TaxonWorks - Version 0.59.0 release

Added

New task - Year in review - graphs and data summarizing a calendar year
Clone last attribution button #4718
Browse images task #4689

Fixed

New asserted distribution task is not loading
Biological Associations always report success on delete, even when the destroy fails because the association is the object of an Asserted Distribution #4731
New link redirects to graph instead of new Biological Association task #4732
Improvements to key work using OTU lists and interactions with interactive keys #4527

Changed

Data Attribute and Object Attribute facets in all filters, to add functionality and make it clearer what is being searched for #4634
The inventory keys API endpoint has been updated to indicate when an observation matrix is a media matrix.
You can now delete a TaxonName if the only thing blocking the delete is an "empty" OTU #1451
Updated Ruby gems
Updated NPM packages

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 1 month ago

TaxonWorks - Version 0.58.0 release

Added

New task: Verbatim author/year to cite taxon name
New task: Dichotomous key
New repository link to New type specimen task #4692
Monograph facilitator to OTU radial linker #4690
Batch create genus gender for those without one from Filter Taxon Names #4669
Source facet to Filter Asserted Distributions
'Replace source' batch update to Filter Asserted Distributions #4647
Send filter results between Sounds and OTUs/TaxonNames
Batch upload Asserted Distributions can now match on an OTU's Taxon Name name instead of/in addition to the OTU's name
Batch update 'Prioritize Geographic Area when indexing' value from Filter Collecting Events #4036
Deleting a taxon name from the New Taxon Name task takes you to Browse Taxon Name for the parent of the taxon #3155

Fixed

Filters return incorrect results when using the right Radial Filter with 21 or more selected objects. #4676
Browse News: Old administration news is shown first instead of new news.
Batch operation now works on venn query results, venn query results can now be sent to other filters #4663
No error message when trying to delete a combination attached to an OTU #4670
Error notice is now returned when trying to include media extension in DwCA export without a project API token (media links embed API token)
Match Taxon Names task downloads have wrong valid name #4682
New source task: Title is required to create a BibTeX source #4688
Error on sending Taxon Name filter result to Asserted Distributions
DwCA export optimizations #4607
Inconsistent TW:otu_name selection from multiple values in DwCA exports in some cases
DwCA TW:data_attributes now includes all values on a given predicate (not just the last)
/api/v1/sounds/1
furtherInformationURL for sounds in DwCA media export
Performance regression in cached maps re-indexing via the rake task
Create citation button doesn't keep citations state once the observation is moved to another cell in Image matrix task
Add autosave option to New source task #4691
Completed Filter connections between Filter Biological Association and Filter Taxon Name/Filter OTU to include relations by Collection Object Taxon Determination, Field Occurrence Taxon Determination, and Anatomical Part origin OTU #4685
Alt+t on Browse Taxon Names doesn't work unless you've focused the page #4703
Selection tool not working on the Monograph Facilitator map
Depictions stop changing when switching between types in Edit Type Specimen task #4702
Citations with italics don't match in Batch Upload Asserted Distributions #4268
Useful error messages when batch loan operations fail in Filter Collection Objects #4171
The Biological Associations index computed an error string for Anatomical Part citations #4712
Don't calculate distribution for api/v1/taxon_names/:id/inventory/catalog (performance improvement for Taxon Pages)
Add more LSID validations #3608
Filter depiction doesn't return field occurrence images

Changed

Large performance improvements to Catalog of Life Data Package export; some small regressions introduced
Disabled autosave by default for New asserted distribution task. #4698
Filter Contents downloads are TSV (no longer CSV)
Updated Ruby gems
Updated NPM packages

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 2 months ago

TaxonWorks - Version 0.57.0 release

Added

Unify button to Manage Controlled vocabulary task #4653
Source autocomplete now matches on alternate values of authors as People #4617
Available facet to Filter Taxon Names #4667
Create User form now includes adding new user to projects #4639

Fixed

Observation matrix dashboard: several filter options don't work #4640
New collecting event task: Biocurations panel is not working #4646
Error on batch update from left object radial in filters using 'match identifiers'
Browse taxon names: Sometimes when users scroll through the taxonomic tree panel, names at the bottom are not visible. #4654
Browse taxon names: Navbar overlaps radial modals #4649
CSD: The biocurations form doesn't show classes that do not belong to a group #4658
New Extract task: Minor fixes related to the identifiers form #4626
New Biological Association task: A new citation is not added when a biological association already exists, instead, it attempts to create a new one.
Housekeeping facet: sometimes date range is off #4644
DwCA export now correctly includes 'fossil' as basisOfRecord

Changed

Update to Rails 8.0; update gems
Add the POST method for Image matrix to handle many OTUs
New task: Refactor the task and add responsive design to the form #4628
Removed alternate values on Source author and editor (use Person alternate values instead)

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 2 months ago

TaxonWorks - Version 0.56.1 release

Added

subject/object type to indexed biological associations endpoint
Source autocomplete now matches on alternate author names #4617

Fixed

Rendering error on NOMEN batch load
api/v1/dwc_occurrences/area_autocomplete when target=stateProvince
Magnify icon is missing from the autocomplete

Changed

Autocomplete list wraps the text instead of applying ellipses by default.

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 3 months ago

TaxonWorks - Version 0.56.0 release

Added

Anatomical part #4407
Project/Admin News (blog posts, notices, warnings, instructions) #1308
Collecting event form: Field notes
Taxon name reclassifier: Unify and refresh buttons #4609
Radial navigator: Taxon name reclassifier #4609
New source: display error messages when a document upload fails
Added superorder rank for botanical nomenclature #4619
Added soft validation for unjustified emendation
Support repeated attributes with different values (to be ORed) in Collecting Event filter's Collecting Event attribute facet #4622
Batch create Labels from Collecting Event filter #3814
New status/control area on Complete DwCA Settings page
Convert Collection Object to Field Occurrence #4521
Biological Associations index #4613

Fixed

Radial annotator: Citations forms throws an error when you try to replace an original citation
Image matrix endpoint is not sending the correct image path
Biological Relationship search
Exception on Filter Source with verbatim sources
Exception on empty searches
Exception in New Source when serial no longer exists
Exception in Batch Source import when import file is missing
Respect no_dwc_occurrence setting for AssertedDistribution creation
Don't display 'null' in Change Namespace dialog for mass Identifier annotator in Filter Collection Object/Filter Collecting Event #4618
'Collection objects with determinations' appears twice in Collection summary task/Taxonomic scope #4620
Unify OTU sometimes blocked by old unused AssertedDistribution columns which have now been removed #4556
DwC Importer preventing duplicate RecordNumber identifiers from being created #4096
Collecting Event clone with increment-identifier fails when identifier has no numeric part
Filtering on Data Attributes where the same attribute is repeated with a different value (matches to be ORed)
Filtering on Data Attributes in Filter Asserted Distributions
Prioritize abbreviated genus and species name in TaxonName autocomplete
Make sure file is provided when doing bibtex batch loads

Changed

Autocomplete list dynamically adjust to fit content on screen
New source: add BibTeX source to project automatically
Removed the Origin Relationship search boxes
Taxon name reclassifier: disable the drop zone when rank of dragged taxon is higher than the target.
CSD: Allow create duplicate RecordNumber identifiers #4096
Updated Ruby gems
Updated NPM packages

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 3 months ago

TaxonWorks - Version 0.55.0 release

Added

Reclassifier task: drag-drop to change the parents of TaxonNames
extend[]=notes to all api endpoints for which it makes sense

Fixed

Background/asynchronous jobs for radial batch annotator and radial object from all filters were not creating/updating (non-asynchronous jobs were unaffected) #4592
Show OTUs whose Taxon Name has primary type syntypes (plural) as type 'primary type' on distribution maps (syntype already was)
Radial annotator: Sometimes, the modal to update the original citation doesn't display
Increase the expiration data of complete downloads so that a GBIF call after max-age is guaranteed to occur before the existing download expires, causing regeneration of a fresh complete download for the next GBIF call

Changed

Updated Ruby gems
Updated NPM packages

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 4 months ago

TaxonWorks - Version 0.54.3 release

Added

Project Vocabulary link to Filter Taxon Names
CodeMirror functionality to EML editing
Option to load EML from an existing file

Fixed

Exception on destroying a genus with gender
Exception on resetting user hub prefs when none already exist
Exception when removing oneself from a project
Exception when using Project Activity task for DwcOccurrence
Exception when unify fails with InvalidForeignKey error
New CE form: Identifier form does not display a warning when the Namespace is missing #4599
DwC occurrence importer not able to import on taxon names without pre-existing OTU
Search on both year and stated_year in Source autocomplete #4536
Project EML for complete project downloads fails to save if EML is too long #4602
Closed a loophole allowing EML to be saved with STUBs

Changed

Updated Ruby gems

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 4 months ago

TaxonWorks - Version 0.54.2 release

Added

New TaxonName Relationship: nomen oblitum rejected between 1961 and 1972
New field occurrences task: Layout settings #4131
Project - customize attributes: Add spinner #2217
Radial Batch: Added Auto-refresh checkbox to enable or disable automatic filter refresh after adding or updating records #4590
Browse OTU: Radial navigator in BA table
api/v1/images/:1/as_png and images/:1/as_png to download an image as a png
Added new TaxonNameRelationship 'Unavailable' as a subclass of 'Unavailable or Invalid'

Fixed

Searching for very large numbers in autocomplete sometimes caused errors. #4321
Radial annotator: Tag count doesn’t update after creating or deleting a tag using the middle menu button
Collecting Event Clone button assigns existing annotations to the new object instead of creating new ones #4583
Filter sources: In project facet does not return correct results when selecting the "No" option.
Unify now reports an error when it fails because of too many relations
DwC Archive download uniqueness check not scoped to unexpired downloads
Internal/TW values don't appear with complete downloads #4581
Fix exception on api/v1/images/sha/

Changed

Added warning that deleting a project's project_token can potentially break links from outside providers back to TaxonWorks for things like images
Updated Ruby gems
Updated NPM packages
Save taxonomic tree settings in user preferences [#4577]
Radial Navigator: BA edit/new slices now points to the New Biological Association task (previously new BA graph task)
Delete complete downloads if project's project_token is deleted
api/v1/image/:1/scaled_to_box now returns a png instead of a jpg

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 5 months ago

TaxonWorks - Version 0.54.1 release

Added

Author summary task
Filter Sources: CSV List includes serials name and more logical prioritization of fields #3154
Filter Sources: Editors facet
Radial navigator: links to filter source/taxon names for People #3132
Additional sensitive data excluded from logs
Search for people by orcid id or wikidata Q id using only their number
Browse OTU: Tag column in biological associations table
api/v1//otus/inventory/alphabetical: Returns OTUs in alphabetical order
Filters: Notes facets
Editors facet to filter sources
More AssertedDistribution data now exported to Darwin Core
Added api endpoints api/v1/taxon_determinations and api/v1/taxon_determinations/n
Support for Postgres17

Fixed

'Use a key' shows a blank page #4557
Browse nomenclature: The navigation panel does not update its size correctly
Filter CO: Types facet doesn't work after reseting the interface
Browse OTU: In some cases, asserted distribution citations are rendered incorrectly
Filters: Select all checkbox doesn't respect the column filter #4572
Error on Sqed browsing when sqed layout was None #4550

Changed

Update shakapacker, replace babel by swc. Move from webpack to rspack. If running your own server we recommend deleting your node_modules directory before updating packages and gems.
Added new subclass 'Unavailable, linked to:' to the existing 'Unavailable or Invalid' taxon name relationship
'Default' and 'new' for containers now use the New Container task
Distribution maps only display valid primary types as 'Type material' (all other type material is now displayed as collection objects) #4567
Updated Ruby gems
Updated NPM packages
Filters: refresh current page after closing Radial Batch #4571
Configured radials now support teleport by default

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 5 months ago

TaxonWorks - Version 0.54.0 release

Added

/api/v1/dwc_occurrences/area_autocomplete?term=Can&target=country|stateProvince|county
Indecies on geo-related DwcOccurrence fields
Radial filter: Source => TNR and vice versa
Taxonomic tree: Options to show/hide descendants count and Level-based coloring.
Interactive key descriptor selections can be used to help create a dichotomous key #4527
Browse OTU: Radial annotator to biological associations panel
Filter biological associations: Data attributes facet
Quick forms: Publish/unpublish toggle button to Content slice
Api endpoint for 'complete' DwCA project downloads at /api/v1/downloads/dwc_archive_complete?project_token=<> #2830
Project admin preferences panel for settings related to complete downloads

Fixed

Error on Globi preview of biological associations and on api/v1/biological_associations.globi
class being named dwcClass and rebuild_set leaked in DwC OTU inventory API endpoint
Lead text sometimes doesn't update in the UI after save in 'full key' display mode
Taxon name statistics now load much faster for higher taxa. Valid taxa counts are unchanged but invalid and otu-taxa counts have decreased slightly in some instances due to being counted differently.
Fix DwCA media and resource relationship extensions to refer to core occurrences properly (this previously prevented extension data from displaying on GBIF occurrence pages)
api/v1/otus/autocomplete (used by search on TaxonPages) sometimes didn't return all results #4553

Changed

Mass annotate namespaces in Filter Collection Objects/Filter Collecting Events now requires selecting the namespace(s) to replace
Changed file extension from .csv to .tsv in DwC OTU inventory API endpoint to facilitate readers to detect field separator correctly.
Updated interactive key endpoint to hand work with dichotomous keys
Make distribution on /api/v1/taxon_names/:id/inventory/catalog an extends option
Target updated PG client

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 6 months ago

TaxonWorks - Version 0.53.2 release

Added

/api/v1/sources/bibliography end point, a simplified response
Administration user activity cumulative projects/year plot
Browse OTU: Radial annotator to Timeline #4057
Radial CO: Accessions / Deaccession
Filter CO: Containerized facet
Radial navigator: New extract and Browse OTUs task for CollectionObject #2882 #2860
New collecting event task: Add field occurrence panel #4529
New descriptor task: Add recent list
Support for DwCA Media extension #1488

Fixed

Expand the view of any/all parts of the taxonomic hierarchy in the Navigate panel as needed #3585
Match taxon names task sometimes doesn't work with long name lists of names #4523
Radial navigator: Browse taxon name link doesn't work for Combinations #4526
Shape picker: Missing Map tab #4532
Some cases of unify failing on otus from different rows of the same matrix #4140
Nexus import fails on filename/extension error #4531
Internal error when loading matrix column coder
Fix unify Otus when otus are associated with BAs having otus on subject side #4139
Filter stage images: Pagination is missing #4540
Browse OTUs: Parents list is missing when a taxon has many OTUs
DwCA Resource Relationships extension updates
Simple taxon name import raises an uncaught error when there are misformed author strings #4541
Occasional 'holes' for relatively small states in cached maps
Deadlocks on georeferences in cached maps rake task

Changed

Allow accepted as taxonomicStatus and empty acceptedNameUsageID for valid names in DwC checklist importer
Update maps in all tasks
CSD: Identifiers can be deleted from the form once they are saved
Updated Ruby gems
Updated NPM packages

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 6 months ago

TaxonWorks - Version 0.53.1 release

Added

Match taxon names: Total count for matched/unmatched tables #4509
Match taxon names: remove authors option
Broadcast toggle to new asserted distribution and new biological associations #4507
Browse OTU: Maps now display clusters to group nearby points for performance and better visualization

Fixed

Observations API response
Simple TaxonName batch loader rendering and author values
Missing map in asserted distribution view #4515
Batch Asserted Distribution upload (for Otus and Geographic Areas) #4268
Vue devtools integration for 'openInEditor'
Cached maps no longer include is_absent AssertedDistribution data #4506
ColDP column alignment, gender agreement (candidate), rendering of infraspecies, "sic", years, scope including Combinations for leaf names

Changed

Browse OTU: shapes that have multiple objects are now colored with the most relevant object type. #4508
Match taxon names: new layout
Slide panel buttons are now more hidden to avoid overlapping issues with the rest of the interface. #4512

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 7 months ago

TaxonWorks - Version 0.53.0 release

Added

Monograph facilitator task - distribution map with taxon determination overlays/editing #4113
Browse OTU: collection objects and field occurrences sounds
Filter TNR: Include subclasses option for relationship type facet #4460
Filter Loans: Recipient and supervisor names #4498
You can now remove a prefix from virtual identifiers when switching to a non-virtual namespace in Filter CO,CE mass annotate identifiers
Taxon Name stats api call now returns fossil/extant counts
Add filterable otus list during key creation; send Otu filter result to key creation #4287
You can now choose to work with the full key in the Edit Key task #4381

Fixed

You can now spatial search on Collecting Event Geographic Areas when there aren't any Georeferences #4073
CSD: Search autocomplete doesnt't work #4481
CSD: Next by ID and Identifier don't work #4480
Trying to delete the Collecting Event of a Field Occurrence now reports an error rather than causing an exception
Drawing a new Gazetteer shape over an existing shape while zoomed in sometimes causes a zoom out #4483
Batch source interface: Sources are not added to the project after create them #4478
Filters: Light mode shows up in dark mode in By Attributes facet #4486
New field occurrence task: A Field Occurrence has to be saved twice to save it when creating a new Collecting Event
Image viewer: Large images overflow to the right of the container
DwC importer occasionally crashing when mappings are computed while staging
Help bubbles are sometimes partially opaque and not readable [#4497]
Filter Taxon Name *ify (validify, etc.) facets sometimes don't return all results #4494
404 Not found crash when session references an invalid project
Sound wave color in dark mode
Fix feature specs failing more often than normal

Changed

Asserted Distributions could formerly only make assertions about the distribution of Otus. They can now assert distribution for Otus, Biological Associations, Biological Associations Graphs, Conveyances of Otus, Depictions of Otus, and Observations of Otus #4025
Asserted Distributions returned by the /api/v1/asserted_distributions/n endpoint now include distributions based on different object types (formerly only Otu). You can check the object type of each distribution using the new type key of the distribution object record: {type: 'Otu' or 'BiologicalAssociation', ... }
Updated Ruby gems
Uploading DwC datasets with duplicate fields no longer allowed
Removed Otu Distribution task
Updated Ruby gems
Updated NPM packages

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 7 months ago

TaxonWorks - Version 0.52.2 release

Added

Radial mass annotatior: Add is original to citations slice
New FO: Lock/Unlock all shortcut
Filter taxon name relationship: Add slices to radial filter for taxon name subject/object #4461
The following facets to Filter Images: Creator, Editor, Owner, Copyright holder, Source, License, Copyright Year, Depiction caption #3511
Add with/without origin citation facet to Filter Taxon Name Relationships
Radial mass annotator: is original flag option in batch citation #4458
Filter Observations: Sounds facet
Add 'include_common_names' parameter to API Otu autocomplete
DwC import task: Detect and highlight columns that will be ignored #4406
Project data export task: Recent download table #4470
Field synchronize: Object label column #4477
Custom password option for database exports #4476
FieldOccurrence tab for subject/object on New Biological Association task
Rebuild set index for dwc_occurrences

Fixed

Soft validation fix for combinations of plant names.
Soft validation "Fix" buttons not working #4450
Error radius not rendering in Georeference panel #4448
Issues pop-up screen not rendering properly #4447
Prevent cycles in SerialChronology (no accompanying data migration, remove bad data manually)
Biocuration lock "lost" when rapidly creating records #4415
Depiction list isn't populated in Image's depictions quick form #4465
Specimens lots failing to generate DwC indexing in DwC importer #4466
Filters: Sometimes sort column button doesn't work #4442
Filter Taxon Names to Gender Summary fails with too many ids #4479
Filter Asserted Distributions doesn't return all results for some spatial shapes #4464

Changed

Gazetteer shapes can now be added to/removed after save #4399
Rename Content by nomenclature ("Brock") to Content by taxon names ("Brock")
Rename Download nomenclature (basic) to Download taxon names (basic)
Rename Nomenclature stats to Taxon names stats
Rename Synchronize nomenclature and OTUs to Synchronize taxon names and OTUs
Topic facet: Show all topics in a modal #4456
Updated Ruby gems
Field Synchronize and multi update task now sorts by ID url parameter #4472

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 8 months ago

TaxonWorks - Version 0.52.1 release

Added

Filter asserted distributions: OTU Radial to table results
New OTU task: Recent list #4413
Sound size summary to Admin user activity task
Multi-update DA task: Allow empty cell pasting #4436
Created and updated dates to DwC import cards #4439

Changed

Rename Browse nomenclature and classification to Browse taxon names
Rename Filter nomenclature to Filter taxon names
Rename Nomenclature match to Match taxon names
Rename collection object match to Match collection objects
DwC import task: display imports from newest to oldest #4441

Fixed

Organization related Attribution validation #4433
Gender summary task (linked from Filter taxon names)
GeographicArea is missing on Georeference modal #4420
Saved GeoLocate georeferences are missing on Georeference modal #4422
Filters: Data attributes display in filter results even if they are not selected in custom layout #4424
Field synchronize task doesn't work when you open it from Filter people #4425
Collecting event form: CE generate label not working when there aren't collectors #4434

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 9 months ago

TaxonWorks - Version 0.52.0 release

Added

cached_gender and cached_is_available to TaxonName (eliminate many n+1 queries)
Filter TaxonNameRelationship
Tab options on Field Occurrence smart selectors (select_options)
Radial Collecting event: Add remove geographic area option in Set geographic area slice #4375
Filter sources: With/without pages facet #4374
Field occurrences facet to Filter images
Field occurrences to biological associations graph task
Field occurrences to observation matrices
New Field occurrences: Reorder fields
Browse OTU: Depictions to Field occurrences and Specimen records panels
Identifier batch annotator to Filter Collecting event and Collection object
'Ignore pagination' option to Venn facet of filters #4390
New filter for Taxon Name Relationships
General verifier facet
.text_tree rendering for TaxonName instances
Help for new OTU fields
Task - Filter Nomenclature - TaxonName relationship without citation. #4010
Browse OTU: Sort buttons to Asserted distributions table #4411

Changed

Updated Ruby gems
Updated layout of data and internal attribute facets
Remove unused GeographicItem columns
Optimizes a lot of nomenclature related SQL, removing, for example, unnecessary ordering
A massive speedup of the CoLDP export across the board, ~25x
ORIGINAL_COMBINATION_RANKS to align with other constants
Unifies full_name_hash return
Filters: Selected records are kept if they appear in new searches #4393
Refactored and unified collecting event form across all tasks
Unified and improved some batch functions
Disable CrossRef and BibTeX only when created source has unsaved changes [#4405]
Switch shape geo_json type attribute value from snake to Pascal
Improve performance of DwC importer vs. georeference related data
Tweaks to Biodiversity wrapper to better handle subgenera
Begins to isolate and unify Protonym name formatting code (protonym/format.rb)
Better .heic image support.
Better Container autocomplete
New taxon name: Moved checkboxes next to names in Manage synonyms #4414

Fixed

TaxonName cached_classified_as built with space #4373
Temperature units
Unify task: No message error is displayed when merging fails
New field occurrence task: Collecting event radials don't work on new CE #4354
Filter Collecting event: Data attributes layout #4355
Radial Collecting event: error radius is not copy on Set Georeference slice #4358
Filter Collection object: Results are not displayed when DwC information is missing
New Asserted Distribution task can't create more than one Asserted distribution on a given OTU #4388
Radial filter: When opening a filter link in a new tab, the filter page loads empty when the URL is too long #4360
Smart selectors don't refresh on new Collecting event and new Field occurrence after save
Import DwC slowdown (thanks for reporting Davide)
Filter Collecting event: "In range (Integers)" missing data #4387
Searching by Data Attribute can fail to find some/all [#4365]
Browse OTU: The map render each asserted distribution shape in a different color #4404
Filters: Radial navigator overlaps when columns are locked #4408
API identifies more OTUs in key related responses

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 9 months ago

TaxonWorks - Version 0.51.0 release

Added

Gazetteer model - custom geospatial shapes for your project #1954
Matrix radial to Sound and FieldOccurrence filters
Celsius and Hertz quantitative units to Descriptors
Batch georeference on Filter CE #4336
New content task: Publish content button
Batch georeference on Filter CE #4336
Send Filter Field Occurrence results to Filter Image, and vice versa #4348
Add Field Occurrence as an option to more facets in Filter Images and Filter Observations
Send filter results between Observations and: field occurrences, extracts, and sounds

Changed

Asserted Distributions returned by the /api/v1/asserted_distributions.json endpoint include distributions based on both Geographic Areas and Gazetteers (new). You can check the type of each distribution using the new type key of the distribution record: {type: 'GeographicArea' or 'Gazetteer', ... }
Improved performance on cached map building and spatial filtering
Removed Match geoference task #4336
Updated Ruby gems
Updated NPM packages
Radial CO: Increase Taxon Determinations batch load limit to 5000 #4349

Fixed

Project not required for batch add users #4327
Repository edits trigger DwcOccurrence updates #4342
Observation matrix OTU content exception
Syncronize nomenclature/OTUs task initialization
Filters: pop up screen overlap when columns are locked #4322
Browse Otu: display verbatimLocality in Specimen Records section #4331
CSD: Missing Georeferences when collecting_event_id is passed by parameter #4339
Background mass annotate Confidence or Protocol Relationship on >300 filter results [#4344]

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 10 months ago

TaxonWorks - Version 0.50.1 release

Added

TaxonName filter report summarizing gender in a table
Tooltips on various radials
More DwC fields for FieldOccurrences

Changed

Improved data overview graphs, options
Further improvements to Container metadata display
Update Rubygems
Update NPM packages
Improved some auto-focus behaviour

Fixed

Various filter Content fixes
Various Batch/Mass annotator fixes
Browse collecting event fails to load
A TaxonDetermination related filter parameter issue
TaxonDetermination related issues on FieldOccurrence and CollectionObject
When Sounds fail to destroy the error is not caught
Unify fails to activate #4310
Unify fails to merge FieldOccurrences #4315
Repositories shouldn't try to render Citations
Pdf download of formatted sources
500 on filter mass annotate for an annotation not supported on the model #4307

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 10 months ago

TaxonWorks - Version 0.50.0 release

Added

decorator_status to api/v1/taxon_names/:id/inventory/summary
Radial annotator and navigator to role picker list
CSD: Highlight header bar when DwC re-index is pending #4275
New source task: Citations count #4237
Allow catalog number to start with zeros in Grid digitizer task #4291
Filter collection objects: Extend response to include container item #4285
Browse Nomenclature: Focus button #4283
Sounds and conveyances. Browse, filter, new from radial. #244

Changed

Browse OTU: Specimen records are displayed on DwC table #4138
Updated Ruby gems

Fixed

Eliminate 404 behaviour in Synchronize nomenclature #4284
Filter CollectingEvent to OTU Filter linkage broken #4277
Filter OTU CSV download ommitted OTUs with no taxon name
DwcOccurrence FieldOccurrence scoping
TypeMaterial hook to DwcOccurrence update #4266
Georeferences in the CollectingEvent section of FieldOccurrence don't reset when the CollectingEvent is reset #4274
Filter tasks: Back to Field Occurrence filter from nested parameters modal doesn't work #4278
Content editor: Close modal is enable when nothing is selected #4279
Radials from facets side are enabled when no filters are active #4281
Some identifiers are missing on DwC otherCatalogNumbers column
Identifiers cached is empty in CSV table
DwC importer creating sex biocuration group with an array as URI
Filters: Sorting alphabetically does not work correctly when values are in HTML

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 11 months ago

TaxonWorks - Version 0.49.1 release

Added

Offset parameter to copy_table_to_clipboard helper #4265
Collecting event metadata task (count of use, plot of time), via filter
UI flag that a DwcOccurrence re-index is pending. #4267

Fixed

Min/max use of Collecting Event filter facet #4252
Unify Otu failing because of CachedMap references
Determiner is not carrying over in locked, containerized COs in CSD #4250
Filter CO: blank fields dispersed among sort #4255
Filter CO: otu name is empty in taxon determinations rows #4257
Filter CE: some data attributes are missing from results #4258
Filters: Download CSV doesn't use selected layout to generate files #4264

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 11 months ago

TaxonWorks - Version 0.49.0 release

Added

Cross link DwcOccurrence to Otu in filters (with fixes on others)
/api/v1/field_occurrences/:id/dwc
/api/v1/otus/:id/inventory/determined_to_rank
Append mode to multi update data attributes task #4204
<in progress Batch add/remove Protocols>
Protocol is_machine_output attribute to facilitate MachineObservation types
Batch change Protocol references
Sticky navbar on browse nomenclature and collecting event
Move button to citations and depiction slices in radial annotator
Freeze column checkbox to filter tasks #4220
Sort layout columns on filter tasks #4219
Field occurrence panel to Browse OTU
Field occurrence attributes to DwcOccurrence
Browse field occurrence
Filter field occurrences
Field occurrences appear in OTU inventory endpoints
Taxon names with gender filter facet
Subject/object restrictions in filter nomenclature #3094

Changed

Filter attribute facet now more precise
DwcOccurrence by otu_id now checks FieldOccurrence as well
Updating a Person updates DwcOccurrence across projects
All updates to DwcOccurrence are via delayed jobs
Add total to unmatched panel on Nomenclature match task
Prevent user destroy last saved TD on New FO task #4225
Updated Ruby gems and Node packages
Navigation bar layout

Fixed

SimpleMappr output for large results
Synonymy section of Edit Nomenclature alphabetically sorted
Duplicate CollectingEvents filtered when Collectors facet used
FieldOccurrences not destroyable
DwcOccurrences being updated out of scope
Unescaped search strings on Project vocabulary
&sort=alphabetical|classification param to /taxon_names/
AssertedDistributions duplicating because of is_absent state #4226
verbatim_label not batch loading to "Castor" form #4230
Otu content export rendering exceptions
ObservationMatrixColumItem show rendering
Rendering of Identifier::Local::RecordNumber
Reset button is not working on Unify people
Import dataset description uniqueness validation failing to detect duplicate
CSD: It is not possible to add new taxon determinations to an existing CO #4227
New FO, CE Panel: Saved identifiers aren't loaded in the UI on page reload #4241
Unify object task: reset button doesn't clear autocompletes #4242
Capybara/Chrome testing
Venn queries with nested elements (candidate fix) #4224, #3983

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly 12 months ago

TaxonWorks - Version 0.48.0 release

Added

Browse Field Occurrence task #4200
Help for Project Vocabulary task UI fields #4192

Changed

Sort asserted distributions alphabetically in Quick Forms
Update taxon nomenclatural date after source update
Updated Ruby Gems

Fixed

Failure to set dwc_occurrences for rebuild for background processing
New collecting event task: Identifier panel sets and displays an incorrect identifier number #4208
Comprehensive digitization sometimes failing to save identifiers #4206
Bad link when creating a synonym where the old name has children and then clicking the green edit button in Edit Taxon Name #4196
Taxon names not being displayed in relationships facet of Filter Nomenclature task. #4193

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 1 year ago

TaxonWorks - Version 0.47.0 release

Added

Use Rails 7.2 and Ruby 3.3.6
New image task: Add field occurrence to depict some list #4135
Grab cursor to make sorting feature visible #4153
API endpoint for image matrix
Order of depictions coming from the image matrix
Hub tasks: Add visual effect for fav icons and tooltip for categories #4177
Distribution to COLDP exports #3148
Taxon links to COLDP exports
SpeciesInteraction to COLDP exports #3158
Specs and optimizations to COLDP
Pull metadata from ChecklistBank in order to merge updated metadata into COLDP exports
Filter's match identifiers facet can now be quickly accessed with shift-ctrl-m in a modal form
gift facet to Filter loans.
Multi data attribute update task #4142
Keys are now multifurcatable #4148
Identical Document validation
Some inline help and visual improvements #4177
Keys can be cloned, merged, and inserted to #4056
API endpoint for serving Image matrices

Changed

Match identifiers defaults to match Identifier, not internal, \n, and caseless match #4176
Added Gift status notices to loans form #4174
Improved and clarified DwcOccurrence indexing concepts and application
Improved writing to cached* fields for TaxonName

Fixed

Fixes to TaxonWorks CSL style
Bug in Image autocomplete
CatalogNumbers attached to Containers not appearing in CollectionObject tag #4163
OriginRelationship creation for Sequences #4180
CSD: change of namespace not updating #4147
TaxonWorks bibliography style for book chapter.
Removed obsolete Description table from COLDP exports
Remove [sic] from COLDP name fields #3833
Autonym synonyms bug in COLDP exporter #4175
New taxon name: Show only subject relationships on Relationships section
Images added before saving field occurrence are not saved #4134
Rendering Family group names from invalid names #4187
Verbatim latitude not displaying #4178

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 1 year ago

TaxonWorks - Version 0.46.1 release

Fixed

Add citation back to gallery endpoint #4136

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.46.0 release

Added

Topics can be unified #4106
Task - Controlled vocabulary terms across projects #4112
Source filter can operate on cached_* fields enabling link to project vocabulary #4123
/api/v1/otus/:id/inventory/images?sort_order= param to sort by class of Depiction object type
Task - Simplemappr (https://www.simplemappr.net) export support from Filter collection objects
Print key task #4071 #4117
/api/v1/leads/key/:id endpoint serving pinpoint key app
Filter loans: Identifiers, created by and updated by columns #4098
Edit/New loan task: Add none status option
Edit/New Field occurence task: biological associations panel #4103
Edit/New Field occurence task: depictions panel #4108
Matrix row coder task: Now and Today lock buttons #4110
More TaxonName soft validations

Fixed

/api/v1/otus/:id/inventory/images out of context depictions #4129
Unifying related BiologicalAssociations #4099
Async DwcOccurrence refreshes that referenced destroyed objects
FieldOccurrence Radial Navigator
Unify objects: Same object can be selected on both sides #4100
New taxon name: Cannot create new combination (under ICN) #4127
Syncronize misspellings #4109
Blank terms to /autocomplete endpoints raising
Rendering subspecies names in botany
TypeMaterial autocomplete
Some async DwcOccurrence updating callbacks

Changed

/api/v1/otus/:id/inventory/images response structure
Update Gemfiles

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.45.0 release

Added

Created/updated overviews for user data
Unify objects task #970
Attribution to ObservationMatrix
New biological association task #4026
Duplicate OTU predictor task #4083
DwcOccurrenceHooks for BiocurationGroups, OTUs
New image task: is original checkbox to source panel #4090
Confidence facets and batch operations to all Filters #4043
Browse nomenclature task: Radial annotator for OTUs

Changed

RecordNumber identifiers can be duplicated (namespace + identifier combinations) across CollectionObjects #4096
Local identifier display in CollectionObject tag now prefers position to break tie with RecordNumber and CatalogNumber #4074
Filter CO: Show only current taxon determination #4092

Fixed

Loan OTU facet #4087
With/out facets failing in combination with other facets #4089
Simple TaxonName batch load failing with invalid children
api/v1/images/:id broken for non-integer ids
Containerizing objects prevented identific increments
New dichotomous key: Radial annotator is not loading the correct data #4076

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.44.3 release

Added

dwc_occurrence_id[] param to dwc_gallery endpoint
Image matrix link to radial linker and radial matrix

Fixed

Date received facet on loans #4067
api/v1/images/975145cf4d25d7ed35893170abc2e852 style calls finding images by id, not fingerprint #3918

Changed

Updated Ruby gems
In DwC Import Otu name is now only set via use of identificationQualifier

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.44.2 release

Added

Sort by identifier match option #4065
/collection_objects/123/dwc_compact - DwC fields for those populated #3994
Pagination to /api/v1/otus/:otu_id/inventory/dwc_gallery

Fixed

Display of missing DwC fields #4051
verbatim_field_number updates ignored #4066
DwC importer verbatim_field_number collision with Identifier validation
Shortcuts: Keys pressed are not removed after user switches windows/tab

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.44.1 release

Added

/api/v1/otus/:id/inventory/keys a list of keys scoped to or containing the Otu
otu_id to ObservationMatrix, to facilitate setting scope and indexing of multi-entry keys
is_public flag to ObservationMatrix

Changed

Revert strict verbatim_field_number validation #4061
Renamed CollectingEvent verbatim_trip_code to verbatim_field_number #4058

Fixed

DwC eventDate should not be populated without an explict year reference #4053
DwC month should not be populated when range-provided #4055

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.44.0 release

Added

Create container task #3038
Endpoint crossreferencing dwc_occurrences and images api/v1/otus/:otu_id/inventory/dwc_gallery.json?per=1&page=2
Creating depictions of CollectionObjects now updates their DwcOccurrence automatically
Filters: Custom button to records per page selector #4032
New asserted distribution: Confidence panel #4044

Changed

Updated Ruby gems

Fixed

DwcOccurrence now actually selects the valid name on export
OTU taxonomy inventory API endpoint crashing on protonyms with no cached year and author.
DwC importer column indexing confusion when there are blank headers
Filter collecting event: Remove duplicate radial linker #4050

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.43.3 release

Added

With/out facets for Loan dates #3729
FieldNumber local identifier sensu DwC
RecordNumber local identifier sensu DwC #4016
DwC importer support for FieldNumber and RecordNumber #4016 #3800
DwC export support for FieldNumber, RecordNumber
New RecordNumber panel for Comprehensive Digization
Filter Otu: With/without common names
Radial annotator: Add sort to identifiers slice #4021
extend[]=valid_name to /taxon_names
Valid name column in filter nomenclature

Changed

DwC export will now use a valid taxon name if linked first to an invalid, and it is available
EventID and verbatim_trip_code are disentangled in DwC Importer, they do not map to one-another now #3800 #2852
TripCode is now FieldNumber (all data migrated)
DwcOccurrence rebuilds triggered for changes to TaxonNameRelationship #4019, TypeMaterial, TaxonDetermination, Identifier::Global
Wikidata IDs are now also loaded into recordedByID and identifiedByID #3989
Sort order of descendant inventory
Removed net-pop gem workaround for Ruby 3.3.3
Facet geographic area: Spatial mode by default
Facet nomenclature rank: Remove selected ranks from select input
Updated Ruby gems
New taxon name task: Add manual mode for subsequent combinations section when taxon rank is not in the list #4009
Optimized performance of Combination name rendering and use
Filters with Geographic area facet default to 'Spatial'

Fixed

Header labels print without higher taxonomy #4030
Staged images tab on collection object report
Non-integer identifier start/end ranges raising
Various facets in Filter OTUs not being scoped to unique records
Saving a bad identifier from annotator fails to show message why
Download formatted references as PDF
Quickly clicking save before load-in on Comprehensive can detach CollectingEvent from CollectionObject
Filter collecting events: data attribute table view is empty #4013
Field synchronize: URI Too Large error when user pass a long query #4017
DwC importer crashing on record with blank basisOfRecord #4024

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.43.2 release

Added

all button to predicate selector in Field Synchronize #4005
recent_target parameter to filters, one of updated_at (default) or created_at #4004
verbatim_name facet to Filter Nomenclature
Soft validation (and fix) identifying redudant use of verbatim_name in Combinations

Changed

Comprehensive Specimen Digitization: Prevent user add duplicate types for type materials #4002
Improved visual differentiation of Sandboxes

Fixed

Fixed Loan rendering when date_sent is blank #4001
New combination: Links in Other matchespanel didn't work

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.43.1 release

Changed

Updated gems

Fixed

Integer type checking impacting AssertedDistribution filter
Editing DataAttributes trigger complete re-index of the DwcOccurences #4000
Misspelled DwcOccurrence attribute

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.43.0 release

Added

Task to add image and as depictions to the objects identified in their filename #3986
PDF version of styled/formatted source download #3996
Type checking pattern for integers sent to *_id params in the API
Radial annotator: Pagination to depictions slice
Comprehensive: Pagination to depictions panel
Browse collection objects Pagination to depictions panel
Filter source: add ID to list #3984
TW_DISABLE_DEPLOY_UPDATE_DATABASE env var to disable DB backup and migration at deploy time.

Changed

repositories/autocomplete label #3981
Updated Ruby gems

Fixed

TaxonName filter Original combination with/out facet (both with and without)
Removed deprecated GoogleMap georeference form #3991
Print label generation #3992
Generating a TaxonWorks Download for a bibtex result failing #3997
Removed bad foreign-key constraint on BiocurationClassifications, TaxonDeterminations
Content autocomplete not scoped to projects
Some hotkeys don't work on Firefox on Linux #3988
Cancel previous autocomplete requests #3982

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.42.0 release

Added

Nexus file import #2029
POST /annotations/move?from_global_id=<>&to_global_id=<>&only[]=&except[]=
Clone CollectingEvent can include annotations, incremented identifiers
Model Identifier::Local::Event in part: #3800
Task - DwcOccurrence status
/api/v1/taxon_names/origin_citation.csv, taxon names plus their origin citation
Reasonable min/max elevations hard validations
Increased scope of string cleaning #3947
DwcOccurrence filter on all attributes
DwcOccurrence visible in Project vocabulary
Confirmation modal on mass annotator #3969
TW_ACTION_MAILER_SMTP_SETTINGS_USER_NAME, TW_ACTION_MAILER_SMTP_SETTINGS_PASSWORD and TW_ACTION_MAILER_SMTP_SETTINGS_AUTHENTICATION_TYPE env vars for container deployments

Fixed

CE batch update collectors #3936
Broken BiologicalAssociation scope for DwC download #3949
NeXML render to screen #3961
People queries referencing use_min and use_max in combination with other facets
/observation_matrix_column/list
Queries referencing emtpy identifier_start or end failing
Moving depiciton from an Otu could fail in some cases
OTU inventory endpoint failing when synonyms are empty
CachedMap metadata raises when out-of-date
Encoding unencodable text as Code128 breaks label preview
Identifier between range breaks filter when blank params passed
DwcIndex failing to update on Georeference, Role, BiocurationClassification, TaxonName, InternalAttribute changes
Sometimes URL parameters are set incorrectly in facets.
A COLDP export name and taxon remarks bug #3837
Project dump not working when all params were supplied #3967
Radial annotator: Selected object in "Move to" section is not displayed in Depictions slice
Project SQL export failed to export tables with NULL project_id.
Spatial Summary of the results in Filter Collecting Event "URI too large error" #3937

Changed

Upgraded to Rails 7. #3819
Changed default URL protocol to HTTPS for TaxonWorks-generated e-mails in production environments
Added bootsnap gem to speed up boot times. tmp/cache dir is used as cache by this gem
Removed versions_associations and shortened_urls tables from Project SQL export
Replace validations modal in Browse nomenclature task #3974
Updated Ruby gems
Georeference error_radius rounded to nearest meter before save #3946

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 1 year ago

TaxonWorks - Version 0.41.1 release

Added

An extended biological associations API endpoint #3944

Fixed

Empty higherClassification included ""
Resaving Image resets height/width and original filename
New image from Data raising from path error
Filters: JSON request URL overflows container when too long
PDF Button is missing in Filter Sources
DwC Import task: Replace dialog shows undefined instead the current value
Radial annotator: Data attributes can't be deleted from the list
Radial quick forms: Collecting event slice doesn't render correctly
CSD: In some cases, the locking mechanism does not work correctly #3941

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 2 years ago

TaxonWorks - Version 0.41.0 release

Added

Field synchronizer task- batch edit (regex too), update and syncronize columns and between columns
misspelling option to API taxon_name_relationship_set[]

Changed

Gemfile update
Improvements(?) to Collecting Event level classifier #3821

Fixed

Asynchronous batch updates on individual objects
Invisible edges in biological associations graph viz
PDF button is available for all document types #3933

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 2 years ago

TaxonWorks - Version 0.40.6 release

Changed

Updated Ruby gems

Fixed

Notes params not applied in Source filters (anywhere) #3927
OTU autocomplete raises when no taxon names match
CSD: Catalog number panel displays warning messages when the namespace is set

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 2 years ago

TaxonWorks - Version 0.40.5 release

Added

/api/v1/taxon_name_relationships.csv endpoint

Changed

Dwca otu_name only includes Otu#name, never anything else.
api/v1/otus/autocomplete now more acurately returns the label of the matching term, i.e. Combinations are supported in rendering [https://github.com/SpeciesFileGroup/taxonpages/issues/193]
Update Ruby gems

Fixed

Quick forms: Lock buttons don't work on Biological associations.
Week in review task #3926
Missing Image metadata breaks radial
Basic endemism task had a broken link out
Prevent raise on bad polygon (LinearRing) Georeferences

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 2 years ago

TaxonWorks - Version 0.40.4 release

Added

User estimated time tracking at the per-project level
Orphaned DwcOccurrence and DelayedJob job metadata to admin Health report

Changed

Unified some methods on dwca export, refactored for speedups and memory
Updated Ruby gems

Fixed

Dwca error from missmatched ids leading to bad sorts
Manage controlled vocabulary task: New button resets type #3923
Resource is spelled recource #3922

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 2 years ago

TaxonWorks - Version 0.40.3 release

Changed

Browse OTU: Replace descendants endpoint for the same used on TaxonPages. Now this panel is available for all ranks

Fixed

2 issues with taxon names autocomplete (internal and api/v1)

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 2 years ago

TaxonWorks - Version 0.40.2 release

Added

"Venn" factets to filter- logical operations on filter results #3908
Sort column on project vocabulary task #3915

Fixed

New collecting event: It tries to save the label even if it is empty
Spatial summary return to filter with empty cached level fields #3907
Comprehensive form: Sometimes Attributes are not cleaned when new collection object is created #3910
DwC importer crashing when uploading files with CSV extension.
DwC importer not honouring field and string delimiters when processing headers
DwC importing wrongly allowing unreadable files to be staged

Changed

Updated Ruby gems.

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 2 years ago

TaxonWorks - Version 0.40.1 release

Added

Some more quality-of-life changes to Leads/keys
Spatial summary report for CollectingEvent filter
Geographic Area radial navigator links to associated filters
Radial nomenclature: verbatim_author slice #3896

Changed

Gems updated

Fixed

Async batch update calls on individual objects failing #3905
DwC export without CollectingEvents failing #3897
Cloning CollectingEvents sets creator to the person who cloned the record
Filter Staged Images missing filter button #3901

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 2 years ago

TaxonWorks - Version 0.40.0 release

Added

Model FieldOccurrence (observations sensu iNaturalist), with corresponding "new" task #1643
Model "Lead" (dichotomous key support), with corresponding "new" task" #1691
Key hub task #3881
New OTU task
"Week in review" task, visualize records added and navigate to them in filter context
OTU name to Filter CO result #3861
Batch add/remove sources to project from Source filter #3888
Add taxon name autocomplete to Type specimen facet
DwC Dashboard: Use the same DwC download of collection object filter task
DwC-A Workbench: Add pagination for created imports
Clone mode on image matrix
Radial CO: Add preparation type slice #3889
Radial mass navigation #3672
Batch update or add data attributes #3748
!! TODO: Include OTU name in filter collection objects result [#XXXX]
Text file delimiter options to DwC import #3894
CSV format for DwC importer

Changed

Images can no longer be duplicated attempting and are seemlessly normalized at creation #2909
Filter images: Remove quick forms for Depictions #3869
New image task: Add alert when trying to restart the interface without applying changes
New CE: Destroy label when print label input is empty #3878
Updated Ruby gems
DwC importer now defaults to use " as string delimiter when importing and downloading tables.

Fixed

Project vocabulary handling of numeric fields
Rediculous number of identifiers preventing collecting event editing #3715
Community-based models not showing AlternateValues #3883
Browse OTUs: headers do not link to correct panel #3868
DwC-A importer crashing on hybrid formula scientific names
Crash when georeferencing with zero meters of uncertainty
New CE: Custom attributes don't refresh on new/edit CE [#3874]
Radial quick forms: Asserted distribution screen partially blocked by a white rectangle #3891
Print label task doesn't apply styles to labels #3776
Missing collection object links on map markers
Handling of [sic] in Protonym#original_combination_infraspecific_element [#3867]

Special thanks to Tom Klein for his amazing open-source contributions on this release!.

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 2 years ago

TaxonWorks - Version 0.39.0 release

Added

Project vocabulary task #864
Global identifier classes for Web of Science and Zoological Record #3853
/api/v1/biological_associations/simple.csv endpoint
Return a png of any image via /api/v1/images/:id/scale_to_box(/:x/:y/:width/:height/:box_width/:box_height) #3852
content_type and original_png attributes to /api/v1//images/123 #3852
Ability to extend housekeeping on some filters to check changes on related models #3851
Some new soft validations on Misspellings

Fixed

Handle bad BibTeX coming back from CrossRef.
Quick Forms: Observation matrices slice doesn't work
Quick Forms: Content slice doesn't display contents #3850
Browse OTU: Load preferences
New loan task: reset button doesn't work #3856
New image task doesn't create citations without attributions
Missing pagination headers for 4 endpoints #3859

Changed

Allow omitting seconds in non-interval ISO-8601 date times in DwC importer.

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 2 years ago

TaxonWorks - Version 0.38.3 release

Added

/api/v1/common_names #3794
/api/v1/biological_associations/simple A simple table format for BiologicalAssociations
Housekeeping facet in filters has "Recent" button with options to populate past date ranges
Radials to New image task

Fixed

DwC download not scoping DataAttributes correctly when records are a subset of objecs from a CollectingEvent
DwC Dashboard buttons scoped to recent timeframes #3774
A couple .csv endpoints for /api/v1
Radial annotator: Filter tab doesn't work in depictions slice #3824
Filters: Geographic area facet doesn't clear geographic area after reset #3840
Radial collection object: Taxon determination list is not visible
Align metadata in GeographicItem debug view
Biological associations filter bugs
Several radial annotator and batch annotator slice fixes
DwC checklist importer fails quietly when taxonomicStatus is empty #3783

Changed

Documents are no longer destroyed when the last documentation referencing them are deleted.
Use Ruby 3.3
CI build/test with PostgreSQL 15
CI base image uses Node 20

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 2 years ago

TaxonWorks - Version 0.38.2 release

Added

Highlight row on click in DwC Importer #3795
Batch update CollectingEvent from CollectionObject filter radial
Batch update meta_prioritize_geographic_area from CollectingEvent filter radial #3498

Fixed

CollectionObject summary nomenclature tag failing when no names are present
Papertrail views for most models were failing
Syncronized winding of polygons and multipolygons #3712, and others
DataAttribute alignment in DwC, take 3 #3802
Radial Annotator: Citation count no longer updates #3806
Radial Annotator: Depiction count no longer updates #3813
Radial annotator: Attribution slice loads incorrect records
Image matrix: OTU depictions cells are not displaying the correct images when otu_filter parameter is set
New combination task freezes in some cases
SQL project dump duplicating hierarchies tables rows causing index creation to fail on restore
OtuPicker doesn't display OTU label when a new OTU is created in New loan task [#3809]

Changed

All polygons and multi_polygons in GeographicItems are wound to CCW after save
Updated Ruby gems

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 2 years ago

TaxonWorks - Version 0.38.1 release

Fixed

DwC dumps cross-mapping attributes between CollectingEvent and CollectionObject (for real?) #3802
Favorite cards section layout
Radial batch triggers "re-search" when nothing is changed
Custom attributes component loads auto filled with incorrect values #3805
DwC importer crashing on real DwC-A zip archives when first table rows are not headers.

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 2 years ago

TaxonWorks - Version 0.38.0 release

Added

GeographicItem debug task
documentation_object_type and documentation_object_id to documentation filter

Changed

Use zeitwerk loading framework #2718

Fixed

DwC dumps cross-mapping attributes between CollectingEvent and CollectionObject #3802
Staged Image filter failing on some identifier queries
TaxonName batch update
Contributing link #3752
Uncaught promise errors #3767
Custom attributes triggers isUpdated ce state #3764
Custom attributes panels don't check if data attributes already exist #3762
Gender agreement of misspellings [#3782]
Loan item list doesn't update when adding a loan item from Tag or Pinboard #3784
Unable to add a CO loan item to a loan that already has an OTU loan item with the same id #3785
CO Loan gifts have tag "On Loan until false" #3731
Figure panel in New content task
DwC Occurrence Importer using out of project scope http://rs.tdwg.org/dwc/terms/FossilSpecimen biocuration class.
Hub: Status filter doesn't work correctly #3791
Hub: Left and right arrow keys on task hub don't work as expected. #3792

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 2 years ago

TaxonWorks - Version 0.37.1 release

Added

Emendavit status for ICN names #3716
"CONFIRM" screen when editing a collecting event with > 100 attached COs #3727
epithet_only parameter and facet to taxon name filter #3589
Links for users profiles on project members list (only for administrators)
Cursor and text to reveal project preference predicates can be reordered #3736
Batch append collectors to Collecting Events within CE filter
Batch set Collecting Event date and time within CE filter
Darwin Core superfamily, subfamily, tribe, subtribe export support
Darwin Core exporter: include Notes from most recent TaxonDetermination as identificationRemarks
Save user's custom layout tables #3756 #3307 #3568

Changed

DwC Occurrence Importer: Parse authorship information in typeStatus field
DwC Exporter: recordedBy and identifiedBy fields use First Prefix Last Suffix order
Project member list now has links for users profiles (only for administrators)

Fixed

dwc_occurrence_id param to /api/v1/dwc_occurrences
Another project_id scope issue in Otu Filter
Update DwcOccurence index endpoint
Uniquify people: Always show radials for selected person
Remove property doesn't work on Biological relationship composer
Feet to meter conversion does not work as expected #2110
OTUs autocomplete API endpoint ignoring having_taxon_name_only param
DwC importer creating multiple namespaces instead of just one for occurrenceID and eventID
Combination always visible #3366
Copy text from PDF

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 2 years ago

TaxonWorks - Version 0.37.0 release

Added

DwC verbatimLabel support #2749
Preview option and results reports for filter based batch updates #3690
Freeform digtization, draw shapes to stub CollectionObjects #3113
superfamily, tribe and subtribe DwC terms now supported in occurrences importer [#3705]

Changed

Improved simplified taxonomy rendering
Unifies all filter-originating batch updates to a common look and feel #3690
Report file size to browser for downloads
DwC Checklist Importer: blank originalNameUsageID skip original combination creation instead of erroring #3680

Fixed

Ordering of descriptors in TNT format [#3711]
Some ObservationMatrix views/formats were broken or unavailable for preview
DwC-A checklist importer: fix importer crash caused by nil parent
Address rendering on loan form #3645
Citation topic whitespace for paper catalog #187
Source filter with duplicate results when coming from another filter #3696
ancestrify parameter for Otu queries not scoping to TaxonNames correctly
Filter source: BibTeX type facet
Project data SQL export obfuscating all users instead of just non-members
Project data SQL export outputting only two rows per hierarchy-related tables
AssertedDistributions API index call failed when OTU not linked to taxon name
Missing valid names in nomenclature match task
DwC Occurrence Importer: prefer correct protonym spelling when misspelling matches current conjugation

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 2 years ago

TaxonWorks - Version 0.36.0 release

Added

Staged image CollectionObjects are destroy if a) stubs and b) depictions are removed from them to another CollectionObject #3172
/api/v1/biological_associations/123/globi (preview experiment)
/api/v1/biological_associations/123/resource_relationship (preview experiment)
BiologicalAssociations as raw TaxonWorks data/api/v1/biological_associations.csv
BiologicalRelationships as raw TaxonWorks data/api/v1/biological_relationships.csv
DwC ResourceRelationship extension (preview) #2554
Taxonomy summary to CollectionObject summary report
Metadata summary report from Filter BiologicalAssociations
Biological associations simple table preview, sortable columns #1946
GLOBI format table from Filter BiologicalAssociations (preliminary)
Family by genera report from Filter BiologicalAssociations
DwC ResourceRelationship extension preview from Filter BiologicalAssociations
Visualize network from Filter BiologicalAssociations
BiologicalRelationship can have Identifiers
"ancestrify" option to TaxonName and Otu filters (adds ancestors of filter result)
Auto UUIDs as new Identifier::Global::Uuid::Auto for models
Auto UUIDs are created for BiologicalAssociations and OTUs
Maintenance Task to add UUIDs to objects that can have them but don't
TaxonName model to customize attributes
TaxonNameRelationship model, added validation for the rank of type species and type genus.
New source task: Person source
Index view to API for /depictions
Added extend[]=role_counts to /person/123.json
Batch update OTU taxon_name within OTU filter #3656
DwC Checklist importer: support "invalid", "incorrectOriginalSpelling" taxonomic Status
DwC Checklist importer: option to match and update existing names rather than create new hierarchy from Root
DwC Occurrence importer: search for repository URL

Changed

CachedMaps of ancestors are set for rebuild when a descendant Georeference or AssertedDistribution is created
Radial annotator: Move selected source to the bottom in citation form #3652
DwC Occurrence importer: more helpful protonym, institution error messages
Filter interfaces: remove items from list instead redirect to data view #3659
New BiologicalAssociation defaults to task, not old form
Extracted CSV generating code to lib/export/csv

Fixed

Buttons to remove BiologicalProperties in composer failing #3673
Could not destroy BiologicalRelationship if properties attached
Some CollectionObject summary values were not scoped to filter query
Filtering People returned duplicate values one name string searches
BiologicalAssociations passed to TaxonNames missed object names
Nulified cached values in Collecting Event, if Geographic area deleted #3668
Match TaxonName based on original combination #3365
Radial AD: Quick/recent selector broken on "Move". #3640
New taxon name: Author panel overflow when source has a long link
Edit Loan: Loans created without recipient or supervisor cannot be updated
Fixed bug in DwC importer background processor that was not dealing with errored records.
Browse OTU: autocomplete overflow #3667
Comprehensive: Relationship doesn't show up on biological associations list #3671
DwC Occurrence importer: protonyms could not be found if authorship information didn't match
DwC Occurrence importer: protonyms could not be found if author was Person #3677
DwC Checklist importer: empty scientificNameAuthorship field would cause row to error #3660
DwC Checklist importer: subsequent combinations with synonym status whose parents are synonyms would cause row to error
Could not set Repository Index Herbariorum flag in interface
Uniquify People: autocomplete would not select people for merging if already present in Match people table

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.35.3 release

Added

Radial collection object: Add repository #3637

Changed

CachedMaps (WebLevel1) is now based on "State" shapes only, improving resolution
CachedMap build process adds pre-build step to greatly minimize overall number of spatial calculations
CachedMap spatial calculations use a intersection + "smoothing" approach
Also use year of publication to determine correct protonyn having homonyms #3630
Improved error message when typeStatus name is a homonym in DwC occurrences importer #3632

Fixed

Duplicate loans appearing Loan filter [#3636]
New source when cloned and saved is not added to the project sources #3629
Sequence display when not a Primer
CachedMap indexing speedups failed to properly utilize prior work
Duplicate CachedMapRegister rows being created per object
New Image task, second "Apply" button is not working #3628
' [sic]' not removed when searching for synonyms in database to compare with typeStatus in DwC occurrence importer #3633

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.35.2 release

Changed

Update Gemfiles
CachedMap algorithm, now far more precise.
Browse OTU: Image gallery section is now available for all ranks #3612
Map saves tile preferences #3619

Fixed

Anyone can destroy a Community (Global) identifier on a Community object #3601
Newfoundland/CAR mapping issue #3588
Role callbacks interfered with creation of nested objects #3622 !! Potentially breaking fix !!
Queries to /api/v1/sources not scoping to project when project_token used #3623
CollectionObject summary report tab clicks
Cached map preview incorrect/default GeographicItem id for GeographicAreas
Collection object summary report bad link
Task Biological associations graph: Save fails when trying to update a graph
Role picker doesn't show organization name when created #3611
Spinner hangs when apply fails in New Images task #3620

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.35.1 release

Changed

Doubled the number of favoritable tasks to 40 #3600

Fixed

TaxonPage stats, maybe, who knows at this point.
Images for OTU type material expanded to all protonyms
Reset project preferences #3599
Project TSV dump permissions on server side
Clone moved CVT, not cloned project

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.35.0 release

Added

Outdated names task for CollectionObjects (compare to COL) #2585
Unified project data download task #1009, in part
Download project as zipped TSV tables in Download #1009
CSV generating endpoints /api/v1/taxon_names.csv and /api/v1/otus.csv
Filter CollectionObject links to "Collection Summary" task #3434
CollectionObject type facet
Coordinate and collecting event sections in Browse OTUs

Changed

Download routes now name files as .tsv
CollectingEvent allowable max records made smart #3590
Added extend[]=attribution to /images/123.json

Fixed

TaxonNameClassification download
TaxonName descendants facet always included self, it shouldn't have
Without document facet
Object cloning in OriginRelationship caused infinite loops #3594
Quote handling in API autocomplete calls
Organization name not displaying in attribution copyright label
Manage Controlled vocabulary term: CVT list is not reloading after clone them from other project
Not possible to delete asserted distribution once added in radial object #3591
Manage controlled vocabulary: Delete button doesn't work #3593

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.34.6 release

Added

WKT and GeoJSON endpoints for /geographic_items/123.wkt
Clone ControlledVocabularies across projects #3562
Batch move taxon names to a new parent within TaxonName filter #3584
Batch update Source with a Serial within Source filter #3561
Browse nomenclature hierachy nav counts of invalid/valid link to filter
Reset forms for user preferences and project card favorites #3545
Otu RCC5 relationships to the COLDP exporter [#3569]
Filter images slice in radial linker #3574
Name relations to Catalogue of Life data package exports [#1211]
Type Materials to Catalogue of Life data package exports [#3213]
Filter list: Add border to highlight the last row where a radial was opened #3583

Changed

Update Gemfile
TaxonName stats metadata includes coordinate OTUs and synonyms of self
Change map position in Filter collecting events #3571
Add type material button is now blue #3579
Radial navigator: close radial menu when slices are opened in a new tab/window clicking and pressing ctrl/shift/meta keys #3582

Fixed

Loans referencing containers have 'Total' properly calculated #3035
TaxonDetermination sort order on CollectionObject comprehensive/browse... again #1355
OTU API autocomplete not resolving to valid OTU
Attribution rendering had cryptic license value #3577
GeographicAreas not registering for some DWCA imports [#3575]
New collecting event: georeference from verbatim button creates two identical georeferences #3573

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.34.5 release

Added

Cached map item report (linked from Filter OTUs)
Depictions list on Filter image

Changed

Calls to /api/v1 have a new key/value signature
Staged image metadata field format from JSON to JSONB [#3446]
Updated Ruby gems

Fixed

Batch import BibTeX failing on empty entries
Chronology stats report
ImportAttribute facet not working on any predicate searches
Taxon name/otus filter order bug
Staged image queries failing when multiple facets used #3556
Citations list is truncated in Radial Annotator #3560
DwC attributes are now showing in Stepwise determinations task
Quick taxon name only works for species #3554
Filter Images: Change per doesn't update the table #3566

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.34.4 release

Added

ImportAttribute facets to various filters
Project data curation issue tracking URL field (and to base API response) #3550
Manual option to regenerate derivative images on Show Image
API gallery endpoint /depictions/gallery
Image quick forms, add depictions in the context of an image #3540
Tables of data to nomenclature stats plots, with option to copy to clipboard
With/out nomenclature date facet on filter nomenclature
Determiners can be re-ordered (topmost, regardless of year, is preferred) #1355

Changed

Updated Gemfile
Updated JS packages
Derivative images strip EXIF and auto orient
TaxonName autocomplete change to a strict match mode.
Bold geographic levels in Type specimen panel in Browse OTU #3544

Fixed

Subqueries in unified filters were silently ignoring components of the query, e.g. fix spatial + subquery requests #3552
Geographic level names not displaying on Browse OTU #3553
Sqed images that fail processing will try again with slower method automatically #3070 #3443
TaxonName dynamic observation matrix row not properly scoped #3454
OTU API autocomplete fails to sort results
Duplicate type status per CollectionObject are not allowed #3535
Edit/New taxon name: Author order for taxon name does not match author order of source #3551
Some issues with order of roles (e.g. Determinations) in display #1355

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.34.3 release

Added

Task - Nomenclature by year plots #2472
API for BiologicalRelationships -api/v1/biological_relationships?extend[]=biological_property #3525
Organization to Attribution slice in Radial annotator #3529
Delayed job queue cached, currently used in Role-related updates #3437
Allow organization determiners in DwC occurrences importer

Changed

Error radius also captured as literal value in addition to conversion to error polygon #3471
Batch update of collecting event geographic areas is now run in the background, limited to 250 record #3527
Reverted index-based TaxonName autocomplete to comprehensive version
Upgraded docker env to Postgis 3.4

Fixed

Missing synonym record for basionym in COLDP export [#3482]
Fixed loan related links in several places #3463
Common name language ISO when no language #3530
Attribution displays owner/copyright holder Organization names #3515
CollectingEvent filter fails on cachedgeo* fields #3526
Reviewing and Organization's related data
CollectionObject timeline didn't show loans when object containerized #3528
Browse Annotations "On" filter doesn't work #3505
Georeferences are not cleaned after unset current collecting event in comprehensive specimen digitization task #3533
Fix collection object pagination in Browse OTU

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.34.2 release

Added

Subsequent Name Form section in New taxon name #3460
Original form section in New taxon name

Changed

New species name button is now always visible in Type section on New taxon name task
Improve COLDP export delimiter usability [#3522]
Updated Node packages and Ruby gems

Fixed

Role scoping broken, affecting things like Verifiers list #3514
api/v1/citation failing on last page of results #3524
Fix generation of Unit tray labels from Filter nomenclature
Object graph view failing to render (controller object no longer available!?)
People as sources missing missing relationship (broke object graph)
Combinations in COLDP exports lack rank #3516
Fix coldp.rb undefined method iso8601 for nil:NilClass #3512
Improve TaxonName autocomplete result prioritization #3509
Clone button is not clearing input after cloning

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.34.1 release

Fixed

Missing organization tab in Owner panel on New image task
BibTeX download shows incorrect results on New source task #3510
Asserted distribution API endpoint crashing when count is above 50

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.34.0 release

Added

api/v1/data_attributes/brief endpoint
api/v1/controlled_vocabulary_terms endpoint
Extracts are citable
modified and modifiedBy fields to the COL data package exporter #3464
Pagination to Labels and TypeMaterial .json endpoints #3472
DataAttribute columns for CollectingEvent and TaxonName filters
Added ranks for viruses
CachedMap framework - compute low-resolution maps quickly #3010
.json and .geojson endpoints implement CachedMaps at /api/v1/otus/:id/inventory/distribution
Administrator dashboard for CachedMap status
New indices for some name/cached related fields (Otu, TaxonName, Source)
Batch update Geographic area radial to filter collecting events
Customized API version of OTU autocomplete
GBIF map tiles as an option on maps
Add related option to nodes in Biological associations graph task
Layout settings for New image task

Changed

Predicted adjectives for the epithets ending with -ger and -fer
Optimized Gnfinder playground new-name detection
Optimized /api/v1/asserted_distribution, also now uses extend[]=geo_json (disabled if > 50 records requested)
Updated /api/v1/biological_associations to report full taxonomy #3438
Updated Ruby gems
Added date format recognition ####-##-## [#3453]
Add hyperlinks to OTU labels in Filter biological associations table #3444
Updated many relationships to validate based on presence of objects, rather than parameters
Simplified behavior of Otu and TaxonName autocomplete to use new fuzzier indicies
Clone loan button redirects to new loan task #3462
Multiple improvements in DwC importers

Fixed

Georeference parsing didn't handle new Z
Clearing PinboardItems by class
Rendering TNT matrix labels
Initializing new Extract when no Extracts present
DataAttribute filter facet not working for non-exact matches
Speed response for Filter's returning DataAttributes #3452
Going from Image filter to others could result in duplicated rows
DWCA Importer: Geographic Areas not imported #1852
Error on catalog_helper: history_other_name
Error on taxon_name_relationship on rank_name.
Create new asserted distribution when is_absent is checked in New asserted distribution task
Repository selection does not appear in Filter Collection Objects #3430
Docker pointing to outdated base image.
Global identifiers resolve check not honouring HTTPS
Interactive keys were not properly scoping to projects in some cases
Annotations were sometimes added to objects that no longer existed #3445
Disable editing of imported rows in DwC importer task #3469
Fixed URL hostname string matching in some places.
Matrix Column Coder throws an error after autosave ends and observation to be saved no longer exists
New line delimiter doesn't work in Filter collection object #3480

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 2 years ago

TaxonWorks - Version 0.33.1 release

Added

NOMEN batch importer error handling/reporting improvements #3427
More annotation-related facets to Observations filter

Changed

Autocomplete requests optimized by speed
NOMEN batch importer treats authors only as verbvatim, Roles are no longer created.

Fixed

Without depictions filter facets
Descriptors facets referencing observation/matrix presence/absence
Errors on taxon_name.rank_name and paper_catalogue.combination
Documents facet in Source filter
Documents from other projects appearing in count on radial annotator #3348
Verbatim name contained 'Suffix' #3425
Observation matrix facet doesn't work in Filter descriptors
Lock Is original and Is absent checkboxes in citation form
Pagination doesn't work correctly in Filter biological associations #3426
Records per page doesn't work on page change in Citations by source task

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 3 years ago

TaxonWorks - Version 0.33.0 release

Added

Basic RCC5 support (= OtuRelationship) #257
Unified filter to observation matrix integration #3415
Biological associations can now be depicted
Data depiction facets
Biological associations filter annotation-based facets
New stage-only staged image type #3400
New left-t stage layout #3367
Add button to add biological associations from Related modal in new biological associations task
ImportDataset facet in Filter collection objects #3419

Changed

Updated author and year string for family-group names
Recent predicate list
Recent languages list
People autocomplete
GeographicArea autocomplete (exact match on alternate value)

Fixed

Nomen (was "castor") batch load was not assigning parent correctly #3409
Source and People API endpoints don't try to authenticate #3407
Date range in filter Collection Object not being applied #3418
Year import in NOMEN (was "castor") import #3411
PublicContent missing is_community? method preventing reporting.
Loans dashboard fails to render when no loans are present
Staged image processing when boundaries fail to be calculated and calculate incorrectly
Bug with engine in interactive keys #3416
Collection object classification summary #3412
BibTeX typo #3408
Includes type material and type material observations don't work in Filter images
Changing the number of items per page or the page shows loan items that are not from the current loan in New/edit loan task #3413
Sort by name gives an wrong order in filter nomenclature task

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 3 years ago

TaxonWorks - Version 0.32.3 release

Added

Add/move/return collection objects from collection object filter #3387
Interpretation help for full name facet in people filter #3394
Total individuals to loan show/recipient form #3398
Download SVG button in Biological associations graph task
Related modal in Biological associations graph task
Return BibTeX with extend[]=bibtex on calls to /api/v1/sources
Related button to biological associations in Browse OTU
Pagination for loan items in Edit/new loan task #3391
Caption and figure label editable in Depictions list in Radial annotator #3396

Changed

Pagination headers are exposed via CORS #3380
Updated bundle gems
Ruby 3.2 is now required as minimum
API /people and /sources resources no longer require authentication #3385
The genus rank is allowed as incertae sedis
Trigger filter after change records per page selector
Always show pin button
Browse OTU biological association table contains related modal

Fixed

Global identifiers not appearing on community data #3393
Lag in selecting loan items on edit loan #3399
Collection object was loanable 2x in some cases
An issue when geo-json related facets were not being applied in Otu filter
Image filter with otu_id only returns as expected
Depictions/Images facet not consistent and broken #3395
Missing pagination for asserted_distributions API endpoint #3377
Delete wrong node in Biological associations graph #3383
Cannot clear Returned on date input for loan items in Edit/new loan task #3390

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 3 years ago

TaxonWorks - Version 0.32.2 release

Added

Geographic area smart-selector has click-to-select map option #3293
Add collection object quick forms in New type specimen task
New layout for collection objects filter - Data attributes
DarwinCoreasscociatedTaxa indexing via data attributes #3371

Fixed

Paper catalog raised when rendering some type material records #3364
Lock buttons are not working on New source task
Some rows don't show name string in Citations by source task #3370
Updating a data attributes updates related DwcOccurrences
API catalog method call #3368
Alternate values appear on community data #3363

Changed

Updated bundle gems
New D3 engine for object graph greatly improves performance, new rendering options
New DwC occurrence version reflecting #3371

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 3 years ago

TaxonWorks - Version 0.32.1 release

Fixed

Date related rendering error in Catalog

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 3 years ago

TaxonWorks - Version 0.32.0 release

Added

New biological association task #1638, in part #2143
New options to extend results in Nomenclature filter #3361
New panels for Adminstrators User activity dashboard
Deaccessioned layout for filter collection objects

Changed

Replace GeoJSON long/lat format to lat/long on interfaces #3359
Returned ability to show TaxonNameClassifications (from /taxon_name_classifications/list)

Fixed

Deaccessioned facet in Filter collection objects #3352
Reversed OTU taxon name facet #3360
Relationships are not listed in biological associations form in Quick forms
Topics are not listed after create them on Citation form in Quick forms
Combination names are missing in Citations by source
Handle another class of SQED raises
TaxonNameClassification API call raises
Raises related to cached_nomenclature_date
PublicContent causing OTU destruction to raise
Several paper-catalog rendering issues
Geographic area smart selector is not rendering correctly on Common names slice in Quick Forms

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 3 years ago

TaxonWorks - Version 0.31.3 release

Added

JSON nomenclature inventory endpoint /api/v1/taxon_names/:id/inventory/catalog

Fixed

Serial name filter query doesn't work
Serial facet
Authors facet doesn't work on Filter nomenclature
Fixed bug preventing combination update
Loan facet doesn't work on Filter collection objects #3345
Valid name is not provided for all matches on Match nomenclature task #3343
Object links don't work on Interactive key

Changed

Updated Ruby gems
nomenclature related validation changed from nomenclature_date to cached_nomenclature_date, which should speadup the process

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 3 years ago

TaxonWorks - Version 0.31.2 release

Added

Link from AssertedDistribution filter to BiologicalAssociations filter
All tab to biological relationships facet #3334
Biological Property to Manage controlled vocabulary terms

Changed

Add nomenclature code to relationships and statuses labels in Filter nomenclature #3333
All Loan edit requests resolve to the edit task #3330

Fixed

Biological association filter raises #3335
Mass annotator for Sources showed no options
People filtering doesn't work on Filter nomenclature #3332
Biological associations section shows incorrect results in Browse Otu #3336
Error message on Combination [#3340]
Clone last citation button doesn't work
Missing asserted distributions in Browse OTU and Quick forms radial #3337

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 3 years ago

TaxonWorks - Version 0.31.1 release

Fixed

Radial annotator documentation shows too much #3326
Cached values not updated #3324
Roles not displaying while edint loan #3327
Loan autocomplete #3329
Set as current button doesn't work on Original combination section in New taxon name task #3325
Repository autocomplete #3331
Some staged filter results failing to set size of window #3328
Fixed repository, source, serial, people autocomplete with new project_id param. New specs added
Short URLs not working due to Ruby 3.2 incompatibility.

Changed

/combinations/<id> redirects to /taxon_names/<id>

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 3 years ago

TaxonWorks - Version 0.31.0 release

Added

Filter asserted distributions task #1035
Filter biological associations task #1156
Filter content task
Filter descriptors task #2802
Filter loans task #2124
Filter observations task #3291 #3062
Filters can mass-annotate select rows (e.g. Notes, Citations) #2257 #2340
Filter collection objects with/out preparations #2937
Filter collecting events with/out any date value, verbaitm or parsed #2940
Filter collecting events with any/no value in field (covers, in part #2756)
Collection object filter - add with/out local identifiers facet #2699
Collection object filter - de-accession facet #3195
Data attributes facet returns results matching/without any predicate value
Integrated filters (pass results from one to another) #2652 Also in full/part #1649 #1744 #2178 #2147 #2770
Match identifiers facet added across filters/API #3151 #3058
Nomenclature filter - facets for names with/out citations and with/out documentation #2865
Nomenclature filter - facet for by year described #2059
Nomenclature filter - facet to return names with/out (subsequent) combinations #3051
Nomenclature filter - facet to for with/out original combination #2496
Protocol facet to collection object, collecting event filters #2803
Task - Loans dashboard #2116 (in part)
Task - Source citation totals (linked from Source filter) #2305
Ability to "coordinatify" an OTU filter result #3317
Figure label in label on image API response
Input to create N records in Simple new specimen #3269
Soft_validation for seniority of synonyms
Added cached_author to TaxonName

Fixed

Local identifier facet in filter CollectionObject #3275
Identifier within range includes +1,-1 results #2179
Data attribute facets #3075
Collection object filter finds objects by container identifiers #1240
Clarified collection object loan facet #3005
Radius based map searchers returned intersections, not covering results #2552
Data attributes not appending to DwC export #3280
DwC download from CollectionObject "not downloading"/closing #3313
Filter nomenclature returns original combination when there is none #3024
Staged image visualization incorrectly cropped #3260
Staged images incorrectly returning records with local-identified containers #3258
PK sequences was not setup in the correct dump stage in Export project task occasionally causing PK constraints errors on usage.
Radial object redirects to Data page after destroy a collection object in Simple new specimen task #3284
Wrong label for display unscored columns in Matrix column coder #3292
Duplicate records in nomenclature match task #3300
NeXML rendering bug
Breaking CoL export bug #3310

Changed

Unified look and feel of all filters #445 [#1677]
Filter OTUs completely rebuilt, numerous new facets #1633
Filter collection objects displays (customizable) columns of many types, not just DwC #3197 #2931
Unified form of filter/API *_ids and *_id parameters to always use singular #2188
Merged 'Task - Overdue loans' with Loans dashboard #2116
Export project task now removes hierarchies rows that don't belong to selected project #3271
Export project task no longer includes delayed_jobs and imports tables.
Clipboard hotkey combination #3273
Recently used confidence levels improvements
Multiple nomenclatural soft validation improvements
Improvements to intelligence of various autocompletes
Improved cursor focus on new source task
Update Ruby to 3.2.1
Updated Ruby gems
Updated Docker container (including psql client version to 15)

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 3 years ago

TaxonWorks - Version 0.30.3 release

Added

Search panel in New source task

Fixed

Programming error breaking loop with exit instead of break when calculating previous OTU.
Crash when attempting to view a Verbatim source because BibTeX panel cannot work with that type of sources.

Changed

Updated Ruby gems.

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 3 years ago

TaxonWorks - Version 0.30.2 release

Fixed

Asserted distribution citation label in Browse OTU
Records per page selector doesn't work in Filter Stage Images #3259
In NeXML output, TIFF images were not converted to JPG
Error when calculating previous OTU for navigation

Changed

Updated Ruby gems.

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 3 years ago

TaxonWorks - Version 0.30.1 release

Added

BibTeX type facet for Filter sources task #3218
With/without Source::Bibtex title in Filter source task #3219
Hyperling names in Nomenclature match

Fixed

"Remarks" column displays in Browse collection object DwC/gbifference panel
Browse OTU navigation dead ends #3056
Setting a Namespace to virtual updates cache properly #3256
Virtual namespaces identifier tags don't include duplicated Namespace #3256
Virtual namespace identifier preview does not render namespace
Incorrect valid name in Nomenclature match task

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 3 years ago

TaxonWorks - Version 0.30.0 release

Added

CoL data package improvements for Remarks, metadata,
Integrated GBIF remarks flags into Browse collection object #3136
Next/previous navigation arrows to Browse collection object #3229
More details to steps in stepwise determinations task
Added soft validation for duplicate family group name forms and misspellings [#3185]
With/out local identifier facet for collection objects and stagd images #3173
Filter by housekeeping and staged-image data attributes #3171
Delete selected collection objects (and their related data) from filter #3174
Collection object Autocomplete has loan and deaccession banners #3192
Autocomplete on Browse collection object #3189
Task - Collection object chronology, a plot of object by year collected, that's all
Endpoint to return related data preventing or included in destroy, e.g. /metadata/related_summary?klass=CollectionObject&id[]=16701&id[]...
Filter by gender and form classifications in filter nomenclature #3212
Serial facet to Filter sources #3211
tooltips and actions configuration properties to Map component #3234

Fixed

White-space around unit-tray headers #3191
Stepwise determinations confounded by invisible white-space #3009
OTU smart selector did not include items from the pinboard #3139
Source in n project autocomplete response [#3142]
'Also create OTU' on batch taxon name upload causing raise
Media observations removed if they have no more depictions via updates
Citation link in biological association panel on Browse OTU
Type relationship text/rendering is inverted in New taxon name task #3182
Sqed processing failing to encode HEIC images #3188
Common list component doesn't filter created status on New taxon name task #3205
Collectors facet doesn't work on Filter collecting event #3216
original combination label disappears when relationship doesn't include the current taxon name [#3067]
Sometimes keyboard table is duplicating shortcuts
Export Project Database task not exporting rows whose project_id is NULL #3203
Close icon is difficult to distinguish when modal background is transparent #3245
Missing identifiers and determinations on collection object table in New collecting event task #3246
Click "Manage Synonymy" in Edit Taxon Name task does not redirect #3250

Changed

Behaviour of recent records (smart selectors) updated to reference updates, not just created timestamps
Lock, navigation, UI, and code refreshments to Simple new specimen #3190
"TODO list" now a faceted search named 'Filter staged images' #3171
Refactored observation cell component for Image matrix
Updated Ruby gems
Webpack binaries: Replaced npm bin for npm root to allow compatibility with recent NPM versions
Nomenclature match updates #2176
Navigation key combination for radial annotator #3233
Truncate smart selector lists
Allow compare n objects in collection object match #3238
Include total of match/unmatched in Collection object match [#3237]

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly about 3 years ago

TaxonWorks - Version 0.29.6 release

Added

Print unit-tray headers from TaxonNames via Filter nomenclature #3160
New radial "Filter" navigators facilitating cross-linking to filters #2297
Option to force DwC indexing to prioritize names from Geographic Area #3143
Functionality to update CollectingEvents in the context of Browse collection object
Character state filter in Matrix Column Coder #3141
Better error handling and reporting when parsing BibTeX
Index for caching the numeric component of Identifiers

Changed

Updated Browse collection object interface #2297
Reload New source task by pressing New and loading source
Updated Ruby gems
Updated node packages

Fixed

Browse nomenclature crashing when taxon name descendants have no cached author year
Soft validation crashing when cached nomenclature date is absent
Role picker is missing after create a source from BibTeX #3180

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.29.5 release

Changed

Changed author labels on Filter source #3134
Minor changes to plots on administration activity dashboard
Parallelize some indexing rake tasks

Fixed

Recent and Quick list are empty on Citation annotator #3133

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.29.4 release

Added

Distribution, Material Examined sections, and zip download for paper catalog [#3098]
Code full columns, destroy all observations in a column #3117
"Display only unscored rows" on Matrix column coder #3103
Previous and next links in Matrix row coder #3107
Match identifiers facet to Filter extract task #3089
Clone previous citation to citation panels #3097
Populate column button for Matrix Column Coder #3117
scientificName is now implied in typeStatus when only the type of type is specified in DwC occurrences importer
Additional DwC classification terms #3118

Fixed

Broken URL for images in NeXML #2811
Improved Confidence annotation speed #3126
Destroying a Georefernce re-indexes related CollectingEvent #3114
Numerous issues in "Castor" TaxonName batch load
CollectingEvent cached geo-names (e.g. used in DwC export) missclassified #2614
Order of descriptors in nexus and tnt output is updated to reflect the column ordering
Homonyms without replacement name are now marked as invalid
Visible identifiers raising (e.g. broken object graph)
Presence Descriptor is not saving in Matrix row coder #3099
Missing number of objects for presence/absence descriptors on Interactive keys #3102
New column button doesn't add the new column to the interface #3109
Taxonomy inventory API failing with common names when language is not set
Missing taxon_name_relationships parameters #3096
Create matrix row button redirects to wrong OTU in OTU radial
Determinations not added to containers in "Edit Loan"task #1935
OTU images disappear when moving other images to observation cells #3111
Basic nomenclature failing to redirect when no name was selected
List of All Topics is not displayed #3125
Refactor confidence form #3129
Destroy selected Labels does not work #3127
Creating multiple type materials in comprehensive task #3131
DwC occurrences importer not reporting error when typeStatus is non-empty and yet it doesn't have correct format
Interactive key - Presence / absence descriptors are placed in non relevant list #3100

Changed

Removed New OTU link from New observation matrix task #3101
Disabled horizontal resizing for textarea inputs on comprehensive

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.29.3 release

Fixed

View image matrix button doesn't work in Interactive key task
Missing collectors parameters in Filter collecting events.
Pagination on Image Matrix task
Project Preferences task causing internal server errors
Boolean params not handled correctly on specific conditions in some filters

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.29.2 release

Added

Administration level project classification visualization #3092
Recent paramter to asserted distribution filter #3086

Changed

Updated Gemfile
Handle long queries to match facets in filters #3088

Fixed

Collecting event filter matching user creator/updator broken #3008
Rendering type material label with document label failed
Failed attempts at destroying a Predicate no longer raise
Prevent some breaking raises for Georeferences with invalid shapes
Select all button doesn't work in Print labels task #3093

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.29.1 release

[0.29.1] - 2022-08-31

Fixed

Radial navigator for TaxonName broken [#3087]
OTU link in New asserted distribution

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.29.0 release

Added

A simple paper catalog generator (preview!) #1473
Functions to summarize distributions for catalogs
GeographicAreas autocomplete references alternate values
People filter, with many facets #2876
Matches identifiers (results by delimited list of some identifier type) facet, to most filters #3080
Crosslink by ID between CollectionObject and CollectingEvent filters
Open in filter collection object button in Filter collecting event task
Added verbatim_label support for Collecting Event Castor batch load. #3059
Lock is_original and is_absent for Asserted distribution form in OTU quick forms #3085

Fixed

Local identifiers on community objects were displayed across projects
Object type is missing when otu filter param is passed instead observation matrix id in Image matrix task

Changed

Alternate values can be used on GeographicAreas #2506
Alternate values on community objects are shared by all projects
Global identifiers on community objects are shared across all projects
Optimized identifier next/previous, not fully resolved #3078
Updated Ruby gems.
Upgraded to newer Gnfinder service.
Enabled 10km tolerance to geographic area validation for verbatim georeferences.

Data

Migrates annotations on Community objects to be accessilbe across projects

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.28.1 release

Fixed

Settings modal is scrolled to the bottom when the modal is open.
Edit in image matrix and Open in matrix buttons don't open image matrix task on edit mode.
Create verbatim coordinates button dissapears after create request fails in New collecting event task
Depictions are not displayed correctly in Browse collecting event #3012
Cloned georeference are not loaded after cloning a collecting event #3076

Changed

Updated Ruby gems.
Updated Node packages.
Expanded drag and drop section in observation cell in Image matrix

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.28.0 release

Added

Adds data_attributes, data_attribute_value, data_attribute_predicate_id, data_attribute_exact in filter concern #2922
/api/v1/tags endpoint with tag_object_type[],tag_object_id[], tag_object_type, object_global_id, keyword_id[] #3061
Added pagination in the image_matrix
Matrix Column Coder - coding by descriptor #1385
Soft validation and fix for adding subsequen combination when original combination is different #3051
Added 'electronic only' field for the source to flag sources published in electronic only format
Default collectionCode namespace mappings as falback when institutionCode:collectionCode mappings do not contain a match in DwC occurrences importer.

Changed

Remove search box in observation matrix hub #3032
Type material form allows multiple type species in comprehensive task. #2584
Updated Ruby gems.
wikidata-client dependency is now fetching from RubyGems rather than custom fork.
serrano has been changed to a new custom branch which is identical to official gem except thor dependency has been downgraded for TW compatibility.
DwC occurrences importer mappings are not sorted by institutionCode:collectionCode

Fixed

Object global id param in identifiers API/filter
Bad logic check on adding new user to project
Dependency loop problem in DwC checklist importer

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.27.3 release

Added

Soft_validation for the year of taxon description compared to person years of life #2595
Pagination to Image matrix task

Fixed

Fixes rendering the author string in the catalogue #2825
Include facet is not working properly in Filter nomenclature #3023
Role picker changes order of roles after removing one #3003
Observation matrix TNT export failed due to undefined method error #3034
Date start and Date end display flipped in "Filter Collecting Events" #3039
Role picker list doesn't display suffix and preffix
By user facet is passing member id
Project user last seen at correctly reported

Changed

ElectronicPulbications moved from NomenNudum to Unavailable.
Updated Ruby gems and Node packages
OTU name string into link in Observation matrices dashboard task

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.27.2 release

Fixed

Content panel in browse OTU not working properly
Darwin Core Export failing on specific combinations of data attributes selection.

Changed

Updated Ruby gems and Node packages

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.27.1 release

Changed

People/Name toggle remove historical option for name #3028

Fixed

Content attributes response

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.27.0 release

Added

Task to manage pubilcation of Content to PublicContent #3004 in part
Task to merge taxon name relationships from one taxon to another #3022
Add determiner_name_regex to collection object filter #3026
API interactive key engine endpoint /api/v1/observation_matrices/123/key.json
API depictions endpoint api/v1/depictions/123.json?extend[]=image&extend[]=sqed_depiction&extend[]=figures
Taxon determinations stats in stats API
Setting tags for collecting events and collection objects in DwC occurrences importer #3019, #2855

Changed

Column order in Observation matrices dashboard task
Size of description input in Protocol form
Error code for merge people response

Fixed

Annotations panel doesn't display notes in Browse nomenclature
Wildcard matches on collecting event attributes failing
Select row in Observation matrices dashboard assigns incorrect ID
Last week citations stats in API showing values for images. #3020
Annotations panel doesn't display notes in Browse nomenclature
Geographic areas download failing to generate CSV
Flip is not working propertly in Uniquify people task

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly over 3 years ago

TaxonWorks - Version 0.26.2 release

Changed

Updated Ruby gems

Fixed

Filter collection object not working when attempting to show the record

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 4 years ago

TaxonWorks - Version 0.26.1 release

Changed

Upgraded to Ruby 3.1 #3011
Updated Ruby gems

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 4 years ago

TaxonWorks - Version 0.26.0 release

Added

Task - Stepwise determinations, facilitate verbatim to parsed determinations en masse #2911
Two more digitization stage types, "T" and "Inverted T" #2863
Added soft_validation fix to missing collection_object determination, when the type is designated [#2907]
Confirmation button for tags, preparation type and repository panels in CO Match #2995

Changed

Upgraded Node to version 16
Replaced Webpacker for Shakapacker gem
Upgrade PDF viewer library

Fixed

Nomenclature and observation matrix stats #1124 #1356
Cannot add a determination after editing one in comprehensive task #2996
"In project" button is not updated after select a different source in Edit source task #3000

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 4 years ago

TaxonWorks - Version 0.25.0 release

Added

Link to Download project in show project #2775
OTU geo-json inventory API endpoint, /api/v1/otus/123/inventory/distribution.
Collection object classification summary task #1864
Notes facet to Collection Objects filter #2966
Confirmation modal for clone button on New collecting event task #2978
Minutes/record estimate in project activity task #2979
Pagination in Citations by source task
Current repository facet in collection object filter #2975

Changed

Identifiers added to print labels [2959]
Improved Extract tables #2884 #2881
Improved Repository autocomplete #2993
Refactor citations by source task
Person autocomplete optimization
Cleaned up Label UI text
Removed some jQuery
Updated Ruby gems via bundle update
Use Catalog for API source of OTU nomenclature citations

Fixed

Extract/protocol UI issues #2990
Source year_suffix preventing cloning #2992
Dwca eml.xml file validates locally #2986
Missing params for api_nomenclature_citations added
Converted wkt parsing errors from exceptions to validation
DwcOccurrence version scope to project in Hub
Fixed soft validation on Collection Object related to determination date #2949
Original combination soft validations are not loaded when New taxon name task is opened
ObservationMatrixRow|ColumnItem index view failing because new links are not available
Author roles are no visible in Citations by source task
Increasing number of labels to print while label is selected adds that many to preview #2973
Geographic areas are not suggested based on verbatim coordinates in comprehensive and new collecting event task #2982
Cannot sort by column in filter collecting event task #2970
"Recent" determiners not working in Comprehensive #2985
Determiners locked are missing after press "Save and new" in comprehensive task #2943
Crashing when creating georeferences with invalid WKT input
ObservationMatrixRow|Column index and autocomplete calls
Lock source button is not working in OTU radial - biological associations form [#2989]
New type specimen duplicates specimen when updated after creating #2994
Sort column option is not working on Filter collection objects
Toggle members buttons is not working on Browse annotator

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 4 years ago

TaxonWorks - Version 0.24.5 release

Fixed

Previously loaned and returned CollectionObjects are unloanable #2964
People smart selector doesn't work to add new roles #2963
Type species section is empty in Browse OTU
Missing depictions caption and figure label in Image matrix task #2965

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 4 years ago

TaxonWorks - Version 0.24.4 release

Added

Organization roles to taxon determinations model

Fixed

Repository autocomplete raises #2960
Duplicated text in TaxonDetermination link #2947
Housekeeping facet in CollectingEvent filter broken #2957
Cannot set Determiner of CO to department/organization #2915
Combination view is broken on Browse nomenclature #2952
Matrix row coder button in Observation matrix dashboard task redirect to a wrong OTU in Image Matrix task [#2956]
Depiction radials are not working in Image matrix task #2954

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 4 years ago

TaxonWorks - Version 0.24.3 release

Added

DwC export includes occurrenceStatus #2935
Tag panel for images in New images task #2919
Repository section for Collection object match task #2918
Preparations section for CO Match task #2930
Match collection object button in Filter collection object #2917
Lock button for By section in New extract task #2926
With preparation facet in Filter collection objects #2937

Changed

Improved(?) behaviour of Extract autocomplete #2923
New BiBTeX based Sources match and/or create Serials for some types #2719
Improvements for taxon determinations in comprehensive task
Observation Matrix CSV dump uses full object labels #2912
Allow multiple origin relationships in New extract task #2928
Enable biocuration buttons only for the current collection object in comprehensive task [#2946]
Updated ruby gems

Fixed

Display full citation in image viewer #2857
Extract filter OTU id match not matching determinations #2925
Improve observation matrix row label handling #2902
Showing related data for Descriptor broken #2934
Collection object label is not updated after saving determinations in comprehensive task #2899
Label form is not updated after loading a collecting event in Comprehensive task #2898
Preferred catalog number for collection objects using first created rather than top of the list (also fixes wrong otherCatalogNumbers in DwC export) #2904
Missing not fixable error message for automatically soft validations #2877
Recent lists on Data have broken flex CSS #2920
Generating label from collecting event with verbatim trip identifier duplicates tripcode #2921
Leaflet map does not center the view on shapes
Programming typos affecting error handling in some batch loaders
PDF reading causing software crash with some PDF documents (e.g. encrypted and/or having unsupported features)
"virtual" spelled "virutal" #2938
Protocols should not display origin #2927
Determination lock not working for "Add to container" in Comprehensive task #2943
Role types table in uniquify people renders poorly when "show found people" or "show match people" enabled #2894
Syntax error during code generating synonyms and descendants for catalogs

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 4 years ago

TaxonWorks - Version 0.24.2 release

Added

New units mg, µg, ng, ml, µl, nl, ng/µl, Ratio (for Descriptor, etc.) #2887
Project activity report includes community data (but not scoped to project) #2893
Protocols for Observations #2889
Increment tripcode in New collecting event task #2441
Now and today buttons for time/date made #2888
Radial navigator to New extract task #2885

Changed

Refactor Uniquify People task. Added improvements #2858
Removed PDF viewer broad channel event
Updated Ruby gems

Fixed

Extract -> show rendering raising #2886
People being set as invalid during automatic activity updates
Project activity session report shows hours properly #2878
xAxis category ordering of Project activity #2891
Sometimes it's not possible move images from one cell to another in Image matrix task [#2874]
Uniquify people task are not merging all selected match people #2892
Media observations are not displayed after creating them using drag and drop box in Matrix row coder task. [#2880]
New extract task loads incorrect repository for existing extracts #2883
Extract edit link in New observation matrix task #2896
Incorrect matrix list is displayed on Observation matrix slice in Radial object #2901
Pages label is not displayed in citation form in comprehensive task #2903

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 4 years ago

TaxonWorks - Version 0.24.1 release

Changed

Time ranges for eventTime in DwC occurrences importer are now supported
Updated Ruby gems

Fixed

Observation matrix row filter generalized to work for all observation object types #2873

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 4 years ago

TaxonWorks - Version 0.24.0 release

Added

Collection object current_repository_id and interface toggle #2866
Use Namespace as DwC collectionCode #2726
Notes on CollectionObject export to DwC occurrenceRemarks #2850
Link to comprehensive digitization collection object via ?dwc_occurrence_object_id=123 #2851
Project user activity report task #50 #1062
'Inferred combination' to Browse taxon name header, when required #2836
Extract autocomplete
Matrix row coder supports mutiple Quantitative and Sample observations per "cell"
Extracts are observable #2037
Download observation matrix descriptors as text
Download observation matrix observations in .tab format
Observations have made_year|month|day|time attributes
Qualitative descriptor batch loader (Data->Descriptors->Batch load) #1831 (in part)
Modal depictions for all descriptors in Matrix row coder #2847
New georeference type for user-supplied points #2843
Extract rows in New observation matrix
Depiction modal for all descriptors in Interactive key
Link CollectionObject batch load to DwCA importer #2868

Changed

Administration activity report
DwC export uses a "sorted" column order #2844
Observations now are polymorphic #2037
Replace autocompletes by smart selectors in Common Name form on OTU radial #2840
Updated Ruby gems
DwC importer sex mapped changed to prioritize http://rs.tdwg.org/dwc/terms/sex DwC URI and also create sex biocuration group with such URI if none exist.
Taxon name label for original combination label in Citations by source task.
Add separate scrollbars to row and column tables in New observation matrix task #2799
Change form fields order in OTU radial - Biological associations
Updated ruby gems
Close modal after select a status in New taxon name
Escape new additional pseudo-LaTeX encodings from BibTex data

Fixed

DwC georeferencedProtocol references Protocols properly #2842
DwC georeferencedBy references Georeferencers properly #2846
Administration activity report raising #2864
OTUs and collection objects batch-loaders failing to initialize due to Ruby syntax error
Sqed depictions crash on cache update when no processing results are available
Asserted distributions on OTU radial is_absent no longer locks #2848
After saving an area with 'is absent' flag, the form stays locked in OTU radial Asserted distribution
Uniquify people roles list is missing role_object_tag #2853
Large list of taxon names are not loaded in Citations by source
Missing source_id parameter in Citation by source link on New asserted distribution and Browse OTU
New CO assigns a wrong Identifier type in New collecting event task #2862

Biosphere - Biodiversity Data Access and Management - Ruby
Published by LocoDelAssembly almost 4 years ago

Recent Releases of TaxonWorks

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