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gcmd-e

First crack at detangling GCMD's multiple dupilcate concepts

https://github.com/brandonnodnarb/gcmd-e

Science Score: 67.0%

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First crack at detangling GCMD's multiple dupilcate concepts

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  • Host: GitHub
  • Owner: brandonnodnarb
  • License: cc-by-4.0
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Created over 1 year ago · Last pushed 6 months ago
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Readme License Citation

README.md

DOI

GCMD Enhanced (GCMD-E)

The Global Change Master Directory (GCMD) is a set of keywords developed by NASA to standardize metadata terminology for data discovery [^7][^8]. GCMD has been developed and curated since the late 80's and now serves to tag and index thousands of data sets [^4] and is openly available for reuse as it is in the public domain (CC0 license).

While investigating GCMD concepts for a separate project [^6], inconsistencies in the vocabularies surfaced. For example, consider the concept STRATIGRAPHIC SEQUENCE. In GCMD this concept has 13 separate representations, as noted by the 13 unique concept IDs in figure 1. While all 13 concepts are tethered to a natural language definition, several definitions are exactly the same (verbatim) and others are similar enough where distinguishing differentae between them is murky, at best.

This repository provides the first iteration in providing relationships between related terms for the science keywords category. The current release inserts skos:exactMatch relationships between concepts having the exact same natural language definition (verbatim), or very near that (~98% similarity), using automated text comparison tools and a heap of manual effort. Figure 2 provides an illustration of where the predicates have been inserted using the concepts already depicted figure 1.

The enhanced science keyword terms are available to download as a turtle file (ttl) in this repository (GCMDv19.9enhanced.ttl). They have also been uploaded to ESIP's Community Ontology Repository (COR).

Figure 1. The concept STRATIGRAPHIC SEQUENCE as found in GCMD. ```mermaid flowchart RL stratSeq("STRATIGRAPHIC SEQUENCE") c1[42b5ae5b-90d5-44f0-b331-6c22cdd45c3f]

c2[4722fc1e-f93f-4aa1-854a-2b8a82920008] c3[ac45c059-9555-45ee-ad20-d58514578f1e] c4[a7b04d56-2a44-4a94-8d94-1911a7110f9d]

c5[7fa9d5ef-690e-4daf-8503-363b6b1cb6e4] c6[d845886d-0c44-4505-b5b9-d3fcd819208e] c7[417a6538-f89e-4f73-a89a-c2e5d2cd7667]

c8[a08cce11-9407-4b1f-b13e-0df87da03612] c9[870803f5-8bbc-4e39-8372-ce21b0decb75] c10[e9c6d45a-787e-4099-bbf9-03d377cdb8d5]

c11[c25fef4a-f346-4831-8015-7853886c4fc7]

c12[41b7293f-7f20-40ab-8bf7-b211c68146b9] c13[efe175a0-100b-404b-a702-2e179bee034a]

def1("A chronological succession of sedimentary rocks from older to younger above; essentially without interruption.")

def2("A set of deposited sedimentary beds that reflects the depositional environment of those beds and the geologic history of a region. A stratigraphic sequence is a chronologic succession of sedimentary rocks from older below to younger above without interruption.")

def3("A set of deposited sedimentary beds that reflects the depositional environment of those beds and the geologic history of a region. A stratigraphic sequence is a chronologic succession of sedimentary rocks from older below to younger above without interruption.")

def4("A chronological succession of sedimentary rocks.")

def5("A set of deposited sedimentary beds that reflects the depositional environment.")

def6("A set of deposited sedimentary beds that reflects the depositional environment of those beds and the geologic history of a region.")

cn1("citation: Dictionary of Geologic Terms, AGI, 1984")

cn2("Definition updated (2017); citation: Adapted from: Press, F. and Siever, R. 1986. Earth. W.H. Freeman and Company. Fourth Edition. p. 645. also: Jackson, J.A., ed. 1997. Glossary of Geology, 4th edition. American Geological Institute.;\n\n

note previoius definition: A chronological succession of sedimentary rocks.")

cn3("Defiinition updated (2017) citation: Adapted from: Press, F. and Siever, R. 1986. Earth. W.H. Freeman and Company. Fourth Edition. p. 645.")

c1 --"skos:prefLabel"--> stratSeq c2 --"skos:prefLabel"--> stratSeq c3 --"skos:prefLabel"--> stratSeq c4 --"skos:prefLabel"--> stratSeq c5 --"skos:prefLabel"--> stratSeq c6 --"skos:prefLabel"--> stratSeq c7 --"skos:prefLabel"--> stratSeq c8 --"skos:prefLabel"--> stratSeq c9 --"skos:prefLabel"--> stratSeq c10 --"skos:prefLabel"--> stratSeq c11 --"skos:prefLabel"--> stratSeq c12 --"skos:prefLabel"--> stratSeq c13 --"skos:prefLabel"--> stratSeq

def1 --"skos:definition"--> c1 cn1 --"skos:changeNote"--> c1

def2 --"skos:definition"--> c2 def2 --"skos:definition"--> c3 def2 --"skos:definition"--> c4 cn2 --"skos:changeNote"--> c4

def3 --"skos:definition"--> c5 def3 --"skos:definition"--> c6 def3 --"skos:definition"--> c7

def4 --"skos:definition"--> c8 def4 --"skos:definition"--> c9 def4 --"skos:definition"--> c10

def5 --"skos:definition"--> c11

def6 --"skos:definition"--> c12 def6 --"skos:definition"--> c13 cn3 --"skos:changeNote"--> c13

classDef def fill:#eeeeee,stroke:#333,stroke-width:3px classDef cn fill:#e3edf6,stroke:#333,stroke-width:3px classDef strat fill:#000000,stroke:#333,stroke-width:3px classDef group1 fill:#33ffbd,stroke:#333,stroke-width:3px classDef group2 fill:#ffe599,stroke:#333,stroke-width:3px classDef group3 fill:#b6d7a8,stroke:#333,stroke-width:3px classDef group4 fill:#b4a7d6,stroke:#333,stroke-width:3px classDef group5 fill:#f9cb9c,stroke:#333,stroke-width:3px classDef group6 fill:#ff8181,stroke:#333,stroke-width:3px

class def1,def2,def3,def4,def5,def6 def class cn1,cn2,cn3 cn class stratSeq strat class c1 group1 class c2,c3,c4 group2 class c5,c6,c7 group3 class c8,c9,c10 group4 class c11 group5 class c12,c13 group6 ```

Figure 2. Adding skos:exactMatch relationships to concepts with syntactically equivalent definitions; illustrated using the STRATIGRAPHIC SEQUENCE concept from GCMD per figure 1. ```mermaid flowchart RL stratSeq("STRATIGRAPHIC SEQUENCE") c1[42b5ae5b-90d5-44f0-b331-6c22cdd45c3f]

c2[4722fc1e-f93f-4aa1-854a-2b8a82920008] c3[ac45c059-9555-45ee-ad20-d58514578f1e] c4[a7b04d56-2a44-4a94-8d94-1911a7110f9d]

c5[7fa9d5ef-690e-4daf-8503-363b6b1cb6e4] c6[d845886d-0c44-4505-b5b9-d3fcd819208e] c7[417a6538-f89e-4f73-a89a-c2e5d2cd7667]

c8[a08cce11-9407-4b1f-b13e-0df87da03612] c9[870803f5-8bbc-4e39-8372-ce21b0decb75] c10[e9c6d45a-787e-4099-bbf9-03d377cdb8d5]

c11[c25fef4a-f346-4831-8015-7853886c4fc7]

c12[41b7293f-7f20-40ab-8bf7-b211c68146b9] c13[efe175a0-100b-404b-a702-2e179bee034a]

def1("A chronological succession of sedimentary rocks from older to younger above; essentially without interruption.")

def2("A set of deposited sedimentary beds that reflects the depositional environment of those beds and the geologic history of a region. A stratigraphic sequence is a chronologic succession of sedimentary rocks from older below to younger above without interruption.")

def3("A set of deposited sedimentary beds that reflects the depositional environment of those beds and the geologic history of a region. A stratigraphic sequence is a chronologic succession of sedimentary rocks from older below to younger above without interruption.")

def4("A chronological succession of sedimentary rocks.")

def5("A set of deposited sedimentary beds that reflects the depositional environment.")

def6("A set of deposited sedimentary beds that reflects the depositional environment of those beds and the geologic history of a region.")

cn1("citation: Dictionary of Geologic Terms, AGI, 1984")

cn2("Definition updated (2017); citation: Adapted from: Press, F. and Siever, R. 1986. Earth. W.H. Freeman and Company. Fourth Edition. p. 645. also: Jackson, J.A., ed. 1997. Glossary of Geology, 4th edition. American Geological Institute.;\n\n

note previoius definition: A chronological succession of sedimentary rocks.")

cn3("Defiinition updated (2017) citation: Adapted from: Press, F. and Siever, R. 1986. Earth. W.H. Freeman and Company. Fourth Edition. p. 645.")

c1 --"skos:prefLabel"--> stratSeq c2 --"skos:prefLabel"--> stratSeq c3 --"skos:prefLabel"--> stratSeq c4 --"skos:prefLabel"--> stratSeq c5 --"skos:prefLabel"--> stratSeq c6 --"skos:prefLabel"--> stratSeq c7 --"skos:prefLabel"--> stratSeq c8 --"skos:prefLabel"--> stratSeq c9 --"skos:prefLabel"--> stratSeq c10 --"skos:prefLabel"--> stratSeq c11 --"skos:prefLabel"--> stratSeq c12 --"skos:prefLabel"--> stratSeq c13 --"skos:prefLabel"--> stratSeq

def1 --"skos:definition"--> c1 cn1 --"skos:changeNote"--> c1

c2 <--"skos:exactMatch"--> c3 c3 <--"skos:exactMatch"--> c4 def2 --"skos:definition"--> c2 def2 --"skos:definition"--> c3 def2 --"skos:definition"--> c4 cn2 --"skos:scopeNote"--> c2

c5 <--"skos:exactMatch"--> c6 c6 <--"skos:exactMatch"--> c7 def3 --"skos:definition"--> c5 def3 --"skos:definition"--> c6 def3 --"skos:definition"--> c7

c8 <--"skos:exactMatch"--> c9 c9 <--"skos:exactMatch"--> c10 def4 --"skos:definition"--> c8 def4 --"skos:definition"--> c9 def4 --"skos:definition"--> c10

def5 --"skos:definition"--> c11

c12 <--"skos:exactMatch"--> c13 def6 --"skos:definition"--> c12 def6 --"skos:definition"--> c13 cn3 --"skos:changeNote"--> c13

classDef def fill:#eeeeee,stroke:#333,stroke-width:3px classDef cn fill:#e3edf6,stroke:#333,stroke-width:3px classDef strat fill:#000000,stroke:#333,stroke-width:3px classDef group1 fill:#33ffbd,stroke:#333,stroke-width:3px classDef group2 fill:#ffe599,stroke:#333,stroke-width:3px classDef group3 fill:#b6d7a8,stroke:#333,stroke-width:3px classDef group4 fill:#b4a7d6,stroke:#333,stroke-width:3px classDef group5 fill:#f9cb9c,stroke:#333,stroke-width:3px classDef group6 fill:#ff8181,stroke:#333,stroke-width:3px

class def1,def2,def3,def4,def5,def6 def class cn1,cn2,cn3 cn class stratSeq strat class c1 group1 class c2,c3,c4 group2 class c5,c6,c7 group3 class c8,c9,c10 group4 class c11 group5 class c12,c13 group6 ```

[^1]: Raskin R (2003) Semantic Web for Earth and Environmental Terminology (SWEET). In ‘NASA Earth Science Technology Conference (ESTC)’, University of Maryland. 4. [^2]: Raskin RG, Pan MJ (2003) Ontology development in the Semantic Web for Earth and Environmental Terminology (SWEET). Geological Society of America Abstracts with Programs 35, 368. [^3]: Raskin RG, Pan MJ (2005) Knowledge Representation in the Semantic Web for Earth and Environmental Terminology (SWEET). Computers & Geosciences 31, 1119–1125. doi:10.1016/j.cageo.2004.12.004. [^4]: Parsons MA, Duerr R, Godøy Ø (2023) The evolution of a geoscience standard: An instructive tale of science keyword development and adoption. Geoscience Frontiers 14, 101400. doi:10.1016/j.gsf.2022.101400. [^5]: McGibbney LJ, Whitehead B, Rueda-Velásquez CA, Duerr R, Keil JM, Berg-Cross G, Rose K, dr-shorthair, smrgeoinfo, graybeal, pbuttigieg, charlesvardeman, ashepherd, esip, nicholascar, ignazio1977, cmungall, esip-lab, bradh (2022) Semantic Web for Earth and Environmental Terminology (SWEET). http://sweetontology.net. [^6]: Duerr R, Buttigieg PL, Cross GB, Blumberg KL, Whitehead B, Wiegand N, Rose K (2024) Harmonizing GCW Cryosphere Vocabularies with ENVO and SWEET. Towards a General Model for Semantic Harmonization. Data Science Journal 23, 1-22. doi:10.5334/dsj-2024-026. [^7]: GCMD (2024) Global Change Master Directory (GCMD) Keywords. https://forum.earthdata.nasa.gov/app.php/tag/GCMD+Keywords. [^8]: Blumenfeld J (2021) The Global Change Master Directory: Data, Services, and Tools Serving the International Science Community. https://www.earthdata.nasa.gov/news/feature-articles/global-change-master-directory-data-services-tools-serving-international.

Owner

  • Name: brandon whitehead
  • Login: brandonnodnarb
  • Kind: user
  • Location: pale blue dot
  • Company: @manaakiwhenua

Citation (CITATION.cff) 

cff-version: 1.2.0
message: Please cite this repository thusly.
title: GCMD _enhanced_
type: dataset
repository-code: 'https://github.com/brandonnodnarb/GCMD-E'
authors:
      - family-names: Whitehead
        given-names: Brandon
        orcid: 'https://orcid.org/0000-0002-0337-8610'
version: '0.1'
license: CC-BY-4.0 #'https://creativecommons.org/licenses/by/4.0/'
date-released: '2024-11-11'
abstract: >-
  Mappings between GCMD science keywords based on the similarity of their definitions.
doi: https://doi.org/10.5281/zenodo.14183686

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