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| author | Munyoki Kilyungi | 2022-08-19 00:10:30 +0300 |
|---|---|---|
| committer | Arun Isaac | 2022-08-20 15:31:21 +0530 |
| commit | 8ff50fe6b48d9855c887b718547a8d4802e6ccba (patch) | |
| tree | 6ef4adcf1d3237bc4c565f321d48c21372bd0f27 | |
| parent | 3b19dc04b14e27a12a3152d0cc3a52d1048854a8 (diff) | |
| download | gn-transform-databases-8ff50fe6b48d9855c887b718547a8d4802e6ccba.tar.gz | |
Add gn:traitId and gn:publicationId.
In GeneNetwork, a phenonytpe is currently identified by it's ID (primary key of the table from MariaDB). The only way to relate it to a publication is through a publication ID. This is important because there are some publications with a NULL value for "pubmed ID" and as such without the publication ID, some data is lost as there's no way to point to publication with a NULL "pubmed ID." * dump.scm (dump-publish-xref): Define gn:traitId and gn:publicationId. Signed-off-by: Arun Isaac <arunisaac@systemreboot.net>
| -rwxr-xr-x | dump.scm | 6 |
1 files changed, 5 insertions, 1 deletions
diff --git a/dump.scm b/dump.scm index 2a893ae..439f9e2 100755 --- a/dump.scm +++ b/dump.scm @@ -489,7 +489,11 @@ must be remedied." (gn:phenotypeOfSpecies rdfs:domain gn:phenotype) (gn:phenotypeOfSpecies rdfs:range gn:species)) (triples (phenotype-id->id (field PublishXRef PhenotypeId)) - (set gn:phenotypeOfSpecies (inbred-set-name->id (field InbredSet Name))))) + (set gn:phenotypeOfSpecies (inbred-set-name->id (field InbredSet Name))) + (set gn:traitId (field PublishXRef id)) + (set gn:publicationId + (string->identifier "publication" + (number->string (field PublishXRef PublicationId)))))) (define tissue-short-name->id (cut string->identifier "tissue" <>)) |