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| <?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\Reader; | |
| use pgb_liv\php_ms\Core\Spectra\PrecursorIon; | |
| /** | |
| * | |
| * @author Andrew Collins | |
| */ | |
| interface MzIdentMlReader1Interface | |
| { | |
| public function getInputs(); | |
| public function getAnalysisProtocolCollection(); | |
| /** | |
| * | |
| * @return PrecursorIon[] | |
| */ | |
| public function getAnalysisData(); | |
| public function getProteinDetectionList(); | |
| /** | |
| * Gets the CvParam name attribute from any previously seen and indexed CvParam. | |
| * For this method to return a value the accession should already have been read by this parser. | |
| * | |
| * @param string $accession | |
| * The accession to return the name value for. | |
| * | |
| * @throws \OutOfRangeException The accession was not found and consequently has not yet been parsed by this instance. | |
| * @return string | |
| */ | |
| public function getCvParamName($accession); | |
| } |