# Release history¶

## Version 0.19¶

**Release Candidate (0.19b2) July 17, 2017**

### Highlights¶

We are excited to release a number of great new features including
`neighbors.LocalOutlierFactor`

for anomaly detection,
`preprocessing.QuantileTransformer`

for robust feature transformation,
and the `multioutput.ClassifierChain`

meta-estimator to simply account
for dependencies between classes in multilabel problems. We have some new
algorithms in existing estimators, such as multiplicative update in
`decomposition.NMF`

and multinomial
`linear_model.LogisticRegression`

with L1 loss (use `solver='saga'`

).

Cross validation is now able to return the results from multiple metric
evaluations. The new `model_selection.cross_validate`

can return many
scores on the test data as well as training set performance and timings, and we
have extended the `scoring`

and `refit`

parameters for grid/randomized
search to handle multiple metrics.

You can also learn faster. For instance, the new option to cache
transformations in `pipeline.Pipeline`

makes grid
search over pipelines including slow transformations much more efficient. And
you can predict faster: if you’re sure you know what you’re doing, you can turn
off validating that the input is finite using `config_context`

.

We’ve made some important fixes too. We’ve fixed a longstanding implementation
error in `metrics.average_precision_score`

, so please be cautious with
prior results reported from that function. A number of errors in the
`manifold.TSNE`

implementation have been fixed, particularly in the
default Barnes-Hut approximation. `semi_supervised.LabelSpreading`

and
`semi_supervised.LabelPropagation`

have had substantial fixes.
LabelPropagation was previously broken. LabelSpreading should now correctly
respect its alpha parameter.

### Changed models¶

The following estimators and functions, when fit with the same data and parameters, may produce different models from the previous version. This often occurs due to changes in the modelling logic (bug fixes or enhancements), or in random sampling procedures.

`cluster.KMeans`

with sparse X and initial centroids given (bug fix)`cross_decomposition.PLSRegression`

with`scale=True`

(bug fix)`ensemble.GradientBoostingClassifier`

and`ensemble.GradientBoostingRegressor`

where`min_impurity_split`

is used (bug fix)- gradient boosting
`loss='quantile'`

(bug fix)`ensemble.IsolationForest`

(bug fix)`feature_selection.SelectFdr`

(bug fix)`linear_model.RANSACRegressor`

(bug fix)`linear_model.LassoLars`

(bug fix)`linear_model.LassoLarsIC`

(bug fix)`manifold.TSNE`

(bug fix)`semi_supervised.LabelSpreading`

(bug fix)`semi_supervised.LabelPropagation`

(bug fix)- tree based models where
`min_weight_fraction_leaf`

is used (enhancement)

Details are listed in the changelog below.

(While we are trying to better inform users by providing this information, we cannot assure that this list is complete.)

### Changelog¶

#### New features¶

Classifiers and regressors

- Added
`multioutput.ClassifierChain`

for multi-label classification. By Adam Kleczewski.- Added solver
`'saga'`

that implements the improved version of Stochastic Average Gradient, in`linear_model.LogisticRegression`

and`linear_model.Ridge`

. It allows the use of L1 penalty with multinomial logistic loss, and behaves marginally better than ‘sag’ during the first epochs of ridge and logistic regression. #8446 by Arthur Mensch.

Other estimators

- Added the
`neighbors.LocalOutlierFactor`

class for anomaly detection based on nearest neighbors. #5279 by Nicolas Goix and Alexandre Gramfort.- Added
`preprocessing.QuantileTransformer`

class and`preprocessing.quantile_transform`

function for features normalization based on quantiles. #8363 by Denis Engemann, Guillaume Lemaitre, Olivier Grisel, Raghav RV, Thierry Guillemot, and Gael Varoquaux.- The new solver
`'mu'`

implements a Multiplicate Update in`decomposition.NMF`

, allowing the optimization of all beta-divergences, including the Frobenius norm, the generalized Kullback-Leibler divergence and the Itakura-Saito divergence. #5295 by Tom Dupre la Tour.

Model selection and evaluation

`model_selection.GridSearchCV`

and`model_selection.RandomizedSearchCV`

now support simultaneous evaluation of multiple metrics. Refer to the Specifying multiple metrics for evaluation section of the user guide for more information. #7388 by Raghav RV- Added the
`model_selection.cross_validate`

which allows evaluation of multiple metrics. This function returns a dict with more useful information from cross-validation such as the train scores, fit times and score times. Refer to The cross_validate function and multiple metric evaluation section of the userguide for more information. #7388 by Raghav RV- Added
`metrics.mean_squared_log_error`

, which computes the mean square error of the logarithmic transformation of targets, particularly useful for targets with an exponential trend. #7655 by Karan Desai.- Added
`metrics.dcg_score`

and`metrics.ndcg_score`

, which compute Discounted cumulative gain (DCG) and Normalized discounted cumulative gain (NDCG). #7739 by David Gasquez.- Added the
`model_selection.RepeatedKFold`

and`model_selection.RepeatedStratifiedKFold`

. #8120 by Neeraj Gangwar.

Miscellaneous

- Validation that input data contains no NaN or inf can now be suppressed using
`config_context`

, at your own risk. This will save on runtime, and may be particularly useful for prediction time. #7548 by Joel Nothman.- Added a test to ensure parameter listing in docstrings match the function/class signature. #9206 by Alexandre Gramfort and Raghav RV.

#### Enhancements¶

Trees and ensembles

- The
`min_weight_fraction_leaf`

constraint in tree construction is now more efficient, taking a fast path to declare a node a leaf if its weight is less than 2 * the minimum. Note that the constructed tree will be different from previous versions where`min_weight_fraction_leaf`

is used. #7441 by Nelson Liu.`ensemble.GradientBoostingClassifier`

and`ensemble.GradientBoostingRegressor`

now support sparse input for prediction. #6101 by Ibraim Ganiev.`ensemble.VotingClassifier`

now allows changing estimators by using`ensemble.VotingClassifier.set_params`

. An estimator can also be removed by setting it to`None`

. #7674 by Yichuan Liu.`tree.export_graphviz`

now shows configurable number of decimal places. #8698 by Guillaume Lemaitre.

Linear, kernelized and related models

`linear_model.SGDClassifier`

,`linear_model.SGDRegressor`

,`linear_model.PassiveAggressiveClassifier`

,`linear_model.PassiveAggressiveRegressor`

and`linear_model.Perceptron`

now expose`max_iter`

and`tol`

parameters, to handle convergence more precisely.`n_iter`

parameter is deprecated, and the fitted estimator exposes a`n_iter_`

attribute, with actual number of iterations before convergence. #5036 by Tom Dupre la Tour.- Added
`average`

parameter to perform weight averaging in`linear_model.PassiveAggressiveClassifier`

. #4939 by Andrea Esuli.`linear_model.RANSACRegressor`

no longer throws an error when calling`fit`

if no inliers are found in its first iteration. Furthermore, causes of skipped iterations are tracked in newly added attributes,`n_skips_*`

. #7914 by Michael Horrell.- In
`gaussian_process.GaussianProcessRegressor`

, method`predict`

is a lot faster with`return_std=True`

. #8591 by Hadrien Bertrand.- Added
`return_std`

to`predict`

method of`linear_model.ARDRegression`

and`linear_model.BayesianRidge`

. #7838 by Sergey Feldman.- Memory usage enhancements: Prevent cast from float32 to float64 in:
`linear_model.MultiTaskElasticNet`

;`linear_model.LogisticRegression`

when using newton-cg solver; and`linear_model.Ridge`

when using svd, sparse_cg, cholesky or lsqr solvers. #8835, #8061 by Joan Massich and Nicolas Cordier and Thierry Guillemot.

Other predictors

- Custom metrics for the
`neighbors`

binary trees now have fewer constraints: they must take two 1d-arrays and return a float. #6288 by Jake Vanderplas.`algorithm='auto`

in`neighbors`

estimators now chooses the most appropriate algorithm for all input types and metrics. #9145 by Herilalaina Rakotoarison and Reddy Chinthala.

Decomposition, manifold learning and clustering

`cluster.MiniBatchKMeans`

and`cluster.KMeans`

now use significantly less memory when assigning data points to their nearest cluster center. #7721 by Jon Crall.`decomposition.PCA`

,`decomposition.IncrementalPCA`

and`decomposition.TruncatedSVD`

now expose the singular values from the underlying SVD. They are stored in the attribute`singular_values_`

, like in`decomposition.IncrementalPCA`

. #7685 by Tommy Löfstedt`decomposition.NMF`

now faster when`beta_loss=0`

. #9277 by @hongkahjun.- Memory improvements for method
`barnes_hut`

in`manifold.TSNE`

#7089 by Thomas Moreau and Olivier Grisel.- Optimization schedule improvements for Barnes-Hut
`manifold.TSNE`

so the results are closer to the one from the reference implementation lvdmaaten/bhtsne by Thomas Moreau and Olivier Grisel.- Memory usage enhancements: Prevent cast from float32 to float64 in
`decomposition.PCA`

and`decomposition.randomized_svd_low_rank`

. #9067 by Raghav RV.

Preprocessing and feature selection

- Added
`norm_order`

parameter to`feature_selection.SelectFromModel`

to enable selection of the norm order when`coef_`

is more than 1D. #6181 by Antoine Wendlinger.- Added ability to use sparse matrices in
`feature_selection.f_regression`

with`center=True`

. #8065 by Daniel LeJeune.- Small performance improvement to n-gram creation in
`feature_extraction.text`

by binding methods for loops and special-casing unigrams. #7567 by Jaye Doepke- Relax assumption on the data for the
`kernel_approximation.SkewedChi2Sampler`

. Since the Skewed-Chi2 kernel is defined on the open interval , the transform function should not check whether`X < 0`

but whether`X < -self.skewedness`

. #7573 by Romain Brault.- Made default kernel parameters kernel-dependent in
`kernel_approximation.Nystroem`

. #5229 by Saurabh Bansod and Andreas Müller.

Model evaluation and meta-estimators

`pipeline.Pipeline`

is now able to cache transformers within a pipeline by using the`memory`

constructor parameter. #7990 by Guillaume Lemaitre.`pipeline.Pipeline`

steps can now be accessed as attributes of its`named_steps`

attribute. #8586 by Herilalaina Rakotoarison.- Added
`sample_weight`

parameter to`pipeline.Pipeline.score`

. #7723 by Mikhail Korobov.- Added ability to set
`n_jobs`

parameter to`pipeline.make_union`

. A`TypeError`

will be raised for any other kwargs. #8028 by Alexander Booth.`model_selection.GridSearchCV`

,`model_selection.RandomizedSearchCV`

and`model_selection.cross_val_score`

now allow estimators with callable kernels which were previously prohibited. #8005 by Andreas Müller .`model_selection.cross_val_predict`

now returns output of the correct shape for all values of the argument`method`

. #7863 by Aman Dalmia.- Added
`shuffle`

and`random_state`

parameters to shuffle training data before taking prefixes of it based on training sizes in`model_selection.learning_curve`

. #7506 by Narine Kokhlikyan.`model_selection.StratifiedShuffleSplit`

now works with multioutput multiclass (or multilabel) data. #9044 by Vlad Niculae.- Speed improvements to
`model_selection.StratifiedShuffleSplit`

. #5991 by Arthur Mensch and Joel Nothman.- Add
`shuffle`

parameter to`model_selection.train_test_split`

. #8845 by themrmax`multioutput.MultiOutputRegressor`

and`multioutput.MultiOutputClassifier`

now support online learning using`partial_fit`

. #8053 by Peng Yu.- Add
`max_train_size`

parameter to`model_selection.TimeSeriesSplit`

#8282 by Aman Dalmia.- More clustering metrics are now available through
`metrics.get_scorer`

and`scoring`

parameters. #8117 by Raghav RV.

Metrics

`metrics.matthews_corrcoef`

now support multiclass classification. #8094 by Jon Crall.- Add
`sample_weight`

parameter to`metrics.cohen_kappa_score`

. #8335 by Victor Poughon.

Miscellaneous

`utils.check_estimator`

now attempts to ensure that methods transform, predict, etc. do not set attributes on the estimator. #7533 by Ekaterina Krivich.- Added type checking to the
`accept_sparse`

parameter in`utils.validation`

methods. This parameter now accepts only boolean, string, or list/tuple of strings.`accept_sparse=None`

is deprecated and should be replaced by`accept_sparse=False`

. #7880 by Josh Karnofsky.- Make it possible to load a chunk of an svmlight formatted file by passing a range of bytes to
`datasets.load_svmlight_file`

. #935 by Olivier Grisel.`dummy.DummyClassifier`

and`dummy.DummyRegressor`

now accept non-finite features. #8931 by @Attractadore.

#### Bug fixes¶

Trees and ensembles

- Fixed a memory leak in trees when using trees with
`criterion='mae'`

. #8002 by Raghav RV.- Fixed a bug where
`ensemble.IsolationForest`

uses an an incorrect formula for the average path length #8549 by Peter Wang.- Fixed a bug where
`ensemble.AdaBoostClassifier`

throws`ZeroDivisionError`

while fitting data with single class labels. #7501 by Dominik Krzeminski.- Fixed a bug in
`ensemble.GradientBoostingClassifier`

and`ensemble.GradientBoostingRegressor`

where a float being compared to`0.0`

using`==`

caused a divide by zero error. #7970 by He Chen.- Fix a bug where
`ensemble.GradientBoostingClassifier`

and`ensemble.GradientBoostingRegressor`

ignored the`min_impurity_split`

parameter. #8006 by Sebastian Pölsterl.- Fixed
`oob_score`

in`ensemble.BaggingClassifier`

. #8936 by Michael Lewis- Fixed excessive memory usage in prediction for random forests estimators. #8672 by Mike Benfield.
- Fixed a bug where
`sample_weight`

as a list broke random forests in Python 2 #8068 by @xor.- Fixed a bug where
`ensemble.IsolationForest`

fails when`max_features`

is less than 1. #5732 by Ishank Gulati.- Fix a bug where gradient boosting with
`loss='quantile'`

computed negative errors for negative values of`ytrue - ypred`

leading to wrong values when calling`__call__`

. #8087 by Alexis Mignon- Fix a bug where
`ensemble.VotingClassifier`

raises an error when a numpy array is passed in for weights. #7983 by Vincent Pham.- Fixed a bug where
`tree.export_graphviz`

raised an error when the length of features_names does not match n_features in the decision tree. #8512 by Li Li.

Linear, kernelized and related models

- Fixed a bug where
`linear_model.RANSACRegressor.fit`

may run until`max_iter`

if it finds a large inlier group early. #8251 by @aivision2020.- Fixed a bug where
`naive_bayes.MultinomialNB`

and`naive_bayes.BernoulliNB`

failed when`alpha=0`

. #5814 by Yichuan Liu and Herilalaina Rakotoarison.- Fixed a bug where
`linear_model.LassoLars`

does not give the same result as the LassoLars implementation available in R (lars library). #7849 by Jair Montoya Martinez.- Fixed a bug in
`linear_model.RandomizedLasso`

,`linear_model.Lars`

,`linear_model.LassoLars`

,`linear_model.LarsCV`

and`linear_model.LassoLarsCV`

, where the parameter`precompute`

was not used consistently across classes, and some values proposed in the docstring could raise errors. #5359 by Tom Dupre la Tour.- Fix inconsistent results between
`linear_model.RidgeCV`

and`linear_model.Ridge`

when using`normalize=True`

. #9302 by Alexandre Gramfort.- Fix a bug where
`linear_model.LassoLars.fit`

sometimes left`coef_`

as a list, rather than an ndarray. #8160 by CJ Carey.- Fix
`linear_model.BayesianRidge.fit`

to return ridge parameter`alpha_`

and`lambda_`

consistent with calculated coefficients`coef_`

and`intercept_`

. #8224 by Peter Gedeck.- Fixed a bug in
`svm.OneClassSVM`

where it returned floats instead of integer classes. #8676 by Vathsala Achar.- Fix AIC/BIC criterion computation in
`linear_model.LassoLarsIC`

. #9022 by Alexandre Gramfort and Mehmet Basbug.- Fixed a memory leak in our LibLinear implementation. #9024 by Sergei Lebedev
- Fix bug where stratified CV splitters did not work with
`linear_model.LassoCV`

. #8973 by Paulo Haddad.- Fixed a bug in
`gaussian_process.GaussianProcessRegressor`

when the standard deviation and covariance predicted without fit would fail with a unmeaningful error by default. #6573 by Quazi Marufur Rahman and Manoj Kumar.

Other predictors

- Fix
`semi_supervised.BaseLabelPropagation`

to correctly implement`LabelPropagation`

and`LabelSpreading`

as done in the referenced papers. #9239 by Andre Ambrosio Boechat, Utkarsh Upadhyay, and Joel Nothman.

Decomposition, manifold learning and clustering

- Fixed the implementation of
`manifold.TSNE`

:

`early_exageration`

parameter had no effect and is now used for the first 250 optimization iterations.- Fixed the
`AssertionError: Tree consistency failed`

exception reported in #8992.- Improve the learning schedule to match the one from the reference implementation lvdmaaten/bhtsne.
by Thomas Moreau and Olivier Grisel.

Fix a bug in

`decomposition.LatentDirichletAllocation`

where the`perplexity`

method was returning incorrect results because the`transform`

method returns normalized document topic distributions as of version 0.18. #7954 by Gary Foreman.Fix output shape and bugs with n_jobs > 1 in

`decomposition.SparseCoder`

transform and`decomposition.sparse_encode`

for one-dimensional data and one component. This also impacts the output shape of`decomposition.DictionaryLearning`

. #8086 by Andreas Müller.Fixed the implementation of

`explained_variance_`

in`decomposition.PCA`

,`decomposition.RandomizedPCA`

and`decomposition.IncrementalPCA`

. #9105 by Hanmin Qin.Fixed a bug where

`cluster.DBSCAN`

gives incorrect result when input is a precomputed sparse matrix with initial rows all zero. #8306 by Akshay GuptaFix a bug regarding fitting

`cluster.KMeans`

with a sparse array X and initial centroids, where X’s means were unnecessarily being subtracted from the centroids. #7872 by Josh Karnofsky.Fixes to the input validation in

`covariance.EllipticEnvelope`

. #8086 by Andreas Müller.Fixed a bug in

`covariance.MinCovDet`

where inputting data that produced a singular covariance matrix would cause the helper method`_c_step`

to throw an exception. #3367 by Jeremy StewardFixed a bug in

`manifold.TSNE`

affecting convergence of the gradient descent. #8768 by David DeTomaso.Fixed a bug in

`manifold.TSNE`

where it stored the incorrect`kl_divergence_`

. #6507 by Sebastian Saeger.Fixed improper scaling in

`cross_decomposition.PLSRegression`

with`scale=True`

. #7819 by jayzed82.

`cluster.bicluster.SpectralCoclustering`

and`cluster.bicluster.SpectralBiclustering`

`fit`

method conforms with API by accepting`y`

and returning the object. #6126, #7814 by Laurent Direr and Maniteja Nandana.Fix bug where

`mixture`

`sample`

methods did not return as many samples as requested. #7702 by Levi John Wolf.

Preprocessing and feature selection

- For sparse matrices,
`preprocessing.normalize`

with`return_norm=True`

will now raise a`NotImplementedError`

with ‘l1’ or ‘l2’ norm and with norm ‘max’ the norms returned will be the same as for dense matrices. #7771 by Ang Lu.- Fix a bug where
`feature_selection.SelectFdr`

did not exactly implement Benjamini-Hochberg procedure. It formerly may have selected fewer features than it should. #7490 by Peng Meng.- Fixed a bug where
`linear_model.RandomizedLasso`

and`linear_model.RandomizedLogisticRegression`

breaks for sparse input. #8259 by Aman Dalmia.- Fix a bug where
`feature_extraction.FeatureHasher`

mandatorily applied a sparse random projection to the hashed features, preventing the use of`feature_extraction.text.HashingVectorizer`

in a pipeline with`feature_extraction.text.TfidfTransformer`

. #7565 by Roman Yurchak.- Fix a bug where
`feature_selection.mutual_info_regression`

did not correctly use`n_neighbors`

. #8181 by Guillaume Lemaitre.

Model evaluation and meta-estimators

- Fixed a bug where
`model_selection.BaseSearchCV.inverse_transform`

returns`self.best_estimator_.transform()`

instead of`self.best_estimator_.inverse_transform()`

. #8344 by Akshay Gupta and Rasmus Eriksson.- Added
`classes_`

attribute to`model_selection.GridSearchCV`

,`model_selection.RandomizedSearchCV`

,`grid_search.GridSearchCV`

, and`grid_search.RandomizedSearchCV`

that matches the`classes_`

attribute of`best_estimator_`

. #7661 and #8295 by Alyssa Batula, Dylan Werner-Meier, and Stephen Hoover.- Fixed a bug where
`model_selection.validation_curve`

reused the same estimator for each parameter value. #7365 by Aleksandr Sandrovskii.`model_selection.permutation_test_score`

now works with Pandas types. #5697 by Stijn Tonk.- Several fixes to input validation in
`multiclass.OutputCodeClassifier`

#8086 by Andreas Müller.`multiclass.OneVsOneClassifier`

’s`partial_fit`

now ensures all classes are provided up-front. #6250 by Asish Panda.- Fix
`multioutput.MultiOutputClassifier.predict_proba`

to return a list of 2d arrays, rather than a 3d array. In the case where different target columns had different numbers of classes, a`ValueError`

would be raised on trying to stack matrices with different dimensions. #8093 by Peter Bull.

Metrics

`metrics.average_precision_score`

no longer linearly interpolates between operating points, and instead weighs precisions by the change in recall since the last operating point, as per the Wikipedia entry. (#7356). By Nick Dingwall and Gael Varoquaux.- Fix a bug in
`metrics.classification._check_targets`

which would return`'binary'`

if`y_true`

and`y_pred`

were both`'binary'`

but the union of`y_true`

and`y_pred`

was`'multiclass'`

. #8377 by Loic Esteve.- Fixed an integer overflow bug in
`metrics.confusion_matrix`

and hence`metrics.cohen_kappa_score`

. #8354, #7929 by Joel Nothman and Jon Crall.- Fixed passing of
`gamma`

parameter to the`chi2`

kernel in`metrics.pairwise.pairwise_kernels`

#5211 by Nick Rhinehart, Saurabh Bansod and Andreas Müller.

Miscellaneous

- Fixed a bug when
`datasets.make_classification`

fails when generating more than 30 features. #8159 by Herilalaina Rakotoarison.- Fixed a bug where
`datasets.make_moons`

gives an incorrect result when`n_samples`

is odd. #8198 by Josh Levy.- Some
`fetch_`

functions in`datasets`

were ignoring the`download_if_missing`

keyword. #7944 by Ralf Gommers.- Fix estimators to accept a
`sample_weight`

parameter of type`pandas.Series`

in their`fit`

function. #7825 by Kathleen Chen.- Fix a bug in cases where
`numpy.cumsum`

may be numerically unstable, raising an exception if instability is identified. #7376 and #7331 by Joel Nothman and @yangarbiter.- Fix a bug where
`base.BaseEstimator.__getstate__`

obstructed pickling customizations of child-classes, when used in a multiple inheritance context. #8316 by Holger Peters.- Update Sphinx-Gallery from 0.1.4 to 0.1.7 for resolving links in documentation build with Sphinx>1.5 #8010, #7986 by Oscar Najera
- Add
`data_home`

parameter to`sklearn.datasets.fetch_kddcup99`

. #9289 by Loic Esteve.- Fix dataset loaders using Python 3 version of makedirs to also work in Python 2. #9284 by Sebastin Santy.
- Several minor issues were fixed with thanks to the alerts of [lgtm.com](http://lgtm.com). #9278 by Jean Helie, among others.

### API changes summary¶

Trees and ensembles

- Gradient boosting base models are no longer estimators. By Andreas Müller.
- All tree based estimators now accept a
`min_impurity_decrease`

parameter in lieu of the`min_impurity_split`

, which is now deprecated. The`min_impurity_decrease`

helps stop splitting the nodes in which the weighted impurity decrease from splitting is no longer alteast`min_impurity_decrease`

. #8449 by Raghav RV.

Linear, kernelized and related models

`n_iter`

parameter is deprecated in`linear_model.SGDClassifier`

,`linear_model.SGDRegressor`

,`linear_model.PassiveAggressiveClassifier`

,`linear_model.PassiveAggressiveRegressor`

and`linear_model.Perceptron`

. By Tom Dupre la Tour.

Other predictors

`neighbors.LSHForest`

has been deprecated and will be removed in 0.21 due to poor performance. #9078 by Laurent Direr.`neighbors.NearestCentroid`

no longer purports to support`metric='precomputed'`

which now raises an error. #8515 by Sergul Aydore.- The
`alpha`

parameter of`semi_supervised.LabelPropagation`

now has no effect and is deprecated to be removed in 0.21. #9239 by Andre Ambrosio Boechat, Utkarsh Upadhyay, and Joel Nothman.

Decomposition, manifold learning and clustering

- Deprecate the
`doc_topic_distr`

argument of the`perplexity`

method in`decomposition.LatentDirichletAllocation`

because the user no longer has access to the unnormalized document topic distribution needed for the perplexity calculation. #7954 by Gary Foreman.- The
`n_topics`

parameter of`decomposition.LatentDirichletAllocation`

has been renamed to`n_components`

and will be removed in version 0.21. #8922 by @Attractadore.`decomposition.SparsePCA.transform`

’s`ridge_alpha`

parameter is deprecated in preference for class parameter. #8137 by Naoya Kanai.`cluster.DBSCAN`

now has a`metric_params`

parameter. #8139 by Naoya Kanai.

Preprocessing and feature selection

`feature_selection.SelectFromModel`

now has a`partial_fit`

method only if the underlying estimator does. By Andreas Müller.`feature_selection.SelectFromModel`

now validates the`threshold`

parameter and sets the`threshold_`

attribute during the call to`fit`

, and no longer during the call to`transform``

. By Andreas Müller.- The
`non_negative`

parameter in`feature_extraction.FeatureHasher`

has been deprecated, and replaced with a more principled alternative,`alternate_sign`

. #7565 by Roman Yurchak.`linear_model.RandomizedLogisticRegression`

, and`linear_model.RandomizedLasso`

have been deprecated and will be removed in version 0.21. #8995 by Ramana.S.

Model evaluation and meta-estimators

- Deprecate the
`fit_params`

constructor input to the`model_selection.GridSearchCV`

and`model_selection.RandomizedSearchCV`

in favor of passing keyword parameters to the`fit`

methods of those classes. Data-dependent parameters needed for model training should be passed as keyword arguments to`fit`

, and conforming to this convention will allow the hyperparameter selection classes to be used with tools such as`model_selection.cross_val_predict`

. #2879 by Stephen Hoover.- In version 0.21, the default behavior of splitters that use the
`test_size`

and`train_size`

parameter will change, such that specifying`train_size`

alone will cause`test_size`

to be the remainder. #7459 by Nelson Liu.`multiclass.OneVsRestClassifier`

now has`partial_fit`

,`decision_function`

and`predict_proba`

methods only when the underlying estimator does. #7812 by Andreas Müller and Mikhail Korobov.`multiclass.OneVsRestClassifier`

now has a`partial_fit`

method only if the underlying estimator does. By Andreas Müller.- The
`decision_function`

output shape for binary classification in`multiclass.OneVsRestClassifier`

and`multiclass.OneVsOneClassifier`

is now`(n_samples,)`

to conform to scikit-learn conventions. #9100 by Andreas Müller.- The
`multioutput.MultiOutputClassifier.predict_proba`

function used to return a 3d array (`n_samples`

,`n_classes`

,`n_outputs`

). In the case where different target columns had different numbers of classes, a`ValueError`

would be raised on trying to stack matrices with different dimensions. This function now returns a list of arrays where the length of the list is`n_outputs`

, and each array is (`n_samples`

,`n_classes`

) for that particular output. #8093 by Peter Bull.- Replace attribute
`named_steps`

`dict`

to`utils.Bunch`

in`pipeline.Pipeline`

to enable tab completion in interactive environment. In the case conflict value on`named_steps`

and`dict`

attribute,`dict`

behavior will be prioritized. #8481 by Herilalaina Rakotoarison.

Miscellaneous

Deprecate the

`y`

parameter in`transform`

and`inverse_transform`

. The method should not accept`y`

parameter, as it’s used at the prediction time. #8174 by Tahar Zanouda, Alexandre Gramfort and Raghav RV.SciPy >= 0.13.3 and NumPy >= 1.8.2 are now the minimum supported versions for scikit-learn. The following backported functions in

`utils`

have been removed or deprecated accordingly. #8854 and #8874 by Naoya KanaiRemoved in 0.19:

`utils.fixes.argpartition`

`utils.fixes.array_equal`

`utils.fixes.astype`

`utils.fixes.bincount`

`utils.fixes.expit`

`utils.fixes.frombuffer_empty`

`utils.fixes.in1d`

`utils.fixes.norm`

`utils.fixes.rankdata`

`utils.fixes.safe_copy`

Deprecated in 0.19, to be removed in 0.21:

`utils.arpack.eigs`

`utils.arpack.eigsh`

`utils.arpack.svds`

`utils.extmath.fast_dot`

`utils.extmath.logsumexp`

`utils.extmath.norm`

`utils.extmath.pinvh`

`utils.graph.graph_laplacian`

`utils.random.choice`

`utils.sparsetools.connected_components`

`utils.stats.rankdata`

Estimators with both methods

`decision_function`

and`predict_proba`

are now required to have a monotonic relation between them. The method`check_decision_proba_consistency`

has been added inutils.estimator_checksto check their consistency. #7578 by Shubham BhardwajAll checks in

`utils.estimator_checks`

, in particular`utils.estimator_checks.check_estimator`

now accept estimator instances. Most other checks do not accept estimator classes any more. #9019 by Andreas Müller.Ensure that estimators’ attributes ending with

`_`

are not set in the constructor but only in the`fit`

method. Most notably, ensemble estimators (deriving from`ensemble.BaseEnsemble`

) now only have`self.estimators_`

available after`fit`

. #7464 by Lars Buitinck and Loic Esteve.

## Version 0.18.2¶

**June 20, 2017**

Last release with Python 2.6 support

Scikit-learn 0.18 is the last major release of scikit-learn to support Python 2.6. Later versions of scikit-learn will require Python 2.7 or above.

### Changelog¶

### Code Contributors¶

Aman Dalmia, Loic Esteve, Nate Guerin, Sergei Lebedev

## Version 0.18.1¶

**November 11, 2016**

### Changelog¶

#### Enhancements¶

Improved

`sample_without_replacement`

speed by utilizing numpy.random.permutation for most cases. As a result, samples may differ in this release for a fixed random state. Affected estimators:

`ensemble.BaggingClassifier`

`ensemble.BaggingRegressor`

`linear_model.RANSACRegressor`

`model_selection.RandomizedSearchCV`

`random_projection.SparseRandomProjection`

This also affects the

`datasets.make_classification`

method.

#### Bug fixes¶

- Fix issue where
`min_grad_norm`

and`n_iter_without_progress`

parameters were not being utilised by`manifold.TSNE`

. #6497 by Sebastian Säger- Fix bug for svm’s decision values when
`decision_function_shape`

is`ovr`

in`svm.SVC`

.`svm.SVC`

’s decision_function was incorrect from versions 0.17.0 through 0.18.0. #7724 by Bing Tian Dai- Attribute
`explained_variance_ratio`

of`discriminant_analysis.LinearDiscriminantAnalysis`

calculated with SVD and Eigen solver are now of the same length. #7632 by JPFrancoia- Fixes issue in Univariate feature selection where score functions were not accepting multi-label targets. #7676 by Mohammed Affan
- Fixed setting parameters when calling
`fit`

multiple times on`feature_selection.SelectFromModel`

. #7756 by Andreas Müller- Fixes issue in
`partial_fit`

method of`multiclass.OneVsRestClassifier`

when number of classes used in`partial_fit`

was less than the total number of classes in the data. #7786 by Srivatsan Ramesh- Fixes issue in
`calibration.CalibratedClassifierCV`

where the sum of probabilities of each class for a data was not 1, and`CalibratedClassifierCV`

now handles the case where the training set has less number of classes than the total data. #7799 by Srivatsan Ramesh- Fix a bug where
`sklearn.feature_selection.SelectFdr`

did not exactly implement Benjamini-Hochberg procedure. It formerly may have selected fewer features than it should. #7490 by Peng Meng.`sklearn.manifold.LocallyLinearEmbedding`

now correctly handles integer inputs. #6282 by Jake Vanderplas.- The
`min_weight_fraction_leaf`

parameter of tree-based classifiers and regressors now assumes uniform sample weights by default if the`sample_weight`

argument is not passed to the`fit`

function. Previously, the parameter was silently ignored. #7301 by Nelson Liu.- Numerical issue with
`linear_model.RidgeCV`

on centered data when n_features > n_samples. #6178 by Bertrand Thirion- Tree splitting criterion classes’ cloning/pickling is now memory safe #7680 by Ibraim Ganiev.
- Fixed a bug where
`decomposition.NMF`

sets its`n_iters_`

attribute in transform(). #7553 by Ekaterina Krivich.`sklearn.linear_model.LogisticRegressionCV`

now correctly handles string labels. #5874 by Raghav RV.- Fixed a bug where
`sklearn.model_selection.train_test_split`

raised an error when`stratify`

is a list of string labels. #7593 by Raghav RV.- Fixed a bug where
`sklearn.model_selection.GridSearchCV`

and`sklearn.model_selection.RandomizedSearchCV`

were not pickleable because of a pickling bug in`np.ma.MaskedArray`

. #7594 by Raghav RV.- All cross-validation utilities in
`sklearn.model_selection`

now permit one time cross-validation splitters for the`cv`

parameter. Also non-deterministic cross-validation splitters (where multiple calls to`split`

produce dissimilar splits) can be used as`cv`

parameter. The`sklearn.model_selection.GridSearchCV`

will cross-validate each parameter setting on the split produced by the first`split`

call to the cross-validation splitter. #7660 by Raghav RV.- Fix bug where
`preprocessing.MultiLabelBinarizer.fit_transform`

returned an invalid CSR matrix. #7750 by CJ Carey.- Fixed a bug where
`metrics.pairwise.cosine_distances`

could return a small negative distance. #7732 by Artsion.

### API changes summary¶

Trees and forests

- The
`min_weight_fraction_leaf`

parameter of tree-based classifiers and regressors now assumes uniform sample weights by default if the`sample_weight`

argument is not passed to the`fit`

function. Previously, the parameter was silently ignored. #7301 by Nelson Liu.- Tree splitting criterion classes’ cloning/pickling is now memory safe. #7680 by Ibraim Ganiev.

Linear, kernelized and related models

- Length of
`explained_variance_ratio`

of`discriminant_analysis.LinearDiscriminantAnalysis`

changed for both Eigen and SVD solvers. The attribute has now a length of min(n_components, n_classes - 1). #7632 by JPFrancoia- Numerical issue with
`linear_model.RidgeCV`

on centered data when`n_features > n_samples`

. #6178 by Bertrand Thirion

## Version 0.18¶

**September 28, 2016**

Last release with Python 2.6 support

Scikit-learn 0.18 will be the last version of scikit-learn to support Python 2.6. Later versions of scikit-learn will require Python 2.7 or above.

### Model Selection Enhancements and API Changes¶

The model_selection moduleThe new module

`sklearn.model_selection`

, which groups together the functionalities of formerly`sklearn.cross_validation`

,`sklearn.grid_search`

and`sklearn.learning_curve`

, introduces new possibilities such as nested cross-validation and better manipulation of parameter searches with Pandas.Many things will stay the same but there are some key differences. Read below to know more about the changes.

Data-independent CV splitters enabling nested cross-validationThe new cross-validation splitters, defined in the

`sklearn.model_selection`

, are no longer initialized with any data-dependent parameters such as`y`

. Instead they expose a`split`

method that takes in the data and yields a generator for the different splits.This change makes it possible to use the cross-validation splitters to perform nested cross-validation, facilitated by

`model_selection.GridSearchCV`

and`model_selection.RandomizedSearchCV`

utilities.

The enhanced cv_results_ attributeThe new

`cv_results_`

attribute (of`model_selection.GridSearchCV`

and`model_selection.RandomizedSearchCV`

) introduced in lieu of the`grid_scores_`

attribute is a dict of 1D arrays with elements in each array corresponding to the parameter settings (i.e. search candidates).The

`cv_results_`

dict can be easily imported into`pandas`

as a`DataFrame`

for exploring the search results.The

`cv_results_`

arrays include scores for each cross-validation split (with keys such as`'split0_test_score'`

), as well as their mean (`'mean_test_score'`

) and standard deviation (`'std_test_score'`

).The ranks for the search candidates (based on their mean cross-validation score) is available at

`cv_results_['rank_test_score']`

.The parameter values for each parameter is stored separately as numpy masked object arrays. The value, for that search candidate, is masked if the corresponding parameter is not applicable. Additionally a list of all the parameter dicts are stored at

`cv_results_['params']`

.

Parameters n_folds and n_iter renamed to n_splitsSome parameter names have changed: The

`n_folds`

parameter in new`model_selection.KFold`

,`model_selection.GroupKFold`

(see below for the name change), and`model_selection.StratifiedKFold`

is now renamed to`n_splits`

. The`n_iter`

parameter in`model_selection.ShuffleSplit`

, the new class`model_selection.GroupShuffleSplit`

and`model_selection.StratifiedShuffleSplit`

is now renamed to`n_splits`

.

Rename of splitter classes which accepts group labels along with dataThe cross-validation splitters

`LabelKFold`

,`LabelShuffleSplit`

,`LeaveOneLabelOut`

and`LeavePLabelOut`

have been renamed to`model_selection.GroupKFold`

,`model_selection.GroupShuffleSplit`

,`model_selection.LeaveOneGroupOut`

and`model_selection.LeavePGroupsOut`

respectively.Note the change from singular to plural form in

`model_selection.LeavePGroupsOut`

.

Fit parameter labels renamed to groupsThe

`labels`

parameter in the`split`

method of the newly renamed splitters`model_selection.GroupKFold`

,`model_selection.LeaveOneGroupOut`

,`model_selection.LeavePGroupsOut`

,`model_selection.GroupShuffleSplit`

is renamed to`groups`

following the new nomenclature of their class names.

Parameter n_labels renamed to n_groupsThe parameter

`n_labels`

in the newly renamed`model_selection.LeavePGroupsOut`

is changed to`n_groups`

.Training scores and Timing information

`cv_results_`

also includes the training scores for each cross-validation split (with keys such as`'split0_train_score'`

), as well as their mean (`'mean_train_score'`

) and standard deviation (`'std_train_score'`

). To avoid the cost of evaluating training score, set`return_train_score=False`

.Additionally the mean and standard deviation of the times taken to split, train and score the model across all the cross-validation splits is available at the key

`'mean_time'`

and`'std_time'`

respectively.

### Changelog¶

#### New features¶

Classifiers and Regressors

- The Gaussian Process module has been reimplemented and now offers classification and regression estimators through
`gaussian_process.GaussianProcessClassifier`

and`gaussian_process.GaussianProcessRegressor`

. Among other things, the new implementation supports kernel engineering, gradient-based hyperparameter optimization or sampling of functions from GP prior and GP posterior. Extensive documentation and examples are provided. By Jan Hendrik Metzen.- Added new supervised learning algorithm: Multi-layer Perceptron #3204 by Issam H. Laradji
- Added
`linear_model.HuberRegressor`

, a linear model robust to outliers. #5291 by Manoj Kumar.- Added the
`multioutput.MultiOutputRegressor`

meta-estimator. It converts single output regressors to multi-output regressors by fitting one regressor per output. By Tim Head.

Other estimators

- New
`mixture.GaussianMixture`

and`mixture.BayesianGaussianMixture`

replace former mixture models, employing faster inference for sounder results. #7295 by Wei Xue and Thierry Guillemot.- Class
`decomposition.RandomizedPCA`

is now factored into`decomposition.PCA`

and it is available calling with parameter`svd_solver='randomized'`

. The default number of`n_iter`

for`'randomized'`

has changed to 4. The old behavior of PCA is recovered by`svd_solver='full'`

. An additional solver calls`arpack`

and performs truncated (non-randomized) SVD. By default, the best solver is selected depending on the size of the input and the number of components requested. #5299 by Giorgio Patrini.- Added two functions for mutual information estimation:
`feature_selection.mutual_info_classif`

and`feature_selection.mutual_info_regression`

. These functions can be used in`feature_selection.SelectKBest`

and`feature_selection.SelectPercentile`

as score functions. By Andrea Bravi and Nikolay Mayorov.- Added the
`ensemble.IsolationForest`

class for anomaly detection based on random forests. By Nicolas Goix.- Added
`algorithm="elkan"`

to`cluster.KMeans`

implementing Elkan’s fast K-Means algorithm. By Andreas Müller.

Model selection and evaluation

- Added
`metrics.cluster.fowlkes_mallows_score`

, the Fowlkes Mallows Index which measures the similarity of two clusterings of a set of points By Arnaud Fouchet and Thierry Guillemot.- Added
`metrics.calinski_harabaz_score`

, which computes the Calinski and Harabaz score to evaluate the resulting clustering of a set of points. By Arnaud Fouchet and Thierry Guillemot.- Added new cross-validation splitter
`model_selection.TimeSeriesSplit`

to handle time series data. #6586 by YenChen Lin- The cross-validation iterators are replaced by cross-validation splitters available from
`sklearn.model_selection`

, allowing for nested cross-validation. See Model Selection Enhancements and API Changes for more information. #4294 by Raghav RV.

#### Enhancements¶

Trees and ensembles

- Added a new splitting criterion for
`tree.DecisionTreeRegressor`

, the mean absolute error. This criterion can also be used in`ensemble.ExtraTreesRegressor`

,`ensemble.RandomForestRegressor`

, and the gradient boosting estimators. #6667 by Nelson Liu.- Added weighted impurity-based early stopping criterion for decision tree growth. #6954 by Nelson Liu
- The random forest, extra tree and decision tree estimators now has a method
`decision_path`

which returns the decision path of samples in the tree. By Arnaud Joly.- A new example has been added unveiling the decision tree structure. By Arnaud Joly.
- Random forest, extra trees, decision trees and gradient boosting estimator accept the parameter
`min_samples_split`

and`min_samples_leaf`

provided as a percentage of the training samples. By yelite and Arnaud Joly.- Gradient boosting estimators accept the parameter
`criterion`

to specify to splitting criterion used in built decision trees. #6667 by Nelson Liu.- The memory footprint is reduced (sometimes greatly) for
`ensemble.bagging.BaseBagging`

and classes that inherit from it, i.e,`ensemble.BaggingClassifier`

,`ensemble.BaggingRegressor`

, and`ensemble.IsolationForest`

, by dynamically generating attribute`estimators_samples_`

only when it is needed. By David Staub.- Added
`n_jobs`

and`sample_weight`

parameters for`ensemble.VotingClassifier`

to fit underlying estimators in parallel. #5805 by Ibraim Ganiev.

Linear, kernelized and related models

- In
`linear_model.LogisticRegression`

, the SAG solver is now available in the multinomial case. #5251 by Tom Dupre la Tour.`linear_model.RANSACRegressor`

,`svm.LinearSVC`

and`svm.LinearSVR`

now support`sample_weight`

. By Imaculate.- Add parameter
`loss`

to`linear_model.RANSACRegressor`

to measure the error on the samples for every trial. By Manoj Kumar.- Prediction of out-of-sample events with Isotonic Regression (
`isotonic.IsotonicRegression`

) is now much faster (over 1000x in tests with synthetic data). By Jonathan Arfa.- Isotonic regression (
`isotonic.IsotonicRegression`

) now uses a better algorithm to avoid O(n^2) behavior in pathological cases, and is also generally faster (##6691). By Antony Lee.`naive_bayes.GaussianNB`

now accepts data-independent class-priors through the parameter`priors`

. By Guillaume Lemaitre.`linear_model.ElasticNet`

and`linear_model.Lasso`

now works with`np.float32`

input data without converting it into`np.float64`

. This allows to reduce the memory consumption. #6913 by YenChen Lin.`semi_supervised.LabelPropagation`

and`semi_supervised.LabelSpreading`

now accept arbitrary kernel functions in addition to strings`knn`

and`rbf`

. #5762 by Utkarsh Upadhyay.

Decomposition, manifold learning and clustering

- Added
`inverse_transform`

function to`decomposition.NMF`

to compute data matrix of original shape. By Anish Shah.`cluster.KMeans`

and`cluster.MiniBatchKMeans`

now works with`np.float32`

and`np.float64`

input data without converting it. This allows to reduce the memory consumption by using`np.float32`

. #6846 by Sebastian Säger and YenChen Lin.

Preprocessing and feature selection

`preprocessing.RobustScaler`

now accepts`quantile_range`

parameter. #5929 by Konstantin Podshumok.`feature_extraction.FeatureHasher`

now accepts string values. #6173 by Ryad Zenine and Devashish Deshpande.- Keyword arguments can now be supplied to
`func`

in`preprocessing.FunctionTransformer`

by means of the`kw_args`

parameter. By Brian McFee.`feature_selection.SelectKBest`

and`feature_selection.SelectPercentile`

now accept score functions that take X, y as input and return only the scores. By Nikolay Mayorov.

Model evaluation and meta-estimators

`multiclass.OneVsOneClassifier`

and`multiclass.OneVsRestClassifier`

now support`partial_fit`

. By Asish Panda and Philipp Dowling.- Added support for substituting or disabling
`pipeline.Pipeline`

and`pipeline.FeatureUnion`

components using the`set_params`

interface that powers`sklearn.grid_search`

. See Selecting dimensionality reduction with Pipeline and GridSearchCV By Joel Nothman and Robert McGibbon.- The new
`cv_results_`

attribute of`model_selection.GridSearchCV`

(and`model_selection.RandomizedSearchCV`

) can be easily imported into pandas as a`DataFrame`

. Ref Model Selection Enhancements and API Changes for more information. #6697 by Raghav RV.- Generalization of
`model_selection.cross_val_predict`

. One can pass method names such as predict_proba to be used in the cross validation framework instead of the default predict. By Ori Ziv and Sears Merritt.- The training scores and time taken for training followed by scoring for each search candidate are now available at the
`cv_results_`

dict. See Model Selection Enhancements and API Changes for more information. #7325 by Eugene Chen and Raghav RV.

Metrics

- Added
`labels`

flag to`metrics.log_loss`

to explicitly provide the labels when the number of classes in`y_true`

and`y_pred`

differ. #7239 by Hong Guangguo with help from Mads Jensen and Nelson Liu.- Support sparse contingency matrices in cluster evaluation (
`metrics.cluster.supervised`

) to scale to a large number of clusters. #7419 by Gregory Stupp and Joel Nothman.- Add
`sample_weight`

parameter to`metrics.matthews_corrcoef`

. By Jatin Shah and Raghav RV.- Speed up
`metrics.silhouette_score`

by using vectorized operations. By Manoj Kumar.- Add
`sample_weight`

parameter to`metrics.confusion_matrix`

. By Bernardo Stein.

Miscellaneous

- Added
`n_jobs`

parameter to`feature_selection.RFECV`

to compute the score on the test folds in parallel. By Manoj Kumar- Codebase does not contain C/C++ cython generated files: they are generated during build. Distribution packages will still contain generated C/C++ files. By Arthur Mensch.
- Reduce the memory usage for 32-bit float input arrays of
`utils.sparse_func.mean_variance_axis`

and`utils.sparse_func.incr_mean_variance_axis`

by supporting cython fused types. By YenChen Lin.- The
`ignore_warnings`

now accept a category argument to ignore only the warnings of a specified type. By Thierry Guillemot.- Added parameter
`return_X_y`

and return type`(data, target) : tuple`

option to`load_iris`

dataset #7049,`load_breast_cancer`

dataset #7152,`load_digits`

dataset,`load_diabetes`

dataset,`load_linnerud`

dataset,`load_boston`

dataset #7154 by Manvendra Singh.- Simplification of the
`clone`

function, deprecate support for estimators that modify parameters in`__init__`

. #5540 by Andreas Müller.- When unpickling a scikit-learn estimator in a different version than the one the estimator was trained with, a
`UserWarning`

is raised, see the documentation on model persistence for more details. (#7248) By Andreas Müller.

#### Bug fixes¶

Trees and ensembles

- Random forest, extra trees, decision trees and gradient boosting won’t accept anymore
`min_samples_split=1`

as at least 2 samples are required to split a decision tree node. By Arnaud Joly`ensemble.VotingClassifier`

now raises`NotFittedError`

if`predict`

,`transform`

or`predict_proba`

are called on the non-fitted estimator. by Sebastian Raschka.- Fix bug where
`ensemble.AdaBoostClassifier`

and`ensemble.AdaBoostRegressor`

would perform poorly if the`random_state`

was fixed (#7411). By Joel Nothman.- Fix bug in ensembles with randomization where the ensemble would not set
`random_state`

on base estimators in a pipeline or similar nesting. (#7411). Note, results for`ensemble.BaggingClassifier`

`ensemble.BaggingRegressor`

,`ensemble.AdaBoostClassifier`

and`ensemble.AdaBoostRegressor`

will now differ from previous versions. By Joel Nothman.

Linear, kernelized and related models

- Fixed incorrect gradient computation for
`loss='squared_epsilon_insensitive'`

in`linear_model.SGDClassifier`

and`linear_model.SGDRegressor`

(#6764). By Wenhua Yang.- Fix bug in
`linear_model.LogisticRegressionCV`

where`solver='liblinear'`

did not accept`class_weights='balanced`

. (#6817). By Tom Dupre la Tour.- Fix bug in
`neighbors.RadiusNeighborsClassifier`

where an error occurred when there were outliers being labelled and a weight function specified (#6902). By LeonieBorne.- Fix
`linear_model.ElasticNet`

sparse decision function to match output with dense in the multioutput case.

Decomposition, manifold learning and clustering

`decomposition.RandomizedPCA`

default number of iterated_power is 4 instead of 3. #5141 by Giorgio Patrini.`utils.extmath.randomized_svd`

performs 4 power iterations by default, instead or 0. In practice this is enough for obtaining a good approximation of the true eigenvalues/vectors in the presence of noise. When n_components is small (`< .1 * min(X.shape)`

) n_iter is set to 7, unless the user specifies a higher number. This improves precision with few components. #5299 by Giorgio Patrini.- Whiten/non-whiten inconsistency between components of
`decomposition.PCA`

and`decomposition.RandomizedPCA`

(now factored into PCA, see the New features) is fixed. components_ are stored with no whitening. #5299 by Giorgio Patrini.- Fixed bug in
`manifold.spectral_embedding`

where diagonal of unnormalized Laplacian matrix was incorrectly set to 1. #4995 by Peter Fischer.- Fixed incorrect initialization of
`utils.arpack.eigsh`

on all occurrences. Affects`cluster.bicluster.SpectralBiclustering`

,`decomposition.KernelPCA`

,`manifold.LocallyLinearEmbedding`

, and`manifold.SpectralEmbedding`

(#5012). By Peter Fischer.- Attribute
`explained_variance_ratio_`

calculated with the SVD solver of`discriminant_analysis.LinearDiscriminantAnalysis`

now returns correct results. By JPFrancoia

Preprocessing and feature selection

`preprocessing.data._transform_selected`

now always passes a copy of`X`

to transform function when`copy=True`

(#7194). By Caio Oliveira.

Model evaluation and meta-estimators

`model_selection.StratifiedKFold`

now raises error if all n_labels for individual classes is less than n_folds. #6182 by Devashish Deshpande.- Fixed bug in
`model_selection.StratifiedShuffleSplit`

where train and test sample could overlap in some edge cases, see #6121 for more details. By Loic Esteve.- Fix in
`sklearn.model_selection.StratifiedShuffleSplit`

to return splits of size`train_size`

and`test_size`

in all cases (#6472). By Andreas Müller.- Cross-validation of
`OneVsOneClassifier`

and`OneVsRestClassifier`

now works with precomputed kernels. #7350 by Russell Smith.- Fix incomplete
`predict_proba`

method delegation from`model_selection.GridSearchCV`

to`linear_model.SGDClassifier`

(#7159) by Yichuan Liu.

Metrics

- Fix bug in
`metrics.silhouette_score`

in which clusters of size 1 were incorrectly scored. They should get a score of 0. By Joel Nothman.- Fix bug in
`metrics.silhouette_samples`

so that it now works with arbitrary labels, not just those ranging from 0 to n_clusters - 1.- Fix bug where expected and adjusted mutual information were incorrect if cluster contingency cells exceeded
`2**16`

. By Joel Nothman.`metrics.pairwise.pairwise_distances`

now converts arrays to boolean arrays when required in`scipy.spatial.distance`

. #5460 by Tom Dupre la Tour.- Fix sparse input support in
`metrics.silhouette_score`

as well as example examples/text/document_clustering.py. By YenChen Lin.`metrics.roc_curve`

and`metrics.precision_recall_curve`

no longer round`y_score`

values when creating ROC curves; this was causing problems for users with very small differences in scores (#7353).

Miscellaneous

`model_selection.tests._search._check_param_grid`

now works correctly with all types that extends/implements Sequence (except string), including range (Python 3.x) and xrange (Python 2.x). #7323 by Viacheslav Kovalevskyi.`utils.extmath.randomized_range_finder`

is more numerically stable when many power iterations are requested, since it applies LU normalization by default. If`n_iter<2`

numerical issues are unlikely, thus no normalization is applied. Other normalization options are available:`'none', 'LU'`

and`'QR'`

. #5141 by Giorgio Patrini.- Fix a bug where some formats of
`scipy.sparse`

matrix, and estimators with them as parameters, could not be passed to`base.clone`

. By Loic Esteve.`datasets.load_svmlight_file`

now is able to read long int QID values. #7101 by Ibraim Ganiev.

### API changes summary¶

Linear, kernelized and related models

`residual_metric`

has been deprecated in`linear_model.RANSACRegressor`

. Use`loss`

instead. By Manoj Kumar.- Access to public attributes
`.X_`

and`.y_`

has been deprecated in`isotonic.IsotonicRegression`

. By Jonathan Arfa.

Decomposition, manifold learning and clustering

- The old
`mixture.DPGMM`

is deprecated in favor of the new`mixture.BayesianGaussianMixture`

(with the parameter`weight_concentration_prior_type='dirichlet_process'`

). The new class solves the computational problems of the old class and computes the Gaussian mixture with a Dirichlet process prior faster than before. #7295 by Wei Xue and Thierry Guillemot.- The old
`mixture.VBGMM`

is deprecated in favor of the new`mixture.BayesianGaussianMixture`

(with the parameter`weight_concentration_prior_type='dirichlet_distribution'`

). The new class solves the computational problems of the old class and computes the Variational Bayesian Gaussian mixture faster than before. #6651 by Wei Xue and Thierry Guillemot.- The old
`mixture.GMM`

is deprecated in favor of the new`mixture.GaussianMixture`

. The new class computes the Gaussian mixture faster than before and some of computational problems have been solved. #6666 by Wei Xue and Thierry Guillemot.

Model evaluation and meta-estimators

- The
`sklearn.cross_validation`

,`sklearn.grid_search`

and`sklearn.learning_curve`

have been deprecated and the classes and functions have been reorganized into the`sklearn.model_selection`

module. Ref Model Selection Enhancements and API Changes for more information. #4294 by Raghav RV.- The
`grid_scores_`

attribute of`model_selection.GridSearchCV`

and`model_selection.RandomizedSearchCV`

is deprecated in favor of the attribute`cv_results_`

. Ref Model Selection Enhancements and API Changes for more information. #6697 by Raghav RV.- The parameters
`n_iter`

or`n_folds`

in old CV splitters are replaced by the new parameter`n_splits`

since it can provide a consistent and unambiguous interface to represent the number of train-test splits. #7187 by YenChen Lin.`classes`

parameter was renamed to`labels`

in`metrics.hamming_loss`

. #7260 by Sebastián Vanrell.- The splitter classes
`LabelKFold`

,`LabelShuffleSplit`

,`LeaveOneLabelOut`

and`LeavePLabelsOut`

are renamed to`model_selection.GroupKFold`

,`model_selection.GroupShuffleSplit`

,`model_selection.LeaveOneGroupOut`

and`model_selection.LeavePGroupsOut`

respectively. Also the parameter`labels`

in the`split`

method of the newly renamed splitters`model_selection.LeaveOneGroupOut`

and`model_selection.LeavePGroupsOut`

is renamed to`groups`

. Additionally in`model_selection.LeavePGroupsOut`

, the parameter`n_labels`

is renamed to`n_groups`

. #6660 by Raghav RV.- Error and loss names for
`scoring`

parameters are now prefixed by`'neg_'`

, such as`neg_mean_squared_error`

. The unprefixed versions are deprecated and will be removed in version 0.20. #7261 by Tim Head.

### Code Contributors¶

Aditya Joshi, Alejandro, Alexander Fabisch, Alexander Loginov, Alexander Minyushkin, Alexander Rudy, Alexandre Abadie, Alexandre Abraham, Alexandre Gramfort, Alexandre Saint, alexfields, Alvaro Ulloa, alyssaq, Amlan Kar, Andreas Mueller, andrew giessel, Andrew Jackson, Andrew McCulloh, Andrew Murray, Anish Shah, Arafat, Archit Sharma, Ariel Rokem, Arnaud Joly, Arnaud Rachez, Arthur Mensch, Ash Hoover, asnt, b0noI, Behzad Tabibian, Bernardo, Bernhard Kratzwald, Bhargav Mangipudi, blakeflei, Boyuan Deng, Brandon Carter, Brett Naul, Brian McFee, Caio Oliveira, Camilo Lamus, Carol Willing, Cass, CeShine Lee, Charles Truong, Chyi-Kwei Yau, CJ Carey, codevig, Colin Ni, Dan Shiebler, Daniel, Daniel Hnyk, David Ellis, David Nicholson, David Staub, David Thaler, David Warshaw, Davide Lasagna, Deborah, definitelyuncertain, Didi Bar-Zev, djipey, dsquareindia, edwinENSAE, Elias Kuthe, Elvis DOHMATOB, Ethan White, Fabian Pedregosa, Fabio Ticconi, fisache, Florian Wilhelm, Francis, Francis O’Donovan, Gael Varoquaux, Ganiev Ibraim, ghg, Gilles Louppe, Giorgio Patrini, Giovanni Cherubin, Giovanni Lanzani, Glenn Qian, Gordon Mohr, govin-vatsan, Graham Clenaghan, Greg Reda, Greg Stupp, Guillaume Lemaitre, Gustav Mörtberg, halwai, Harizo Rajaona, Harry Mavroforakis, hashcode55, hdmetor, Henry Lin, Hobson Lane, Hugo Bowne-Anderson, Igor Andriushchenko, Imaculate, Inki Hwang, Isaac Sijaranamual, Ishank Gulati, Issam Laradji, Iver Jordal, jackmartin, Jacob Schreiber, Jake Vanderplas, James Fiedler, James Routley, Jan Zikes, Janna Brettingen, jarfa, Jason Laska, jblackburne, jeff levesque, Jeffrey Blackburne, Jeffrey04, Jeremy Hintz, jeremynixon, Jeroen, Jessica Yung, Jill-Jênn Vie, Jimmy Jia, Jiyuan Qian, Joel Nothman, johannah, John, John Boersma, John Kirkham, John Moeller, jonathan.striebel, joncrall, Jordi, Joseph Munoz, Joshua Cook, JPFrancoia, jrfiedler, JulianKahnert, juliathebrave, kaichogami, KamalakerDadi, Kenneth Lyons, Kevin Wang, kingjr, kjell, Konstantin Podshumok, Kornel Kielczewski, Krishna Kalyan, krishnakalyan3, Kvle Putnam, Kyle Jackson, Lars Buitinck, ldavid, LeiG, LeightonZhang, Leland McInnes, Liang-Chi Hsieh, Lilian Besson, lizsz, Loic Esteve, Louis Tiao, Léonie Borne, Mads Jensen, Maniteja Nandana, Manoj Kumar, Manvendra Singh, Marco, Mario Krell, Mark Bao, Mark Szepieniec, Martin Madsen, MartinBpr, MaryanMorel, Massil, Matheus, Mathieu Blondel, Mathieu Dubois, Matteo, Matthias Ekman, Max Moroz, Michael Scherer, michiaki ariga, Mikhail Korobov, Moussa Taifi, mrandrewandrade, Mridul Seth, nadya-p, Naoya Kanai, Nate George, Nelle Varoquaux, Nelson Liu, Nick James, NickleDave, Nico, Nicolas Goix, Nikolay Mayorov, ningchi, nlathia, okbalefthanded, Okhlopkov, Olivier Grisel, Panos Louridas, Paul Strickland, Perrine Letellier, pestrickland, Peter Fischer, Pieter, Ping-Yao, Chang, practicalswift, Preston Parry, Qimu Zheng, Rachit Kansal, Raghav RV, Ralf Gommers, Ramana.S, Rammig, Randy Olson, Rob Alexander, Robert Lutz, Robin Schucker, Rohan Jain, Ruifeng Zheng, Ryan Yu, Rémy Léone, saihttam, Saiwing Yeung, Sam Shleifer, Samuel St-Jean, Sartaj Singh, Sasank Chilamkurthy, saurabh.bansod, Scott Andrews, Scott Lowe, seales, Sebastian Raschka, Sebastian Saeger, Sebastián Vanrell, Sergei Lebedev, shagun Sodhani, shanmuga cv, Shashank Shekhar, shawpan, shengxiduan, Shota, shuckle16, Skipper Seabold, sklearn-ci, SmedbergM, srvanrell, Sébastien Lerique, Taranjeet, themrmax, Thierry, Thierry Guillemot, Thomas, Thomas Hallock, Thomas Moreau, Tim Head, tKammy, toastedcornflakes, Tom, TomDLT, Toshihiro Kamishima, tracer0tong, Trent Hauck, trevorstephens, Tue Vo, Varun, Varun Jewalikar, Viacheslav, Vighnesh Birodkar, Vikram, Villu Ruusmann, Vinayak Mehta, walter, waterponey, Wenhua Yang, Wenjian Huang, Will Welch, wyseguy7, xyguo, yanlend, Yaroslav Halchenko, yelite, Yen, YenChenLin, Yichuan Liu, Yoav Ram, Yoshiki, Zheng RuiFeng, zivori, Óscar Nájera

## Version 0.17.1¶

**February 18, 2016**

### Changelog¶

#### Bug fixes¶

- Upgrade vendored joblib to version 0.9.4 that fixes an important bug in
`joblib.Parallel`

that can silently yield to wrong results when working on datasets larger than 1MB: https://github.com/joblib/joblib/blob/0.9.4/CHANGES.rst- Fixed reading of Bunch pickles generated with scikit-learn version <= 0.16. This can affect users who have already downloaded a dataset with scikit-learn 0.16 and are loading it with scikit-learn 0.17. See #6196 for how this affected
`datasets.fetch_20newsgroups`

. By Loic Esteve.- Fixed a bug that prevented using ROC AUC score to perform grid search on several CPU / cores on large arrays. See #6147 By Olivier Grisel.
- Fixed a bug that prevented to properly set the
`presort`

parameter in`ensemble.GradientBoostingRegressor`

. See #5857 By Andrew McCulloh.- Fixed a joblib error when evaluating the perplexity of a
`decomposition.LatentDirichletAllocation`

model. See #6258 By Chyi-Kwei Yau.

## Version 0.17¶

**November 5, 2015**

### Changelog¶

#### New features¶

- All the Scaler classes but
`preprocessing.RobustScaler`

can be fitted online by calling partial_fit. By Giorgio Patrini.- The new class
`ensemble.VotingClassifier`

implements a “majority rule” / “soft voting” ensemble classifier to combine estimators for classification. By Sebastian Raschka.- The new class
`preprocessing.RobustScaler`

provides an alternative to`preprocessing.StandardScaler`

for feature-wise centering and range normalization that is robust to outliers. By Thomas Unterthiner.- The new class
`preprocessing.MaxAbsScaler`

provides an alternative to`preprocessing.MinMaxScaler`

for feature-wise range normalization when the data is already centered or sparse. By Thomas Unterthiner.- The new class
`preprocessing.FunctionTransformer`

turns a Python function into a`Pipeline`

-compatible transformer object. By Joe Jevnik.- The new classes
`cross_validation.LabelKFold`

and`cross_validation.LabelShuffleSplit`

generate train-test folds, respectively similar to`cross_validation.KFold`

and`cross_validation.ShuffleSplit`

, except that the folds are conditioned on a label array. By Brian McFee, Jean Kossaifi and Gilles Louppe.`decomposition.LatentDirichletAllocation`

implements the Latent Dirichlet Allocation topic model with online variational inference. By Chyi-Kwei Yau, with code based on an implementation by Matt Hoffman. (#3659)- The new solver
`sag`

implements a Stochastic Average Gradient descent and is available in both`linear_model.LogisticRegression`

and`linear_model.Ridge`

. This solver is very efficient for large datasets. By Danny Sullivan and Tom Dupre la Tour. (#4738)- The new solver
`cd`

implements a Coordinate Descent in`decomposition.NMF`

. Previous solver based on Projected Gradient is still available setting new parameter`solver`

to`pg`

, but is deprecated and will be removed in 0.19, along with`decomposition.ProjectedGradientNMF`

and parameters`sparseness`

,`eta`

,`beta`

and`nls_max_iter`

. New parameters`alpha`

and`l1_ratio`

control L1 and L2 regularization, and`shuffle`

adds a shuffling step in the`cd`

solver. By Tom Dupre la Tour and Mathieu Blondel.

#### Enhancements¶

`manifold.TSNE`

now supports approximate optimization via the Barnes-Hut method, leading to much faster fitting. By Christopher Erick Moody. (#4025)`cluster.mean_shift_.MeanShift`

now supports parallel execution, as implemented in the`mean_shift`

function. By Martino Sorbaro.`naive_bayes.GaussianNB`

now supports fitting with`sample_weight`

. By Jan Hendrik Metzen.`dummy.DummyClassifier`

now supports a prior fitting strategy. By Arnaud Joly.- Added a
`fit_predict`

method for`mixture.GMM`

and subclasses. By Cory Lorenz.- Added the
`metrics.label_ranking_loss`

metric. By Arnaud Joly.- Added the
`metrics.cohen_kappa_score`

metric.- Added a
`warm_start`

constructor parameter to the bagging ensemble models to increase the size of the ensemble. By Tim Head.- Added option to use multi-output regression metrics without averaging. By Konstantin Shmelkov and Michael Eickenberg.
- Added
`stratify`

option to`cross_validation.train_test_split`

for stratified splitting. By Miroslav Batchkarov.- The
`tree.export_graphviz`

function now supports aesthetic improvements for`tree.DecisionTreeClassifier`

and`tree.DecisionTreeRegressor`

, including options for coloring nodes by their majority class or impurity, showing variable names, and using node proportions instead of raw sample counts. By Trevor Stephens.- Improved speed of
`newton-cg`

solver in`linear_model.LogisticRegression`

, by avoiding loss computation. By Mathieu Blondel and Tom Dupre la Tour.- The
`class_weight="auto"`

heuristic in classifiers supporting`class_weight`

was deprecated and replaced by the`class_weight="balanced"`

option, which has a simpler formula and interpretation. By Hanna Wallach and Andreas Müller.- Add
`class_weight`

parameter to automatically weight samples by class frequency for`linear_model.PassiveAgressiveClassifier`

. By Trevor Stephens.- Added backlinks from the API reference pages to the user guide. By Andreas Müller.
- The
`labels`

parameter to`sklearn.metrics.f1_score`

,`sklearn.metrics.fbeta_score`

,`sklearn.metrics.recall_score`

and`sklearn.metrics.precision_score`

has been extended. It is now possible to ignore one or more labels, such as where a multiclass problem has a majority class to ignore. By Joel Nothman.- Add
`sample_weight`

support to`linear_model.RidgeClassifier`

. By Trevor Stephens.- Provide an option for sparse output from
`sklearn.metrics.pairwise.cosine_similarity`

. By Jaidev Deshpande.- Add
`minmax_scale`

to provide a function interface for`MinMaxScaler`

. By Thomas Unterthiner.`dump_svmlight_file`

now handles multi-label datasets. By Chih-Wei Chang.- RCV1 dataset loader (
`sklearn.datasets.fetch_rcv1`

). By Tom Dupre la Tour.- The “Wisconsin Breast Cancer” classical two-class classification dataset is now included in scikit-learn, available with
`sklearn.dataset.load_breast_cancer`

.- Upgraded to joblib 0.9.3 to benefit from the new automatic batching of short tasks. This makes it possible for scikit-learn to benefit from parallelism when many very short tasks are executed in parallel, for instance by the
`grid_search.GridSearchCV`

meta-estimator with`n_jobs > 1`

used with a large grid of parameters on a small dataset. By Vlad Niculae, Olivier Grisel and Loic Esteve.- For more details about changes in joblib 0.9.3 see the release notes: https://github.com/joblib/joblib/blob/master/CHANGES.rst#release-093
- Improved speed (3 times per iteration) of
`decomposition.DictLearning`

with coordinate descent method from`linear_model.Lasso`

. By Arthur Mensch.- Parallel processing (threaded) for queries of nearest neighbors (using the ball-tree) by Nikolay Mayorov.
- Allow
`datasets.make_multilabel_classification`

to output a sparse`y`

. By Kashif Rasul.`cluster.DBSCAN`

now accepts a sparse matrix of precomputed distances, allowing memory-efficient distance precomputation. By Joel Nothman.`tree.DecisionTreeClassifier`

now exposes an`apply`

method for retrieving the leaf indices samples are predicted as. By Daniel Galvez and Gilles Louppe.- Speed up decision tree regressors, random forest regressors, extra trees regressors and gradient boosting estimators by computing a proxy of the impurity improvement during the tree growth. The proxy quantity is such that the split that maximizes this value also maximizes the impurity improvement. By Arnaud Joly, Jacob Schreiber and Gilles Louppe.
- Speed up tree based methods by reducing the number of computations needed when computing the impurity measure taking into account linear relationship of the computed statistics. The effect is particularly visible with extra trees and on datasets with categorical or sparse features. By Arnaud Joly.
`ensemble.GradientBoostingRegressor`

and`ensemble.GradientBoostingClassifier`

now expose an`apply`

method for retrieving the leaf indices each sample ends up in under each try. By Jacob Schreiber.- Add
`sample_weight`

support to`linear_model.LinearRegression`

. By Sonny Hu. (##4881)- Add
`n_iter_without_progress`

to`manifold.TSNE`

to control the stopping criterion. By Santi Villalba. (#5186)- Added optional parameter
`random_state`

in`linear_model.Ridge`

, to set the seed of the pseudo random generator used in`sag`

solver. By Tom Dupre la Tour.- Added optional parameter
`warm_start`

in`linear_model.LogisticRegression`

. If set to True, the solvers`lbfgs`

,`newton-cg`

and`sag`

will be initialized with the coefficients computed in the previous fit. By Tom Dupre la Tour.- Added
`sample_weight`

support to`linear_model.LogisticRegression`

for the`lbfgs`

,`newton-cg`

, and`sag`

solvers. By Valentin Stolbunov. Support added to the`liblinear`

solver. By Manoj Kumar.- Added optional parameter
`presort`

to`ensemble.GradientBoostingRegressor`

and`ensemble.GradientBoostingClassifier`

, keeping default behavior the same. This allows gradient boosters to turn off presorting when building deep trees or using sparse data. By Jacob Schreiber.- Altered
`metrics.roc_curve`

to drop unnecessary thresholds by default. By Graham Clenaghan.- Added
`feature_selection.SelectFromModel`

meta-transformer which can be used along with estimators that have coef_ or feature_importances_ attribute to select important features of the input data. By Maheshakya Wijewardena, Joel Nothman and Manoj Kumar.- Added
`metrics.pairwise.laplacian_kernel`

. By Clyde Fare.`covariance.GraphLasso`

allows separate control of the convergence criterion for the Elastic-Net subproblem via the`enet_tol`

parameter.- Improved verbosity in
`decomposition.DictionaryLearning`

.`ensemble.RandomForestClassifier`

and`ensemble.RandomForestRegressor`

no longer explicitly store the samples used in bagging, resulting in a much reduced memory footprint for storing random forest models.- Added
`positive`

option to`linear_model.Lars`

and`linear_model.lars_path`

to force coefficients to be positive. (#5131)- Added the
`X_norm_squared`

parameter to`metrics.pairwise.euclidean_distances`

to provide precomputed squared norms for`X`

.- Added the
`fit_predict`

method to`pipeline.Pipeline`

.- Added the
`preprocessing.min_max_scale`

function.

#### Bug fixes¶

- Fixed non-determinism in
`dummy.DummyClassifier`

with sparse multi-label output. By Andreas Müller.- Fixed the output shape of
`linear_model.RANSACRegressor`

to`(n_samples, )`

. By Andreas Müller.- Fixed bug in
`decomposition.DictLearning`

when`n_jobs < 0`

. By Andreas Müller.- Fixed bug where
`grid_search.RandomizedSearchCV`

could consume a lot of memory for large discrete grids. By Joel Nothman.- Fixed bug in
`linear_model.LogisticRegressionCV`

where penalty was ignored in the final fit. By Manoj Kumar.- Fixed bug in
`ensemble.forest.ForestClassifier`

while computing oob_score and X is a sparse.csc_matrix. By Ankur Ankan.- All regressors now consistently handle and warn when given
`y`

that is of shape`(n_samples, 1)`

. By Andreas Müller and Henry Lin. (#5431)- Fix in
`cluster.KMeans`

cluster reassignment for sparse input by Lars Buitinck.- Fixed a bug in
`lda.LDA`

that could cause asymmetric covariance matrices when using shrinkage. By Martin Billinger.- Fixed
`cross_validation.cross_val_predict`

for estimators with sparse predictions. By Buddha Prakash.- Fixed the
`predict_proba`

method of`linear_model.LogisticRegression`

to use soft-max instead of one-vs-rest normalization. By Manoj Kumar. (#5182)- Fixed the
`partial_fit`

method of`linear_model.SGDClassifier`

when called with`average=True`

. By Andrew Lamb. (#5282)- Dataset fetchers use different filenames under Python 2 and Python 3 to avoid pickling compatibility issues. By Olivier Grisel. (#5355)
- Fixed a bug in
`naive_bayes.GaussianNB`

which caused classification results to depend on scale. By Jake Vanderplas.- Fixed temporarily
`linear_model.Ridge`

, which was incorrect when fitting the intercept in the case of sparse data. The fix automatically changes the solver to ‘sag’ in this case. #5360 by Tom Dupre la Tour.- Fixed a performance bug in
`decomposition.RandomizedPCA`

on data with a large number of features and fewer samples. (#4478) By Andreas Müller, Loic Esteve and Giorgio Patrini.- Fixed bug in
`cross_decomposition.PLS`

that yielded unstable and platform dependent output, and failed on fit_transform. By Arthur Mensch.- Fixes to the
`Bunch`

class used to store datasets.- Fixed
`ensemble.plot_partial_dependence`

ignoring the`percentiles`

parameter.- Providing a
`set`

as vocabulary in`CountVectorizer`

no longer leads to inconsistent results when pickling.- Fixed the conditions on when a precomputed Gram matrix needs to be recomputed in
`linear_model.LinearRegression`

,`linear_model.OrthogonalMatchingPursuit`

,`linear_model.Lasso`

and`linear_model.ElasticNet`

.- Fixed inconsistent memory layout in the coordinate descent solver that affected
`linear_model.DictionaryLearning`

and`covariance.GraphLasso`

. (#5337) By Olivier Grisel.`manifold.LocallyLinearEmbedding`

no longer ignores the`reg`

parameter.- Nearest Neighbor estimators with custom distance metrics can now be pickled. (#4362)
- Fixed a bug in
`pipeline.FeatureUnion`

where`transformer_weights`

were not properly handled when performing grid-searches.- Fixed a bug in
`linear_model.LogisticRegression`

and`linear_model.LogisticRegressionCV`

when using`class_weight='balanced'```or ``class_weight='auto'`

. By Tom Dupre la Tour.- Fixed bug #5495 when doing OVR(SVC(decision_function_shape=”ovr”)). Fixed by Elvis Dohmatob.

### API changes summary¶

- Attribute data_min, data_max and data_range in
`preprocessing.MinMaxScaler`

are deprecated and won’t be available from 0.19. Instead, the class now exposes data_min_, data_max_ and data_range_. By Giorgio Patrini.- All Scaler classes now have an scale_ attribute, the feature-wise rescaling applied by their transform methods. The old attribute std_ in
`preprocessing.StandardScaler`

is deprecated and superseded by scale_; it won’t be available in 0.19. By Giorgio Patrini.`svm.SVC``

and`svm.NuSVC`

now have an`decision_function_shape`

parameter to make their decision function of shape`(n_samples, n_classes)`

by setting`decision_function_shape='ovr'`

. This will be the default behavior starting in 0.19. By Andreas Müller.- Passing 1D data arrays as input to estimators is now deprecated as it caused confusion in how the array elements should be interpreted as features or as samples. All data arrays are now expected to be explicitly shaped
`(n_samples, n_features)`

. By Vighnesh Birodkar.`lda.LDA`

and`qda.QDA`

have been moved to`discriminant_analysis.LinearDiscriminantAnalysis`

and`discriminant_analysis.QuadraticDiscriminantAnalysis`

.- The
`store_covariance`

and`tol`

parameters have been moved from the fit method to the constructor in`discriminant_analysis.LinearDiscriminantAnalysis`

and the`store_covariances`

and`tol`

parameters have been moved from the fit method to the constructor in`discriminant_analysis.QuadraticDiscriminantAnalysis`

.- Models inheriting from
`_LearntSelectorMixin`

will no longer support the transform methods. (i.e, RandomForests, GradientBoosting, LogisticRegression, DecisionTrees, SVMs and SGD related models). Wrap these models around the metatransfomer`feature_selection.SelectFromModel`

to remove features (according to coefs_ or feature_importances_) which are below a certain threshold value instead.`cluster.KMeans`

re-runs cluster-assignments in case of non-convergence, to ensure consistency of`predict(X)`

and`labels_`

. By Vighnesh Birodkar.- Classifier and Regressor models are now tagged as such using the
`_estimator_type`

attribute.- Cross-validation iterators always provide indices into training and test set, not boolean masks.
- The
`decision_function`

on all regressors was deprecated and will be removed in 0.19. Use`predict`

instead.`datasets.load_lfw_pairs`

is deprecated and will be removed in 0.19. Use`datasets.fetch_lfw_pairs`

instead.- The deprecated
`hmm`

module was removed.- The deprecated
`Bootstrap`

cross-validation iterator was removed.- The deprecated
`Ward`

and`WardAgglomerative`

classes have been removed. Use`clustering.AgglomerativeClustering`

instead.`cross_validation.check_cv`

is now a public function.- The property
`residues_`

of`linear_model.LinearRegression`

is deprecated and will be removed in 0.19.- The deprecated
`n_jobs`

parameter of`linear_model.LinearRegression`

has been moved to the constructor.- Removed deprecated
`class_weight`

parameter from`linear_model.SGDClassifier`

’s`fit`

method. Use the construction parameter instead.- The deprecated support for the sequence of sequences (or list of lists) multilabel format was removed. To convert to and from the supported binary indicator matrix format, use
`MultiLabelBinarizer`

.- The behavior of calling the
`inverse_transform`

method of`Pipeline.pipeline`

will change in 0.19. It will no longer reshape one-dimensional input to two-dimensional input.- The deprecated attributes
`indicator_matrix_`

,`multilabel_`

and`classes_`

of`preprocessing.LabelBinarizer`

were removed.- Using
`gamma=0`

in`svm.SVC`

and`svm.SVR`

to automatically set the gamma to`1. / n_features`

is deprecated and will be removed in 0.19. Use`gamma="auto"`

instead.

### Code Contributors¶

Aaron Schumacher, Adithya Ganesh, akitty, Alexandre Gramfort, Alexey Grigorev, Ali Baharev, Allen Riddell, Ando Saabas, Andreas Mueller, Andrew Lamb, Anish Shah, Ankur Ankan, Anthony Erlinger, Ari Rouvinen, Arnaud Joly, Arnaud Rachez, Arthur Mensch, banilo, Barmaley.exe, benjaminirving, Boyuan Deng, Brett Naul, Brian McFee, Buddha Prakash, Chi Zhang, Chih-Wei Chang, Christof Angermueller, Christoph Gohlke, Christophe Bourguignat, Christopher Erick Moody, Chyi-Kwei Yau, Cindy Sridharan, CJ Carey, Clyde-fare, Cory Lorenz, Dan Blanchard, Daniel Galvez, Daniel Kronovet, Danny Sullivan, Data1010, David, David D Lowe, David Dotson, djipey, Dmitry Spikhalskiy, Donne Martin, Dougal J. Sutherland, Dougal Sutherland, edson duarte, Eduardo Caro, Eric Larson, Eric Martin, Erich Schubert, Fernando Carrillo, Frank C. Eckert, Frank Zalkow, Gael Varoquaux, Ganiev Ibraim, Gilles Louppe, Giorgio Patrini, giorgiop, Graham Clenaghan, Gryllos Prokopis, gwulfs, Henry Lin, Hsuan-Tien Lin, Immanuel Bayer, Ishank Gulati, Jack Martin, Jacob Schreiber, Jaidev Deshpande, Jake Vanderplas, Jan Hendrik Metzen, Jean Kossaifi, Jeffrey04, Jeremy, jfraj, Jiali Mei, Joe Jevnik, Joel Nothman, John Kirkham, John Wittenauer, Joseph, Joshua Loyal, Jungkook Park, KamalakerDadi, Kashif Rasul, Keith Goodman, Kian Ho, Konstantin Shmelkov, Kyler Brown, Lars Buitinck, Lilian Besson, Loic Esteve, Louis Tiao, maheshakya, Maheshakya Wijewardena, Manoj Kumar, MarkTab marktab.net, Martin Ku, Martin Spacek, MartinBpr, martinosorb, MaryanMorel, Masafumi Oyamada, Mathieu Blondel, Matt Krump, Matti Lyra, Maxim Kolganov, mbillinger, mhg, Michael Heilman, Michael Patterson, Miroslav Batchkarov, Nelle Varoquaux, Nicolas, Nikolay Mayorov, Olivier Grisel, Omer Katz, Óscar Nájera, Pauli Virtanen, Peter Fischer, Peter Prettenhofer, Phil Roth, pianomania, Preston Parry, Raghav RV, Rob Zinkov, Robert Layton, Rohan Ramanath, Saket Choudhary, Sam Zhang, santi, saurabh.bansod, scls19fr, Sebastian Raschka, Sebastian Saeger, Shivan Sornarajah, SimonPL, sinhrks, Skipper Seabold, Sonny Hu, sseg, Stephen Hoover, Steven De Gryze, Steven Seguin, Theodore Vasiloudis, Thomas Unterthiner, Tiago Freitas Pereira, Tian Wang, Tim Head, Timothy Hopper, tokoroten, Tom Dupré la Tour, Trevor Stephens, Valentin Stolbunov, Vighnesh Birodkar, Vinayak Mehta, Vincent, Vincent Michel, vstolbunov, wangz10, Wei Xue, Yucheng Low, Yury Zhauniarovich, Zac Stewart, zhai_pro, Zichen Wang

## Version 0.16.1¶

**April 14, 2015**

### Changelog¶

#### Bug fixes¶

- Allow input data larger than
`block_size`

in`covariance.LedoitWolf`

by Andreas Müller.- Fix a bug in
`isotonic.IsotonicRegression`

deduplication that caused unstable result in`calibration.CalibratedClassifierCV`

by Jan Hendrik Metzen.- Fix sorting of labels in func:preprocessing.label_binarize by Michael Heilman.
- Fix several stability and convergence issues in
`cross_decomposition.CCA`

and`cross_decomposition.PLSCanonical`

by Andreas Müller- Fix a bug in
`cluster.KMeans`

when`precompute_distances=False`

on fortran-ordered data.- Fix a speed regression in
`ensemble.RandomForestClassifier`

’s`predict`

and`predict_proba`

by Andreas Müller.- Fix a regression where
`utils.shuffle`

converted lists and dataframes to arrays, by Olivier Grisel

## Version 0.16¶

**March 26, 2015**

### Highlights¶

- Speed improvements (notably in
`cluster.DBSCAN`

), reduced memory requirements, bug-fixes and better default settings.- Multinomial Logistic regression and a path algorithm in
`linear_model.LogisticRegressionCV`

.- Out-of core learning of PCA via
`decomposition.IncrementalPCA`

.- Probability callibration of classifiers using
`calibration.CalibratedClassifierCV`

.`cluster.Birch`

clustering method for large-scale datasets.- Scalable approximate nearest neighbors search with Locality-sensitive hashing forests in
`neighbors.LSHForest`

.- Improved error messages and better validation when using malformed input data.
- More robust integration with pandas dataframes.

### Changelog¶

#### New features¶

- The new
`neighbors.LSHForest`

implements locality-sensitive hashing for approximate nearest neighbors search. By Maheshakya Wijewardena.- Added
`svm.LinearSVR`

. This class uses the liblinear implementation of Support Vector Regression which is much faster for large sample sizes than`svm.SVR`

with linear kernel. By Fabian Pedregosa and Qiang Luo.- Incremental fit for
`GaussianNB`

.- Added
`sample_weight`

support to`dummy.DummyClassifier`

and`dummy.DummyRegressor`

. By Arnaud Joly.- Added the
`metrics.label_ranking_average_precision_score`

metrics. By Arnaud Joly.- Add the
`metrics.coverage_error`

metrics. By Arnaud Joly.- Added
`linear_model.LogisticRegressionCV`

. By Manoj Kumar, Fabian Pedregosa, Gael Varoquaux and Alexandre Gramfort.- Added
`warm_start`

constructor parameter to make it possible for any trained forest model to grow additional trees incrementally. By Laurent Direr.- Added
`sample_weight`

support to`ensemble.GradientBoostingClassifier`

and`ensemble.GradientBoostingRegressor`

. By Peter Prettenhofer.- Added
`decomposition.IncrementalPCA`

, an implementation of the PCA algorithm that supports out-of-core learning with a`partial_fit`

method. By Kyle Kastner.- Averaged SGD for
`SGDClassifier`

and`SGDRegressor`

By Danny Sullivan.- Added
`cross_val_predict`

function which computes cross-validated estimates. By Luis Pedro Coelho- Added
`linear_model.TheilSenRegressor`

, a robust generalized-median-based estimator. By Florian Wilhelm.- Added
`metrics.median_absolute_error`

, a robust metric. By Gael Varoquaux and Florian Wilhelm.- Add
`cluster.Birch`

, an online clustering algorithm. By Manoj Kumar, Alexandre Gramfort and Joel Nothman.- Added shrinkage support to
`discriminant_analysis.LinearDiscriminantAnalysis`

using two new solvers. By Clemens Brunner and Martin Billinger.- Added
`kernel_ridge.KernelRidge`

, an implementation of kernelized ridge regression. By Mathieu Blondel and Jan Hendrik Metzen.- All solvers in
`linear_model.Ridge`

now support sample_weight. By Mathieu Blondel.- Added
`cross_validation.PredefinedSplit`

cross-validation for fixed user-provided cross-validation folds. By Thomas Unterthiner.- Added
`calibration.CalibratedClassifierCV`

, an approach for calibrating the predicted probabilities of a classifier. By Alexandre Gramfort, Jan Hendrik Metzen, Mathieu Blondel and Balazs Kegl.

#### Enhancements¶

- Add option
`return_distance`

in`hierarchical.ward_tree`

to return distances between nodes for both structured and unstructured versions of the algorithm. By Matteo Visconti di Oleggio Castello. The same option was added in`hierarchical.linkage_tree`

. By Manoj Kumar- Add support for sample weights in scorer objects. Metrics with sample weight support will automatically benefit from it. By Noel Dawe and Vlad Niculae.
- Added
`newton-cg`

and lbfgs solver support in`linear_model.LogisticRegression`

. By Manoj Kumar.- Add
`selection="random"`

parameter to implement stochastic coordinate descent for`linear_model.Lasso`

,`linear_model.ElasticNet`

and related. By Manoj Kumar.- Add
`sample_weight`

parameter to`metrics.jaccard_similarity_score`

and`metrics.log_loss`

. By Jatin Shah.- Support sparse multilabel indicator representation in
`preprocessing.LabelBinarizer`

and`multiclass.OneVsRestClassifier`

(by Hamzeh Alsalhi with thanks to Rohit Sivaprasad), as well as evaluation metrics (by Joel Nothman).- Add
`sample_weight`

parameter to metrics.jaccard_similarity_score. By Jatin Shah.- Add support for multiclass in metrics.hinge_loss. Added
`labels=None`

as optional parameter. By Saurabh Jha.- Add
`sample_weight`

parameter to metrics.hinge_loss. By Saurabh Jha.- Add
`multi_class="multinomial"`

option in`linear_model.LogisticRegression`

to implement a Logistic Regression solver that minimizes the cross-entropy or multinomial loss instead of the default One-vs-Rest setting. Supports lbfgs and newton-cg solvers. By Lars Buitinck and Manoj Kumar. Solver option newton-cg by Simon Wu.`DictVectorizer`

can now perform`fit_transform`

on an iterable in a single pass, when giving the option`sort=False`

. By Dan Blanchard.`GridSearchCV`

and`RandomizedSearchCV`

can now be configured to work with estimators that may fail and raise errors on individual folds. This option is controlled by the error_score parameter. This does not affect errors raised on re-fit. By Michal Romaniuk.- Add
`digits`

parameter to metrics.classification_report to allow report to show different precision of floating point numbers. By Ian Gilmore.- Add a quantile prediction strategy to the
`dummy.DummyRegressor`

. By Aaron Staple.- Add
`handle_unknown`

option to`preprocessing.OneHotEncoder`

to handle unknown categorical features more gracefully during transform. By Manoj Kumar.- Added support for sparse input data to decision trees and their ensembles. By Fares Hedyati and Arnaud Joly.
- Optimized
`cluster.AffinityPropagation`

by reducing the number of memory allocations of large temporary data-structures. By Antony Lee.- Parellization of the computation of feature importances in random forest. By Olivier Grisel and Arnaud Joly.
- Add
`n_iter_`

attribute to estimators that accept a`max_iter`

attribute in their constructor. By Manoj Kumar.- Added decision function for
`multiclass.OneVsOneClassifier`

By Raghav RV and Kyle Beauchamp.`neighbors.kneighbors_graph`

and`radius_neighbors_graph`

support non-Euclidean metrics. By Manoj Kumar- Parameter
`connectivity`

in`cluster.AgglomerativeClustering`

and family now accept callables that return a connectivity matrix. By Manoj Kumar.- Sparse support for
`paired_distances`

. By Joel Nothman.`cluster.DBSCAN`

now supports sparse input and sample weights and has been optimized: the inner loop has been rewritten in Cython and radius neighbors queries are now computed in batch. By Joel Nothman and Lars Buitinck.- Add
`class_weight`

parameter to automatically weight samples by class frequency for`ensemble.RandomForestClassifier`

,`tree.DecisionTreeClassifier`

,`ensemble.ExtraTreesClassifier`

and`tree.ExtraTreeClassifier`

. By Trevor Stephens.`grid_search.RandomizedSearchCV`

now does sampling without replacement if all parameters are given as lists. By Andreas Müller.- Parallelized calculation of
`pairwise_distances`

is now supported for scipy metrics and custom callables. By Joel Nothman.- Allow the fitting and scoring of all clustering algorithms in
`pipeline.Pipeline`

. By Andreas Müller.- More robust seeding and improved error messages in
`cluster.MeanShift`

by Andreas Müller.- Make the stopping criterion for
`mixture.GMM`

,`mixture.DPGMM`

and`mixture.VBGMM`

less dependent on the number of samples by thresholding the average log-likelihood change instead of its sum over all samples. By Hervé Bredin.- The outcome of
`manifold.spectral_embedding`

was made deterministic by flipping the sign of eigenvectors. By Hasil Sharma.- Significant performance and memory usage improvements in
`preprocessing.PolynomialFeatures`

. By Eric Martin.- Numerical stability improvements for
`preprocessing.StandardScaler`

and`preprocessing.scale`

. By Nicolas Goix`svm.SVC`

fitted on sparse input now implements`decision_function`

. By Rob Zinkov and Andreas Müller.`cross_validation.train_test_split`

now preserves the input type, instead of converting to numpy arrays.

#### Documentation improvements¶

- Added example of using
`FeatureUnion`

for heterogeneous input. By Matt Terry- Documentation on scorers was improved, to highlight the handling of loss functions. By Matt Pico.
- A discrepancy between liblinear output and scikit-learn’s wrappers is now noted. By Manoj Kumar.
- Improved documentation generation: examples referring to a class or function are now shown in a gallery on the class/function’s API reference page. By Joel Nothman.
- More explicit documentation of sample generators and of data transformation. By Joel Nothman.
`sklearn.neighbors.BallTree`

and`sklearn.neighbors.KDTree`

used to point to empty pages stating that they are aliases of BinaryTree. This has been fixed to show the correct class docs. By Manoj Kumar.- Added silhouette plots for analysis of KMeans clustering using
`metrics.silhouette_samples`

and`metrics.silhouette_score`

. See Selecting the number of clusters with silhouette analysis on KMeans clustering

#### Bug fixes¶

- Metaestimators now support ducktyping for the presence of
`decision_function`

,`predict_proba`

and other methods. This fixes behavior of`grid_search.GridSearchCV`

,`grid_search.RandomizedSearchCV`

,`pipeline.Pipeline`

,`feature_selection.RFE`

,`feature_selection.RFECV`

when nested. By Joel Nothman- The
`scoring`

attribute of grid-search and cross-validation methods is no longer ignored when a`grid_search.GridSearchCV`

is given as a base estimator or the base estimator doesn’t have predict.- The function
`hierarchical.ward_tree`

now returns the children in the same order for both the structured and unstructured versions. By Matteo Visconti di Oleggio Castello.`feature_selection.RFECV`

now correctly handles cases when`step`

is not equal to 1. By Nikolay Mayorov- The
`decomposition.PCA`

now undoes whitening in its`inverse_transform`

. Also, its`components_`

now always have unit length. By Michael Eickenberg.- Fix incomplete download of the dataset when
`datasets.download_20newsgroups`

is called. By Manoj Kumar.- Various fixes to the Gaussian processes subpackage by Vincent Dubourg and Jan Hendrik Metzen.
- Calling
`partial_fit`

with`class_weight=='auto'`

throws an appropriate error message and suggests a work around. By Danny Sullivan.`RBFSampler`

with`gamma=g`

formerly approximated`rbf_kernel`

with`gamma=g/2.`

; the definition of`gamma`

is now consistent, which may substantially change your results if you use a fixed value. (If you cross-validated over`gamma`

, it probably doesn’t matter too much.) By Dougal Sutherland.- Pipeline object delegate the
`classes_`

attribute to the underlying estimator. It allows, for instance, to make bagging of a pipeline object. By Arnaud Joly`neighbors.NearestCentroid`

now uses the median as the centroid when metric is set to`manhattan`

. It was using the mean before. By Manoj Kumar- Fix numerical stability issues in
`linear_model.SGDClassifier`

and`linear_model.SGDRegressor`

by clipping large gradients and ensuring that weight decay rescaling is always positive (for large l2 regularization and large learning rate values). By Olivier Grisel- When compute_full_tree is set to “auto”, the full tree is built when n_clusters is high and is early stopped when n_clusters is low, while the behavior should be vice-versa in
`cluster.AgglomerativeClustering`

(and friends). This has been fixed By Manoj Kumar- Fix lazy centering of data in
`linear_model.enet_path`

and`linear_model.lasso_path`

. It was centered around one. It has been changed to be centered around the origin. By Manoj Kumar- Fix handling of precomputed affinity matrices in
`cluster.AgglomerativeClustering`

when using connectivity constraints. By Cathy Deng- Correct
`partial_fit`

handling of`class_prior`

for`sklearn.naive_bayes.MultinomialNB`

and`sklearn.naive_bayes.BernoulliNB`

. By Trevor Stephens.- Fixed a crash in
`metrics.precision_recall_fscore_support`

when using unsorted`labels`

in the multi-label setting. By Andreas Müller.- Avoid skipping the first nearest neighbor in the methods
`radius_neighbors`

,`kneighbors`

,`kneighbors_graph`

and`radius_neighbors_graph`

in`sklearn.neighbors.NearestNeighbors`

and family, when the query data is not the same as fit data. By Manoj Kumar.- Fix log-density calculation in the
`mixture.GMM`

with tied covariance. By Will Dawson- Fixed a scaling error in
`feature_selection.SelectFdr`

where a factor`n_features`

was missing. By Andrew Tulloch- Fix zero division in
`neighbors.KNeighborsRegressor`

and related classes when using distance weighting and having identical data points. By Garret-R.- Fixed round off errors with non positive-definite covariance matrices in GMM. By Alexis Mignon.
- Fixed a error in the computation of conditional probabilities in
`naive_bayes.BernoulliNB`

. By Hanna Wallach.- Make the method
`radius_neighbors`

of`neighbors.NearestNeighbors`

return the samples lying on the boundary for`algorithm='brute'`

. By Yan Yi.- Flip sign of
`dual_coef_`

of`svm.SVC`

to make it consistent with the documentation and`decision_function`

. By Artem Sobolev.- Fixed handling of ties in
`isotonic.IsotonicRegression`

. We now use the weighted average of targets (secondary method). By Andreas Müller and Michael Bommarito.

### API changes summary¶

`GridSearchCV`

and`cross_val_score`

and other meta-estimators don’t convert pandas DataFrames into arrays any more, allowing DataFrame specific operations in custom estimators.`multiclass.fit_ovr`

,`multiclass.predict_ovr`

,`predict_proba_ovr`

,`multiclass.fit_ovo`

,`multiclass.predict_ovo`

,`multiclass.fit_ecoc`

and`multiclass.predict_ecoc`

are deprecated. Use the underlying estimators instead.- Nearest neighbors estimators used to take arbitrary keyword arguments and pass these to their distance metric. This will no longer be supported in scikit-learn 0.18; use the
`metric_params`

argument instead.

- n_jobs parameter of the fit method shifted to the constructor of the
- LinearRegression class.
- The
`predict_proba`

method of`multiclass.OneVsRestClassifier`

now returns two probabilities per sample in the multiclass case; this is consistent with other estimators and with the method’s documentation, but previous versions accidentally returned only the positive probability. Fixed by Will Lamond and Lars Buitinck.- Change default value of precompute in
`ElasticNet`

and`Lasso`

to False. Setting precompute to “auto” was found to be slower when n_samples > n_features since the computation of the Gram matrix is computationally expensive and outweighs the benefit of fitting the Gram for just one alpha.`precompute="auto"`

is now deprecated and will be removed in 0.18 By Manoj Kumar.- Expose
`positive`

option in`linear_model.enet_path`

and`linear_model.enet_path`

which constrains coefficients to be positive. By Manoj Kumar.- Users should now supply an explicit
`average`

parameter to`sklearn.metrics.f1_score`

,`sklearn.metrics.fbeta_score`

,`sklearn.metrics.recall_score`

and`sklearn.metrics.precision_score`

when performing multiclass or multilabel (i.e. not binary) classification. By Joel Nothman.- scoring parameter for cross validation now accepts ‘f1_micro’, ‘f1_macro’ or ‘f1_weighted’. ‘f1’ is now for binary classification only. Similar changes apply to ‘precision’ and ‘recall’. By Joel Nothman.
- The
`fit_intercept`

,`normalize`

and`return_models`

parameters in`linear_model.enet_path`

and`linear_model.lasso_path`

have been removed. They were deprecated since 0.14- From now onwards, all estimators will uniformly raise
`NotFittedError`

(`utils.validation.NotFittedError`

), when any of the`predict`

like methods are called before the model is fit. By Raghav RV.- Input data validation was refactored for more consistent input validation. The
`check_arrays`

function was replaced by`check_array`

and`check_X_y`

. By Andreas Müller.- Allow
`X=None`

in the methods`radius_neighbors`

,`kneighbors`

,`kneighbors_graph`

and`radius_neighbors_graph`

in`sklearn.neighbors.NearestNeighbors`

and family. If set to None, then for every sample this avoids setting the sample itself as the first nearest neighbor. By Manoj Kumar.- Add parameter
`include_self`

in`neighbors.kneighbors_graph`

and`neighbors.radius_neighbors_graph`

which has to be explicitly set by the user. If set to True, then the sample itself is considered as the first nearest neighbor.- thresh parameter is deprecated in favor of new tol parameter in
`GMM`

,`DPGMM`

and`VBGMM`

. See Enhancements section for details. By Hervé Bredin.- Estimators will treat input with dtype object as numeric when possible. By Andreas Müller
- Estimators now raise ValueError consistently when fitted on empty data (less than 1 sample or less than 1 feature for 2D input). By Olivier Grisel.
- The
`shuffle`

option of`linear_model.SGDClassifier`

,`linear_model.SGDRegressor`

,`linear_model.Perceptron`

,`linear_model.PassiveAgressiveClassifier`

and`linear_model.PassiveAgressiveRegressor`

now defaults to`True`

.`cluster.DBSCAN`

now uses a deterministic initialization. The random_state parameter is deprecated. By Erich Schubert.

### Code Contributors¶

A. Flaxman, Aaron Schumacher, Aaron Staple, abhishek thakur, Akshay, akshayah3, Aldrian Obaja, Alexander Fabisch, Alexandre Gramfort, Alexis Mignon, Anders Aagaard, Andreas Mueller, Andreas van Cranenburgh, Andrew Tulloch, Andrew Walker, Antony Lee, Arnaud Joly, banilo, Barmaley.exe, Ben Davies, Benedikt Koehler, bhsu, Boris Feld, Borja Ayerdi, Boyuan Deng, Brent Pedersen, Brian Wignall, Brooke Osborn, Calvin Giles, Cathy Deng, Celeo, cgohlke, chebee7i, Christian Stade-Schuldt, Christof Angermueller, Chyi-Kwei Yau, CJ Carey, Clemens Brunner, Daiki Aminaka, Dan Blanchard, danfrankj, Danny Sullivan, David Fletcher, Dmitrijs Milajevs, Dougal J. Sutherland, Erich Schubert, Fabian Pedregosa, Florian Wilhelm, floydsoft, Félix-Antoine Fortin, Gael Varoquaux, Garrett-R, Gilles Louppe, gpassino, gwulfs, Hampus Bengtsson, Hamzeh Alsalhi, Hanna Wallach, Harry Mavroforakis, Hasil Sharma, Helder, Herve Bredin, Hsiang-Fu Yu, Hugues SALAMIN, Ian Gilmore, Ilambharathi Kanniah, Imran Haque, isms, Jake VanderPlas, Jan Dlabal, Jan Hendrik Metzen, Jatin Shah, Javier López Peña, jdcaballero, Jean Kossaifi, Jeff Hammerbacher, Joel Nothman, Jonathan Helmus, Joseph, Kaicheng Zhang, Kevin Markham, Kyle Beauchamp, Kyle Kastner, Lagacherie Matthieu, Lars Buitinck, Laurent Direr, leepei, Loic Esteve, Luis Pedro Coelho, Lukas Michelbacher, maheshakya, Manoj Kumar, Manuel, Mario Michael Krell, Martin, Martin Billinger, Martin Ku, Mateusz Susik, Mathieu Blondel, Matt Pico, Matt Terry, Matteo Visconti dOC, Matti Lyra, Max Linke, Mehdi Cherti, Michael Bommarito, Michael Eickenberg, Michal Romaniuk, MLG, mr.Shu, Nelle Varoquaux, Nicola Montecchio, Nicolas, Nikolay Mayorov, Noel Dawe, Okal Billy, Olivier Grisel, Óscar Nájera, Paolo Puggioni, Peter Prettenhofer, Pratap Vardhan, pvnguyen, queqichao, Rafael Carrascosa, Raghav R V, Rahiel Kasim, Randall Mason, Rob Zinkov, Robert Bradshaw, Saket Choudhary, Sam Nicholls, Samuel Charron, Saurabh Jha, sethdandridge, sinhrks, snuderl, Stefan Otte, Stefan van der Walt, Steve Tjoa, swu, Sylvain Zimmer, tejesh95, terrycojones, Thomas Delteil, Thomas Unterthiner, Tomas Kazmar, trevorstephens, tttthomasssss, Tzu-Ming Kuo, ugurcaliskan, ugurthemaster, Vinayak Mehta, Vincent Dubourg, Vjacheslav Murashkin, Vlad Niculae, wadawson, Wei Xue, Will Lamond, Wu Jiang, x0l, Xinfan Meng, Yan Yi, Yu-Chin

## Version 0.15.2¶

**September 4, 2014**

### Bug fixes¶

- Fixed handling of the
`p`

parameter of the Minkowski distance that was previously ignored in nearest neighbors models. By Nikolay Mayorov.- Fixed duplicated alphas in
`linear_model.LassoLars`

with early stopping on 32 bit Python. By Olivier Grisel and Fabian Pedregosa.- Fixed the build under Windows when scikit-learn is built with MSVC while NumPy is built with MinGW. By Olivier Grisel and Federico Vaggi.
- Fixed an array index overflow bug in the coordinate descent solver. By Gael Varoquaux.
- Better handling of numpy 1.9 deprecation warnings. By Gael Varoquaux.
- Removed unnecessary data copy in
`cluster.KMeans`

. By Gael Varoquaux.- Explicitly close open files to avoid
`ResourceWarnings`

under Python 3. By Calvin Giles.- The
`transform`

of`discriminant_analysis.LinearDiscriminantAnalysis`

now projects the input on the most discriminant directions. By Martin Billinger.- Fixed potential overflow in
`_tree.safe_realloc`

by Lars Buitinck.- Performance optimization in
`isotonic.IsotonicRegression`

. By Robert Bradshaw.`nose`

is non-longer a runtime dependency to import`sklearn`

, only for running the tests. By Joel Nothman.- Many documentation and website fixes by Joel Nothman, Lars Buitinck Matt Pico, and others.

## Version 0.15.1¶

**August 1, 2014**

### Bug fixes¶

- Made
`cross_validation.cross_val_score`

use`cross_validation.KFold`

instead of`cross_validation.StratifiedKFold`

on multi-output classification problems. By Nikolay Mayorov.- Support unseen labels
`preprocessing.LabelBinarizer`

to restore the default behavior of 0.14.1 for backward compatibility. By Hamzeh Alsalhi.- Fixed the
`cluster.KMeans`

stopping criterion that prevented early convergence detection. By Edward Raff and Gael Varoquaux.- Fixed the behavior of
`multiclass.OneVsOneClassifier`

. in case of ties at the per-class vote level by computing the correct per-class sum of prediction scores. By Andreas Müller.- Made
`cross_validation.cross_val_score`

and`grid_search.GridSearchCV`

accept Python lists as input data. This is especially useful for cross-validation and model selection of text processing pipelines. By Andreas Müller.- Fixed data input checks of most estimators to accept input data that implements the NumPy
`__array__`

protocol. This is the case for for`pandas.Series`

and`pandas.DataFrame`

in recent versions of pandas. By Gael Varoquaux.- Fixed a regression for
`linear_model.SGDClassifier`

with`class_weight="auto"`

on data with non-contiguous labels. By Olivier Grisel.

## Version 0.15¶

**July 15, 2014**

### Highlights¶

- Many speed and memory improvements all across the code
- Huge speed and memory improvements to random forests (and extra trees) that also benefit better from parallel computing.
- Incremental fit to
`BernoulliRBM`

- Added
`cluster.AgglomerativeClustering`

for hierarchical agglomerative clustering with average linkage, complete linkage and ward strategies.- Added
`linear_model.RANSACRegressor`

for robust regression models.- Added dimensionality reduction with
`manifold.TSNE`

which can be used to visualize high-dimensional data.

### Changelog¶

#### New features¶

- Added
`ensemble.BaggingClassifier`

and`ensemble.BaggingRegressor`

meta-estimators for ensembling any kind of base estimator. See the Bagging section of the user guide for details and examples. By Gilles Louppe.- New unsupervised feature selection algorithm
`feature_selection.VarianceThreshold`

, by Lars Buitinck.- Added
`linear_model.RANSACRegressor`

meta-estimator for the robust fitting of regression models. By Johannes Schönberger.- Added
`cluster.AgglomerativeClustering`

for hierarchical agglomerative clustering with average linkage, complete linkage and ward strategies, by Nelle Varoquaux and Gael Varoquaux.- Shorthand constructors
`pipeline.make_pipeline`

and`pipeline.make_union`

were added by Lars Buitinck.- Shuffle option for
`cross_validation.StratifiedKFold`

. By Jeffrey Blackburne.- Incremental learning (
`partial_fit`

) for Gaussian Naive Bayes by Imran Haque.- Added
`partial_fit`

to`BernoulliRBM`

By Danny Sullivan.- Added
`learning_curve`

utility to chart performance with respect to training size. See Plotting Learning Curves. By Alexander Fabisch.- Add positive option in
`LassoCV`

and`ElasticNetCV`

. By Brian Wignall and Alexandre Gramfort.- Added
`linear_model.MultiTaskElasticNetCV`

and`linear_model.MultiTaskLassoCV`

. By Manoj Kumar.- Added
`manifold.TSNE`

. By Alexander Fabisch.

#### Enhancements¶

- Add sparse input support to
`ensemble.AdaBoostClassifier`

and`ensemble.AdaBoostRegressor`

meta-estimators. By Hamzeh Alsalhi.- Memory improvements of decision trees, by Arnaud Joly.
- Decision trees can now be built in best-first manner by using
`max_leaf_nodes`

as the stopping criteria. Refactored the tree code to use either a stack or a priority queue for tree building. By Peter Prettenhofer and Gilles Louppe.- Decision trees can now be fitted on fortran- and c-style arrays, and non-continuous arrays without the need to make a copy. If the input array has a different dtype than
`np.float32`

, a fortran- style copy will be made since fortran-style memory layout has speed advantages. By Peter Prettenhofer and Gilles Louppe.- Speed improvement of regression trees by optimizing the the computation of the mean square error criterion. This lead to speed improvement of the tree, forest and gradient boosting tree modules. By Arnaud Joly
- The
`img_to_graph`

and`grid_tograph`

functions in`sklearn.feature_extraction.image`

now return`np.ndarray`

instead of`np.matrix`

when`return_as=np.ndarray`

. See the Notes section for more information on compatibility.- Changed the internal storage of decision trees to use a struct array. This fixed some small bugs, while improving code and providing a small speed gain. By Joel Nothman.
- Reduce memory usage and overhead when fitting and predicting with forests of randomized trees in parallel with
`n_jobs != 1`

by leveraging new threading backend of joblib 0.8 and releasing the GIL in the tree fitting Cython code. By Olivier Grisel and Gilles Louppe.- Speed improvement of the
`sklearn.ensemble.gradient_boosting`

module. By Gilles Louppe and Peter Prettenhofer.- Various enhancements to the
`sklearn.ensemble.gradient_boosting`

module: a`warm_start`

argument to fit additional trees, a`max_leaf_nodes`

argument to fit GBM style trees, a`monitor`

fit argument to inspect the estimator during training, and refactoring of the verbose code. By Peter Prettenhofer.- Faster
`sklearn.ensemble.ExtraTrees`

by caching feature values. By Arnaud Joly.- Faster depth-based tree building algorithm such as decision tree, random forest, extra trees or gradient tree boosting (with depth based growing strategy) by avoiding trying to split on found constant features in the sample subset. By Arnaud Joly.
- Add
`min_weight_fraction_leaf`

pre-pruning parameter to tree-based methods: the minimum weighted fraction of the input samples required to be at a leaf node. By Noel Dawe.- Added
`metrics.pairwise_distances_argmin_min`

, by Philippe Gervais.- Added predict method to
`cluster.AffinityPropagation`

and`cluster.MeanShift`

, by Mathieu Blondel.- Vector and matrix multiplications have been optimised throughout the library by Denis Engemann, and Alexandre Gramfort. In particular, they should take less memory with older NumPy versions (prior to 1.7.2).
- Precision-recall and ROC examples now use train_test_split, and have more explanation of why these metrics are useful. By Kyle Kastner
- The training algorithm for
`decomposition.NMF`

is faster for sparse matrices and has much lower memory complexity, meaning it will scale up gracefully to large datasets. By Lars Buitinck.- Added svd_method option with default value to “randomized” to
`decomposition.FactorAnalysis`

to save memory and significantly speedup computation by Denis Engemann, and Alexandre Gramfort.- Changed
`cross_validation.StratifiedKFold`

to try and preserve as much of the original ordering of samples as possible so as not to hide overfitting on datasets with a non-negligible level of samples dependency. By Daniel Nouri and Olivier Grisel.- Add multi-output support to
`gaussian_process.GaussianProcess`

by John Novak.- Support for precomputed distance matrices in nearest neighbor estimators by Robert Layton and Joel Nothman.
- Norm computations optimized for NumPy 1.6 and later versions by Lars Buitinck. In particular, the k-means algorithm no longer needs a temporary data structure the size of its input.
`dummy.DummyClassifier`

can now be used to predict a constant output value. By Manoj Kumar.`dummy.DummyRegressor`

has now a strategy parameter which allows to predict the mean, the median of the training set or a constant output value. By Maheshakya Wijewardena.- Multi-label classification output in multilabel indicator format is now supported by
`metrics.roc_auc_score`

and`metrics.average_precision_score`

by Arnaud Joly.- Significant performance improvements (more than 100x speedup for large problems) in
`isotonic.IsotonicRegression`

by Andrew Tulloch.- Speed and memory usage improvements to the SGD algorithm for linear models: it now uses threads, not separate processes, when
`n_jobs>1`

. By Lars Buitinck.- Grid search and cross validation allow NaNs in the input arrays so that preprocessors such as
`preprocessing.Imputer`

can be trained within the cross validation loop, avoiding potentially skewed results.- Ridge regression can now deal with sample weights in feature space (only sample space until then). By Michael Eickenberg. Both solutions are provided by the Cholesky solver.
- Several classification and regression metrics now support weighted samples with the new
`sample_weight`

argument:`metrics.accuracy_score`

,`metrics.zero_one_loss`

,`metrics.precision_score`

,`metrics.average_precision_score`

,`metrics.f1_score`

,`metrics.fbeta_score`

,`metrics.recall_score`

,`metrics.roc_auc_score`

,`metrics.explained_variance_score`

,`metrics.mean_squared_error`

,`metrics.mean_absolute_error`

,`metrics.r2_score`

. By Noel Dawe.- Speed up of the sample generator
`datasets.make_multilabel_classification`

. By Joel Nothman.

#### Documentation improvements¶

- The Working With Text Data tutorial has now been worked in to the main documentation’s tutorial section. Includes exercises and skeletons for tutorial presentation. Original tutorial created by several authors including Olivier Grisel, Lars Buitinck and many others. Tutorial integration into the scikit-learn documentation by Jaques Grobler
- Added Computational Performance documentation. Discussion and examples of prediction latency / throughput and different factors that have influence over speed. Additional tips for building faster models and choosing a relevant compromise between speed and predictive power. By Eustache Diemert.

#### Bug fixes¶

- Fixed bug in
`decomposition.MiniBatchDictionaryLearning`

:`partial_fit`

was not working properly.- Fixed bug in
`linear_model.stochastic_gradient`

:`l1_ratio`

was used as`(1.0 - l1_ratio)`

.- Fixed bug in
`multiclass.OneVsOneClassifier`

with string labels- Fixed a bug in
`LassoCV`

and`ElasticNetCV`

: they would not pre-compute the Gram matrix with`precompute=True`

or`precompute="auto"`

and`n_samples > n_features`

. By Manoj Kumar.- Fixed incorrect estimation of the degrees of freedom in
`feature_selection.f_regression`

when variates are not centered. By Virgile Fritsch.- Fixed a race condition in parallel processing with
`pre_dispatch != "all"`

(for instance, in`cross_val_score`

). By Olivier Grisel.- Raise error in
`cluster.FeatureAgglomeration`

and`cluster.WardAgglomeration`

when no samples are given, rather than returning meaningless clustering.- Fixed bug in
`gradient_boosting.GradientBoostingRegressor`

with`loss='huber'`

:`gamma`

might have not been initialized.- Fixed feature importances as computed with a forest of randomized trees when fit with
`sample_weight != None`

and/or with`bootstrap=True`

. By Gilles Louppe.

### API changes summary¶

`sklearn.hmm`

is deprecated. Its removal is planned for the 0.17 release.- Use of
`covariance.EllipticEnvelop`

has now been removed after deprecation. Please use`covariance.EllipticEnvelope`

instead.`cluster.Ward`

is deprecated. Use`cluster.AgglomerativeClustering`

instead.`cluster.WardClustering`

is deprecated. Use`cluster.AgglomerativeClustering`

instead.`cross_validation.Bootstrap`

is deprecated.`cross_validation.KFold`

or`cross_validation.ShuffleSplit`

are recommended instead.- Direct support for the sequence of sequences (or list of lists) multilabel format is deprecated. To convert to and from the supported binary indicator matrix format, use
`MultiLabelBinarizer`

. By Joel Nothman.- Add score method to
`PCA`

following the model of probabilistic PCA and deprecate`ProbabilisticPCA`

model whose score implementation is not correct. The computation now also exploits the matrix inversion lemma for faster computation. By Alexandre Gramfort.- The score method of
`FactorAnalysis`

now returns the average log-likelihood of the samples. Use score_samples to get log-likelihood of each sample. By Alexandre Gramfort.- Generating boolean masks (the setting
`indices=False`

) from cross-validation generators is deprecated. Support for masks will be removed in 0.17. The generators have produced arrays of indices by default since 0.10. By Joel Nothman.- 1-d arrays containing strings with
`dtype=object`

(as used in Pandas) are now considered valid classification targets. This fixes a regression from version 0.13 in some classifiers. By Joel Nothman.- Fix wrong
`explained_variance_ratio_`

attribute in`RandomizedPCA`

. By Alexandre Gramfort.- Fit alphas for each
`l1_ratio`

instead of`mean_l1_ratio`

in`linear_model.ElasticNetCV`

and`linear_model.LassoCV`

. This changes the shape of`alphas_`

from`(n_alphas,)`

to`(n_l1_ratio, n_alphas)`

if the`l1_ratio`

provided is a 1-D array like object of length greater than one. By Manoj Kumar.- Fix
`linear_model.ElasticNetCV`

and`linear_model.LassoCV`

when fitting intercept and input data is sparse. The automatic grid of alphas was not computed correctly and the scaling with normalize was wrong. By Manoj Kumar.- Fix wrong maximal number of features drawn (
`max_features`

) at each split for decision trees, random forests and gradient tree boosting. Previously, the count for the number of drawn features started only after one non constant features in the split. This bug fix will affect computational and generalization performance of those algorithms in the presence of constant features. To get back previous generalization performance, you should modify the value of`max_features`

. By Arnaud Joly.- Fix wrong maximal number of features drawn (
`max_features`

) at each split for`ensemble.ExtraTreesClassifier`

and`ensemble.ExtraTreesRegressor`

. Previously, only non constant features in the split was counted as drawn. Now constant features are counted as drawn. Furthermore at least one feature must be non constant in order to make a valid split. This bug fix will affect computational and generalization performance of extra trees in the presence of constant features. To get back previous generalization performance, you should modify the value of`max_features`

. By Arnaud Joly.- Fix
`utils.compute_class_weight`

when`class_weight=="auto"`

. Previously it was broken for input of non-integer`dtype`

and the weighted array that was returned was wrong. By Manoj Kumar.- Fix
`cross_validation.Bootstrap`

to return`ValueError`

when`n_train + n_test > n`

. By Ronald Phlypo.

### People¶

List of contributors for release 0.15 by number of commits.

- 312 Olivier Grisel
- 275 Lars Buitinck
- 221 Gael Varoquaux
- 148 Arnaud Joly
- 134 Johannes Schönberger
- 119 Gilles Louppe
- 113 Joel Nothman
- 111 Alexandre Gramfort
- 95 Jaques Grobler
- 89 Denis Engemann
- 83 Peter Prettenhofer
- 83 Alexander Fabisch
- 62 Mathieu Blondel
- 60 Eustache Diemert
- 60 Nelle Varoquaux
- 49 Michael Bommarito
- 45 Manoj-Kumar-S
- 28 Kyle Kastner
- 26 Andreas Mueller
- 22 Noel Dawe
- 21 Maheshakya Wijewardena
- 21 Brooke Osborn
- 21 Hamzeh Alsalhi
- 21 Jake VanderPlas
- 21 Philippe Gervais
- 19 Bala Subrahmanyam Varanasi
- 12 Ronald Phlypo
- 10 Mikhail Korobov
- 8 Thomas Unterthiner
- 8 Jeffrey Blackburne
- 8 eltermann
- 8 bwignall
- 7 Ankit Agrawal
- 7 CJ Carey
- 6 Daniel Nouri
- 6 Chen Liu
- 6 Michael Eickenberg
- 6 ugurthemaster
- 5 Aaron Schumacher
- 5 Baptiste Lagarde
- 5 Rajat Khanduja
- 5 Robert McGibbon
- 5 Sergio Pascual
- 4 Alexis Metaireau
- 4 Ignacio Rossi
- 4 Virgile Fritsch
- 4 Sebastian Säger
- 4 Ilambharathi Kanniah
- 4 sdenton4
- 4 Robert Layton
- 4 Alyssa
- 4 Amos Waterland
- 3 Andrew Tulloch
- 3 murad
- 3 Steven Maude
- 3 Karol Pysniak
- 3 Jacques Kvam
- 3 cgohlke
- 3 cjlin
- 3 Michael Becker
- 3 hamzeh
- 3 Eric Jacobsen
- 3 john collins
- 3 kaushik94
- 3 Erwin Marsi
- 2 csytracy
- 2 LK
- 2 Vlad Niculae
- 2 Laurent Direr
- 2 Erik Shilts
- 2 Raul Garreta
- 2 Yoshiki Vázquez Baeza
- 2 Yung Siang Liau
- 2 abhishek thakur
- 2 James Yu
- 2 Rohit Sivaprasad
- 2 Roland Szabo
- 2 amormachine
- 2 Alexis Mignon
- 2 Oscar Carlsson
- 2 Nantas Nardelli
- 2 jess010
- 2 kowalski87
- 2 Andrew Clegg
- 2 Federico Vaggi
- 2 Simon Frid
- 2 Félix-Antoine Fortin
- 1 Ralf Gommers
- 1 t-aft
- 1 Ronan Amicel
- 1 Rupesh Kumar Srivastava
- 1 Ryan Wang
- 1 Samuel Charron
- 1 Samuel St-Jean
- 1 Fabian Pedregosa
- 1 Skipper Seabold
- 1 Stefan Walk
- 1 Stefan van der Walt
- 1 Stephan Hoyer
- 1 Allen Riddell
- 1 Valentin Haenel
- 1 Vijay Ramesh
- 1 Will Myers
- 1 Yaroslav Halchenko
- 1 Yoni Ben-Meshulam
- 1 Yury V. Zaytsev
- 1 adrinjalali
- 1 ai8rahim
- 1 alemagnani
- 1 alex
- 1 benjamin wilson
- 1 chalmerlowe
- 1 dzikie drożdże
- 1 jamestwebber
- 1 matrixorz
- 1 popo
- 1 samuela
- 1 François Boulogne
- 1 Alexander Measure
- 1 Ethan White
- 1 Guilherme Trein
- 1 Hendrik Heuer
- 1 IvicaJovic
- 1 Jan Hendrik Metzen
- 1 Jean Michel Rouly
- 1 Eduardo Ariño de la Rubia
- 1 Jelle Zijlstra
- 1 Eddy L O Jansson
- 1 Denis
- 1 John
- 1 John Schmidt
- 1 Jorge Cañardo Alastuey
- 1 Joseph Perla
- 1 Joshua Vredevoogd
- 1 José Ricardo
- 1 Julien Miotte
- 1 Kemal Eren
- 1 Kenta Sato
- 1 David Cournapeau
- 1 Kyle Kelley
- 1 Daniele Medri
- 1 Laurent Luce
- 1 Laurent Pierron
- 1 Luis Pedro Coelho
- 1 DanielWeitzenfeld
- 1 Craig Thompson
- 1 Chyi-Kwei Yau
- 1 Matthew Brett
- 1 Matthias Feurer
- 1 Max Linke
- 1 Chris Filo Gorgolewski
- 1 Charles Earl
- 1 Michael Hanke
- 1 Michele Orrù
- 1 Bryan Lunt
- 1 Brian Kearns
- 1 Paul Butler
- 1 Paweł Mandera
- 1 Peter
- 1 Andrew Ash
- 1 Pietro Zambelli
- 1 staubda

## Version 0.14¶

**August 7, 2013**

### Changelog¶

- Missing values with sparse and dense matrices can be imputed with the transformer
`preprocessing.Imputer`

by Nicolas Trésegnie.- The core implementation of decisions trees has been rewritten from scratch, allowing for faster tree induction and lower memory consumption in all tree-based estimators. By Gilles Louppe.
- Added
`ensemble.AdaBoostClassifier`

and`ensemble.AdaBoostRegressor`

, by Noel Dawe and Gilles Louppe. See the AdaBoost section of the user guide for details and examples.- Added
`grid_search.RandomizedSearchCV`

and`grid_search.ParameterSampler`

for randomized hyperparameter optimization. By Andreas Müller.- Added biclustering algorithms (
`sklearn.cluster.bicluster.SpectralCoclustering`

and`sklearn.cluster.bicluster.SpectralBiclustering`

), data generation methods (`sklearn.datasets.make_biclusters`

and`sklearn.datasets.make_checkerboard`

), and scoring metrics (`sklearn.metrics.consensus_score`

). By Kemal Eren.- Added Restricted Boltzmann Machines (
`neural_network.BernoulliRBM`

). By Yann Dauphin.- Python 3 support by Justin Vincent, Lars Buitinck, Subhodeep Moitra and Olivier Grisel. All tests now pass under Python 3.3.
- Ability to pass one penalty (alpha value) per target in
`linear_model.Ridge`

, by @eickenberg and Mathieu Blondel.- Fixed
`sklearn.linear_model.stochastic_gradient.py`

L2 regularization issue (minor practical significance). By Norbert Crombach and Mathieu Blondel .- Added an interactive version of Andreas Müller’s Machine Learning Cheat Sheet (for scikit-learn) to the documentation. See Choosing the right estimator. By Jaques Grobler.
`grid_search.GridSearchCV`

and`cross_validation.cross_val_score`

now support the use of advanced scoring function such as area under the ROC curve and f-beta scores. See The scoring parameter: defining model evaluation rules for details. By Andreas Müller and Lars Buitinck. Passing a function from`sklearn.metrics`

as`score_func`

is deprecated.- Multi-label classification output is now supported by
`metrics.accuracy_score`

,`metrics.zero_one_loss`

,`metrics.f1_score`

,`metrics.fbeta_score`

,`metrics.classification_report`

,`metrics.precision_score`

and`metrics.recall_score`

by Arnaud Joly.- Two new metrics
`metrics.hamming_loss`

and`metrics.jaccard_similarity_score`

are added with multi-label support by Arnaud Joly.- Speed and memory usage improvements in
`feature_extraction.text.CountVectorizer`

and`feature_extraction.text.TfidfVectorizer`

, by Jochen Wersdörfer and Roman Sinayev.- The
`min_df`

parameter in`feature_extraction.text.CountVectorizer`

and`feature_extraction.text.TfidfVectorizer`

, which used to be 2, has been reset to 1 to avoid unpleasant surprises (empty vocabularies) for novice users who try it out on tiny document collections. A value of at least 2 is still recommended for practical use.`svm.LinearSVC`

,`linear_model.SGDClassifier`

and`linear_model.SGDRegressor`

now have a`sparsify`

method that converts their`coef_`

into a sparse matrix, meaning stored models trained using these estimators can be made much more compact.`linear_model.SGDClassifier`

now produces multiclass probability estimates when trained under log loss or modified Huber loss.- Hyperlinks to documentation in example code on the website by Martin Luessi.
- Fixed bug in
`preprocessing.MinMaxScaler`

causing incorrect scaling of the features for non-default`feature_range`

settings. By Andreas Müller.`max_features`

in`tree.DecisionTreeClassifier`

,`tree.DecisionTreeRegressor`

and all derived ensemble estimators now supports percentage values. By Gilles Louppe.- Performance improvements in
`isotonic.IsotonicRegression`

by Nelle Varoquaux.`metrics.accuracy_score`

has an option normalize to return the fraction or the number of correctly classified sample by Arnaud Joly.- Added
`metrics.log_loss`

that computes log loss, aka cross-entropy loss. By Jochen Wersdörfer and Lars Buitinck.- A bug that caused
`ensemble.AdaBoostClassifier`

’s to output incorrect probabilities has been fixed.- Feature selectors now share a mixin providing consistent
`transform`

,`inverse_transform`

and`get_support`

methods. By Joel Nothman.- A fitted
`grid_search.GridSearchCV`

or`grid_search.RandomizedSearchCV`

can now generally be pickled. By Joel Nothman.- Refactored and vectorized implementation of
`metrics.roc_curve`

and`metrics.precision_recall_curve`

. By Joel Nothman.- The new estimator
`sklearn.decomposition.TruncatedSVD`

performs dimensionality reduction using SVD on sparse matrices, and can be used for latent semantic analysis (LSA). By Lars Buitinck.- Added self-contained example of out-of-core learning on text data Out-of-core classification of text documents. By Eustache Diemert.
- The default number of components for
`sklearn.decomposition.RandomizedPCA`

is now correctly documented to be`n_features`

. This was the default behavior, so programs using it will continue to work as they did.`sklearn.cluster.KMeans`

now fits several orders of magnitude faster on sparse data (the speedup depends on the sparsity). By Lars Buitinck.- Reduce memory footprint of FastICA by Denis Engemann and Alexandre Gramfort.
- Verbose output in
`sklearn.ensemble.gradient_boosting`

now uses a column format and prints progress in decreasing frequency. It also shows the remaining time. By Peter Prettenhofer.`sklearn.ensemble.gradient_boosting`

provides out-of-bag improvement`oob_improvement_`

rather than the OOB score for model selection. An example that shows how to use OOB estimates to select the number of trees was added. By Peter Prettenhofer.- Most metrics now support string labels for multiclass classification by Arnaud Joly and Lars Buitinck.
- New OrthogonalMatchingPursuitCV class by Alexandre Gramfort and Vlad Niculae.
- Fixed a bug in
`sklearn.covariance.GraphLassoCV`

: the ‘alphas’ parameter now works as expected when given a list of values. By Philippe Gervais.- Fixed an important bug in
`sklearn.covariance.GraphLassoCV`

that prevented all folds provided by a CV object to be used (only the first 3 were used). When providing a CV object, execution time may thus increase significantly compared to the previous version (bug results are correct now). By Philippe Gervais.`cross_validation.cross_val_score`

and the`grid_search`

module is now tested with multi-output data by Arnaud Joly.`datasets.make_multilabel_classification`

can now return the output in label indicator multilabel format by Arnaud Joly.- K-nearest neighbors,
`neighbors.KNeighborsRegressor`

and`neighbors.RadiusNeighborsRegressor`

, and radius neighbors,`neighbors.RadiusNeighborsRegressor`

and`neighbors.RadiusNeighborsClassifier`

support multioutput data by Arnaud Joly.- Random state in LibSVM-based estimators (
`svm.SVC`

,`NuSVC`

,`OneClassSVM`

,`svm.SVR`

,`svm.NuSVR`

) can now be controlled. This is useful to ensure consistency in the probability estimates for the classifiers trained with`probability=True`

. By Vlad Niculae.- Out-of-core learning support for discrete naive Bayes classifiers
`sklearn.naive_bayes.MultinomialNB`

and`sklearn.naive_bayes.BernoulliNB`

by adding the`partial_fit`

method by Olivier Grisel.- New website design and navigation by Gilles Louppe, Nelle Varoquaux, Vincent Michel and Andreas Müller.
- Improved documentation on multi-class, multi-label and multi-output classification by Yannick Schwartz and Arnaud Joly.
- Better input and error handling in the
`metrics`

module by Arnaud Joly and Joel Nothman.- Speed optimization of the
`hmm`

module by Mikhail Korobov- Significant speed improvements for
`sklearn.cluster.DBSCAN`

by cleverless

### API changes summary¶

- The
`auc_score`

was renamed`roc_auc_score`

.- Testing scikit-learn with
`sklearn.test()`

is deprecated. Use`nosetests sklearn`

from the command line.- Feature importances in
`tree.DecisionTreeClassifier`

,`tree.DecisionTreeRegressor`

and all derived ensemble estimators are now computed on the fly when accessing the`feature_importances_`

attribute. Setting`compute_importances=True`

is no longer required. By Gilles Louppe.`linear_model.lasso_path`

and`linear_model.enet_path`

can return its results in the same format as that of`linear_model.lars_path`

. This is done by setting the`return_models`

parameter to`False`

. By Jaques Grobler and Alexandre Gramfort`grid_search.IterGrid`

was renamed to`grid_search.ParameterGrid`

.- Fixed bug in
`KFold`

causing imperfect class balance in some cases. By Alexandre Gramfort and Tadej Janež.`sklearn.neighbors.BallTree`

has been refactored, and a`sklearn.neighbors.KDTree`

has been added which shares the same interface. The Ball Tree now works with a wide variety of distance metrics. Both classes have many new methods, including single-tree and dual-tree queries, breadth-first and depth-first searching, and more advanced queries such as kernel density estimation and 2-point correlation functions. By Jake Vanderplas- Support for scipy.spatial.cKDTree within neighbors queries has been removed, and the functionality replaced with the new
`KDTree`

class.`sklearn.neighbors.KernelDensity`

has been added, which performs efficient kernel density estimation with a variety of kernels.`sklearn.decomposition.KernelPCA`

now always returns output with`n_components`

components, unless the new parameter`remove_zero_eig`

is set to`True`

. This new behavior is consistent with the way kernel PCA was always documented; previously, the removal of components with zero eigenvalues was tacitly performed on all data.`gcv_mode="auto"`

no longer tries to perform SVD on a densified sparse matrix in`sklearn.linear_model.RidgeCV`

.- Sparse matrix support in
`sklearn.decomposition.RandomizedPCA`

is now deprecated in favor of the new`TruncatedSVD`

.`cross_validation.KFold`

and`cross_validation.StratifiedKFold`

now enforce n_folds >= 2 otherwise a`ValueError`

is raised. By Olivier Grisel.`datasets.load_files`

’s`charset`

and`charset_errors`

parameters were renamed`encoding`

and`decode_errors`

.- Attribute
`oob_score_`

in`sklearn.ensemble.GradientBoostingRegressor`

and`sklearn.ensemble.GradientBoostingClassifier`

is deprecated and has been replaced by`oob_improvement_`

.- Attributes in OrthogonalMatchingPursuit have been deprecated (copy_X, Gram, …) and precompute_gram renamed precompute for consistency. See #2224.
`sklearn.preprocessing.StandardScaler`

now converts integer input to float, and raises a warning. Previously it rounded for dense integer input.`sklearn.multiclass.OneVsRestClassifier`

now has a`decision_function`

method. This will return the distance of each sample from the decision boundary for each class, as long as the underlying estimators implement the`decision_function`

method. By Kyle Kastner.- Better input validation, warning on unexpected shapes for y.

### People¶

List of contributors for release 0.14 by number of commits.

- 277 Gilles Louppe
- 245 Lars Buitinck
- 187 Andreas Mueller
- 124 Arnaud Joly
- 112 Jaques Grobler
- 109 Gael Varoquaux
- 107 Olivier Grisel
- 102 Noel Dawe
- 99 Kemal Eren
- 79 Joel Nothman
- 75 Jake VanderPlas
- 73 Nelle Varoquaux
- 71 Vlad Niculae
- 65 Peter Prettenhofer
- 64 Alexandre Gramfort
- 54 Mathieu Blondel
- 38 Nicolas Trésegnie
- 35 eustache
- 27 Denis Engemann
- 25 Yann N. Dauphin
- 19 Justin Vincent
- 17 Robert Layton
- 15 Doug Coleman
- 14 Michael Eickenberg
- 13 Robert Marchman
- 11 Fabian Pedregosa
- 11 Philippe Gervais
- 10 Jim Holmström
- 10 Tadej Janež
- 10 syhw
- 9 Mikhail Korobov
- 9 Steven De Gryze
- 8 sergeyf
- 7 Ben Root
- 7 Hrishikesh Huilgolkar
- 6 Kyle Kastner
- 6 Martin Luessi
- 6 Rob Speer
- 5 Federico Vaggi
- 5 Raul Garreta
- 5 Rob Zinkov
- 4 Ken Geis
- 3 A. Flaxman
- 3 Denton Cockburn
- 3 Dougal Sutherland
- 3 Ian Ozsvald
- 3 Johannes Schönberger
- 3 Robert McGibbon
- 3 Roman Sinayev
- 3 Szabo Roland
- 2 Diego Molla
- 2 Imran Haque
- 2 Jochen Wersdörfer
- 2 Sergey Karayev
- 2 Yannick Schwartz
- 2 jamestwebber
- 1 Abhijeet Kolhe
- 1 Alexander Fabisch
- 1 Bastiaan van den Berg
- 1 Benjamin Peterson
- 1 Daniel Velkov
- 1 Fazlul Shahriar
- 1 Felix Brockherde
- 1 Félix-Antoine Fortin
- 1 Harikrishnan S
- 1 Jack Hale
- 1 JakeMick
- 1 James McDermott
- 1 John Benediktsson
- 1 John Zwinck
- 1 Joshua Vredevoogd
- 1 Justin Pati
- 1 Kevin Hughes
- 1 Kyle Kelley
- 1 Matthias Ekman
- 1 Miroslav Shubernetskiy
- 1 Naoki Orii
- 1 Norbert Crombach
- 1 Rafael Cunha de Almeida
- 1 Rolando Espinoza La fuente
- 1 Seamus Abshere
- 1 Sergey Feldman
- 1 Sergio Medina
- 1 Stefano Lattarini
- 1 Steve Koch
- 1 Sturla Molden
- 1 Thomas Jarosch
- 1 Yaroslav Halchenko

## Version 0.13.1¶

**February 23, 2013**

The 0.13.1 release only fixes some bugs and does not add any new functionality.

### Changelog¶

- Fixed a testing error caused by the function
`cross_validation.train_test_split`

being interpreted as a test by Yaroslav Halchenko.- Fixed a bug in the reassignment of small clusters in the
`cluster.MiniBatchKMeans`

by Gael Varoquaux.- Fixed default value of
`gamma`

in`decomposition.KernelPCA`

by Lars Buitinck.- Updated joblib to
`0.7.0d`

by Gael Varoquaux.- Fixed scaling of the deviance in
`ensemble.GradientBoostingClassifier`

by Peter Prettenhofer.- Better tie-breaking in
`multiclass.OneVsOneClassifier`

by Andreas Müller.- Other small improvements to tests and documentation.

### People¶

- List of contributors for release 0.13.1 by number of commits.
- 16 Lars Buitinck
- 12 Andreas Müller
- 8 Gael Varoquaux
- 5 Robert Marchman
- 3 Peter Prettenhofer
- 2 Hrishikesh Huilgolkar
- 1 Bastiaan van den Berg
- 1 Diego Molla
- 1 Gilles Louppe
- 1 Mathieu Blondel
- 1 Nelle Varoquaux
- 1 Rafael Cunha de Almeida
- 1 Rolando Espinoza La fuente
- 1 Vlad Niculae
- 1 Yaroslav Halchenko

## Version 0.13¶

**January 21, 2013**

### New Estimator Classes¶

`dummy.DummyClassifier`

and`dummy.DummyRegressor`

, two data-independent predictors by Mathieu Blondel. Useful to sanity-check your estimators. See Dummy estimators in the user guide. Multioutput support added by Arnaud Joly.`decomposition.FactorAnalysis`

, a transformer implementing the classical factor analysis, by Christian Osendorfer and Alexandre Gramfort. See Factor Analysis in the user guide.`feature_extraction.FeatureHasher`

, a transformer implementing the “hashing trick” for fast, low-memory feature extraction from string fields by Lars Buitinck and`feature_extraction.text.HashingVectorizer`

for text documents by Olivier Grisel See Feature hashing and Vectorizing a large text corpus with the hashing trick for the documentation and sample usage.`pipeline.FeatureUnion`

, a transformer that concatenates results of several other transformers by Andreas Müller. See FeatureUnion: composite feature spaces in the user guide.`random_projection.GaussianRandomProjection`

,`random_projection.SparseRandomProjection`

and the function`random_projection.johnson_lindenstrauss_min_dim`

. The first two are transformers implementing Gaussian and sparse random projection matrix by Olivier Grisel and Arnaud Joly. See Random Projection in the user guide.`kernel_approximation.Nystroem`

, a transformer for approximating arbitrary kernels by Andreas Müller. See Nystroem Method for Kernel Approximation in the user guide.`preprocessing.OneHotEncoder`

, a transformer that computes binary encodings of categorical features by Andreas Müller. See Encoding categorical features in the user guide.`linear_model.PassiveAggressiveClassifier`

and`linear_model.PassiveAggressiveRegressor`

, predictors implementing an efficient stochastic optimization for linear models by Rob Zinkov and Mathieu Blondel. See Passive Aggressive Algorithms in the user guide.`ensemble.RandomTreesEmbedding`

, a transformer for creating high-dimensional sparse representations using ensembles of totally random trees by Andreas Müller. See Totally Random Trees Embedding in the user guide.`manifold.SpectralEmbedding`

and function`manifold.spectral_embedding`

, implementing the “laplacian eigenmaps” transformation for non-linear dimensionality reduction by Wei Li. See Spectral Embedding in the user guide.`isotonic.IsotonicRegression`

by Fabian Pedregosa, Alexandre Gramfort and Nelle Varoquaux,

### Changelog¶

`metrics.zero_one_loss`

(formerly`metrics.zero_one`

) now has option for normalized output that reports the fraction of misclassifications, rather than the raw number of misclassifications. By Kyle Beauchamp.`tree.DecisionTreeClassifier`

and all derived ensemble models now support sample weighting, by Noel Dawe and Gilles Louppe.- Speedup improvement when using bootstrap samples in forests of randomized trees, by Peter Prettenhofer and Gilles Louppe.
- Partial dependence plots for Gradient Tree Boosting in
`ensemble.partial_dependence.partial_dependence`

by Peter Prettenhofer. See Partial Dependence Plots for an example.- The table of contents on the website has now been made expandable by Jaques Grobler.
`feature_selection.SelectPercentile`

now breaks ties deterministically instead of returning all equally ranked features.`feature_selection.SelectKBest`

and`feature_selection.SelectPercentile`

are more numerically stable since they use scores, rather than p-values, to rank results. This means that they might sometimes select different features than they did previously.- Ridge regression and ridge classification fitting with
`sparse_cg`

solver no longer has quadratic memory complexity, by Lars Buitinck and Fabian Pedregosa.- Ridge regression and ridge classification now support a new fast solver called
`lsqr`

, by Mathieu Blondel.- Speed up of
`metrics.precision_recall_curve`

by Conrad Lee.- Added support for reading/writing svmlight files with pairwise preference attribute (qid in svmlight file format) in
`datasets.dump_svmlight_file`

and`datasets.load_svmlight_file`

by Fabian Pedregosa.- Faster and more robust
`metrics.confusion_matrix`

and Clustering performance evaluation by Wei Li.`cross_validation.cross_val_score`

now works with precomputed kernels and affinity matrices, by Andreas Müller.- LARS algorithm made more numerically stable with heuristics to drop regressors too correlated as well as to stop the path when numerical noise becomes predominant, by Gael Varoquaux.
- Faster implementation of
`metrics.precision_recall_curve`

by Conrad Lee.- New kernel
`metrics.chi2_kernel`

by Andreas Müller, often used in computer vision applications.- Fix of longstanding bug in
`naive_bayes.BernoulliNB`

fixed by Shaun Jackman.- Implemented
`predict_proba`

in`multiclass.OneVsRestClassifier`

, by Andrew Winterman.- Improve consistency in gradient boosting: estimators
`ensemble.GradientBoostingRegressor`

and`ensemble.GradientBoostingClassifier`

use the estimator`tree.DecisionTreeRegressor`

instead of the`tree._tree.Tree`

data structure by Arnaud Joly.- Fixed a floating point exception in the decision trees module, by Seberg.
- Fix
`metrics.roc_curve`

fails when y_true has only one class by Wei Li.- Add the
`metrics.mean_absolute_error`

function which computes the mean absolute error. The`metrics.mean_squared_error`

,`metrics.mean_absolute_error`

and`metrics.r2_score`

metrics support multioutput by Arnaud Joly.- Fixed
`class_weight`

support in`svm.LinearSVC`

and`linear_model.LogisticRegression`

by Andreas Müller. The meaning of`class_weight`

was reversed as erroneously higher weight meant less positives of a given class in earlier releases.- Improve narrative documentation and consistency in
`sklearn.metrics`

for regression and classification metrics by Arnaud Joly.- Fixed a bug in
`sklearn.svm.SVC`

when using csr-matrices with unsorted indices by Xinfan Meng and Andreas Müller.`MiniBatchKMeans`

: Add random reassignment of cluster centers with little observations attached to them, by Gael Varoquaux.

### API changes summary¶

- Renamed all occurrences of
`n_atoms`

to`n_components`

for consistency. This applies to`decomposition.DictionaryLearning`

,`decomposition.MiniBatchDictionaryLearning`

,`decomposition.dict_learning`

,`decomposition.dict_learning_online`

.- Renamed all occurrences of
`max_iters`

to`max_iter`

for consistency. This applies to`semi_supervised.LabelPropagation`

and`semi_supervised.label_propagation.LabelSpreading`

.- Renamed all occurrences of
`learn_rate`

to`learning_rate`

for consistency in`ensemble.BaseGradientBoosting`

and`ensemble.GradientBoostingRegressor`

.- The module
`sklearn.linear_model.sparse`

is gone. Sparse matrix support was already integrated into the “regular” linear models.`sklearn.metrics.mean_square_error`

, which incorrectly returned the accumulated error, was removed. Use`mean_squared_error`

instead.- Passing
`class_weight`

parameters to`fit`

methods is no longer supported. Pass them to estimator constructors instead.- GMMs no longer have
`decode`

and`rvs`

methods. Use the`score`

,`predict`

or`sample`

methods instead.- The
`solver`

fit option in Ridge regression and classification is now deprecated and will be removed in v0.14. Use the constructor option instead.`feature_extraction.text.DictVectorizer`

now returns sparse matrices in the CSR format, instead of COO.- Renamed
`k`

in`cross_validation.KFold`

and`cross_validation.StratifiedKFold`

to`n_folds`

, renamed`n_bootstraps`

to`n_iter`

in`cross_validation.Bootstrap`

.- Renamed all occurrences of
`n_iterations`

to`n_iter`

for consistency. This applies to`cross_validation.ShuffleSplit`

,`cross_validation.StratifiedShuffleSplit`

,`utils.randomized_range_finder`

and`utils.randomized_svd`

.- Replaced
`rho`

in`linear_model.ElasticNet`

and`linear_model.SGDClassifier`

by`l1_ratio`

. The`rho`

parameter had different meanings;`l1_ratio`

was introduced to avoid confusion. It has the same meaning as previously`rho`

in`linear_model.ElasticNet`

and`(1-rho)`

in`linear_model.SGDClassifier`

.`linear_model.LassoLars`

and`linear_model.Lars`

now store a list of paths in the case of multiple targets, rather than an array of paths.- The attribute
`gmm`

of`hmm.GMMHMM`

was renamed to`gmm_`

to adhere more strictly with the API.`cluster.spectral_embedding`

was moved to`manifold.spectral_embedding`

.- Renamed
`eig_tol`

in`manifold.spectral_embedding`

,`cluster.SpectralClustering`

to`eigen_tol`

, renamed`mode`

to`eigen_solver`

.- Renamed
`mode`

in`manifold.spectral_embedding`

and`cluster.SpectralClustering`

to`eigen_solver`

.`classes_`

and`n_classes_`

attributes of`tree.DecisionTreeClassifier`

and all derived ensemble models are now flat in case of single output problems and nested in case of multi-output problems.- The
`estimators_`

attribute of`ensemble.gradient_boosting.GradientBoostingRegressor`

and`ensemble.gradient_boosting.GradientBoostingClassifier`

is now an array of :class:’tree.DecisionTreeRegressor’.- Renamed
`chunk_size`

to`batch_size`

in`decomposition.MiniBatchDictionaryLearning`

and`decomposition.MiniBatchSparsePCA`

for consistency.`svm.SVC`

and`svm.NuSVC`

now provide a`classes_`

attribute and support arbitrary dtypes for labels`y`

. Also, the dtype returned by`predict`

now reflects the dtype of`y`

during`fit`

(used to be`np.float`

).- Changed default test_size in
`cross_validation.train_test_split`

to None, added possibility to infer`test_size`

from`train_size`

in`cross_validation.ShuffleSplit`

and`cross_validation.StratifiedShuffleSplit`

.- Renamed function
`sklearn.metrics.zero_one`

to`sklearn.metrics.zero_one_loss`

. Be aware that the default behavior in`sklearn.metrics.zero_one_loss`

is different from`sklearn.metrics.zero_one`

:`normalize=False`

is changed to`normalize=True`

.- Renamed function
`metrics.zero_one_score`

to`metrics.accuracy_score`

.`datasets.make_circles`

now has the same number of inner and outer points.- In the Naive Bayes classifiers, the
`class_prior`

parameter was moved from`fit`

to`__init__`

.

### People¶

List of contributors for release 0.13 by number of commits.

- 364 Andreas Müller
- 143 Arnaud Joly
- 137 Peter Prettenhofer
- 131 Gael Varoquaux
- 117 Mathieu Blondel
- 108 Lars Buitinck
- 106 Wei Li
- 101 Olivier Grisel
- 65 Vlad Niculae
- 54 Gilles Louppe
- 40 Jaques Grobler
- 38 Alexandre Gramfort
- 30 Rob Zinkov
- 19 Aymeric Masurelle
- 18 Andrew Winterman
- 17 Fabian Pedregosa
- 17 Nelle Varoquaux
- 16 Christian Osendorfer
- 14 Daniel Nouri
- 13 Virgile Fritsch
- 13 syhw
- 12 Satrajit Ghosh
- 10 Corey Lynch
- 10 Kyle Beauchamp
- 9 Brian Cheung
- 9 Immanuel Bayer
- 9 mr.Shu
- 8 Conrad Lee
- 8 James Bergstra
- 7 Tadej Janež
- 6 Brian Cajes
- 6 Jake Vanderplas
- 6 Michael
- 6 Noel Dawe
- 6 Tiago Nunes
- 6 cow
- 5 Anze
- 5 Shiqiao Du
- 4 Christian Jauvin
- 4 Jacques Kvam
- 4 Richard T. Guy
- 4 Robert Layton
- 3 Alexandre Abraham
- 3 Doug Coleman
- 3 Scott Dickerson
- 2 ApproximateIdentity
- 2 John Benediktsson
- 2 Mark Veronda
- 2 Matti Lyra
- 2 Mikhail Korobov
- 2 Xinfan Meng
- 1 Alejandro Weinstein
- 1 Alexandre Passos
- 1 Christoph Deil
- 1 Eugene Nizhibitsky
- 1 Kenneth C. Arnold
- 1 Luis Pedro Coelho
- 1 Miroslav Batchkarov
- 1 Pavel
- 1 Sebastian Berg
- 1 Shaun Jackman
- 1 Subhodeep Moitra
- 1 bob
- 1 dengemann
- 1 emanuele
- 1 x006

## Version 0.12.1¶

**October 8, 2012**

The 0.12.1 release is a bug-fix release with no additional features, but is instead a set of bug fixes

### Changelog¶

- Improved numerical stability in spectral embedding by Gael Varoquaux
- Doctest under windows 64bit by Gael Varoquaux
- Documentation fixes for elastic net by Andreas Müller and Alexandre Gramfort
- Proper behavior with fortran-ordered NumPy arrays by Gael Varoquaux
- Make GridSearchCV work with non-CSR sparse matrix by Lars Buitinck
- Fix parallel computing in MDS by Gael Varoquaux
- Fix Unicode support in count vectorizer by Andreas Müller
- Fix MinCovDet breaking with X.shape = (3, 1) by Virgile Fritsch
- Fix clone of SGD objects by Peter Prettenhofer
- Stabilize GMM by Virgile Fritsch

### People¶

## Version 0.12¶

**September 4, 2012**

### Changelog¶

- Various speed improvements of the decision trees module, by Gilles Louppe.
`ensemble.GradientBoostingRegressor`

and`ensemble.GradientBoostingClassifier`

now support feature subsampling via the`max_features`

argument, by Peter Prettenhofer.- Added Huber and Quantile loss functions to
`ensemble.GradientBoostingRegressor`

, by Peter Prettenhofer.- Decision trees and forests of randomized trees now support multi-output classification and regression problems, by Gilles Louppe.
- Added
`preprocessing.LabelEncoder`

, a simple utility class to normalize labels or transform non-numerical labels, by Mathieu Blondel.- Added the epsilon-insensitive loss and the ability to make probabilistic predictions with the modified huber loss in Stochastic Gradient Descent, by Mathieu Blondel.
- Added Multi-dimensional Scaling (MDS), by Nelle Varoquaux.
- SVMlight file format loader now detects compressed (gzip/bzip2) files and decompresses them on the fly, by Lars Buitinck.
- SVMlight file format serializer now preserves double precision floating point values, by Olivier Grisel.
- A common testing framework for all estimators was added, by Andreas Müller.
- Understandable error messages for estimators that do not accept sparse input by Gael Varoquaux
- Speedups in hierarchical clustering by Gael Varoquaux. In particular building the tree now supports early stopping. This is useful when the number of clusters is not small compared to the number of samples.
- Add MultiTaskLasso and MultiTaskElasticNet for joint feature selection, by Alexandre Gramfort.
- Added
`metrics.auc_score`

and`metrics.average_precision_score`

convenience functions by Andreas Müller.- Improved sparse matrix support in the Feature selection module by Andreas Müller.
- New word boundaries-aware character n-gram analyzer for the Text feature extraction module by @kernc.
- Fixed bug in spectral clustering that led to single point clusters by Andreas Müller.
- In
`feature_extraction.text.CountVectorizer`

, added an option to ignore infrequent words,`min_df`

by Andreas Müller.- Add support for multiple targets in some linear models (ElasticNet, Lasso and OrthogonalMatchingPursuit) by Vlad Niculae and Alexandre Gramfort.
- Fixes in
`decomposition.ProbabilisticPCA`

score function by Wei Li.- Fixed feature importance computation in Gradient Tree Boosting.

### API changes summary¶

- The old
`scikits.learn`

package has disappeared; all code should import from`sklearn`

instead, which was introduced in 0.9.- In
`metrics.roc_curve`

, the`thresholds`

array is now returned with it’s order reversed, in order to keep it consistent with the order of the returned`fpr`

and`tpr`

.- In
`hmm`

objects, like`hmm.GaussianHMM`

,`hmm.MultinomialHMM`

, etc., all parameters must be passed to the object when initialising it and not through`fit`

. Now`fit`

will only accept the data as an input parameter.- For all SVM classes, a faulty behavior of
`gamma`

was fixed. Previously, the default gamma value was only computed the first time`fit`

was called and then stored. It is now recalculated on every call to`fit`

.- All
`Base`

classes are now abstract meta classes so that they can not be instantiated.`cluster.ward_tree`

now also returns the parent array. This is necessary for early-stopping in which case the tree is not completely built.- In
`feature_extraction.text.CountVectorizer`

the parameters`min_n`

and`max_n`

were joined to the parameter`n_gram_range`

to enable grid-searching both at once.- In
`feature_extraction.text.CountVectorizer`

, words that appear only in one document are now ignored by default. To reproduce the previous behavior, set`min_df=1`

.- Fixed API inconsistency:
`linear_model.SGDClassifier.predict_proba`

now returns 2d array when fit on two classes.- Fixed API inconsistency:
`discriminant_analysis.QuadraticDiscriminantAnalysis.decision_function`

and`discriminant_analysis.LinearDiscriminantAnalysis.decision_function`

now return 1d arrays when fit on two classes.- Grid of alphas used for fitting
`linear_model.LassoCV`

and`linear_model.ElasticNetCV`

is now stored in the attribute`alphas_`

rather than overriding the init parameter`alphas`

.- Linear models when alpha is estimated by cross-validation store the estimated value in the
`alpha_`

attribute rather than just`alpha`

or`best_alpha`

.`ensemble.GradientBoostingClassifier`

now supports`ensemble.GradientBoostingClassifier.staged_predict_proba`

, and`ensemble.GradientBoostingClassifier.staged_predict`

.`svm.sparse.SVC`

and other sparse SVM classes are now deprecated. The all classes in the Support Vector Machines module now automatically select the sparse or dense representation base on the input.- All clustering algorithms now interpret the array
`X`

given to`fit`

as input data, in particular`cluster.SpectralClustering`

and`cluster.AffinityPropagation`

which previously expected affinity matrices.- For clustering algorithms that take the desired number of clusters as a parameter, this parameter is now called
`n_clusters`

.

### People¶

- 267 Andreas Müller
- 94 Gilles Louppe
- 89 Gael Varoquaux
- 79 Peter Prettenhofer
- 60 Mathieu Blondel
- 57 Alexandre Gramfort
- 52 Vlad Niculae
- 45 Lars Buitinck
- 44 Nelle Varoquaux
- 37 Jaques Grobler
- 30 Alexis Mignon
- 30 Immanuel Bayer
- 27 Olivier Grisel
- 16 Subhodeep Moitra
- 13 Yannick Schwartz
- 12 @kernc
- 11 Virgile Fritsch
- 9 Daniel Duckworth
- 9 Fabian Pedregosa
- 9 Robert Layton
- 8 John Benediktsson
- 7 Marko Burjek
- 5 Nicolas Pinto
- 4 Alexandre Abraham
- 4 Jake Vanderplas
- 3 Brian Holt
- 3 Edouard Duchesnay
- 3 Florian Hoenig
- 3 flyingimmidev
- 2 Francois Savard
- 2 Hannes Schulz
- 2 Peter Welinder
- 2 Yaroslav Halchenko
- 2 Wei Li
- 1 Alex Companioni
- 1 Brandyn A. White
- 1 Bussonnier Matthias
- 1 Charles-Pierre Astolfi
- 1 Dan O’Huiginn
- 1 David Cournapeau
- 1 Keith Goodman
- 1 Ludwig Schwardt
- 1 Olivier Hervieu
- 1 Sergio Medina
- 1 Shiqiao Du
- 1 Tim Sheerman-Chase
- 1 buguen

## Version 0.11¶

**May 7, 2012**

### Changelog¶

#### Highlights¶

- Gradient boosted regression trees (Gradient Tree Boosting) for classification and regression by Peter Prettenhofer and Scott White .
- Simple dict-based feature loader with support for categorical variables (
`feature_extraction.DictVectorizer`

) by Lars Buitinck.- Added Matthews correlation coefficient (
`metrics.matthews_corrcoef`

) and added macro and micro average options to`metrics.precision_score`

,`metrics.recall_score`

and`metrics.f1_score`

by Satrajit Ghosh.- Out of Bag Estimates of generalization error for Ensemble methods by Andreas Müller.
- Randomized sparse linear models for feature selection, by Alexandre Gramfort and Gael Varoquaux
- Label Propagation for semi-supervised learning, by Clay Woolam.
Notethe semi-supervised API is still work in progress, and may change.- Added BIC/AIC model selection to classical Gaussian mixture models and unified the API with the remainder of scikit-learn, by Bertrand Thirion
- Added
`sklearn.cross_validation.StratifiedShuffleSplit`

, which is a`sklearn.cross_validation.ShuffleSplit`

with balanced splits, by Yannick Schwartz.`sklearn.neighbors.NearestCentroid`

classifier added, along with a`shrink_threshold`

parameter, which implementsshrunken centroid classification, by Robert Layton.

#### Other changes¶

- Merged dense and sparse implementations of Stochastic Gradient Descent module and exposed utility extension types for sequential datasets
`seq_dataset`

and weight vectors`weight_vector`

by Peter Prettenhofer.- Added
`partial_fit`

(support for online/minibatch learning) and warm_start to the Stochastic Gradient Descent module by Mathieu Blondel.- Dense and sparse implementations of Support Vector Machines classes and
`linear_model.LogisticRegression`

merged by Lars Buitinck.- Regressors can now be used as base estimator in the Multiclass and multilabel algorithms module by Mathieu Blondel.
- Added n_jobs option to
`metrics.pairwise.pairwise_distances`

and`metrics.pairwise.pairwise_kernels`

for parallel computation, by Mathieu Blondel.- K-means can now be run in parallel, using the
`n_jobs`

argument to either K-means or`KMeans`

, by Robert Layton.- Improved Cross-validation: evaluating estimator performance and Tuning the hyper-parameters of an estimator documentation and introduced the new
`cross_validation.train_test_split`

helper function by Olivier Grisel`svm.SVC`

members`coef_`

and`intercept_`

changed sign for consistency with`decision_function`

; for`kernel==linear`

,`coef_`

was fixed in the one-vs-one case, by Andreas Müller.- Performance improvements to efficient leave-one-out cross-validated Ridge regression, esp. for the
`n_samples > n_features`

case, in`linear_model.RidgeCV`

, by Reuben Fletcher-Costin.- Refactoring and simplification of the Text feature extraction API and fixed a bug that caused possible negative IDF, by Olivier Grisel.
- Beam pruning option in
`_BaseHMM`

module has been removed since it is difficult to Cythonize. If you are interested in contributing a Cython version, you can use the python version in the git history as a reference.- Classes in Nearest Neighbors now support arbitrary Minkowski metric for nearest neighbors searches. The metric can be specified by argument
`p`

.

### API changes summary¶

`covariance.EllipticEnvelop`

is now deprecated - Please use`covariance.EllipticEnvelope`

instead.

`NeighborsClassifier`

and`NeighborsRegressor`

are gone in the module Nearest Neighbors. Use the classes`KNeighborsClassifier`

,`RadiusNeighborsClassifier`

,`KNeighborsRegressor`

and/or`RadiusNeighborsRegressor`

instead.Sparse classes in the Stochastic Gradient Descent module are now deprecated.

In

`mixture.GMM`

,`mixture.DPGMM`

and`mixture.VBGMM`

, parameters must be passed to an object when initialising it and not through`fit`

. Now`fit`

will only accept the data as an input parameter.methods

`rvs`

and`decode`

in`GMM`

module are now deprecated.`sample`

and`score`

or`predict`

should be used instead.attribute

`_scores`

and`_pvalues`

in univariate feature selection objects are now deprecated.`scores_`

or`pvalues_`

should be used instead.In

`LogisticRegression`

,`LinearSVC`

,`SVC`

and`NuSVC`

, the`class_weight`

parameter is now an initialization parameter, not a parameter to fit. This makes grid searches over this parameter possible.LFW

`data`

is now always shape`(n_samples, n_features)`

to be consistent with the Olivetti faces dataset. Use`images`

and`pairs`

attribute to access the natural images shapes instead.In

`svm.LinearSVC`

, the meaning of the`multi_class`

parameter changed. Options now are`'ovr'`

and`'crammer_singer'`

, with`'ovr'`

being the default. This does not change the default behavior but hopefully is less confusing.Class

`feature_selection.text.Vectorizer`

is deprecated and replaced by`feature_selection.text.TfidfVectorizer`

.The preprocessor / analyzer nested structure for text feature extraction has been removed. All those features are now directly passed as flat constructor arguments to

`feature_selection.text.TfidfVectorizer`

and`feature_selection.text.CountVectorizer`

, in particular the following parameters are now used:

`analyzer`

can be`'word'`

or`'char'`

to switch the default analysis scheme, or use a specific python callable (as previously).`tokenizer`

and`preprocessor`

have been introduced to make it still possible to customize those steps with the new API.`input`

explicitly control how to interpret the sequence passed to`fit`

and`predict`

: filenames, file objects or direct (byte or Unicode) strings.- charset decoding is explicit and strict by default.
- the
`vocabulary`

, fitted or not is now stored in the`vocabulary_`

attribute to be consistent with the project conventions.Class

`feature_selection.text.TfidfVectorizer`

now derives directly from`feature_selection.text.CountVectorizer`

to make grid search trivial.methods

`rvs`

in`_BaseHMM`

module are now deprecated.`sample`

should be used instead.Beam pruning option in

`_BaseHMM`

module is removed since it is difficult to be Cythonized. If you are interested, you can look in the history codes by git.The SVMlight format loader now supports files with both zero-based and one-based column indices, since both occur “in the wild”.

Arguments in class

`ShuffleSplit`

are now consistent with`StratifiedShuffleSplit`

. Arguments`test_fraction`

and`train_fraction`

are deprecated and renamed to`test_size`

and`train_size`

and can accept both`float`

and`int`

.Arguments in class

`Bootstrap`

are now consistent with`StratifiedShuffleSplit`

. Arguments`n_test`

and`n_train`

are deprecated and renamed to`test_size`

and`train_size`

and can accept both`float`

and`int`

.Argument

`p`

added to classes in Nearest Neighbors to specify an arbitrary Minkowski metric for nearest neighbors searches.

### People¶

- 282 Andreas Müller
- 239 Peter Prettenhofer
- 198 Gael Varoquaux
- 129 Olivier Grisel
- 114 Mathieu Blondel
- 103 Clay Woolam
- 96 Lars Buitinck
- 88 Jaques Grobler
- 82 Alexandre Gramfort
- 50 Bertrand Thirion
- 42 Robert Layton
- 28 flyingimmidev
- 26 Jake Vanderplas
- 26 Shiqiao Du
- 21 Satrajit Ghosh
- 17 David Marek
- 17 Gilles Louppe
- 14 Vlad Niculae
- 11 Yannick Schwartz
- 10 Fabian Pedregosa
- 9 fcostin
- 7 Nick Wilson
- 5 Adrien Gaidon
- 5 Nicolas Pinto
- 4 David Warde-Farley
- 5 Nelle Varoquaux
- 5 Emmanuelle Gouillart
- 3 Joonas Sillanpää
- 3 Paolo Losi
- 2 Charles McCarthy
- 2 Roy Hyunjin Han
- 2 Scott White
- 2 ibayer
- 1 Brandyn White
- 1 Carlos Scheidegger
- 1 Claire Revillet
- 1 Conrad Lee
- 1 Edouard Duchesnay
- 1 Jan Hendrik Metzen
- 1 Meng Xinfan
- 1 Rob Zinkov
- 1 Shiqiao
- 1 Udi Weinsberg
- 1 Virgile Fritsch
- 1 Xinfan Meng
- 1 Yaroslav Halchenko
- 1 jansoe
- 1 Leon Palafox

## Version 0.10¶

**January 11, 2012**

### Changelog¶

- Python 2.5 compatibility was dropped; the minimum Python version needed to use scikit-learn is now 2.6.
- Sparse inverse covariance estimation using the graph Lasso, with associated cross-validated estimator, by Gael Varoquaux
- New Tree module by Brian Holt, Peter Prettenhofer, Satrajit Ghosh and Gilles Louppe. The module comes with complete documentation and examples.
- Fixed a bug in the RFE module by Gilles Louppe (issue #378).
- Fixed a memory leak in Support Vector Machines module by Brian Holt (issue #367).
- Faster tests by Fabian Pedregosa and others.
- Silhouette Coefficient cluster analysis evaluation metric added as
`sklearn.metrics.silhouette_score`

by Robert Layton.- Fixed a bug in K-means in the handling of the
`n_init`

parameter: the clustering algorithm used to be run`n_init`

times but the last solution was retained instead of the best solution by Olivier Grisel.- Minor refactoring in Stochastic Gradient Descent module; consolidated dense and sparse predict methods; Enhanced test time performance by converting model parameters to fortran-style arrays after fitting (only multi-class).
- Adjusted Mutual Information metric added as
`sklearn.metrics.adjusted_mutual_info_score`

by Robert Layton.- Models like SVC/SVR/LinearSVC/LogisticRegression from libsvm/liblinear now support scaling of C regularization parameter by the number of samples by Alexandre Gramfort.
- New Ensemble Methods module by Gilles Louppe and Brian Holt. The module comes with the random forest algorithm and the extra-trees method, along with documentation and examples.
- Novelty and Outlier Detection: outlier and novelty detection, by Virgile Fritsch.
- Kernel Approximation: a transform implementing kernel approximation for fast SGD on non-linear kernels by Andreas Müller.
- Fixed a bug due to atom swapping in Orthogonal Matching Pursuit (OMP) by Vlad Niculae.
- Sparse coding with a precomputed dictionary by Vlad Niculae.
- Mini Batch K-Means performance improvements by Olivier Grisel.
- K-means support for sparse matrices by Mathieu Blondel.
- Improved documentation for developers and for the
`sklearn.utils`

module, by Jake Vanderplas.- Vectorized 20newsgroups dataset loader (
`sklearn.datasets.fetch_20newsgroups_vectorized`

) by Mathieu Blondel.- Multiclass and multilabel algorithms by Lars Buitinck.
- Utilities for fast computation of mean and variance for sparse matrices by Mathieu Blondel.
- Make
`sklearn.preprocessing.scale`

and`sklearn.preprocessing.Scaler`

work on sparse matrices by Olivier Grisel- Feature importances using decision trees and/or forest of trees, by Gilles Louppe.
- Parallel implementation of forests of randomized trees by Gilles Louppe.
`sklearn.cross_validation.ShuffleSplit`

can subsample the train sets as well as the test sets by Olivier Grisel.- Errors in the build of the documentation fixed by Andreas Müller.

### API changes summary¶

Here are the code migration instructions when upgrading from scikit-learn version 0.9:

Some estimators that may overwrite their inputs to save memory previously had

`overwrite_`

parameters; these have been replaced with`copy_`

parameters with exactly the opposite meaning.This particularly affects some of the estimators in

`linear_model`

. The default behavior is still to copy everything passed in.The SVMlight dataset loader

`sklearn.datasets.load_svmlight_file`

no longer supports loading two files at once; use`load_svmlight_files`

instead. Also, the (unused)`buffer_mb`

parameter is gone.Sparse estimators in the Stochastic Gradient Descent module use dense parameter vector

`coef_`

instead of`sparse_coef_`

. This significantly improves test time performance.The Covariance estimation module now has a robust estimator of covariance, the Minimum Covariance Determinant estimator.

Cluster evaluation metrics in

`metrics.cluster`

have been refactored but the changes are backwards compatible. They have been moved to the`metrics.cluster.supervised`

, along with`metrics.cluster.unsupervised`

which contains the Silhouette Coefficient.The

`permutation_test_score`

function now behaves the same way as`cross_val_score`

(i.e. uses the mean score across the folds.)Cross Validation generators now use integer indices (

`indices=True`

) by default instead of boolean masks. This make it more intuitive to use with sparse matrix data.The functions used for sparse coding,

`sparse_encode`

and`sparse_encode_parallel`

have been combined into`sklearn.decomposition.sparse_encode`

, and the shapes of the arrays have been transposed for consistency with the matrix factorization setting, as opposed to the regression setting.Fixed an off-by-one error in the SVMlight/LibSVM file format handling; files generated using

`sklearn.datasets.dump_svmlight_file`

should be re-generated. (They should continue to work, but accidentally had one extra column of zeros prepended.)

`BaseDictionaryLearning`

class replaced by`SparseCodingMixin`

.

`sklearn.utils.extmath.fast_svd`

has been renamed`sklearn.utils.extmath.randomized_svd`

and the default oversampling is now fixed to 10 additional random vectors instead of doubling the number of components to extract. The new behavior follows the reference paper.

### People¶

The following people contributed to scikit-learn since last release:

- 246 Andreas Müller
- 242 Olivier Grisel
- 220 Gilles Louppe
- 183 Brian Holt
- 166 Gael Varoquaux
- 144 Lars Buitinck
- 73 Vlad Niculae
- 65 Peter Prettenhofer
- 64 Fabian Pedregosa
- 60 Robert Layton
- 55 Mathieu Blondel
- 52 Jake Vanderplas
- 44 Noel Dawe
- 38 Alexandre Gramfort
- 24 Virgile Fritsch
- 23 Satrajit Ghosh
- 3 Jan Hendrik Metzen
- 3 Kenneth C. Arnold
- 3 Shiqiao Du
- 3 Tim Sheerman-Chase
- 3 Yaroslav Halchenko
- 2 Bala Subrahmanyam Varanasi
- 2 DraXus
- 2 Michael Eickenberg
- 1 Bogdan Trach
- 1 Félix-Antoine Fortin
- 1 Juan Manuel Caicedo Carvajal
- 1 Nelle Varoquaux
- 1 Nicolas Pinto
- 1 Tiziano Zito
- 1 Xinfan Meng

## Version 0.9¶

**September 21, 2011**

scikit-learn 0.9 was released on September 2011, three months after the 0.8 release and includes the new modules Manifold learning, The Dirichlet Process as well as several new algorithms and documentation improvements.

This release also includes the dictionary-learning work developed by Vlad Niculae as part of the Google Summer of Code program.

### Changelog¶

- New Manifold learning module by Jake Vanderplas and Fabian Pedregosa.
- New Dirichlet Process Gaussian Mixture Model by Alexandre Passos
- Nearest Neighbors module refactoring by Jake Vanderplas : general refactoring, support for sparse matrices in input, speed and documentation improvements. See the next section for a full list of API changes.
- Improvements on the Feature selection module by Gilles Louppe : refactoring of the RFE classes, documentation rewrite, increased efficiency and minor API changes.
- Sparse principal components analysis (SparsePCA and MiniBatchSparsePCA) by Vlad Niculae, Gael Varoquaux and Alexandre Gramfort
- Printing an estimator now behaves independently of architectures and Python version thanks to Jean Kossaifi.
- Loader for libsvm/svmlight format by Mathieu Blondel and Lars Buitinck
- Documentation improvements: thumbnails in example gallery by Fabian Pedregosa.
- Important bugfixes in Support Vector Machines module (segfaults, bad performance) by Fabian Pedregosa.
- Added Multinomial Naive Bayes and Bernoulli Naive Bayes by Lars Buitinck
- Text feature extraction optimizations by Lars Buitinck
- Chi-Square feature selection (
`feature_selection.univariate_selection.chi2`

) by Lars Buitinck.- Sample generators module refactoring by Gilles Louppe
- Multiclass and multilabel algorithms by Mathieu Blondel
- Ball tree rewrite by Jake Vanderplas
- Implementation of DBSCAN algorithm by Robert Layton
- Kmeans predict and transform by Robert Layton
- Preprocessing module refactoring by Olivier Grisel
- Faster mean shift by Conrad Lee
- New
`Bootstrap`

, Random permutations cross-validation a.k.a. Shuffle & Split and various other improvements in cross validation schemes by Olivier Grisel and Gael Varoquaux- Adjusted Rand index and V-Measure clustering evaluation metrics by Olivier Grisel
- Added
`Orthogonal Matching Pursuit`

by Vlad Niculae- Added 2D-patch extractor utilities in the Feature extraction module by Vlad Niculae
- Implementation of
`linear_model.LassoLarsCV`

(cross-validated Lasso solver using the Lars algorithm) and`linear_model.LassoLarsIC`

(BIC/AIC model selection in Lars) by Gael Varoquaux and Alexandre Gramfort- Scalability improvements to
`metrics.roc_curve`

by Olivier Hervieu- Distance helper functions
`metrics.pairwise.pairwise_distances`

and`metrics.pairwise.pairwise_kernels`

by Robert Layton`Mini-Batch K-Means`

by Nelle Varoquaux and Peter Prettenhofer.- Downloading datasets from the mldata.org repository utilities by Pietro Berkes.
- The Olivetti faces dataset by David Warde-Farley.

### API changes summary¶

Here are the code migration instructions when upgrading from scikit-learn version 0.8:

The

`scikits.learn`

package was renamed`sklearn`

. There is still a`scikits.learn`

package alias for backward compatibility.Third-party projects with a dependency on scikit-learn 0.9+ should upgrade their codebase. For instance, under Linux / MacOSX just run (make a backup first!):

find -name "*.py" | xargs sed -i 's/\bscikits.learn\b/sklearn/g'Estimators no longer accept model parameters as

`fit`

arguments: instead all parameters must be only be passed as constructor arguments or using the now public`set_params`

method inherited from`base.BaseEstimator`

.Some estimators can still accept keyword arguments on the

`fit`

but this is restricted to data-dependent values (e.g. a Gram matrix or an affinity matrix that are precomputed from the`X`

data matrix.The

`cross_val`

package has been renamed to`cross_validation`

although there is also a`cross_val`

package alias in place for backward compatibility.Third-party projects with a dependency on scikit-learn 0.9+ should upgrade their codebase. For instance, under Linux / MacOSX just run (make a backup first!):

find -name "*.py" | xargs sed -i 's/\bcross_val\b/cross_validation/g'The

`score_func`

argument of the`sklearn.cross_validation.cross_val_score`

function is now expected to accept`y_test`

and`y_predicted`

as only arguments for classification and regression tasks or`X_test`

for unsupervised estimators.

`gamma`

parameter for support vector machine algorithms is set to`1 / n_features`

by default, instead of`1 / n_samples`

.The

`sklearn.hmm`

has been marked as orphaned: it will be removed from scikit-learn in version 0.11 unless someone steps up to contribute documentation, examples and fix lurking numerical stability issues.

`sklearn.neighbors`

has been made into a submodule. The two previously available estimators,`NeighborsClassifier`

and`NeighborsRegressor`

have been marked as deprecated. Their functionality has been divided among five new classes:`NearestNeighbors`

for unsupervised neighbors searches,`KNeighborsClassifier`

&`RadiusNeighborsClassifier`

for supervised classification problems, and`KNeighborsRegressor`

&`RadiusNeighborsRegressor`

for supervised regression problems.

`sklearn.ball_tree.BallTree`

has been moved to`sklearn.neighbors.BallTree`

. Using the former will generate a warning.

`sklearn.linear_model.LARS()`

and related classes (LassoLARS, LassoLARSCV, etc.) have been renamed to`sklearn.linear_model.Lars()`

.All distance metrics and kernels in

`sklearn.metrics.pairwise`

now have a Y parameter, which by default is None. If not given, the result is the distance (or kernel similarity) between each sample in Y. If given, the result is the pairwise distance (or kernel similarity) between samples in X to Y.

`sklearn.metrics.pairwise.l1_distance`

is now called`manhattan_distance`

, and by default returns the pairwise distance. For the component wise distance, set the parameter`sum_over_features`

to`False`

.

Backward compatibility package aliases and other deprecated classes and functions will be removed in version 0.11.

### People¶

38 people contributed to this release.

- 387 Vlad Niculae
- 320 Olivier Grisel
- 192 Lars Buitinck
- 179 Gael Varoquaux
- 168 Fabian Pedregosa (INRIA, Parietal Team)
- 127 Jake Vanderplas
- 120 Mathieu Blondel
- 85 Alexandre Passos
- 67 Alexandre Gramfort
- 57 Peter Prettenhofer
- 56 Gilles Louppe
- 42 Robert Layton
- 38 Nelle Varoquaux
- 32 Jean Kossaifi
- 30 Conrad Lee
- 22 Pietro Berkes
- 18 andy
- 17 David Warde-Farley
- 12 Brian Holt
- 11 Robert
- 8 Amit Aides
- 8 Virgile Fritsch
- 7 Yaroslav Halchenko
- 6 Salvatore Masecchia
- 5 Paolo Losi
- 4 Vincent Schut
- 3 Alexis Metaireau
- 3 Bryan Silverthorn
- 3 Andreas Müller
- 2 Minwoo Jake Lee
- 1 Emmanuelle Gouillart
- 1 Keith Goodman
- 1 Lucas Wiman
- 1 Nicolas Pinto
- 1 Thouis (Ray) Jones
- 1 Tim Sheerman-Chase

## Version 0.8¶

**May 11, 2011**

scikit-learn 0.8 was released on May 2011, one month after the first “international” scikit-learn coding sprint and is marked by the inclusion of important modules: Hierarchical clustering, Cross decomposition, Non-negative matrix factorization (NMF or NNMF), initial support for Python 3 and by important enhancements and bug fixes.

### Changelog¶

Several new modules where introduced during this release:

- New Hierarchical clustering module by Vincent Michel, Bertrand Thirion, Alexandre Gramfort and Gael Varoquaux.
- Kernel PCA implementation by Mathieu Blondel
- The Labeled Faces in the Wild face recognition dataset by Olivier Grisel.
- New Cross decomposition module by Edouard Duchesnay.
- Non-negative matrix factorization (NMF or NNMF) module Vlad Niculae
- Implementation of the Oracle Approximating Shrinkage algorithm by Virgile Fritsch in the Covariance estimation module.

Some other modules benefited from significant improvements or cleanups.

- Initial support for Python 3: builds and imports cleanly, some modules are usable while others have failing tests by Fabian Pedregosa.
`decomposition.PCA`

is now usable from the Pipeline object by Olivier Grisel.- Guide How to optimize for speed by Olivier Grisel.
- Fixes for memory leaks in libsvm bindings, 64-bit safer BallTree by Lars Buitinck.
- bug and style fixing in K-means algorithm by Jan Schlüter.
- Add attribute converged to Gaussian Mixture Models by Vincent Schut.
- Implemented
`transform`

,`predict_log_proba`

in`discriminant_analysis.LinearDiscriminantAnalysis`

By Mathieu Blondel.- Refactoring in the Support Vector Machines module and bug fixes by Fabian Pedregosa, Gael Varoquaux and Amit Aides.
- Refactored SGD module (removed code duplication, better variable naming), added interface for sample weight by Peter Prettenhofer.
- Wrapped BallTree with Cython by Thouis (Ray) Jones.
- Added function
`svm.l1_min_c`

by Paolo Losi.- Typos, doc style, etc. by Yaroslav Halchenko, Gael Varoquaux, Olivier Grisel, Yann Malet, Nicolas Pinto, Lars Buitinck and Fabian Pedregosa.

### People¶

People that made this release possible preceded by number of commits:

- 159 Olivier Grisel
- 96 Gael Varoquaux
- 96 Vlad Niculae
- 94 Fabian Pedregosa
- 36 Alexandre Gramfort
- 32 Paolo Losi
- 31 Edouard Duchesnay
- 30 Mathieu Blondel
- 25 Peter Prettenhofer
- 22 Nicolas Pinto
- 11 Virgile Fritsch
- 7 Lars Buitinck
- 6 Vincent Michel
- 5 Bertrand Thirion
- 4 Thouis (Ray) Jones
- 4 Vincent Schut
- 3 Jan Schlüter
- 2 Julien Miotte
- 2 Matthieu Perrot
- 2 Yann Malet
- 2 Yaroslav Halchenko
- 1 Amit Aides
- 1 Andreas Müller
- 1 Feth Arezki
- 1 Meng Xinfan

## Version 0.7¶

**March 2, 2011**

scikit-learn 0.7 was released in March 2011, roughly three months after the 0.6 release. This release is marked by the speed improvements in existing algorithms like k-Nearest Neighbors and K-Means algorithm and by the inclusion of an efficient algorithm for computing the Ridge Generalized Cross Validation solution. Unlike the preceding release, no new modules where added to this release.

### Changelog¶

- Performance improvements for Gaussian Mixture Model sampling [Jan Schlüter].
- Implementation of efficient leave-one-out cross-validated Ridge in
`linear_model.RidgeCV`

[Mathieu Blondel]- Better handling of collinearity and early stopping in
`linear_model.lars_path`

[Alexandre Gramfort and Fabian Pedregosa].- Fixes for liblinear ordering of labels and sign of coefficients [Dan Yamins, Paolo Losi, Mathieu Blondel and Fabian Pedregosa].
- Performance improvements for Nearest Neighbors algorithm in high-dimensional spaces [Fabian Pedregosa].
- Performance improvements for
`cluster.KMeans`

[Gael Varoquaux and James Bergstra].- Sanity checks for SVM-based classes [Mathieu Blondel].
- Refactoring of
`neighbors.NeighborsClassifier`

and`neighbors.kneighbors_graph`

: added different algorithms for the k-Nearest Neighbor Search and implemented a more stable algorithm for finding barycenter weights. Also added some developer documentation for this module, see notes_neighbors for more information [Fabian Pedregosa].- Documentation improvements: Added
`pca.RandomizedPCA`

and`linear_model.LogisticRegression`

to the class reference. Also added references of matrices used for clustering and other fixes [Gael Varoquaux, Fabian Pedregosa, Mathieu Blondel, Olivier Grisel, Virgile Fritsch , Emmanuelle Gouillart]- Binded decision_function in classes that make use of liblinear, dense and sparse variants, like
`svm.LinearSVC`

or`linear_model.LogisticRegression`

[Fabian Pedregosa].- Performance and API improvements to
`metrics.euclidean_distances`

and to`pca.RandomizedPCA`

[James Bergstra].- Fix compilation issues under NetBSD [Kamel Ibn Hassen Derouiche]
- Allow input sequences of different lengths in
`hmm.GaussianHMM`

[Ron Weiss].- Fix bug in affinity propagation caused by incorrect indexing [Xinfan Meng]

### People¶

People that made this release possible preceded by number of commits:

- 85 Fabian Pedregosa
- 67 Mathieu Blondel
- 20 Alexandre Gramfort
- 19 James Bergstra
- 14 Dan Yamins
- 13 Olivier Grisel
- 12 Gael Varoquaux
- 4 Edouard Duchesnay
- 4 Ron Weiss
- 2 Satrajit Ghosh
- 2 Vincent Dubourg
- 1 Emmanuelle Gouillart
- 1 Kamel Ibn Hassen Derouiche
- 1 Paolo Losi
- 1 VirgileFritsch
- 1 Yaroslav Halchenko
- 1 Xinfan Meng

## Version 0.6¶

**December 21, 2010**

scikit-learn 0.6 was released on December 2010. It is marked by the inclusion of several new modules and a general renaming of old ones. It is also marked by the inclusion of new example, including applications to real-world datasets.

### Changelog¶

- New stochastic gradient descent module by Peter Prettenhofer. The module comes with complete documentation and examples.
- Improved svm module: memory consumption has been reduced by 50%, heuristic to automatically set class weights, possibility to assign weights to samples (see SVM: Weighted samples for an example).
- New Gaussian Processes module by Vincent Dubourg. This module also has great documentation and some very neat examples. See example_gaussian_process_plot_gp_regression.py or example_gaussian_process_plot_gp_probabilistic_classification_after_regression.py for a taste of what can be done.
- It is now possible to use liblinear’s Multi-class SVC (option multi_class in
`svm.LinearSVC`

)- New features and performance improvements of text feature extraction.
- Improved sparse matrix support, both in main classes (
`grid_search.GridSearchCV`

) as in modules sklearn.svm.sparse and sklearn.linear_model.sparse.- Lots of cool new examples and a new section that uses real-world datasets was created. These include: Faces recognition example using eigenfaces and SVMs, Species distribution modeling, Libsvm GUI, Wikipedia principal eigenvector and others.
- Faster Least Angle Regression algorithm. It is now 2x faster than the R version on worst case and up to 10x times faster on some cases.
- Faster coordinate descent algorithm. In particular, the full path version of lasso (
`linear_model.lasso_path`

) is more than 200x times faster than before.- It is now possible to get probability estimates from a
`linear_model.LogisticRegression`

model.- module renaming: the glm module has been renamed to linear_model, the gmm module has been included into the more general mixture model and the sgd module has been included in linear_model.
- Lots of bug fixes and documentation improvements.

### People¶

People that made this release possible preceded by number of commits:

- 207 Olivier Grisel
- 167 Fabian Pedregosa
- 97 Peter Prettenhofer
- 68 Alexandre Gramfort
- 59 Mathieu Blondel
- 55 Gael Varoquaux
- 33 Vincent Dubourg
- 21 Ron Weiss
- 9 Bertrand Thirion
- 3 Alexandre Passos
- 3 Anne-Laure Fouque
- 2 Ronan Amicel
- 1 Christian Osendorfer

## Version 0.5¶

**October 11, 2010**

### Changelog¶

### New classes¶

- Support for sparse matrices in some classifiers of modules
`svm`

and`linear_model`

(see`svm.sparse.SVC`

,`svm.sparse.SVR`

,`svm.sparse.LinearSVC`

,`linear_model.sparse.Lasso`

,`linear_model.sparse.ElasticNet`

)- New
`pipeline.Pipeline`

object to compose different estimators.- Recursive Feature Elimination routines in module Feature selection.
- Addition of various classes capable of cross validation in the linear_model module (
`linear_model.LassoCV`

,`linear_model.ElasticNetCV`

, etc.).- New, more efficient LARS algorithm implementation. The Lasso variant of the algorithm is also implemented. See
`linear_model.lars_path`

,`linear_model.Lars`

and`linear_model.LassoLars`

.- New Hidden Markov Models module (see classes
`hmm.GaussianHMM`

,`hmm.MultinomialHMM`

,`hmm.GMMHMM`

)- New module feature_extraction (see class reference)
- New FastICA algorithm in module sklearn.fastica

### Documentation¶

- Improved documentation for many modules, now separating narrative documentation from the class reference. As an example, see documentation for the SVM module and the complete class reference.

### Fixes¶

- API changes: adhere variable names to PEP-8, give more meaningful names.
- Fixes for svm module to run on a shared memory context (multiprocessing).
- It is again possible to generate latex (and thus PDF) from the sphinx docs.

### Examples¶

- new examples using some of the mlcomp datasets:
`sphx_glr_auto_examples_mlcomp_sparse_document_classification.py`

(since removed) and Classification of text documents using sparse features- Many more examples. See here the full list of examples.

### External dependencies¶

- Joblib is now a dependency of this package, although it is shipped with (sklearn.externals.joblib).

### Removed modules¶

- Module ann (Artificial Neural Networks) has been removed from the distribution. Users wanting this sort of algorithms should take a look into pybrain.

### Misc¶

- New sphinx theme for the web page.

### Authors¶

The following is a list of authors for this release, preceded by number of commits:

- 262 Fabian Pedregosa
- 240 Gael Varoquaux
- 149 Alexandre Gramfort
- 116 Olivier Grisel
- 40 Vincent Michel
- 38 Ron Weiss
- 23 Matthieu Perrot
- 10 Bertrand Thirion
- 7 Yaroslav Halchenko
- 9 VirgileFritsch
- 6 Edouard Duchesnay
- 4 Mathieu Blondel
- 1 Ariel Rokem
- 1 Matthieu Brucher

## Version 0.4¶

**August 26, 2010**

### Changelog¶

Major changes in this release include:

- Coordinate Descent algorithm (Lasso, ElasticNet) refactoring & speed improvements (roughly 100x times faster).
- Coordinate Descent Refactoring (and bug fixing) for consistency with R’s package GLMNET.
- New metrics module.
- New GMM module contributed by Ron Weiss.
- Implementation of the LARS algorithm (without Lasso variant for now).
- feature_selection module redesign.
- Migration to GIT as version control system.
- Removal of obsolete attrselect module.
- Rename of private compiled extensions (added underscore).
- Removal of legacy unmaintained code.
- Documentation improvements (both docstring and rst).
- Improvement of the build system to (optionally) link with MKL. Also, provide a lite BLAS implementation in case no system-wide BLAS is found.
- Lots of new examples.
- Many, many bug fixes …

### Authors¶

The committer list for this release is the following (preceded by number of commits):

- 143 Fabian Pedregosa
- 35 Alexandre Gramfort
- 34 Olivier Grisel
- 11 Gael Varoquaux
- 5 Yaroslav Halchenko
- 2 Vincent Michel
- 1 Chris Filo Gorgolewski

## Earlier versions¶

Earlier versions included contributions by Fred Mailhot, David Cooke, David Huard, Dave Morrill, Ed Schofield, Travis Oliphant, Pearu Peterson.