Skip to content

Commit

Permalink
new release (#1519)
Browse files Browse the repository at this point in the history
  • Loading branch information
@cmungall
cmungall authored Jul 2, 2024
1 parent 441c7fc commit 08d797f
Show file tree
Hide file tree
Showing 115 changed files with 120,548 additions and 99,764 deletions.
532 changes: 452 additions & 80 deletions envo-base.owl
View file

Large diffs are not rendered by default.

22,943 changes: 12,200 additions & 10,743 deletions envo.json
View file

Large diffs are not rendered by default.

2,749 changes: 1,480 additions & 1,269 deletions envo.obo
View file

Large diffs are not rendered by default.

761 changes: 477 additions & 284 deletions envo.owl
View file

Large diffs are not rendered by default.

452 changes: 412 additions & 40 deletions src/envo/envo-simple.owl
View file

Large diffs are not rendered by default.

22,943 changes: 12,200 additions & 10,743 deletions src/envo/envo.json
View file

Large diffs are not rendered by default.

2,749 changes: 1,480 additions & 1,269 deletions src/envo/envo.obo
View file

Large diffs are not rendered by default.

761 changes: 477 additions & 284 deletions src/envo/envo.owl
View file

Large diffs are not rendered by default.

21 changes: 21 additions & 0 deletions src/envo/imports/seed.txt
View file
Original file line number Diff line number Diff line change
Expand Up @@ -73,6 +73,7 @@ http://glossary.ametsoc.org/wiki/Warm_occlusion
http://healthfacilityguidelines.com/ViewPDF/ViewIndexPDF/iHFG_part_b_pharmacy_unit
http://ontology.buffalo.edu/smith/articles/niches.html
http://orcid.org/0000-0002-2627-0696
http://orcid.org/0000-0002-2908-3327
http://orcid.org/0000-0002-4366-3088
http://orcid.org/0000-0002-8461-9745
http://pubs.usgs.gov/of/2004/1216/a/a.html
Expand Down Expand Up @@ -3652,17 +3653,25 @@ http://purl.obolibrary.org/obo/ENVO_02000135
http://purl.obolibrary.org/obo/ENVO_02000136
http://purl.obolibrary.org/obo/ENVO_02000137
http://purl.obolibrary.org/obo/ENVO_02000138
http://purl.obolibrary.org/obo/ENVO_02000139
http://purl.obolibrary.org/obo/ENVO_02000140
http://purl.obolibrary.org/obo/ENVO_02000141
http://purl.obolibrary.org/obo/ENVO_02000142
http://purl.obolibrary.org/obo/ENVO_02000143
http://purl.obolibrary.org/obo/ENVO_02000144
http://purl.obolibrary.org/obo/ENVO_02000145
http://purl.obolibrary.org/obo/ENVO_02000146
http://purl.obolibrary.org/obo/ENVO_02000147
http://purl.obolibrary.org/obo/ENVO_02000148
http://purl.obolibrary.org/obo/ENVO_02000149
http://purl.obolibrary.org/obo/ENVO_02000150
http://purl.obolibrary.org/obo/ENVO_02000151
http://purl.obolibrary.org/obo/ENVO_02000152
http://purl.obolibrary.org/obo/ENVO_02000153
http://purl.obolibrary.org/obo/ENVO_02000155
http://purl.obolibrary.org/obo/ENVO_02000156
http://purl.obolibrary.org/obo/ENVO_02000157
http://purl.obolibrary.org/obo/ENVO_02000158
http://purl.obolibrary.org/obo/ENVO_02000200
http://purl.obolibrary.org/obo/ENVO_02500000
http://purl.obolibrary.org/obo/ENVO_02500001
Expand Down Expand Up @@ -3869,6 +3878,17 @@ http://purl.obolibrary.org/obo/ENVO_03500012
http://purl.obolibrary.org/obo/ENVO_03500013
http://purl.obolibrary.org/obo/ENVO_03500014
http://purl.obolibrary.org/obo/ENVO_03500015
http://purl.obolibrary.org/obo/ENVO_03500016
http://purl.obolibrary.org/obo/ENVO_03500017
http://purl.obolibrary.org/obo/ENVO_03500018
http://purl.obolibrary.org/obo/ENVO_03500019
http://purl.obolibrary.org/obo/ENVO_03500020
http://purl.obolibrary.org/obo/ENVO_03500021
http://purl.obolibrary.org/obo/ENVO_03500022
http://purl.obolibrary.org/obo/ENVO_03500023
http://purl.obolibrary.org/obo/ENVO_03500024
http://purl.obolibrary.org/obo/ENVO_03500025
http://purl.obolibrary.org/obo/ENVO_03500028
http://purl.obolibrary.org/obo/ENVO_03501100
http://purl.obolibrary.org/obo/ENVO_03501101
http://purl.obolibrary.org/obo/ENVO_03501102
Expand Down Expand Up @@ -5037,6 +5057,7 @@ http://purl.org/dc/elements/1.1/creator
http://purl.org/dc/elements/1.1/date
http://purl.org/dc/elements/1.1/description
http://purl.org/dc/elements/1.1/title
http://purl.org/dc/terms/created
http://purl.org/dc/terms/license
http://purl.org/dc/terms/title
http://sweetontology.net/matrWater/DepthHoar
Expand Down
1 change: 1 addition & 0 deletions src/envo/reports/envo-base-robot-report.tsv
View file
Original file line number Diff line number Diff line change
Expand Up @@ -393,6 +393,7 @@ INFO missing_superclass concentration of carbon dioxide in an atmosphere rdfs:su
INFO missing_superclass pollution control rdfs:subClassOf
INFO missing_superclass pollution monitoring rdfs:subClassOf
INFO missing_superclass cryoform rdfs:subClassOf
INFO missing_superclass depth of water ice rdfs:subClassOf
INFO missing_superclass concentration of carbon dioxide in soil rdfs:subClassOf
INFO missing_superclass concentration of carbon dioxide in air rdfs:subClassOf
INFO missing_superclass concentration of carbon dioxide in freshwater rdfs:subClassOf
Expand Down
21 changes: 20 additions & 1 deletion src/envo/reports/envo-basicReport.tsv
View file

Large diffs are not rendered by default.

7,217 changes: 3,618 additions & 3,599 deletions src/envo/reports/envo-edges.tsv
View file

Large diffs are not rendered by default.

1 change: 1 addition & 0 deletions src/envo/reports/envo-edit-robot-report.tsv
View file
Original file line number Diff line number Diff line change
Expand Up @@ -375,6 +375,7 @@ INFO missing_superclass concentration of carbon dioxide in an atmosphere rdfs:su
INFO missing_superclass pollution control rdfs:subClassOf
INFO missing_superclass pollution monitoring rdfs:subClassOf
INFO missing_superclass cryoform rdfs:subClassOf
INFO missing_superclass depth of water ice rdfs:subClassOf
INFO missing_superclass concentration of carbon dioxide in soil rdfs:subClassOf
INFO missing_superclass concentration of carbon dioxide in air rdfs:subClassOf
INFO missing_superclass concentration of carbon dioxide in freshwater rdfs:subClassOf
Expand Down
1 change: 1 addition & 0 deletions src/envo/reports/envo-src-robot-report.tsv
View file
Original file line number Diff line number Diff line change
Expand Up @@ -393,6 +393,7 @@ INFO missing_superclass concentration of carbon dioxide in an atmosphere rdfs:su
INFO missing_superclass pollution control rdfs:subClassOf
INFO missing_superclass pollution monitoring rdfs:subClassOf
INFO missing_superclass cryoform rdfs:subClassOf
INFO missing_superclass depth of water ice rdfs:subClassOf
INFO missing_superclass concentration of carbon dioxide in soil rdfs:subClassOf
INFO missing_superclass concentration of carbon dioxide in air rdfs:subClassOf
INFO missing_superclass concentration of carbon dioxide in freshwater rdfs:subClassOf
Expand Down
2 changes: 1 addition & 1 deletion src/envo/reports/envo-stats.tsv
View file
Original file line number Diff line number Diff line change
@@ -1,2 +1,2 @@
?numberOfClasses
9301
9309
31 changes: 25 additions & 6 deletions src/envo/reports/envo-tags.tsv
View file
Original file line number Diff line number Diff line change
Expand Up @@ -284,6 +284,7 @@
"air pollution" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_02500037"
"air vent" "vent" "http://purl.obolibrary.org/obo/ENVO_03501208"
"aircraft" "http://purl.obolibrary.org/obo/ENVO_01001488"
"aircraft noise" "http://purl.obolibrary.org/obo/ENVO_03500024"
"airplane" "plane" "http://purl.obolibrary.org/obo/ENVO_03501349"
"airport" "aerodrome" "http://purl.obolibrary.org/obo/ENVO_03501122"
"airport" "airdrome" "http://purl.obolibrary.org/obo/ENVO_03501122"
Expand All @@ -293,7 +294,7 @@
"alas" "http://purl.obolibrary.org/obo/ENVO_00000438"
"albeluvisol" "http://purl.obolibrary.org/obo/ENVO_00002233"
"alcohol fermentation pit" "http://purl.obolibrary.org/obo/ENVO_03600090"
"algal bloom" "http://purl.obolibrary.org/obo/ENVO_2000004"
"algal bloom" "phytoplankton bloom" "http://purl.obolibrary.org/obo/ENVO_2000004"
"algal bloom collapse" "http://purl.obolibrary.org/obo/ENVO_02500021"
"algal bloom process" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_02500018"
"algal bloom process phase" "http://purl.obolibrary.org/obo/ENVO_02500022"
Expand Down Expand Up @@ -741,6 +742,7 @@
"biogenous sediment" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_01000082"
"biogeochemical cycling" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_02500009"
"biogeochemical process" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_02500030"
"biological nutrient removal during wastewater treatment" "http://purl.obolibrary.org/obo/ENVO_02000158"
"biological product" "http://purl.obolibrary.org/obo/ENVO_02000043"
"biological waste material" "biological waste" "http://purl.obolibrary.org/obo/ENVO_01000373"
"biomaterial containment unit" "http://purl.obolibrary.org/obo/ENVO_01001816"
Expand Down Expand Up @@ -1578,6 +1580,7 @@
"desert planet" "dry planet" "envoAstro" "http://purl.obolibrary.org/obo/ENVO_01001135"
"desert sand" "http://purl.obolibrary.org/obo/ENVO_00005800"
"desert scrubland" "desert scrub" "http://purl.obolibrary.org/obo/ENVO_01000242"
"desert spring" "http://purl.obolibrary.org/obo/ENVO_02000139"
"desert tree line ecotone" "desert tree line" "http://purl.obolibrary.org/obo/ENVO_01000955"
"desert tree line ecotone" "desert tree-line" "http://purl.obolibrary.org/obo/ENVO_01000955"
"desert tree line ecotone" "desert treeline" "http://purl.obolibrary.org/obo/ENVO_01000955"
Expand Down Expand Up @@ -1769,6 +1772,7 @@
"electromagnetic radiation" "EM radiation" "environmental_hazards" "http://purl.obolibrary.org/obo/ENVO_01001026"
"electromagnetic radiation" "EM radiation" "envoAstro" "http://purl.obolibrary.org/obo/ENVO_01001026"
"electromagnetic wave energy" "electromagnetic radiant energy" "http://purl.obolibrary.org/obo/ENVO_01003018"
"electroplating fume" "http://purl.obolibrary.org/obo/ENVO_03500016"
"electrostatic discharge process" "http://purl.obolibrary.org/obo/ENVO_01000897"
"elevated landform" "elevation" "http://purl.obolibrary.org/obo/ENVO_00000176"
"embankment dam" "http://purl.obolibrary.org/obo/ENVO_03600032"
Expand Down Expand Up @@ -2289,6 +2293,7 @@
"gasoline" "gas" "http://purl.obolibrary.org/obo/ENVO_03510007"
"gasoline" "petrol" "http://purl.obolibrary.org/obo/ENVO_03510007"
"gasoline exhaust" "http://purl.obolibrary.org/obo/ENVO_03510009"
"gasoline vapor" "http://purl.obolibrary.org/obo/ENVO_03500021"
"gastroenterology unit facility" "http://purl.obolibrary.org/obo/ENVO_03501146"
"gel" "http://purl.obolibrary.org/obo/ENVO_01001561"
"gel ink" "http://purl.obolibrary.org/obo/ENVO_03510060"
Expand Down Expand Up @@ -3074,6 +3079,7 @@
"layer" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_01000281"
"leachate" "http://purl.obolibrary.org/obo/ENVO_00002141"
"lead paint" "http://purl.obolibrary.org/obo/ENVO_02000124"
"lead solder" "http://purl.obolibrary.org/obo/ENVO_03500019"
"leafy wood soil" "http://purl.obolibrary.org/obo/ENVO_00005783"
"leat" "lete" "http://purl.obolibrary.org/obo/ENVO_00000544"
"leather dye" "http://purl.obolibrary.org/obo/ENVO_03510011"
Expand Down Expand Up @@ -3199,6 +3205,7 @@
"man-made tunnel" "tunnels" "underpass" "http://purl.obolibrary.org/obo/ENVO_00000066"
"manganese-reducing sediment" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_01000151"
"mangrove biome" "wwfBiome" "http://purl.obolibrary.org/obo/ENVO_01000181"
"mangrove biome sediment" "mangrove sediment" "http://purl.obolibrary.org/obo/ENVO_02000152"
"mangrove biome soil" "mangrove soil" "http://purl.obolibrary.org/obo/ENVO_02000138"
"mangrove island" "http://purl.obolibrary.org/obo/ENVO_00000103"
"mangrove swamp" "mangal" "woodland" "MangroveForest" "http://purl.obolibrary.org/obo/ENVO_00000057"
Expand Down Expand Up @@ -3304,7 +3311,8 @@
"marine pycnocline" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_01000077"
"marine reef" "http://purl.obolibrary.org/obo/ENVO_01000143"
"marine reef biome" "http://purl.obolibrary.org/obo/ENVO_01000029"
"marine salt marsh biome" "http://purl.obolibrary.org/obo/ENVO_01000022"
"marine salt marsh biome" "salt marsh" "http://purl.obolibrary.org/obo/ENVO_01000022"
"marine salt marsh sediment" "http://purl.obolibrary.org/obo/ENVO_02000153"
"marine sediment" "marine sediments" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_03000033"
"marine sludge" "http://purl.obolibrary.org/obo/ENVO_00005796"
"marine snow" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_01000158"
Expand Down Expand Up @@ -3611,6 +3619,7 @@
"multipurpose dam" "http://purl.obolibrary.org/obo/ENVO_00000553"
"multiyear ice" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_03000073"
"multiyear ice formation process" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_03000062"
"municipal landfill" "http://purl.obolibrary.org/obo/ENVO_02000157"
"mushroom compost" "http://purl.obolibrary.org/obo/ENVO_00003033"
"mushroom environment" "http://purl.obolibrary.org/obo/ENVO_01000929"
"mussel bed" "envoCmecs" "http://purl.obolibrary.org/obo/ENVO_01001379"
Expand Down Expand Up @@ -3703,8 +3712,10 @@
"nitrogen-oxygen planetary atmosphere" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_01000811"
"nival" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_01000344"
"nivation" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_03000003"
"noise" "http://purl.obolibrary.org/obo/ENVO_03500022"
"noisy environment" "http://purl.obolibrary.org/obo/ENVO_03500007"
"non-hydraulic cement" "http://purl.obolibrary.org/obo/ENVO_01000464"
"non-lead solder" "http://purl.obolibrary.org/obo/ENVO_03500020"
"non-saline aerosol environment" "envoEmpo" "http://purl.obolibrary.org/obo/ENVO_01001054"
"non-saline aerosol environment" "envoOmics" "http://purl.obolibrary.org/obo/ENVO_01001054"
"non-saline environment" "envoEmpo" "http://purl.obolibrary.org/obo/ENVO_01001003"
Expand Down Expand Up @@ -3810,7 +3821,7 @@
"oil seep" "http://purl.obolibrary.org/obo/ENVO_00002063"
"oil shale" "kerogen shale" "http://purl.obolibrary.org/obo/ENVO_02000119"
"oil sludge" "http://purl.obolibrary.org/obo/ENVO_00002060"
"oil spill" "http://purl.obolibrary.org/obo/ENVO_00002061"
"oil spill" "oil contamination" "http://purl.obolibrary.org/obo/ENVO_00002061"
"oil tank" "http://purl.obolibrary.org/obo/ENVO_00002183"
"oil well" "http://purl.obolibrary.org/obo/ENVO_01000003"
"oil-based paint" "oil paint" "http://purl.obolibrary.org/obo/ENVO_03510031"
Expand Down Expand Up @@ -3846,6 +3857,7 @@
"ore" "http://purl.obolibrary.org/obo/ENVO_02000094"
"organ" "http://purl.obolibrary.org/obo/ENVO_01000162"
"organ culture" "http://purl.obolibrary.org/obo/ENVO_02000010"
"organic dairy farm" "http://purl.obolibrary.org/obo/ENVO_02000156"
"organic farm" "http://purl.obolibrary.org/obo/ENVO_03600044"
"organic horizon" "organic surface layer" "soil organic layer" "http://purl.obolibrary.org/obo/ENVO_03600018"
"organic material" "biomass" "http://purl.obolibrary.org/obo/ENVO_01000155"
Expand Down Expand Up @@ -4100,7 +4112,7 @@
"planetary wind" "atmospheric escape" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_01000795"
"planetesimal" "envoAstro" "http://purl.obolibrary.org/obo/ENVO_01001148"
"planktonic kerogen" "http://purl.obolibrary.org/obo/ENVO_01001235"
"planktonic material" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_01000063"
"planktonic material" "mass of plankton" "plankton" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_01000063"
"planned burn" "fire-stick farming" "http://purl.obolibrary.org/obo/ENVO_03000122"
"planned deforestation" "http://purl.obolibrary.org/obo/ENVO_01001435"
"planned environmental usage process" "http://purl.obolibrary.org/obo/ENVO_01001436"
Expand Down Expand Up @@ -4189,6 +4201,7 @@
"plunge pool" "PLUNGE POOL" "http://purl.obolibrary.org/obo/ENVO_00000483"
"plutonic rock" "intrusive rock" "http://purl.obolibrary.org/obo/ENVO_00002014"
"pneumatic conveyor" "http://purl.obolibrary.org/obo/ENVO_03501367"
"pneumatic drill" "http://purl.obolibrary.org/obo/ENVO_03500028"
"pocasin" "http://purl.obolibrary.org/obo/ENVO_00000239"
"pockmark field" "http://purl.obolibrary.org/obo/ENVO_02000003"
"podzol" "podsol" "podosolic soil" "http://purl.obolibrary.org/obo/ENVO_00002257"
Expand Down Expand Up @@ -4475,8 +4488,8 @@
"public transport hub" "public transport interchange" "http://purl.obolibrary.org/obo/ENVO_03501118"
"public utility line" "http://purl.obolibrary.org/obo/ENVO_01000783"
"public-private prison" "http://purl.obolibrary.org/obo/ENVO_03501355"
"puddle of water" "http://purl.obolibrary.org/obo/ENVO_01000871"
"pulp-bleaching waste water" "http://purl.obolibrary.org/obo/ENVO_00002193"
"puddle of water" "puddle" "http://purl.obolibrary.org/obo/ENVO_01000871"
"pulp-bleaching waste water" "pulp and paper wastewater" "http://purl.obolibrary.org/obo/ENVO_00002193"
"pumice" "http://purl.obolibrary.org/obo/ENVO_01000663"
"pump" "http://purl.obolibrary.org/obo/ENVO_03501266"
"pus material" "http://purl.obolibrary.org/obo/ENVO_02000038"
Expand Down Expand Up @@ -4857,6 +4870,7 @@
"road" "traffic circle" "thruway" "http://purl.obolibrary.org/obo/ENVO_00000064"
"road" "traffic circle" "turnpike" "http://purl.obolibrary.org/obo/ENVO_00000064"
"road cut" "http://purl.obolibrary.org/obo/ENVO_00000515"
"road traffic noise" "http://purl.obolibrary.org/obo/ENVO_03500023"
"roadside" "http://purl.obolibrary.org/obo/ENVO_01000447"
"roadside soil" "http://purl.obolibrary.org/obo/ENVO_00005743"
"rock" "http://purl.obolibrary.org/obo/ENVO_00001995"
Expand Down Expand Up @@ -5161,6 +5175,7 @@
"secondary microplastic particle" "microplastica secondaria" "microplastic" "envoPlastics" "http://purl.obolibrary.org/obo/ENVO_01000946"
"secondary microplastic particle" "microplástico secundario" "microplastic" "envoPlastics" "http://purl.obolibrary.org/obo/ENVO_01000946"
"secondary sludge" "http://purl.obolibrary.org/obo/ENVO_00002058"
"secondhand smoke" "http://purl.obolibrary.org/obo/ENVO_03500025"
"sediment" <http://purl.obolibrary.org/obo/envo#EnvO-Lite-GSC> "http://purl.obolibrary.org/obo/ENVO_00002007"
"sediment" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_00002007"
"sediment environment" "envoEmpo" "http://purl.obolibrary.org/obo/ENVO_01001048"
Expand Down Expand Up @@ -5355,6 +5370,8 @@
"solar panel array" "photovoltaic panel array" "http://purl.obolibrary.org/obo/ENVO_01000867"
"solar power station" "http://purl.obolibrary.org/obo/ENVO_2000041"
"solar rainbow" "stellar rainbow" "envoAtmo" "http://purl.obolibrary.org/obo/ENVO_01001007"
"solder" "http://purl.obolibrary.org/obo/ENVO_03500018"
"soldering fumes" "http://purl.obolibrary.org/obo/ENVO_03500017"
"solfatara" "http://purl.obolibrary.org/obo/ENVO_00000217"
"solid astronomical body part" "geological feature" "http://purl.obolibrary.org/obo/ENVO_00000191"
"solid astronomical body part" "landform" "http://purl.obolibrary.org/obo/ENVO_00000191"
Expand All @@ -5363,6 +5380,7 @@
"solid layer" "http://purl.obolibrary.org/obo/ENVO_01001275"
"solid planetary core" "http://purl.obolibrary.org/obo/ENVO_01000645"
"solid surface layer" "http://purl.obolibrary.org/obo/ENVO_01001311"
"solid waste material" "solid waste" "http://purl.obolibrary.org/obo/ENVO_02000155"
"solid-phase sintering" "envoPolar" "http://purl.obolibrary.org/obo/ENVO_03000101"
"solonchak" "http://purl.obolibrary.org/obo/ENVO_00002252"
"solonetz" "http://purl.obolibrary.org/obo/ENVO_00002255"
Expand Down Expand Up @@ -5539,6 +5557,7 @@
"subsequent stream" "http://purl.obolibrary.org/obo/ENVO_00000491"
"subsurface landform" "sub-surface landform" "underground physiographic feature" "http://purl.obolibrary.org/obo/ENVO_00002184"
"subsurface zone of an astronomical body" "http://purl.obolibrary.org/obo/ENVO_01001776"
"subterranean lake" "http://purl.obolibrary.org/obo/ENVO_02000145"
"subtropical" "http://purl.obolibrary.org/obo/ENVO_01000205"
"subtropical biome" "http://purl.obolibrary.org/obo/ENVO_01001832"
"subtropical broadleaf forest" "http://purl.obolibrary.org/obo/ENVO_01001793"
Expand Down
Loading

0 comments on commit 08d797f

Please sign in to comment.