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From 06/15/2022 to 07/14/2022

07/14/2022

09:57 PM Revision f492f1d9 (cdm-dataportal): javadoc, cleanup and revert some debugging
Andreas Müller
09:42 PM Revision c28b130d (cdmlib): cleanup
Andreas Müller
07:56 PM Revision 7494f3b1 (cdmlib): cleanup
Andreas Müller
07:03 PM Revision c7ef3e53 (cdmlib): ref #10090 catch LIE in Team.getCollectorTitleCache
Andreas Müller
06:59 PM Revision ac7949f3 (cdmlib): cleanup
Andreas Müller
06:26 PM task #10091 (Closed): Add stacktrace to JSON repsonse
This should be fixed. It is now possible to show the error message and the stacktrace of a failing webservice by addi... Andreas Müller
09:43 AM task #10091 (Resolved): Add stacktrace to JSON repsonse
Applied in changeset commit:cdmlib|0fffbab66709e2a4401a7fdc3ff4df8bc5fe1afe. Andreas Müller
09:38 AM task #10091 (Closed): Add stacktrace to JSON repsonse
... for better error finding Andreas Müller
05:55 PM Revision c7f13f26 (cdm-dataportal): handle errors not as json for commands with expected json result
Andreas Müller
05:54 PM Revision cbed020f (cdm-dataportal): cleanup
Andreas Müller
05:54 PM Revision ccc02dc1 (cdm-dataportal): add debugging
Andreas Müller
02:17 PM Revision 650193a1 (cdmlib): ref #10091 show stacktrace only if debug parameter is added
Andreas Müller
10:07 AM Revision b559f0f9 (cdmlib): ref #10089 adapt json mapping to new TypeDesignationSet handling (cont.)
Andreas Müller
09:43 AM Revision ab1abcbe (cdmlib): cleanup
Andreas Müller
09:43 AM Revision 0fffbab6 (cdmlib): fix #10091 Add stacktrace to JSON repsonse
Andreas Müller
09:36 AM Revision fdbd1a3a (cdmlib): ref #10089 return JSONNull for null values in type designation value processor
Andreas Müller
09:35 AM Revision d54d6020 (cdmlib): cleanup
Andreas Müller
08:47 AM Revision 22b33a05 (cdmlib): cleanup
Andreas Müller
08:40 AM Revision 1e4c68b2 (cdmlib): ref #10089 handle null values for map and type designation value processor
Andreas Müller
12:45 AM Revision 2de2cf10 (cdm-vaadin): ref #10089 handle RegistrationDTO with TypedEntityReference again in vaadin
Andreas Müller
12:44 AM Revision 25b120ed (cdmlib): ref #10089 handle RegistrationDTO with TypedEntityReference again in cdmlib
Andreas Müller
12:41 AM Revision cf58d709 (cdm-dataportal): ref #10089 rename TypeDesignationWorkingSet in dataportal
Andreas Müller

07/13/2022

11:28 PM Revision 54143f9a (cdmlib): ref #10089 adapt json mapping to new TypeDesignationSet handling
Andreas Müller
11:27 PM Revision f0b8034c (cdmlib): cleanup
Andreas Müller
08:02 PM Revision 2efce339 (cdmlib): ref #10090, ref #10089 try to avoid LIE in TypeDesignationSet
Andreas Müller
08:01 PM Revision d6353c79 (cdmlib): cleanup
Andreas Müller
07:51 PM bug #10090: Many LIEs in cdmserver log for Team.getCollectorTitleCache()
maybe related to #9949 Andreas Müller
07:49 PM bug #10090 (Closed): Many LIEs in cdmserver log for Team.getCollectorTitleCache()
from int cdmserver (startup.log)
~~~
Caused by: org.hibernate.LazyInitializationException: failed to lazily initi...
Andreas Müller
06:49 PM Revision 85f4724b (cdm-dataportal): add some debugging for finding drush exception (cont.)
Andreas Müller
05:56 PM Revision a3b7c3d9 (cdm-dataportal): add some debugging for finding drush exception
Andreas Müller
05:41 PM Revision a0d044d3 (cdm-dataportal): cleanup
Andreas Müller
12:44 AM Revision 046d6228 (cdmlib): fix #10089 final fixes for TypeDesignationSet formatting ordered by type status (cont.)
Andreas Müller
12:36 AM Revision 230f5b70 (cdm-vaadin): rename RegistrationTypeDesignationStatusComparator
Andreas Müller
12:34 AM bug #10089 (Resolved): Order TypeDesignationSetContainer by status type
Applied in changeset commit:cdmlib|7af46cd80139907f3c80f4ee1ad644a0260c7b18. Andreas Müller
12:34 AM Revision 7af46cd8 (cdmlib): fix #10089 final fixes for TypeDesignationSet formatting ordered by type status
Andreas Müller
12:05 AM Revision 98768399 (cdmlib): cleanup and support for orderedBy and factory methods for TypeDesignationSetContainer
Andreas Müller

07/12/2022

11:49 PM Revision f104a204 (cdmlib): cleanup
Andreas Müller
11:03 PM Revision fc477304 (cdm-vaadin): cleanup
Andreas Müller
11:02 PM Revision 7aa81094 (cdm-vaadin): cleanup and rename RegistrationValidationException to TypeDesignationSetException in vaadin
Andreas Müller
10:50 PM Revision 45356f85 (cdmlib): ref #10089 implement TypeDesignationSetContainer ordered by status not field unit
Andreas Müller
10:42 PM Revision 8e73bb3d (cdmlib): cleanup
Andreas Müller
10:40 PM Revision 9a5a2693 (cdmlib): cleanup and rename RegistrationValidationException to TypeDesignationSetException (cont.)
Andreas Müller
10:03 PM Revision c4a57e04 (cdmlib): cleanup and rename RegistrationValidationException to TypeDesignationSetException
Andreas Müller
09:16 PM Revision 48c8ef25 (cdmlib): minor
Andreas Müller
09:14 PM Revision 50778c94 (cdmlib): ref #10089 rename TypeDesignationSetManager to TypeDesignationSetContainer in cdmlib
Andreas Müller
08:54 PM Revision d9a042e5 (cdm-vaadin): ref #10089 rename TypeDesignationWorkingSet to TypeDesignationSet in vaadin
Andreas Müller
08:52 PM Revision 262c0177 (cdmlib): ref #10089 rename TypeDesignationWorkingSet to TypeDesignationSet in cdmlib
Andreas Müller
08:15 PM Revision d7160e6b (cdm-vaadin): ref #10089 remove TypedEntityReference from TypeDesignationWorkingSet in vaadin
Andreas Müller
08:13 PM Revision 3fb08830 (cdmlib): ref #10089 remove TypedEntityReference from TypeDesignationWorkingSet
Andreas Müller
08:13 PM bug #10089 (Closed): Order TypeDesignationSetContainer by status type
Currently it is first ordered by base entity (e.g. field unit) alphabetically and only within TypeDesignationWorkingS... Andreas Müller
07:54 PM Revision 4ce0e91d (cdm-vaadin): cleanup
Andreas Müller
06:25 PM Revision 61d1e335 (cdm-vaadin): replace LinkedHashMap by Map where possible in vaadin
Andreas Müller
06:24 PM Revision 7667f093 (cdm-vaadin): cleanup
Andreas Müller
06:22 PM Revision 8d7c7784 (cdmlib): make TypeDesignationWorkingSet a decorator and not inherit directly from LinkedHashMap
Andreas Müller
05:59 PM Revision edc8c14e (cdmlib): replace LinkedHashMap by Map where possible
Andreas Müller
05:58 PM Revision 1ddf0695 (cdmlib): cleanup
Andreas Müller

07/11/2022

08:41 PM Revision 7de1e8a5 (cdmlib): ref #10087 make placement source and placement source FK explicit columns and refactor test (also ref #10081 )
Andreas Müller
08:39 PM Revision b1fafec1 (cdmlib): ref #10087 make placement source and placement source FK explicit columns and refactor test (also ref #10081 )
Andreas Müller
06:48 PM feature request #10081: Show name in source for sec ref of accepted taxon
I also implemented for CDM light (commit:9e545c61). This was still missing as CDM light does not use the TaxonDefault... Andreas Müller
06:42 PM Revision 9e545c61 (cdmlib): ref #10081 add secundum name used in source to cdmlight
Andreas Müller
06:41 PM Revision 9e5bde9c (cdmlib): cleanup
Andreas Müller
03:03 PM feature request #10088 (New): Implement bibliography parser
Pensoft uses:
For the parser you can check https://anystyle.io/. It works pretty well in most cases.
Andreas Müller
01:05 PM feature request #10087 (Resolved): Add taxon node source to status notes in cdmlight
This is implemented, however, we still need to discuss if this is really the correct solution or if we better should ... Andreas Müller
12:55 PM feature request #10087: Add taxon node source to status notes in cdmlight
AM:
Ganz sicher bin ich mir aber nicht, ob das semantisch immer 100% richtig ist. Die Placement Source ist ja eine g...
Andreas Müller
11:43 AM feature request #10087: Add taxon node source to status notes in cdmlight
WGB:
Hallo,
mir ist aufgefallen, dass in Taxon.csv zwar die „Status notes“ (aus dem Taxon Node Dialog) ausgegeben...
Andreas Müller
11:42 AM feature request #10087 (Closed): Add taxon node source to status notes in cdmlight
Andreas Müller
01:03 PM Revision a9f7b763 (cdmlib): ref #10087 add taxon node source to status notes in cdmlight
Andreas Müller
01:02 PM Revision 09da8d56 (cdmlib): cleanup
Andreas Müller

07/10/2022

10:37 AM task #10064: Upgrade cybertaxonomy.org to Drupal9
Editing text on https://cybertaxonomy.org/setups/group/server_requirements does not work. The text seems to be store... Andreas Müller

07/08/2022

11:21 PM task #10064: Upgrade cybertaxonomy.org to Drupal9
On https://cybertaxonomy.org/node/4/edit I tried to change the link for "Taxonomic Editor (TaxEditor)" from "http://w... Andreas Müller
11:06 PM bug #10079: Fix timezone problems after upgrading jadira.usertype, hibernate and/or mysql drivers
Remaining issues should be solved in next milestone Andreas Müller
11:05 PM bug #8343 (Closed): potential timezone problem in application stack
I think this ticket can be closed. The timezone problem is now solved with correct availability of timezone informati... Andreas Müller
10:58 PM feature request #10081: Show name in source for sec ref of accepted taxon
Tests and improved handling of secundum part is handled in #10085 Andreas Müller
10:33 PM feature request #10081 (Feedback): Show name in source for sec ref of accepted taxon
Generally works but there is an unwanted whitespace after the closing bracket.
See https://test.e-taxonomy.eu/dat...
Andreas Müller
10:54 PM bug #10075 (Closed): Fix deserialization exception for bytebuddy base hibernate SerializableProxy
I think we can close this ticket as the problem did not show up anymore. Andreas Müller
10:53 PM task #3722 (Feedback): Using @OrderColumn does not work in trees
Andreas Müller
10:39 PM bug #10059 (Closed): Link for stored under and identification on specimen page does not work correctly
Works as expected Andreas Müller
09:33 PM bug #10076 (Closed): Exception when opening character matrix with classification as root node
Works as expected. Andreas Müller
04:32 PM feature request #10083: Add name relationship type "avoids homonym of"/"causes replacement name"
Update script is written and checked on integration.
Dataportal and cdmlight(?) still need to be updated.
Relationsh...
Andreas Müller
04:20 PM feature request #10083: Add name relationship type "avoids homonym of"/"causes replacement name"
~~~
SELECT r.id relId, n1.titleCache n1, t.titleCache rel, n2.titleCache n2, n1.nameCache n1short, n2.nameCache n2sho...
Andreas Müller
02:26 PM feature request #10086: Taxonomic and geographic search for data portal
ERS:
das typische Ergebnis einer Geo-Abfrage sieht so aus:
![](clipboard-202207081421-julug.png)

Man wählt ...
Andreas Müller
02:22 PM feature request #10086 (New): Taxonomic and geographic search for data portal
Geo search already works but the taxonomic filter is still missing. This is a filter on any higher taxon (>= genus ?)... Andreas Müller
02:15 PM task #8865 (In Progress): more external-links to be implemented
Eckhard, can you please check if there is still some issue open from this ticket or if it can be closed? Andreas Müller

07/07/2022

11:58 PM Revision 0bb5c8a2 (cdmlib): ref #10067 cleanup CdmModelCacher
Andreas Müller
11:01 PM Revision 5864d558 (cdmlib): ref #6696 write model cache to target and use compile phase
Andreas Müller
11:00 PM Revision 2b7260c4 (cdmlib): add ehcache to cdmlib-cache
Andreas Müller
09:57 PM Revision 49eb471d (cdmlib): cleanup
Andreas Müller
09:43 PM Revision 22aa850d (cdmlib): ref #6696 change maven phase for CdmModelCache creation and move cdmlib-cache modul up behind cdmlib-service
Andreas Müller
08:49 PM Revision 1a1e2ca4 (cdmlib): ref #6696 create CdmModelCache during maven and remove cached model from git
Andreas Müller
05:54 PM Revision c0ed5d8e (cdmlib): ref #10067 save new cache model created with hibernate version 5.4
Andreas Müller
02:35 PM feature request #10083 (Resolved): Add name relationship type "avoids homonym of"/"causes replacement name"
The relationship was added. We still need an update script or handling for the inverse label and for existing data. Andreas Müller
12:44 PM bug #10084: Adding a new specimen to character matrix fails
Katja Luther wrote in #note-4:
> Andreas Müller wrote in #note-3:
> > Generally the bug seems to be fixed and the t...
Katja Luther
10:57 AM Revision 017bce1e (cdmlib): ref #10083 add AVOIDS_HOMONYM_OF name relationship
Andreas Müller
10:57 AM Revision d1ea8316 (cdmlib): cleanup
Andreas Müller

07/06/2022

04:12 PM Revision 36a4dfbd (cdmlib): ref #10081: add secNameInSourceSeparator to separator
Katja Luther
03:19 PM Revision a1998e47 (cdm-dataportal): ref #10081: remove the font-style for separator again
Katja Luther
03:18 PM Revision 143a6271 (cdmlib): ref #10081: add tag secNameInSourceSeparator and use it in cacheStrategy
Katja Luther
03:17 PM feature request #10081: Show name in source for sec ref of accepted taxon
Added a new tag for the separators surrounding the name used in source, this is extracted from the taggedTaxon and if... Katja Luther
03:03 PM Revision ff162af3 (cdm-dataportal): ref #10081: adapt nameInSource handling in portal
Katja Luther
10:11 AM task #3722: Using @OrderColumn does not work in trees
On PolytomousKeys:
* added a fresh PK
* added a new top level node (like always) results in a sortindex 1 for thi...
Andreas Müller
09:56 AM task #3722: Using @OrderColumn does not work in trees
Andreas Müller wrote in #note-18:
> Term trees/nodes also seem to work. Katja, can you please double check this?
...
Katja Luther
10:00 AM bug #10084 (Feedback): Adding a new specimen to character matrix fails
Andreas Müller
10:00 AM bug #10084: Adding a new specimen to character matrix fails
Katja Luther wrote in #note-4:
> Sometimes it needs a break, than a better solution could be found. I solved it with...
Andreas Müller
09:50 AM bug #10084 (Resolved): Adding a new specimen to character matrix fails
Andreas Müller wrote in #note-3:
> Generally the bug seems to be fixed and the ticket can be closed.
>
> Only the...
Katja Luther
09:49 AM Revision f134a838 (cdmlib): ref #10084: add type comparison to hql again
Katja Luther

07/05/2022

11:24 PM Revision 4d1f9d42 (taxeditor): cleanup
Andreas Müller
11:19 PM Revision 5e838349 (taxeditor): cleanup
Andreas Müller
11:14 PM Revision 599c91e5 (taxeditor): cleanup
Andreas Müller
10:56 PM Revision 9a6e5099 (cdmlib): cleanup
Andreas Müller
10:55 PM Revision 758086db (taxeditor): Preferenzen->Präferenzen
Andreas Müller
10:55 PM Revision 3f5ed758 (taxeditor): cleanup
Andreas Müller
10:20 PM Revision 35105144 (cdmlib): ref #10067, ref #3722, ref #8127 remove remaining sortindex handling from polytomous key node
Andreas Müller
10:19 PM Revision 4b8da4a0 (cdmlib): cleanup
Andreas Müller
06:15 PM task #3722: Using @OrderColumn does not work in trees
Term trees/nodes also seem to work. Katja, can you please double check this? Andreas Müller
06:15 PM task #3722: Using @OrderColumn does not work in trees
SQL for testing persisted Polytomous Key Nodes:
~~~SQL
SELECT pkn.id, pkn.created, nodenumber, KEY_id, parent_id,...
Andreas Müller
06:08 PM task #8127: [Reminder] to check if Hibernate Null Value bug still exists
See also #3722#note-14 ff for comments relevant here. Andreas Müller
05:57 PM bug #10084 (Feedback): Adding a new specimen to character matrix fails
Generally the bug seems to be fixed and the ticket can be closed.
Only the handling of descriptionType in the code...
Andreas Müller
04:01 PM feature request #10081 (Resolved): Show name in source for sec ref of accepted taxon
Set the font-style for separator to normal, this is the way it is done for markers. Please review.
I also will have...
Katja Luther
01:43 PM feature request #10081 (Feedback): Show name in source for sec ref of accepted taxon
The current formatting shows brackets and "sub" in italics but only the name parts should be in italics.
This is b...
Andreas Müller
01:32 PM feature request #10081 (Resolved): Show name in source for sec ref of accepted taxon
Katja Luther
01:32 PM feature request #10081: Show name in source for sec ref of accepted taxon
with the correct init strategy the name in source is shown. for review : https://int.e-taxonomy.eu/dataportal/integra... Katja Luther
03:57 PM Revision c377a0d9 (cdm-dataportal): ref #10081: add separator font-style
Katja Luther
01:52 PM Revision 3b4b9e2f (taxeditor): ref #10067, ref #3722, ref #8127 remove null value handling from PolytomousKeyGraphContentProvider in taxEditor
Andreas Müller
01:28 PM Revision 5c45a99a (cdmlib): ref #10067, ref #3722, ref #8127 remove all manual sortindex and null value handling from polytomous key (node)
Andreas Müller
01:25 PM Revision 0694bb3d (cdmlib): ref #10067, ref #8127 remove remaining null value handling from taxon node
Andreas Müller
01:24 PM Revision 3dc1adc5 (cdmlib): ref #10067, ref #3722, ref #8127 remove all manual sortindex and null value handling from term node
Andreas Müller
01:19 PM Revision ab85ad67 (cdmlib): ref #10067, ref #8127 remove "removeAllNull" (HHH_9751_Util) from DescriptionBase
Andreas Müller
11:16 AM Revision 059a8e53 (taxeditor): ref #8818: remove predicate from distribution status table in preferences
Katja Luther
09:56 AM bug #10079: Fix timezone problems after upgrading jadira.usertype, hibernate and/or mysql drivers
I discussed with WHK how far time information is needed in the phycobank dataportal. According to WHK it is (currentl... Andreas Müller
09:46 AM Revision edb488c8 (taxeditor): test
Katja Luther

07/04/2022

10:35 PM Revision 84f11f2b (cdmlib): revert remove strange IkeyPlusImport properties files in io/src/test/resources/main
Andreas Müller
10:12 PM Revision bb03b5f4 (cdmlib): cleanup and remove strange IkeyPlusImport properties files in io/src/test/resources/main
Andreas Müller
10:02 PM Revision 53fc098d (taxeditor): improve logging for exception in AbstractPersistentCollection.remoteInitialize()
Andreas Müller
09:43 PM Revision f13320e2 (cdmlib): fix CCE in IOServiceImpl for URI based imports
Andreas Müller
09:43 PM Revision 27f9f715 (cdmlib): cleanup and javadoc
Andreas Müller
03:43 PM Revision 4c68380d (cdmlib-apps): ref #9359 remove hsqldb StringComparator from ErmsTaxonImport
Andreas Müller
03:43 PM Revision 5bb9c7d1 (cdmlib-apps): update e-Flora and pesi to 5.32.0-SNAPSHOT
Andreas Müller
03:35 PM Revision e11ce0a9 (cdmlib-apps): cleanup
Andreas Müller
03:35 PM Revision 4b88f183 (cdmlib-apps): adapt BerlinModelImport to new cacheStrategy getter
Andreas Müller
03:34 PM Revision b10eeaf7 (cdmlib-apps): update app-import to 5.32.0-SNAPSHOT
Andreas Müller
03:30 PM Revision 8c64898f (cdmlib): ref #9359 update log4j to 2.18.0 in cdmlib
Andreas Müller
03:29 PM Revision 7af8b889 (utis-webapp): ref #9359 update log4j to 2.18.0 in utis-webapp
Andreas Müller
03:27 PM Revision f2234658 (cdm-dataportal): ref #9359 update log4j to 2.18.0 in dataportal
Andreas Müller
03:04 PM Revision c7e9d1ed (cdmlib): add nomenclatural author of nameInSource to init strategy
Katja Luther
12:29 PM Revision 904397ee (taxeditor): remove debug messages
Katja Luther
12:19 PM Revision bc55416e (cdmlib): ref #10081: add nameUsedInSource to initStrategy
Katja Luther
10:22 AM Revision 4287668c (taxeditor): add debugging for source section
Katja Luther
09:52 AM Revision ea87ffcb (taxeditor): add debugging for source section
Katja Luther
09:25 AM Revision 083eabed (taxeditor): minor
Katja Luther

07/01/2022

11:26 AM Revision f29ead53 (taxeditor): ref #10080: add messages
Katja Luther

06/29/2022

06:31 PM Revision 00931afd (cdmlib): cleanup
Andreas Müller
06:14 PM Revision 2c1a59f9 (taxeditor): adapt TaxEditor to WordTermExportConfigurator
Andreas Müller
06:14 PM Revision c7f0af52 (taxeditor): cleanup
Andreas Müller
04:27 PM Revision 5552c0c6 (cdmlib): rename WordTermExport
Andreas Müller

06/28/2022

05:52 PM bug #10080 (In Progress): Source Element sometimes does not appear after selecting a new designation status and after creating a new type designation
This is really strange behavior, the source element should be shown every time but in stable and nightly the source i... Katja Luther
12:59 PM bug #10080: Source Element sometimes does not appear after selecting a new designation status and after creating a new type designation
We need to check if this can be done fast. Andreas Müller
11:49 AM bug #10076 (Resolved): Exception when opening character matrix with classification as root node
This should be fixed, please review. Katja Luther
11:46 AM bug #10084 (Resolved): Adding a new specimen to character matrix fails
Please review. Katja Luther
11:43 AM bug #10084 (Closed): Adding a new specimen to character matrix fails
The following exception appears when trying to save the character matrix after adding a new specimen:
~~~
last ...
Katja Luther
11:44 AM Revision bce2d0e5 (cdmlib): fix 10084: fix problem with missing taxonuuid in dto
Katja Luther
09:23 AM feature request #10082: Improve formatting for pro parte misapplications
Example: https://europlusmed.org/cdm_dataportal/taxon/63fead7a-662a-4082-9503-c6ea994c2049 Andreas Müller

06/27/2022

02:21 PM feature request #10083: Add name relationship type "avoids homonym of"/"causes replacement name"
Separate discussion WGB-AM:
...
AM
ja, das war semantisch nie einfach, was bei blocking name was ist bzw. be...
Andreas Müller
02:18 PM feature request #10083: Add name relationship type "avoids homonym of"/"causes replacement name"
AM:
diese Mail ist letztes Jahr leider bei mir liegen geblieben. Aus aktuellem Anlass würde ich sie gerne wieder a...
Andreas Müller
02:14 PM feature request #10083 (Discussed): Add name relationship type "avoids homonym of"/"causes replacement name"
ERS:
das Pendant zu „is blocking name for“ lautet „is new combination blocked by“. Es gibt aber auch den Fall, das...
Andreas Müller
01:51 PM feature request #10083 (Closed): Add name relationship type "avoids homonym of"/"causes replacement name"
Currently we have a name relationship type "is blocking name for" with a label "is new combination blocked by" for th... Andreas Müller
12:07 PM feature request #10082 (Closed): Improve formatting for pro parte misapplications
ERS:
... kann ich mich nicht mehr erinnern, ob wir uns schon auf eine einheitliche Darstellung des „p.p.“ geeinigt...
Andreas Müller
11:55 AM feature request #10081: Show name in source for sec ref of accepted taxon
... and can you also please review my implementation. Andreas Müller
11:54 AM feature request #10081 (In Progress): Show name in source for sec ref of accepted taxon
I implemented the cache strategy part. Katja, can you please take over and check what needs to be done for the portal... Andreas Müller
11:22 AM feature request #10081: Show name in source for sec ref of accepted taxon
AM:
Könntest du kurz ein Beispiel geben, wie das genau formattiert werden soll? Also ob mit eckiger(?) Klammer dru...
Andreas Müller
11:52 AM Revision 5f41e9a8 (cdmlib): ref #10081 add nameUsedIn sec source to accepted taxon cache strategy
Andreas Müller

06/24/2022

05:04 PM Revision 009c376e (cdmlib): code cleaning
Katja Luther
05:04 PM Revision e11d6984 (cdmlib): code cleaning
Katja Luther
03:13 PM Revision 7fd76b2b (cdmlib): ref #10067, ref #3722, ref #8127 preliminary add sortIndex field again to avoid problem with model cache in TaxEditor (cont. fix JAXB issue)
Andreas Müller
03:02 PM Revision c3d56a52 (cdmlib): cleanup
Andreas Müller
02:42 PM Revision 172c0b19 (cdmlib): ref #10067, ref #3722, ref #8127 preliminary add sortIndex field again to avoid problem with model cache in TaxEditor
Andreas Müller
01:19 PM Revision 3b96b3e5 (cdmlib): cleanup
Andreas Müller
01:19 PM Revision e1fe2afa (cdmlib): ref #10067, ref #3722, ref #8127 fully remove TaxonNode sortindex code from TaxonNode and CdmLight
Andreas Müller
01:09 PM Revision bcc64240 (cdmlib): cleanup
Andreas Müller
12:22 PM feature request #10081 (Closed): Show name in source for sec ref of accepted taxon
WGB:
ich finde kein Setting, mit dem ich den Name in Source bei der sec. Ref. des [akzeptierten] Taxons ausgeben k...
Andreas Müller

06/23/2022

01:54 PM bug #10080 (In Progress): Source Element sometimes does not appear after selecting a new designation status and after creating a new type designation
When selecting the designation status holotype removes the source section of the typedesignation details view. Katja Luther
01:12 PM bug #9979: Flora Greece shows large images
Andreas Müller wrote in #note-6:
> Katja Luther wrote in #note-5:
> > This problem appears if the limit for the thumb...
Katja Luther
01:10 PM bug #9979: Flora Greece shows large images
Katja Luther wrote in #note-5:
> This problem appears if the limit for the thumbnail size is smaller as the size of ...
Andreas Müller
01:03 PM bug #9979: Flora Greece shows large images
This problem appears if the limit for the thumbnail size is smaller as the size of the smallest representation. Then ... Katja Luther
01:06 PM task #3722: Using @OrderColumn does not work in trees
Andreas Müller wrote in #note-15:
> Katja Luther wrote in #note-14:
> > For polytomouskey nodes there are still null ...
Katja Luther
12:20 PM task #3722: Using @OrderColumn does not work in trees
Katja Luther wrote in #note-14:
> For polytomouskey nodes there are still null values, after creating a new alternat...
Andreas Müller
10:45 AM task #3722: Using @OrderColumn does not work in trees
For polytomouskey nodes there are still null values, after creating a new alternativ and saving the rootnode contains... Katja Luther
12:09 PM Revision 7ed19664 (cdmlib): cleanup
Andreas Müller
10:30 AM Revision ca55a577 (taxeditor): change suffix for ris import to ris and *
Katja Luther

06/22/2022

07:39 PM bug #9979: Flora Greece shows large images
As you currently work in this area I give this ticket to you for now. Andreas Müller
07:36 PM task #8127 (Resolved): [Reminder] to check if Hibernate Null Value bug still exists
Probably solved but still needs code cleanup. Andreas Müller
07:35 PM task #3722: Using @OrderColumn does not work in trees
Please review. Andreas Müller
07:27 PM bug #10034 (Feedback): Flat feature tree throws exception
The initial issue is fixed (or workarounded) correctly.
However, the labeling of the tree still behaves strange some...
Andreas Müller
07:11 PM bug #10078: Symbol and details view title of misapplied name type is not the same as shown in the type combo element
IMPORTANT:
Before closing the ticket we need to check existing data in production databases for incorrect relation...
Andreas Müller
05:05 PM bug #10078 (Feedback): Symbol and details view title of misapplied name type is not the same as shown in the type combo element
Seems to work correctly and code changes make sense. Can you still remove not needed commented code (and maybe also r... Andreas Müller
12:04 PM bug #10078 (Resolved): Symbol and details view title of misapplied name type is not the same as shown in the type combo element
This should be solved, please review. Katja Luther
11:34 AM bug #10078: Symbol and details view title of misapplied name type is not the same as shown in the type combo element
Andreas Müller wrote in #note-2:
> I do not understand the title of this ticket. The problem to me seems that the se...
Katja Luther
11:29 AM bug #10078: Symbol and details view title of misapplied name type is not the same as shown in the type combo element
I do not understand the title of this ticket. The problem to me seems that the selection in the dropdown is stored in... Andreas Müller
11:02 AM bug #10078 (Closed): Symbol and details view title of misapplied name type is not the same as shown in the type combo element
mail ERS:
Wenn man partial misapplication UND pro parte misapplication behalten will (den Unterschied habe ich per...
Katja Luther
05:08 PM bug #10056 (Closed): Make Reference.Accessed deletable in TaxEditor
Works as expected. Andreas Müller
03:54 PM bug #10079: Fix timezone problems after upgrading jadira.usertype, hibernate and/or mysql drivers
For now, I implemented the date formatting in the way that timezone information is added using the "O" format (https:... Andreas Müller
03:43 PM bug #10079 (In Progress): Fix timezone problems after upgrading jadira.usertype, hibernate and/or mysql drivers
AM:
beim derzeitigen Upgrade unserer verwendeten Software Libraries fällt uns gerade wieder ein Thema auf die Füße...
Andreas Müller
03:19 PM bug #10079: Fix timezone problems after upgrading jadira.usertype, hibernate and/or mysql drivers
Andreas Müller wrote in #note-4:
> The formatting seems to take place in name.inc, l.844 calling cdm_api.module.form...
Katja Luther
03:13 PM bug #10079: Fix timezone problems after upgrading jadira.usertype, hibernate and/or mysql drivers
The formatting seems to take place in name.inc, l.844 calling cdm_api.module.format_datetime() l.449 which calls strt... Andreas Müller
02:53 PM bug #10079: Fix timezone problems after upgrading jadira.usertype, hibernate and/or mysql drivers
This issue is closely related to #8343 Andreas Müller
02:52 PM bug #10079 (In Progress): Fix timezone problems after upgrading jadira.usertype, hibernate and/or mysql drivers
With #9359 and #10067 we upgraded hibernate and joda-time/jadira-usertype versions. Maybe also upgrading mysql-connec... Andreas Müller
03:51 PM Revision 4f438db5 (cdm-dataportal): ref #10079 adapt tests to timezone handling
Andreas Müller
03:46 PM Revision 177a39cb (cdm-dataportal): ref #10079 add timezone to (registration) date
Andreas Müller
03:01 PM bug #8343 (In Progress): potential timezone problem in application stack
IMPORTANT:
This task got a new flavour after upgrading some libraries (hibernate, jadira-usertype, mysql-connector, ...
Andreas Müller
02:58 PM bug #8343: potential timezone problem in application stack
Katja Luther wrote in #note-13:
> ... Actually there should be no timezone information in DATETIME??
Are we talki...
Andreas Müller
12:03 PM Revision 898ac44b (taxeditor): ref #10078: sort the terms at the beginning.
Katja Luther
11:37 AM Revision 0614271f (cdm-vaadin): cleanup and fix correct factory method usage
Andreas Müller
11:34 AM Revision be09d413 (cdmlib): cleanup
Andreas Müller
11:15 AM Revision d00d12fa (cdmlib): fix compile error for private MaterialOrMethodEvent constructor
Andreas Müller
11:12 AM Revision 2a7f40e5 (cdmlib): minor
Andreas Müller
10:57 AM Revision c5e9236a (cdmlib): ref #10067 update java-doc for and remove protected access to model constructors where possible in occurrence
Andreas Müller
09:44 AM Revision 08670423 (cdmlib): ref #7666 add test for pro parte MAN formatting
Andreas Müller
09:43 AM Revision a6d0a583 (cdmlib): cleanup
Andreas Müller

06/21/2022

12:04 PM Revision 51b5fd7a (cdmlib): ref #10067 update java-doc for and remove protected access to model constructors where possible
Andreas Müller
12:03 PM Revision 34ab2253 (cdmlib): cleanup
Andreas Müller

06/20/2022

02:46 PM Revision 81b378ac (cdmlib): ref #10076 fix HQL query (remove native)
Andreas Müller
02:43 PM Revision f47729f9 (utis-core): ref #9359 udpate enforcer plugin to 3.1.0. and log4j to 2.17.2 for utis-core
Andreas Müller
02:42 PM Revision 64e30c90 (cdm-webapp): ref #9359 udpate enforcer plugin to 3.1.0. for cdm-webapp
Andreas Müller
02:40 PM Revision bcaa3499 (cdm-vaadin): ref #9359 udpate enforcer plugin to 3.1.0. for vaadin
Andreas Müller
02:40 PM Revision 25ef1ef8 (cdmlib): ref #9359 udpate enforcer plugin to 3.1.0. for cdmlib
Andreas Müller
10:57 AM Revision eec20175 (taxeditor): ref #10033: vocabulary representation should be editable in taxeditor
Katja Luther
10:42 AM Revision a543b013 (taxeditor): TaxonRelationshipTypeInverseContainer should not inherit from DefinedTermBase and use InverseTermWrapper and RelationshipTypeCombo for NameRelType and TaxonRelType
Katja Luther

06/17/2022

08:54 PM Revision 9169740e (cdmlib): ref #10076 fix HQL query (remove native)
Andreas Müller
08:26 PM Revision 5778f462 (cdmlib): ref #10067 update java-doc for HibernateProxyHelper.deproxy (cont.)
Andreas Müller
08:20 PM Revision 3f11d79a (cdmlib): ref #10067 update java-doc for HibernateProxyHelper.deproxy
Andreas Müller
08:14 PM Revision 7d595ebb (taxeditor): ref #3722, ref #10067, ref #8127 remove childnodes nullcheck in ChecklistEditorInput
Andreas Müller
08:06 PM Revision 87d9741a (cdmlib): ref #10067 update java-doc for CdmBase.deproxy
Andreas Müller
08:05 PM Revision 3001e5ad (cdmlib): preliminary fix TaxEditor compile error due to non-protected DefinedTermBase constructor
Andreas Müller
07:46 PM Revision 5d6e72c2 (taxeditor): ref #10067, ref #3722 reenable and adapt readPolytomousKeyDataFromNodes() test
Andreas Müller
07:46 PM Revision f603e01a (taxeditor): fix order of expected and real value in test
Andreas Müller
07:46 PM Revision cbe3c7e4 (taxeditor): cleanup
Andreas Müller
05:26 PM Revision 77c9b8f8 (cdmlib): ref #3722, ref #8127, ref #10067 fully remove sortindex updating and collection null handling workaround from TaxonNode
Andreas Müller
05:23 PM Revision 93185e7b (cdmlib): adapt TaxonNodeService to private Representation constructor
Andreas Müller
04:56 PM Revision 608b3df3 (cdmlib): minor
Andreas Müller
04:54 PM Revision d56308b9 (cdmlib): cleanup and ref #10067 adapt some model constructors javadoc and privacy to bytebuddy
Andreas Müller
04:48 PM Revision 826a35b1 (cdmlib): move AvailableFor to term package
Andreas Müller
04:06 PM Revision 2d7694bf (cdmlib): cleanup
Andreas Müller
01:53 PM Revision 62c42797 (taxeditor): ref #5741: symbol and symbol2 field: add selection box and disable when selected
Katja Luther
09:59 AM Revision f99e2cae (cdmlib): ref #10067 add javassist to dependency management as it is also used by iiif-apis
Andreas Müller

06/16/2022

11:05 PM Revision f5f8c7e7 (cdmlib): ref #10067, ref #10077 remove javassist as bytecode provider from cdmlib (fix pom)
Andreas Müller
10:56 PM Revision 5e6cc79c (cdmlib): minor
Andreas Müller
10:53 PM Revision fbc25777 (taxeditor): cleanup
Andreas Müller
10:46 PM Revision ea704d19 (cdm-vaadin): cleanup
Andreas Müller
10:31 PM Revision da5e6dc7 (cdmlib): cleanup
Andreas Müller
10:29 PM Revision ac512a79 (cdmlib): ref #10067, ref #10077 remove javassist as bytecode provider from cdmlib
Andreas Müller
09:50 PM bug #10075: Fix deserialization exception for bytebuddy base hibernate SerializableProxy
Please review. Andreas Müller
09:50 PM bug #10075: Fix deserialization exception for bytebuddy base hibernate SerializableProxy
Fixed with a workaround by overriding the class net.sf.ehcache.util.PreferredLoaderObjectInputStream which does not c... Andreas Müller
09:47 PM bug #10075 (Resolved): Fix deserialization exception for bytebuddy base hibernate SerializableProxy
Applied in changeset commit:taxeditor|9ee1ca440a5bbe003ed1c34e8abcc9f76ec97533. Andreas Müller
04:50 PM bug #10075: Fix deserialization exception for bytebuddy base hibernate SerializableProxy
it happens in readObject0.readOrdinaryObject.readSerialData.defaultReadFields.readObject0.(TCArray)checkResolve(readA... Andreas Müller
02:51 PM bug #10075 (Closed): Fix deserialization exception for bytebuddy base hibernate SerializableProxy
... this is related to hibernate upgrade to v5.4 (#10067)
This happens when deserializing a org.hibernate.proxy.po...
Andreas Müller
09:47 PM Revision 9ee1ca44 (taxeditor): fix #10075 fix deserialization by overriding PreferredLoaderObjectInputStream from ehcache
Andreas Müller
08:48 PM Revision 15aa7a2c (cdmlib): cleanup
Andreas Müller
08:34 PM task #10077 (New): upgrade ehcache to 3.x
Probably blocked by Spring upgrade to 5.x (#10216).
There is probably a duplicate #9207 which points out size, gro...
Andreas Müller
08:33 PM Revision 35d4b554 (cdmlib): move ehcache from model to service
Andreas Müller
08:30 PM Revision 317ec988 (cdmlib): cleanup
Andreas Müller
05:51 PM Revision f73ae1d9 (cdmlib): ref #10067 add bytecodeprovider handling to CdmApplicationController
Andreas Müller
05:50 PM Revision 107abc23 (cdmlib): cleanup
Andreas Müller
04:42 PM Revision 9fb87bef (cdmlib): ref #10076: fix taxonnodeDto creation for nodes without taxon and parent
Katja Luther
04:40 PM bug #10076: Exception when opening character matrix with classification as root node
This problem appears when the root node of the descriptive dataset is a classification, which has no parent node and ... Katja Luther
04:39 PM bug #10076 (Closed): Exception when opening character matrix with classification as root node
mail Konstantina Koutroumpa:
Dear Katja and Andreas,
I am getting an error when opening the character matrix in...
Katja Luther
11:20 AM bug #8343: potential timezone problem in application stack
Locally I added the timezone to the out put and for http://phycobank.org/100158 the timezone was CEST and for http:/... Katja Luther
09:14 AM bug #8343: potential timezone problem in application stack
Andreas Müller wrote in #note-9:
> Andreas Kohlbecker wrote in #note-8:
> > Andreas Müller wrote in #note-7:
> > > Is...
Katja Luther
08:36 AM feature request #10074 (New): Areas for common names should be a set
mail ERS:
Hallo,
bei der Eingabe von Common Names ist mir gerade aufgefallen, dass es die Möglichkeit geben sol...
Katja Luther

06/15/2022

01:06 PM Revision 3a976bf6 (taxeditor): cleanup
Andreas Müller
12:05 PM Revision 00ee5645 (taxeditor): ref #9359 upgrade maven-antrun-plugin to 3.1.0 in taxeditor
Andreas Müller
12:04 PM Revision 25436749 (taxeditor): cleanup
Andreas Müller
 

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