internal static void run(IList para)
{
bool reverse = false;
modshogun.init_shogun_with_defaults();
int order = (int)((int?)para[0]);
int gap = (int)((int?)para[1]);
string[] fm_train_dna = Load.load_dna("../data/fm_train_dna.dat");
StringCharFeatures charfeat = new StringCharFeatures(fm_train_dna, DNA);
StringWordFeatures feats = new StringWordFeatures(charfeat.get_alphabet());
feats.obtain_from_char(charfeat, order-1, order, gap, reverse);
PositionalPWM ppwm = new PositionalPWM();
ppwm.set_sigma(5.0);
ppwm.set_mean(10.0);
DoubleMatrix pwm = new DoubleMatrix(new double[][] {{0.0, 0.5, 0.1, 1.0}, {0.0, 0.5, 0.5, 0.0}, {1.0, 0.0, 0.4, 0.0}, {0.0, 0.0, 0.0, 0.0}});
//ppwm.set_pwm(DoubleMatrix.log(pwm));
ppwm.compute_w(20);
DoubleMatrix w = ppwm.get_w();
modshogun.exit_shogun();
}
internal static HandleRef getCPtr(PositionalPWM obj) {
return (obj == null) ? new HandleRef(null, IntPtr.Zero) : obj.swigCPtr;
}
internal static HandleRef getCPtr(PositionalPWM obj)
{
return((obj == null) ? new HandleRef(null, IntPtr.Zero) : obj.swigCPtr);
}
