Releases: globalbioticinteractions/elton
Releases · globalbioticinteractions/elton
0.12.4
Features
n/a
Improvements
- upgrade to globi libs v0.23.4
Bugs
- fix issue that prevented indexing of Stokland et al. 2006 via https://github.com/globalbioticinteractions/saproxylic due to Jena RDF initialization issue (#51)
References
Stokland, J.; Dahlberg, A.; Meyke, E.; Schigel, D.; Siitonen, J. (2006) The Nordic saproxylic database - a comprehensive overview of the biological diversity in dead wood. 1st European Congress of Conservation Biology - "Diversity for Europe". August 2006, Hungary. Book of Abstracts. Society of Conservation Biology (USA) & Blackwell Publishing (UK) p. 159 .
0.12.3
0.12.2
0.12.1
0.12.0
Features
n/a
Improvements
- upgrade to globi libs v0.22.0 to incorporate various bugs and improvements. See release notes for v0.22.0 for more information.
- make GloBI badge turn green on successful indexing of supporting and refuted interactions. Previously only indexed supporting interactions created a green badge.
Bugs
- ensure that all GloBI index configurations published to Zenodo's GloBI community are included, instead of their related github repository. Previously, only a few Zenodo publications were included because Elton did not know how to retrieve all Zenodo publications, only the first page of results.
0.11.1
0.11.0
Features
- First integration with v0.3.0 preston-cas, Preston Content-addressed Storage library (bio-guoda/preston#127) as a drop-in replacement for local Elton cache storage functionality.
Improvements
- upgrade to globi libs v0.21.3 to improve ability to extract parasite-host records from Manter Laboratory of Parasitology among other things.
Bugs
n/a
0.10.13
Features
- as suggested by @zedomel - report DwC-A row types/ fields used to extract interaction records via
resourceTypesas pipe delimited list (see #47 and bio-guoda/preston#115).
For instance, note resourceTypes with value http://rs.tdwg.org/dwc/terms/associatedTaxa | http://rs.tdwg.org/dwc/terms/Occurrence in example below.
$ elton update ParasiteTracker/vampire-moth-dwca && elton review ParasiteTracker/vampire-moth-dwca | grep resourceTypes | cut -f15 | head -n1 | jq .
{
"reviewId": "327010db-83e5-4d27-8db9-71aef638b277",
"reviewDate": "2021-06-02T22:20:27Z",
"reviewerName": "GloBI automated reviewer (elton-0.3.5-SNAPSHOT)",
"reviewCommentType": "info",
"reviewComment": "biotic interaction found",
"namespace": "ParasiteTracker/vampire-moth-dwca",
"context": {
"archiveURI": "https://github.com/ParasiteTracker/vampire-moth-dwca/archive/c4549a1690b84595c88946f477057b9ab76e5360.zip",
"basisOfRecordName": "PreservedSpecimen",
"contentHash": "5304518021dd435af41637132ad7629d464db3f8221a60f9e4cb89fddc28c0e9",
"decimalLatitude": "43.74295",
"decimalLongitude": "131.636967",
"dwc:coreid": "109954",
"http://portal.idigbio.org/terms/recordId": "urn:uuid:9a2c12f6-a7fe-49ac-b136-9120eea0384d",
"http://purl.org/dc/elements/1.1/rights": "http://creativecommons.org/publicdomain/zero/1.0/",
"http://purl.org/dc/terms/accessRights": null,
"http://purl.org/dc/terms/language": null,
"http://purl.org/dc/terms/modified": "2018-09-18 10:06:09",
"http://purl.org/dc/terms/references": "https://symbiota.ccber.ucsb.edu:443/collections/individual/index.php?occid=109954",
"http://purl.org/dc/terms/rightsHolder": "Jennifer Zaspel",
"http://rs.tdwg.org/dwc/terms/associatedTaxa": "eats: Homo sapiens",
"http://rs.tdwg.org/dwc/terms/basisOfRecord": "PreservedSpecimen",
"http://rs.tdwg.org/dwc/terms/catalogNumber": "CtAP001",
"http://rs.tdwg.org/dwc/terms/class": null,
"http://rs.tdwg.org/dwc/terms/collectionCode": null,
"http://rs.tdwg.org/dwc/terms/collectionID": "536183ef-fb5c-4d8a-90a9-082af56eeb9b",
"http://rs.tdwg.org/dwc/terms/coordinateUncertaintyInMeters": null,
"http://rs.tdwg.org/dwc/terms/country": "Russia",
"http://rs.tdwg.org/dwc/terms/county": null,
"http://rs.tdwg.org/dwc/terms/dataGeneralizations": null,
"http://rs.tdwg.org/dwc/terms/dateIdentified": null,
"http://rs.tdwg.org/dwc/terms/day": "20",
"http://rs.tdwg.org/dwc/terms/decimalLatitude": "43.74295",
"http://rs.tdwg.org/dwc/terms/decimalLongitude": "131.636967",
"http://rs.tdwg.org/dwc/terms/disposition": null,
"http://rs.tdwg.org/dwc/terms/dynamicProperties": "targetTaxonName: Homo sapiens; targetTaxonId: https://www.gbif.org/species/2436436; interactionTypeName: eats; interactionTypeId: http://purl.obolibrary.org/obo/RO_0002470; targetBodyPartName: blood; targetBodyPartId: http://purl.obolibrary.org/obo/NCIT_C12434",
"http://rs.tdwg.org/dwc/terms/endDayOfYear": null,
"http://rs.tdwg.org/dwc/terms/establishmentMeans": null,
"http://rs.tdwg.org/dwc/terms/eventDate": "2008-00-20",
"http://rs.tdwg.org/dwc/terms/family": null,
"http://rs.tdwg.org/dwc/terms/fieldNumber": "JMZC1B",
"http://rs.tdwg.org/dwc/terms/genus": null,
"http://rs.tdwg.org/dwc/terms/geodeticDatum": null,
"http://rs.tdwg.org/dwc/terms/georeferenceProtocol": null,
"http://rs.tdwg.org/dwc/terms/georeferenceRemarks": null,
"http://rs.tdwg.org/dwc/terms/georeferenceSources": null,
"http://rs.tdwg.org/dwc/terms/georeferenceVerificationStatus": null,
"http://rs.tdwg.org/dwc/terms/georeferencedBy": null,
"http://rs.tdwg.org/dwc/terms/habitat": null,
"http://rs.tdwg.org/dwc/terms/identificationQualifier": null,
"http://rs.tdwg.org/dwc/terms/identificationReferences": null,
"http://rs.tdwg.org/dwc/terms/identificationRemarks": null,
"http://rs.tdwg.org/dwc/terms/identifiedBy": "JMZaspel",
"http://rs.tdwg.org/dwc/terms/individualCount": null,
"http://rs.tdwg.org/dwc/terms/informationWithheld": null,
"http://rs.tdwg.org/dwc/terms/infraspecificEpithet": null,
"http://rs.tdwg.org/dwc/terms/institutionCode": "Milwaukee Public Museum",
"http://rs.tdwg.org/dwc/terms/kingdom": null,
"http://rs.tdwg.org/dwc/terms/lifeStage": "Adult",
"http://rs.tdwg.org/dwc/terms/locality": "Kraunoka River Valley",
"http://rs.tdwg.org/dwc/terms/locationRemarks": "Europe",
"http://rs.tdwg.org/dwc/terms/maximumDepthInMeters": null,
"http://rs.tdwg.org/dwc/terms/maximumElevationInMeters": null,
"http://rs.tdwg.org/dwc/terms/minimumDepthInMeters": null,
"http://rs.tdwg.org/dwc/terms/minimumElevationInMeters": "91",
"http://rs.tdwg.org/dwc/terms/month": "0",
"http://rs.tdwg.org/dwc/terms/municipality": null,
"http://rs.tdwg.org/dwc/terms/occurrenceID": "9a2c12f6-a7fe-49ac-b136-9120eea0384d",
"http://rs.tdwg.org/dwc/terms/occurrenceRemarks": "Sample Donor: JMZaspel Donor email: [email protected]",
"http://rs.tdwg.org/dwc/terms/order": null,
"http://rs.tdwg.org/dwc/terms/otherCatalogNumbers": "A01JMZC1B, JMZC1B",
"http://rs.tdwg.org/dwc/terms/ownerInstitutionCode": null,
"http://rs.tdwg.org/dwc/terms/phylum": null,
"http://rs.tdwg.org/dwc/terms/preparations": null,
"http://rs.tdwg.org/dwc/terms/recordNumber": null,
"http://rs.tdwg.org/dwc/terms/recordedBy": "JMZaspel",
"http://rs.tdwg.org/dwc/terms/reproductiveCondition": null,
"http://rs.tdwg.org/dwc/terms/samplingEffort": null,
"http://rs.tdwg.org/dwc/terms/samplingProtocol": null,
"http://rs.tdwg.org/dwc/terms/scientificName": "Calyptra thalictri",
"http://rs.tdwg.org/dwc/terms/scientificNameAuthorship": null,
"http://rs.tdwg.org/dwc/terms/sex": "NA",
"http://rs.tdwg.org/dwc/terms/specificEpithet": null,
"http://rs.tdwg.org/dwc/terms/startDayOfYear": null,
"http://rs.tdwg.org/dwc/terms/stateProvince": "Primorye Territor",
"http://rs.tdwg.org/dwc/terms/taxonID": null,
"http://rs.tdwg.org/dwc/terms/taxonRank": null,
"http://rs.tdwg.org/dwc/terms/taxonRemarks": null,
"http://rs.tdwg.org/dwc/terms/typeStatus": null,
"http://rs.tdwg.org/dwc/terms/verbatimCoordinates": "43.74295, 131.636967",
"http://rs.tdwg.org/dwc/terms/verbatimDepth": null,
"http://rs.tdwg.org/dwc/terms/verbatimElevation": "91 m",
"http://rs.tdwg.org/dwc/terms/verbatimEventDate": "20-VII-2008",
"http://rs.tdwg.org/dwc/terms/year": "2008",
"http://symbiota.org/terms/recordEnteredBy": null,
"interactionTypeId": "http://purl.obolibrary.org/obo/RO_0002470",
"interactionTypeName": "eats",
"interactionTypeNameVerbatim": "eats",
"localityName": "Kraunoka River Valley",
"referenceCitation": "https://symbiota.ccber.ucsb.edu:443/collections/individual/index.php?occid=109954",
"referenceUrl": "https://symbiota.ccber.ucsb.edu:443/collections/individual/index.php?occid=109954",
"resourceTypes": "http://rs.tdwg.org/dwc/terms/associatedTaxa | http://rs.tdwg.org/dwc/terms/Occurrence",
"sourceCatalogNumber": "CtAP001",
"sourceCollectionId": "536183ef-fb5c-4d8a-90a9-082af56eeb9b",
"sourceInstitutionCode": "Milwaukee Public Museum",
"sourceLifeStageName": "Adult",
"sourceOccurrenceId": "9a2c12f6-a7fe-49ac-b136-9120eea0384d",
"sourceSexName": "NA",
"sourceTaxonName": "Calyptra thalictri",
"studySourceCitation": "Occurrence Records for vampire-moths-and-their-fruit-piercing-relatives. 2018-09-27. South Central California Network - 2ba077c1-aa41-455e-9a84-bccb61a91230. Accessed at <https://github.com/ParasiteTracker/vampire-moth-dwca/archive/c4549a1690b84595c88946f477057b9ab76e5360.zip> on 02 Jun 2021.",
"studyTitle": "https://symbiota.ccber.ucsb.edu:443/collections/individual/index.php?occid=109954",
"targetTaxonName": "Homo sapiens"
}
}
Improvements
- improve record linking methods via globi libs v0.21.2
Bugs
n/a