diff options
Diffstat (limited to 'examples/dump-dataset-metadata.scm')
| -rwxr-xr-x | examples/dump-dataset-metadata.scm | 12 |
1 files changed, 6 insertions, 6 deletions
diff --git a/examples/dump-dataset-metadata.scm b/examples/dump-dataset-metadata.scm index a127e57..6173201 100755 --- a/examples/dump-dataset-metadata.scm +++ b/examples/dump-dataset-metadata.scm @@ -34,7 +34,7 @@ (list first-name last-name (fix-email-id email)) "_"))) -(define-dump dump-investigators +(define-transformer dump-investigators ;; There are a few duplicate entries. We group by email to ;; deduplicate. (tables (Investigators) @@ -56,7 +56,7 @@ (set v:postal-code (field Investigators ZipCode)) (set v:country-name (field Investigators Country)))) -(define-dump dump-gene-chip +(define-transformer dump-gene-chip (tables (GeneChip (left-join Species "USING (SpeciesId)"))) (schema-triples @@ -87,7 +87,7 @@ (ontology 'geoSeries: (string-trim-both (field GeneChip GeoPlatform)))))) -(define-dump dump-info-files +(define-transformer dump-info-files (tables (InfoFiles (left-join PublishFreeze "ON InfoFiles.InfoPageName = PublishFreeze.Name") (left-join GenoFreeze "ON InfoFiles.InfoPageName = GenoFreeze.Name") @@ -251,7 +251,7 @@ (field Datasets Acknowledgment))))) ;; These are phenotype datasets that don't have Infofile metadata -(define-dump dump-publishfreeze +(define-transformer dump-publishfreeze (tables (PublishFreeze (left-join InfoFiles "ON InfoFiles.InfoPageName = PublishFreeze.Name") (left-join InbredSet "ON PublishFreeze.InbredSetId = InbredSet.InbredSetId")) @@ -277,7 +277,7 @@ #:separator "" #:proc string-capitalize-first)))) -(define-dump dump-genofreeze +(define-transformer dump-genofreeze (tables (GenoFreeze (left-join InfoFiles "ON InfoFiles.InfoPageName = GenoFreeze.Name") (left-join InbredSet "ON GenoFreeze.InbredSetId = InbredSet.InbredSetId")) @@ -308,7 +308,7 @@ #:proc string-capitalize-first)))) ;; Molecular Traits are also referred to as ProbeSets -(define-dump dump-probesetfreeze +(define-transformer dump-probesetfreeze (tables (ProbeSetFreeze (left-join InfoFiles "ON InfoFiles.InfoPageName = ProbeSetFreeze.Name") (left-join ProbeFreeze "USING (ProbeFreezeId)") |