diff options
| -rwxr-xr-x | load-rdf.scm | 41 |
1 files changed, 41 insertions, 0 deletions
diff --git a/load-rdf.scm b/load-rdf.scm index db1e1a0..a8d6730 100755 --- a/load-rdf.scm +++ b/load-rdf.scm @@ -82,6 +82,40 @@ CHECKPOINT; OPEN_WRITE "isql")) +(define (set-global-namespaces port password) + "Set the global namespaces" + (call-with-pipe + (lambda (out) + (format out + "SET DSN=localhost:~a; +SET PWD=~s; +DB.DBA.XML_SET_NS_DECL ('dcat', 'http://www.w3.org/ns/dcat#', 2); +DB.DBA.XML_SET_NS_DECL ('dct', 'http://purl.org/dc/terms/', 2); +DB.DBA.XML_SET_NS_DECL ('fabio', 'http://purl.org/spar/fabio/', 2); +DB.DBA.XML_SET_NS_DECL ('genbank', 'https://bioregistry.io/reference/genbank:', 2); +DB.DBA.XML_SET_NS_DECL ('gene', 'http://www.ncbi.nlm.nih.gov/gene?cmd=Retrieve&dopt=Graphics&list_uids=', 2); +DB.DBA.XML_SET_NS_DECL ('generif', 'http://www.ncbi.nlm.nih.gov/gene?cmd=Retrieve&dopt=Graphics&list_uids=', 2); +DB.DBA.XML_SET_NS_DECL ('geoSeries', 'http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=', 2); +DB.DBA.XML_SET_NS_DECL ('gn', 'http://rdf.genenetwork.org/v1/id/', 2); +DB.DBA.XML_SET_NS_DECL ('gnc', 'http://rdf.genenetwork.org/v1/category/', 2); +DB.DBA.XML_SET_NS_DECL ('gnt', 'http://rdf.genenetwork.org/v1/term/', 2); +DB.DBA.XML_SET_NS_DECL ('ncbiTaxon', 'https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=', 2); +DB.DBA.XML_SET_NS_DECL ('prism', 'http://prismstandard.org/namespaces/basic/2.0/', 2); +DB.DBA.XML_SET_NS_DECL ('probeset', 'http://rdf.genenetwork.org/v1/probeset/', 2); +DB.DBA.XML_SET_NS_DECL ('pubmed', 'http://rdf.ncbi.nlm.nih.gov/pubmed/', 2); +DB.DBA.XML_SET_NS_DECL ('qb', 'http://purl.org/linked-data/cube#', 2); +DB.DBA.XML_SET_NS_DECL ('sdmx-measure', 'http://purl.org/linked-data/sdmx/2009/measure#', 2); +DB.DBA.XML_SET_NS_DECL ('taxon', 'http://purl.uniprot.org/taxonomy/', 2); +DB.DBA.XML_SET_NS_DECL ('transcript', 'https://portals.broadinstitute.org/gpp/public/trans/details?transName=', 2); +DB.DBA.XML_SET_NS_DECL ('v', 'http://www.w3.org/2006/vcard/ns#', 2); +DB.DBA.XML_SET_NS_DECL ('xkos', 'http://rdf-vocabulary.ddialliance.org/xkos#', 2); +DB.DBA.XML_SET_NS_DECL ('schema', 'https://schema.org/', 2); +" + port + password)) + OPEN_WRITE + "isql")) + (define (index-data port password) "Index all text data for quicker search" (call-with-pipe @@ -120,6 +154,13 @@ quit; (assq-ref connection-settings 'virtuoso-port) (assq-ref connection-settings 'virtuoso-password) %graph-uri))) + ;; Update global namespaces + (format (current-output-port) + "Global namespaces set in ~a seconds~%" + (time-thunk + (cut set-global-namespaces + (assq-ref connection-settings 'virtuoso-port) + (assq-ref connection-settings 'virtuoso-password)))) ;; Delete the load queue (format (current-output-port) "Existing DB.LOAD queue deleted in ~a seconds~%" |