def predict(name, sp, arrsource, arrfeats, nsp, clf_scaler_feats=None,
clf_factory=None, clffact_feats=None, clf_type='svm', norm=True, nfeats=100, balance_train=False):
"""
- arrfeats: labeled training examples array, from
ppi.feature_array.arrfeats, also stored in res.cvtest result as
result.exs.arrfeats.
- arrsource: array of data to classify, matching the training array
"""
if clf_scaler_feats:
clf, scaler, feats = clf_scaler_feats
else:
if balance_train:
arrfeats = fe.balance_train(arrfeats)
if clf_type in clf_factories and clf_factory is None:
clf_factory, clffact_feats = clf_factories[clf_type]
feats = feature_selection(arrfeats, nfeats, clffact_feats() if clffact_feats
else None)
arrfeats = fe.keep_cols(arrfeats, feats)
clf = clf_factory()
scaler = ml.fit_clf(arrfeats, clf, norm=norm)
print "Classifier:", clf
arrsource = fe.keep_cols(arrsource, feats)
ppis = ml.classify(clf, arrsource, scaler=scaler)
pres = Struct(ppis=ppis,name=name, species=sp, ppi_params=str(clf),
feats=feats, nsp=nsp, arrfeats=arrfeats,
balance_train=balance_train)
return pres
def classify(agent_id, file):
agent = get_agent(agent_id)
print(agent)
if agent == None:
return None
return ml.classify(agent, file)
def test(img,
landmark=None,
is_heatmap=False,
binary_output=False,
model=None):
"""Classify img"""
net_input = img
if is_heatmap:
net_input = heat_map_compute(img,
landmark,
landmark_is_01=False,
img_color=True,
radius=occlu_param['radius'])
if binary_output:
return [
binary(_, threshold=0.5) for _ in classify(model, net_input)
]
return classify(model, net_input)
def test(img, mean_shape=None, normalizer=None, model=None):
"""Compute prediction of input img"""
if normalizer is not None:
img = normalizer.transform(img)
prediction = classify(model, img)
if mean_shape is not None:
prediction = np.reshape(
prediction, (data_param['landmark_num'], 2)) + mean_shape
return prediction
def fold_test(arrfeats, kfold, k, clf_factory, clffact_feats, nfeats, norm,
balance_train):
arrtrain, arrtest = fe.arr_kfold(arrfeats, kfold, k)
if balance_train:
arrtrain = fe.balance_train(arrtrain)
if nfeats:
clf_feats = clffact_feats()
feats = feature_selection(arrtrain, nfeats, clf_feats)
arrtrain,arrtest = [fe.keep_cols(a,feats) for a in arrtrain,arrtest]
else:
feats = None
clf = clf_factory()
if k==0: print "Classifier:", clf
scaler = ml.fit_clf(arrtrain, clf, norm=norm)
if ml.exist_pos_neg(arrtrain):
ppis = ml.classify(clf, arrtest, scaler=scaler, do_sort=False)
else:
ppis = []
return ppis,clf,scaler,feats
def val_compute(imgs,
labels,
mean_shape=None,
normalizer=None,
model=None,
loss_compute=None):
"""Compute interocular loss of input imgs and labels"""
loss = 0.0
count = 0
for img, label in zip(imgs, labels):
prediction = FaceAlignment.test(img,
mean_shape=mean_shape,
normalizer=normalizer,
model=model)
loss += loss_compute(prediction, label)
if normalizer:
img = normalizer.transform(img)
prediction = classify(model, img)
loss_elem = loss_compute(prediction, label)
loss += loss_elem
count += 1
if data_param['print_debug'] and count % 100 == 0:
logger("predicted {} imgs".format(count))
logger("test loss is {}".format(loss / count))