How can i print a rdfs label with Jena - jena

Hi i have create a new ontology for relate Drugs and diseases; now i query its for recovering the name of Drug related a particular disease.
My code is:
public class Main {
public static void main(String[] args) {
org.apache.log4j.Logger.getRootLogger().setLevel(org.apache.log4j.Level.OFF);
FileManager.get().addLocatorClassLoader(Main.class.getClassLoader());
Model model = FileManager.get().loadModel("Drugs_Diseases.owl");
String strQuery = "PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> "+
"PREFIX des: <http://www.entrez.com/> "+
"SELECT DISTINCT ?subject ?object "
+ "WHERE { "
+ "?subject des:isDrugOfDisease ?object . "
+ "?object rdfs:label ?label . "
+ "FILTER regex(str(?label), \"pain\") }";
Query query = QueryFactory.create(strQuery);
QueryExecution execQuery = QueryExecutionFactory.create(query, model);
try{
ResultSet results = execQuery.execSelect();
while(results.hasNext()){
QuerySolution sol = results.nextSolution();
RDFNode node = sol.get("subject");
String stringPrint = node.asNode().toString();
System.out.println(stringPrint);
}
} finally {
execQuery.close();
}}
}
The results of this query is:
http://www.entrez.com/DAP000017
http://www.entrez.com/DAP000021
but my intent is to have:
Diazepam
Dextropropoxyphene
in OWL i have:
<owl:Class rdf:about="http://www.entrez.com/DAP000021">
<entrez:isDrugOfDisease>
<owl:Class rdf:about="http://orpha.net/ORDO/Orphanet_#DIS_ID_75"/>
</entrez:isDrugOfDisease>
<entrez:id>DAP000021</entrez:id>
<rdfs:label>Diazepam</rdfs:label>
</owl:Class>

SPARQL only returns what you select, thus, you have to select the label in the SPARQL query of course:
SELECT DISTINCT ?drug ?disease ?drugLabel WHERE
?drug des:isDrugOfDisease ?disease .
?drug rdfs:label ?drugLabel .
?disease rdfs:label ?label .
FILTER regex(str(?label), \"pain\")
}
In the code, get the label from the solution object:
while(results.hasNext()){
QuerySolution sol = results.nextSolution();
RDFNode node = sol.get("drug");
String stringPrint = node.asNode().toString();
System.out.println(stringPrint);
// label
String label = sol.getLiteral("drugLabel").getLexicalForm();
System.out.println(label);
}
Note, I changed the variable names. In general, it's easier to read and understand a query if you use meaningful names for the variables.

Related

WIQL query to get all item under a workitem

I am looking for a query where i can return all work items and their relation from a area path.
for example : project 1
i need all Featured all Userstories mapped to it all workitem and Bug mapped to userstories,
in short if i took a bug from the object i need somthing like parent id where i can match with the userstory.
string query1 = " SELECT * FROM WorkItemLinks " +
" WHERE ( [System.IterationPath] Under 'iteration1' )" +
" AND ([System.Links.LinkType] = 'System.LinkTypes.Hierarchy-Forward' )" +
" ORDER BY [Microsoft.VSTS.Scheduling.StartDate]";
which throwing an error like below
An exception of type 'Microsoft.TeamFoundation.WorkItemTracking.Client.ValidationException' occurred in Microsoft.TeamFoundation.WorkItemTracking.Client.dll but was not handled in user code
Additional information: TF51005: The query references a field that does not exist. The error is caused by «[System.IterationPath]».
when i checked the dll's are refereed correctly and when i re wrote the query like this the query is working fine
string query = " SELECT * FROM WorkItems"+
" WHERE ( [System.IterationPath] Under 'iteration1' )" +
//" AND ([System.State] = 'Active' OR [System.State] = 'Assessed' ) "+
//" AND ( [Microsoft.VSTS.Scheduling.StartDate] <= '09/13/2017' AND [Microsoft.VSTS.Scheduling.FinishDate] >= '09/13/2017' )"+
" ORDER BY [Microsoft.VSTS.Scheduling.StartDate]";
but this query result does not give the relation ship that if a work item mapped as a child to other i need parent id in the work item object. how to get that. Thanks in advance.
You can try below query:
Install Nuget Package Microsoft.TeamFoundationServer.ExtendedClient for the project.
using Microsoft.TeamFoundation.Client;
using Microsoft.TeamFoundation.WorkItemTracking.Client;
using System;
namespace _0925_WIQL
{
class Program
{
static void Main(string[] args)
{
TfsTeamProjectCollection tpc = new TfsTeamProjectCollection(
new Uri("http://server:8080/tfs/CollectionLC"));
WorkItemStore workItemStore = (WorkItemStore)tpc.GetService(typeof(WorkItemStore));
string query1= " SELECT * FROM WorkItemLinks " +
" WHERE ( Source.[System.IterationPath] Under 'TeamProject\\Iteration 1' )" +
" AND ([System.Links.LinkType] = 'System.LinkTypes.Hierarchy-Forward' )" +
" ORDER BY [Microsoft.VSTS.Scheduling.StartDate]";
Query query = new Query(workItemStore, query1);
WorkItemLinkInfo[] witLinkInfos = query.RunLinkQuery();
foreach (WorkItemLinkInfo witinfo in witLinkInfos)
{
.......
}
Besides, you can also use Wiql Editor. If you want to get all the parent workitems (IDs) from a specific child work item (ID), you can use below WIQL:
SELECT
[System.Id],
[System.WorkItemType],
[System.Title],
[System.AssignedTo],
[System.State]
FROM workitemLinks
WHERE ([System.Links.LinkType] = 'System.LinkTypes.Hierarchy-Forward')
AND ([Target].[System.Id] = 25)
ORDER BY [System.Id]
MODE (Recursive, ReturnMatchingChildren)

Save just the relationship in neo4j

I am trying to persist just a relationship in Neo4j but doesn't work. See my query. My domain object has this relationship to itself.
#RelatedTo (type="PLUS_ME", direction = Direction.BOTH)
private Set<Errand> plusMe;
Then I run this query with a GraphRepository.
Errand e = new Errand ();
Errand e1 = new Errand ();
e = template.save(e);
e1 = template.save(e1);
p (e.getId() + " " + e1.getId ());
String query = "MATCH (one:Errand)" +
"WHERE one.id = " + e.getId() +
"MATCH (two:Errand)" +
"WHERE two.id = " + e1.getId() +
"CREATE (one)-[b:PLUS_ME]->(two)" +
"CREATE (two)-[a:PLUS_ME]->(one)";
eRepo.query(query, null);
But when I run this query with junit I get 0 as the size that is.
eRepo.findByPlusMe(e).size();
use parameters
you don't need the inverse relationship
are you sure your match statements returns the correct errands?
can you show the structure of your Errand class?
is your findByPlusMe repository query a annotated or derived query?

Invalid column name error

I am trying to sort by transient property but fails with SQL Error: Invalid column name error .
Pls find below my code :
In domain class declared :
static transients = ['sortCandidateLastName']
Query which I am trying to execute:
When I am trying to run the below query in Oracle :It runs fine
( select * from ( select row_.* ,rownum rownum_ from ( select * from booking b where b.marked_deleted='N' order by (select c.cand_id from candidate c where b.cand_id = c.cand_id) asc ) row_ where rownum <= 15 ) where rownum > 0)
GSP code:
<g:sortableColumn property="sortCandidateLastName" title="Sort By Candidate Last Name" />
But when Hibernate is trying to read it ,it throws Invalid column name : ResultSet.getInt(clazz_)
Transient properties are not persisted so it's impossible to write a query which sorts by a transient property. If you retrieve a list of objects from a query and want to sort them by a transient property, you'll have to do it in Groovy code, e.g.
// an example domain class with a transient property
class Book {
private static Long SEQUENCE_GENERATOR = 0
String isbn
String title
Long sequence = ++SEQUENCE_GENERATOR
static transients = ['sequence']
}
// get a list of books from the DB and sort by the transient property
def books = Book.list()
books.sort { it.sequence }
You cant sort on transient field. There is no actual database column for a transient field! So your sql would always throw an error!
I tried using jdbcTemplate and gives me the required functionality.
Code snippet:
GSP Layer:
<g:sortable property="sortCandidateLastName">
<g:message code="booking.alphabetical.label" default="Alphabetical(A-Z)" />
</g:sortable>
Domain layer:
just defined a transient property :
static transients = ['sortCandidateLastName']
Reason for adding the transient field : SO that it doesn't throw me any exception like missing property.
Controller layer :
if(params.sort == "sortCandidateLastName" )
{
bookingCandList= bookingService.orderByCandidateLastName(params.max, params.order,params.offset.toInteger())//Booking.getSortCandidateLastName(params.max, params.order,params.offset.toInteger()) //
}
Service layer :
def jdbcTemplate
public List orderByCandidateLastName(Integer max, String sortOrder,Integer offset) {
println "Inside the getcandidateLastName ${max} :: offset ${offset}"
def sortedList
int minRow = offset
int maxRow = offset+max
String queryStr = " select * from " +
" ( "+
" select row_.* " +
" ,rownum rownum_ " +
" from " +
" ( " +
" select * from booking b where b.item_id= 426 and b.marked_deleted='N' order by " +
" (select c.cand_id from candidate c where b.cand_id = c.cand_id) ${sortOrder} "+
" ) row_ "+
"where rownum <= ${maxRow} " +
") " +
"where rownum > ${minRow}"
return jdbcTemplate.queryForList(queryStr)
}
Configuration of JDBC template :
// Place your Spring DSL code here
import org.springframework.jdbc.core.JdbcTemplate
beans = {
..........
jdbcTemplate(JdbcTemplate) {
dataSource = ref('dataSource')
}
}
Hope it helps to ..
Cheers

Using Criteria, how do I get a list of result base on the max(column) in Grails GORM

Let's say I have this GORM objects
Class Person {
String country
int age
String Name
}
I would like to get the oldest person for each country
I can get the projection this way, but I would like to have the list of Person objects.
def results = Person.withCriteria {
projections {
groupProperty("country")
max('age')
}
}
def countries = Person.executeQuery(
"select distinct person.country from Person person")
def persons = countries.collect{ country ->
Person.executeQuery(
"from Person as person1 " +
"where person1.country='${country}' and person1.age=" +
"("+
"select max(age) "+
"from Person as person2 "+
"where person2.country='${country}' "+
"group by person2.country "+
")"
)
}
Hopefully this helps. This will return a list of lists as there is the possibility that for each country there is a list of people that have the maximum age.

Querying values from a Map Property in a Grails Domain Class

I found the solution Burt Beckwith offered in this question: add user define properties to a domain class and think this could be a viable option for us in some situations. In testing this, I have a domain with a Map property as described in the referenced question. Here is a simplified version (I have more non-map properties, but they are not relevant to this question):
class Space {
String spaceDescription
String spaceType
Map dynForm
String toString() {
return (!spaceType)?id:spaceType + " (" + spaceDescription + ")"
}
}
I have some instances of space saved with some arbitrary data in the dynForm Map like 'Test1':'abc' and 'Test2':'xyz'.
I am trying to query this data and have succesfully used HQL to filter doing the following:
String className = "Space"
Class clazz = grailsApplication.domainClasses.find { it.clazz.simpleName == className }.clazz
def res = clazz.executeQuery("select distinct space.id, space.spaceDescription from Space as space where space.dynForm['Test1'] = 'abc' " )
log.debug "" + res
I want to know if there is a way to select an individual item from the Map dynForm in a select statement. Somehting like this:
def res = clazz.executeQuery("select distinct space.id, elements(space.dynForm['Test1']) from Space as space where space.dynForm['Test1'] = 'abc' " )
I can select the entire map like this:
def res = clazz.executeQuery("select distinct elements(space.dynForm) from Space as space where space.dynForm['Test1'] = 'abc' " )
But I just want to get a specific instance based on the string idx.
how about to use Criteria, but i don't have any sql server so i haven't tested yet.
def results = Space.createCriteria().list {
dynForm{
like('Test1', 'abc')
}
}

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