/** * The main member function for dispensing patterns. * * Returns true iff a pair was parsed succesfully. */ bool PatternSource::nextReadPair( Read& ra, Read& rb, TReadId& rdid, TReadId& endid, bool& success, bool& done, bool& paired, bool fixName) { // nextPatternImpl does the reading from the ultimate source; // it is implemented in concrete subclasses success = done = paired = false; nextReadPairImpl(ra, rb, rdid, endid, success, done, paired); if(success) { // Construct reversed versions of fw and rc seqs/quals ra.finalize(); if(!rb.empty()) { rb.finalize(); } // Fill in the random-seed field using a combination of // information from the user-specified seed and the read // sequence, qualities, and name ra.seed = genRandSeed(ra.patFw, ra.qual, ra.name, seed_); if(!rb.empty()) { rb.seed = genRandSeed(rb.patFw, rb.qual, rb.name, seed_); } } return success; }
/** * The main member function for dispensing patterns. */ bool PatternSource::nextRead( Read& r, TReadId& rdid, TReadId& endid, bool& success, bool& done) { // nextPatternImpl does the reading from the ultimate source; // it is implemented in concrete subclasses nextReadImpl(r, rdid, endid, success, done); if(success) { // Construct the reversed versions of the fw and rc seqs // and quals r.finalize(); // Fill in the random-seed field using a combination of // information from the user-specified seed and the read // sequence, qualities, and name r.seed = genRandSeed(r.patFw, r.qual, r.name, seed_); } return success; }