Activity
From 07/01/2022 to 07/30/2022
07/30/2022
- 11:12 PM feature request #10082 (Closed): Improve formatting for pro parte misapplications
- I checked on https://www.europlusmed.org/cdm_dataportal/taxon/63fead7a-662a-4082-9503-c6ea994c2049 and it looks fine.
- 12:22 AM feature request #10082 (Resolved): Improve formatting for pro parte misapplications
- Now it works in the dataportal, too:
Katja, can you please review. - 10:51 PM bug #10007 (Resolved): fix reindex jobs on jobber
- This is more or less done. Maybe still need to do some cleanup.
- 09:49 PM bug #9979: Flora Greece shows large images
- Andreas Müller wrote in #note-11:
> The method findRepresentations($media) uses strict=true for thumbnail retrieval... - 07:49 PM bug #9979 (In Progress): Flora Greece shows large images
- 06:53 PM bug #9979: Flora Greece shows large images
- The method findRepresentations($media) uses strict=true for thumbnail retrieval. This is dangerous, because in this ...
- 06:46 PM bug #9979: Flora Greece shows large images
- The service which is called by the portal page https://api.cybertaxonomy.org/flora-greece/portal/taxon/8e75f1a8-e7f9-...
- 09:09 PM Revision 90bd882f (cdm-server): Merge branch 'release/5.32.0' into develop
- 09:09 PM Revision 4acfd0c1 (cdm-server): jenkins merging release branch into master (strategy: theirs)
- 09:08 PM Revision 203aade6 (cdm-server): updating poms for branch'release/5.32.0' with non-snapshot versions
- 09:06 PM Revision 093822c6 (cdm-webapp): Merge branch 'release/5.32.0' into develop
- 09:06 PM Revision 38074bbf (cdm-webapp): jenkins merging release branch into master (strategy: theirs)
- 09:05 PM Revision 3df7d64e (cdm-webapp): updating poms for branch'release/5.32.0' with non-snapshot versions
- 09:05 PM Revision 66be2647 (cdm-webapp): jenkins bumping cdmlib.version and cdm.vaadin.version to 5.32.0
- 08:59 PM Revision 086ca01c (cdm-vaadin): Merge branch 'release/5.32.0' into develop
- 08:59 PM Revision 7bed910a (cdm-vaadin): jenkins merging release branch into master (strategy: theirs)
- 08:56 PM Revision cebafd76 (cdm-vaadin): updating poms for branch'release/5.32.0' with non-snapshot versions
- 08:56 PM Revision 97775d78 (cdm-vaadin): jenkins bumping cdmlib.version to 5.32.0
- 08:56 PM Revision d73c0ce8 (cdm-dataportal): Merge branch 'release/5.32.0' into develop
- 08:56 PM Revision 7b01bcab (cdm-dataportal): updating poms for branch'release/5.32.0' with non-snapshot versions
- 08:55 PM Revision c369cd09 (cdm-dataportal): release-preparation: production level css
- 08:55 PM Revision f28c4ae0 (taxeditor): Merge branch 'release/5.32.0' into develop
- 08:55 PM Revision 2c78f50b (taxeditor): Merge branch 'release/5.32.0'
- 08:50 PM Revision 6168faeb (cdmlib): Updating develop poms back to pre merge state
- 08:50 PM Revision 47168d98 (cdmlib): Merge branch 'master' into develop
- 08:50 PM Revision 659f4aae (cdmlib): updating develop poms to master versions to avoid merge conflicts
- 08:50 PM Revision 970ba886 (cdmlib): Merge branch 'release/5.32.0'
- 08:33 PM Revision 24196586 (cdmlib): updating poms for branch'release/5.32.0' with non-snapshot versions
- 08:28 PM Revision 29925b4c (cdm-webapp): jenkins bumping cdmlib.version and cdm.vaadin.version to 5.32.0-SNAPSHOT
- 08:28 PM Revision b7cfa781 (cdm-webapp): updating poms for 5.33.0-SNAPSHOT development
- 08:28 PM Revision 8ab15c36 (cdm-webapp): updating poms for 5.32.0 branch with snapshot versions
- 08:28 PM Revision 1885ffe3 (cdm-webapp): jenkins bumping cdmlib.version and cdm.vaadin.version to 5.33.0-SNAPSHOT
- 08:27 PM bug #10033: For new FeatureTree only uuid is shown in dataportal
- If this is fixed already please add it to the release notes https://dev.e-taxonomy.eu/redmine/projects/edit/wiki/Rele...
- 08:27 PM Revision aa965bd8 (taxeditor): Updated version in pom / project files to taxeditor version : 5.33.0-SNAPSHOT and cdmlib version : 5.33.0-SNAPSHOT
- 08:27 PM Revision 6d39f34f (taxeditor): Updated version in pom / project files to taxeditor version : 5.32.0 and cdmlib version : 5.32.0
- 08:26 PM Revision 54241228 (cdm-vaadin): jenkins bumping cdmlib.version to 5.32.0-SNAPSHOT
- 08:26 PM Revision 7ba7b82c (cdm-vaadin): updating poms for 5.33.0-SNAPSHOT development
- 08:26 PM Revision b5243db3 (cdm-vaadin): updating poms for 5.32.0 branch with snapshot versions
- 08:26 PM Revision b3141578 (cdm-vaadin): jenkins bumping cdmlib.version to 5.33.0-SNAPSHOT
- 08:26 PM Revision b69aaf5b (cdm-dataportal): updating poms for 5.33.0-SNAPSHOT development
- 08:26 PM Revision 5fe24a67 (cdm-server): updating poms for 5.33.0-SNAPSHOT development
- 08:23 PM Revision f3f9d5f9 (cdmlib): updating poms for 5.33.0-SNAPSHOT development
- 08:23 PM Revision 72bf768e (cdmlib): updating poms for 5.32.0 branch with snapshot versions
- 07:54 PM feature request #10083: Add name relationship type "avoids homonym of"/"causes replacement name"
- Before fully closing also check #5655
- 04:20 PM feature request #10083: Add name relationship type "avoids homonym of"/"causes replacement name"
- Dataportal and cdmlight updated commit:cdm-dataportal|bf522fd0e17 and commit:f951f09989936db85
I created a temporary... - 07:10 PM Revision b11ee7b3 (taxeditor): adapt addGrandChildPolytomousKeyNode test but still ignored
- 07:10 PM Revision ed20c18b (taxeditor): reenable readAllPolytomousKeys test
- 07:09 PM Revision c2b55770 (taxeditor): cleanup
- 06:59 PM Revision 6df5928c (cdmlib): cleanup
- 06:58 PM Revision 499e4576 (cdm-dataportal): ref #9979 remove strict size restriction for thumbnails
- 06:57 PM Revision 4a3a8785 (cdm-dataportal): cleanup
- 05:13 PM task #10067: Update to hibernate 5.4 (or higher) and hibernate search 5.11 and lucene 5.5
- Andreas Müller wrote in #note-36:
> Should be resolved. All open issues moved to #10104.
>
> Still need to check ... - 05:05 PM Revision 4fccbc69 (cdmlib): ref #10067 make typed query an hibernate query
- 05:05 PM Revision edf29af6 (cdmlib): ref #10067 test if Query<Object[]> works
- 05:04 PM Revision 114cd073 (cdmlib): cleanup
- 04:32 PM Revision c1d1ac33 (cdm-vaadin): ref #10037 add logging to account registration
- 04:19 PM feature request #5655: [DISCUSS] Do we need further "non xxx" relations?
- I added "is non" to dataportal output commit:cdm-dataportal|bf522fd0e17. Can you please check for cdmlight and close ...
- 03:35 PM Revision 05aa14e7 (cdm-dataportal): ref #10096 fix taxon node status label in dataportal test
- 03:31 PM Revision f951f099 (cdmlib): ref #10083 add avoids homonym of to nonRelNames in cdmlight
- 03:30 PM Revision 8c9ff01f (cdmlib): fix trim of nonRelNames
- 03:30 PM Revision 5f97d803 (cdmlib): cleanup
- 03:19 PM Revision bf522fd0 (cdm-dataportal): ref #10083 add "avoids homonym" and "is not" to dataportal settings
- 02:08 PM bug #10111 (In Progress): Data loss e.g. when entering type information
- 02:08 PM bug #10111: Data loss e.g. when entering type information
- AM:
Hallo Walter,
ich habe mir das jetzt mal angesehen, konnte es erst nicht, dann ein paar Mal quasi direkt hi... - 12:31 AM bug #10111: Data loss e.g. when entering type information
- That the "Source" element is not shown (last mail from WGB) is a known issue handled at #10080
- 12:30 AM bug #10111 (In Progress): Data loss e.g. when entering type information
- Sometimes type information gets lost when entered without immediate saving in type designation element
WGB:
mir... - 12:23 PM Revision d643a800 (taxeditor): fix NPE in InspectSessionsDialog
- 11:13 AM Revision 4a879017 (cdmlib): add PermissionClass for TextualTypeDesignation
- 11:13 AM Revision 7f5726f4 (cdmlib): move object name to beginning in CdmEntityInfo.label
- 11:12 AM Revision 1f8892fb (cdmlib): cleanup
- 10:49 AM Revision b12da30d (taxeditor): cleanup
- 10:32 AM Revision 7fefafde (taxeditor): sort entities by fieldname in InspectSessionsDialog
- 10:30 AM Revision fb74317f (cdmlib): move fieldName to beginning in CdmEntityInfo.label
- 08:58 AM Revision 95f83e6e (cdmlib): ref #10096 adapt cdmLight tests to use current TaxonNodeStatus.label
- 08:48 AM Revision b8fec484 (cdm-dataportal): ref #10096 adapt dataportal tests to use current TaxonNodeStatus.label
- 08:42 AM Revision ba55972b (cdmlib): ref #10096 add short label to TaxonNodeStatus
- 08:39 AM Revision 8a8db6f7 (cdmlib): ref #10096 use longer form for TaxonNodeStatus labels
- 01:27 AM Revision 9a7edb27 (cdm-dataportal): ref #10096 adapt some failing tests related to TaxonNodeStatus label and ordering (cont.)
- 01:12 AM Revision 2c16778b (cdm-dataportal): cleanup
- 01:12 AM Revision b7997734 (cdm-dataportal): ref #10096 adapt some failing tests related to TaxonNodeStatus label and ordering
- 12:09 AM feature request #10110: Show barcode also on PreservedSpecimen General details element not only on specific element
- Please review.
- 12:05 AM feature request #10110 (Resolved): Show barcode also on PreservedSpecimen General details element not only on specific element
- Applied in changeset commit:taxeditor|bbebd47509e2bf94b059147209e53209836558b6.
- 12:05 AM Revision bbebd475 (taxeditor): fix #10110 move barcode to general page
- 12:04 AM Revision bc54c30f (taxeditor): cleanup
07/29/2022
- 11:51 PM feature request #10110 (Closed): Show barcode also on PreservedSpecimen General details element not only on specific element
- WGB:
in diesem Formular ist der barcode erst auf der letzten Seite zu finden; im Bulk Editor und bei der EIngabe v... - 10:39 PM feature request #10082: Improve formatting for pro parte misapplications
- In dataportal it does not work yet as symbol is always rendered to "left" and "block", not "inline". I try new tagtyp...
- 09:29 PM feature request #10082: Improve formatting for pro parte misapplications
- In TaxEditor it works
- 08:15 PM feature request #10082 (In Progress): Improve formatting for pro parte misapplications
- implemented in formatter, still need to check how this looks like on a taxon page
- 10:35 PM Revision 8436c9db (cdmlib): use inlineSymbol not symbol for splitted symbol
- 10:35 PM Revision 0419bfc2 (cdmlib): cleanup
- 09:28 PM Revision c41902de (cdmlib): cleanup and javadoc
- 09:27 PM Revision a8eb51e8 (cdmlib): ref #10082 split MAN pro parte symbol in formatter (cont.)
- 09:00 PM Revision c5e7d4d0 (taxeditor): ref #10096 fix placement notes label in default messages
- 08:53 PM bug #10084 (Resolved): Adding a new specimen to character matrix fails
- It looked to me as you did not yet revert, so I tried to do this by commit:78d9e692 . Please review. I already checke...
- 08:49 PM task #10109 (New): Investigate best practice for HQL with enumset
- Sine #7957 we use EnumSets as types. Hibernate mapping is implemented in EnumSetUserType class. The open issue here i...
- 08:14 PM Revision 7d75bc7a (cdmlib): ref #10082 split MAN pro parte symbol in formatter
- 08:14 PM Revision ced7583b (cdmlib): cleanup
- 07:40 PM Revision 7fff6c03 (cdmlib): cleanup (rename reverse->inverse)
- 07:30 PM Revision ca31f2e6 (cdmlib): ref #10096 add correct UTF8 for status unresolved
- 07:29 PM Revision c22f14af (cdmlib): javadoc
- 07:13 PM bug #10080: Source Element sometimes does not appear after selecting a new designation status and after creating a new type designation
- Has this been reported by a user? If yes please add as watcher.
- 07:13 PM bug #10080: Source Element sometimes does not appear after selecting a new designation status and after creating a new type designation
- I got an NPE when changing to no status:
~~~
last remote method : https://test.e-taxonomy.eu:443/cdmserver/rem_co... - 07:07 PM bug #10080: Source Element sometimes does not appear after selecting a new designation status and after creating a new type designation
- To me it happens also after changing to other designation status therefore I adapted the title.
The workarounds se... - 07:03 PM Revision 16512021 (taxeditor): ref #10080 fix NPE when changing TypeDesignationStatus to NO_SELECTION
- 07:02 PM Revision 121b5aa2 (taxeditor): cleanup
- 06:26 PM bug #10078 (Resolved): Symbol and details view title of misapplied name type is not the same as shown in the type combo element
- I give this to me for updating data after the release. Give back to KL for cleanup and close afterwards.
- 06:21 PM bug #9007 (Resolved): Enable i18n support for media description UI
- I guess this is solved and can be closed? Remaining issues copied to new tickets. Please move back to original milest...
- 06:19 PM bug #10108 (Closed): Description for MediaSpecimen not shown even if it exists (i18n)
- copied from #9007#note-11
* the description is not available at all (but there might be data if the media reused a... - 06:16 PM bug #10107: i18n bug when editing media not having a default language title
- priority needs to be discussed
- 06:15 PM bug #10107 (Closed): i18n bug when editing media not having a default language title
- copied from #9007#note-11
i18n editing of the title is not available here, and to me it looks like when editing t... - 06:05 PM feature request #8777: Make visiblity of CDM Source configurable
- Query to find example:
~~~
SELECT *
FROM OriginalSourceBase osb INNER JOIN DescriptionElementBase deb ON deb.id ... - 03:38 PM feature request #8777 (Resolved): Make visiblity of CDM Source configurable
- Andreas Müller wrote in #note-5:
> Andreas Müller wrote:
> > ... hmm, maybe an even better solution is to show the ... - 05:47 PM bug #10101: Correct mapping and handling of sorted tree structures
- Finding duplicates:
~~~
SELECT pkn.key_id, pkn.parent_id, pkn.sortindex, COUNT(*) AS n
FROM PolytomousKeyNode pkn
GR... - 02:15 PM bug #10101: Correct mapping and handling of sorted tree structures
- Comment from onMerge in PostMergeEntityListener:
~~~
Added in context of working on #10101, it was unclear to me... - 02:05 PM bug #10101: Correct mapping and handling of sorted tree structures
- I removed the HHH_9751_Util class as it is currently not used anymore, please recreate from commit:cb923587ce746 and ...
- 01:36 PM bug #10101 (In Progress): Correct mapping and handling of sorted tree structures
- I added tests for mergeDetached and saveDetached on nodes and trees and with removal and move of nodes to PolytomousK...
- 03:39 PM Revision 6f5e7139 (taxeditor): ref #8777 try to filter CDM Source in Original Sources if no data exist (it is read only)
- 03:33 PM Revision 6aef0d5d (taxeditor): remove deproxy
- 03:31 PM Revision 09abc656 (taxeditor): ref #10101 remove HHH_9751 from TaxEditor
- 03:29 PM feature request #10081 (Resolved): Show name in source for sec ref of accepted taxon
- Please still remove the whitespace (see #note-13 and review the cdmlight implementation). Then we can close the ticket.
- 03:26 PM bug #10034 (Closed): Flat feature tree throws exception
- 03:26 PM bug #10034: Flat feature tree throws exception
- Moved open issues to #10053 and close this ticket.
- 03:25 PM bug #10106 (New): Open issues from feature tree editing
- copied from #10034#note-7
However, the labeling of the tree still behaves strange sometimes. If you add a child th... - 03:20 PM Revision caafa683 (taxeditor): ref #10096 use symbol for taxon node status, not ASCII
- 03:18 PM Revision f8bc707d (taxeditor): cleanup
- 03:09 PM task #10072: Upgrade fully to log4j2
- I also had problems installing the correct logging when running cdmlib test in IDE (here tests in cdmlib-services). T...
- 03:08 PM task #10072: Upgrade fully to log4j2
- TaxEditor issue moved to new ticket #10105.
- 03:07 PM bug #10105 (New): Fix logging in TaxEditor after migration to log4j 2
- for details see #10072#note-15
There are error message when starting the editor. Also in tests.
log4j-slf4j-im... - 03:03 PM bug #10033 (Feedback): For new FeatureTree only uuid is shown in dataportal
- Are there still open issues?
- 02:57 PM bug #10071 (Feedback): TaxonNodeDtos should be created directly not from taxon objects
- Is this fixed?
- 02:55 PM Revision 01d4b08d (cdmlib): fix TaxonNodeServiceImplTest.testSaveDetached
- 02:36 PM task #10067 (Resolved): Update to hibernate 5.4 (or higher) and hibernate search 5.11 and lucene 5.5
- Should be resolved. All open issues moved to #10104.
Still need to check the
~~~
TypedQuery<String[]>
~~~
issue. - 02:34 PM task #10104 (New): Cleanup after hibernate v5.4.33 migration
- for details see #10067 . Some cleanup is still needed.
Open issues are:
* Check for Queries with TypeQuery<Stri... - 02:17 PM Revision d80bd653 (cdmlib): ref #10067 adapt KeywordAnalyzer handling to v5.4.33 (only used for TaxonName.nameCache)
- 02:13 PM Revision 1aa6c88f (cdmlib): ref #10101 delegat onMerge(event) to onMerge(event, alreadyCopied) in PostMergeEntityListener
- 02:06 PM task #8127: [Reminder] to check if Hibernate Null Value bug still exists
- I removed the HHH_9751_Util class as it is currently not used anymore, please recreate from commit:cb923587ce746 and ...
- 12:54 PM task #8127 (Discussed): [Reminder] to check if Hibernate Null Value bug still exists
- The PolytoumsKey loading issue seems to be solved in TaxEditor by fixes done for #10101. However, the tests created f...
- 02:04 PM Revision cb923587 (cdmlib): ref #10101, ref #8127, ref #3722, ref #5536 remove HHH_9751_Util class as it is not used anymore
- 02:01 PM Revision 500e20cf (cdmlib): cleanup
- 02:00 PM Revision e5477781 (cdmlib): ref #10101 removed cascade from TermNode.parent, not needed and probably also not correct
- 01:57 PM Revision 3ad25ffd (cdmlib): ref #10101 removed cascade from TermRelationBase.graph, not needed and probably also not correct
- 01:55 PM Revision 520f2d6d (cdmlib): ref #10101 add testSaveDetachedWithMove test to PolytomousKeyNodeServiceTest
- 01:54 PM Revision 78d9e692 (cdmlib): ref #10084 revert filtering by description type in query, needs further investigation
- 01:54 PM Revision 13b70d09 (cdmlib): ref #10084 adapt query to TypedQuery
- 01:53 PM Revision ecbb164c (cdmlib): cleanup
- 01:25 PM Revision 63e1c600 (cdmlib): ref #10101 add saveDetached tests to PolytomousKeyNodeServiceTest (and replace save by merge in other tests)
- 01:23 PM Revision d5e92c4b (cdmlib): ref #10101 add (partly ignored) tests to TaxonNodeServiceImplTest and TermNodeServiceImplTest
- 12:38 PM Revision 4e5b8da0 (cdmlib): ref #10096 adapt cdmlight test to longer taxon node status labels
- 12:34 PM feature request #10103 (New): Add "Included" as default status to taxon node status
- Needs update script for existing data.
For details see #10096 - 12:32 PM feature request #10096: Add new TaxonNode status and make notes field more general
- AM:
ich habe das jetzt mal implementiert. Es sollte im nächsten Release (vermutlich noch diese Woche) drin sein.
... - 12:08 PM Revision 378498f3 (cdmlib): ref #10096 add long labels to TaxonNodeStatus and add commented default status
- 11:09 AM bug #10102 (Closed): Non-names formatted in italics
- WGB:
mir ist eben dann auch aufgefallen, dass die „non“-Namen nicht kursiv formatiert werden:
− <i>Achyranthes<... - 01:04 AM Revision b45cb977 (cdmlib): cleanup
07/28/2022
- 10:13 PM Revision 4efb0c4a (cdmlib): ref #10101 catch and log no-session exception in PostMergeEntityListener instead of removing initialization completely
- 09:34 PM Revision ccd3aaab (cdmlib): ref #10101 again preliminary remove children initialization in PostMergeEntityListener
- 08:59 PM Revision 4263e86b (cdmlib): return false in finally again, just in case this is important
- 08:36 PM Revision 031c8642 (cdmlib): ref #10101 add the childNodes touche for TaxonNode and TermNode again in PostMergeEntityListener
- 08:02 PM Revision 9f707aab (cdmlib): ref #10101 preliminary remove children initialization in PostMergeEntityListener
- 07:27 PM Revision 96326c59 (cdmlib): ref #10101 adapt PolytomousKeyNodeServiceTest to new orphaned delete method in services
- 07:20 PM Revision 472c6b76 (cdmlib): cleanup and allow merge with objectsToRemove in all services
- 06:24 PM Revision 2c08ec06 (cdmlib): ref #10101 add sortindex fix to taxon node and term node, too
- 06:23 PM Revision 93d9d454 (cdmlib): ref #10101 fix sortindex gaps in polytomous key merge
- 06:08 PM Revision 53f3deea (cdmlib): add cleansweep to PolytomousKeyNodeServiceTest tests
- 05:52 PM Revision 64ac4a3d (cdmlib): javadoc
- 05:52 PM Revision cf36c59d (cdmlib): ref #10101 fix possbile null value in refreshNodeNumbering
- 05:33 PM bug #10101: Correct mapping and handling of sorted tree structures
- Code comment from PostMergeEntityListener.java:
~~~
// #10101 the following code tried to handle orphanRemoval for ... - 09:25 AM bug #10101 (In Progress): Correct mapping and handling of sorted tree structures
- We currently have 3 sorted tree structures in the CDM: Classifications, TermTrees and PolytomousKeys.
The correct ... - 05:28 PM Revision e1284d9a (cdmlib): cleanup
- 05:26 PM Revision 794f69f0 (cdmlib): javadoc
- 05:25 PM Revision e6cd93a9 (cdmlib): ref #10101 add commented implementation for trying to handle orphan removal in the PostMergeEntityListener
- 04:48 PM Revision ae0e8692 (cdmlib): handle non-persisted objects in delete()
- 04:47 PM Revision 8f79b3aa (cdmlib): ref #3722, ref #8127, ref #5536, ref #10101 adapt test for removing PKNode and add new test for moving node and add LIE handling for node removal
- 04:45 PM Revision 0e628c63 (cdmlib): cleanup
- 04:40 PM Revision 28f29426 (cdmlib): add logging for exceptions in CdmPreDataChangeListener
- 02:05 PM Revision 8b07f256 (cdmlib): ref #10101 add some javadoc
- 10:50 AM Revision 60a7c724 (cdmlib): cleanup
- 12:47 AM Revision 473eee48 (cdmlib): ref #3722, ref #8127, ref #5536 preliminary make TermNode.children not orphanRemoval again
- 12:47 AM Revision edd423cc (cdmlib): cleanup
- 12:29 AM Revision a405f029 (cdmlib): ref #3722, ref #8127, ref #5536 remove sortIndex field check from SortIndexUpdaterWrapperTest
07/27/2022
- 11:59 PM Revision 322a51fd (cdmlib): cleanup
- 11:44 PM Revision 7161f1ec (cdmlib): ref #3722, ref #8127, ref #5536 preliminary make TaxonNode.children not orphanRemoval again
- 09:26 PM Revision 3bfeb049 (cdmlib): ref #3722, ref #8127, ref #5536 remove sortindex in jaxb annotations for tree lists
- 09:08 PM Revision 88b53ac2 (cdmlib): ref #3722, ref #8127, ref #5536 add test for PKNode merge
- 09:06 PM Revision 84e9fe95 (cdmlib): cleanup and javadoc
- 09:04 PM Revision fda2a953 (cdmlib): remove cascade to parent and key
- 09:02 PM Revision 221668f1 (cdmlib): add cascade delete to PK->PKNroot
- 08:56 PM Revision c8d47a7c (cdmlib): ref #3722, ref #8127, ref #10067, ref #5536 add orphan removal to ordered lists to avoid null value, sortindex and record not deleted issues
- 08:44 PM Revision 6e43909b (cdmlib): move children up to parent in code
- 02:55 PM Revision 688d7e78 (cdmlib): cleanup
- 02:52 PM Revision 54e0164b (cdmlib): ref #8127 reenable null value removal in Util class
- 10:09 AM task #8127 (Feedback): [Reminder] to check if Hibernate Null Value bug still exists
- Issue is not yet solved. There are still issues when merging/loading PolytomousKeyNodes, see #3722#note-14 and follow...
- 09:38 AM Revision 5e19d1f7 (cdmlib): ref #3722, ref #8127, ref #10067 fully remove sortindex and OrderBy comments
- 09:36 AM Revision f0562fe4 (cdmlib): cleanup
- 09:13 AM task #3722 (Closed): Using @OrderColumn does not work in trees
- This ticket is more about @OrderColumn generally does not work which is not the case. The remaining issue is a NULL-V...
- 01:48 AM feature request #10082 (Discussed): Improve formatting for pro parte misapplications
- 01:04 AM Revision 37eb6de9 (cdmlib): ref #10096 unified taxon node status handling during taxon node comparison (cont. II)
- 12:11 AM Revision 5e11051d (cdmlib): cleanup
- 12:11 AM Revision 97bed710 (cdmlib): ref #10096 unified taxon node status handling during taxon node comparison (cont.)
07/26/2022
- 11:55 PM Revision 00a1c85b (cdmlib): ref #10096 unified taxon node status handling during taxon node comparison
- 11:54 PM Revision 92ccbc3f (cdmlib): cleanup with minor change in TaxonNodeNaturalComparator
- 10:45 PM feature request #10057 (Resolved): Add "accessed" field to OriginalSourceBase
- This is implemented now in model and first implementations for OriginalSourceFormatter and TaxonBaseDefaultCacheStrat...
- 10:37 PM Revision 3bc75586 (taxeditor): ref #10057 allow accessed for all dynamic references
- 10:36 PM Revision 29de0400 (taxeditor): ref #10057 add accessed to OriginalSourceElements (still without update when citation type changes)
- 10:34 PM Revision 34445b96 (taxeditor): move handleEvent to base class in AbstractOriginalSourceElement
- 10:30 PM Revision 4c59a7ab (taxeditor): cleanup
- 09:33 PM Revision d8064d70 (taxeditor): fix externalLinks comparator (uri1 was compared to itself => always equal) and simplify it
- 09:27 PM Revision 79c0d0e3 (taxeditor): cleanup
- 08:32 PM Revision 11b37ac4 (cdmlib): ref #10057 fix detail only in OriginalSourceFormatter
- 08:07 PM Revision c024175d (cdmlib): ref #10057 adapt TaxonBaseDefaultCacheStrategy to secSource.accessed
- 07:52 PM Revision 4ff0780d (cdmlib): ref #10057 adapt OriginalSourceFormatter to source.accessed (partly preliminary)
- 07:51 PM Revision 91b8f506 (cdmlib): ref #10057 add IDynamicReference
- 07:48 PM Revision 23a7acba (cdmlib): cleanup
- 04:21 PM feature request #10096: Add new TaxonNode status and make notes field more general
- @Katja: can you please also have a look why there are 3 messages.properties that seem to hold the same values (in tax...
- 04:18 PM feature request #10096 (Resolved): Add new TaxonNode status and make notes field more general
- This should be fixed now. Katja, can you please review when back.
Please also have a look to the changes in TaxEdi... - 12:57 PM feature request #10096 (In Progress): Add new TaxonNode status and make notes field more general
- Status added and cdmlight adapted. Still need to test in taxeditor and dataportal.
- 11:05 AM feature request #10096: Add new TaxonNode status and make notes field more general
- WGB:
ich habe eine Diskussion aus dem Mai 2020 wieder aufgegriffen, da ich dringend eine Erweiterung des Placement... - 10:58 AM feature request #10096: Add new TaxonNode status and make notes field more general
- For details see attachement.
- 04:15 PM Revision 847947ba (taxeditor): cleanup
- 04:15 PM Revision 75f1593a (taxeditor): ref #10096 allow notes for all taxon nodes and rename STATUS_NOTES to PLACEMENT_NOTES
- 03:44 PM task #10100 (New): Rename statusNote into placementNote in TaxonNode
- ... for details see #10096
This is the model change ticket only. - 01:42 PM Revision 52369fe9 (cdmlib): cleanup
- 01:41 PM Revision dfc2be4b (cdmlib): ref #10096 fix cdmlight export test for taxon node status
- 01:04 PM Revision 1a15c467 (cdmlib): ref #10096 fix placement status and handle missing status as null (not "included")
- 01:02 PM Revision f2e4d29b (cdmlib): ref #10096 add placement status to cdmlight export as string
- 12:59 PM Revision e9d963ac (cdmlib): ref #10096 add excluded only to cdmlight export
- 12:56 PM Revision 4b7eaca0 (cdmlib): ref #10096 adapt cdmlight to new taxon node status and rename status notes to placement notes
- 12:55 PM Revision 271e9937 (cdmlib): ref #10096 add new taxon node status to TaxonNodeStatus and TaxonNode getters
- 12:54 PM Revision efebc4fc (cdmlib): javadoc and cleanup
- 10:16 AM task #10099 (New): Try to use log4j instead of logback in CDM server
- To avoid another framework on the classpath. Maybe this is possible now with log4j 2.
See eu.etaxonomy.cdm.server.... - 10:10 AM task #10072: Upgrade fully to log4j2
- There is still an issue with log4j-slf4j-impl in TaxEditor. For some reason it is not recognized as existing library ...
- 10:03 AM Revision 48155f47 (taxeditor): ref #9359 revert to older JavaAPIforKml in taxeditor (cont.)
- 12:26 AM Revision 649e1510 (taxeditor): ref #9359 revert to older JavaAPIforKml in taxeditor
- 12:19 AM Revision a5947b9d (cdmlib): ref #9359 finally revert JavaAPIforKml again
07/25/2022
- 11:55 PM Revision d35fdd42 (cdmlib): ref #9359 revert JavaAPIforKml again
- 11:10 PM Revision 734e4ac1 (taxeditor): ref #10072 fig build path and fully remove log4j-slfj-impl
- 10:59 PM Revision bf042c15 (taxeditor): ref #10072 second try to get log4j-slf4j-impl running in taxeditor
- 10:48 PM Revision 8118ae16 (taxeditor): ref #10072 remove log4j-slf4j-impl-2.18.0 from build.properties
- 10:46 PM Revision 21818529 (cdmlib): ref #9359 revert upgrading of JavaAPIforKml
- 10:44 PM Revision 27d0564b (taxeditor): cleanup
- 10:44 PM Revision cd536e0b (taxeditor): ref #10072 last try to get log4j-slf4j-impl running in taxeditor
- 10:26 PM Revision baf3f9ee (taxeditor): ref #10009, ref #10072, ref 9359 remove log4j-1.2.17 from taxeditor.local/lib
- 10:14 PM Revision 42fa0ffe (taxeditor): ref #10009, ref #10072, ref 9359 fully upgrade log4j to 2.18.0 in taxeditor and adapt import in local and gitignore
- 09:37 PM Revision a7170c6a (taxeditor): ref #10009, ref #10072, ref 9359 upgrade log4j to 2.18.0 in taxeditor.local
- 09:35 PM Revision 55eaa9e4 (taxeditor): cleanup
- 07:53 PM Revision 4ea5120d (taxeditor): ref #10009, ref #10072, ref 9359 upgrade log4j to 2.18.0 in taxeditor
- 07:44 PM Revision 9bdb596f (taxeditor): cleanup
- 07:44 PM Revision 25617a21 (taxeditor): ref #9359, ref #10009 add and upgrade JavaAPIforKml to version 3.0.1 from uk.m0nom in taxeditor (cont.)
- 07:43 PM Revision 662e077a (taxeditor): ref #10009, ref #10072 add log4j-slf4j to taxeditor
- 07:26 PM Revision 1c1f1876 (taxeditor): ref #9359, ref #10009 remove unused dependencies in taxeditor
- 07:24 PM Revision 27a68076 (taxeditor): ref #9359, ref #10009 add and upgrade JavaAPIforKml to version 3.0.1 from uk.m0nom in taxeditor
- 07:21 PM Revision e7cbe266 (cdmlib): ref #9359 try to upgrade JavaAPIforKml to version 3.0.1 from uk.m0nom
- 06:36 PM task #10009: Cleanup dependencies in TaxEditor
- The following dependencies were used in prior version but are currently not on the classpath:
~~~
lib/aspectjr... - 06:32 PM Revision 327a8f12 (taxeditor): minor
- 06:25 PM Revision 8102eff6 (taxeditor): ref #100009 re-attach mchange-commons-java to enable datasource dialogue finish button and error handling for button
- 06:23 PM Revision 5a9a3068 (taxeditor): cleanup
- 04:48 PM task #9975: Create new UML diagramms for the CDM
- java->uml generation is documented at: https://www.umldesigner.org/ref-doc/umlgen.html (Java to UML)
- 04:45 PM task #9975 (Discussed): Create new UML diagramms for the CDM
- There is a new repository for all platform UML documentation at ssh://git@dev.e-taxonomy.eu/var/git/platform.git .
... - 03:41 PM Revision d4090aec (cdmlib): cleanup and javadoc
- 12:40 PM Revision fd4bf415 (cdm-dataportal): ref #10097 changes originalNameString->originalInfo in dataportal
- 12:39 PM Revision 6958ddc3 (cdm-dataportal): cleanup
07/23/2022
- 12:49 AM bug #9785 (Closed): Update script for missing measurment unit_ids (matrix)
- I guess this worked. If we still find a database with non-updated data we should update manually.
- 12:43 AM feature request #9906: Implement credits in dataportal
- Model was adapte. Now we can implement in dataportal. Maybe we can do this during the performance sprint.
- 12:41 AM feature request #9908 (Closed): Add timeperiod to credits
- Implemented. Now we still need implementation in TaxEditor (#10098) and dataportal (#9906)
- 12:39 AM feature request #10098 (Closed): Implement timePeriod for Credit in TaxEditor
- see #9908 and #9906 for details
- 12:37 AM feature request #10097 (Closed): Rename originalNameString to originalInfo
- I guess this worked
- 12:36 AM Revision df9935a6 (taxeditor): ref #10097 adapt originalNameString in taxeditor test
- 12:33 AM bug #9901 (Closed): Remove unique key Media_RightsInfo.rights_id
- I guess this worked. I did not find any db with a uk-index only fk.
- 12:27 AM bug #9830 (Closed): México Distrito Federal needs accent
- Tested on integration_palmae
- 12:10 AM Revision ee5a4c23 (taxeditor): ref #9908 adapt credits in taxeditor
- 12:09 AM Revision 50e674c4 (taxeditor): ref #10097 adapt originalNameString in taxeditor
07/22/2022
- 11:52 PM Revision b0675ba2 (cdmlib): adapt remote-webapp update path
- 11:52 PM Revision 4e2549d4 (cdmlib): adapt testH2 in remote-webapp
- 11:52 PM Revision 7cfdd498 (cdmlib): minor
- 11:52 PM Revision 5fbe7632 (cdmlib): ref #9785 fix SimpleSchemaUpdaterStep for error recovering
- 11:52 PM Revision 773534c5 (cdmlib): javadoc
- 11:52 PM Revision e16caaca (cdmlib): ref #10075, ref #9908 adapt test sql for OriginalSourceBase.accessed and Credits.timePeriod
- 11:52 PM Revision e6e7d41e (cdmlib): ref #10057 fix equalsShallowCompare in OriginalSourceBase
- 11:52 PM Revision 31598149 (cdmlib): ref #10057 fix isEmpty in OriginalSourceBase
- 11:51 PM Revision ce4dc9cf (cdmlib): update TestModelUpdater
- 11:51 PM Revision 5d5f629d (cdmlib): ref #9785 fix update script for measurement unit_ids
- 11:51 PM Revision 3720c2d4 (cdmlib): cleanup
- 11:51 PM Revision 9864b061 (cdmlib): ref #10097 add columnNameChanger for originalNameString to update script
- 11:51 PM Revision d05f8da0 (cdmlib): move CdmUpdater to new model version
- 11:51 PM Revision a80e5885 (cdmlib): ref #10057 add accessed field to OriginalSourceBase (cont., fullDataGenerator)
- 11:51 PM Revision 9d0815af (cdmlib): ref #9908 additional changes for Credit.timePeriod
- 11:51 PM Revision 2448aba7 (cdmlib): cleanup
- 11:51 PM Revision c4edd027 (cdmlib): ref #10057 add accessed field to OriginalSourceBase (cont., adapt clone, equals and isEmpty)
- 11:51 PM Revision 22847976 (cdmlib): ref #9908 add timePeriod to Credit
- 11:51 PM Revision 3783f232 (cdmlib): fix #9785 Update script for missing measurement unit_ids (matrix)
- 11:51 PM Revision 99637f24 (cdmlib): fix #9830 update México Distrito Federal label (add accent)
- 11:51 PM Revision b1e4eb3c (cdmlib): ref #9901 remove Media_RightsInfo.rights_id index
- 11:51 PM Revision c97ec7dd (cdmlib): ref #10097 adapt dataset.dtd (was incorrect before model change already)
- 11:50 PM Revision 89d135c6 (cdmlib): ref #10057 add accessed field to OriginalSourceBase
- 11:50 PM Revision 9c021029 (cdmlib): ref #10097 change originalNameString to originalInfo in cdmlib
- 11:50 PM Revision 8b57b93c (cdmlib): ref #10083 update script for blocking reverse label and schema updater for v5.32
- 11:38 PM Revision fceb01fb (taxeditor): adapt testH2 in taxEditor
- 11:38 PM Revision b2d2bb15 (cdm-vaadin): ref #10097 rename originalNameString to originalInfo in vaadin
- 11:37 PM Revision 5bbf59c3 (cdm-vaadin): adapt testH2 in vaadin
- 11:03 PM Revision e81d1360 (cdmlib): minor
- 10:47 PM Revision 0106eeef (cdm-vaadin): cleanup
- 07:39 PM feature request #10097 (Resolved): Rename originalNameString to originalInfo
- Resolved in cdmlib and probably also in dataportal and vaadin, but still needs adaptation in taxEditor
- 03:34 PM feature request #10097: Rename originalNameString to originalInfo
- Original Doumentation from DescriptionElementSource:
~~~
* The use of "originalNameString" within a DescriptionE... - 03:21 PM feature request #10097 (Closed): Rename originalNameString to originalInfo
- ... as we agreed on storing all kind of original (verbatim) information in this field, not only taxon names.
- 06:29 PM feature request #9908 (Resolved): Add timeperiod to credits
- Class adapted and update script written.
- 05:45 PM bug #9785 (Resolved): Update script for missing measurment unit_ids (matrix)
- Update script written
- 05:12 PM bug #9830 (Resolved): México Distrito Federal needs accent
- update script added
- 05:00 PM bug #9901 (Resolved): Remove unique key Media_RightsInfo.rights_id
- 04:56 PM feature request #10057 (In Progress): Add "accessed" field to OriginalSourceBase
- Model change done (not yet tested). Still needs cache strategy update and TaxEditor adaptation. Also maybe in Phycoba...
- 04:37 PM Revision cdda449c (cdmlib): cleanup
- 02:50 PM Revision e3cea6b7 (cdmlib): fix log4j.xml
- 02:21 PM Revision 7a227ac8 (cdm-vaadin): cleanup
- 02:06 PM Revision f89ecd52 (cdm-vaadin): ref #10072 some adaptations for setLevel in vaadin
- 02:05 PM Revision 19920347 (cdm-dataportal): ref #10072 dome adaptations for setLevel in dataportal
- 02:05 PM Revision b4229a50 (cdmlib): cleanup and javadoc
- 02:04 PM Revision c8384ed5 (cdmlib): ref #10072 new methods for logging with deviating levels and reduce using of setLevel in production code
07/21/2022
- 07:08 PM bug #10044 (Closed): Maps in Flore Du Gabon are broken
- I reimported all data (#10092) and (afterwards) moved all textdata based distribution to "Distribution (General)" and...
- 07:02 PM task #10009 (Resolved): Cleanup dependencies in TaxEditor
- Seems to work but still needs intensive testing and maybe some cleanup.
- 06:58 PM task #10072: Upgrade fully to log4j2
- Can you please review and maybe work on the **clean up** open issues a bit so we get clean code soon.
- 04:06 PM task #10072 (Resolved): Upgrade fully to log4j2
- More or less solved.
Open issues:
* ~~handl setLevel() better (see current workaround in cdmlib-commons LogUtils cl... - 06:36 PM Revision 97ed1eda (cdm-server): ref #10055 add TODO in LoggingConfigurator
- 06:22 PM Revision ea3c5378 (cdm-dataportal): ref #10072, ref #9359 adapt log4j2 properties files in dataportal
- 06:05 PM Revision da72c9e9 (cdm-vaadin): cleanup and upgrade requiredMavenVersion
- 06:02 PM Revision 356c6915 (cdm-vaadin): ref 10072 remove LoggingConfigurer from vaadin
- 06:01 PM Revision 8bd9e993 (cdm-vaadin): ref 10072 remove log4j12 from vaadin and adapt log4j properties
- 05:48 PM task #9205 (Resolved): Remove apache-log4j-extras from TaxEditor dependencies
- This should be fixed with adapting TaxEditor to log4j2 and adapting the according log4j.properties
Please review. - 05:46 PM Revision 282212d6 (taxeditor): ref 10072 remove log4j12 and apache-log4j-extras from taxeditor and adapt log4j properties
- 04:53 PM bug #10090: Many LIEs in cdmserver log for Team.getCollectorTitleCache()
- Should be fixed. Please review.
- 04:52 PM task #10095 (Closed): Synchronize dependency versions in CdmServer
- 04:04 PM task #10095 (Resolved): Synchronize dependency versions in CdmServer
- This is mostly done except for aopalliance which will be removed automatically when upgrading to spring 5.x
- 04:51 PM feature request #10096 (Discussed): Add new TaxonNode status and make notes field more general
- 04:51 PM feature request #10096 (Closed): Add new TaxonNode status and make notes field more general
- Add taxon node status
* Excluded geo., øg (geographically out of scope); specification of excluded status
* Exclu... - 03:57 PM Revision dcb656c3 (cdmlib): ref #9359, ref 10095 try to remove xpp3 from cdmlib
- 03:56 PM Revision b0a7a43f (cdmlib): ref #9359 re-add javax.el-api as it is still needed hibernate-validation
- 03:34 PM Revision 67cc9bcd (cdm-server): test fixed length logging
- 03:19 PM Revision a67ce6e0 (cdm-server): test date and context logging
- 02:48 PM Revision 542ec6f1 (cdmlib): cleanup
- 02:48 PM Revision c36bdb95 (cdmlib): ref #10072, ref #9359, ref 10095 remove slf4j-nop from cdmlib
- 02:43 PM Revision 5d8ad42c (cdmlib): ref #10072 adapt integration test parameter name for log4j as it seems to be incorrect and switch from properties to log4j.xml there
- 02:41 PM Revision 116b3cae (cdmlib): ref #9359 javax.el-api from dependency management as it is not used anymore
- 02:40 PM Revision 1400461e (cdmlib): ref #10072, ref #9359 fully remove LoggingConfigurer as it is not adaptable to log4j2 and not used anymore (cont.)
- 02:10 PM Revision 8f45b947 (cdmlib): ref #10072, ref #9359 fully remove LoggingConfigurer as it is not adaptable to log4j2 and not used anymore
- 02:04 PM Revision ebfc034b (cdm-server): javadoc
- 02:04 PM Revision 78b0be7f (cdm-server): ref #9359, ref #10095 try to remove jakarta.el-api as apache-el is already on classpath in cdmserver
- 12:55 PM Revision 4309262f (cdm-server): ref #9359 replace javax.el-api by jakarata.el-api
- 12:54 PM Revision e985fe42 (cdm-server): cleanup
- 12:44 PM Revision feca66ca (cdm-server): ref #9359, ref #10072 add log4j2 to LoggingConfigurator in cdmserver
- 11:35 AM Revision a12dab80 (cdm-server): ref #9359, ref #10072, ref #10095 revert logging to logback classic for now and adapt correct handling for log4j in cdmserver
- 09:54 AM Revision 8c7f1b66 (cdmlib): ref #9359 upgrade to 3.0.6 for mariadb-java-client in cdmlib
- 09:54 AM Revision 95604162 (cdmlib): cleanup
- 09:51 AM Revision eb123a17 (cdm-server): ref #10095 remove old el-impl version from cdmserver
- 09:51 AM Revision d007e0a6 (cdm-server): cleanup
- 09:50 AM Revision b8c89622 (cdm-server): ref #9359, ref #10072, ref #10095 use log4j2 in cdmserver
- 12:42 AM Revision c269a0d9 (cdmlib): ref #10072 change log4j.properties to log4j.xml in remaining cdmlib modules
07/20/2022
- 11:49 PM Revision 6d3e493d (cdmlib): ref #10072 change log4j.properties to log4j.xml in commons, model, persistence and services
- 07:30 PM Revision 1f913edc (cdm-vaadin): ref #9359 try to remove springmodules from vaadin
- 07:25 PM Revision f2c2c233 (cdmlib): cleanup
- 07:24 PM Revision 29192aec (cdmlib): ref #10072, ref #9359, ref #10095 remove commons-logging from xmlgraphics.fop
- 07:00 PM Revision 216ea5a9 (cdmlib): javadoc
- 06:59 PM Revision 9120a89a (cdmlib): ref #10072, ref #9359, ref #10095 remove commons-logging from unitils-core and commons-beanutils
- 06:58 PM Revision e1efda1a (cdmlib): ref #10072 use log4j for slf4j in cdmlib-commons already
- 06:50 PM Revision d1e4062e (cdmlib): ref #10072, ref #9359, ref #10095 replace commons-logging by jcl-over-slf4j (cont., move jcl-over-slf4j to cdmlib-commons)
- 06:45 PM Revision 0408c72c (cdm-vaadin): ref #10072 final adaption log4j12->log4j2 in vaadin
- 06:44 PM Revision aafc3f59 (cdm-vaadin): cleanup
- 06:42 PM Revision b5f21afa (cdmlib): ref #10072, ref #9359, ref #10095 replace commons-logging by jcl-over-slf4j and adapt some loggers to log4j
- 05:35 PM Revision c06457d0 (cdm-vaadin): ref #10095, ref #9359 adapt json version in vaadin to cdmlib json version
- 04:18 PM Revision 9fa4ac9a (cdmlib): cleanup
- 04:02 PM Revision dab2a7f4 (cdmlib): remove lifecycle mapping for cdmlib-cache
- 04:01 PM Revision 840b4522 (cdmlib): ref #10095, ref #9359 upgrade and synchronize fasterxml versions
- 04:01 PM Revision c2facd18 (cdmlib): cleanup and javadoc
- 04:00 PM Revision 3d585f9d (cdmlib): ref #10095, ref #9359 remove javax.activation-api, jaxb-api and xalan from classpath (replaced by jakarta versions)
- 02:40 PM Revision 8b7babf9 (cdmlib): ref #10095 add fixed version for jackson-datatype-jsr310
- 02:16 PM task #10095 (In Progress): Synchronize dependency versions in CdmServer
- 02:16 PM task #10095 (Closed): Synchronize dependency versions in CdmServer
- The CdmServer is a merge from cdmlib-remote-webapp and cdm-vaadin. Therefore it can happen that the same dependency a...
- 02:06 PM Revision 8b32a3ce (cdmlib): cleanup
- 02:06 PM Revision 2e47e11d (cdmlib): ref #9359 add version number for commons-pool to avoid multiple versions in cdmserver comming from remote-webapp and vaadin (though unclear why vaadin retrieves a higher version)
- 11:52 AM Revision d75171f5 (cdmlib): first test B
07/19/2022
- 11:19 PM Revision f893a1ff (cdmlib): ref #10072 comment usage of log4j12 in LoggingConfigurer and cdmlib-io in general (last log4j12 in cdmlib)
- 11:18 PM Revision 8edfa814 (cdmlib): ref #10072 remove log4j12 from cdmlib-io except for LoggingConfigurer issue
- 11:16 PM Revision a27635bd (cdm-vaadin): ref #10072 adapt vaadin to log4j2 and cleanup
- 10:41 PM Revision 26b856f8 (taxeditor): cleanup
- 10:39 PM Revision 527ecb11 (taxeditor): adapt CdmServerUtils to changes in CdmApplicationUtils
- 10:30 PM Revision b9fab907 (cdmlib): move NoDuplicateNamesValidator to api.validation package to split service layer from other modules, see also last commit
- 10:29 PM Revision eb1e36b8 (cdmlib): cleanup
- 10:12 PM Revision cf29bfc1 (cdmlib): move CdmApplicationUtils to real persistence package to avoid multiple scanning with service layer
- 10:10 PM Revision 2b7a0e65 (cdmlib): cleanup
- 09:07 PM Revision 5d7fcb25 (cdm-dataportal): ref #10072 fix log4j-api version and remove commons.lang in dataportal
- 09:06 PM Revision 4279ed61 (cdmlib): ref #10072 remove log4j12 from remote
- 09:05 PM Revision cb7f0fab (cdmlib): cleanup
- 08:50 PM Revision 4c2ad250 (cdmlib): cleanup
- 08:40 PM Revision f64f32be (cdm-dataportal): ref #10072 adapt dataportal to log4j2
- 07:40 PM Revision cf0057ee (cdmlib): ref #10072 use log4j2 in slf4j
- 06:31 PM task #10094: Reenabel anttask for 001-cdm.h2.sql creation
- This is on the log on the very beginning (after git fetch), however, it looks like it was there before already.
~~... - 06:02 PM task #10094: Reenabel anttask for 001-cdm.h2.sql creation
- It had to be switched due to errors during build in jenkins.
Log:
~~~
[ERROR] Failed to execute goal org.apach... - 05:52 PM task #10094 (New): Reenabel anttask for 001-cdm.h2.sql creation
- 06:28 PM Revision 0cd73a67 (cdmlib): cleanup
- 06:27 PM Revision 766fb6fd (cdmlib): avoid cookie error log on cnn
- 05:57 PM Revision cebc5b3a (cdmlib): ref #10094 preliminary disable 001-cdm.h2.sql (maybe a java11 issue in jenkins) (cont.)
- 05:53 PM Revision 6eaa7820 (cdmlib): ref #10094 preliminary disable 001-cdm.h2.sql (maybe a java11 issue in jenkins)
- 05:29 PM Revision 811a65d8 (cdmlib): fix incorrect uuid in HomotypicGroupTaxonComparatorTest
- 05:28 PM Revision 90a35da7 (cdmlib): cleanup
- 05:16 PM Revision b09c0226 (cdmlib): cleanup and remove debugging in PolytomousKeyGeneratorTest
- 04:30 PM Revision ad18cde1 (cdmlib): further changes for debugging
- 03:41 PM Revision ddc2152f (cdmlib): add java version check to DdlCreator
- 03:01 PM Revision 08ea6978 (cdmlib): ref #10072 temporarily revert log4j.properties
- 02:25 PM Revision 24ea68aa (cdmlib): ref #10072 switch off security manager for DdlCreator
- 01:12 PM Revision 40c85eaa (cdmlib): cleanup
07/18/2022
- 10:11 PM Revision e72a6e61 (cdmlib): ref #10093 adding very first classes copied from cdmlight for docx4j output
- 10:10 PM feature request #10093 (New): Create print publication classification output using docx4j
- https://www.baeldung.com/docx4j
https://javadoc.io/doc/org.docx4j/docx4j/latest/index.html
07/17/2022
- 07:52 PM Revision 53bea31e (cdmlib): ref #10092 deproxy feature for FdG import
- 07:52 PM Revision 540b9682 (cdmlib): cleanup
- 07:06 PM Revision 2f53c10a (cdmlib): cleanup
- 10:34 AM Revision d9ff78b5 (cdmlib): ref #10072 temporarily rename log4j.xml
07/16/2022
- 11:45 PM Revision f905a388 (cdmlib): cleanup
- 11:22 PM Revision a4cab8c6 (cdmlib): ref #10092 adapt markup import to FdG requirements (fixing errors)
- 11:20 PM Revision 794be65e (cdmlib): cleanup
- 11:05 PM Revision 0e799f7c (cdmlib): ref #10072 change cdmlib-commons log4j.properties to log4j2 log4j.xml
- 08:34 PM Revision 0474ab0b (cdmlib-apps): ref #9359, ref #10072 adapt eflora to log4j2 logger and logmanager and some cleanup
- 02:12 PM Revision 22689a70 (cdmlib-apps): ref #10092 adapt FloreGabonActivator import largest volumes first and exclude feature tree and some logging issues
- 02:10 PM Revision 133817c6 (cdmlib-apps): ref #10092 adapt FdG sources to new location on PESIHPC
- 02:08 PM Revision 67da8787 (cdmlib-apps): cleanup
07/15/2022
- 03:51 PM Revision cfdb11fc (cdmlib): cleanup
- 03:51 PM Revision 643e100c (cdmlib): fix #10090 revert init strategy and catch LIE in getCollectorTitleCache()
- 03:33 PM bug #10090: Many LIEs in cdmserver log for Team.getCollectorTitleCache()
- The reason was a missing property path for secsource authors.
The reason why it happened for **collectorTitleCache... - 02:02 PM bug #10090 (Resolved): Many LIEs in cdmserver log for Team.getCollectorTitleCache()
- Applied in changeset commit:cdmlib|6c536aa028a283ed2041899ac33a13baa41bcaeb.
- 02:02 PM Revision 6c536aa0 (cdmlib): fix #10090 add secsource reference author to the PolytomousKeyNode init strategy
07/14/2022
- 09:57 PM Revision f492f1d9 (cdm-dataportal): javadoc, cleanup and revert some debugging
- 09:42 PM Revision c28b130d (cdmlib): cleanup
- 07:56 PM Revision 7494f3b1 (cdmlib): cleanup
- 07:03 PM Revision c7ef3e53 (cdmlib): ref #10090 catch LIE in Team.getCollectorTitleCache
- 06:59 PM Revision ac7949f3 (cdmlib): cleanup
- 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...
- 09:43 AM task #10091 (Resolved): Add stacktrace to JSON repsonse
- Applied in changeset commit:cdmlib|0fffbab66709e2a4401a7fdc3ff4df8bc5fe1afe.
- 09:38 AM task #10091 (Closed): Add stacktrace to JSON repsonse
- ... for better error finding
- 05:55 PM Revision c7f13f26 (cdm-dataportal): handle errors not as json for commands with expected json result
- 05:54 PM Revision cbed020f (cdm-dataportal): cleanup
- 05:54 PM Revision ccc02dc1 (cdm-dataportal): add debugging
- 02:17 PM Revision 650193a1 (cdmlib): ref #10091 show stacktrace only if debug parameter is added
- 10:07 AM Revision b559f0f9 (cdmlib): ref #10089 adapt json mapping to new TypeDesignationSet handling (cont.)
- 09:43 AM Revision ab1abcbe (cdmlib): cleanup
- 09:43 AM Revision 0fffbab6 (cdmlib): fix #10091 Add stacktrace to JSON repsonse
- 09:36 AM Revision fdbd1a3a (cdmlib): ref #10089 return JSONNull for null values in type designation value processor
- 09:35 AM Revision d54d6020 (cdmlib): cleanup
- 08:47 AM Revision 22b33a05 (cdmlib): cleanup
- 08:40 AM Revision 1e4c68b2 (cdmlib): ref #10089 handle null values for map and type designation value processor
- 12:45 AM Revision 2de2cf10 (cdm-vaadin): ref #10089 handle RegistrationDTO with TypedEntityReference again in vaadin
- 12:44 AM Revision 25b120ed (cdmlib): ref #10089 handle RegistrationDTO with TypedEntityReference again in cdmlib
- 12:41 AM Revision cf58d709 (cdm-dataportal): ref #10089 rename TypeDesignationWorkingSet in dataportal
07/13/2022
- 11:28 PM Revision 54143f9a (cdmlib): ref #10089 adapt json mapping to new TypeDesignationSet handling
- 11:27 PM Revision f0b8034c (cdmlib): cleanup
- 08:02 PM Revision 2efce339 (cdmlib): ref #10090, ref #10089 try to avoid LIE in TypeDesignationSet
- 08:01 PM Revision d6353c79 (cdmlib): cleanup
- 07:51 PM bug #10090: Many LIEs in cdmserver log for Team.getCollectorTitleCache()
- maybe related to #9949
- 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... - 06:49 PM Revision 85f4724b (cdm-dataportal): add some debugging for finding drush exception (cont.)
- 05:56 PM Revision a3b7c3d9 (cdm-dataportal): add some debugging for finding drush exception
- 05:41 PM Revision a0d044d3 (cdm-dataportal): cleanup
- 12:44 AM Revision 046d6228 (cdmlib): fix #10089 final fixes for TypeDesignationSet formatting ordered by type status (cont.)
- 12:36 AM Revision 230f5b70 (cdm-vaadin): rename RegistrationTypeDesignationStatusComparator
- 12:34 AM bug #10089 (Resolved): Order TypeDesignationSetContainer by status type
- Applied in changeset commit:cdmlib|7af46cd80139907f3c80f4ee1ad644a0260c7b18.
- 12:34 AM Revision 7af46cd8 (cdmlib): fix #10089 final fixes for TypeDesignationSet formatting ordered by type status
- 12:05 AM Revision 98768399 (cdmlib): cleanup and support for orderedBy and factory methods for TypeDesignationSetContainer
07/12/2022
- 11:49 PM Revision f104a204 (cdmlib): cleanup
- 11:03 PM Revision fc477304 (cdm-vaadin): cleanup
- 11:02 PM Revision 7aa81094 (cdm-vaadin): cleanup and rename RegistrationValidationException to TypeDesignationSetException in vaadin
- 10:50 PM Revision 45356f85 (cdmlib): ref #10089 implement TypeDesignationSetContainer ordered by status not field unit
- 10:42 PM Revision 8e73bb3d (cdmlib): cleanup
- 10:40 PM Revision 9a5a2693 (cdmlib): cleanup and rename RegistrationValidationException to TypeDesignationSetException (cont.)
- 10:03 PM Revision c4a57e04 (cdmlib): cleanup and rename RegistrationValidationException to TypeDesignationSetException
- 09:16 PM Revision 48c8ef25 (cdmlib): minor
- 09:14 PM Revision 50778c94 (cdmlib): ref #10089 rename TypeDesignationSetManager to TypeDesignationSetContainer in cdmlib
- 08:54 PM Revision d9a042e5 (cdm-vaadin): ref #10089 rename TypeDesignationWorkingSet to TypeDesignationSet in vaadin
- 08:52 PM Revision 262c0177 (cdmlib): ref #10089 rename TypeDesignationWorkingSet to TypeDesignationSet in cdmlib
- 08:15 PM Revision d7160e6b (cdm-vaadin): ref #10089 remove TypedEntityReference from TypeDesignationWorkingSet in vaadin
- 08:13 PM Revision 3fb08830 (cdmlib): ref #10089 remove TypedEntityReference from TypeDesignationWorkingSet
- 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...
- 07:54 PM Revision 4ce0e91d (cdm-vaadin): cleanup
- 06:25 PM Revision 61d1e335 (cdm-vaadin): replace LinkedHashMap by Map where possible in vaadin
- 06:24 PM Revision 7667f093 (cdm-vaadin): cleanup
- 06:22 PM Revision 8d7c7784 (cdmlib): make TypeDesignationWorkingSet a decorator and not inherit directly from LinkedHashMap
- 05:59 PM Revision edc8c14e (cdmlib): replace LinkedHashMap by Map where possible
- 05:58 PM Revision 1ddf0695 (cdmlib): cleanup
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 )
- 08:39 PM Revision b1fafec1 (cdmlib): ref #10087 make placement source and placement source FK explicit columns and refactor test (also ref #10081 )
- 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...
- 06:42 PM Revision 9e545c61 (cdmlib): ref #10081 add secundum name used in source to cdmlight
- 06:41 PM Revision 9e5bde9c (cdmlib): cleanup
- 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.
- 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 ...
- 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... - 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... - 11:42 AM feature request #10087 (Closed): Add taxon node source to status notes in cdmlight
- 01:03 PM Revision a9f7b763 (cdmlib): ref #10087 add taxon node source to status notes in cdmlight
- 01:02 PM Revision 09da8d56 (cdmlib): cleanup
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...
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...
- 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
- 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...
- 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
- 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... - 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.
- 10:53 PM task #3722 (Feedback): Using @OrderColumn does not work in trees
- 10:39 PM bug #10059 (Closed): Link for stored under and identification on specimen page does not work correctly
- Works as expected
- 09:33 PM bug #10076 (Closed): Exception when opening character matrix with classification as root node
- Works as expected.
- 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... - 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... - 02:26 PM feature request #10086: Taxonomic and geographic search for data portal
- ERS:
das typische Ergebnis einer Geo-Abfrage sieht so aus:
Man wählt ... - 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 ?)...
- 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?
07/07/2022
- 11:58 PM Revision 0bb5c8a2 (cdmlib): ref #10067 cleanup CdmModelCacher
- 11:01 PM Revision 5864d558 (cdmlib): ref #6696 write model cache to target and use compile phase
- 11:00 PM Revision 2b7260c4 (cdmlib): add ehcache to cdmlib-cache
- 09:57 PM Revision 49eb471d (cdmlib): cleanup
- 09:43 PM Revision 22aa850d (cdmlib): ref #6696 change maven phase for CdmModelCache creation and move cdmlib-cache modul up behind cdmlib-service
- 08:49 PM Revision 1a1e2ca4 (cdmlib): ref #6696 create CdmModelCache during maven and remove cached model from git
- 05:54 PM Revision c0ed5d8e (cdmlib): ref #10067 save new cache model created with hibernate version 5.4
- 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.
- 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... - 10:57 AM Revision 017bce1e (cdmlib): ref #10083 add AVOIDS_HOMONYM_OF name relationship
- 10:57 AM Revision d1ea8316 (cdmlib): cleanup
07/06/2022
- 04:12 PM Revision 36a4dfbd (cdmlib): ref #10081: add secNameInSourceSeparator to separator
- 03:19 PM Revision a1998e47 (cdm-dataportal): ref #10081: remove the font-style for separator again
- 03:18 PM Revision 143a6271 (cdmlib): ref #10081: add tag secNameInSourceSeparator and use it in cacheStrategy
- 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...
- 03:03 PM Revision ff162af3 (cdm-dataportal): ref #10081: adapt nameInSource handling in portal
- 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... - 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?
... - 10:00 AM bug #10084 (Feedback): Adding a new specimen to character matrix fails
- 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... - 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... - 09:49 AM Revision f134a838 (cdmlib): ref #10084: add type comparison to hql again
07/05/2022
- 11:24 PM Revision 4d1f9d42 (taxeditor): cleanup
- 11:19 PM Revision 5e838349 (taxeditor): cleanup
- 11:14 PM Revision 599c91e5 (taxeditor): cleanup
- 10:56 PM Revision 9a6e5099 (cdmlib): cleanup
- 10:55 PM Revision 758086db (taxeditor): Preferenzen->Präferenzen
- 10:55 PM Revision 3f5ed758 (taxeditor): cleanup
- 10:20 PM Revision 35105144 (cdmlib): ref #10067, ref #3722, ref #8127 remove remaining sortindex handling from polytomous key node
- 10:19 PM Revision 4b8da4a0 (cdmlib): cleanup
- 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?
- 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,... - 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.
- 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... - 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... - 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... - 01:32 PM feature request #10081 (Resolved): Show name in source for sec ref of accepted taxon
- 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...
- 03:57 PM Revision c377a0d9 (cdm-dataportal): ref #10081: add separator font-style
- 01:52 PM Revision 3b4b9e2f (taxeditor): ref #10067, ref #3722, ref #8127 remove null value handling from PolytomousKeyGraphContentProvider in taxEditor
- 01:28 PM Revision 5c45a99a (cdmlib): ref #10067, ref #3722, ref #8127 remove all manual sortindex and null value handling from polytomous key (node)
- 01:25 PM Revision 0694bb3d (cdmlib): ref #10067, ref #8127 remove remaining null value handling from taxon node
- 01:24 PM Revision 3dc1adc5 (cdmlib): ref #10067, ref #3722, ref #8127 remove all manual sortindex and null value handling from term node
- 01:19 PM Revision ab85ad67 (cdmlib): ref #10067, ref #8127 remove "removeAllNull" (HHH_9751_Util) from DescriptionBase
- 11:16 AM Revision 059a8e53 (taxeditor): ref #8818: remove predicate from distribution status table in preferences
- 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...
- 09:46 AM Revision edb488c8 (taxeditor): test
07/04/2022
- 10:35 PM Revision 84f11f2b (cdmlib): revert remove strange IkeyPlusImport properties files in io/src/test/resources/main
- 10:12 PM Revision bb03b5f4 (cdmlib): cleanup and remove strange IkeyPlusImport properties files in io/src/test/resources/main
- 10:02 PM Revision 53fc098d (taxeditor): improve logging for exception in AbstractPersistentCollection.remoteInitialize()
- 09:43 PM Revision f13320e2 (cdmlib): fix CCE in IOServiceImpl for URI based imports
- 09:43 PM Revision 27f9f715 (cdmlib): cleanup and javadoc
- 03:43 PM Revision 4c68380d (cdmlib-apps): ref #9359 remove hsqldb StringComparator from ErmsTaxonImport
- 03:43 PM Revision 5bb9c7d1 (cdmlib-apps): update e-Flora and pesi to 5.32.0-SNAPSHOT
- 03:35 PM Revision e11ce0a9 (cdmlib-apps): cleanup
- 03:35 PM Revision 4b88f183 (cdmlib-apps): adapt BerlinModelImport to new cacheStrategy getter
- 03:34 PM Revision b10eeaf7 (cdmlib-apps): update app-import to 5.32.0-SNAPSHOT
- 03:30 PM Revision 8c64898f (cdmlib): ref #9359 update log4j to 2.18.0 in cdmlib
- 03:29 PM Revision 7af8b889 (utis-webapp): ref #9359 update log4j to 2.18.0 in utis-webapp
- 03:27 PM Revision f2234658 (cdm-dataportal): ref #9359 update log4j to 2.18.0 in dataportal
- 03:04 PM Revision c7e9d1ed (cdmlib): add nomenclatural author of nameInSource to init strategy
- 12:29 PM Revision 904397ee (taxeditor): remove debug messages
- 12:19 PM Revision bc55416e (cdmlib): ref #10081: add nameUsedInSource to initStrategy
- 10:22 AM Revision 4287668c (taxeditor): add debugging for source section
- 09:52 AM Revision ea87ffcb (taxeditor): add debugging for source section
- 09:25 AM Revision 083eabed (taxeditor): minor
07/01/2022
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