative offset:
![](picture967-1.png)
Andreas Kohlbecker
05:36 PM feature request #8693 (New): Specimen online import - Specimen Search: show number of result items
The count of specimens which are found by BioCase search should be shown in the Specimen Search View. Andreas Kohlbecker
05:33 PM bug #8692 (New): Specimen online import is slow
Importing ~200 Specimens via Import > Specimen > Specimen online took more than one hour for about 200 specimens
*...
Andreas Kohlbecker
04:29 PM bug #6484: Include all paramaters of FindOccurrencesConfigurator in HQL query
Ok, this makes it much clearer. I will have a look if this can be implemented somehow. Andreas Müller
03:50 PM bug #6484: Include all paramaters of FindOccurrencesConfigurator in HQL query
This configurator is used in a lot of places: specimen tree editor, specimen facet search (experimental), TaxonServic... Patrick Plitzner
03:08 PM bug #6484: Include all paramaters of FindOccurrencesConfigurator in HQL query
Can you give some more information about context (specimen tree, matrix, dataportal, ...?) and other information requ... Andreas Müller
04:02 PM bug #6036: Problems with deleting type names
Is this still an open issue? Andreas Müller
04:00 PM bug #6182: Emptying protolog URI does not work
Protologues soon will be handled as OriginalSourceBase.externalLink, so not so important to fix Andreas Müller
03:58 PM bug #6585: Combo menu items have orange font
Is this still an open issue? Please also check on linux. Andreas Müller
03:56 PM feature request #6760: specimen import configuration
Is this still an open issue/duplicate/related to other tickets? Andreas Müller
03:35 PM feature request #6676: A user with READ access to taxa but WRITE access to factual data cannot update the factual view via the name editor
I think this is something you are working on anyway. Andreas Müller
03:33 PM feature request #6866: Improve specimen page
Can you please relate this ticket with other tickets on this issue (specimen page)? Andreas Müller
03:01 PM bug #6545 (Closed): [MASTER] Eclipse 4 bugs
Andreas Müller
02:52 PM bug #7512: Saving in Specimen Tree View creates unwanted scrolling on windows
Can you please test if you can reproduce? Andreas Müller
02:39 PM bug #8129 (Closed): Load images asynchronously in media details view
Andreas Müller
02:38 PM bug #8129: Load images asynchronously in media details view
There is a follow up ticket #8691 Andreas Müller
02:36 PM bug #8691 (New): Remaining issues for asynchronous image loading
see #8129 for open issues Andreas Müller
02:33 PM bug #7911 (Worksforme): Changing areas in Distribution Editor yields to wrong column labels
Is probably fixed. Andreas Müller
02:31 PM bug #7686 (Resolved): Specimen title cache issues in data portal specimen table
Please check what is still open Andreas Müller
01:55 PM feature request #4511 (Rejected): Remove white space below EntitySelectionElement
Andreas Müller
01:39 PM feature request #4484: Evaluate publish flag for derivates in data portal
There is probably a duplicate somewhere. Ticket has some importance for GBOL specimen. Andreas Müller
11:42 AM bug #1924: CIHORIEAE in-references in Footnotes
found in old Email from 2010:
----
"als Diskussionsbeitrag schicke ich auch Dir noch unsere Richtschnur für Lit...
Andreas Kohlbecker
10:40 AM feature request #8690 (New): DistributionTreeDTO and TreeNodeDTO implemented for description/distributionInfoFor/{uuid} webservice
The responses of the `/portal/description/distributionInfoFor/{uuid}` web-service can get quite huge for aggregated d... Andreas Kohlbecker
09:18 AM EDIT Platform Etablierung task #8689 (Closed): Export Flora of Greece Bupleurum using Cdm2Cdm export
Andreas Müller
12:03 AM feature request #8472: Transmission engine for distribution aggregation needs to be adapted to new DescriptionBase.types
Close only if run on cichorieae (and others?) and the tmp code removing existing "Computed" markers is not needed any... Andreas Müller
12:02 AM feature request #8472 (Resolved): Transmission engine for distribution aggregation needs to be adapted to new DescriptionBase.types
Should be fixed now. Andreas Müller

11/15/2019

10:46 PM feature request #8688: Make OriginalSourceBase.cdmSource visible in TaxEditor
Please decide who could be assignee. It would be nice to have it soon. Andreas Müller
10:46 PM feature request #8688 (Closed): Make OriginalSourceBase.cdmSource visible in TaxEditor
The field OriginalSourceBase.cdmSource is usually filled during aggregations (for now). Therefore it does not need to... Andreas Müller
10:26 PM bug #8687 (New): Description page must show all DescriptionElement subclasses
Currently it seems to show only Categorical and Quantitative Data. But one never knows what data will really come wit... Andreas Müller
10:14 PM feature request #8686 (Closed): Support CdmLink sources in bibliography
OriginalSourceBase has the new attribute cdmSource. In original source this can exist instead of citation. Currently ... Andreas Müller
03:49 PM task #8679 (In Progress): Further unify description aggregation methods
Andreas Müller
03:30 PM feature request #8677: Add distribution aggregation to set subtree menu
I updated the above list Andreas Müller
03:09 PM feature request #8677: Add distribution aggregation to set subtree menu
Katja Luther wrote:
> In #6352 the mentioned configuration is:
>
> * lowerRank - default: UnknownRank = 5c4d6755...
Andreas Müller
02:31 PM feature request #8677: Add distribution aggregation to set subtree menu
In #6352 the mentioned configuration is:
* lowerRank - default: UnknownRank = 5c4d6755-2cf6-44ca-9220-cccf8881700...
Katja Luther
01:43 PM bug #8517: SpecimenOrObservation: data from protected titleCache missig in portal pages
Andreas Müller wrote:
> This seems to work but handling the protected title cache of the **field** unit in the **der...
Andreas Kohlbecker
01:31 PM bug #8681 (In Progress): Fix sect. parsing
Andreas Müller
01:01 PM task #8651 (Closed): Unify description aggregation methods (distribution and structured descriptive data)
Andreas Müller
01:01 PM task #8651: Unify description aggregation methods (distribution and structured descriptive data)
Andreas Kohlbecker wrote:
> Andreas Müller wrote:
>
> > AK and PP as you have developed the orginal classes maybe...
Andreas Müller
12:55 PM bug #8570 (Closed): PolytomousKeyNode.otherNode missing in REST service response
Works as expected. Andreas Müller
12:43 PM bug #8622 (Closed): Missing specimen Identifier leads to empty brackets in portal
I tested the above mentioned pages and they look fine. Andreas Müller
12:10 PM bug #8685 (Closed): Exception when calling DwC-A Export
Katja Luther
12:09 PM bug #8685 (Closed): Exception when calling DwC-A Export
mail:
Dear Andreas,
I enclose the error message I get from EDIT when I try to export the data in DwC-A format.
...
Katja Luther
10:21 AM bug #8684 (Resolved): ITaxonService.findTaxaByName misses initStrategy Parameter
Applied in changeset commit:cdmlib|36a4a34fab6ca46f2d4b5c3707d55c2e2078e442. Andreas Kohlbecker
10:21 AM task #8683 (Resolved): TaxonDaoHibernateImpl.countTaxaByName rename parameter authorship authorshipCache
Applied in changeset commit:cdmlib|ca3e66ff9cd00985c5175e8a38ba8eab64063a13. Andreas Kohlbecker
09:06 AM feature request #8661 (Resolved): "New DataSet" should ask for label and then open the dataset
Applied in changeset commit:taxeditor|a61d053e67fceb35c6cfb0065d08651c09b002e6. Patrick Plitzner
08:29 AM feature request #8665 (Resolved): Rename "New" to "New Tree" in Term Tree editors
Applied in changeset commit:taxeditor|c127cb13020855f630fc93b36842e45d063997e0. Patrick Plitzner

11/14/2019

05:16 PM task #8651: Unify description aggregation methods (distribution and structured descriptive data)
Andreas Müller wrote:
> AK and PP as you have developed the orginal classes maybe you want to have a look to the n...
Andreas Kohlbecker
04:59 PM feature request #8673 (Closed): Allow OriginalSource to link to other CDM objects
works as expected Patrick Plitzner
04:52 PM bug #8676 (Closed): TaxonDaoHibernateImpl.countTaxaByName misses parameter authorship
Andreas Kohlbecker
04:49 PM bug #8684 (Closed): ITaxonService.findTaxaByName misses initStrategy Parameter
ITaxonService.findTaxaByName misses initStrategy Parameter causing unsolvable LIEs when using via the portal service
...
Andreas Kohlbecker
04:46 PM task #8683 (Closed): TaxonDaoHibernateImpl.countTaxaByName rename parameter authorship authorshipCache
Andreas Kohlbecker
04:42 PM bug #5048 (Closed): cdm-server causes unusual high native memory consumption for jvm
last remaining subtask copied to #8682. ticket can now be closed. Andreas Kohlbecker
04:40 PM bug #8682 (Closed): cdm-server debian packages configured for jemalloc
in order to save native memory it is highly recommended to run the cdm-server with `jemalloc` instead of the system ... Andreas Kohlbecker
04:32 PM task #8674 (Closed): configure cdm-server docker image to run with jemalloc
everything ok! Andreas Kohlbecker
02:34 PM bug #8681 (In Progress): Fix sect. parsing
See open issue in #8253 . Maybe it is a more general problem.
"this is in Rank.java and the map idInVocMap is fil...
Andreas Müller
02:32 PM feature request #8253 (Closed): Authors for genus autonyms
I found the place. And probably fixed it but will not commit before release as it needs to be further tested.
Crea...
Andreas Müller
02:19 PM feature request #8253: Authors for genus autonyms
Andreas Müller wrote:
> Can you give some more information where to find these things? Especially "map of the idInV...
Katja Luther
02:14 PM feature request #8253: Authors for genus autonyms
Can you give some more information where to find these things? Especially "map of the idInVocMap " Andreas Müller
02:06 PM feature request #8253 (Feedback): Authors for genus autonyms
Katja Luther
01:40 PM feature request #8253: Authors for genus autonyms
I found the cause of the parsing problem:
when searching for the rank by Rank.getRankByIdInVoc(infraGenRankMarker)...
Katja Luther
01:15 PM bug #8631 (Closed): ABCD import fails to put new taxa into the classification, create mediaspecimens, etc
Katja Luther
01:00 PM bug #8631: ABCD import fails to put new taxa into the classification, create mediaspecimens, etc
It looks ok in KDE!
The ticket can be closed.
Andreas Kohlbecker
12:25 PM bug #8631: ABCD import fails to put new taxa into the classification, create mediaspecimens, etc
Andreas Müller wrote:
> It look ok now. Only change I suggest: let the "Biocase provider for DNA" dropdown start at ...
Andreas Müller
09:55 AM bug #8631: ABCD import fails to put new taxa into the classification, create mediaspecimens, etc
It look ok now. Only change I suggest: let the "Biocase provider for DNA" dropdown start at the same horizontal posit... Andreas Müller
01:00 PM feature request #8667 (Closed): Make Person.orcid editable in TaxEditor
Andreas Müller
12:56 PM feature request #8667 (Resolved): Make Person.orcid editable in TaxEditor
this is fixed Katja Luther

11/13/2019

03:20 PM feature request #8673: Allow OriginalSource to link to other CDM objects
CdmLinkSourceBeanProsessor implemented but cannot test since i can't find data with CdmLinkSource
@Patrick: please...
Andreas Kohlbecker
12:50 PM feature request #8673: Allow OriginalSource to link to other CDM objects
We still need to check if the empty constructor of CdmLinkSource also could be protected. Patrick could you do this? Andreas Müller
02:37 PM feature request #8680 (New): Unify long running tasks framework
Long running task are currently implemented at many places and for multiple purposes.
Some things we could do:
...
Andreas Müller
02:09 PM task #8651: Unify description aggregation methods (distribution and structured descriptive data)
Andreas Müller wrote:
>
> Before closing we should delete the redundant methods from DescriptiveDataSetService. ...
Patrick Plitzner
01:06 PM task #8651 (Resolved): Unify description aggregation methods (distribution and structured descriptive data)
We do now have a common base class and also the LongRunningTaskService used only 1 method (with config as parameter).... Andreas Müller
01:48 PM bug #8631: ABCD import fails to put new taxa into the classification, create mediaspecimens, etc
I made some changes myself. Looks fine on Linux. Please test on windows. Patrick Plitzner
12:35 PM bug #8631: ABCD import fails to put new taxa into the classification, create mediaspecimens, etc
@Patrick could you have another look, whether it looks better now. It is difficult to check for me because with windo... Katja Luther
01:03 PM feature request #8253: Authors for genus autonyms
Katja Luther wrote:
> Creating a section Achnanthes sect. Achnanthes and adding an author also results in Achnanthes...
Katja Luther
01:01 PM task #8679 (Closed): Further unify description aggregation methods
Common base classes already exist. Further work might be:
* ~~use the same calls for "aggregateWithinTaxon", "aggr...
Andreas Müller
12:59 PM feature request #8470 (Closed): Handle username constraints in user and group editing
Seems to work as expected Andreas Müller
12:53 PM feature request #7019 (Closed): sort import menu
Works as expected. Andreas Müller
09:14 AM feature request #7019 (Resolved): sort import menu
Patrick Plitzner
12:27 PM task #8678 (New): Update Fauna Europaea Master Db for common names with area = North America and language = Dutch (Middle)
Some common names had "English-United States" as language and where imported with language = English and Area = North... Katja Luther
08:37 AM feature request #6337 (Rejected): simple web ui to trigger the transmission engine distribution
I also agree Andreas Kohlbecker
08:36 AM feature request #6337: simple web ui to trigger the transmission engine distribution
Norbert wrote:
I agree that TaxEditor is the preferred place to run aggregation, see no need for an implementation...
Andreas Kohlbecker

11/12/2019

11:32 PM bug #8676: TaxonDaoHibernateImpl.countTaxaByName misses parameter authorship
Shouldn't we rename the parameter to authorshipCache in the service layer methods. Because that is what it is. Andreas Müller
09:05 PM bug #8676: TaxonDaoHibernateImpl.countTaxaByName misses parameter authorship
no worries, it was fixed already when I created the ticket. I only had no time to commit and push. Andreas Kohlbecker
09:03 PM bug #8676 (Resolved): TaxonDaoHibernateImpl.countTaxaByName misses parameter authorship
Applied in changeset commit:cdmlib|83c72818d2e637f56f3e956c99cb0e6c1e508cbd. Andreas Kohlbecker
06:10 PM bug #8676: TaxonDaoHibernateImpl.countTaxaByName misses parameter authorship
Why is this in 5.11. Please fix immediately if you want to keep it here. Otherwise move. Andreas Müller
05:37 PM bug #8676 (Closed): TaxonDaoHibernateImpl.countTaxaByName misses parameter authorship
The find method corresponding to `countTaxaByName(Class <? extends TaxonBase> clazz, String uninomial, String infrag... Andreas Kohlbecker
06:36 PM feature request #6337: simple web ui to trigger the transmission engine distribution
Andreas (and maybe Norbert, Eckhard). Can you please decide if this is still needed at all. I guess if a TaxEditor UI... Andreas Müller
06:28 PM feature request #6352: Add Transmission Engine trigger to Admin menu
This is more or less a duplicate for #8677. There it is defined as called in "Set subtree" menu.
Probably we need di...
Andreas Müller
06:16 PM task #8651 (In Progress): Unify description aggregation methods (distribution and structured descriptive data)
This is basically done but there are mutliple open tasks Andreas Müller
06:14 PM feature request #5176 (Resolved): TransmissionEngineDistribution can run on selected taxa
This should be fixed. Andreas Müller
06:13 PM bug #4134 (Resolved): Transmissionengine Distribution seems to miss distributions for higher Taxa
I set to resolved as I guess it is fixed. But needs to be reviewed. Andreas Müller
06:09 PM feature request #8470: Handle username constraints in user and group editing
I guess this is for review Andreas Müller
11:37 AM feature request #8470: Handle username constraints in user and group editing
Andreas Müller wrote:
> Also in the "New" dialog there is a message "Input cannot be empty". Also here further infor...
Katja Luther
11:36 AM feature request #8470 (Resolved): Handle username constraints in user and group editing
Andreas Müller wrote:
> Can you please leave a message how exactly you changed the issue discussed in note 7 and 8. ...
Katja Luther
10:53 AM feature request #8470: Handle username constraints in user and group editing
Also in the "New" dialog there is a message "Input cannot be empty". Also here further information on the allowed cha... Andreas Müller
10:52 AM feature request #8470: Handle username constraints in user and group editing
Can you please leave a message how exactly you changed the issue discussed in note 7 and 8. The discussion was not en... Andreas Müller
10:49 AM feature request #8470: Handle username constraints in user and group editing
Andreas Müller wrote:
> Now when creating a new user the bulkeditor is dirty. When NOT saving the bulk editor and af...
Andreas Müller
10:47 AM feature request #8470 (Feedback): Handle username constraints in user and group editing
Now when creating a new user the bulkeditor is dirty. When NOT saving the bulk editor and after reopening the bulk ed... Andreas Müller
06:08 PM feature request #8677 (Closed): Add distribution aggregation to set subtree menu
There is a new long running task "DisributionAggregation" which runs on a TaxonNodeFilter (#8651 and others). It shou... Andreas Müller
03:22 PM EDIT Platform Etablierung task #8578: Discuss and find appropriate terms for major editor parts (window, view, editor, panel, pane)
Die Umfrage ist abgeschlossen und ausgewertet (attachment:Taxeditor-Terms-Poll-2019.pdf):
-----
Hallo zusammen,
...
Andreas Kohlbecker
12:04 PM bug #8675: Make Ranks sortable by natural order
Best place might be the Names-Ranks preference page Andreas Müller
12:03 PM bug #8675 (New): Make Ranks sortable by natural order
This was already available in past but seems being lost in current version. Andreas Müller
11:42 AM bug #8628 (Closed): Add ORCID as person identifier
this message is easier to understand how the identifier should look like Katja Luther
09:40 AM bug #8628 (Resolved): Add ORCID as person identifier
I adapted the error messages a bit. Can you please review again? Andreas Müller
11:40 AM bug #8664 (Closed): SQLGrammarException when opening Specimen selection
I tested again and it seems to work now. Andreas Müller
11:34 AM feature request #8253 (Resolved): Authors for genus autonyms
By the way the parser for me now also works with names like "Achnanthes Bory sect. Achnanthes". So can you please che... Andreas Müller
11:30 AM feature request #8253: Authors for genus autonyms
Katja Luther wrote:
> Creating a section Achnanthes sect. Achnanthes and adding an author also results in Achnanthes...
Andreas Müller
10:38 AM feature request #7019: sort import menu
Kannst du dann noch umbenennen: ABCD => ABCD file; Excel Normal Explicit Taxa => Exel Normal Explicit; RIS Referenze... Andreas Müller
10:37 AM feature request #7019: sort import menu
Andreas Müller wrote:
> It seems to depend on experimental being switcht on or not. In later case the old menu appea...
Andreas Müller
10:24 AM feature request #7019: sort import menu
It seems to depend on experimental being switcht on or not. In later case the old menu appears. Andreas Müller
10:02 AM feature request #7019: sort import menu
I still get the old menu no matter what I do. I deleted the .metadata folder, I downloaded a completely new TaxEditor... Andreas Müller

11/11/2019

11:38 PM feature request #4366: Transmissionengine Distribution: implement rules for source references
From AG:
The original BM Transmission Engine was handled references ONLY for the Med_Check_List 2 use cases. For E...
Andreas Müller
11:38 PM task #8674: configure cdm-server docker image to run with jemalloc
the new docker image is now based on ubuntu:bionic since jemalloc in alpine Linux fails with segfault.
Therefore I ...
Andreas Kohlbecker
11:33 PM task #8674 (Resolved): configure cdm-server docker image to run with jemalloc
Applied in changeset commit:cdm-server|a9e82e311a06d536699eefabdf13b89fbb8e6220. Andreas Kohlbecker
02:41 PM task #8674 (Closed): configure cdm-server docker image to run with jemalloc
Andreas Kohlbecker
02:04 PM feature request #8667: Make Person.orcid editable in TaxEditor
Please add space after "ORCID won't be saved!" , before the real error message. Andreas Müller
02:01 PM feature request #8667 (Feedback): Make Person.orcid editable in TaxEditor
The error message does not always have enough space
![](picture969-1.png)
Andreas Müller
12:39 PM feature request #8667 (Resolved): Make Person.orcid editable in TaxEditor
The field is added to the editor. please review. Katja Luther
01:58 PM feature request #8673: Allow OriginalSource to link to other CDM objects
Can you please review?
Please also have in mind that webservices should not deliver the full cdmobject and maybe e...
Andreas Müller
01:52 PM bug #8631 (Feedback): ABCD import fails to put new taxa into the classification, create mediaspecimens, etc
So the layout still needs some update for linux, I guess. Andreas Müller
11:08 AM bug #8631: ABCD import fails to put new taxa into the classification, create mediaspecimens, etc
This is how it looks for me. Started the editor from the IDE.
![](picture468-1.png)
Patrick Plitzner
12:59 PM bug #5048: cdm-server causes unusual high native memory consumption for jvm
configuring the test server to use `jemalloc` instead of `malloc?` drastically reduced the native memory overhead:
...
Andreas Kohlbecker
12:50 PM bug #8628: Add ORCID as person identifier
This is difficult because multiple formats are possible (with http, https, only orcid.org or completely missing all p... Andreas Müller
11:06 AM bug #8628 (Feedback): Add ORCID as person identifier
Could you add an example in the exception message to show how it should look like. And that an x at the end is possib... Katja Luther
12:37 PM feature request #8253 (Feedback): Authors for genus autonyms
Creating a section Achnanthes sect. Achnanthes and adding an author also results in Achnanthes sect. Achnanthes Bory,... Katja Luther
12:32 PM feature request #8470: Handle username constraints in user and group editing
please review Katja Luther
11:14 AM feature request #7019: sort import menu
Tried this morning. Seems to work. Please download and try again. Patrick Plitzner
09:47 AM bug #8530: Multiple Representation Exceptions when editing Textual Type Designations
mail Inan Erdogan:
ich glaube das passiert bei mir fast ausschliesslich, wenn ich entweder im Hauptansichtsfeld de...
Katja Luther
09:37 AM bug #4134: Transmissionengine Distribution seems to miss distributions for higher Taxa
AM:
Ja, ich habe dann später auch festgestellt, dass die Aggregation bis zum Tribus in dem Fall gewünscht war. Dah...
Andreas Müller
09:28 AM bug #4134 (In Progress): Transmissionengine Distribution seems to miss distributions for higher Taxa
NK:
Vor eine Neuaggregation können und sollten die Neuberechnungen auf Subtribus- und Tribus-Ebene gelöscht werden...
Andreas Müller
 

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