OJ Break API Reference

Introduction

OJ_Break is the name of the xBio:D RESTful(-like) API service to facilitate discovery of data within the xBio:D database. The API responds exclusively in JavaScript Object Notation (JSON) and accepts only HTTP GET and POST requests indiscriminately unlike a true REST API. Built using Oracle's PL/SQL database language, the API is fast but often inflexible and inconsistent, so take note of all of the comments below.

Overview

All API requests must be formatted by first selecting the OJ_Break library then specifying the API method. Also, each method must include a callback argument even if a callback function is unnecessary (e.g. jQuery AJAX requests).

The format for API calls is: http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.[method]?[argument1]=[value1]&...

• Example: http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonInfo?tnuid=5012&callback=test
• Response: test({"taxon":"Oxyscelio consobrinus","author":"(Kieffer)","status":"Subsequent name/combination","rank":"Species","valid":"Valid","fossil":"N","rel_type":"Member",...

Procedural Reference

Taxon

getTaxonStats

Description

Get some basic taxonomic statistics for a taxon from a tnuid.

Parameters

• tnuid: number
• callback: string

Return

• taxon: string
• author: string
• stats: taxon_stats

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonStats?tnuid=30148&callback=api

getTaxonInfo

Description

Get some basic taxonomic information for a taxon from a tnuid.

Parameters

• tnuid: number
• inst_id: number
• callback: string

Return

• taxon_rel_extended class with below extensions
• valid_taxon: taxon_basic (only present when defined)
• parent_taxon: taxon_basic
• hier: taxon_hierarchy
• source: taxon_source
• common_names: array of common_name
• orig_desc: contrib_literature_basic (only present when defined)
• stats: taxon_info_stats
• contribs: array of contribution

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonInfo?tnuid=30148&inst_id=0&callback=api

getTaxonHierarchy

Description

Get the taxonomic hierarachy in which a taxon is at the terminal node from a tnuid.

Parameters

• tnuid: number
• callback: string

Return

• taxon: string
• author: string
• hier: taxon_hierarchy

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonHierarchy?tnuid=30148&callback=api

getIncludedTaxa

Description

Get the taxa that are directly included within a taxon but not synonymous with it.

Parameters

• tnuid: number
• inst_id: number
• showSyns: string
• showFossils: string
• types_only: string
• show_num_spms: boolean_flag
• callback: string

Return

• tnuid: number
• parent_tnuid: number
• includedTaxa: array of taxon_extended

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getIncludedTaxa?tnuid=491&inst_id=0&showSyns=Y&showFossils=Y&types_only=N&show_num_spms=Y&callback=api

getTaxonSynonyms

Description

Get the taxa that are objective or subjectively synonymous with a taxon.

Parameters

• tnuid: number
• showFossils: string
• callback: string

Return

• synonyms: array of taxon_rel_extended

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonSynonyms?tnuid=30148&showFossils=Y&callback=api

getLocalities

Description

Get the localities from vouchered and unvouchered records for a taxon.

Parameters

• tnuid: number
• inst_id: number
• precDecimals: number
• showChildren: string
• callback: string

Return

• localities: array of loc_coords

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getLocalities?tnuid=30148&inst_id=0&precDecimals=4&showChildren=Y&callback=api

getLocalities

Description

Get the localities within geopolitical divisions from vouchered and unvouchered records for a taxon.

Parameters

• tnuid: number
• pnids: array of pnid
• inst_id: number
• precDecimals: number
• showChildren: string
• callback: string

Return

• localities: array of loc_coords

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getLocalities?tnuid=30148&pnids=5816,5735&inst_id=0&precDecimals=4&showChildren=Y&callback=api

getCuids

Description

Get the occurrence identifiers (collecting unit IDs) for a taxon.

Parameters

• tnuid: number
• showChildren: string
• inst_id: number
• pnids: array of pnid
• callback: string

Return

• cuids: array of cuid

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getCuids?tnuid=30148&showChildren=Y&inst_id=1&pnids=&callback=api

getCuids

Description

Get the occurrence identifiers (collecting unit IDs) for selected taxa.

Parameters

• tnuids: array of tnuid
• pnids: array of pnid
• callback: string

Return

• cuids: array of cuid

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getCuids?tnuids=30148,491&pnids=5816,5735&callback=api

getTypes

Parameters

• tnuid: number
• showSyns: string
• inst_id: number
• primary_only: string
• taxon_author_search: string
• offset: number
• limit: number
• callback: string

Return

• Types: array of ..
• num_records: number

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTypes?tnuid=52&showSyns=F&inst_id=1&primary_only=Y&taxon_author_search=&offset=1&limit=10&callback=api

getInsts

Parameters

• tnuid: number
• callback: string

Return

• collections: array of .. (inst_id, inst_name, inst_code, spm_count)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getInsts?tnuid=30148&callback=api

getTaxonLiterature

Description

Deprecated

Parameters

• tnuid: number
• showSyns: string
• callback: string

Return

• lit: pubs

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonLiterature?tnuid=30148&showSyns=Y&callback=api

getTaxonLit

Description

Preferred

Parameters

• tnuid: number
• showSyns: string
• callback: string

Return

• pubs: array of pubs

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonLit?tnuid=30148&showSyns=Y&callback=api

getAssociations

Parameters

• tnuid: number
• rank_grouping: string
• callback: string

Return

• associations: array of .. (taxon_basic class, type, relationship, hier, cuids)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getAssociations?tnuid=30148&rank_grouping=&callback=api

getHabitats

Parameters

• tnuid: number
• callback: string

Return

• habitats: array of .. (habitat, images)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getHabitats?tnuid=30148&callback=api

getTaxonImages

Parameters

• tnuid: number
• callback: string

Return

• images: array of .. (image/media_basic extension)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonImages?tnuid=30148&callback=api

getTaxonBreakdown

Parameters

• tnuid: number
• callback: string

Return

• taxa: array of .. (taxon_basic, count)
• sex: array of .. (U,M,F,N,null)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonBreakdown?tnuid=30148&callback=api

getTaxonPhenology

Parameters

• tnuid: number
• callback: string

Return

• spms: array of .. (date, sort_date, cuid)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonPhenology?tnuid=30148&callback=api

getTaxonNewTaxaByPub

Parameters

• tnuid: number
• validOnly: string
• callback: string

Return

• pubs: array of .. (taxa_num, pub_ref)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonNewTaxaByPub?tnuid=491&validOnly=Y&callback=api

getTaxonNewTaxaByYear

Parameters

• tnuid: number
• validOnly: string
• callback: string

Return

• years: array of .. (taxa_num, year)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonNewTaxaByYear?tnuid=52&validOnly=Y&callback=api

getTaxonStatsForYear

Parameters

• tnuid: number
• stats_year: number
• callback: string

Return

• stats: array of .. (new_spm_num, all_spm_num, new_taxa_spm_num, all_taxa_spm_num, new_images_num, all_images_num, spm_years, images_years)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxonStatsForYear?tnuid=30148&stats_year=2014&callback=api

Occurrence / Specimen

getSpmInfo

Parameters

• cuid: string
• callback: string

Return

• spmInfo: array of ..

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getSpmInfo?cuid=OSUC+59557&callback=api

getSpmsInfo

Parameters

• cuids: array of string
• callback: string

Return

• spmsInfo: array of ..

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getSpmsInfo?cuids=OSUC+59557,OSUC+56308&callback=api

Locality

getLocalityInfo

Parameters

• loc_id: number
• tnuid: number
• inst_id: number
• per_id: number
• pnid: number
• showChildren: string
• completeSpmInfo: string
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getLocalityInfo?loc_id=1&tnuid=30148&inst_id=1&per_id=1&pnid=1&showChildren=Y&completeSpmInfo=Y&callback=api

Place / Geopolitical Entity

getPlaceInfo

Parameters

• place_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getPlaceInfo?place_id=&callback=api

getSubdivisions

Parameters

• place_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getSubdivisions?place_id=&callback=api

getGeoTaxa

Parameters

• place_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getGeoTaxa?place_id=&callback=api

getGeoCollTrips

Parameters

• place_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getGeoCollTrips?place_id=&callback=api

getGeoCollTrips2

Parameters

• place_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getGeoCollTrips2?place_id=&callback=api

getGeoInsts

Parameters

• place_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getGeoTaxa?place_id=&callback=api

Literature

getLitReference

Parameters

• pub_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getLitReference?pub_id=&callback=api

getLitParts

Parameters

• pub_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getLitParts?pub_id=&callback=api

getPubTaxonCitation

Parameters

• pub_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getPubTaxonCitation?pub_id=&callback=api

getPubAssocCitation

Parameters

• pub_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getPubAssocCitation?pub_id=&callback=api

Journal

getJournalInfo

Parameters

• jrnl_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getJournalInfo?jrnl_id=&callback=api

getJournalPubs

Parameters

• jrnl_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getJournalPubs?jrnl_id=&callback=api

getJournalTaxa

Parameters

• jrnl_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getJournalTaxa?jrnl_id=&callback=api

Institution

getCollectionInfo

Parameters

• inst_id: number
• callback: string

Return

• collection_info: array of (name, code, vouchered, num_prim_types, num_sec_types, num_species, num_spms, oldest_spm, last_spm_time)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getCollectionInfo?inst_id=21&callback=api

getPrimaryTypes

Parameters

• inst_id: number
• callback: string

Return

• types: array of .. (taxon_basic, cuid, type, hier, orig_desc (pubs))

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getPrimaryTypes?inst_id=6&callback=api

getSecondaryTypes

Parameters

• inst_id: number
• callback: string

Return

• types: array of .. (same as primary)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getSecondaryTypes?inst_id=6&callback=api

getInstTaxa

Parameters

• inst_id: number
• callback: string

Return

• taxa: array of .. (taxon_extended, hier)

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getInstTaxa?inst_id=21&callback=api

getInstCollTrips2

Parameters

• inst_id: number
• callback: string

Return

• coll_trips: array of ..

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getInstCollTrips2?inst_id=21&callback=api

getInstPubs

Parameters

• inst_id: number
• callback: string

Return

• pubs: array of literature_basic

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getInstPubs?inst_id=1&callback=api

Unvouchered Record

getUnvoucheredRecord

Parameters

• unv_id: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getUnvoucheredRecord?univ_id=1&callback=api

getUnvoucheredRecords

Parameters

• tnuid: number
• showChildren: string
• pnids: array of number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getUnvoucheredRecords?univ_id=1&showChildren=Y&pnids=&callback=api

getUnvoucheredRecords

Parameters

• tnuid: number
• pnids: array of number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getUnvoucheredRecords?univ_id=1&pnids=&callback=api

getUnvLocalityInfo

Parameters

• loc_id: number
• tnuid: number
• per_id: number
• pnid: number
• showChildren: string
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getUnvLocalityInfo?loc_id=1&tnuid=30148&per_id=1&pnid=1&showChildren=Y&callback=api

Text Search

getSearchResults

Parameters

• name: string
• limit: number
• categoryLimit: string
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getSearchResults?name=&limit=&categoryLimit=&callback=api

getTaxaFromText

Parameters

• name: string
• limit: number
• nameOnly: string
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getTaxaFromText?name=&limit=&nameOnly=Y&callback=api

getCuidsFromText

Parameters

• name: string
• limit: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getCuidsFromText?name=&limit=&callback=api

getAgentsFromText

Parameters

• name: string
• limit: number
• includeParty: string
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getAgentsFromText?name=&limit=&includeParty=Y&callback=api

getInstFromText

Parameters

• name: string
• limit: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getInstFromText?name=&limit=&callback=api

getJournalsFromText

Parameters

• name: string
• limit: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getJournalsFromText?name=&limit=&callback=api

getOrgsFromText

Parameters

• name: string
• limit: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getOrgsFromText?name=&limit=&callback=api

getPlacesFromText

Parameters

• name: string
• limit: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getPlacesFromText?name=&limit=&callback=api

getLocalitiesFromText

Parameters

• name: string
• limit: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getLocalitiesFromText?name=&limit=&callback=api

getCollMethodsFromText

Parameters

• name: string
• limit: number
• callback: string

Example

http://osuc.biosci.ohio-state.edu/hymDB/OJ_Break.getCollMethodsFromText?name=&limit=&callback=api

Data Type Glossary

OJ_Break API Data Type Glossary