Examples with TableMetadata org.molgenis.emx2.TableMetadata used on opensource projects

Example 1 with TableMetadata

use of org.molgenis.emx2.TableMetadata in project molgenis-emx2 by molgenis.

the class Mapper method map.

public static TableMetadata map(Class<?> klazz) {
    TableMetadata t = new TableMetadata(klazz.getSimpleName());
    Field[] fields = klazz.getDeclaredFields();
    for (Field f : fields) {
        if (!f.getName().contains("jacoco")) {
            Column col = column(f.getName()).setType(TypeUtils.typeOf(f.getType()));
            if (f.isAnnotationPresent(ColumnAnnotation.class)) {
                ColumnAnnotation cm = f.getAnnotation(ColumnAnnotation.class);
                col.setRequired(cm.required());
                col.setDescription(cm.description());
            }
            t.add(col);
        }
    }
    return t;
}

Example 2 with TableMetadata

use of org.molgenis.emx2.TableMetadata in project molgenis-emx2 by molgenis.

the class ArrayTypeTestExample method createSimpleTypeTest.

public static void createSimpleTypeTest(SchemaMetadata schema) {
    TableMetadata typeTestTable = schema.create(table("ArrayTypeTest"));
    typeTestTable.add(column("id").setPkey());
    ColumnType[] columnTypes = new ColumnType[] { UUID_ARRAY, STRING_ARRAY, BOOL_ARRAY, INT_ARRAY, DECIMAL_ARRAY, TEXT_ARRAY, DATE_ARRAY, DATETIME_ARRAY };
    for (ColumnType columnType : columnTypes) {
        typeTestTable.add(column("Test_" + columnType.toString().toLowerCase()).setType(columnType).setRequired(true));
        typeTestTable.add(column("Test_" + columnType.toString().toLowerCase() + "_nillable").setType(columnType));
    }
}

Example 3 with TableMetadata

use of org.molgenis.emx2.TableMetadata in project molgenis-emx2 by molgenis.

the class SimpleTypeTestExample method createSimpleTypeTest.

public static void createSimpleTypeTest(SchemaMetadata schema) {
    TableMetadata typeTestTable = table(TYPE_TEST).add(column("id").setPkey());
    ColumnType[] columnTypes = new ColumnType[] { UUID, STRING, BOOL, INT, DECIMAL, TEXT, DATE, DATETIME };
    for (ColumnType columnType : columnTypes) {
        typeTestTable.add(column("Test " + columnType.toString().toLowerCase()).setType(columnType).setRequired(true));
        typeTestTable.add(column("Test " + columnType.toString().toLowerCase() + " nillable").setType(columnType));
    }
    schema.create(typeTestTable);
}

Example 4 with TableMetadata

use of org.molgenis.emx2.TableMetadata in project molgenis-emx2 by molgenis.

the class Schema method getSchemaMetadata.

public SchemaMetadata getSchemaMetadata() {
    SchemaMetadata s = new SchemaMetadata();
    s.setSettings(this.settings);
    for (Table t : this.tables) {
        TableMetadata tm = s.create(table(t.getName()));
        tm.setInherit(t.getInherit());
        tm.setSettings(t.getSettings());
        tm.setOldName(t.getOldName());
        if (t.getDrop())
            tm.drop();
        tm.setSemantics(t.getSemantics());
        tm.setDescription(t.getDescription());
        for (Column c : t.getColumns()) {
            int i = 1;
            if (!c.isInherited()) {
                // we remove clearly inherited columns here
                org.molgenis.emx2.Column cm = c.getColumnMetadata(tm);
                tm.add(cm);
            }
        }
        tm.setTableType(t.getTableType());
    }
    return s;
}

Example 5 with TableMetadata

use of org.molgenis.emx2.TableMetadata in project molgenis-emx2 by molgenis.

the class Emx1 method loadColumns.

private static List<Emx1Attribute> loadColumns(TableStore store, Map<String, Emx1Entity> entities, SchemaMetadata schema) {
    // line 1 is header
    int line = 2;
    List<Emx1Attribute> attributes = new ArrayList<>();
    try {
        if (store.containsTable("attributes")) {
            for (Row row : store.readTable("attributes")) {
                attributes.add(new Emx1Attribute(row));
                line++;
            }
        }
        // line 1 is header
        line = 2;
        for (Emx1Attribute attribute : attributes) {
            // create the table, if needed
            String entityName = attribute.getEntity();
            String tableName = getTableName(entities, entityName);
            TableMetadata table = schema.getTableMetadata(tableName);
            if (table == null) {
                table = schema.create(table(tableName));
            }
            // create the attribute
            ColumnType type = getColumnType(attribute.getDataType());
            Column column = column(attribute.getName()).setType(type).setRequired(!attribute.getNillable());
            // pkey
            if (attribute.getIdAttribute()) {
                column.setKey(1);
            }
            table.add(column);
            line++;
        }
    } catch (MolgenisException me) {
        throw new MolgenisException(EMX_1_IMPORT_FAILED + me.getMessage() + ". See 'attributes' line " + line, me);
    }
    return attributes;
}