<commit_before><?php
/**
 * Copyright 2016 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\Core;

/**
 * A sequence Database Entry object.
 *
 * @author <NAME>
 */
class DatabaseEntry implements \Iterator
{
    public function __construct($filePath)
    {
        $this->filePath = $filePath;
    }

}
<commit_msg>Added Database Entry place holder code<commit_after><?php
/**
 * Copyright 2016 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\Core;

/**
 * A sequence Database Entry object. By default the identifier, description
 * and sequence are available. Additional fields will be available if the 
 * description has been able to be parsed in the case of FASTA data.
 *
 * @author <NAME>
 */
class DatabaseEntry implements \Iterator
{

	private $description;
	
	private $sequence;
	
	private $identifier;
	
	private $database;
	
	private $accession;
	
	private $entryName
	
	private $proteinName;	
	
	private $organismName;
	
	private $geneName;
	
	private $proteinExistence;
	
	private $sequenceVersion;
	
    public function __construct($identifier, $description, $sequence)
    {
		$this->identifier = $identifier;
		$this->description = $description;
		$this->sequence = $sequence;
    }
	
	public function getIdentifier()
	{
		return $this->identifier;
	}
	
	public function getDescription()
	{
		return $this->description;
	}
	
	public function getSequence()
	{
		return $this->sequence;
	}
}

{'fraction_non_alphanumeric': 0.08640507332540626, 'fraction_numerical': 0.006341656757827983, 'mean_word_length': 3.789373814041746, 'pattern_counts': {'":': 0, '<': 7, '<?xml version=': 0, '>': 12, 'https://': 0, 'lorem ipsum': 0, 'www.': 2, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '2981935', 'n_tokens_mistral': 705, 'n_tokens_neox': 656, 'n_words': 281}