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| author | Munyoki Kilyungi | 2023-10-19 16:58:34 +0300 |
|---|---|---|
| committer | Munyoki Kilyungi | 2023-10-19 16:58:34 +0300 |
| commit | 8bf0ce9f2f08c6220f848c4e00f7e04018a8d1fb (patch) | |
| tree | b767af02b801ed80c8c1292f55a0bb251fcfba0d /examples | |
| parent | 3c06bf6f0006c637af5cea6839539769a4f229d1 (diff) | |
| download | gn-transform-databases-8bf0ce9f2f08c6220f848c4e00f7e04018a8d1fb.tar.gz | |
Check (Publish/Geno)Freeze for InbredSet if NULL in InfoFiles.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
Diffstat (limited to 'examples')
| -rwxr-xr-x | examples/dataset-metadata.scm | 9 |
1 files changed, 7 insertions, 2 deletions
diff --git a/examples/dataset-metadata.scm b/examples/dataset-metadata.scm index c47298f..1c02bb3 100755 --- a/examples/dataset-metadata.scm +++ b/examples/dataset-metadata.scm @@ -100,7 +100,10 @@ (left-join AvgMethod "USING (AvgMethodId)") (left-join Organizations "USING (OrganizationId)") (left-join GeneChip "USING (GeneChipId)")) - "WHERE GN_AccesionId IS NOT NULL") + ;; XXXX: There are datasets that don't have the InbredSetId + ;; in the Infofiles table. This clause allows us to check + ;; if they exist in the (Publish/Geno)Freeze tables. + "LEFT JOIN InbredSet PublishInbredSet ON PublishFreeze.InbredSetId = PublishInbredSet.InbredSetId LEFT JOIN InbredSet GenoInbredSet ON GenoFreeze.InbredSetId = GenoInbredSet.InbredSetId WHERE GN_AccesionId IS NOT NULL") (schema-triples (gnt:hasTissue rdfs:domain dcat:Dataset) (gnt:hasTissue a owl:ObjectProperty) @@ -186,7 +189,9 @@ (field DatasetStatus DatasetStatusName))) (set xkos:classifiedUnder (string->identifier - "set" (field InbredSet Name InbredSetName))) + "set" + (field ("IFNULL(InbredSet.Name, IFNULL(PublishInbredSet.Name, GenoInbredSet.Name))" + InbredSetName)))) (set gnt:hasTissue (string->identifier "tissue" (field Tissue Short_Name))) (set gnt:usesNormalization |