From f42b551baca3468d147ac76b07ba7dbd780a155f Mon Sep 17 00:00:00 2001 From: Chris Mungall Date: Thu, 13 Jul 2023 12:49:32 -0700 Subject: [PATCH 1/2] replacing hasAlternativeId with hasDbXref for all non-ENVO literal CURIEs. (#1418) Fixes #1417 Note that WMO symbols/codes have no been replaced, these require more discussion --- src/envo/envo-edit.owl | 132 ++++++++++++++++++++--------------------- 1 file changed, 66 insertions(+), 66 deletions(-) diff --git a/src/envo/envo-edit.owl b/src/envo/envo-edit.owl index 4e416145..c27bf4b6 100644 --- a/src/envo/envo-edit.owl +++ b/src/envo/envo-edit.owl @@ -4938,7 +4938,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (ocean) AnnotationAssertion( "A marine water body which is constitutes the majority of an astronomical body's hydrosphere."^^xsd:string) -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=695&/oceans") "LTER:695"^^xsd:string) +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=695&/oceans") "LTER:695"^^xsd:string) AnnotationAssertion( "EcoLexicon:ocean"^^xsd:string) AnnotationAssertion( "FTT:1019"^^xsd:string) AnnotationAssertion( "FTT:943"^^xsd:string) @@ -5013,7 +5013,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (lake) AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Lake"^^xsd:string) "A body of water or other liquid of considerable size contained in a depression on a landmass."^^xsd:string) -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=278&/lakes") "LTER:278") +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=278&/lakes") "LTER:278") AnnotationAssertion( "EcoLexicon:lake"^^xsd:string) AnnotationAssertion( "FTT:221"^^xsd:string) AnnotationAssertion( "FTT:704"^^xsd:string) @@ -5053,7 +5053,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (river) AnnotationAssertion(Annotation( ) Annotation( "ADL:FTT"^^xsd:string) Annotation(rdfs:comment "https://en.wikipedia.org/wiki/River") "A stream which, through permanent or seasonal flow processes, moves from elevated land towards lower elevations through a definite channel and empties either into a sea, lake, or another river or ends on land as bed seepage and evapotranspiration exceed water supply."^^xsd:string) -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=474&/rivers") "LTER:474") +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=474&/rivers") "LTER:474") AnnotationAssertion( "EcoLexicon:river"^^xsd:string) AnnotationAssertion( "FTT:1179"^^xsd:string) AnnotationAssertion( "FTT:251"^^xsd:string) @@ -5073,7 +5073,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "USGS:http://mapping.usgs.gov/www/ti/GNIS/gnis_users_guide_appendixc.html"^^xsd:string) "A watercourse which is linear and flows across the solid portion of a planetary surface."^^xsd:string) AnnotationAssertion( ) -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=562&/streams") "LTER:562") +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=562&/streams") "LTER:562") AnnotationAssertion(Annotation( "ADL:FTT"^^xsd:string) "watercourse"^^xsd:string) AnnotationAssertion(Annotation( "USGS:SDTS"^^xsd:string) "watercourse"^^xsd:string) AnnotationAssertion( "EcoLexicon:stream"^^xsd:string) @@ -5334,7 +5334,7 @@ SubClassOf( (pond) AnnotationAssertion(Annotation( "MA:ma"^^xsd:string) "A body of water, usually of smaller size than a lake."^^xsd:string) -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=975&/ponds") "LTER:975") +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=975&/ponds") "LTER:975") AnnotationAssertion(Annotation( "ADL:FTT"^^xsd:string) "lake"^^xsd:string) AnnotationAssertion(Annotation( "USGS:SDTS"^^xsd:string) "lake"^^xsd:string) AnnotationAssertion( "EcoLexicon:pond"^^xsd:string) @@ -5564,7 +5564,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (estuary) AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Estuary"^^xsd:string) "A semi-enclosed coastal body of water with one or more rivers or streams flowing into it, and with a free connection to the open sea."^^xsd:string) -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=182&/estuaries") "LTER:182"^^xsd:string) +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=182&/estuaries") "LTER:182"^^xsd:string) AnnotationAssertion(Annotation( "USGS:SDTS"^^xsd:string) "mouth"^^xsd:string) AnnotationAssertion( "EcoLexicon:estuary"^^xsd:string) AnnotationAssertion( "FTT:234"^^xsd:string) @@ -7486,7 +7486,7 @@ SubClassOf( (coral reef) AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Coral_reef"^^xsd:string) "A marine reef which is composed primarily of aragonite structures produced by living organisms, found in shallow, low-nutrient waters."@en) -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=127&/coral-reefs") "LTER:127") +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=127&/coral-reefs") "LTER:127") AnnotationAssertion( "EcoLexicon:coral_reef"^^xsd:string) AnnotationAssertion( "FTT:202"^^xsd:string) AnnotationAssertion( "FTT:547"^^xsd:string) @@ -10351,7 +10351,7 @@ SubClassOf( (IUCN national park) AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/National_park"^^xsd:string) Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ii-national-park") "An IUCN protected area which 1) primarily consists of ecosystems which are able to maintain their natural composition, structure, and function at a regional scale and which are deemed to be representative of a region's natural bio- and geodiversity, 2) is sufficiently large to allow its constituent ecosystems to function, develop, and recover from natural perturbations without human intervention, and 3) is managed to preserve natural ecosystem integrity and functioning at a regional scale, while allowing human access for the purposes of conservation, cultural and spiritural activities, research, education, tourism, subsistence use by indigenous communities, and recreation."^^xsd:string) -AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ii-national-park") "IUCN-PACS:II") +AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ii-national-park") "IUCN-PACS:II") AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ii-national-park") "national park") AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ii-national-park") rdfs:comment "Note that this ENVO class is not authoritative: see the associated IUCN references for a complete definition of all Protected Areas. These areas often serve as migration corridors between other natural and semi-natural ecosystems and pools of biodiversity. They may have core zones that are similar to IUCN Protected Area classes Ia and Ib.") AnnotationAssertion(rdfs:label "IUCN national park"^^xsd:string) @@ -11030,7 +11030,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (biome) AnnotationAssertion(Annotation( "DOI:10.1186/2041-1480-4-43"^^xsd:string) Annotation( "https://en.wikipedia.org/wiki/Biome"^^xsd:string) "A biome is an ecosystem to which resident ecological communities have evolved adaptations."^^xsd:string) -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=809&/biomes") "LTER:809") +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=809&/biomes") "LTER:809") AnnotationAssertion( "EcoLexicon:biome"^^xsd:string) AnnotationAssertion(Annotation( "WWF:Biome"^^xsd:string) "major habitat type"^^xsd:string) AnnotationAssertion(Annotation( "NASA:earthrealm"^^xsd:string) "EcosytemType"^^xsd:string) @@ -24802,7 +24802,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (ocean acidification) AnnotationAssertion( "Ocean acidification is a process during which the pH of a sea or ocean is lowered.") -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=962&/ocean-acidification") "LTER:962") +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=962&/ocean-acidification") "LTER:962") AnnotationAssertion( "LTER:962") AnnotationAssertion( "envoPolar") AnnotationAssertion(rdfs:comment "On Earth, the major cause of ocean acidification is the update of carbon dioxide from the atmosphere.") @@ -25113,7 +25113,7 @@ SubClassOf( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily composed of water in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "open water") -AnnotationAssertion( "NLCD:11") +AnnotationAssertion( "NLCD:11") AnnotationAssertion( "envoPolar") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, areas of open water generally have less than 25% cover of vegetation or soil. A specific threshold is not asserted in this definition.") @@ -25843,7 +25843,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily composed of snow or water ice, present throughout multiple years, in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "envoPolar") AnnotationAssertion( "perennial ice/snow") -AnnotationAssertion( "NLCD:12") +AnnotationAssertion( "NLCD:12") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, these areas are characterised by ice and/or snow cover generally greater than 25% of total cover. The definition of perennial needs clarification.") AnnotationAssertion(rdfs:label "area of perennial ice or snow"@en) @@ -25900,7 +25900,7 @@ SubClassOf( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily composed of bedrock, desert pavement, scarp rock, talus, material exposed by slides, volcanic material, glacial debris, sand, material exposed during strip mining, gravel, and other accumulations of earthen material in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "The range of entities that are considered \"barren land\" are not exhaustive, making axiomatisation risky at this stage.") AnnotationAssertion( "Barren Land (Rock/Sand/Clay)") -AnnotationAssertion( "NLCD:31") +AnnotationAssertion( "NLCD:31") AnnotationAssertion( "envoPolar") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, areas of barren land generally have less than 15% cover of vegetation. A specific threshold is not asserted in this definition.") @@ -26473,7 +26473,7 @@ SubClassOf( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by a forest in which the majority of trees shed foliage simultaneously in response to seasonal change. The surfaces of this area (including the surface of the forest canopy) are in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "deciduous forest") -AnnotationAssertion( "NLCD:41") +AnnotationAssertion( "NLCD:41") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, areas of deciduous forest are dominated by trees generally greater than 5 meters tall, and making up more than 20% of total vegetation cover. The NLCD 2011 continues to state that more than 75% of these trees should shed foliage simultaneously in response to seasonal change. Such thresholds - which are themselves fuzzy - are not asserted in this definition.") AnnotationAssertion(rdfs:label "area of deciduous forest"@en) @@ -26720,7 +26720,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by a forest in which the majority of trees maintain their foliage despite seasonal change. The surfaces of this area (including the surface of the forest canopy) are in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "evergreen forest") -AnnotationAssertion( "NLCD:42") +AnnotationAssertion( "NLCD:42") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, areas of evergreen forest are dominated by trees generally greater than 5 meters tall, and making up more than 20% of total vegetation cover. The NLCD 2011 continues to state that more than 75% of these trees should maintain their foliage despite seasonal change - the canopy is never without green foliage. Such thresholds - which are themselves fuzzy - are not asserted in this definition.") AnnotationAssertion(rdfs:label "area of evergreen forest"@en) @@ -26848,7 +26848,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (area of mixed forest) AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by a forest in which the trees are a mixture between those that lose and retain their foliage despite seasonal change. The surfaces of this area (including the surface of the forest canopy) are in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") -AnnotationAssertion( "NLCD:43") +AnnotationAssertion( "NLCD:43") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, areas of mixed forest are dominated by trees generally greater than 5 meters tall, and making up more than 20% of total vegetation cover. The NLCD 2011 continues to state that neither deciduous or evergreen trees make up more than 75% of the total tree cover. Such thresholds - which are themselves fuzzy - are not asserted in this definition.") AnnotationAssertion(rdfs:label "area of mixed forest"@en) @@ -26901,7 +26901,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://en.wikipedia.org/wiki/Subshrub") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is partly covered by shrubs with ground-hugging stems or low growth habit, in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Subshrub") "As noted in Wikipedia: \"Because the criteria are matters of degree rather than of kind, the definition of a subshrub is not sharply distinguishable from that of a shrub\"") AnnotationAssertion( "dwarf scrub") -AnnotationAssertion( "NLCD:51") +AnnotationAssertion( "NLCD:51") AnnotationAssertion( "area of subshrub") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, areas of dwarf scrub are dominated by shrubs less than 20 centimeters tall with shrub canopy typically greater than 20% of total vegetation. This type is often co-associated with grasses, sedges, herbs, and non-vascular vegetation. The NLCD 2011 notes that this is intended as an Alaska only land cover. Such thresholds - which are themselves fuzzy - are not asserted in this definition.") @@ -26968,7 +26968,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "http://dx.doi.org/10.1016/j.rse.2015.07.014") Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://en.wikipedia.org/wiki/Subshrub") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by a shrubs, young trees, or stunted trees.. The surfaces of this area are in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Subshrub") "As noted in Wikipedia: \"Because the criteria are matters of degree rather than of kind, the definition of a subshrub is not sharply distinguishable from that of a shrub\"") AnnotationAssertion( "shrub/scrub") -AnnotationAssertion( "NLCD:52") +AnnotationAssertion( "NLCD:52") AnnotationAssertion( "area of shrub") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, areas of scrub or shrub are dominated by shrubs; less than 5 meters tall with shrub canopy typically greater than 20% of total vegetation. This class includes true shrubs, young trees in an early successional stage or trees stunted from environmental conditions. Such thresholds - which are themselves fuzzy - are not asserted in this definition.") @@ -27129,7 +27129,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by cultivated or anthropically maintained vegetation planted for recreation, erosion control, or aesthetic purposes interspersed by constructed or manufactured objects and materials. This area is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. This would be helped by more clear listings of entities included in this classification. However, the class is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "developed, open space") -AnnotationAssertion( "NLCD:21") +AnnotationAssertion( "NLCD:21") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, areas of developed open space are dominated by vegetation such as lawn grasses and include large-lot single-family housing units, parks, golf courses. Further, it is asserted that \"impervious surfaces\", most likely referring to concrete and related substances, cover less than 20% of the area. Such thresholds - which are themselves fuzzy - are not asserted in this definition.") AnnotationAssertion(rdfs:label "area of developed open space"@en) @@ -27143,7 +27143,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by cultivated or anthropically maintained vegetation and by constructed or manufactured objects and materials covering up to approximately half its extent. Such areas are used for low intensity purposes such as accommodating collections of single-family residential units. This area is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. This would be helped by more clear listings of entities included in this classification. However, the class is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "developed, low intensity") -AnnotationAssertion( "NLCD:22") +AnnotationAssertion( "NLCD:22") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, areas of developed space under low intensity usage are dominated by vegetation such as lawn grasses and include collections of single-family housing units. Further, it is asserted that \"impervious surfaces\", most likely referring to concrete and related substances, cover between than 20 - 49% of the area. Such thresholds - which are themselves fuzzy - are not strictly asserted in this definition.") AnnotationAssertion(rdfs:label "area of developed space with low usage intensity"@en) @@ -27157,7 +27157,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by constructed or manufactured objects and materials covering from half to three-forths of its extent and by cultivated or anthropically maintained vegetation. Such areas are used for medium intensity purposes such as accommodating dense collections of single-family residential units. This area is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. This would be helped by more clear listings of entities included in this classification. However, the class is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "developed, medium intensity") -AnnotationAssertion( "NLCD:23") +AnnotationAssertion( "NLCD:23") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, areas of developed space under medium intensity usage are dominated by vegetation such as lawn grasses and include collections of single-family housing units. Further, it is asserted that \"impervious surfaces\", most likely referring to concrete and related substances, cover between than 50 - 79% of the area. Such thresholds - which are themselves fuzzy - are not strictly asserted in this definition.") AnnotationAssertion(rdfs:label "area of developed space with medium usage intensity"@en) @@ -27171,7 +27171,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of developed space used for high intensity purposes such as accommodating dense and multi-occupant residential, commercial, and industrial units. This area is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. This would be helped by more clear listings of entities included in this classification. However, the class is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "developed, high intensity") -AnnotationAssertion( "NLCD:24") +AnnotationAssertion( "NLCD:24") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, areas of developed space under high intensity usage are dominated by constructed features where humans reside and work. Examples include apartment complexes, row houses and commercial/industrial facilities. Further, it is asserted that \"impervious surfaces\", most likely referring to concrete and related substances, cover between than 80 - 100% of the area. Such thresholds - which are themselves fuzzy - are not strictly asserted in this definition.") AnnotationAssertion(rdfs:label "area of developed space with high usage intensity"@en) @@ -27185,7 +27185,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by sedges or forbs, possibly interpersed with grasses or grass-like plants. This area is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. However, it is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "sedge/herbaceous") -AnnotationAssertion( "NLCD:72") +AnnotationAssertion( "NLCD:72") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, at least 80% of these areas are covered by sedge or forbs. Such thresholds - which are themselves fuzzy - are not strictly asserted in this definition. The NLCD description also notes that land covered by sedge tundra and sedge tussock tundra are subsumed in this category. The original definition notes that this is intended as an \"Alaska only\" category.") AnnotationAssertion(rdfs:label "area of sedge- and forb-dominated herbaceous vegetation"@en) @@ -27198,7 +27198,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by gramanoid or herbaceous vegetation and which is not subject to intensive management by humans. This area is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. However, it is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "grassland/herbaceous") -AnnotationAssertion( "NLCD:71") +AnnotationAssertion( "NLCD:71") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, at least 80% of these areas are covered by grasslands or non-woody, herbaceous plants. Such thresholds - which are themselves fuzzy - are not strictly asserted in this definition. The NLCD description also notes that, while no \"intensive\" management such as tilling is performed in these areas, they may be used for grazing.") AnnotationAssertion(rdfs:label "area of gramanoid or herbaceous vegetation"@en) @@ -27211,7 +27211,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by fruticose or foliose lichens and which is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. However, it is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "lichens") -AnnotationAssertion( "NLCD:73") +AnnotationAssertion( "NLCD:73") AnnotationAssertion( "envoPolar") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, at least 80% of these areas are covered by lichens. Such thresholds - which are themselves fuzzy - are not strictly asserted in this definition. The original definition notes that this is intended as an \"Alaska only\" category.") @@ -27226,7 +27226,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by mosses and which is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. However, it is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "moss") -AnnotationAssertion( "NLCD:74") +AnnotationAssertion( "NLCD:74") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, at least 80% of these areas are covered by mosses. Such thresholds - which are themselves fuzzy - are not strictly asserted in this definition. The original definition notes that this is intended as an \"Alaska only\" category.") AnnotationAssertion(rdfs:label "area of moss-dominated vegetation"@en) @@ -27239,7 +27239,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is partly covered by planted grasses, legumes, or mixtures of grass and legumes and used for livestock grazing or the production of seed or hay crops. This area is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. However, it is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "pasture/hay") -AnnotationAssertion( "NLCD:81") +AnnotationAssertion( "NLCD:81") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, at least 20% of these areas are covered by pasturelands or hayfields. Such thresholds - which are themselves fuzzy - are not strictly asserted in this definition. The NLCD also notes that the crops are grown on a perennial cycle in these areas.") AnnotationAssertion(rdfs:label "area of pastureland or hayfields"@en) @@ -27254,7 +27254,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is partly covered either by annual crops and perennial woody crops or by actively tilled land. This area is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. However, it is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "cultivated crops") -AnnotationAssertion( "NLCD:82") +AnnotationAssertion( "NLCD:82") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, at least 20% of these areas are covered by croplands or actively tilled land. Such thresholds - which are themselves fuzzy - are not strictly asserted in this definition. The NLCD provides corn, soybeans, vegetables, tobacco, and cotton as examples of annual crops and the trees and vines in orchards and vineyards as examples of perennial woody crops.") AnnotationAssertion(rdfs:label "area of cropland"@en) @@ -27268,7 +27268,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is partly covered by forest or shrubland vegetation and where the underlying soil or substrate is periodically saturated with or covered by water. This area is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. However, it is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "woody wetlands") -AnnotationAssertion( "NLCD:90") +AnnotationAssertion( "NLCD:90") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, at least 20% of these areas are covered by forest or shrubland vegetation. Such thresholds - which are themselves fuzzy - are not strictly asserted in this definition.") AnnotationAssertion(rdfs:label "area of woody wetland"@en) @@ -27283,7 +27283,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Exosphere") Annotation( "https://en.wikipedia.org/wiki/Planetary_surface") Annotation( "https://www.mrlc.gov/nlcd11_leg.php") "An area of a planet's surface which is primarily covered by perennial herbaceous vegetation and where the underlying soil or substrate is periodically saturated with or covered by water. This area is in contact with an atmospheric column extending from the planetary boundary layer to the planet's exosphere with little to no physical obstruction.") AnnotationAssertion( "This class is in need of refinement, particularly in linking to other entities in the ontology. However, it is suitable for use in annotating remotely sensed land types.") AnnotationAssertion( "emergent herbaceous wetlands") -AnnotationAssertion( "NLCD:95") +AnnotationAssertion( "NLCD:95") AnnotationAssertion( "nlcd2011") AnnotationAssertion(rdfs:comment "According to the NLCD 2011, at least 80% of these areas are covered by herbaceous vegetation. Such thresholds - which are themselves fuzzy - are not strictly asserted in this definition.") AnnotationAssertion(rdfs:label "area of emergent herbaceous wetland"@en) @@ -27327,7 +27327,7 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion( "2021-04-14T18:57:18.275Z"^^xsd:dateTime) -AnnotationAssertion( "METAR:FZRA") +AnnotationAssertion( "METAR:FZRA") AnnotationAssertion( "freezing rain") AnnotationAssertion( "freezing rain fall") AnnotationAssertion( ) @@ -29363,7 +29363,7 @@ SubClassOf( ObjectUnionOf( (ecosystem) AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Ecosystem") "An environmental system which includes both living and non-living components.") -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=173&/ecosystems") "LTER:173") +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=173&/ecosystems") "LTER:173") AnnotationAssertion(rdfs:comment "This class will be primarily filled by inference, any environmental system which necessarily includes living parts should be autoclassified here.") AnnotationAssertion(rdfs:label "ecosystem"@en) EquivalentClasses( ObjectIntersectionOf( ObjectUnionOf(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( )))) @@ -29823,7 +29823,7 @@ AnnotationAssertion(owl:deprecated (IUCN strict nature reserve) AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ia-strict-nature-reserve") "An IUCN protected area in which human visitation, use and impacts are strictly controlled and limited to ensure protection and conservation of natural biodiversity and/or geodiversity, natural ecosystem assemblages and processes, and any associated cultural and spiritual values.") -AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ia-strict-nature-reserve") "IUCN-PACS:Ia") +AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ia-strict-nature-reserve") "IUCN-PACS:Ia") AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ia-strict-nature-reserve") "strict nature reserve") AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ia-strict-nature-reserve") rdfs:comment "Note that this ENVO class is not authoritative: see the associated IUCN references for a complete definition of all Protected Areas. Previous anthropogenic impacts (e.g. by early human settlement) may be present in these sites; these should be reversible by either natural processes or brief restorative interventions. Note that this ENVO class is not authoritative: see the associated IUCN references for a complete definition of all Protected Areas.") AnnotationAssertion(rdfs:label "IUCN strict nature reserve"@en) @@ -29832,7 +29832,7 @@ SubClassOf( (IUCN wilderness area) AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ib-wilderness-area") "An IUCN protected area which 1) is dominated by natural ecosystems, 2) is sufficiently large to allow those ecosystems to function and develop without local anthropogenic perturbation, 3) is managed to prevent perturbations by proximate or local anthropisation, including those caused by local and/or indigenous human communities or human visitation.") -AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ib-wilderness-area") "IUCN-PACS:Ib") +AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ib-wilderness-area") "IUCN-PACS:Ib") AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ib-wilderness-area") "wilderness area") AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ib-wilderness-area") rdfs:comment "Note that this ENVO class is not authoritative: see the associated IUCN references for a complete definition of all Protected Areas. These areas exclude permanent built infrastructure, activities by extractive industries, commercial or intensive agriculture, extensive access by motor vehicles, unregulated visitation supported by any infrastructure, as well as other activities that may lead to significant ecosystem perturbations.") AnnotationAssertion(rdfs:label "IUCN wilderness area"@en) @@ -29849,7 +29849,7 @@ SubClassOf( (IUCN natural monument or feature) AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-iii-natural-monument-or-feature") "An IUCN protected area which includes a primarily natural formation designated to be of high natural heritage value and the environmental systems which it determines (e.g. the spray zone of a waterfall monument).") -AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-iii-natural-monument-or-feature") "IUCN-PACS:III") +AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-iii-natural-monument-or-feature") "IUCN-PACS:III") AnnotationAssertion( "natural monument") AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-iii-natural-monument-or-feature") rdfs:comment "Note that this ENVO class is not authoritative: see the associated IUCN references for a complete definition of all Protected Areas. Further, note that the use of \"natural\" in the IUCN definition may allow for some anthropisation such as the presence of cave dwellings or spiritual sites. These areas tend to be smaller than other IUCN protected areas and are sites of frequent human visitation and high tourism value. They often serve to conserve natural heritage in land- or seascapes which have otherwise been anthropised. Frequently, these areas have high spiritual and cultural value as well as bio- and geodiversity value. It is not clear what would happen to the status of a IUCN Category III protected area if its key natural monument dies or degrades. IUCN acknowledges that larger ecosystem areas may need protection or management to sustain the area given Category III protection.") AnnotationAssertion(rdfs:label "IUCN natural monument or feature"@en) @@ -29860,7 +29860,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-iv-habitatspecies-management-area") "An IUCN protected area within which the habitats of or ecosystems used by floral and faunal species deemed to be of international, national, or local importance are maintained, conserved, or restored such that their composition and functional integrity are maintained.") AnnotationAssertion( "Clarify what is encompassed by floral and faunal. Do microbial and fungal species (e.g. of importance to many marine systems) fall within these categories? Further, create subclasses for habitat and species conservation separately.") -AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-iv-habitatspecies-management-area") "IUCN-PACS:IV") +AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-iv-habitatspecies-management-area") "IUCN-PACS:IV") AnnotationAssertion( "habitat management area") AnnotationAssertion( "species management area") AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-iv-habitatspecies-management-area") rdfs:comment "Note that this ENVO class is not authoritative: see the associated IUCN references for a complete definition of all Protected Areas. Note that many Category IV sites require frequent interventions to maintain habitats for the species conserved, particularly as many of these areas are ecosystem fragments which are unable to sustain themselves. Additionally, many are used for public outreach, education, and recreation, implying regular human visitation. What qualifies a species as important is variable and often ill-defined.") @@ -29915,7 +29915,7 @@ SubClassOf( (IUCN protected landscape/seascape) AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-v-protected-landscapeseascape") "An IUCN protected area which 1) includes entities that have been deemed to be of high scenic quality, 2) is composed of a historically stable assemblage of causally interlinked natural and anthropised ecosystems that provides cultural ecosystem services, and 3) hosts traditional and sustainable human activities.") -AnnotationAssertion(Annotation(rdfs:comment "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-v-protected-landscapeseascape") "IUCN-PACS:V") +AnnotationAssertion(Annotation(rdfs:comment "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-v-protected-landscapeseascape") "IUCN-PACS:V") AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-v-protected-landscapeseascape") rdfs:comment "Note that this ENVO class is not authoritative: see the associated IUCN references for a complete definition of all Protected Areas. The IUCN note that the integrity of balanced natural and anthropogenic ecosystems may be compromised in some Category V areas, as long as \"there is reasonable hope of restoring that integrity\".") AnnotationAssertion(rdfs:label "IUCN protected landscape/seascape"@en) SubClassOf( ) @@ -30463,7 +30463,7 @@ SubClassOf( (IUCN protected area with sustainable use of natural resources) AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ib-wilderness-area") "An IUCN protected area within which 1) natural ecosystems and their resources are either conserved or used through non-industrial human activities, 2) usage activites contribute to conservation goals, ensuring inter-generational security for local communities' livelihoods, and 3) the majority of benefits derived from the use of ecosystems are received by communities living near or in the area.") -AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ib-wilderness-area") "IUCN-PACS:VI") +AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ib-wilderness-area") "IUCN-PACS:VI") AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ib-wilderness-area") "protected area with sustainable use of natural resources") AnnotationAssertion(Annotation( "https://www.iucn.org/theme/protected-areas/about/protected-areas-categories/category-ib-wilderness-area") rdfs:comment "Note that this ENVO class is not authoritative: see the associated IUCN references for a complete definition of all Protected Areas. Note, that the IUCN recommends that a proportion of the area is retained in a natural condition (e.g. a no-take management zone). As this is a recommendation rather than a rule, this ENVO class does not include IUCN categories with strict conservation regimes as necessary parts. An emphasis is placed on the integration of cultural approaches, belief systems and world-views possessed by human populations in and around the protected area into the conservation approaches used. Further, these areas host activities which facilitate scientific research, environmental monitoring, recreation, and \"appropriate\" small-scale tourism.") AnnotationAssertion(rdfs:label "IUCN protected area with sustainable use of natural resources"@en) @@ -31132,7 +31132,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (estuarine coastal surface layer) AnnotationAssertion( "A layer of estuarine water which extends a few centimeters from the surface of the water column towards the estuary bed and from the shore to a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters.") -AnnotationAssertion( "CMECS:595") +AnnotationAssertion( "CMECS:595") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/595.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31212,7 +31212,7 @@ SubClassOf( "A layer of estuarine water which extends from the surface of the water column to the pycnocline or mid-depth and from the shore to a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters.") AnnotationAssertion( "\"Mid-depth\", present in many CMECS classes, is ambiguous and needs refinement.") -AnnotationAssertion( "CMECS:596") +AnnotationAssertion( "CMECS:596") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/596.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31228,7 +31228,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (estuarine coastal pycnocline) AnnotationAssertion( "A pycnocline which is part of an estuarine water body, spanning from the shore to a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters.") -AnnotationAssertion( "CMECS:597") +AnnotationAssertion( "CMECS:597") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/597.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31245,7 +31245,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A layer of estuarine water which extends from an estuarine pycnocline or mid-depth to the estuarine bed and from the shore to a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters.") AnnotationAssertion( "\"Mid-depth\", present in many CMECS classes, is ambiguous and needs refinement.") -AnnotationAssertion( "CMECS:598") +AnnotationAssertion( "CMECS:598") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/598.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31260,7 +31260,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (estuarine open water surface layer) AnnotationAssertion( "A layer of estuarine water which extends a few centimeters from the surface of the water column towards the estuary bed and from a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters until the end of the estuary most distal from the coast.") -AnnotationAssertion( "CMECS:599") +AnnotationAssertion( "CMECS:599") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/599.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31274,7 +31274,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A layer of estuarine water which extends from the surface of the water column to the pycnocline or mid-depth and from a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters until the end of the estuary most distal from the coast.") AnnotationAssertion( "\"Mid-depth\", present in many CMECS classes, is ambiguous and needs refinement.") -AnnotationAssertion( "CMECS:600") +AnnotationAssertion( "CMECS:600") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/600.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31290,7 +31290,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A layer of fresh estuarine water which extends a few centimeters from the surface of the water column towards the estuary bed and from the land-water interface to a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters.") AnnotationAssertion( "What causes this freshwater layer to be \"tidal\" is not clearly specified in the current CMECS definition.") -AnnotationAssertion( "CMECS:603") +AnnotationAssertion( "CMECS:603") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/603.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31305,7 +31305,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A layer of fresh estuarine water which extends from the surface of the water column to the pycnocline or mid-depth and from the land-water interface to a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters.") AnnotationAssertion( "\"Mid-depth\", present in many CMECS classes, is ambiguous and needs refinement. What causes this freshwater layer to be \"tidal\" is not clearly specified in the current CMECS definition.") -AnnotationAssertion( "CMECS:604") +AnnotationAssertion( "CMECS:604") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/604.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31330,7 +31330,7 @@ SubClassOf( (fresh water body) AnnotationAssertion( "A body of water which is primarily composed of freshwater, with low solute content.") -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=216&/freshwater") "LTER:216") +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=216&/freshwater") "LTER:216") AnnotationAssertion( "fresh body of water") AnnotationAssertion( "freshwater body") AnnotationAssertion(rdfs:comment "This class has its subclasses primarily populated by inference. The threshold for what constitutes \"fresh\" water is variable and should typically be deferred to an applicatoin layer resource.") @@ -31351,7 +31351,7 @@ SubClassOf( "A layer of estuarine water which extends from an estuarine pycnocline or mid-depth to the estuary bed and from a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters to end of the estuary most distal from the coast.") AnnotationAssertion( "\"Mid-depth\", present in many CMECS classes, is ambiguous and needs refinement.") -AnnotationAssertion( "CMECS:602") +AnnotationAssertion( "CMECS:602") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/602.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31365,7 +31365,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (estuarine open water pycnocline) AnnotationAssertion( "A pycnocline which is part of an estuarine water body, spanning from a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters until the end of the estuary most distal from the coast.") -AnnotationAssertion( "CMECS:601") +AnnotationAssertion( "CMECS:601") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/601.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31381,7 +31381,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "An estuarine coastal pycnocline which is composed primarily of fresh tidal water.") AnnotationAssertion( "What causes this freshwater layer to be \"tidal\" is not clearly specified in the current CMECS definition. Further, the original definition and label do not clearly state whether this is a pycnocline in its own right, or just the tidal freshwater part of the pycnocline. In this ENVO class, we follow the semantics suggested by the label and treat this as a type of estuarine coastal pycnocline.") -AnnotationAssertion( "CMECS:605") +AnnotationAssertion( "CMECS:605") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/605.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31398,7 +31398,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A layer of fresh estuarine water which extends from an estuarine pycnocline or mid-depth to the estuarine bed and from the land-water interface to a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters.") AnnotationAssertion( "\"Mid-depth\", present in many CMECS classes, is ambiguous and needs refinement. What causes this freshwater layer to be \"tidal\" is not clearly specified in the current CMECS definition.") -AnnotationAssertion( "CMECS:606") +AnnotationAssertion( "CMECS:606") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/606.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31414,7 +31414,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A layer of fresh, tidal estuarine water which extends a few centimeters from the surface of the water column towards the estuary bed and from a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters until the end of the estuary most distal from the coast.") AnnotationAssertion( "What causes this freshwater layer to be \"tidal\" is not clearly specified in the current CMECS definition.") -AnnotationAssertion( "CMECS:607") +AnnotationAssertion( "CMECS:607") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/607.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31428,7 +31428,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A layer of fresh, tidal estuarine water which extends from the surface of the water column to the pycnocline or mid-depth and from a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters until the end of the estuary most distal from the coast.") AnnotationAssertion( "\"Mid-depth\", present in many CMECS classes, is ambiguous and needs refinement. What causes this freshwater layer to be \"tidal\" is not clearly specified in the current CMECS definition.") -AnnotationAssertion( "CMECS:608") +AnnotationAssertion( "CMECS:608") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/608.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31444,7 +31444,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "An estuarine open water pycnocline which is composed primarily of fresh tidal water.") AnnotationAssertion( "What causes this freshwater layer to be \"tidal\" is not clearly specified in the current CMECS definition. Further, the original definition and label do not clearly state whether this is a pycnocline in its own right, or just the tidal freshwater part of the pycnocline. In this ENVO class, we follow the semantics suggested by the label and treat this as a type of estuarine open water pycnocline.") -AnnotationAssertion( "CMECS:609") +AnnotationAssertion( "CMECS:609") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/609.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31460,7 +31460,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A layer of fresh estuarine water which extends from an estuarine pycnocline or mid-depth to the estuary bed and from a fiat boundary where the estuary bed below the water column reaches a depth of 4 meters to end of the estuary most distal from the coast.") AnnotationAssertion( "\"Mid-depth\", present in many CMECS classes, is ambiguous and needs refinement. What causes this freshwater layer to be \"tidal\" is not clearly specified in the current CMECS definition.") -AnnotationAssertion( "CMECS:610") +AnnotationAssertion( "CMECS:610") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/610.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31505,7 +31505,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (marine tidal flow process) AnnotationAssertion( "A tidal flow process which occurs in an ocean or sea and during which tidal movements generate advective flows, often amplified in velocity when moving through an inlet, pass or channel.") -AnnotationAssertion( "CMECS:643") +AnnotationAssertion( "CMECS:643") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/643.html") AnnotationAssertion( "tidal flow") AnnotationAssertion( "envoCmecs") @@ -31560,7 +31560,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (diurnal marine tidal flow zone) AnnotationAssertion( "A marine zone in which ocean waters undergo a diurnal (once per day) tidal oscillation - with one high and one low tide per day - due to the supression of a second daily oscillation by the geometry of the ocean basin and obstructions presented by land masses.") -AnnotationAssertion( "CMECS:664") +AnnotationAssertion( "CMECS:664") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/664.html") AnnotationAssertion( "diurnal tidal flow") AnnotationAssertion( "envoCmecs") @@ -31585,7 +31585,7 @@ SubClassOf( ObjectSomeValuesFrom(< # Class: (semi-diurnal marine tidal flow zone) AnnotationAssertion( "A marine tidal flow zone in which ocean waters undergo a semi-diurnal (twice per day) tidal oscillation - with two high and two low tides per day of roughly equal amplitude.") -AnnotationAssertion( "CMECS:666") +AnnotationAssertion( "CMECS:666") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/666.html") AnnotationAssertion( "semi-diurnal tidal flow") AnnotationAssertion( "envoCmecs") @@ -31869,7 +31869,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A shrubland biome which is densely vegetated by dwarf or short mangroves (and associates) that are generally less than 6 meters in height, is tidally influenced, is located in tropical or subtropical areas.") AnnotationAssertion( ) -AnnotationAssertion( "CMECS:577") +AnnotationAssertion( "CMECS:577") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/577.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -31956,7 +31956,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A marine bed which is covered by animals which have benthic habitats, including attached, clinging, sessile, infaunal, burrowing, laying, interstitial, and slow-moving animals, but not animals that have created substrate.") AnnotationAssertion( "\"Mid-depth\", present in many CMECS classes, is ambiguous and needs refinement.") AnnotationAssertion( ) -AnnotationAssertion( "CMECS:391") +AnnotationAssertion( "CMECS:391") AnnotationAssertion( "faunal bed") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/391.html") AnnotationAssertion( "envoCmecs") @@ -31994,7 +31994,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A marine faunal bed which is dominated by mussels of the Mytilus or Modiolus genera either 1) resting on the sediment surface, 2) partially embedded in the sediment, 3) attached to conspecifics (by using their byssal threads), or 4) attached to a piece of gravel in slightly gravelly fine sediments.") AnnotationAssertion( "If individual mussels are present in densities sufficient to construct biogenic substrate, please use the mussel reef class.") AnnotationAssertion( ) -AnnotationAssertion( "CMECS:532") +AnnotationAssertion( "CMECS:532") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/532.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -32009,7 +32009,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "A marine reef which is located on a shelf (i.e. in the neritic zone) and primarily composed of self-adhered or conglomerated mussel shells.") AnnotationAssertion( "The CMECs classification references shelf reefs in the definition. Thus this term is focused only on mussel reefs that are neritic.") AnnotationAssertion( ) -AnnotationAssertion( "CMECS:338") +AnnotationAssertion( "CMECS:338") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/338.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -32036,7 +32036,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "An area which is dominated by dense accumulations of mussels attached to a substrate other than conspecifics, including the associated faunal communities and predators present on the mussels (e.g., starfish).") AnnotationAssertion( "attached mussels (biotic group)") AnnotationAssertion( ) -AnnotationAssertion( "CMECS:532") +AnnotationAssertion( "CMECS:532") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/515.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -32050,7 +32050,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion( "An area which is dominated by dense accumulations of mussels, of the genus Modiolus, attached to a substrate other than conspecifics, including the associated faunal communities and predators present on the mussels (e.g., starfish).") AnnotationAssertion( ) -AnnotationAssertion( "CMECS:532") +AnnotationAssertion( "CMECS:532") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/883.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -32086,7 +32086,7 @@ AnnotationAssertion( "The CMECs classification references shelf reefs in the definition. Thus this term is focused only on mussel reefs that are neritic.") AnnotationAssertion( "mussel reef substrate") AnnotationAssertion( ) -AnnotationAssertion( "CMECS:338") +AnnotationAssertion( "CMECS:338") AnnotationAssertion( "https://cmecscatalog.org/cmecs/classification/unit/338.html") AnnotationAssertion( "envoCmecs") AnnotationAssertion( "envoMarine") @@ -32952,7 +32952,7 @@ SubClassOf( ObjectSomeValuesFrom(< AnnotationAssertion(Annotation( "https://en.wikipedia.org/wiki/Intertidal_zone"^^xsd:string) "An ecosystem which overlaps those areas of the foreshore and seabed that are exposed to the air at low tide and submerged at high tide."^^xsd:string) AnnotationAssertion( ) -AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=941&/intertidal") "LTER:941") +AnnotationAssertion(Annotation( "https://vocab.lternet.edu/vocab/vocab/index.php?tema=941&/intertidal") "LTER:941") AnnotationAssertion( "coastal zone"^^xsd:string) AnnotationAssertion( "EcoLexicon:intertidal_zone"^^xsd:string) AnnotationAssertion( "FTT:240"^^xsd:string) From f3c5e8352459053c76f53f505108dbd96fa4517a Mon Sep 17 00:00:00 2001 From: cmungall Date: Thu, 27 Jul 2023 19:35:56 -0700 Subject: [PATCH 2/2] Modifify containment relations to be location relations. Should be merged before https://github.com/oborel/obo-relations/pull/739 For full discussion, see https://github.com/oborel/obo-relations/issues/693 --- src/envo/envo-edit.owl | 22 ++++++++++------------ 1 file changed, 10 insertions(+), 12 deletions(-) diff --git a/src/envo/envo-edit.owl b/src/envo/envo-edit.owl index c27bf4b6..aa745aa2 100644 --- a/src/envo/envo-edit.owl +++ b/src/envo/envo-edit.owl @@ -4216,8 +4216,6 @@ Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) -Declaration(ObjectProperty()) -Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) @@ -10473,7 +10471,7 @@ SubClassOf( ObjectSomeValuesFrom(< SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( )))) +SubClassOf( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( )))) # Class: (massif) @@ -26999,7 +26997,7 @@ AnnotationAssertion(Annotation( "This definition could be improved, as ballast water is often used in more general ways, beyond the water contained in a ballast tank at any given time. For example, water which has just been released from a ballast tank is often still refered to as ballast water.") AnnotationAssertion(rdfs:label "ballast water"@en) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (ballast tank) @@ -29204,7 +29202,7 @@ SubClassOf( "https://en.wikipedia.org/wiki/Lake#Tectonic_lakes") "A lake which is contained in a depression formed by the deformation and resulting lateral and vertical movements of a lithosphere.") AnnotationAssertion(rdfs:label "tectonic lake"@en) SubClassOf( ) -SubClassOf( ObjectIntersectionOf(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) +SubClassOf( ObjectIntersectionOf(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) # Class: (tectonic movement) @@ -30102,7 +30100,7 @@ AnnotationAssertion(Annotation( "magnetosphere"@en) SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) # Class: (radiation shielding disposition) @@ -30492,7 +30490,7 @@ AnnotationAssertion(rdfs:label "H SubClassOf( ) SubClassOf(Annotation(rdfs:comment "QCR: 'process has causal agent' max 1 'astronomical body'") ObjectIntersectionOf(ObjectSomeValuesFrom( ) ObjectSomeValuesFrom( ))) SubClassOf( ObjectSomeValuesFrom( )) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (Lagrangian point) @@ -31115,7 +31113,7 @@ AnnotationAssertion( "Air is not specified directly (although the definition subsumes air masses) to allow for other forms of low pressure areas in planetary atmospheres.") AnnotationAssertion(rdfs:label "area of low atmospheric pressure"@en) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( )))) +SubClassOf( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( )))) SubClassOf( ObjectSomeValuesFrom( ObjectIntersectionOf( ObjectSomeValuesFrom( )))) # Class: (aquatic estuarine layer) @@ -31737,7 +31735,7 @@ AnnotationAssertion( "crater glacier") AnnotationAssertion(rdfs:label "volcanic crater glacier"@en) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (crater zone) @@ -34712,7 +34710,7 @@ AnnotationAssertion( "envoAtmo") AnnotationAssertion(rdfs:label "atmospheric frontal zone"@en) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (mariculture process) @@ -35736,7 +35734,7 @@ AnnotationAssertion( "2019-10-07T14:18:31Z"^^xsd:dateTime) AnnotationAssertion(rdfs:label "blind thrust fault"@en) SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (subsurface zone of an astronomical body) @@ -47292,4 +47290,4 @@ AnnotationAssertion(rdfs:label "imp AnnotationAssertion(rdfs:label "expand expression to") AnnotationAssertion( "An assertion that holds between an OWL Object Property and a temporal interpretation that elucidates how OWL Class Axioms that use this property are to be interpreted in a temporal context.") AnnotationAssertion(rdfs:label "temporal interpretation") -) \ No newline at end of file +)