source: trunk/grails-app/domain/nl/tno/metagenomics/SequenceData.groovy @ 7

package nl.tno.metagenomics

import org.codehaus.groovy.grails.commons.ConfigurationHolder

class SequenceData {
        def fileService
        
        String sequenceFile = ''
        String qualityFile = ''
        Long numSequences = 0L
        Float averageQuality = 0.0

        static belongsTo = [sample: AssaySample]
        static constraints = {
                qualityFile(nullable: true)
                numSequences(nullable: true)
                averageQuality(nullable: true)
        }

        /**
         * Returns the number of files in this data object.
         * @return
         */
        public int numFiles() {
                int number = 0;
                if( sequenceFile != null && sequenceFile != "" )
                        number++;

                if( qualityFile != null && qualityFile != "" )
                        number++;

                return number;
        }
        
        def beforeDelete = {
                def permanentDir = fileService.absolutePath( ConfigurationHolder.config.metagenomics.fileDir.toString() )
                if( sequenceFile ) {
                        fileService.delete( sequenceFile, permanentDir )
                }

                if( qualityFile )
                        fileService.delete( qualityFile, permanentDir )
                
                // Reset statistics of the assay sample, to ensure the deleted files are removed from statistics
                sample.resetStats();
        }
}