Examples with VersionableFamily org.vcell.util.document.VersionableFamily used on opensource projects

Example 1 with VersionableFamily

use of org.vcell.util.document.VersionableFamily in project vcell by virtualcell.

the class DependencyTest method main.

/**
 * Starts the application.
 * @param args an array of command-line arguments
 */
public static void main(java.lang.String[] args) {
    if (args.length != 2) {
        throw new RuntimeException("Usage: DependencyTest VersionableType.toString() keyValue.toString()");
    }
    java.sql.Connection con = null;
    try {
        String versionableTypeS = args[0];
        String keyValueS = args[1];
        // new cbit.sql.KeyValue("1368");
        org.vcell.util.document.KeyValue rootKey = new org.vcell.util.document.KeyValue(keyValueS);
        // cbit.sql.VersionableType.VCImage;
        org.vcell.util.document.VersionableType rootType = null;
        if (VersionableType.VCImage.toString().equals(versionableTypeS)) {
            rootType = VersionableType.VCImage;
        } else if (VersionableType.Geometry.toString().equals(versionableTypeS)) {
            rootType = VersionableType.Geometry;
        } else if (VersionableType.Model.toString().equals(versionableTypeS)) {
            rootType = VersionableType.Model;
        } else if (VersionableType.MathDescription.toString().equals(versionableTypeS)) {
            rootType = VersionableType.MathDescription;
        } else if (VersionableType.SimulationContext.toString().equals(versionableTypeS)) {
            rootType = VersionableType.SimulationContext;
        } else {
            throw new RuntimeException("Improper argument for VersionableType " + versionableTypeS);
        }
        Class.forName("oracle.jdbc.driver.OracleDriver");
        String url = "jdbc:oracle:thin:@nrcamdb.uchc.edu:1521:orc0";
        con = java.sql.DriverManager.getConnection(url, "nrcamdbdev", "bogus");
        System.out.println("Search for References to " + rootType.toString() + " id=" + rootKey.toString());
        VersionableFamily vf = cbit.vcell.modeldb.DbDriver.getAllReferences(con, rootType, rootKey);
        VersionableRelationship[] dependants = vf.getDependantRelationships();
        for (int c = 0; c < dependants.length; c += 1) {
            VersionableRelationship verrel = dependants[c];
            VersionableTypeVersion from = verrel.from();
            VersionableTypeVersion to = verrel.to();
            System.out.println(from.getVType() + " " + from.getVersion().getVersionKey() + "   ==>   " + to.getVType() + " " + to.getVersion().getVersionKey());
        }
        System.out.println("------------------Top Down List-------------------");
        VersionableTypeVersion[] topDown = vf.getDependantsTopDown();
        byte[] spaces = { 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32, 32 };
        for (int c = 0; c < topDown.length; c += 1) {
            System.out.print(topDown[c].getVType());
            System.out.write(spaces, 0, 30 - topDown[c].getVType().toString().length());
            System.out.print(topDown[c].getVersion().getName());
            System.out.write(spaces, 0, 40 - topDown[c].getVersion().getName().length());
            System.out.println(topDown[c].getVersion().getVersionKey());
        }
    } catch (Throwable e) {
        e.printStackTrace(System.out);
    } finally {
        try {
            if (con != null) {
                con.close();
            }
        } catch (java.sql.SQLException e) {
        }
    }
}

Example 2 with VersionableFamily

use of org.vcell.util.document.VersionableFamily in project vcell by virtualcell.

the class DBTopLevel method findReferences.

/**
 * Insert the method's description here.
 * Creation date: (11/6/2005 10:16:41 AM)
 * @return cbit.vcell.modeldb.ReferenceQueryResult
 * @param user cbit.vcell.server.User
 * @param rqs cbit.vcell.modeldb.ReferenceQuerySpec
 */
ReferenceQueryResult findReferences(User user, ReferenceQuerySpec rqs2, boolean bEnableRetry) throws DataAccessException, java.sql.SQLException {
    Object lock = new Object();
    Connection con = conFactory.getConnection(lock);
    try {
        // Use MathDescription for search if ExternalData
        VersionableType rqsVType = null;
        KeyValue[] vTypeKeys = null;
        if (rqs2.isVersionableType()) {
            rqsVType = rqs2.getVersionableType();
            vTypeKeys = new KeyValue[] { rqs2.getKeyValue() };
        } else if (rqs2.isExternalDataIdentiferType()) {
            DbDriver.cleanupDeletedReferences(con, user, rqs2.getExternalDataIdentifier(), false);
            con.commit();
            rqsVType = VersionableType.MathDescription;
            vTypeKeys = getMathDescKeysForExternalData(rqs2.getKeyValue(), user, true);
            if (vTypeKeys == null || vTypeKeys.length == 0) {
                return null;
            }
        }
        if (rqsVType == null) {
            throw new DataAccessException("findAllReferences error: Couldn't determine Query type");
        }
        VersionableFamily finalVersionalbeFamily = null;
        for (int k = 0; k < vTypeKeys.length; k += 1) {
            // Find references
            VersionableFamily vf = getAllReferences(user, vTypeKeys[k], rqsVType, true);
            // Check permission
            if (vf.bDependants()) {
                VersionableTypeVersion[] vtvArr = vf.getUniqueDependants();
                for (int i = 0; i < vtvArr.length; i += 1) {
                    if (vtvArr[i].getVType().equals(VersionableType.BioModelMetaData)) {
                        Vector<VersionInfo> checkedVInfos = getVersionableInfos(user, vtvArr[i].getVersion().getVersionKey(), VersionableType.BioModelMetaData, false, true, true);
                        if (checkedVInfos == null || checkedVInfos.size() == 0) {
                            throw new DataAccessException("References Not Accessible");
                        }
                    } else if (vtvArr[i].getVType().equals(VersionableType.MathModelMetaData)) {
                        Vector<VersionInfo> checkedVInfos = getVersionableInfos(user, vtvArr[i].getVersion().getVersionKey(), VersionableType.MathModelMetaData, false, true, true);
                        if (checkedVInfos == null || checkedVInfos.size() == 0) {
                            throw new DataAccessException("References Not Accessible");
                        }
                    }
                }
            }
            if (finalVersionalbeFamily == null) {
                finalVersionalbeFamily = vf;
            } else {
                VersionableRelationship[] versRelArr = vf.getDependantRelationships();
                for (int r = 0; r < versRelArr.length; r += 1) {
                    finalVersionalbeFamily.addDependantRelationship(versRelArr[r]);
                }
            }
        }
        return new ReferenceQueryResult(finalVersionalbeFamily);
    } catch (Throwable e) {
        lg.error(e.getMessage(), e);
        if (bEnableRetry && isBadConnection(con)) {
            conFactory.failed(con, lock);
            return findReferences(user, rqs2, false);
        } else {
            handle_DataAccessException_SQLException(e);
            // never gets here;
            return null;
        }
    } finally {
        conFactory.release(con, lock);
    }
}

Example 3 with VersionableFamily

use of org.vcell.util.document.VersionableFamily in project vcell by virtualcell.

the class DbDriver method getAllReferences.

/**
 * This method was created in VisualAge.
 * @return java.util.Hashtable
 */
public static VersionableFamily getAllReferences(java.sql.Connection con, VersionableType vType, KeyValue keyValue) throws DataAccessException, SQLException {
    VersionableTypeVersion vtv = new VersionableTypeVersion(vType, getVersionFromKeyValue(con, vType, keyValue));
    VersionableFamily refs = new VersionableFamily(vtv);
    findAllReferences(con, refs.getTarget(), refs);
    findAllChildren(con, refs.getTarget(), refs);
    return refs;
}