Example usage for org.apache.solr.client.solrj SolrQuery setFacet

Introduction

In this page you can find the example usage for org.apache.solr.client.solrj SolrQuery setFacet.

Prototype

public SolrQuery setFacet(boolean b) 

Source Link

Document

enable/disable faceting.

Usage

From source file:uk.ac.ebi.phenotype.service.ObservationService.java

License:Apache License

public Set<String> getAllColonyIdsByResource(List<String> resourceName, boolean experimentalOnly) {

    SolrQuery q = new SolrQuery();
    q.setFacet(true);
    q.setFacetMinCount(1);// www . j  a va  2s.c  om
    q.setFacetLimit(-1);
    q.setRows(0);
    q.addFacetField(ObservationDTO.COLONY_ID);

    if (resourceName != null) {
        q.setQuery(ObservationDTO.DATASOURCE_NAME + ":"
                + StringUtils.join(resourceName, " OR " + ObservationDTO.DATASOURCE_NAME + ":"));
    } else {
        q.setQuery("*:*");
    }

    if (experimentalOnly) {
        q.addFilterQuery(ObservationDTO.BIOLOGICAL_SAMPLE_GROUP + ":experimental");
    }

    LOG.info("Solr URL getAllColonyIdsByResource " + solr.getBaseURL() + "/select?" + q);
    try {
        return getFacets(solr.query(q)).get(ObservationDTO.COLONY_ID).keySet();
    } catch (SolrServerException e) {
        e.printStackTrace();
    }

    return null;
}

---

From source file:uk.ac.ebi.phenotype.service.StatisticalResultService.java

License:Apache License

public Map<String, Long> getColoniesNoMPHit(ArrayList<String> resourceName, ZygosityType zygosity)
        throws SolrServerException {
    Map<String, Long> res = new HashMap<>();
    Long time = System.currentTimeMillis();
    SolrQuery q = new SolrQuery();

    if (resourceName != null) {
        q.setQuery(GenotypePhenotypeDTO.RESOURCE_NAME + ":"
                + StringUtils.join(resourceName, " OR " + GenotypePhenotypeDTO.RESOURCE_NAME + ":"));
    } else {//from   w  w w. j a  v a 2  s.c  o m
        q.setQuery("*:*");
    }

    if (zygosity != null) {
        q.addFilterQuery(GenotypePhenotypeDTO.ZYGOSITY + ":" + zygosity.name());
    }

    q.addFilterQuery(GenotypePhenotypeDTO.P_VALUE + ":[" + this.P_VALUE_THRESHOLD + " TO 1]");

    q.addFacetField(StatisticalResultDTO.COLONY_ID);
    q.setFacetMinCount(1);
    q.setFacet(true);
    q.setRows(1);
    q.set("facet.limit", -1);

    System.out.println("Solr url for getColoniesNoMPHit " + solr.getBaseURL() + "/select?" + q);
    QueryResponse response = solr.query(q);

    for (Count facet : response.getFacetField(StatisticalResultDTO.COLONY_ID).getValues()) {
        String value = facet.getName();
        long count = facet.getCount();
        res.put(value, count);
    }

    System.out.println("Done in " + (System.currentTimeMillis() - time));
    return res;

}

---

From source file:uk.ac.ebi.phenotype.service.StatisticalResultService.java

License:Apache License

public Map<String, ArrayList<String>> getDistributionOfLinesByMPTopLevel(ArrayList<String> resourceName,
        Float pValueThreshold) throws SolrServerException, InterruptedException, ExecutionException {

    Map<String, ArrayList<String>> res = new ConcurrentHashMap<>(); //<parameter, <genes>>
    Long time = System.currentTimeMillis();
    String pivotFacet = StatisticalResultDTO.TOP_LEVEL_MP_TERM_NAME + "," + StatisticalResultDTO.COLONY_ID;
    SolrQuery q = new SolrQuery();

    if (resourceName != null) {
        q.setQuery(StatisticalResultDTO.RESOURCE_NAME + ":"
                + StringUtils.join(resourceName, " OR " + StatisticalResultDTO.RESOURCE_NAME + ":"));
    } else {//from  w  w  w. j a va2s  . c  o m
        q.setQuery("*:*");
    }

    if (pValueThreshold != null) {
        q.setFilterQueries(StatisticalResultDTO.P_VALUE + ":[0 TO " + pValueThreshold + "]");
    }

    q.set("facet.pivot", pivotFacet);
    q.setFacet(true);
    q.setFacetMinCount(1);
    q.setRows(1);
    q.set("facet.limit", -1);

    System.out.println("Solr url for getDistributionOfLinesByMPTopLevel " + solr.getBaseURL() + "/select?" + q);
    QueryResponse response = solr.query(q);

    for (PivotField pivot : response.getFacetPivot().get(pivotFacet)) {
        ArrayList<String> colonies = new ArrayList<>();
        for (PivotField colony : pivot.getPivot()) {
            colonies.add(colony.getValue().toString());
        }
        res.put(pivot.getValue().toString(), new ArrayList<String>(colonies));
    }

    System.out.println("Done in " + (System.currentTimeMillis() - time));
    return res;
}

---

From source file:uk.ac.ebi.phenotype.service.StatisticalResultService.java

License:Apache License

public Map<String, ArrayList<String>> getDistributionOfGenesByMPTopLevel(ArrayList<String> resourceName,
        Float pValueThreshold) throws SolrServerException, InterruptedException, ExecutionException {

    Map<String, ArrayList<String>> res = new ConcurrentHashMap<>(); //<parameter, <genes>>
    Long time = System.currentTimeMillis();
    String pivotFacet = StatisticalResultDTO.TOP_LEVEL_MP_TERM_NAME + ","
            + StatisticalResultDTO.MARKER_ACCESSION_ID;
    SolrQuery q = new SolrQuery();

    if (resourceName != null) {
        q.setQuery(StatisticalResultDTO.RESOURCE_NAME + ":"
                + StringUtils.join(resourceName, " OR " + StatisticalResultDTO.RESOURCE_NAME + ":"));
    } else {/* ww  w  . j  a  v a  2 s. com*/
        q.setQuery("*:*");
    }

    if (pValueThreshold != null) {
        q.setFilterQueries(StatisticalResultDTO.P_VALUE + ":[0 TO " + pValueThreshold + "]");
    }

    q.set("facet.pivot", pivotFacet);
    q.setFacet(true);
    q.setRows(1);
    q.set("facet.limit", -1);

    System.out.println("Solr url for getDistributionOfGenesByMPTopLevel " + solr.getBaseURL() + "/select?" + q);
    QueryResponse response = solr.query(q);

    for (PivotField pivot : response.getFacetPivot().get(pivotFacet)) {
        ArrayList<String> genes = new ArrayList<>();
        for (PivotField gene : pivot.getPivot()) {
            genes.add(gene.getValue().toString());
        }
        res.put(pivot.getValue().toString(), new ArrayList<String>(genes));
    }

    System.out.println("Done in " + (System.currentTimeMillis() - time));
    return res;
}

---

From source file:uk.ac.ebi.phenotype.service.StatisticalResultService.java

License:Apache License

/**
 * @return Map <String, Long> : <top_level_mp_name, number_of_annotations>
 * @author tudose/*from  w w w  .  j  a va2  s. c  o  m*/
 */
public TreeMap<String, Long> getDistributionOfAnnotationsByMPTopLevel(ArrayList<String> resourceName,
        Float pValueThreshold) {

    SolrQuery query = new SolrQuery();

    if (resourceName != null) {
        query.setQuery(StatisticalResultDTO.RESOURCE_NAME + ":"
                + StringUtils.join(resourceName, " OR " + StatisticalResultDTO.RESOURCE_NAME + ":"));
    } else {
        query.setQuery("*:*");
    }

    if (pValueThreshold != null) {
        query.setFilterQueries(StatisticalResultDTO.P_VALUE + ":[0 TO " + pValueThreshold + "]");
    }

    query.setFacet(true);
    query.setFacetLimit(-1);
    query.setFacetMinCount(1);
    query.setRows(0);
    query.addFacetField(StatisticalResultDTO.TOP_LEVEL_MP_TERM_NAME);

    try {
        QueryResponse response = solr.query(query);
        TreeMap<String, Long> res = new TreeMap<>();
        res.putAll(getFacets(response).get(StatisticalResultDTO.TOP_LEVEL_MP_TERM_NAME));
        return res;
    } catch (SolrServerException e) {
        e.printStackTrace();
    }
    return null;
}

---

From source file:uk.ac.ebi.phenotype.service.StatisticalResultService.java

License:Apache License

public Map<String, Set<String>> getAccessionProceduresMap(String resourceName) {

    SolrQuery query = new SolrQuery();
    Map<String, Set<String>> res = new HashMap<>();
    NamedList<List<PivotField>> response;

    if (resourceName == null) {
        query.setQuery("*:*");
    } else {//w w  w.j av  a  2s.c om
        query.setQuery(StatisticalResultDTO.RESOURCE_NAME + ":" + resourceName);
    }
    query.setFacet(true);
    query.addFacetPivotField(
            StatisticalResultDTO.MARKER_ACCESSION_ID + "," + StatisticalResultDTO.PROCEDURE_STABLE_ID);
    query.setFacetLimit(-1);
    query.setFacetMinCount(1);
    query.setRows(0);

    try {
        response = solr.query(query).getFacetPivot();
        for (PivotField genePivot : response.get(
                StatisticalResultDTO.MARKER_ACCESSION_ID + "," + StatisticalResultDTO.PROCEDURE_STABLE_ID)) {
            String geneName = genePivot.getValue().toString();
            Set<String> procedures = new HashSet<>();
            for (PivotField f : genePivot.getPivot()) {
                procedures.add(f.getValue().toString());
            }
            res.put(geneName, procedures);
        }
    } catch (SolrServerException e) {
        e.printStackTrace();
    }
    return res;
}

---

From source file:uk.ac.ebi.phenotype.service.StatisticalResultService.java

License:Apache License

public PhenotypeFacetResult getPhenotypeFacetResultByPhenotypingCenterAndPipeline(String phenotypingCenter,
        String pipelineStableId) throws IOException, URISyntaxException {

    System.out.println("DOING PHEN CALL SUMMARY RESULTS FROM SRS");
    SolrQuery query = new SolrQuery();
    query.setQuery(StatisticalResultDTO.PHENOTYPING_CENTER + ":\"" + phenotypingCenter);
    query.addFilterQuery(StatisticalResultDTO.PIPELINE_STABLE_ID + ":" + pipelineStableId);
    query.setFacet(true);
    query.addFacetField(StatisticalResultDTO.RESOURCE_FULLNAME);
    query.addFacetField(StatisticalResultDTO.PROCEDURE_NAME);
    query.addFacetField(StatisticalResultDTO.MARKER_SYMBOL);
    query.addFacetField(StatisticalResultDTO.MP_TERM_NAME);
    query.set("sort", "p_value asc");
    query.setRows(10000000);//from  www .  j  a va2s.c om
    query.set("wt", "json");
    query.set("version", "2.2");

    String solrUrl = solr.getBaseURL() + "/select?" + query;
    return gpService.createPhenotypeResultFromSolrResponse(solrUrl, false);
}

---

From source file:uk.ac.ebi.phenotype.service.StatisticalResultService.java

License:Apache License

public Set<String> getAccessionsByResourceName(String resourceName) {

    Set<String> res = new HashSet<>();
    SolrQuery query = new SolrQuery().setQuery(StatisticalResultDTO.RESOURCE_NAME + ":" + resourceName);
    query.setFacet(true);
    query.addFacetField(StatisticalResultDTO.MARKER_ACCESSION_ID);
    query.setFacetLimit(10000000);// ww w . j  ava  2  s .  com
    query.setFacetMinCount(1);
    query.setRows(0);

    QueryResponse response;
    try {
        response = solr.query(query);
        for (Count id : response.getFacetField(StatisticalResultDTO.MARKER_ACCESSION_ID).getValues()) {
            res.add(id.getName());
        }
    } catch (SolrServerException e) {
        e.printStackTrace();
    }
    return res;
}

---

From source file:uk.ac.ebi.phenotype.service.StatisticalResultService.java

License:Apache License

/**
 * This map is needed for the summary on phenotype pages (the percentages &
 * pie chart). It takes a long time to load so it does it asynchronously.
 * /*w w w.  j  a  v a  2 s .  c o  m*/
 * @param sex
 * @return Map < String parameterStableId , ArrayList<String
 *         geneMgiIdWithParameterXMeasured>>
 * @throws SolrServerException
 * @throws InterruptedException
 * @throws ExecutionException
 * @author tudose
 */
public Map<String, ArrayList<String>> getParameterToGeneMap(SexType sex)
        throws SolrServerException, InterruptedException, ExecutionException {

    Map<String, ArrayList<String>> res = new ConcurrentHashMap<>(); //<parameter, <genes>>
    Long time = System.currentTimeMillis();
    String pivotFacet = StatisticalResultDTO.PARAMETER_STABLE_ID + ","
            + StatisticalResultDTO.MARKER_ACCESSION_ID;
    SolrQuery q = new SolrQuery().setQuery(ObservationDTO.SEX + ":" + sex.name());
    q.setFilterQueries(StatisticalResultDTO.STRAIN_ACCESSION_ID + ":\""
            + StringUtils.join(OverviewChartsController.OVERVIEW_STRAINS,
                    "\" OR " + ObservationDTO.STRAIN_ACCESSION_ID + ":\"")
            + "\"");
    q.set("facet.pivot", pivotFacet);
    q.setFacet(true);
    q.setRows(1);
    q.set("facet.limit", -1);

    System.out.println("Solr url for getParameterToGeneMap " + solr.getBaseURL() + "/select?" + q);
    QueryResponse response = solr.query(q);

    for (PivotField pivot : response.getFacetPivot().get(pivotFacet)) {
        ArrayList<String> genes = new ArrayList<>();
        for (PivotField gene : pivot.getPivot()) {
            genes.add(gene.getValue().toString());
        }
        res.put(pivot.getValue().toString(), new ArrayList<String>(genes));
    }

    System.out.println("Done in " + (System.currentTimeMillis() - time));
    return res;
}

---

From source file:uk.ac.ebi.phenotype.service.StatisticalResultService.java

License:Apache License

public void addGenesForBothSexes() throws SolrServerException, InterruptedException, ExecutionException {

    Long time = System.currentTimeMillis();
    String pivotFacet = StatisticalResultDTO.PARAMETER_STABLE_ID + ","
            + StatisticalResultDTO.MARKER_ACCESSION_ID;
    SolrQuery q = new SolrQuery().setQuery("-" + ObservationDTO.SEX + ":*");
    q.setFilterQueries(StatisticalResultDTO.STRAIN_ACCESSION_ID + ":\""
            + StringUtils.join(OverviewChartsController.OVERVIEW_STRAINS,
                    "\" OR " + ObservationDTO.STRAIN_ACCESSION_ID + ":\"")
            + "\"");
    q.set("facet.pivot", pivotFacet);
    q.setFacet(true);
    q.setRows(1);//  w  w  w.  j a  va2 s  .  c o m
    q.set("facet.limit", -1);

    QueryResponse response = solr.query(q);
    System.out.println("Solr url for getParameterToGeneMap " + solr.getBaseURL() + "/select?" + q);

    for (PivotField pivot : response.getFacetPivot().get(pivotFacet)) {
        ArrayList<String> genes = new ArrayList<>();
        for (PivotField gene : pivot.getPivot()) {
            genes.add(gene.getValue().toString());
        }
        maleParamToGene.put(pivot.getValue().toString(), new ArrayList<String>(genes));
        femaleParamToGene.put(pivot.getValue().toString(), new ArrayList<String>(genes));
    }

    System.out.println("Done in " + (System.currentTimeMillis() - time));
}

---

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