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| author | Munyoki Kilyungi | 2023-08-28 14:22:37 +0300 |
|---|---|---|
| committer | Munyoki Kilyungi | 2023-08-28 14:29:26 +0300 |
| commit | 8c9da8e40fe211984191caa22e3849fc4c8e954e (patch) | |
| tree | b40bc5518b7c5dff62f7e214c3feeb74272f112d /examples/genotype.scm | |
| parent | fae546482521ad854ee837af3d3fe33fb873fd80 (diff) | |
| download | gn-transform-databases-8c9da8e40fe211984191caa22e3849fc4c8e954e.tar.gz | |
Update how genotypes are transformed
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
Diffstat (limited to 'examples/genotype.scm')
| -rwxr-xr-x | examples/genotype.scm | 26 |
1 files changed, 11 insertions, 15 deletions
diff --git a/examples/genotype.scm b/examples/genotype.scm index 830da0a..9dc155a 100755 --- a/examples/genotype.scm +++ b/examples/genotype.scm @@ -29,36 +29,31 @@ (tables (Geno (left-join Species "USING (SpeciesId)"))) (schema-triples - (gnc:genotype a skos:Concept) - (gnc:genotype - skos:description - "This is a set of controlled terms that are used to describe a given genotype") (gnt:chr a owl:ObjectProperty) (gnt:chr skos:description "This resource is located on a given chromosome") - (gnt:chr rdfs:domain gnc:genotype) + (gnt:chr rdfs:domain gnc:Genotype) (gnt:mb a owl:ObjectProperty) (gnt:mb skos:definition "The size of this resource in Mb") - (gnt:mb rdfs:domain gnc:genotype) + (gnt:mb rdfs:domain gnc:Genotype) (gnt:mbMm8 a owl:ObjectProperty) (gnt:mbMm8 skos:definition "TODO") - (gnt:mbMm8 rdfs:domain gnc:genotype) + (gnt:mbMm8 rdfs:domain gnc:Genotype) (gnt:mb2016 a owl:ObjectProperty) (gnt:mb2016 skos:definition "TODO") - (gnt:mb2016 rdfs:domain gnc:genotype) + (gnt:mb2016 rdfs:domain gnc:Genotype) (gnt:hasSequence a owl:ObjectProperty) (gnt:hasSequence skos:definition "This resource has a given sequence") - (gnt:hasSequence rdfs:domain gnc:genotype) + (gnt:hasSequence rdfs:domain gnc:Genotype) (gnt:hasSource a owl:ObjectProperty) - (gnt:hasSource rdfs:domain gnc:genotype) + (gnt:hasSource rdfs:domain gnc:Genotype) (gnt:hasSource skos:definition "This resource was obtained from this given source") (gnt:hasAltSourceName a owl:ObjectProperty) - (gnt:hasAltSourceName rdfs:domain gnc:genotype) + (gnt:hasAltSourceName rdfs:domain gnc:Genotype) (gnt:hasAltSourceName skos:definition "The alternative name this resource was obtained from") (gnt:chrNum a owl:ObjectProperty) - (gnt:chrNum rdfs:domain gnc:genotype) - (gnt:chrNum skos:definition "The chromosome number for this resource") + (gnt:chrNum rdfs:domain gnc:Genotype) (gnt:chrNum skos:definition "The chromosome number for this resource")) (triples (string->identifier @@ -69,7 +64,7 @@ 'pre "_" 'post) #:separator "" #:proc string-capitalize-first) - (set rdf:type 'gnc:genotype) + (set rdf:type 'gnc:Genotype) (set skos:prefLabel (sanitize-rdf-string (field Geno Name))) (set gnt:chr (field Geno Chr)) (set gnt:mb (annotate-field @@ -85,7 +80,7 @@ (set gnt:hasAltSourceName (field ("IF((Source2 = Source), NULL, Source2)" Source2))) - (set gnt:belongsToSpecies + (set xkos:classifiedUnder (string->identifier "" (remap-species-identifiers (field Species Fullname)) #:separator "" @@ -122,6 +117,7 @@ ("rdfs:" "<http://www.w3.org/2000/01/rdf-schema#>") ("owl:" "<http://www.w3.org/2002/07/owl#>") ("skos:" "<http://www.w3.org/2004/02/skos/core#>") + ("xkos:" "<http://rdf-vocabulary.ddialliance.org/xkos#>") ("xsd:" "<http://www.w3.org/2001/XMLSchema#>"))) (inputs (list genotypes)) |