void test_forwarder_multiple_seqs() {
Forwarder forwarder;
Matrix pi, A, B;
size_t no_states, alphabet_size;
std::cout << "Testing forwarder with multiple sequences: ";
std::cout.flush();
read_HMM(pi, A, B, "../test_data/multiple_seqs.hmm");
no_states = pi.get_height();
alphabet_size = B.get_width();
forwarder.read_seq_directory("../test_data/seqs_directory", alphabet_size, no_states, 50);
assertClose(forwarder.forward(pi, A, B), -52287.6, "Forwarder: Difference in loglikelihood:", 0.0001);
assertClose(forwarder.pthread_forward(pi, A, B), -52287.6, "pthread_forward: Difference in loglikelihood:", 0.0001);
assertClose(forwarder.mr_pthread_forward(pi, A, B), -52287.6, "mr_pthread_forward: Difference in loglikelihood:", 0.0001);
std::cout << "ok." << std::endl;
}
void test_forwarder_long_sequence(const std::string &hmmFilename, const std::string &seqFilename, double expected_ll) {
Matrix pi, A, B;
size_t no_states, alphabet_size;
std::cout << "Testing " << hmmFilename << " " << seqFilename << ": ";
std::cout.flush();
read_HMM(pi, A, B, hmmFilename);
no_states = pi.get_height();
alphabet_size = B.get_width();
Forwarder forwarder;
forwarder.read_seq(seqFilename, alphabet_size, 500);
SimpleForwarder s_forwarder(seqFilename);
assertClose(forwarder.forward(pi, A, B), expected_ll, "Forwarder: Difference in likelihood log likelihood:", 0.0001);
assertClose(forwarder.pthread_forward(pi, A, B), expected_ll, "pthread_forward: Difference in likelihood log likelihood:", 0.0001);
assertClose(s_forwarder.forward(pi, A, B), expected_ll, "s_forward: Difference in log likelihood:", 0.0001);
std::cout << "ok." << std::endl;
}
