PYOD SETUP
Installation:
It is recommended to use pip for installation. Please make sure the latest version is installed, as PyOD is updated frequently:
pip install pyod # normal install
pip install --upgrade pyod # or update if needed
pip install --pre pyod # or include pre-release version for new features
Alternatively, you could clone and run setup.py file:
git clone https://github.com/yzhao062/pyod.git
cd pyod
pip install .
Ref: https://pyod.readthedocs.io/en/latest/install.html
LISTING ALL THE MODELS
(tf) C:\Users\ashish>python
Python 3.7.4 (default, Aug 9 2019, 18:34:13) [MSC v.1915 64 bit (AMD64)] :: Anaconda, Inc. on win32
Code snippets not working:
>>> import pyod
>>> dir(pyod.models)
['__builtins__', '__cached__', '__doc__', '__file__', '__loader__', '__name__', '__package__', '__path__', '__spec__']
>>> import pyod.models.auto_encoder
Using TensorFlow backend.
>>> dir(pyod.models)
['__builtins__', '__cached__', '__doc__', '__file__', '__loader__', '__name__', '__package__', '__path__', '__spec__', 'auto_encoder', 'base', 'sklearn_base']
>>> import types
>>> for key, obj in pyod.models.__dict__.items():
... if type(obj) is types.ModuleType:
... print(key)
...
sklearn_base
base
auto_encoder
Success:
>>> import pkgutil
>>> import pyod.models as pm
>>> for importer, modname, ispkg in pkgutil.iter_modules(pm.__path__):
... print("Found submodule %s (is a package: %s)" % (modname, ispkg))
...
Found submodule abod (is a package: False)
Found submodule auto_encoder (is a package: False)
Found submodule base (is a package: False)
Found submodule cblof (is a package: False)
Found submodule cof (is a package: False)
Found submodule combination (is a package: False)
Found submodule feature_bagging (is a package: False)
Found submodule gaal_base (is a package: False)
Found submodule hbos (is a package: False)
Found submodule iforest (is a package: False)
Found submodule knn (is a package: False)
Found submodule lmdd (is a package: False)
Found submodule loci (is a package: False)
Found submodule loda (is a package: False)
Found submodule lof (is a package: False)
Found submodule lscp (is a package: False)
Found submodule mcd (is a package: False)
Found submodule mo_gaal (is a package: False)
Found submodule ocsvm (is a package: False)
Found submodule pca (is a package: False)
Found submodule sklearn_base (is a package: False)
Found submodule so_gaal (is a package: False)
Found submodule sod (is a package: False)
Found submodule sos (is a package: False)
Found submodule vae (is a package: False)
Found submodule xgbod (is a package: False)
>>>
NOTE: If you are facing issues in importing "PyOD" submodules, then you should use the "git" method for installation, and import submodules as shown in this post.
ON UBUNTU USING PIP:
(base) ashish@ashish-vBox:~/Desktop/workspace$ pip install pyod
Collecting pyod
...
...
Building wheels for collected packages: pyod, combo, suod
Building wheel for pyod (setup.py) ... done
Stored in directory: /home/ashish/.cache/pip/wheels/7a/72/cc/8d691190b9525ee49125be37ce231bb02ee0c71882dce4a1cd
...
...
Successfully installed combo-0.1.0 pyod-0.7.8 suod-0.0.3
(base) ashish@ashish-vBox:~/Desktop/workspace$ python
Python 3.7.3 (default, Mar 27 2019, 22:11:17)
[GCC 7.3.0] :: Anaconda, Inc. on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import pyod
>>> dir(pyod.models)
['__builtins__', '__cached__', '__doc__', '__file__', '__loader__', '__name__', '__package__', '__path__', '__spec__']
>>> pyod.models.__dir__()
['__name__', '__doc__', '__package__', '__loader__', '__spec__', '__path__', '__file__', '__cached__', '__builtins__']
>>> dir(pyod.models.knn)
Traceback (most recent call last):
File "", line 1, in
AttributeError: module 'pyod.models' has no attribute 'knn'
>>> import pyod.models.knn
>>> dir(pyod.models.knn)
['BallTree', 'BaseDetector', 'KNN', 'NearestNeighbors', '__builtins__', '__cached__', '__doc__', '__file__', '__loader__', '__name__', '__package__', '__spec__', 'check_array', 'check_is_fitted', 'division', 'np', 'print_function', 'warn']
>>>
ON UBUNTU USING "GIT CLONE":
(base) ashish@ashish-vBox:~/Desktop/workspace/GitHub$ git clone https://github.com/yzhao062/pyod.git
Cloning into 'pyod'...
...
Receiving objects: 100% (6303/6303), 35.29 MiB | 201.00 KiB/s, done.
Resolving deltas: 100% (4399/4399), done.
(base) ashish@ashish-vBox:~/Desktop/workspace/GitHub$ dir
pyod
(base) ashish@ashish-vBox:~/Desktop/workspace/GitHub$ cd pyod
(base) ashish@ashish-vBox:~/Desktop/workspace/GitHub/pyod$ ls
appveyor.yml docs examples MANIFEST.in PULL_REQUEST_TEMPLATE.md pypi_build_commands.txt requirements_ci.txt setup.cfg
CHANGES.txt environment.yml LICENSE notebooks pyod README.rst requirements.txt setup.py
(base) ashish@ashish-vBox:~/Desktop/workspace/GitHub/pyod$ pip install .
Processing /home/ashish/Desktop/workspace/GitHub/pyod
Requirement already satisfied: combo in /home/ashish/anaconda3/lib/python3.7/site-packages (from pyod==0.7.8) (0.1.0)
...
Requirement already satisfied: setuptools in /home/ashish/anaconda3/lib/python3.7/site-packages (from kiwisolver>=1.0.1->matplotlib->pyod==0.7.8) (41.0.1)
Building wheels for collected packages: pyod
Building wheel for pyod (setup.py) ... done
Stored in directory: /tmp/pip-ephem-wheel-cache-0zrfc299/wheels/de/52/5e/5de975ee565f4a98ad7c50aacfcdb644c656fd3b9a68ed2f98
Successfully built pyod
Installing collected packages: pyod
Successfully installed pyod-0.7.8
(base) ashish@ashish-vBox:~/Desktop/workspace/GitHub/pyod$ python
Python 3.7.3 (default, Mar 27 2019, 22:11:17)
[GCC 7.3.0] :: Anaconda, Inc. on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import pyod
>>> dir(pyod.models)
['__builtins__', '__cached__', '__doc__', '__file__', '__loader__', '__name__', '__package__', '__path__', '__spec__']
>>>
--
IMPORTING THE PACKAGES:
from pyod.models.lof import LOF
from pyod.models.cblof import CBLOF
from pyod.models.feature_bagging import FeatureBagging
dir(pyod.models.lof)
['BaseDetector',
'LOF',
'LocalOutlierFactor',
'__builtins__',
'__cached__',
'__doc__',
'__file__',
'__loader__',
'__name__',
'__package__',
'__spec__',
'_get_sklearn_version',
'check_array',
'check_is_fitted',
'division',
'invert_order',
'print_function']
dir(pyod.models.cblof)
['BaseDetector',
'CBLOF',
'KMeans',
'__all__',
'__builtins__',
'__cached__',
'__doc__',
'__file__',
'__loader__',
'__name__',
'__package__',
'__spec__',
'cdist',
'check_array',
'check_estimator',
'check_is_fitted',
'check_parameter',
'division',
'np',
'pairwise_distances_no_broadcast',
'print_function',
'warnings']
dir(pyod.models.feature_bagging)
['BaseDetector',
'FeatureBagging',
'LOF',
'MAX_INT',
'Parallel',
'__builtins__',
'__cached__',
'__doc__',
'__file__',
'__loader__',
'__name__',
'__package__',
'__spec__',
'_parallel_decision_function',
'_partition_estimators',
'_set_random_states',
'average',
'check_array',
'check_detector',
'check_is_fitted',
'check_parameter',
'check_random_state',
'clone',
'delayed',
'division',
'generate_bagging_indices',
'generate_indices',
'maximization',
'np',
'numbers',
'print_function',
'sample_without_replacement']
--- --- ---
FILES THAT ARE DOWNLOADED ON "GIT CLONE":
D:\workspace\GitHub>git clone https://github.com/yzhao062/pyod.git
D:\workspace\GitHub>cd pyod
D:\workspace\GitHub\pyod>tree /f
D:.
¦ .gitattributes
¦ .gitignore
¦ .travis.yml
¦ appveyor.yml
¦ CHANGES.txt
¦ environment.yml
¦ LICENSE
¦ MANIFEST.in
¦ PULL_REQUEST_TEMPLATE.md
¦ pypi_build_commands.txt
¦ README.rst
¦ requirements.txt
¦ requirements_ci.txt
¦ setup.cfg
¦ setup.py
¦
+---.circleci
¦ config.backup
¦ config.backup_2
¦ config.backup_3
¦ config.yml
¦
+---docs
¦ ¦ about.rst
¦ ¦ api_cc.rst
¦ ¦ benchmark.rst
¦ ¦ command.txt
¦ ¦ conf.py
¦ ¦ example.rst
¦ ¦ faq.rst
¦ ¦ index.rst
¦ ¦ install.rst
¦ ¦ issues.rst
¦ ¦ make.bat
¦ ¦ Makefile
¦ ¦ pubs.rst
¦ ¦ pyod.models.rst
¦ ¦ pyod.rst
¦ ¦ pyod.test.rst
¦ ¦ pyod.utils.rst
¦ ¦ rebuild.bat
¦ ¦ relevant_knowledge.rst
¦ ¦ requirements.txt
¦ ¦ zreferences.bib
¦ ¦
¦ +---figs
¦ ¦ ALL.png
¦ ¦ KNN.png
¦ ¦
¦ +---tables
¦ prc.csv
¦ roc.csv
¦ time.csv
¦
+---examples
¦ ¦ abod_example.py
¦ ¦ ALL.png
¦ ¦ auto_encoder_example.py
¦ ¦ cblof_example.py
¦ ¦ cof_example.py
¦ ¦ comb_example.py
¦ ¦ compare_all_models.py
¦ ¦ feature_bagging_example.py
¦ ¦ generate_data_cluster_example.py
¦ ¦ hbos_example.py
¦ ¦ iforest_example.py
¦ ¦ KNN.png
¦ ¦ knn_example.py
¦ ¦ knn_mahalanobis_example.py
¦ ¦ lmdd_example.py
¦ ¦ loci_example.py
¦ ¦ loda_example.py
¦ ¦ lof_example.py
¦ ¦ lscp_example.py
¦ ¦ mcd_example.py
¦ ¦ mo_gaal_example.py
¦ ¦ ocsvm_example.py
¦ ¦ pca_example.py
¦ ¦ README.md
¦ ¦ sod_example.py
¦ ¦ sos_example.py
¦ ¦ so_gaal_example.py
¦ ¦ temp_do_not_use.ipynb
¦ ¦ temp_do_not_use.py
¦ ¦ vae_example.py
¦ ¦ xgbod_example.py
¦ ¦ __init__.py
¦ ¦
¦ +---data
¦ ¦ cardio.mat
¦ ¦ letter.mat
¦ ¦ mat_file_conversion.py
¦ ¦
¦ +---temp_do_not_use
¦ deprecated_functions.py
¦ fit_predict_verification.py
¦
+---notebooks
¦ ¦ Benchmark.ipynb
¦ ¦ benchmark.py
¦ ¦ Compare All Models.ipynb
¦ ¦ Model Combination.ipynb
¦ ¦
¦ +---data
¦ arrhythmia.mat
¦ cardio.mat
¦ glass.mat
¦ ionosphere.mat
¦ letter.mat
¦ lympho.mat
¦ mnist.mat
¦ musk.mat
¦ optdigits.mat
¦ pendigits.mat
¦ pima.mat
¦ README.md
¦ satellite.mat
¦ satimage-2.mat
¦ shuttle.mat
¦ vertebral.mat
¦ vowels.mat
¦ wbc.mat
¦
+---pyod
¦ version.py
¦ __init__.py
¦
+---models
¦ abod.py
¦ auto_encoder.py
¦ base.py
¦ cblof.py
¦ cof.py
¦ combination.py
¦ feature_bagging.py
¦ gaal_base.py
¦ hbos.py
¦ iforest.py
¦ knn.py
¦ lmdd.py
¦ loci.py
¦ loda.py
¦ lof.py
¦ lscp.py
¦ mcd.py
¦ mo_gaal.py
¦ ocsvm.py
¦ pca.py
¦ sklearn_base.py
¦ sod.py
¦ sos.py
¦ so_gaal.py
¦ vae.py
¦ xgbod.py
¦ __init__.py
¦
+---test
¦ ¦ conftest.py
¦ ¦ test_abod.py
¦ ¦ test_auto_encoder.py
¦ ¦ test_base.py
¦ ¦ test_cblof.py
¦ ¦ test_cof.py
¦ ¦ test_combination.py
¦ ¦ test_data.py
¦ ¦ test_feature_bagging.py
¦ ¦ test_hbos.py
¦ ¦ test_iforest.py
¦ ¦ test_knn.py
¦ ¦ test_lmdd.py
¦ ¦ test_loci.py
¦ ¦ test_loda.py
¦ ¦ test_lof.py
¦ ¦ test_lscp.py
¦ ¦ test_mcd.py
¦ ¦ test_mo_gaal.py
¦ ¦ test_ocsvm.py
¦ ¦ test_pca.py
¦ ¦ test_sod.py
¦ ¦ test_sos.py
¦ ¦ test_so_gaal.py
¦ ¦ test_stat_models.py
¦ ¦ test_utility.py
¦ ¦ test_vae.py
¦ ¦ test_xgbod.py
¦ ¦ __init__.py
¦ ¦
¦ +---data
¦ cardio.mat
¦ pima.mat
¦
+---utils
data.py
example.py
stat_models.py
utility.py
__init__.py
D:\workspace\GitHub\pyod>
Note: It is beneficial to clone the Git repository of the PyOD package as it gives you the source code files that you can refer in case of any confusion and also it gives you the "examples" directory that code samples on how the PyOD models can be used and compared (such as in this file: "examples/compare_all_models.py").
Python Package for Outlier Detection PyOD Setup (Apr 2020)
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