public FeatureBasedTagSearchEngine( LcMsRun run, Ms1FtParser featureParser, ProductScorerBasedOnDeconvolutedSpectra ms2Scorer, SequenceTagParser tagParser, FastaDatabase fastaDb, Tolerance tolerance, AminoAcidSet aaSet, double maxSequenceMass = 50000.0, int minProductIonCharge = 1, int maxProductIonCharge = 20) { _run = run; _ms2Scorer = ms2Scorer; _featureParser = featureParser; _ms1FtFilter = new Ms1FtFilter(run, tolerance, featureParser.Ms1FtFileName); _tagParser = tagParser; _fastaDb = fastaDb; _searchableDb = new SearchableDatabase(fastaDb); _tolerance = tolerance; _aaSet = aaSet; _maxSequenceMass = maxSequenceMass; _minProductIonCharge = minProductIonCharge; _maxProductIonCharge = maxProductIonCharge; }
public FeatureBasedTagSearchEngine( LcMsRun run, Ms1FtParser featureParser, SequenceTagParser tagParser, FastaDatabase fastaDb, Tolerance tolerance, AminoAcidSet aaSet, double maxSequenceMass = 50000.0, int minProductIonCharge = 1, int maxProductIonCharge = 20) : this( run, featureParser, null, tagParser, fastaDb, tolerance, aaSet, maxSequenceMass, minProductIonCharge, maxProductIonCharge) { }