Source of file DefaultFastaEntry.php

<?php

/**

 * Copyright 2019 University of Liverpool

 *

 * Licensed under the Apache License, Version 2.0 (the "License");

 * you may not use this file except in compliance with the License.

 * You may obtain a copy of the License at

 *

 * http://www.apache.org/licenses/LICENSE-2.0

 *

 * Unless required by applicable law or agreed to in writing, software

 * distributed under the License is distributed on an "AS IS" BASIS,

 * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.

 * See the License for the specific language governing permissions and

 * limitations under the License.

 */

namespace pgb_liv\php_ms\Reader\FastaEntry;

use pgb_liv\php_ms\Core\Protein;

use pgb_liv\php_ms\Core\Database\DefaultDatabase;

use pgb_liv\php_ms\Core\Entry\DatabaseEntry;

/**

 * A fallback object to use if unable to safely parse fasta data

 *

 * @author Andrew Collins

 */

class DefaultFastaEntry implements FastaInterface

{

    public static function parseIdentifier($identifier)

    {

        return array(

            $identifier

        );

    }

    /**

     *

     * {@inheritdoc}

     */

    public function getProtein($identifier, $description)

    {

        $protein = new Protein();

        $database = new DefaultDatabase();

        $dbEntry = new DatabaseEntry($database);

        $dbEntry->setUniqueIdentifier($identifier);

        $protein->setDatabaseEntry($dbEntry);

        $protein->setDescription($description);

        return $protein;

    }

}