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

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Timestamp:
2010/02/12 14:07:16 (9 years ago)
Author:
akinjo
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  • DDBJ-KEGG-PDBj

    v26 v27  
    77 * Taxonomy http://www.ncbi.nlm.nih.gov/Taxonomy/TAXID (this is invalid URL) 
    88 * HapMap http://www.khapmap.org/ENTRYID (this is invalid URL) 
     9 * gene_id http://www.ncbi.nlm.nih.gov/gene/ENTRYID (NCBI gene ID) 
    910 
    1011= PDB things = 
     
    4748 * Bio2RDF KEGG - http://192.168.11.61:8890/sparql/ 
    4849 * Bio2RDF PDB - http://192.168.11.61:8891/sparql/ 
    49  * PDBj - http://192.168.11.61:8892/sparql/ 
     50 * PDBj -  
    5051 * KEGG -  
    5152 * DDBJ -  
     
    5455 * Bio2RDF KEGG - http://192.168.11.61:8890/fct/ 
    5556 * Bio2RDF PDB - http://192.168.11.61:8891/fct/ 
    56  * PDBj - http://192.168.11.61:8892/fctl/ 
     57 * PDBj -  
    5758 * KEGG -  
    5859 * DDBJ -  
     
    6061= Validating RDF/XML format = 
    6162 * http://librdf.org/parse 
     63 
     64= How to load data to virtuoso = 
     65First, in the '''virtuoso.ini''' file, set the following parameter  
     66{{{ 
     67DirsAllowed                     = ., /usr/local/virtuoso-opensource/share/virtuoso/vad, /tmp 
     68}}} 
     69So the directory /tmp is allowed to have data to be loaded. 
     70 
     71Then put the data file in /tmp (e.g., all.ttl, ddbj.rdf). 
     72 
     73{{{ 
     74% cat load.isql 
     75DB.DBA.TTLP_MT(file_to_string_output('/tmp/all.ttl'), '' ,'http://www.pdbj.org'); 
     76checkpoint; 
     77 
     78DB.DBA.RDF_LOAD_RDFXML(file_to_string_output('/tmp/lala.rdf'), '' ,'http://www.pdbj.org'); 
     79checkpoint; 
     80 
     81% isql 1111 dba dba < load.isql 
     82}}} 
     83