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Update monochrom after ODK 1.4 release
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@matentzn
matentzn committed Feb 19, 2023
1 parent 7b4cf9b commit ddfa6e9
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Showing 26 changed files with 241,307 additions and 313,977 deletions.
2 changes: 1 addition & 1 deletion Makefile
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Original file line number Diff line number Diff line change
Expand Up @@ -12,7 +12,7 @@ all-components-yaml: $(patsubst %, components/%.yaml, $(BUILDS))
all-components-owl: $(patsubst %, components/%.owl, $(BUILDS))

ontology:
cd src/ontology && make release
cd src/ontology && make prepare_release

test:
pytest
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156,615 changes: 67,790 additions & 88,825 deletions chr-base.json
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366 changes: 2 additions & 364 deletions chr-base.obo
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Original file line number Diff line number Diff line change
@@ -1,11 +1,11 @@
format-version: 1.2
data-version: chr/releases/2022-02-02/chr-base.owl
data-version: chr/releases/2023-02-19/chr-base.owl
ontology: chr/chr-base
property_value: http://purl.org/dc/elements/1.1/description "Automatic translation of UCSC chromosome bands to OWL classes" xsd:string
property_value: http://purl.org/dc/elements/1.1/title "Monochrom Ontology" xsd:string
property_value: http://purl.org/dc/elements/1.1/type IAO:8000001
property_value: http://purl.org/dc/terms/license https://creativecommons.org/publicdomain/zero/1.0/
property_value: owl:versionInfo "2022-02-02" xsd:string
property_value: owl:versionInfo "2023-02-19" xsd:string

[Term]
id: CHR:10090-chr1
Expand Down Expand Up @@ -9677,368 +9677,6 @@ property_value: genome:build "ce11" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "17718942" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr1
name: chromosome 1 (Danio rerio)
synonym: "1" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002885.1
property_value: exactMatch NC:007112.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "58871917" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr10
name: chromosome 10 (Danio rerio)
synonym: "10" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002894.1
property_value: exactMatch NC:007121.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "45574255" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr11
name: chromosome 11 (Danio rerio)
synonym: "11" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002895.1
property_value: exactMatch NC:007122.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "45107271" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr12
name: chromosome 12 (Danio rerio)
synonym: "12" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002896.1
property_value: exactMatch NC:007123.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "49229541" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr13
name: chromosome 13 (Danio rerio)
synonym: "13" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002897.1
property_value: exactMatch NC:007124.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "51780250" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr14
name: chromosome 14 (Danio rerio)
synonym: "14" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002898.1
property_value: exactMatch NC:007125.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "51944548" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr15
name: chromosome 15 (Danio rerio)
synonym: "15" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002899.1
property_value: exactMatch NC:007126.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "47771147" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr16
name: chromosome 16 (Danio rerio)
synonym: "16" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002900.1
property_value: exactMatch NC:007127.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "55381981" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr17
name: chromosome 17 (Danio rerio)
synonym: "17" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002901.1
property_value: exactMatch NC:007128.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "53345113" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr18
name: chromosome 18 (Danio rerio)
synonym: "18" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002902.1
property_value: exactMatch NC:007129.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "51008593" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr19
name: chromosome 19 (Danio rerio)
synonym: "19" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002903.1
property_value: exactMatch NC:007130.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "48790377" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr2
name: chromosome 2 (Danio rerio)
synonym: "2" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002886.1
property_value: exactMatch NC:007113.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "59543403" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr20
name: chromosome 20 (Danio rerio)
synonym: "20" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002904.1
property_value: exactMatch NC:007131.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "55370968" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr21
name: chromosome 21 (Danio rerio)
synonym: "21" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002905.1
property_value: exactMatch NC:007132.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "45895719" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr22
name: chromosome 22 (Danio rerio)
synonym: "22" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002906.1
property_value: exactMatch NC:007133.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "39226288" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr23
name: chromosome 23 (Danio rerio)
synonym: "23" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002907.1
property_value: exactMatch NC:007134.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "46272358" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr24
name: chromosome 24 (Danio rerio)
synonym: "24" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002908.1
property_value: exactMatch NC:007135.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "42251103" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr25
name: chromosome 25 (Danio rerio)
synonym: "25" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002909.1
property_value: exactMatch NC:007136.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "36898761" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr3
name: chromosome 3 (Danio rerio)
synonym: "3" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002887.1
property_value: exactMatch NC:007114.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "62385949" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr4
name: chromosome 4 (Danio rerio)
synonym: "4" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002888.1
property_value: exactMatch NC:007115.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "76625712" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr5
name: chromosome 5 (Danio rerio)
synonym: "5" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002889.1
property_value: exactMatch NC:007116.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "71715914" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr6
name: chromosome 6 (Danio rerio)
synonym: "6" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002890.1
property_value: exactMatch NC:007117.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "60272633" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr7
name: chromosome 7 (Danio rerio)
synonym: "7" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002891.1
property_value: exactMatch NC:007118.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "74082188" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr8
name: chromosome 8 (Danio rerio)
synonym: "8" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002892.1
property_value: exactMatch NC:007119.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "54191831" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chr9
name: chromosome 9 (Danio rerio)
synonym: "9" BROAD []
is_a: GO:0005694
is_a: GO:0030849
relationship: BFO:0000050 GO:0005634
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch http://identifiers.org/insdc/CM002893.1
property_value: exactMatch NC:007120.6
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "56892771" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:7955-chrM
name: chromosome M (Danio rerio)
synonym: "MT" BROAD []
is_a: GO:0005694
relationship: BFO:0000050 GO:0005739
relationship: RO:0002162 NCBITaxon:7955
property_value: exactMatch NC:002333.2
property_value: genome:build "danRer10" xsd:string
property_value: https://w3id.org/biodatamodels/gff/end "16596" xsd:integer
property_value: https://w3id.org/biodatamodels/gff/start "0" xsd:integer

[Term]
id: CHR:9031-chr1
name: chromosome 1 (Chicken)
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