diff options
Diffstat (limited to 'topics/systems')
| -rw-r--r-- | topics/systems/virtuoso.gmi | 33 |
1 files changed, 26 insertions, 7 deletions
diff --git a/topics/systems/virtuoso.gmi b/topics/systems/virtuoso.gmi index 1368f39..d74f58a 100644 --- a/topics/systems/virtuoso.gmi +++ b/topics/systems/virtuoso.gmi @@ -93,25 +93,44 @@ ssh -L 28890:127.0.0.1:28890 -f -N myname@penguin2.genenetwork.org ``` and surf to http://localhost:28890/conductor. A good time to change the default password (dba:dba)! -### Uploading data with CURL +## Loading data into virtuoso -To upload RDF I use rapper to validate the data. First delete the existing graph with something like +Virtuoso supports at least three different ways to load RDF. +### Bulk loading using the isql command-line client + +=> http://vos.openlinksw.com/owiki/wiki/VOS/VirtBulkRDFLoader Bulk loading using the isql command-line client +Bulk loading using the isql command-line client is usually the fastest. But, it requires correct handling of file system permissions, and cannot work on remote servers. + +### SPARQL 1.1 Update + +The standard SPARQL protocol allows update of RDF too. +=> https://www.w3.org/TR/sparql11-update/ SPARQL 1.1 Update + +### SPARQL 1.1 Graph Store HTTP Protocal + +For ease of implementation, SPARQL 1.1 also specifies an additional REST-like API to update data. +=> https://www.w3.org/TR/sparql11-http-rdf-update/ SPARQL 1.1 Graph Store HTTP Protocol +The virtuoso documentation shows examples of using this protocol with cURL. +=> http://vos.openlinksw.com/owiki/wiki/VOS/VirtGraphProtocolCURLExamples Virtuoso SPARQL 1.1 Graph Store HTTP Protocol examples using cURL +We recap the same here. First delete the existing graph with something like ``` curl -v --digest --user dba:password --verbose --url -G http://localhost:28890/sparql-graph-crud-auth --data-urlencode graph=https://BioHackrXiv.org/graph -X DELETE ``` - Next update the graph with - ``` curl -v -X PUT --digest -u dba:password -H Content-Type:text/turtle -T test/data/biohackrxiv.ttl -G http://localhost:28890/sparql-graph-crud-auth --data-urlencode graph=https://BioHackrXiv.org/graph ``` +where BioHackrXiv is the name of the graph (in this example). A python version can be found in +=> https://github.com/pubseq/bh20-seq-resource/blob/master/scripts/update_virtuoso/check_for_updates.py -Where BioHackrXiv is the name of the graph (in this example). A python version can be found in +## Validate data using rapper -=> https://github.com/pubseq/bh20-seq-resource/blob/master/scripts/update_virtuoso/check_for_updates.py +TODO + +## Virtuoso.ini -### Virtuoso.ini +TODO: Elaborate. What changed in $HOME/services/virtuoso/virtuoso.ini |