Changes between Version 26 and Version 27 of DDBJ-KEGG-PDBj

Timestamp:

2010/02/12 14:07:16 (14 years ago)

Author:

akinjo

Comment:

--

DDBJ-KEGG-PDBj

@@ -7 +7 @@
  * Taxonomy http://www.ncbi.nlm.nih.gov/Taxonomy/TAXID (this is invalid URL)
  * HapMap http://www.khapmap.org/ENTRYID (this is invalid URL)
+ * gene_id http://www.ncbi.nlm.nih.gov/gene/ENTRYID (NCBI gene ID)
 
 = PDB things =
@@ -47 +48 @@
  * Bio2RDF KEGG - http://192.168.11.61:8890/sparql/
  * Bio2RDF PDB - http://192.168.11.61:8891/sparql/
- * PDBj - http://192.168.11.61:8892/sparql/
+ * PDBj - 
  * KEGG - 
  * DDBJ - 
@@ -54 +55 @@
  * Bio2RDF KEGG - http://192.168.11.61:8890/fct/
  * Bio2RDF PDB - http://192.168.11.61:8891/fct/
- * PDBj - http://192.168.11.61:8892/fctl/
+ * PDBj - 
  * KEGG - 
  * DDBJ - 
@@ -60 +61 @@
 = Validating RDF/XML format =
  * http://librdf.org/parse
+
+= How to load data to virtuoso =
+First, in the '''virtuoso.ini''' file, set the following parameter 
+{{{
+DirsAllowed                     = ., /usr/local/virtuoso-opensource/share/virtuoso/vad, /tmp
+}}}
+So the directory /tmp is allowed to have data to be loaded.
+
+Then put the data file in /tmp (e.g., all.ttl, ddbj.rdf).
+
+{{{
+% cat load.isql
+DB.DBA.TTLP_MT(file_to_string_output('/tmp/all.ttl'), '' ,'http://www.pdbj.org');
+checkpoint;
+
+DB.DBA.RDF_LOAD_RDFXML(file_to_string_output('/tmp/lala.rdf'), '' ,'http://www.pdbj.org');
+checkpoint;
+
+% isql 1111 dba dba < load.isql
+}}}
+