Example usage for org.hibernate ScrollableResults next

Introduction

In this page you can find the example usage for org.hibernate ScrollableResults next.

Prototype

boolean next();

Source Link

Document

Advance to the next result.

Usage

From source file:edu.utah.further.core.data.hibernate.page.ScrollableResultsPager.java

License:Apache License

/**
 * @param iterable//from ww w  .ja  va 2 s  .c om
 * @param pagingStrategy
 */
protected ScrollableResultsPager(final ScrollableResults iterable, final PagingStrategy pagingStrategy) {
    super(pagingStrategy);
    ValidationUtil.validateNotNull("iterable", iterable);
    this.iterable = iterable;
    // Point to the first result set row
    this.hasNext = iterable.next();
}

---

From source file:edu.utah.further.core.data.util.HibernateUtil.java

License:Apache License

/**
 * @param <T>/*from w w w. j a v  a 2s  . com*/
 * @param results
 * @return
 */
public static <T> List<T> asList(final ScrollableResults results) {
    final List<T> resultList = CollectionUtil.newList();
    while (results.next()) {
        resultList.add((T) results.get(0));
    }
    return resultList;
}

---

From source file:edu.utah.further.ds.impl.executor.db.hibernate.criteria.HibernateCriteriaScrollableResultsExecutor.java

License:Apache License

/**
 * @param request//from   w ww .j  ava  2 s.  c o m
 * @return
 * @see edu.utah.further.core.chain.AbstractRequestHandler#process(edu.utah.further.core.api.chain.ChainRequest)
 */
@Override
public boolean process(final ChainRequest request) {
    final QueryExecutionRequest executionRequest = new QueryExecutionRequest(request);
    final GenericCriteria criteria = executionRequest.getResult();
    final ScrollableResults results = getResultListFromHibernate(criteria);
    executionRequest.setResult(results);
    executionRequest.setStatus("Executed query @ " + TimeService.getDate());
    // Hibernate's ScrollableResults interface has no hasNext() or peek(), so go one
    // row forward (if exists) and then back all the way so that we don't miss the
    // first row in subsequent processors
    final boolean hasNext = results.next();
    if (hasNext) {
        results.previous();
    }
    return hasNext;
}

---

From source file:edu.vt.vbi.patric.dao.DBDisease.java

License:Apache License

public List<ResultType> getVFDBList(Map<String, String> key, Map<String, String> sort, int start, int end) {

    String sql = "";

    sql += getVFDBSQL(key, "function");

    sql += " GROUP BY vfg_id, gene_name, gene_product, vf_id, vf_name, vf_fullname, function ";

    if (sort != null && sort.containsKey("field") && sort.get("field") != null && sort.containsKey("direction")
            && sort.get("direction") != null) {

        sql += " ORDER BY " + sort.get("field") + " " + sort.get("direction");

    } else {//  w  w  w  .  j a  va 2 s .  c o m

        sql += " ORDER BY b.vfg_id, b.gene_name";
    }

    Session session = factory.getCurrentSession();
    session.beginTransaction();
    SQLQuery q = session.createSQLQuery(sql);
    q = bindVFDBSQLValues(q, key);

    if (end > 0) {
        q.setMaxResults(end);
    }

    ScrollableResults scr = q.scroll();
    List<ResultType> results = new ArrayList<>();

    if (start > 1) {
        scr.setRowNumber(start - 1);
    } else {
        scr.beforeFirst();
    }

    for (int i = start; (end > 0 && i < end && scr.next()) || (end == -1 && scr.next()); i++) {

        Object[] obj = scr.get();
        ResultType row = new ResultType();
        row.put("vfg_id", obj[0]);
        row.put("gene_name", obj[1]);
        row.put("gene_product", obj[2]);
        row.put("vf_id", obj[3]);
        row.put("vf_name", obj[4]);
        row.put("vf_fullname", obj[5]);
        row.put("function", obj[6]);
        row.put("feature_count", obj[7]);

        results.add(row);
    }

    session.getTransaction().commit();

    return results;

}

---

From source file:edu.vt.vbi.patric.dao.DBDisease.java

License:Apache License

public List<ResultType> getVFDBFeatureList(Map<String, String> key, Map<String, String> sort, int start,
        int end) {

    String sql = "";

    sql += getVFDBFeatureSQL(key, "function");

    if (sort != null && sort.containsKey("field") && sort.get("field") != null && sort.containsKey("direction")
            && sort.get("direction") != null) {

        sql += " ORDER BY " + sort.get("field") + " " + sort.get("direction");

    } else {//w ww  .ja  v  a2 s. c  o m

        sql += " ORDER BY na_feature_id";
    }

    Session session = factory.getCurrentSession();
    session.beginTransaction();
    SQLQuery q = session.createSQLQuery(sql);
    q = bindVFDBFeatureSQLValues(q, key);

    if (end > 0) {
        q.setMaxResults(end);
    }

    ScrollableResults scr = q.scroll();
    List<ResultType> results = new ArrayList<>();

    if (start > 1) {
        scr.setRowNumber(start - 1);
    } else {
        scr.beforeFirst();
    }

    for (int i = start; (end > 0 && i < end && scr.next()) || (end == -1 && scr.next()); i++) {
        Object[] obj = scr.get();
        ResultType row = new ResultType();
        row.put("vf_id", obj[0]);
        row.put("vf_name", obj[1]);
        row.put("vfg_id", obj[2]);
        row.put("gene_name", obj[3]);
        row.put("na_feature_id", obj[4]);
        row.put("genome_info_id", obj[5]);
        row.put("genome_name", obj[6]);
        row.put("accession", obj[7]);
        row.put("locus_tag", obj[8]);
        row.put("product", obj[9]);
        row.put("genome_id", obj[10]);
        row.put("feature_id", obj[11]);
        row.put("patric_id", obj[12]);
        row.put("refseq_locus_tag", obj[13]);
        row.put("alt_locus_tag", obj[14]);

        results.add(row);
    }

    session.getTransaction().commit();

    return results;

}

---

From source file:edu.vt.vbi.patric.dao.DBDisease.java

License:Apache License

public List<ResultType> getCTDList(Map<String, String> key, Map<String, String> sort, int start, int end) {

    String sql = "";

    sql += getCTDSQL(key, "function");

    if (sort != null && sort.containsKey("field") && sort.get("field") != null && sort.containsKey("direction")
            && sort.get("direction") != null) {

        sql += " ORDER BY " + sort.get("field") + " " + sort.get("direction");

    } else {// www . j av  a  2 s.c  o  m

        sql += " ORDER BY cs.gene_sym, cs.disease_name";
    }

    Session session = factory.getCurrentSession();
    session.beginTransaction();
    SQLQuery q = session.createSQLQuery(sql);
    q = bindSQLValues(q, key);

    if (end > 0) {
        q.setMaxResults(end);
    }

    ScrollableResults scr = q.scroll();
    List<ResultType> results = new ArrayList<>();

    if (start > 1) {
        scr.setRowNumber(start - 1);
    } else {
        scr.beforeFirst();
    }

    for (int i = start; (end > 0 && i < end && scr.next()) || (end == -1 && scr.next()); i++) {

        Object[] obj = scr.get();
        ResultType row = new ResultType();
        row.put("gene_sym", obj[0]);
        row.put("gene_id", obj[1]);
        row.put("gene_disease_rel", obj[2]);
        row.put("disease_name", obj[3]);
        row.put("pubmed_id", obj[4]);
        row.put("disease_id", obj[5]);
        row.put("gd_app_name", obj[6]);

        results.add(row);
    }

    session.getTransaction().commit();

    return results;

}

---

From source file:edu.vt.vbi.patric.dao.DBDisease.java

License:Apache License

public List<ResultType> getCTDGraphList(Map<String, String> key, Map<String, String> sort, int start, int end) {

    String sql = "";

    sql += getCTDSQL(key, "graphlist");

    if (sort != null && sort.containsKey("field") && sort.get("field") != null && sort.containsKey("direction")
            && sort.get("direction") != null) {

        sql += " ORDER BY " + sort.get("field") + " " + sort.get("direction");

    } else {/*from   ww  w.  ja va 2s.  c  om*/

        sql += " ORDER BY cs.gene_sym, cs.disease_name";
    }

    Session session = factory.getCurrentSession();
    session.beginTransaction();
    SQLQuery q = session.createSQLQuery(sql);
    q = bindGraphCTDSQLValues(q, key);

    if (end > 0) {
        q.setMaxResults(end);
    }

    ScrollableResults scr = q.scroll();
    List<ResultType> results = new ArrayList<>();

    if (start > 1) {
        scr.setRowNumber(start - 1);
    } else {
        scr.beforeFirst();
    }

    for (int i = start; (end > 0 && i < end && scr.next()) || (end == -1 && scr.next()); i++) {

        Object[] obj = scr.get();
        ResultType row = new ResultType();
        row.put("gene_sym", obj[0]);
        row.put("gene_id", obj[1]);
        row.put("gene_disease_rel", obj[2]);
        row.put("disease_name", obj[3]);
        row.put("pubmed_id", obj[4]);
        row.put("disease_id", obj[5]);
        row.put("gd_app_name", obj[6]);

        results.add(row);
    }

    session.getTransaction().commit();

    return results;

}

---

From source file:edu.vt.vbi.patric.dao.DBDisease.java

License:Apache License

public List<ResultType> getGADGraphList(Map<String, String> key, Map<String, String> sort, int start, int end) {

    String sql = "";

    sql += getGADSQL(key, "graphlist");

    if (sort != null && sort.containsKey("field") && sort.get("field") != null && sort.containsKey("direction")
            && sort.get("direction") != null) {

        sql += " ORDER BY " + sort.get("field") + " " + sort.get("direction");

    } else {//  w w  w .j a v a2s. c o  m

        sql += " ORDER BY gs.gene_sym";
    }

    Session session = factory.getCurrentSession();
    session.beginTransaction();
    SQLQuery q = session.createSQLQuery(sql);
    q = bindGraphGADSQLValues(q, key);

    if (end > 0) {
        q.setMaxResults(end);
    }

    ScrollableResults scr = q.scroll();
    List<ResultType> results = new ArrayList<>();

    if (start > 1) {
        scr.setRowNumber(start - 1);
    } else {
        scr.beforeFirst();
    }

    for (int i = start; (end > 0 && i < end && scr.next()) || (end == -1 && scr.next()); i++) {

        Object[] obj = scr.get();
        ResultType row = new ResultType();
        row.put("gene_sym", obj[0]);
        row.put("gene_id", obj[1]);
        row.put("association", obj[2]);
        row.put("mesh_disease_terms", obj[3]);
        row.put("broad_phenotype", obj[4]);
        row.put("pubmed_id", obj[5]);
        row.put("conclusion", obj[6]);
        row.put("gd_app_name", obj[7]);

        results.add(row);
    }

    session.getTransaction().commit();

    return results;
}

---

From source file:edu.vt.vbi.patric.dao.DBDisease.java

License:Apache License

public List<ResultType> getGADList(Map<String, String> key, Map<String, String> sort, int start, int end) {

    String sql = "";

    sql += getGADSQL(key, "function");

    if (sort != null && sort.containsKey("field") && sort.get("field") != null && sort.containsKey("direction")
            && sort.get("direction") != null) {

        sql += " ORDER BY " + sort.get("field") + " " + sort.get("direction");

    } else {/*from  w ww . j a  v a 2s  .  co m*/

        sql += " ORDER BY gs.gene_sym";
    }

    Session session = factory.getCurrentSession();
    session.beginTransaction();
    SQLQuery q = session.createSQLQuery(sql);
    q = bindSQLValues(q, key);

    if (end > 0) {
        q.setMaxResults(end);
    }

    ScrollableResults scr = q.scroll();
    List<ResultType> results = new ArrayList<>();

    if (start > 1) {
        scr.setRowNumber(start - 1);
    } else {
        scr.beforeFirst();
    }

    for (int i = start; (end > 0 && i < end && scr.next()) || (end == -1 && scr.next()); i++) {

        Object[] obj = scr.get();
        ResultType row = new ResultType();
        row.put("gene_sym", obj[0]);
        row.put("gene_id", obj[1]);
        row.put("association", obj[2]);
        row.put("mesh_disease_terms", obj[3]);
        row.put("broad_phenotype", obj[4]);
        row.put("pubmed_id", obj[5]);
        row.put("conclusion", obj[6]);
        row.put("gd_app_name", obj[7]);

        results.add(row);
    }

    session.getTransaction().commit();

    return results;
}

---

From source file:edu.vt.vbi.patric.dao.DBPRC.java

License:Apache License

public ArrayList<ResultType> getPRCData(String taxonId, String filter, int start, int end, String sort,
        String dir) {//from w ww.  ja  va 2 s.  c  o  m

    String sql = "select distinct experiment_id, description, speciesname, processing_type, summary, pubmed_id, count(distinct sample_id) from app.post_genomic";
    if (filter.equals("MS"))
        sql += " where processing_type = 'Mass spectrometry'";
    else if (filter.equals("MA"))
        sql += " where processing_type = 'Microarray'";
    else
        sql += " where processing_type = 'Protein interaction'";
    sql += " and taxon_id in (" + DBSummary.getTaxonIdsInTaxonSQL(":taxonId") + ")";
    sql += " group by experiment_id, description, speciesname, processing_type, summary, pubmed_id";
    sql += " order by " + sort + " " + dir;

    Session session = factory.getCurrentSession();
    session.beginTransaction();
    SQLQuery q = session.createSQLQuery(sql);

    q.setTimeout(SQL_TIMEOUT);
    q.setString("taxonId", taxonId);

    ScrollableResults scr = null;

    try {
        scr = q.scroll();
    } catch (Exception ex) {
        System.out.println("[SQL error]" + taxonId);
        ex.printStackTrace();
        return null;
    }

    ArrayList<ResultType> results = new ArrayList<ResultType>();
    Object[] obj = null;
    if (start > 1) {
        scr.setRowNumber(start - 1);
    } else {
        scr.beforeFirst();
    }

    for (int i = start; (end > 0 && i < end && scr.next() == true) || (end == -1 && scr.next() == true); i++) {
        obj = scr.get();
        ResultType row = new ResultType();

        row.put("experiment_id", obj[0]);
        row.put("description", obj[1]);
        row.put("speciesname", obj[2]);
        row.put("experimenttype", obj[3]);
        row.put("summary", obj[4]);
        row.put("pubmed_id", obj[5]);
        row.put("samples", obj[6]);
        results.add(row);
    }
    session.getTransaction().commit();
    return results;
}

---

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