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Recent Releases of TaxonWorks

TaxonWorks - Version 0.19.3 release

Added

  • Added soft-validation for loan if no docummentation
  • Added validation on 5 date fields in the loan, setting the priority of events.
  • Added search on alternative title in the Sorce autocomplete
  • Pdf icon in citation by source
  • Cancel function for http requests
  • Edit mode for contents in Quick forms #2385
  • Soft validation for collection object, type material, biological association, georeferences and taxon determinations in comprehensive task [#2396]
  • Pinned icon for images in radial annotator #1919

Fixed

  • Biological association link_tag entities not metamorphosized #2392
  • Updated sorting for sources in autocomplete. Sources used in the same project are prioritized
  • Updated sorting for people in autocomplete. People used in the same project are prioritized
  • Autocomplete in Interactive key task
  • Copy and clone option in Matrix Row Coder
  • Edit biological associations form, broken HTML and fields incorrectly mapped #2370
  • Hidden pin and lock icons in asserted distribution quick form
  • biological_association_link helper
  • Confidence button
  • Dynamic rows/columns are not destroyable #2375
  • Asserted distribution edit view #2371
  • Missing citation and soft validation icons in New asserted distribution task
  • Typo preventing labels listings from working
  • Refresh summary in data view after use radial annotator
  • Collecting event soft validation in comprehensive task #2091
  • Missing param for BibTex #2397
  • Citation source not added to project if already in another project
  • Incorrect TypeMaterial type type validation for ICN #2378

Changed

  • Biological association links now link to subject, association (click middle) and object
  • Sort property, name to cached in Filter nomenclature #2372
  • Replaced property verbatim_author to cached_author_year for csv download #2373
  • Refactor notification code, replaced jQuery for js vanilla
  • Keyboard shortcuts code, replaced jQuery with vanilla JS
  • Pinboard code, replaced jQuery with vanilla JS
  • Annotations code, replaced jQuery with vanilla JS
  • Dropzone timeout #2384
  • Edit link redirect to new collecting event task #2387
  • Edit link redirect to comprehensive specimen digitization #2394
  • Add source to project when tagged #1436
  • Updated Ruby gems and Node packages

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

TaxonWorks - Version 0.19.2 release

Added

  • OriginRelationship display in Browse collection object #2362
  • Accession/Deaccession section in Collection object match task #2353
  • Similar objects section in MRC
  • Soft validation in Edit/new matrix task
  • Update download form [#2335]
  • Check and question icons

Changed

  • Upgraded from Ruby version 2.7.3 to 2.7.4
  • Updated ruby gems
  • Object validation component

Fixed

  • Help plugin
  • Original relationships in Collection object quick form
  • CO Quick forms in comprehensive specimen digitization #2354
  • Biological associations in OTU quick forms
  • Update type species in new taxon name task

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

TaxonWorks - Version 0.19.1 release

Added

  • Autogenerated description for OTU based on observation_matrix
  • Description section in Browse OTU
  • observation_matrix_id param in Browse OTU task
  • Description in Matrix row coder

Changed

  • Update per value from 5 to 500 in citations controller #2336
  • Updated ruby gems
  • Upgraded biodiversity gem to 5.3.1 (uses named params)

Fixed

  • Show selected options for biological associations in comprehensive specimen digitization task #2332
  • Option to hide "Attributes", "Buffered", "Citations" and "Depictions" sections in comprehensive specimen digitization task #2333
  • Missing fields in comprehensive form
  • Fields not showing in "original combination and rank" section in New taxon name #2346

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

TaxonWorks - Version 0.19.0 release

Added

  • Added new ICZN status: Invalid family group name due to synonymy of type genus replaced before 1961
  • Edit image matrix and view image matrix in observation matrices dashboard
  • WTK component in comprehensive digitization form #2245
  • Add invalid relationship checkbox on clone button in New taxon name task #2171
  • Download PDF button for documents in New source task #2102
  • Padial annotator for sources in New asserted distribution task #2105
  • Radial annotator for references in Browse Nomenclature/OTU tasks #2103
  • Depict person in New image task #2321
  • Move to person option for Depictions slice in Radial annotator
  • Sort by nomenclature in edit/new observation matrix task #1748
  • Added authors facet in Filter nomenclature task
  • Citations panel for Collection object section with lock option in comprehensive specimen digitization task [#2328]

Changed

  • Updated ruby gems
  • Migrate Vue 2.6 to Vue 3.1.4
  • geographic_area_ids to geographic_area_id in collection objects controller
  • Manage synonyms display only one level children in New taxon name #2213
  • Filter status and relationships according nomenclatural code in Filter nomenclature task #2157
  • User facet data range now allows to search for both criteria (updated_at, created_at) #2317

Fixed

  • Updated author string for botanical names
  • Timeline rendering error in Browse OTU
  • Fix wildcard by attribute in Filter collection object
  • Confidences modal height in radial annotator #2304
  • Fix empty search in Filter collection objects
  • Clean documents list on reset in New source
  • Missing hexagon soft validation in comprehensive specimen digitization task
  • Match by collection object is and tag creation in Collection object match
  • Destroy container when all other objects in container are deleted #2322
  • Clicking on "Tag" in Filter collection objects does not add tag #2323

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

TaxonWorks - Version 0.18.1 release

Added

  • Params for /api/v1/images/ #1906
  • Params referenced in /collection_objects to /collecting_events
  • /api/v1/taxon_name_classifications/ endpoint #2276
  • /api/v1/taxon_name_relationships/ endpoint #2277
  • TaxonName cached_is_valid boolean, takes into account Relationships and Classifications
  • Status to TaxonName autocomplete #2086
  • otu_filter param to interactive keys task
  • Radial annotator in New extract #2272

Fixed

  • Fix for author string for unjustified emendation
  • Scope has_many related data to project properly #2265
  • Refresh event for smart selectors #2255
  • Edit type material in comprehensive form #2253
  • Reset selected ids on new search in observation matrices dashboard
  • Tiff images are not render on image viewer
  • Removed reachable byebug call
  • Protocol not displayed after select it #2279
  • image aspect ratio in Transcribe depiction trask #2273

Changed

  • Unify Task Collecting Event filter look/feel #2203
  • Params to /taxon_name_relationships, see #2277
  • CoL Data Package scoping updates
  • Removed incompatible identifier object type check for Identifier filter concerns
  • Unified some CollectingEvent filter param to singular pattern (collector_ids, otu_ids, geographic_area_ids)
  • Plural params for identifiers API endpoint merged to array single form. e.g., identifier_object_ids[]=47&identifier_object_ids[]=2232 => identifier_object_id[]=47&identifier_object_id[]=2232. #2195
  • Updated Ruby gems and node packages
  • that_is_valid scope now references cached_is_valid #2242
  • that_is_invalid scope now references cached_is_valid #2242
  • calculated_valid replaces that_is_valid #2242
  • calculated_invalid replaces that_is_invalid #2242
  • remove unused TaxonName#cached_higher_classification

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

TaxonWorks - Version 0.18.0 release

Added

  • Added destroyed_redirect to object radial JSON
  • "Not specified" facet to Filter nomenclature #2226
  • New extract task interface #1934
  • citation experiment /api/v1/cite/count_valid_species?taxon_name=Pteromalus #2230
  • jsconfig.json for Visual Studio Code
  • Image matrix viewer in Image matrix
  • Image matrix button in observation dashboard task
  • Image matrix link in Interactive keys task
  • Export scss vars to javascript
  • Pagination count in Filter nomenclature
  • OTU depictions column on view mode in Image matrix task
  • Grid table component
  • SVG Icon component
  • OTU depictions draggable in image matrix
  • Observations depictions in Browse OTU
  • Ctrl/Alt + V shortcut for New Collecting event in Comprehensive task #2248

Changed

  • CollectingEvent autocomplete/object_Tag only shows verbatim lat/long
  • Removed allow_destroy from object radial JSON
  • Made returning count from /controlled_vocabulary_terms optional # @jlpereira Potentially UI breaking check for use, and add &count=true to request if required
  • Removed quantification fields from Extract
  • Warning message on nuke action in Grid digitize task #2229
  • Upgraded from Ruby version 2.7.2 to 2.7.3
  • Upgraded to Node 14 LTS
  • Updated Ruby gems and Node packages
  • node-sass to dart-sass
  • Refactor image matrix edit table
  • Webpack configuration to export sass vars
  • Images size in image section on Browse otu

Fixed

  • JSON for geographic area parents (no parent raise)
  • Hide soft validation section if is empty in New collecting events task
  • 404 error when deleting records from data interfaces #2223
  • Rank order on New combination preview
  • Redirect after destroy a combination #2169
  • Drag and drop depictions in Image Matrix
  • Georeference error message in comprehensive task #2222
  • Number of uses not displayed in Uniquify people task #2219

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

TaxonWorks - Version 0.17.1 release

Added

  • Moved endpoints to own model file
  • Permit params on client side
  • OTU picker on new observation matrix #2209

Fixed

  • Frame overlaps in interactive key task #2202
  • Parse coordinate characters on comprehensive and new collecting event tasks
  • Hide row/column panel on new observation matrix
  • Soft validation section is always visible #2211
  • Ambiguous column problem in query for previous/next collecting event navigation.

Changed

  • Replaced 1KB minimum image file size restriction with dimensions check (16 pixels minimum each) #2201
  • Switch selector on new observation matrix
  • Increment pdf filesize to 512MB #2212
  • Updated gems and npm packages

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

TaxonWorks - Version 0.17.0 release

Added

  • Adds SoftValidation component with fix buttons, and wrench (goto fix) links #207
  • Database index on Identifiers#cached
  • Tests for base #next/#previous #2163
  • create_backup_directory flag to create backup directory if it does not exist for taxonworks rake tasks requiring backup_directory.
  • Edit inline options on edit/new loan task #2184
  • Shortcut legend on new taxon name task
  • Help tip and placeholder for definition in Manage controlled vocabulary task #2196

Fixed

  • Bad project_token to API should not raise
  • Descriptor::Qualitative destruction destroys rather than raises when character states unused.
  • Previous navigation #2163
  • Documenting source doesn't add source to project #2172
  • Added missing params biocuration_class_ids and biological_relationship_ids to collection_objects_controller filter params. [skip-ci]
  • incorrect author string for misspelled combination is fixed
  • Missing data migration for ObservationMatrixColumnItem::SingleDescriptor to ObservationMatrixColumnItem::Single:Descriptor
  • Show observation matrices count on radial object [#2158]
  • Overflow on New observation matrix #2168
  • Clear geographic area after reset #2174
  • PK sequence not set up properly on project export
  • Local identifiers' cached values not being updated when updating namespace #2175
  • Uncertainty sign not populating in label #2109
  • Pressing the reset button doesn't reset the by attribute facet in Filter collection object [#2180]
  • Fix routes in edit/new observation matrices task #2198

Changed

  • Refactor SoftValidations and params including specs #1972 #768
  • Removed legacy non TaxonWorks agnostic import rake tasks (moving to their own repos)
  • Updated script predicting masculine, feminine and neuter species name forms
  • Changed how GeographicArea#find_by_lat_long is built (UNION, not OR)
  • Changed TaxonName string for superspecies names
  • Updated y18n node package to version 4.0.1 #2160
  • Replaced Canvas for SVG radial menu
  • Close radial object after select a matrix on observation matrices slice [#2165]
  • Radial menu slices position

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

TaxonWorks - Version 0.16.6 release

Added

  • Community stats for /api/v1/stats #2061
  • Add by-project param for /api/v1/stats #2056

Fixed

  • browse_otu_link handles nil #2155

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

TaxonWorks - Version 0.16.5 release

Added

  • Link from Browse colleciton object to Browse OTU for current OTU det #2154
  • Collection object filter params for preparation and buffered fields #2118
  • Added soft_validations and fixes for coordinate name citations and roles.
  • /collection_objects/123/navigation.json route/view
  • Determination, OTU and repository smart selectors on New image task #2101
  • Georeferences coordinates in label generate on New collecting event #2107
  • Lock buttons on New image #2101
  • Open PDF slider in all tabs #2106
  • TaxonName autocomplete by internal id
  • bind alt/ctrl + f to focus the search autocomplete #2132
  • Annotations on Browse nomenclature
  • Collectors facet on Filter collection objects task
  • Preview use panel on Manage controlled vocabulary #2135

Changed

  • Renamed -otus_redirect to browse_otu_link
  • Updated Protonym.list_of_coordinate_names query. It helps for soft validation.
  • Nexus output file was modified to present full name of the of the taxon. TNT export was not changed.
  • Lock background color #2112
  • sortArray function now return a natural sort
  • Open confirmation modal and focus new button on New taxon name
  • Next and previous links for id and identifier on comprehensive task [#2134]
  • Determiner facet on Filter collection objects task
  • Updated gems (bundle update without altering Gemfile)

Fixed

  • Compute print column divisions with barcode style labels #1993
  • Object tag for TaxonNameRelationship inverted #2100
  • Collection object filter, collecting event related params were not being passed #1807
  • Collection object filter with/out facets, in part #1455
  • CoLDP missing values for names without original combinations #2146
  • Multiple parent OTUs via parent_otu_id raised in CoLDp export #2011
  • Not being able to get pinboard items on some circumstances
  • Request-URI Too Large loading georeferences on Browse OTU
  • Tab order near parent when name is pinned #2130
  • Spinner in distribution section on Browse OTU
  • Destroying a container goes to 404 page #2133
  • Missing Determiner param #2119
  • Refresh status and relationship list on rank change #2010
  • Remove map shapes after reset form on Filter collection objects
  • Disabled Create georeference from verbatim button when latitude and longitude are not available #2152
  • Fix create determinations and biocurations before turn off the spinner #1991

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

TaxonWorks - Version 0.16.4 release

Added

  • Multiple presnece/absence params for collection objects filter #2080
  • Buffered field facets for collection object #1456, #1835
  • Filter collection objects by determiner (Person) #1835
  • Tag smart selector on create collection object in New collecting event task #2066
  • Year field on person source in new source task
  • Create new biocuration and in relationship links in filter collection object
  • Determiner in filter collection object
  • HEIC image format support
  • PDF drop box on new source task #2094
  • Confirmation modal to clone source #2099
  • Smart selector on attributions in Radial annotator #2081

Fixed

  • Uniquifying 2 people attached to the same source raises #2078
  • Render Source::Human cached with year, udpate citation_tag #2067
  • Qualitative states in matrix row coder order correctly #2076
  • Better source cached filter wildcards #1557
  • Observation matrices hub link #2071
  • Refresh button component #2085
  • Update comprehensive url #2096
  • /units.json called 2x #2089
  • Edit error radius of a georeference in new collecting event task #2087
  • Previous and next navigate navigation links #2039

Changed

  • Now using ImageMagick 7 instead of 6
  • Production and development docker images are now based off a single base image
  • Development docker environment uses rvm instead of rbenv (matching version manager that has been used for production)
  • Updated npm packages

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

TaxonWorks - Version 0.16.3 release

Added

  • Additional date recognition format in date RegEx
  • Pagination on Browse Annotations #1438
  • New combination for subgenus #748
  • Warn about unsaved changes on Accession metadata #1858

Fixed

  • eventDate/eventTime output format not being ISO8601-compliant #1939
  • Some value label in Filter sources
  • Dropzone error message
  • Redirect to Image Matrix on OTU Radial #2033
  • Race condition problem when generating dwc_occurrences indexing

Changed

  • Pagination in Filter sources
  • Replaced geckodriver-helper with webdrivers gem
  • Improvement sort table on collection object, source and nomenclature filters

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

TaxonWorks - Version 0.16.2 release

Added

  • Fields with/out some value facet for Source filter #2023
  • Keyword params to TaxonName API
  • Adds database index to Sour title, year, author
  • Keyword and/or logic in Tag facets (throughout) #2026, #2032
  • /ap1/v1/stats endpoint #1871
  • papertrail.json?object_global_id=
  • Quick label on collection object quick form #2003
  • Lock biological relationship in radial object [#2036]
  • Confirmation popup to delete a type material in comprehensive
  • Tag facet to filter nomenclature #2047

Changed

  • Checkmark on verbatim should visible only
  • Updated gems (bundle update without altering Gemfile)
  • Updated node packages (npm update without altering packages.json)
  • Changed verbatim author for cached_author_year in filter nomenclature
  • Keywords styled after choice in Tag facet
  • Keywords removed from all list after choice in Tag facet

Fix

  • Model LoanItem - Tagged batch adds tag, not object #2051
  • Prevent non-loanable things being loaned #2043
  • ancestors param properly permitted TaxonName api/filter
  • TaxonName#name allowed spaces #2009
  • Fix help tip of pinboard navigator shortcut
  • Generate label button #2002
  • Save collectors in new collecting event task #2016
  • Fix image viewer on filter image task
  • Image caption modal size #2030
  • Set created loan object #2042
  • Refactor edit load items #2044

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

TaxonWorks - Version 0.16.1 release

Fixed

  • Missing depiction_object_type on New image task #1995
  • Sort case-insensitive #1985

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

TaxonWorks - Version 0.16.0 release

Added

  • New collecting event task #1530
  • "Quick" collection objects options from new collecting event task
  • New WKT georeference inputs
  • Auto-georeference and date Collecting Events by depicting images with pertinent EXIF data
  • Route linting specs
  • Generate label (alpha), pastes values into print label input
  • Collecting event navigation options (next/previous with/out
  • Nested_attributes for Labels
  • Collection object/and collecting event navigation options/bridges
  • /collecting_events/preview?<filter_params> a preview look for brief tables
  • Subclasses for labels:Label::QrCode, Label::Code128
  • Include rqrcode, barby for barcode rendering
  • Add label attribute to Label JSON response that renders QR code
  • Add accommodation for printing pages of barcode-based labels
  • Add Georeference::Wkt an anonymous WKT based georeference assertion
  • Add option to disable name-casing when Person is created from /people/new #1967
  • Full CASTOR (taxon names batch load) example template, CASTOR preview notices
  • New ICZN class added: NoDiagnosisAfter1930AndRejectedBefore2000 for family-group names
  • Add image attributions, original citation and editor options in image viewer #1978
  • Browse current OTU button in Browse OTU

Changed

  • Moved buttons in collecting event on comprehensive task #1986
  • Improved collecting event status in smart selector on comprehensive digitization
  • Some tasks route names were "malformed" and renamed
  • ENV variableTAXONWORKS_TEST_LINTING=true must now be true, not anything, to trigger linting specs
  • Setting Identifier#cached uses a build getter to enable Label building
  • Georeference validation requires CollectingEvent (enabled by proper use of :inverse_of)
  • Tweak to how pinned? is calculated trying to eliminate database calls
  • Minor cleanup of batch preview layouts
  • Changed softvalidation message for names being on Official ICZN lists
  • Fetch codecov, seedback and closure_tree gems from RubyGems.
  • Updated gems (bundle update without altering Gemfile).
  • Remove no_leaves= true from taxon name on filter images task #1953
  • Turn off autocomplete feature on vue autocomplete #1956
  • Limited CoLDP exports runtime to 1 hour and 2 attemps.
  • Turn off autocomplete on new taxon name task
  • Replaced display name attribute for object_label in parent autocomplete on New taxon name task
  • Filter task by name only [#1962]
  • Search geographic area by verbatim coordinates on new collecting event
  • Show coordinates from verbatim georeference
  • Parsed verbatim label to fields
  • Parsed EXIF coordinates to verbatim fields
  • Changed autocomplete label #1988
  • Using newer biodiversity gem from official source
  • Updated gems (bundle update without altering Gemfile)

Fixed

  • Loan items reference proper housekeeping in table
  • Line links of batch-preview results
  • broken API download link for exported references #1908
  • removed BASIS task stub #1716
  • /api/v1/notes project scoping #1958
  • is_community? reporting false for some models without project_id
  • New source after cloning not display changes on authors / editors lists
  • Edit taxon name firing multiple updates when updating gender #1970
  • Correct image size on image viewer
  • Save pages before clone person on new taxon name #1977
  • Correct count display of attributions #1979
  • Uncheck collecting event option #1980
  • Trip Code/Identifier not visible in header of Edit collecting event #1990

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

TaxonWorks - Version 0.15.1 release

Added

  • Show buffered values in Task - Browse collection objects #1931
  • Default pin button on Uniquify people task
  • Checkbox to Select/unselect all match people on Uniquify people task #1921
  • Pixels to centimeter on new image task

Changed

  • Clean timeline display in Task - Browse collection objects
  • db:seed displays password for created users and adds admin to Default project #1913
  • Start date needs to be set before set end date on Housekeeping facet
  • Bump node package ini from 1.3.5 to 1.3.7

Fixed

  • CVT smart selectors/pinboard scope broken #1940 #1941
  • Image filter ancestor_id was to be taxon_name_id or taxon_name_id[] #1916
  • Bad Image select_option sort #1930
  • Housekeeping filter params now less restrictive #1920 PENDING UI TEST
  • ShallowPolymorphic called in .json form #1928
  • Documentation of param names, examples, for the "CASTOR" taxon name batch load #1926
  • tw:db:load task not handling settings reliably. #1914
  • Set pulse attribute true on radial annotator for object with annotations on data views and Browse nomenclature task
  • Invalid attribute :note in Note API result view.
  • Malformed PDF exception handling in Document model.
  • Clipboard copy shortcut
  • Source hub link on Citations by source task
  • Clean content editor after change a topic

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

TaxonWorks - Version 0.15.0 release

Added

  • Export project database task #1868
  • Additional collecting methods recognized from the collecting event label
  • Added content filter, API endpoints #1905
  • New greatly simplified controller concern ShallowPolymorphic for handling link b/w shallow routes and filters
  • Note filter improvements, specs, new params, API exposure [#XXX]
  • person#sources has_many (very slight potential for issues)
  • Multiple new people filter params, see lib/queries/person/filter.rb #1859
  • People can be Tagged
  • Added image filter #1454
  • Added image smart selector #1832
  • Added pixels_to_centimeter to images #1785
  • PENDING TEST - API - sort (with classification, alphabetical options) to /taxon_names #1865
  • Taxon determination, citations and collecting event information in specimen record on browse OTU
  • Serial facet on filter sources
  • Pulse animation for radial annotator #1822
  • OTU column in asserted distribution on Browse OTU #1846
  • Radial annotator on Uniquify people task
  • History title on Browse nomenclature
  • otu_ids param on Image matrix task
  • Open image matrix button on Interactive keys task
  • Citations on image response
  • View mode on image matrix
  • Lock view option for smart selector
  • Sortable option to lock column/rows on edit/new observation matrix task #1895
  • Media Descriptor support on Matrix Row Coder #1896
  • Free Text Descriptor support on Matrix Row Coder #1896
  • Search source on New source task #1899
  • Link to Browse OTU on New asserted distribution task #1893
  • Link to Browse OTU on comprehensive specimen digitization #1889

Fixed

  • Potential issue (may be others) with CoLDP raising in the midst of large exports
  • People filter role + name #1662
  • Fix family synonym validation [#1892]
  • Fix matrix view row order #1881
  • CVT view helper bug with predicates
  • Fixed database seeding bugs.
  • Fixed display problem of OTUs without taxon name on Browse OTU
  • Edit asserted distribution on quick forms
  • Reference overflow on Browse nomenclature
  • Date requested filled automatically #1872
  • Remove collecting event on comprehensive specimen digitization [#1878]
  • Loan smart selector DB query.
  • Label overlap on menu on observation matrices view #1894
  • Remove repository on comprehensive specimen digitization #1897

Changed

  • change the order of TaxonName softvalidation to bring the duplicate message on the top
  • tweaked CoLDP reified id concept and use
  • removed most_recent_upates from Content params
  • removed /contents/filter.json endpoint, use /contents.json
  • Deprecating Concerns::Polymorphic for ShallowPolymorphic, in progress, see Notes controller
  • Note filter params query_string => text, note_object_types[] => note_object_type[], note_object_ids[] => note_object_id[], added corresponding non-array versions
  • Moved levenshtein_distance to Query for general use
  • Remove people/123/similar endpoint (used /index)
  • Person filter person_wildcards is person_wildcard
  • Person filter behaviour vs. levenshtein_cuttof
  • cached_valid_taxon_name_id updated for combination after valid status is assigned.
  • updated soft validation for 'Uncertain placement'
  • [sic] changed to (sic) for misspelled bacterial names
  • Additional date and geographical coordinate formats added to the Verbatim label RegEx parsers
  • Observation matrix could be resolved without observation_matrix_id, only with otu_filter
  • Running rake db:seed without user_id/project_id is now possible.
  • Disabled hamburger menu when no functionality behind it on Browse OTU #1737
  • No longer needed set user on User facet in filters
  • Autocomplete label for original combination on New taxon name task
  • Changed "n/a" to combination label on Browse nomenclature
  • Create original citation in image matrix task
  • Autocomplete list style
  • Edit button color on type material species task #1898
  • GitHub Actions used as main CI/CD provider
  • Updated vulnerable node packages #1912

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

TaxonWorks - Version 0.14.1 release

Added

  • API - type to /roles/:id
  • API - year to /taxon_names
  • API - include_roles param to /people
  • API - taxon_name_author_ids[]=, taxon_name_author_ids_or params to /taxon_names
  • API - collector_ids[]=, collector_ids_or params to /collecting_events
  • Shape on asserted distribution list #1828
  • Row filter on Interactive keys task
  • Interactive keys and image matrix buttons on observation matrix dashboard

Fixed

  • Wrong param attribute in topic smart selector on radial annotator #1829
  • Show repository on Browse OTU
  • Enable search after fill collecting event fields #1833
  • Missing geo_json param on geographic_area request #1840

Changed

  • Exclude Roles from response from /api/v1/people by default
  • Increased max_per_page to 10000
  • Random words clashes mitigation: Project factory names made longer and Faker unique generator is reset only between specs instead of before each test.
  • Removed pages field on topic section
  • Improved verbatim date parsing
  • Georeference scope over geographic area scope #1841

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

TaxonWorks - Version 0.14.0 release

Added

  • Collecting Event API endpoints
  • Collection Object API endpoints
  • Biological Assertion API endpoints
  • Asserted Distribution API endpoints
  • New Otu API params
  • People filter API endpoints #1509
  • Identifier filter API endpoints #1510
  • Source filter API endpoints #1511
  • New Interactive Key task #1810
  • New model for matrix based interactive keys which produce JSON for the Interactive Key task #1810
  • weight field to descriptor
  • Ancestors facet on filter nomenclature #1791
  • TW_DISABLE_DB_BACKUP_AT_DEPLOY_TIME env var to disable built-in backup functionality at deploy/database-update time.
  • Display coordinate type specimens #1811
  • Changed background color header for invalid names on Browse OTU
  • Taxonworks version in header bar when not running in sandbox mode

Fixed

  • Fixed radial navigator broken for some data #1824
  • Fixed IsData position #1805
  • Collecting event object radial metadata settings
  • Webpack resolved_paths deprecation warning
  • Missing /otus/:otu_id/taxon_determinations route
  • tw:db:restore task not picking up database host settings
  • Create citation on new combination without pages
  • Param descriptor id on new descriptor task #1798
  • Filter by user on filter nomenclature #1780
  • Optimized selector queries for Loan model

Changed

  • Fix original author string for Plant names
  • Additional date format added for date recognition RegEx
  • Removed some attributes from api/v1 endpoints to simplify responses
  • type_materials/:id.json includes original_combination string
  • CoLDP references are full cached values, not partially passed
  • Combination nomenclatural code inference drawn from members, not parent
  • Some nomenclature rank related simbols moved to constants
  • Load Images for coordinate OTUs #1787
  • Extended New Image task upload timeout from 30 seconds to 10 minutes
  • Updated rgeo-proj4 gem

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

TaxonWorks - Version 0.13.0 release

Added

  • Browse OTU page unifies coordinate OTUs for Asserted Distribution and Biological Associations #1570
  • Handling for new unicode minutes, seconds symbols #1526
  • Descriptor object radial paths
  • Many specs related to dynamic observation matrix items
  • Improvements to Descriptor autocomplete labels #1727
  • Added rake tw:maintenance:otus:missplaced_references #1439
  • Pdf viewer button on Documentation and Source views #1693
  • Spinner for when converting verbatim to bibtex #1710
  • Set OTU in determination when otu_id param is present on comprehensive task
  • "Create georeference from verbatim" button in Parsed column on comprehensive task
  • Sortable order for Type material, Biological association and Determinations on comprehensive task
  • User facet on Filter nomenclature task #1720
  • Pagination on Filter noemnclature task #1724
  • Biological associations filter on Browse OTU

Changed

  • AssertedDistribution filter otu_id and geographic_area_id can now also take array form, e.g. otu_id[]=
  • Preload all CSL styles via fixed constant, increasing boot speed #1749
  • Return value format for Utilities::Geo.distance_in_meters changed from [Float] to [String]
  • Data migration updating all type column values for matrix row/column items
  • Tweaked JSON attribute response for matrix rows and columns very slightly
  • Updated observation item types to properly nest them, inc. all downstream changes (Factories, etc.)
  • Unfied matrix hooks in various places
  • Updated some matrix related routes to point to tasks
  • Updated respec matrix tag to observation_matrix
  • Methods that write to cached should not fire callbacks, potential for #1701
  • Using custom geckodriver-helper for Firefox 80 support
  • Override browser shortcuts on task hotkeys #1738
  • Biological associations section on Browse OTU
  • TW now supports Postgres 12 #1305
  • Replaced biodiversity with custom gem repo using IPC with gnparser processes
  • Updated gems
  • Character "΄" also accepted as minute specifier in coordinates parsing.

Fixed

  • Fixed LOW_PROBABILITY constant message
  • Matrix rows/items prevent OTU (and collection object) from being destroyed #1159
  • Scope of dynamic taxon name row item #1747
  • Processing of values (in distance_in_meters) to limit significant digits of results of unit conversions. Decimal degrees not affected at this time. #1512
  • Character state order not correct in Nexus format #1574
  • Not able to destroy matrix rows or matrices #1520, #1123
  • Dynamic observeratoin matrix items not properly scoped/behaving #1125
  • Destroy pdf pages before create new ones #1680
  • Serial multiple updates did not update bibtex author field #1709
  • Fix (likely) for pinboard items failing to remove #1690
  • Better response for failed collecting event cloning #1705
  • Cleaned up deprecated biological associations graph autcomplete #1707
  • Colliding namespace method for identifiers breaks identifiers list #1702
  • Graceful failed serial destroy response #1703
  • Restored Show -> edit link #1699
  • Enable search button after pick a collecting event date on Filter collection objects task [#1728]
  • Misppeling collecting_event_ids parameter [#1729]
  • Non-original combination authorship lacking parentheses #1686

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

TaxonWorks - Version 0.12.17 release

Added

  • Successfull source destroy message
  • Pending - Definition field to BiologicalRelationship model and views #1672
  • New button to (attempt to) convert verbatim sources to Bibtex via Crossref
  • Model methods and attribute to change Source Verbatim to Bibtex #1673
  • DOMPurify package to sanitize html
  • List all Keyword and Topics in smart selector on filter source #1675
  • Added data links tool in markdown editor (Ctrl/Alt-Shift-L) #1674
  • Definition field on composer biological relationship task #1672

Changed

  • Unified can_destroy/edit methods
  • Improved Source autocomplete with metadata/markup #1681
  • Changed CoLDP download to use Catalog::Nomenclature as name source
  • Replace SimpleMDE for EasyMDE
  • Sort alphabetically bibliography style list on filter source
  • Removed limit of download bibtex on filter source #1683
  • Disable/enable destroy button from metadata on radial navigator #1696

Fixed

  • Non admins not able to destroy shared data #1098
  • Pending confirmation: Include original combinations in CoLDP #1204
  • Pending confirmation: Include forma/variety properly in CoLDP #1203
  • Docker: Fixed path typo on clean up command
  • Tag button on filter source #1692
  • Overflow in taxon names list in new taxon name #1688
  • Confidence button overlapped in new combination #1687

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

TaxonWorks - Version 0.12.16 release

Added

  • Highlight metadata that is not in this project in uniquify people task #1648
  • Locks buttons on grid digitizer task #1599
  • Option to export styled bibliography on filter sources task #1652
  • Edit button in content section on radial object #1670

Changed

  • Drag button style on new taxon name #1669
  • Removed SimpleMDE lib from ruby assets and added to npm dependencies
  • Allow taxon name type relationships to be cited #1667

Fixed

  • BibTex html no longer escaped #1657
  • Some of the elements of the form are not accessible on overflow. #1661
  • Populate masculine, feminine and neuter on gender form #1665
  • Markdown render on Browse OTU #1671

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

TaxonWorks - Version 0.12.15 release

Fixed

  • Sqed hook initiated with String, not Class #1654

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

TaxonWorks - Version 0.12.14 release

Added

  • Help tips in comprehensive specimen digitization task
  • Help tips in new source task
  • Type section in Browse OTUs task #1615
  • Automatically filter sections by taxon rank in Browse OTUs task
  • Rank string in browse nomenclature
  • Pinboard navigator (Ctrl/Alt + G) #1647
  • Filter by repository in filter collection objects #1650
  • Hotkey for add element to pinboard (Ctrl/Alt + P)

Fixed

  • Collectors order in comprehensive specimen digitization
  • Losses data of etymology form after set a gender
  • Autocomplete component not encoding query params properly
  • Random RGeo deserialization errors #1553

Changed

  • New combination redirect to the valid name #1639
  • Rename comprehensive specimen digitization task card
  • Updated chartkick gem #1646
  • Improved verbatim date and geographic coordinates recognition
  • Improved soft validation messages for coordinated species-group

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

TaxonWorks - Version 0.12.13 release

Added

  • Delete confirmation for original combinations #1618
  • Delete confirmation for type specimens in new type specimen task
  • Check if already exist an asserted combination with the same otu and geographic area in new asserted distribution task #1329
  • Modal on duplicate original citations in radial annotator #1576
  • Soft validations component for citations in radial annotator and tasks #1552
  • Redirect to valid name in browse nomenclature #446
  • sessionStorage for browse nomenclature autocomplete #446
  • Observation matrices in radial object #1527
  • Comprehensive task to taxon name radial #934
  • Map on OTU radial in asserted distribution form #856
  • Pin objects from list in filter sources
  • Checkbox to make document public on list in radial annotator
  • Title legend for "make default" icon in pinboard slide
  • Checkbox to alternative between AND/OR filter for authors in filter sources
  • Lep staged 2 layout for staged images #1635

Changed

  • Use amazing_print instead of awesome_print gem
  • Cleanup and add spec basis for nomenclature tabular stats queries
  • Improve/unify image modal #1617
  • Replace repository and source autocompletes for smart selectors in new type material task
  • Changed autosave behaviour in new asserted distribution task
  • Gender list order in new taxon name task
  • Page range soft validation message made less strict
  • Original citation-related UI text
  • Moved taxon name input search to right column in new taxon name
  • Persons autosave in new taxon name
  • Updated elliptic node package. #1632

Fixed

  • Flip object to subject label on type section in new taxon name task
  • Shapes are possible to drag even if this option is not set up
  • Columns size of georeference table #1622
  • Webpacker host and port bind on docker container
  • Wrong taxon name relationship soft validation message for genera
  • Modal confirmation its not displaying in manage synonyms section #1627
  • Manage synonyms includes combinations #1628
  • Recent and per params in source filter and controller
  • Missing ZIP dependency for docker images
  • Attempting to return geographic areas in OTU smart selector on certain conditions

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

TaxonWorks - Version 0.12.12 release

Fixed

  • Seeing OTUs in Recent that do not belong to project #1626

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

TaxonWorks - Version 0.12.11 release

Changed

  • Type material designations are now grouped by collection object in Browse OTUs (refs #1614)

Fixed

  • Protonym parent priority soft validation #1613
  • Type specimens count in Browse OTUs task
  • Attempting to update containers as if them were collection objects in Grid Digitizer task #1601

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

TaxonWorks - Version 0.12.10 release

Added

  • Smart selection source on new combination and citations annotator
  • Parsed verbatim label on comprehensive specimen digitization task
  • Soft validation in timeline on Browse OTUs #1593
  • Topic facet in Filter Sources task #1589
  • Counts on type specimen and specimen records sections on Browse OTUs
  • Collecting method parsing in verbatim label text

Changed

  • Replaced vue-resource package by axios
  • Disabled parallel upload on new image task #1596
  • Default verbatim fields order on comprehensive specimen digitization
  • Set radius error in verbatim georeference #1602
  • Timeline filter.
  • Missing High classification ranks on classfication autocomplete on new taxon name #1595
  • Date and geo-coordinates parsing improvements
  • Also update cached taxon name fields when Adjective or Participle is selected
  • Repositories and Serials smart selectors' recent entries optimizations

Fixed

  • Filter collecting events was passing a wrong (changed name) parameters and structure for maps and geographic area
  • Not showing up people list after a crossref source #1597
  • Scroller in georeferences map modal
  • Grid Digitizer task failing to update containerized specimens matched by identifiers #1601
  • Specimen not associate with genus after create it in type section on new taxon name #1604
  • Volume field only accepted numbers #1606
  • Smart selectors not remove the previous selection after press new on New source task #1605
  • Georeference methods latitude returning longitude and longitude latitude
  • Smart selector overrides custom list after lists are loaded #1608
  • Duplicate shortcut, using the same one for comprehensive specimen digitization and clipboard #1612
  • Typo in taxon name relationship soft validation message.

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

TaxonWorks - Version 0.12.9 release

Added

  • Endpoint for verbatim label parsing (dates and geographic coordinates)

Changed

  • Display [sic] on misspellings of family-group full taxon names

Fixed

  • Containerized objects not showing up together #1590
  • Citations by Source task not loading taxon names list #1591

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

TaxonWorks - Version 0.12.8 release

Added

  • Set autofocus on source and geographic area in OTU radial asserted distribution form
  • /otus/123/coordinate.json endpoint - all OTUs coordinate with this one (refs #1585)
  • Autosave on new asserted distribution task

Changed

  • Unauthorized json response
  • Better error handle for vue-autocomplete
  • Replaced old method to handle ajax call in all tasks
  • Updated relationships filter param on new taxon name task (refs #1584)
  • ControlledVocabularyTerm model no longer requires SKOS with URI (refs #1562, #1561)
  • Improved sorting of objects in the Browse Nomenclatue task
  • Updated dwc-archive gem to version 1.1.1

Fixed

  • Topic select_optimized controller method crash
  • Recent list of biological associations not working due to the use of incorrect table

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

TaxonWorks - Version 0.12.7 release

Added

  • Taxon name status and relationships soft validations display in Browse Nomenclature task
  • Interface to select OTUs and create rows in Observation Matrices Dashboard task
  • Autosave system in New Taxon Name task (refs #649)
  • Etymology filter in Nomenclature Filter task (refs #1549)
  • Added new shortcuts for Comprehensive Digitization, New Type Specimen, New Taxon Name and Browse Nomenclature tasks
  • Classification section in New Taxon Name task
  • Spec to test md5 of multi-line verbatim labels (refs #1572)
  • Display classifications alongside relationships in Browse Nomenclature task
  • Add children and add sibling buttons in New Taxon Name task (refs #1503)
  • Link to create new serial on smart selector of New Source tast
  • Semantic section coloration in Browse OTU task (refs #1571)
  • Rank prediction in New Taxon Name task (refs #1054)

Changed

  • Optimized recently used geographic area and sources search
  • Improved part of speech and etymology soft validation messages
  • Year suffix and pages are now also used when sorting citations in Browse Nomenclature task
  • Replaced old geographic area smart selector with newer version
  • Swapped 'Masculine' and 'Femenine' positions in New Taxon Name task (refs #660)
  • Replaced uses of find_each with each (refs #1548)
  • Refactored New Taxon Name front end code
  • Display text of some taxon name relationships
  • Autocomplete visible in all tabs of smart selector
  • OTU autocomplete searches now also matches by common names (refs #869)
  • Browse Taxa task renamed to Browse OTU
  • Using unreleased closure_tree code from official repo to address deprecation warning messages
  • "valid by default" no longer displayed when a relationship exists in New Taxon Name task (refs #1525)
  • Improvements in BibTex and New Source task UI
  • Improvements in role picker and smart selectors in Comprehensive Collection Object Form and New Source tasks
  • Optimized some filters for some smart selectors (refs #1534)
  • Smart selector for sources no longer ordered by name
  • Some minor UI tweaks in some places
  • Updated ruby gems

Fixed

  • Recently used objects code on some models
  • Collection Object Filter task not filternig by type material type (#1551)
  • Forms not being cleared when pressing new on Compose Biological Relationships task (#1563)
  • Not getting the full list of topics when clicking all in Radial annotator -> Citation -> Topic (#1566)
  • Showing name instead of the short name in Radial Annotator -> Identifiers -> Preview (#1567)
  • create button keeps disabled when creating a new citation fails in Radial annotator -> Citation (#1568)
  • Incorrect method call in Match Georeference task view
  • Display of misspellings on taxon name relationships
  • Femenine and neuter names ending in '-or' not being accepted (#1575)
  • Spinner not disabled when entering malformed URIs in Manage Controlled Vocabulary task form (#1561)
  • "--None--" results obscuring buttons until clicking off the record (#1558)

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

TaxonWorks - Version 0.12.6 release

Added

  • CHANGELOG.md
  • Matrix observation filters
  • Full backtrace in exception notification
  • count and several other basic default units to Descriptors #1501
  • Basic Observation::Continuous operators
  • Linked new Descriptor form to Task - New descriptor

Changed

  • Updated node packages and changed webpacker configuration
  • Progress on fix for #1420: CoLDP - Name element columns only getting populated for not valid names
  • Made TaxonNameClassification scopes more specific to allow citation ordering (refs #1040)

Fixed

  • Minor fix in observation matrix dashboard
  • Potential fix for PG::TRDeadlockDetected when updating taxon name-related data

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