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Commit 20d7d609 authored by Baptiste Bauvin's avatar Baptiste Bauvin
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.gitlab-ci.yml
View file @ 20d7d609
......@@ -40,6 +40,7 @@ pages:
script:
- export LC_ALL=$(locale -a | grep en_US)
- export LANG=$(locale -a | grep en_US)
- python3 setup.py install
- python3 setup.py build_sphinx
- cp -r build/sphinx/html public
artifacts:
......
multimodal/boosting/boost.py
View file @ 20d7d609
......@@ -44,12 +44,12 @@ import scipy.sparse as sp
from abc import ABCMeta
from sklearn.utils import check_array, check_X_y, check_random_state
from sklearn.tree import DecisionTreeClassifier
from sklearn.tree.tree import BaseDecisionTree
from sklearn.tree import BaseDecisionTree
from sklearn.tree._tree import DTYPE
from sklearn.ensemble.forest import BaseForest
from sklearn.base import clone
from sklearn.ensemble._base import _set_random_states
from sklearn.ensemble import BaseEnsemble
from sklearn.ensemble._forest import BaseForest
from multimodal.datasets.data_sample import DataSample
from multimodal.datasets.data_sample import MultiModalData, MultiModalArray, MultiModalSparseArray
......@@ -83,13 +83,6 @@ class UBoosting(metaclass=ABCMeta):
def _validate_X_predict(self, X):
"""Ensure that X is in the proper format."""
if (self.base_estimator is None or
isinstance(self.base_estimator,
(BaseDecisionTree, BaseForest))):
check_array(X, accept_sparse='csr', dtype=DTYPE)
else:
check_array(X, accept_sparse=['csr', 'csc'])
if X.ndim < 2:
X = X[np.newaxis, :]
if X.shape[1] != self.n_features_:
......@@ -97,8 +90,15 @@ class UBoosting(metaclass=ABCMeta):
"match the input. Model n_features is %s and "
"input n_features is %s " % (self.n_features_, X.shape[1]))
else:
mes = "Reshape your data"
mes = "Reshape your data as a 2D-array "
raise ValueError(mes)
if (self.base_estimator is None or
isinstance(self.base_estimator,
(BaseDecisionTree, BaseForest))):
check_array(X, accept_sparse='csr', dtype=DTYPE)
else:
check_array(X, accept_sparse=['csr', 'csc'])
if X.ndim > 1:
if X.shape[1] != self.n_features_:
if X.shape[0] == self.n_features_ and X.shape[1] > 1:
......@@ -107,10 +107,6 @@ class UBoosting(metaclass=ABCMeta):
raise ValueError("Number of features of the model must "
"match the input. Model n_features is %s and "
"input n_features is %s " % (self.n_features_, X.shape[1]))
#
# raise ValueError(mes)
return X
def _global_X_transform(self, X, views_ind=None):
......@@ -121,10 +117,10 @@ class UBoosting(metaclass=ABCMeta):
X_ = MultiModalSparseArray(X, views_ind)
else:
X_ = MultiModalArray(X, views_ind)
if not isinstance(X_, MultiModalData):
try:
X_ = np.asarray(X)
X_ = MultiModalArray(X_)
except Exception as e:
raise TypeError('Reshape your data')
# if not isinstance(X_, MultiModalData):
# try:
# X_ = np.asarray(X)
# X_ = MultiModalArray(X_)
# except Exception as e:
# raise TypeError('Reshape your data')
return X_
multimodal/boosting/combo.py
View file @ 20d7d609
......@@ -48,11 +48,11 @@ estimator for classification implemented in the ``MuComboClassifier`` class.
import numpy as np
from sklearn.base import ClassifierMixin
from sklearn.ensemble import BaseEnsemble
from sklearn.ensemble.forest import BaseForest
from sklearn.ensemble._forest import BaseForest
from sklearn.metrics import accuracy_score
from sklearn.tree import DecisionTreeClassifier
from sklearn.tree._tree import DTYPE
from sklearn.tree.tree import BaseDecisionTree
from sklearn.tree import BaseDecisionTree
from sklearn.utils import check_array, check_X_y, check_random_state
from sklearn.utils.multiclass import check_classification_targets
from sklearn.utils.validation import check_is_fitted, has_fit_parameter
......@@ -127,13 +127,13 @@ class MuComboClassifier(BaseEnsemble, ClassifierMixin, UBoosting):
>>> views_ind = [0, 2, 4] # view 0: sepal data, view 1: petal data
>>> clf = MuComboClassifier(random_state=0)
>>> clf.fit(X, y, views_ind) # doctest: +NORMALIZE_WHITESPACE
MuComboClassifier(base_estimator=None, n_estimators=50, random_state=0)
MuComboClassifier(random_state=0)
>>> print(clf.predict([[ 5., 3., 1., 1.]]))
[0]
>>> views_ind = [[0, 2], [1, 3]] # view 0: length data, view 1: width data
>>> clf = MuComboClassifier(random_state=0)
>>> clf.fit(X, y, views_ind) # doctest: +NORMALIZE_WHITESPACE
MuComboClassifier(base_estimator=None, n_estimators=50, random_state=0)
MuComboClassifier(random_state=0)
>>> print(clf.predict([[ 5., 3., 1., 1.]]))
[0]
......@@ -141,13 +141,8 @@ class MuComboClassifier(BaseEnsemble, ClassifierMixin, UBoosting):
>>> base_estimator = DecisionTreeClassifier(max_depth=2)
>>> clf = MuComboClassifier(base_estimator=base_estimator, random_state=1)
>>> clf.fit(X, y, views_ind) # doctest: +NORMALIZE_WHITESPACE
MuComboClassifier(base_estimator=DecisionTreeClassifier(class_weight=None, criterion='gini', max_depth=2,
max_features=None, max_leaf_nodes=None,
min_impurity_decrease=0.0, min_impurity_split=None,
min_samples_leaf=1, min_samples_split=2,
min_weight_fraction_leaf=0.0, presort=False, random_state=None,
splitter='best'),
n_estimators=50, random_state=1)
MuComboClassifier(base_estimator=DecisionTreeClassifier(max_depth=2),
random_state=1)
>>> print(clf.predict([[ 5., 3., 1., 1.]]))
[0]
......@@ -222,8 +217,9 @@ class MuComboClassifier(BaseEnsemble, ClassifierMixin, UBoosting):
dist = np.empty(cost.shape[:2], dtype=cost.dtype, order="C")
# NOTE: In Sokol's PhD thesis, the formula for dist is mistakenly given
# with a minus sign in section 2.2.2 page 31
dist[:, :] = cost[:, np.arange(n_samples), y] \
/ np.sum(cost[:, np.arange(n_samples), y], axis=1)[:, np.newaxis]
sum_cost = np.sum(cost[:, np.arange(n_samples), y], axis=1)[:, np.newaxis]
sum_cost[sum_cost==0] = 1
dist[:, :] = cost[:, np.arange(n_samples), y] / sum_cost
return dist
def _indicatrice(self, predicted_classes, y_i):
......@@ -444,6 +440,8 @@ class MuComboClassifier(BaseEnsemble, ClassifierMixin, UBoosting):
views_ind_, n_views = self.X_._validate_views_ind(self.X_.views_ind,
self.X_.shape[1])
check_X_y(self.X_, y)
if not isinstance(y, np.ndarray):
y = np.asarray(y)
check_classification_targets(y)
self._validate_estimator()
......@@ -452,6 +450,7 @@ class MuComboClassifier(BaseEnsemble, ClassifierMixin, UBoosting):
self.n_classes_ = len(self.classes_)
self.n_views_ = n_views
self.n_features_ = self.X_.shape[1]
self.n_features_in_ = self.n_features_
if self.n_classes_ == 1:
# This case would lead to division by 0 when computing the cost
# matrix so it needs special handling (but it is an obvious case as
......
multimodal/boosting/mumbo.py
View file @ 20d7d609
......@@ -49,10 +49,10 @@ import numpy as np
from sklearn.base import ClassifierMixin, clone
from sklearn.ensemble import BaseEnsemble
from sklearn.ensemble._base import _set_random_states
from sklearn.ensemble.forest import BaseForest
from sklearn.ensemble._forest import BaseForest
from sklearn.metrics import accuracy_score
from sklearn.tree import DecisionTreeClassifier
from sklearn.tree.tree import BaseDecisionTree
from sklearn.tree import BaseDecisionTree
from sklearn.tree._tree import DTYPE
from sklearn.utils import check_array, check_X_y, check_random_state
from sklearn.utils.multiclass import check_classification_targets
......@@ -128,15 +128,13 @@ class MumboClassifier(BaseEnsemble, ClassifierMixin, UBoosting):
>>> views_ind = [0, 2, 4] # view 0: sepal data, view 1: petal data
>>> clf = MumboClassifier(random_state=0)
>>> clf.fit(X, y, views_ind) # doctest: +NORMALIZE_WHITESPACE
MumboClassifier(base_estimator=None, best_view_mode='edge',
n_estimators=50, random_state=0)
MumboClassifier(random_state=0)
>>> print(clf.predict([[ 5., 3., 1., 1.]]))
[1]
>>> views_ind = [[0, 2], [1, 3]] # view 0: length data, view 1: width data
>>> clf = MumboClassifier(random_state=0)
>>> clf.fit(X, y, views_ind) # doctest: +NORMALIZE_WHITESPACE
MumboClassifier(base_estimator=None, best_view_mode='edge',
n_estimators=50, random_state=0)
MumboClassifier(random_state=0)
>>> print(clf.predict([[ 5., 3., 1., 1.]]))
[1]
......@@ -144,13 +142,8 @@ class MumboClassifier(BaseEnsemble, ClassifierMixin, UBoosting):
>>> base_estimator = DecisionTreeClassifier(max_depth=2)
>>> clf = MumboClassifier(base_estimator=base_estimator, random_state=0)
>>> clf.fit(X, y, views_ind) # doctest: +NORMALIZE_WHITESPACE
MumboClassifier(base_estimator=DecisionTreeClassifier(class_weight=None,
criterion='gini', max_depth=2, max_features=None,
max_leaf_nodes=None, min_impurity_decrease=0.0,
min_impurity_split=None, min_samples_leaf=1, min_samples_split=2,
min_weight_fraction_leaf=0.0, presort=False, random_state=None,
splitter='best'),
best_view_mode='edge', n_estimators=50, random_state=0)
MumboClassifier(base_estimator=DecisionTreeClassifier(max_depth=2),
random_state=0)
>>> print(clf.predict([[ 5., 3., 1., 1.]]))
[1]
......@@ -192,7 +185,6 @@ class MumboClassifier(BaseEnsemble, ClassifierMixin, UBoosting):
"""Check the estimator and set the base_estimator_ attribute."""
super(MumboClassifier, self)._validate_estimator(
default=DecisionTreeClassifier(max_depth=1))
if type(self.base_estimator_) is list:
for estimator in self.base_estimator_:
if not has_fit_parameter(estimator, "sample_weight"):
......@@ -411,12 +403,15 @@ class MumboClassifier(BaseEnsemble, ClassifierMixin, UBoosting):
views_ind_, n_views = self.X_._validate_views_ind(self.X_.views_ind,
self.X_.shape[1])
check_X_y(self.X_, y, accept_sparse=accept_sparse, dtype=dtype)
if not isinstance(y, np.ndarray):
y = np.asarray(y)
check_classification_targets(y)
self._validate_estimator()
self.classes_, y = np.unique(y, return_inverse=True)
self.n_classes_ = len(self.classes_)
self.n_features_ = self.X_.shape[1]
self.n_features_in_ = self.n_features_
if self.n_classes_ == 1:
# This case would lead to division by 0 when computing the cost
# matrix so it needs special handling (but it is an obvious case as
......
multimodal/datasets/data_sample.py
View file @ 20d7d609
......@@ -365,14 +365,14 @@ class MultiModalArray(np.ndarray, MultiModalData):
views_ind.append(dat_values.shape[1] + views_ind[index])
index += 1
thekeys = data.keys()
if new_data.ndim < 2 :
raise ValueError('Reshape your data')
if new_data.ndim > 1 and (new_data.shape == (1, 1) or new_data.shape == ()):
# if new_data.ndim < 2 :
# raise ValueError('Reshape your data')
if new_data.ndim > 1 and (new_data.shape == (1, 1) or new_data.shape == ()):
raise ValueError('Reshape your data')
elif isinstance(data, np.ndarray) and views_ind is None and data.ndim == 1:
try:
dat0 = np.array(data[0])
except Exception:
except Exception: # pragma: no cover
raise TypeError("input format is not supported")
if dat0.ndim < 2:
......@@ -388,13 +388,13 @@ class MultiModalArray(np.ndarray, MultiModalData):
elif (isinstance(data, np.ndarray) ) and data.ndim > 1:
try:
data = np.asarray(data)
except:
except: # pragma: no cover
raise TypeError("input format is not supported")
if views_ind is not None:
try:
views_ind = np.asarray(views_ind)
except :
except : # pragma: no cover
raise TypeError("n_views should be list or nparray")
elif views_ind is None:
if data.shape[1] > 1:
......@@ -413,7 +413,7 @@ class MultiModalArray(np.ndarray, MultiModalData):
elif not isinstance(views_ind, np.ndarray):
try:
views_ind = np.asarray(views_ind)
except Exception:
except Exception: # pragma: no cover
raise TypeError("format of views_ind is not list or nd array")
except Exception as e:
raise ValueError('Reshape your data')
......@@ -421,8 +421,8 @@ class MultiModalArray(np.ndarray, MultiModalData):
raise ValueError('Reshape your data')
if new_data.ndim > 1 and (new_data.shape == (1, 1) or new_data.shape == ()):
raise ValueError('Reshape your data')
if views_ind.ndim < 2 and new_data.ndim < 2 and views_ind[-1] > new_data.shape[1]:
raise ValueError('Reshape your data')
# if views_ind.ndim < 2 and new_data.ndim < 2 and views_ind[-1] > new_data.shape[1]:
# raise ValueError('Reshape your data')
# views_ind_self = views_ind
# if new_data.shape[1] < 1:
......@@ -437,7 +437,7 @@ class MultiModalArray(np.ndarray, MultiModalData):
# obj = ma.MaskedArray.__new(new_data) # new_data.view() a.MaskedArray(new_data, mask=new_data.mask).view(cls)
# bj = super(Metriclearn_array, cls).__new__(cls, new_data.data, new_data.mask)
if hasattr(new_data, "mask"):
if hasattr(new_data, "mask"): # pragma: no cover
obj = ma.masked_array(new_data.data, new_data.mask).view(cls)
elif hasattr(new_data, "data") and \
hasattr(new_data, "shape") and len(new_data.shape) > 0:
......@@ -462,7 +462,7 @@ class MultiModalArray(np.ndarray, MultiModalData):
for dat_values in data:
try:
dat_values = np.array(dat_values)
except Exception:
except Exception: # pragma: no cover
raise TypeError("input format is not supported")
new_data = cls._populate_new_data(index, dat_values, new_data)
views_ind[index + 1] = dat_values.shape[1] + views_ind[index]
......@@ -471,7 +471,8 @@ class MultiModalArray(np.ndarray, MultiModalData):
return new_data, shapes_int, views_ind
@staticmethod
def _populate_new_data(index, dat_values, new_data):
def _populate_new_data(index, dat_values, new_data): # pragma: no cover
"""Work in progress : including missing data"""
if index == 0:
if isinstance(dat_values, ma.MaskedArray) or \
isinstance(dat_values, np.ndarray) or sp.issparse(dat_values):
......@@ -525,30 +526,32 @@ class MultiModalArray(np.ndarray, MultiModalData):
def set_view(self, view, data):
start = int(np.sum(np.asarray(self.shapes_int[0: view])))
stop = int(start + self.shapes_int[view])
if stop-start == data.shape[0] and data.shape[1]== self.data.shape[1]:
if stop-start == data.shape[1] and data.shape[0] == self.data.shape[0]:
self[:, start:stop] = data
else:
raise ValueError(
"shape of data does not match (%d, %d)" %stop-start %self.data.shape[1])
"shape of data does not match (%d, %d)" %(stop-start ,self.data.shape[0]))
def get_raw(self, view, raw):
start = np.sum(np.asarray(self.shapes_int[0: view]))
stop = np.sum(np.asarray(self.shapes_int[0: view+1]))
return self.data[start:stop, raw]
def add_view(self, v, data):
if len(self.shape) > 0:
if data.shape[0] == self.data.shape[0]:
indice = self.shapes_int[v]
np.insert(self.data, data, indice+1, axis=0)
self.shapes_int.append(data.shape[1])
self.n_views +=1
else:
raise ValueError("New view can't initialazed")
# self.shapes_int= [data.shape[1]]
# self.data.reshape(data.shape[0],)
# np.insert(self.data, data, 0)
# self.n_views = 1
def get_row(self, view, row):
start = int(np.sum(np.asarray(self.shapes_int[0: view])))
stop = int(np.sum(np.asarray(self.shapes_int[0: view+1])))
return self[row, start:stop]
# def add_view(self, data):
# if len(self.shape) > 0:
# if data.shape[0] == self.data.shape[0]:
# print(self.data.shape, data.shape)
# new_data = np.hstack((self.data, data))
# self.shapes_int.append(data.shape[1])
# self.n_views +=1
# print(new_data.shape)
#
# else:
# raise ValueError("New view can't initialazed")
# # self.shapes_int= [data.shape[1]]
# # self.data.reshape(data.shape[0],)
# # np.insert(self.data, data, 0)
# # self.n_views = 1
def _todict(self):
dico = {}
......
multimodal/kernels/mkernel.py
View file @ 20d7d609
......@@ -124,22 +124,22 @@ class MKernel(metaclass=ABCMeta):
X = X_
if isinstance(X, MultiModalArray):
X_ = X
if not isinstance(X_, MultiModalArray):
try:
X_ = np.asarray(X)
X_ = MultiModalArray(X_, views_ind)
except Exception as e:
pass
# if not isinstance(X_, MultiModalArray):
# try:
# X_ = np.asarray(X)
# X_ = MultiModalArray(X_, views_ind)
# except Exception as e:
# pass
# raise TypeError('Reshape your data')
if isinstance(X_, MultiModalArray):
for v in range(X.n_views):
if Y is not None: y = Y.get_view(v) # y = self._global_check_pairwise(X, Y, v)
kernel_dict[v] = self._get_kernel(X_.get_view(v), y)
if not isinstance(X_, MultiModalArray):
if sp.sparse.issparse(X):
raise TypeError("Nonsensical Error: no sparse data are allowed as input")
raise TypeError('Reshape your data')
# if not isinstance(X_, MultiModalArray):
# if sp.sparse.issparse(X):
# raise TypeError("Nonsensical Error: no sparse data are allowed as input")
# raise TypeError('Reshape your data')
K_ = MultiModalArray(kernel_dict)
return X_, K_
......
multimodal/kernels/mvml.py
View file @ 20d7d609
......@@ -152,8 +152,7 @@ class MVML(MKernel, BaseEstimator, ClassifierMixin, RegressorMixin):
>>> clf.get_params()
{'eta': 1, 'kernel': 'linear', 'kernel_params': None, 'learn_A': 1, 'learn_w': 0, 'lmbda': 0.1, 'n_loops': 6, 'nystrom_param': 1.0, 'precision': 0.0001}
>>> clf.fit(X, y, views_ind) # doctest: +NORMALIZE_WHITESPACE
MVML(eta=1, kernel='linear', kernel_params=None, learn_A=1, learn_w=0,
lmbda=0.1, n_loops=6, nystrom_param=1.0, precision=0.0001)
MVML()
>>> print(clf.predict([[ 5., 3., 1., 1.]]))
0
......@@ -230,9 +229,10 @@ class MVML(MKernel, BaseEstimator, ClassifierMixin, RegressorMixin):
# if type_of_target(y) not in "binary":
# raise ValueError("target should be binary")
check_classification_targets(y)
if type_of_target(y) in "binary":
check_classification_targets(y)
self.classes_, y = np.unique(y, return_inverse=True)
y[y==0] = -1.0
self.n_classes = len(self.classes_)
......@@ -342,7 +342,7 @@ class MVML(MKernel, BaseEstimator, ClassifierMixin, RegressorMixin):
else:
# A_inv = self._inverse_precond_LU(A + 1e-8 * np.eye(views * self.n_approx), pos="precond_A") # self._inverse_precond_jacobi(A + 1e-8 * np.eye(views * self.n_approx), pos="precond_A")
A_inv = self._inv_best_precond(A + 1e-8 * np.eye(views * self.n_approx), pos="precond_A")
except spli.LinAlgError:
except spli.LinAlgError: # pragma: no cover
self.warning_message["LinAlgError"] = self.warning_message.get("LinAlgError", 0) + 1
try:
A_inv = spli.pinv(A + 1e-07 * np.eye(views * self.n_approx))
......@@ -352,7 +352,7 @@ class MVML(MKernel, BaseEstimator, ClassifierMixin, RegressorMixin):
except ValueError:
self.warning_message["ValueError"] = self.warning_message.get("ValueError", 0) + 1
return A_prev, g_prev
except ValueError:
except ValueError: # pragma: no cover
self.warning_message["ValueError"] = self.warning_message.get("ValueError", 0) + 1
return A_prev, g_prev, w_prev
# print("A_inv ",np.sum(A_inv))
......@@ -372,7 +372,7 @@ class MVML(MKernel, BaseEstimator, ClassifierMixin, RegressorMixin):
else:
# g = np.dot(self._inverse_precond_LU(A_inv, pos="precond_A_1"), g)
g = np.dot(self._inv_best_precond(A_inv, pos="precond_A_1"), g)
except spli.LinAlgError:
except spli.LinAlgError: # pragma: no cover
self.warning_message["LinAlgError"] = self.warning_message.get("LinAlgError", 0) + 1
g = spli.solve(A_inv, g)
......@@ -428,7 +428,7 @@ class MVML(MKernel, BaseEstimator, ClassifierMixin, RegressorMixin):
A_inv = spli.pinv(A)
return A_inv
def _inverse_precond_jacobi(self, A, pos="precond_A"):
def _inverse_precond_jacobi(self, A, pos="precond_A"): # pragma: no cover
J_1 = np.diag(1.0/np.diag(A))
# J_1 = np.linalg.inv(J)
P = np.dot(J_1, A)
......@@ -438,10 +438,9 @@ class MVML(MKernel, BaseEstimator, ClassifierMixin, RegressorMixin):
self.warning_message[pos] = self.warning_message.get(pos, 0) + 1
else:
A_inv = self._inverse_precond_LU(A, pos=pos)
return A_inv
def _inverse_precond_LU(self, A, pos="precond_A"):
def _inverse_precond_LU(self, A, pos="precond_A"): # pragma: no cover
P, L, U = spli.lu(A)
M = spli.inv(np.dot(L, U))
P = np.dot(M, A)
......@@ -606,17 +605,17 @@ class MVML(MKernel, BaseEstimator, ClassifierMixin, RegressorMixin):
try:
# minA_inv = np.min(np.absolute(A_prev)) , rcond=self.r_cond*minA_inv
A_prev_inv = spli.pinv(A_prev)
except spli.LinAlgError:
except spli.LinAlgError: # pragma: no cover
try:
A_prev_inv = spli.pinv(A_prev + 1e-6 * np.eye(views * m))
except spli.LinAlgError:
return A_prev
except ValueError:
return A_prev
except ValueError:
except ValueError: # pragma: no cover
return A_prev
if np.any(np.isnan(A_prev_inv)):
if np.any(np.isnan(A_prev_inv)): # pragma: no cover
# just in case the inverse didn't return a proper solution (happened once or twice)
return A_prev
......@@ -625,9 +624,9 @@ class MVML(MKernel, BaseEstimator, ClassifierMixin, RegressorMixin):
# if there is one small negative eigenvalue this gets rid of it
try:
val, vec = spli.eigh(A_tmp)
except spli.LinAlgError:
except spli.LinAlgError: # pragma: no cover
return A_prev
except ValueError:
except ValueError: # pragma: no cover
return A_prev
val[val < 0] = 0
......
multimodal/tests/test_combo.py
View file @ 20d7d609
......@@ -54,7 +54,7 @@ from scipy.sparse import csc_matrix, csr_matrix, coo_matrix, dok_matrix
from scipy.sparse import lil_matrix
from sklearn.model_selection import GridSearchCV
from sklearn.svm import SVC
from sklearn.ensemble.forest import RandomForestClassifier
from sklearn.ensemble import RandomForestClassifier
from sklearn.cluster import KMeans
from sklearn.linear_model import Lasso
from sklearn.tree import DecisionTreeClassifier
......@@ -64,6 +64,12 @@ from multimodal.boosting.combo import MuComboClassifier
from multimodal.tests.data.get_dataset_path import get_dataset_path
from multimodal.datasets.data_sample import MultiModalArray
class NoSampleWeightLasso(Lasso):
def fit(self, X, y, check_input=True):
return Lasso.fit(self, X, y, sample_weight=None, check_input=True)
class TestMuComboClassifier(unittest.TestCase):
@classmethod
......@@ -368,6 +374,8 @@ class TestMuComboClassifier(unittest.TestCase):
[ 4.49110023, 1., -2. ],
[ 8., 2.49110023, 1. ]]])
np.testing.assert_almost_equal(label_score, expected_label_score,6)
#
# label_score = np.array(
# [[[-1, -2, 4], [-8, 1, 4], [2, 8, -4], [2, -1, 4]],
......@@ -836,7 +844,7 @@ class TestMuComboClassifier(unittest.TestCase):
#
def test_classifier(self):
return check_estimator(MuComboClassifier)
return check_estimator(MuComboClassifier())
#
#
# def test_iris():
......@@ -957,7 +965,8 @@ class TestMuComboClassifier(unittest.TestCase):
# # Check that using a base estimator that doesn't support sample_weight
# # raises an error.
clf = MuComboClassifier(Lasso())
clf = MuComboClassifier(NoSampleWeightLasso())
self.assertRaises(ValueError, clf.fit, self.iris.data, self.iris.target, self.iris.views_ind)
# assert_raises(ValueError, clf.fit, iris.data, iris.target, iris.views_ind)
#
......
multimodal/tests/test_data_sample.py
View file @ 20d7d609
......@@ -47,6 +47,7 @@ from multimodal.tests.datasets.get_dataset_path import get_dataset_path
from multimodal.datasets.data_sample import MultiModalArray
import pickle
class UnitaryTest(unittest.TestCase):
@classmethod
......@@ -85,6 +86,44 @@ class UnitaryTest(unittest.TestCase):
array_x = a.data
b = MultiModalArray(a)
np.testing.assert_equal(b.views_ind, np.array([0, 120, 240]))
view_1 = np.random.randint(1,10,10)
view_2 = np.random.randint(1,10,11)
data = {0 : view_1,
1 : view_2,}
c = MultiModalArray(data)
np.testing.assert_array_equal(np.asarray(c[0,:]), np.concatenate((view_1, view_2)))
view_1 = np.random.randint(1, 10, 1)
data = {0: view_1, }
self.assertRaises(ValueError, MultiModalArray, data)
view_1 = np.array([0,])
data = view_1
d = MultiModalArray(data)
np.testing.assert_array_equal(d.views_ind, np.array([0,1]))
view_1 = [[0]]
data = view_1
self.assertRaises(ValueError, MultiModalArray, data)
view_1 = [[0,1,2 ],[0,1,2 ]]
data = view_1
d = MultiModalArray(data, [0,1])
np.testing.assert_array_equal(d.views_ind, np.array([0, 1]))
view_1 = [[0]]
data = view_1
self.assertRaises(ValueError, MultiModalArray, data)
def test_view_functions(self):
view_1 = np.random.randint(1, 10, (5, 10))
view_2 = np.random.randint(1, 10, (5, 10))
view_3 = np.random.randint(1, 10, (5, 10))
data = {0: view_1,
1: view_2, }
c = MultiModalArray(data)
c.set_view(1, view_3)
np.testing.assert_array_equal(c.get_view(1), view_3)
view_3 = np.random.randint(1, 10, (12, 10))
c = MultiModalArray(data)
self.assertRaises(ValueError, c.set_view, 1, view_3)
np.testing.assert_array_equal(c.get_row(0, 2), view_1[2, :])
if __name__ == '__main__':
......
multimodal/tests/test_mumbo.py
View file @ 20d7d609
......@@ -57,6 +57,7 @@ from sklearn.tree import DecisionTreeClassifier
from sklearn import datasets
from multimodal.boosting.mumbo import MumboClassifier
from multimodal.tests.test_combo import NoSampleWeightLasso
class TestMumboClassifier(unittest.TestCase):
......@@ -730,7 +731,7 @@ class TestMumboClassifier(unittest.TestCase):
# e = MumboClassifier()
# e.fit(X_zero_features, y)