Repository: WenjieDu/PyGrinder (language: python)

Issue:
Switch to the BSD-3 license
# What does this PR do?

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Fixing https://github.com/WenjieDu/PyPOTS/issues/227


## Before submitting

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- [x] This PR is made to fix a typo or improve the docs (you can dismiss the other checks if this is the case).
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- [x] I have written necessary tests and already run them locally.



Discussion / hints:

Fix patch:
diff --git a/LICENSE b/LICENSE
index e72bfdd..3966c48 100644
--- a/LICENSE
+++ b/LICENSE
@@ -1,674 +1,28 @@
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-versions of the GNU General Public License can be used, that proxy's
-public statement of acceptance of a version permanently authorizes you
-to choose that version for the Program.
-
-  Later license versions may give you additional or different
-permissions.  However, no additional obligations are imposed on any
-author or copyright holder as a result of your choosing to follow a
-later version.
-
-  15. Disclaimer of Warranty.
-
-  THERE IS NO WARRANTY FOR THE PROGRAM, TO THE EXTENT PERMITTED BY
-APPLICABLE LAW.  EXCEPT WHEN OTHERWISE STATED IN WRITING THE COPYRIGHT
-HOLDERS AND/OR OTHER PARTIES PROVIDE THE PROGRAM "AS IS" WITHOUT WARRANTY
-OF ANY KIND, EITHER EXPRESSED OR IMPLIED, INCLUDING, BUT NOT LIMITED TO,
-THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
-PURPOSE.  THE ENTIRE RISK AS TO THE QUALITY AND PERFORMANCE OF THE PROGRAM
-IS WITH YOU.  SHOULD THE PROGRAM PROVE DEFECTIVE, YOU ASSUME THE COST OF
-ALL NECESSARY SERVICING, REPAIR OR CORRECTION.
-
-  16. Limitation of Liability.
-
-  IN NO EVENT UNLESS REQUIRED BY APPLICABLE LAW OR AGREED TO IN WRITING
-WILL ANY COPYRIGHT HOLDER, OR ANY OTHER PARTY WHO MODIFIES AND/OR CONVEYS
-THE PROGRAM AS PERMITTED ABOVE, BE LIABLE TO YOU FOR DAMAGES, INCLUDING ANY
-GENERAL, SPECIAL, INCIDENTAL OR CONSEQUENTIAL DAMAGES ARISING OUT OF THE
-USE OR INABILITY TO USE THE PROGRAM (INCLUDING BUT NOT LIMITED TO LOSS OF
-DATA OR DATA BEING RENDERED INACCURATE OR LOSSES SUSTAINED BY YOU OR THIRD
-PARTIES OR A FAILURE OF THE PROGRAM TO OPERATE WITH ANY OTHER PROGRAMS),
-EVEN IF SUCH HOLDER OR OTHER PARTY HAS BEEN ADVISED OF THE POSSIBILITY OF
-SUCH DAMAGES.
-
-  17. Interpretation of Sections 15 and 16.
-
-  If the disclaimer of warranty and limitation of liability provided
-above cannot be given local legal effect according to their terms,
-reviewing courts shall apply local law that most closely approximates
-an absolute waiver of all civil liability in connection with the
-Program, unless a warranty or assumption of liability accompanies a
-copy of the Program in return for a fee.
-
-                     END OF TERMS AND CONDITIONS
-
-            How to Apply These Terms to Your New Programs
-
-  If you develop a new program, and you want it to be of the greatest
-possible use to the public, the best way to achieve this is to make it
-free software which everyone can redistribute and change under these terms.
-
-  To do so, attach the following notices to the program.  It is safest
-to attach them to the start of each source file to most effectively
-state the exclusion of warranty; and each file should have at least
-the "copyright" line and a pointer to where the full notice is found.
-
-    <one line to give the program's name and a brief idea of what it does.>
-    Copyright (C) <year>  <name of author>
-
-    This program is free software: you can redistribute it and/or modify
-    it under the terms of the GNU General Public License as published by
-    the Free Software Foundation, either version 3 of the License, or
-    (at your option) any later version.
-
-    This program is distributed in the hope that it will be useful,
-    but WITHOUT ANY WARRANTY; without even the implied warranty of
-    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-    GNU General Public License for more details.
-
-    You should have received a copy of the GNU General Public License
-    along with this program.  If not, see <https://www.gnu.org/licenses/>.
-
-Also add information on how to contact you by electronic and paper mail.
-
-  If the program does terminal interaction, make it output a short
-notice like this when it starts in an interactive mode:
-
-    <program>  Copyright (C) <year>  <name of author>
-    This program comes with ABSOLUTELY NO WARRANTY; for details type `show w'.
-    This is free software, and you are welcome to redistribute it
-    under certain conditions; type `show c' for details.
-
-The hypothetical commands `show w' and `show c' should show the appropriate
-parts of the General Public License.  Of course, your program's commands
-might be different; for a GUI interface, you would use an "about box".
-
-  You should also get your employer (if you work as a programmer) or school,
-if any, to sign a "copyright disclaimer" for the program, if necessary.
-For more information on this, and how to apply and follow the GNU GPL, see
-<https://www.gnu.org/licenses/>.
-
-  The GNU General Public License does not permit incorporating your program
-into proprietary programs.  If your program is a subroutine library, you
-may consider it more useful to permit linking proprietary applications with
-the library.  If this is what you want to do, use the GNU Lesser General
-Public License instead of this License.  But first, please read
-<https://www.gnu.org/licenses/why-not-lgpl.html>.
\ No newline at end of file
+Copyright (c) 2023-present, Wenjie Du
+All rights reserved.
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+1. Redistributions of source code must retain the above copyright
+   notice, this list of conditions and the following disclaimer.
+
+2. Redistributions in binary form must reproduce the above copyright
+   notice, this list of conditions and the following disclaimer in the
+   documentation and/or other materials provided with the distribution.
+
+3. Neither the name of the copyright holder nor the names of its
+   contributors may be used to endorse or promote products derived from
+   this software without specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
+ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE
+LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
+CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
+SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
+INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN
+CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
+ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
+POSSIBILITY OF SUCH DAMAGE.
diff --git a/README.md b/README.md
index 099e407..68afec1 100644
--- a/README.md
+++ b/README.md
@@ -12,7 +12,7 @@
         <img alt="the latest release version" src="https://img.shields.io/github/v/release/wenjiedu/PyGrinder?color=EE781F&include_prereleases&label=Release&logo=github&logoColor=white">
     </a>
     <a href="https://github.com/WenjieDu/PyGrinder/blob/main/LICENSE">
-        <img alt="GPL-v3 license" src="https://img.shields.io/badge/License-GPL--v3-E9BB41?logo=opensourceinitiative&logoColor=white">
+        <img alt="BSD-3 license" src="https://img.shields.io/badge/License-BSD--3-E9BB41?logo=opensourceinitiative&logoColor=white">
     </a>
     <a  href='https://github.com/WenjieDu/PyGrinder/actions/workflows/testing_ci.yml'>
         <img alt='GitHub Testing' src='https://img.shields.io/github/actions/workflow/status/wenjiedu/PyGrinder/testing_ci.yml?logo=github&color=C8D8E1&label=CI'>
diff --git a/docs/index.rst b/docs/index.rst
index 9473856..3470a4e 100644
--- a/docs/index.rst
+++ b/docs/index.rst
@@ -13,7 +13,7 @@ Welcome to PyGrinder's docs!
 .. image:: https://img.shields.io/github/v/release/wenjiedu/pygrinder?color=EE781F&include_prereleases&label=Release&logo=github&logoColor=white
    :alt: the latest release version
    :target: https://img.shields.io/github/v/release/wenjiedu/pygrinder?color=EE781F&include_prereleases&label=Release&logo=github&logoColor=white
-.. image:: https://img.shields.io/badge/License-GPL--v3-E9BB41?logo=opensourceinitiative&logoColor=white
+.. image:: https://img.shields.io/badge/License-BSD--3-E9BB41?logo=opensourceinitiative&logoColor=white
    :alt: License
    :target: https://github.com/WenjieDu/PyGrinder/blob/main/LICENSE
 .. image:: https://img.shields.io/github/actions/workflow/status/wenjiedu/pygrinder/testing_ci.yml?logo=github&color=C8D8E1&label=CI
diff --git a/pygrinder/__init__.py b/pygrinder/__init__.py
index 26a35db..26c975b 100644
--- a/pygrinder/__init__.py
+++ b/pygrinder/__init__.py
@@ -3,7 +3,7 @@
 """
 
 # Created by Wenjie Du <wenjay.du@gmail.com>
-# License: GLP-v3
+# License: BSD-3-Clause
 
 # PyGrinder version
 #
@@ -21,7 +21,7 @@
 #
 # Dev branch marker is: 'X.Y.dev' or 'X.Y.devN' where N is an integer.
 # 'X.Y.dev0' is the canonical version of 'X.Y.dev'
-__version__ = "0.1.1"
+__version__ = "0.2"
 
 try:
     from pygrinder.missing_completely_at_random import mcar, mcar_little_test
diff --git a/pygrinder/missing_at_random/__init__.py b/pygrinder/missing_at_random/__init__.py
index 56a3ba7..d7e2ea6 100644
--- a/pygrinder/missing_at_random/__init__.py
+++ b/pygrinder/missing_at_random/__init__.py
@@ -1,5 +1,5 @@
 # Created by Wenjie Du <wenjay.du@gmail.com>
-# License: GLP-v3
+# License: BSD-3-Clause
 
 from .mar_logistic import mar_logistic
 
diff --git a/pygrinder/missing_at_random/mar_logistic.py b/pygrinder/missing_at_random/mar_logistic.py
index 09095a6..eb42205 100644
--- a/pygrinder/missing_at_random/mar_logistic.py
+++ b/pygrinder/missing_at_random/mar_logistic.py
@@ -3,18 +3,14 @@
 """
 
 # Created by Wenjie Du <wenjay.du@gmail.com>
-# License: GLP-v3
+# License: BSD-3-Clause
 
 from typing import Union, Tuple
 
 import numpy as np
+import torch
 from scipy import optimize
 
-try:
-    import torch
-except ImportError:
-    pass
-
 
 def mar_logistic(
     X: Union[torch.Tensor, np.ndarray],
diff --git a/pygrinder/missing_completely_at_random/__init__.py b/pygrinder/missing_completely_at_random/__init__.py
index bf726d1..0dc55c5 100644
--- a/pygrinder/missing_completely_at_random/__init__.py
+++ b/pygrinder/missing_completely_at_random/__init__.py
@@ -3,7 +3,7 @@
 """
 
 # Created by Wenjie Du <wenjay.du@gmail.com>
-# License: GLP-v3
+# License: BSD-3-Clause
 
 from .little_test import mcar_little_test
 from .mcar import mcar
diff --git a/pygrinder/missing_completely_at_random/mcar.py b/pygrinder/missing_completely_at_random/mcar.py
index 147742f..04fe75e 100644
--- a/pygrinder/missing_completely_at_random/mcar.py
+++ b/pygrinder/missing_completely_at_random/mcar.py
@@ -3,16 +3,12 @@
 """
 
 # Created by Wenjie Du <wenjay.du@gmail.com>
-# License: GPL-v3
+# License: BSD-3-Clause
 
 from typing import Union, Tuple
 
 import numpy as np
-
-try:
-    import torch
-except ImportError:
-    pass
+import torch
 
 
 def mcar(
diff --git a/pygrinder/missing_not_at_random/__init__.py b/pygrinder/missing_not_at_random/__init__.py
index 6a5b51c..7a98e09 100644
--- a/pygrinder/missing_not_at_random/__init__.py
+++ b/pygrinder/missing_not_at_random/__init__.py
@@ -1,5 +1,5 @@
 # Created by Wenjie Du <wenjay.du@gmail.com>
-# License: GLP-v3
+# License: BSD-3-Clause
 
 from .mnar_t import mnar_t
 from .mnar_x import mnar_x
diff --git a/pygrinder/missing_not_at_random/mnar_t.py b/pygrinder/missing_not_at_random/mnar_t.py
index f747271..1bff171 100644
--- a/pygrinder/missing_not_at_random/mnar_t.py
+++ b/pygrinder/missing_not_at_random/mnar_t.py
@@ -3,16 +3,12 @@
 """
 
 # Created by Jun Wang <jwangfx@connect.ust.hk> and Wenjie Du <wenjay.du@gmail.com>
-# License: GLP-v3
+# License: BSD-3-Clause
 
 from typing import Optional, Union, Tuple
 
 import numpy as np
-
-try:
-    import torch
-except ImportError:
-    pass
+import torch
 
 
 def mnar_t(
diff --git a/pygrinder/missing_not_at_random/mnar_x.py b/pygrinder/missing_not_at_random/mnar_x.py
index e62561c..0ac249d 100644
--- a/pygrinder/missing_not_at_random/mnar_x.py
+++ b/pygrinder/missing_not_at_random/mnar_x.py
@@ -3,16 +3,12 @@
 """
 
 # Created by Jun Wang <jwangfx@connect.ust.hk> and Wenjie Du <wenjay.du@gmail.com>
-# License: GLP-v3
+# License: BSD-3-Clause
 
 from typing import Optional, Union, Tuple
 
 import numpy as np
-
-try:
-    import torch
-except ImportError:
-    pass
+import torch
 
 
 def mnar_x(
diff --git a/pygrinder/utils.py b/pygrinder/utils.py
index 7070ede..a976a31 100644
--- a/pygrinder/utils.py
+++ b/pygrinder/utils.py
@@ -3,16 +3,12 @@
 """
 
 # Created by Wenjie Du <wenjay.du@gmail.com>
-# License: GPL-v3
+# License: BSD-3-Clause
 
 from typing import Union
 
 import numpy as np
-
-try:
-    import torch
-except ImportError:
-    pass
+import torch
 
 
 def cal_missing_rate(X: Union[np.ndarray, torch.Tensor]) -> float:
diff --git a/requirements.txt b/requirements.txt
index ce9dcdb..9a2391b 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -1,3 +1,4 @@
 numpy
 scikit-learn
-pandas
\ No newline at end of file
+pandas
+torch
diff --git a/setup.cfg b/setup.cfg
index e39b37d..6a54059 100644
--- a/setup.cfg
+++ b/setup.cfg
@@ -1,7 +1,7 @@
 # This file stores some meta configurations for project PyGrinder.
 
 # Created by Wenjie Du <wenjay.du@gmail.com>
-# License: GLP-v3
+# License: BSD-3-Clause
 
 [flake8]
 # People may argue that coding style is personal. This may be true if the project is personal and one works like a
diff --git a/setup.py b/setup.py
index 41fa2cf..548b14f 100644
--- a/setup.py
+++ b/setup.py
@@ -11,7 +11,7 @@
     description="A Python toolkit for introducing missing values into datasets",
     long_description=README,
     long_description_content_type="text/markdown",
-    license="GPL-3.0",
+    license="BSD-3-Clause",
     author="Wenjie Du",
     author_email="wenjay.du@gmail.com",
     url="https://github.com/WenjieDu/PyGrinder",
@@ -36,6 +36,16 @@
         "numpy",
         "scipy",
         "pandas",
+        "torch",
     ],
     setup_requires=["setuptools>=38.6.0"],
+    classifiers=[
+        "Development Status :: 5 - Production/Stable",
+        "Intended Audience :: Developers",
+        "Intended Audience :: Education",
+        "Intended Audience :: Science/Research",
+        "License :: OSI Approved :: BSD License",
+        "Operating System :: OS Independent",
+        "Programming Language :: Python :: 3",
+    ],
 )


Test patch:
diff --git a/.github/workflows/testing_ci.yml b/.github/workflows/testing_ci.yml
index f35589a..6296532 100644
--- a/.github/workflows/testing_ci.yml
+++ b/.github/workflows/testing_ci.yml
@@ -17,21 +17,25 @@ jobs:
             fail-fast: false
             matrix:
                 os: [ ubuntu-latest, windows-latest, macOS-latest ]
-                python-version: [ 3.7, 3.9 ]
+                python-version: [ '3.7', '3.10' ]
 
         steps:
-            -   uses: actions/checkout@v3
-            -   name: Set up Python ${{ matrix.python-version }}
-                uses: actions/setup-python@v3
-                with:
-                    python-version: ${{ matrix.python-version }}
+            - uses: actions/checkout@v3
 
-            -   name: Install dependencies
-                run: |
-                    python -m pip install --upgrade pip
-                    pip install -r requirements.txt
-                    pip install pytest
-                    pip install coverage
+            - name: Set up Python
+              uses: actions/setup-python@v4
+              with:
+                python-version: ${{ matrix.python-version }}
+                check-latest: true
+                cache: pip
+                cache-dependency-path: |
+                    requirements.txt
+
+            - name: Install dependencies
+              run: |
+                python -m pip install --upgrade pip
+                pip install -r requirements.txt
+                pip install pytest coverage
 
             -   name: Test with pytest
                 run: |
diff --git a/pygrinder/missing_completely_at_random/little_test.py b/pygrinder/missing_completely_at_random/little_test.py
index 0c55621..8c83c53 100644
--- a/pygrinder/missing_completely_at_random/little_test.py
+++ b/pygrinder/missing_completely_at_random/little_test.py
@@ -1,5 +1,5 @@
 # Created by Wenjie Du <wenjay.du@gmail.com>
-# License: GPL-v3
+# License: BSD-3-Clause
 
 from typing import Union
 
@@ -14,7 +14,22 @@ def mcar_little_test(X: Union[pd.DataFrame, np.ndarray]) -> float:
     Notes
     -----
     This implementation is inspired by
-    https://github.com/RianneSchouten/pyampute/blob/master/pyampute/exploration/mcar_statistical_tests.py
+    https://github.com/RianneSchouten/pyampute/blob/master/pyampute/exploration/mcar_statistical_tests.py.
+    Note that this function should be used carefully. Rejecting the null hypothesis may not always mean that
+    the data is not MCAR, nor is accepting the null hypothesis a guarantee that the data is MCAR.
+
+    Parameters
+    ----------
+    X:
+        Time series data containing missing values that should be in shape of [n_steps, n_features],
+        i.e. have 2 dimensions.
+
+    Returns
+    -------
+    p_value:
+        The p-value of a chi-square hypothesis test.
+        Null hypothesis: the time series is missing completely at random (MCAR).
+
     """
 
     if isinstance(X, np.ndarray):
diff --git a/tests/__init__.py b/tests/__init__.py
index bb6e070..865b46d 100644
--- a/tests/__init__.py
+++ b/tests/__init__.py
@@ -3,4 +3,4 @@
 """
 
 # Created by Wenjie Du <wenjay.du@gmail.com>
-# License: GLP-v3
+# License: BSD-3-Clause
diff --git a/tests/test_pygrinder.py b/tests/test_pygrinder.py
index 4ed79c1..ce6ed71 100644
--- a/tests/test_pygrinder.py
+++ b/tests/test_pygrinder.py
@@ -3,7 +3,7 @@
 """
 
 # Created by Wenjie Du <wenjay.du@gmail.com>
-# License: GLP-v3
+# License: BSD-3-Clause
 
 import unittest