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Make simulationReady property a construction from a quality metric annotation #5115

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merged 10 commits into from
Aug 27, 2024
Merged

Make simulationReady property a construction from a quality metric annotation #5115

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b9e71b5
Make simulationReady property a construction from a quality metric an…
crisely09 Aug 22, 2024
6cf073b
Merge branch 'master' into simulation-ready-remake
crisely09 Aug 23, 2024
2b555ff
Merge branch 'master' into simulation-ready-remake
crisely09 Aug 23, 2024
15c2a3f
added the quality measurement annotation type
crisely09 Aug 23, 2024
57c7110
revert last change and some query fixes
crisely09 Aug 23, 2024
fa50cba
fix typo in type of annotation
crisely09 Aug 23, 2024
4cfc649
Update dependencies for 1.10.0-M19 (#5121)
imsdu Aug 27, 2024
2183e0e
fix little typo
crisely09 Aug 27, 2024
9e0f592
remove unused text
crisely09 Aug 27, 2024
f32023d
Merge branch 'master' into simulation-ready-remake
crisely09 Aug 27, 2024
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48 changes: 38 additions & 10 deletions tests/docker/config/construct-query.sparql
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Original file line number Diff line number Diff line change
Expand Up @@ -353,16 +353,6 @@ CONSTRUCT {
)
}

OPTIONAL {
BIND(
IF(
EXISTS {?id nsg:annotation / nsg:hasBody <https://bbp.epfl.ch/ontologies/core/bmo/SimulationReady> .},
true,
false
) AS ?simulationReady
)
}

OPTIONAL {
BIND(
IF(
Expand Down Expand Up @@ -655,6 +645,44 @@ CONSTRUCT {
BIND( BNODE((CONCAT(STR(?id), '/neuronDensity'))) as ?neuronDensityBN ) .
} .

# NeuronMorphologies
OPTIONAL {
?id a nsg:NeuronMorphology ;
^nsg:hasSource / ^nsg:hasTarget ?qualityMeasurementAnnotation .

?qualityMeasurementAnnotation a nsg:QualityMeasurementAnnotation .

?qualityMeasurementAnnotation nsg:hasBody ?canBeLoadedBody .
?canBeLoadedBody nsg:isMeasurementOf bmo:CanBeLoadedWithMorphioMetric ;
schema:value ?canBeLoaded .

?qualityMeasurementAnnotation nsg:hasBody ?neuriteHasDiffDiameterBody .
?neuriteHasDiffDiameterBody nsg:isMeasurementOf bmo:NeuriteHasDifferentDiametersMetric ;
schema:value ?neuriteHasDiffDiameter .

?qualityMeasurementAnnotation nsg:hasBody ?hasNonZeroNeuriteRadiiBody .
?hasNonZeroNeuriteRadiiBody nsg:isMeasurementOf bmo:HasAllNonZeroNeuriteRadiiMetric ;
schema:value ?hasNonZeroNeuriteRadii .

?qualityMeasurementAnnotation nsg:hasBody ?hasNonZeroSectionLengthBody .
?hasNonZeroSectionLengthBody nsg:isMeasurementOf bmo:HasAllNonZeroSectionLengthsMetric ;
schema:value ?hasNonZeroSectionLength .

?qualityMeasurementAnnotation nsg:hasBody ?hasNonZeroSomaBody .
?hasNonZeroSomaBody nsg:isMeasurementOf bmo:HasNoZeroSomaRadiusMetric ;
schema:value ?hasNonZeroSoma .
BIND(
IF (?canBeLoaded &&
?neuriteHasDiffDiameter &&
?hasNonZeroNeuriteRadii &&
?hasNonZeroSectionLength &&
?hasNonZeroSoma,
true,
false
) AS ?simulationReady
)
}

# Simulation campaign configuration
OPTIONAL {
?id a bmo:SimulationCampaignConfiguration .
Expand Down
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