Changelog

Version 0.9.41 Nov 10, 2022

Fabian Joswig (5):

• ci: execute test action only on push to master and on pull requests.

• ci: test requirements added to ci workflow.

• ci: first version of github actions ci added.

• fix: import from from scipy.ndimage.filters replaced by from scipy.ndimage

• fix: np.info(float).machar.tiny replaced by np.info(float).tiny

Jonas Eschle (6):

• Drop Python 3.6

• Remove Python 2.7, 3.6 from appveyor CI

• Update .travis.yml

• Update setup.cfg

• Update .travis.yml

• Update to Python310

Per A Brodtkorb (19):

• Commented out deprecated pep8ignore and pep8maxlinelength in setup.cfg

• Fixed issue #59: numpy deprecation warning on machar.tiny

• Deleted obsolete travis_install.sh

• Replaced deprecated np.MachAr().eps (NumPy 1.22) with np.finfo(float).eps in test_multicomplex.py

• Added requirements.tests.txt

• Updated .github/workflows/test.yml to use requirements.tests.txt

• Removed obsolete .travis.yml and appveyor.yml.

• Github-actions are now used instead.

• Replaced appveyor badge and travis badge with github-actions badge in README.rst, info.py and index.rst

• Removed python 2.7 from classifiers in setup.cfg

• Updated .travis.yml

• Fixed doctest so they don’t crash on travis: Replaced “# doctest + SKIP” with “# doctest: +SKIP” in docstrings.

• Updated download badge in README.rst and info.py

• Updated test_img in README.rst

• Updated tests_img path for travis.

• Added “# doctest + SKIP” to doctest string in info.py

• Replaced “version|” with “release|” in docs/index.rst

• Added matplotlib to requirements.txt Removed failing python 3.8 from appveyor.yml

Per A. Brodtkorb (4):

• Merge pull request #65 from fjosw/feat/github_actions_ci

• Merge pull request #66 from jonas-eschle/patch-1

• Merge pull request #60 from peendebak/performance/percentile

• Merge pull request #63 from fjosw/feat/numpy_deprecation

Pieter Eendebak (2):

• workaround for known issue with np.nanpercentile

• improve performance by combining percentile calculations

Version 0.9.40 Jun 2, 2021

Per A Brodtkorb (109):

• Replaced python 3.5 with 3.9 in .travis.yml

• Removed python 3.5 from appveyor.yml

• Added bibtex_bibfiles = … to docs/conf.py

• Fixed doctest failures in

  • docs/src/numerical/derivest.rst

  • docs/tutorials/getting_started.rst

  • numdifftools.core.py

  • numdifftools.limits.py

  • numdifftools.nd_algopy.py

  • numdifftools.nd_scipy.py

  • numdifftools.nd_statsmodels.py

• Insulated import of click in a if __name__ ==’__main__’ clause.

• Added activate to appveyor.yml

• Added https://mathworld.wolfram.com/WynnsEpsilonMethod.html reference for the Epsilon algorithm in extrapolation.py.

• Disabled the restriction that n must be one in LogJacobianRule

• Added complex_even and central_even methods to the JacobianDifferenceFunctions

• Updated documentation of Derivative in core.py

• Updated documentation of Richardson.

• Removed obsolete tests from test_nd_scipy.py

• Fixed a bug in TestJacobian.test_scalar_to_vector in test_nd_scipy.py for method=”complex’

• Refactored code from core.py to finite_difference.py

• Added LogJacobianRule, LogHessdiagRule, LogHessianRule to finite_difference.py

• Fixed a bug in Richardson._estimate_error: Complex rule resulted wrongly in complex error values.

• Added netlib.org/quadpack reference.

• Updated Dea to conform with Quadpack

• Replaced reference to Brezinski with refs to Quadpack.

• Reduced cyclomatic complexity in Dea in extrapolation.py

• Removed commented out code in profile_numdifftools.py

• Updated pycodestyle ignore section in setup.cfg

• Removed commented out code in run_benchmark.py Made get_nominal_step continous as function of x

• Made datetime call python 2.7 compatible in run_benchmark.py

• Simplified the Derivative._step_generator function in core.py.

• Made plots generated from run_benchmark.py prettier.

• step_ratio in the step generators by default 2 for n=1 and 1.6 otherwise in step_generators.py

• Fixed failing doctests in core.py and nd_statsmodels.py

• Added doctests to setup.cfg.

• Reordered imports in test_example_functions.py

• Fixed .travis.yml so that he file paths in coverage.xml is discoverable under the sonar.sources folder. The problem is that SonarQube is analysing the checked-out source code (in src/numdifftools) but the actual unit tests and coverage.py is run against the installed code (in build/lib/numdifftools). Thus the absolute files paths to the installed

• Removed commented code from test_numdifftools.py

• Run only coverage xml when python version is 3.7

• Updated .travis.yml Removed commented out code from extrapolation.py and nd_statsmodels.py

• Finalized the moved of XXXDifferencdFunctions from core.py to finite_difference.py

• Added missing docstring for default_scale function in step_generators.py.

• Removed unused import of itertools in _find_default_scale.py.

• Changed default scale from 1.35 to 1.06 for complex/multicomplex methods when n=1

• Added richardson_demo to extrapolation.py Simplified EpsAlg class in extrapolation.py

• Corrected a small error for dea3: Now dea3 and Dea(limexp=3) gives the same result!

• Added python 3.8 to appveyor.yml Added python 3.9 to setup.cfg

• Fixed reference to how-to/index

• Added doctest configuration to docs.conf.py

• Fixes issue #50 by adding function value f(x) to the info.f_value.

• Updated README.rst

• Added @UnusedVariable here and there.

• Silence warnings in Hessian by adding __init__ that set the correct order given the method.

• Updated the Richardson._r_matrix method to generate complex matrix when step_ratio is complex.

• Fixed profile_hessian in profile_numdifftools.py so it works again.

• Added with np.errstate(all=’ignore’) to test_derivative_on_sinh and test_scalar_to_vector in test_nd_algopy.py to silence warnings.

• Changed citation style to alpha.

• Replaced bibliography.rst with refs1.bib and zreferences.rst

• Removed badges for latex

• Changed sonar addon token

• Added CC_TEST_REPORTER_ID

• Fixed a typo in docs/numdifftools.rst

• Added docs/make.bat

• Removed python 2.7 from .travis.yml

• Moved test_requires from setup.cfg to setup.py

• Added Latex to setup.py

• Changed default radius to 0.0059 which appears to cause less failures in Taylor in fornberg.py.

• Updated MANIFEST.in

• Fixes issue #49 : Dimension of Jacobian of vector valued function (length n) with scalar input should be n X 1

• Updated build_package.py

• Attempt to silence divide by zero and invalid warnings.

• Fix issue#52: Gradient tries to apply squeeze to the output tuple containing both the result and the full_output object.

• Made docstring a rawdocstring since it contains slashes.

• Added “# pylint: disable=unused-argument” in appropriate places.

• API change: replaced “python setup.py doctests” with “python setup.py doctest”

• Removed unused imports

• Fixed a bug in test_low_order_derivative_on_example_functions: Same variable (i) was used both in the outer and inner loop.

• Updated badge for pypi and documentation of fornberg.py

• Fixed failing tests.

• Updated docs + added a test

• Added “python -m pip install –upgrade pytest” to appveyor.yml due to a package conflict on python2.7 32 bit

• Added - “python -m pip install –upgrade setuptools” in appveyor.yml to avoid build error.

• Try “python setup.py bdist_wheel” and “pip install numdifftools –find-links=dist” in appveyor.yml

• Put qoutes on “python -m pip install –upgrade pip” in appveyor.yml

• Changed “python setup.py install” to

  • python setup.py bdist_wheel”

  • pip install numdifftools –find-links=dist

• Added “pip install –upgrade pip” to appveyor.yml

• Updated the detailed package documentation.

• Added missing pytest-pep8 to install

• Updated badge + appveyor.yml

• ongoing work to harmonize the the output from approx_fprime and approx_fprime_cs

• Added Taylor class to nd_algopy.py Fixed a bug in _get_best_taylor_coefficient in fornberg.py

• Updated references Added test_mod_c function to test_multicomplex.py

• Fixed a typo.

• Removed –strict-markers

• Fixed issue #39 TypeError: unsupported operand type(s) for /: ‘float’ and ‘Bicomplex’

• Fixed a typo in the documentation. Closing issue #51

• Added separate test for nd_scipy.

• added skip on tests if LineProfiler is not installed.

• Removed obsolete centered argument from call to approx_hess1 + pep8

• Move Jacobian._increment method to _JacobianDifferenceFunctions

• step_nom was unused in CStepGenerator.__init__ Added pytest.markers.slow in to setup.cfg

• Made two tests more forgiving in order to avoid failure on travis.

• Renamed nominal_step and base_step to get_nominal_step and get_base_step, respectively.

• Removed obsolete import of example from hypothesis

• Updated testing

• Updated coverage call: coverage run -m py.test src/numdifftools/tests

• Delete obsolete conftest.py

Version 0.9.39 Jun 10, 2019

Robert Parini (1):

• Fix issue #43: numpy future warning

Version 0.9.38 Jun 10, 2019

Andrew Nelson (1):

• MAINT: special.factorial instead of misc.factorial

Dougal J. Sutherland (1):

• include LICENSE.txt in distributions

Per A Brodtkorb (140):

• Adjusted runtime for hypothesis tests to avoid failure and fixed pep8 failures.

• Fixed a bug in setup.cfg

• Replaced valarray function with numpy.full in step_generators.py

• Added try except on import of algopy

• Updated the badges used in the README.rst

• Replaced numpy.testing.Tester with pytest.

• Removed dependence on pyscaffold.

• Simplified setup.py and setup.cfg

• Updated .travis.yml configuration.

• Reorganized the documentation.

• Ongoing work to simplify the classes.

• Replaced unittest with pytest.

• Added finite_difference.py

• replaced , with .

• Reverted to coverage=4.3.4

• New attempt

• Fixed conflicting import

• Missing import of EPS

• Added missing FD_RULES = {}

• Removed pinned coverage, removed dependence on pyscaffold

• Updated .travis.yml and .appveyor.yml

• Replaced conda channel omnia with conda-forge

• Removed commented out code. Set pyqt=5 in appveyor.yml

• Updated codeclimate checks

• Dropped support for python 3.3 and 3.4. Added support for python 3.6, 3.7

• Simplified code.

• Pinned IPython==5.0 in order to make the testserver not crash.

• Added line_profiler to appveyor.yml

• Removed line_profiler from requirements.txt

• Fix issue #37: Unable to install on Python 2.7

• Added method=’backward’ to nd_statsmodels.py

• Skip test_profile_numdifftools_profile_hessian and TestDoProfile

• Added missing import of warnings

• Added tests for the scripts from profile_numdifftools.py, _find_default_scale.py and run_benchmark.py.

• Added reason to unittest.skipIf

• Added line_profiler to requirements.

• misssing import of warnings fixed.

• Renamed test so it comes last, because I suspect this test mess up the coverage stats.

• Reordered the tests.

• Added more tests.

• Cleaned up _find_default_scale.py

• Removed link to depsy

• Reverted: install of cython and pip install setuptools

• Disabled sonar-scanner -X for python 3.5 because it crashes.

• Reverted [options.packages.find] to exclude tests again

• Added cython and reverted to pip install setuptools

• Updated sphinx to 1.6.7

• Try to install setuptools with conda instead.

• Added hypothesis and pytest to requirements.readthedocs.txt

• Set version of setuptools==37.0

• Added algopy, statsmodels and numpy to requirements.readthedocs.txt

• Restricted sphinx in the hope that the docs will be generated.

• Removed exclusion of tests/ directory from test coverage.

• Added dependencies into setup.cfg

• Readded six as dependency

• Refactored and removed commented out code.

• Fixed a bug in the docstring example: Made sure the shape passed on to zeros is an integer.

• Fixed c_abs so it works with algopy on python 3.6.

• Fixed flaky test and made it more robust.

• Fixed bug in .travis.yml

• Refactored the taylor function into the Taylor class in order to simplify the code.

• Fixed issue #35 and added tests

• Attempt to simplify complexity

• Made doctests more robust

• Updated project path

• Changed install of algopy

• Fixed small bugs

• Updated docstrings

• Changed Example and Reference to Examples and References in docstrings to comply with numpydoc-style.

• Renamed CHANGES.rst to CHANGELOG.rst

• Renamed source path

• Hack due to a bug in algopy or changed behaviour.

• Small fix.

• Try to reduce complexity

• Reduced cognitive complexity of min_num_steps

• Simplified code in Jacobian

• Merge branch ‘master’ of https://github.com/pbrod/numdifftools

• Fixed issue #34 Licence clarification.

• Locked coverage=4.3.4 due to a bug in coverage that cause code-climate test-reporter to fail.

• Added script for finding default scale

• updated from sonarcube to sonarcloud

• Made sure shape is an integer.

• Refactored make_step_generator into a step property

• Issue warning message to the user when setting the order to something different than 1 or 2 in Hessian.

• Updated example in Gradient.

• Reverted –timid option to coverage because it took too long time to run.

• Reverted –pep8 option

• pep8 + added –timid in .travis.yml coverage run in order to to increase missed coverage.

• Refactored taylor to reduce complexity

• No support for python 3.3. Added python 3.6

• Fixed a small bug and updated test.

• Removed unneccasarry perenthesis. Reduced the complexity of do_profile

• Made python3 compatible

• Removed assert False

• Made unittests more forgiving.

• updated doctest in nd_scipy.py and profiletools.py install line_profiler on travis

• Made python 3 compatible

• Updated tests

• Added test_profiletools.py and capture_stdout_and_stderr in testing.py

• Optimized numdifftools.core.py for speed: fd_rules are now only computed once.

• Only keeping html docs in the distribution.

• Added doctest and updated .pylintrc and requirements.txt

• Reduced time footprint on tests in the hope that it will pass on Travis CI.

• Prefer static methods over instance methods

• Better memory handling: This fixes issue #27

• Added statsmodels to requirements.txt

• Added nd_statsmodels.py

• Simplified input

• Merge branch ‘master’ of https://github.com/pbrod/numdifftools

• Updated link to the documentation.

Robert Parini (4):

• Avoid RuntimeWarning in _get_logn

• Allow fd_derivative to take complex valued functions

solarjoe (1):

• doc: added nd.directionaldiff example

Version 0.9.20, Jan 11, 2017

Per A Brodtkorb (1):

• Updated the author email address in order for twine to be able to upload to pypi.

Version 0.9.19, Jan 11, 2017

Per A Brodtkorb (1):

• Updated setup.py in a attempt to get upload to pypi working again.

Version 0.9.18, Jan 11, 2017

Per A Brodtkorb (38):

• Updated setup

• Added import statements in help header examples.

• Added more rigorous tests using hypothesis.

• Forced to use wxagg backend

• Moved import of matplotlib.pyplot to main in order to avoid import error on travis.

• Added fd_derivative function

• Updated references.

• Attempt to automate sonarcube analysis

• Added testcoverage to sonarqube and codeclimate

• Simplified code

• Added .pylintrc + pep8

• Major change in api: class member variable self.f changed to self.fun

• Fixes issue #25 (Jacobian broken since 0.9.15)

Version 0.9.17, Sep 8, 2016

Andrew Fowlie (1):

• Fix ReadTheDocs link as mentioned in #21

Per A Brodtkorb (79):

• Added test for MinMaxStepgenerator

• Removed obsolete docs from core.py

• Updated appveyor.yml

• Fixed sign in inverse matrix

• Simplified code

• Added appveyor badge + synchronised info.py with README.rst.

• Removed plot in help header

• Added Programming Language :: Python :: 3.5

• Simplified code

• Renamed bicomplex to Bicomplex

• Simplified example_functions.py

• Moved MinStepGenerator, MaxStepGeneretor and MinMaxStepGenerator to step_generators.py

  • Unified the step generators

  • Moved step_generator tests to test_step_generators.py

  • Major simplification of step_generators.py

• Removed duplicated code + pep8

• Moved fornberg_weights to fornberg.py + added taylor and derivative

• Fixed print statement

• Replace xrange with range

• Added examples + made computation more robust.

• Made ‘backward’ and alias for ‘reverse’ in nd_algopy.py

• Expanded the tests + added test_docstrings to testing.py

• Replace string interpolation with format()

• Removed obsolete parameter

• Smaller start radius for Fornberg method

• Simplified “n” and “order” properties

• Simplified default_scale

• Removed unecessary parenthesis and code.

• Fixed a bug in Dea + small refactorings.

• Added test for EpsAlg

• Avoid mutable default args and prefer static methods over instance-meth.

• Refactored to reduce cyclomatic complexity

• Changed some instance methods to static methods

• Renamed non-pythonic variable names

• Turned on xvfb (X Virtual Framebuffer) to imitate a display.

• Added extra test for Jacobian

• Replace lambda function with a def

• Removed unused import

• Added test for epsalg

• Fixed test_scalar_to_vector

• Updated test_docstrings

Version 0.9.15, May 10, 2016

Cody (2):

• Migrated % string formating

• Migrated % string formating

Per A Brodtkorb (28):

• Updated README.rst + setup.cfg

• Replaced instance methods with static methods +pep8

• Merge branch ‘master’ of https://github.com/pbrod/numdifftools

• Fixed a bug: replaced missing triple quote

• Added depsy badge

• added .checkignore for quantificode

• Added .codeclimate.yml

• Fixed failing tests

• Changed instance methods to static methods

• Made untyped exception handlers specific

• Replaced local function with a static method

• Simplified tests

• Removed duplicated code Simplified _Derivative._get_function_name

• exclude tests from testclimate

• Renamed test_functions.py to example_functions.py Added test_example_functions.py

Per A. Brodtkorb (2):

• Merge pull request #17 from pbrod/autofix/wrapped2_to3_fix

• Merge pull request #18 from pbrod/autofix/wrapped2_to3_fix-0

pbrod (17):

• updated conf.py

• added numpydoc>=0.5, sphinx_rtd_theme>=0.1.7 to setup_requires if sphinx

• updated setup.py

• added requirements.readthedocs.txt

• Updated README.rst with info about how to install it using conda in an anaconda package.

• updated conda install description

• Fixed number of arguments so it does not differs from overridden ‘_default_base_step’ method

• Added codecov to .travis.yml

• Attempt to remove coverage of test-files

• Added directionaldiff function in order to calculate directional derivatives. Fixes issue #16. Also added supporting tests and examples to the documentation.

• Fixed isssue #19 multiple observations mishandled in Jacobian

• Moved rosen function into numdifftools.testing.py

• updated import of rosen function from numdifftools.testing

• Simplified code + pep8 + added TestResidue

• Updated readme.rst and replaced string interpolation with format()

• Cleaned Dea class + pep8

• Updated references for Wynn extrapolation method.

Version 0.9.14, November 10, 2015

pbrod (53):

• Updated documentation of setup.py

• Updated README.rst

• updated version

• Added more documentation

• Updated example

• Added .landscape.yml updated .coveragerc, .travis.yml

• Added coverageall to README.rst.

• updated docs/index.rst

• Removed unused code and added tests/test_extrapolation.py

• updated tests

• Added more tests

• Readded c_abs c_atan2

• Removed dependence on wheel, numpydoc>=0.5 and sphinx_rtd_theme>=0.1.7 (only needed for building documentation)

• updated conda path in .travis.yml

• added omnia channel to .travis.yml

• Added conda_recipe files Filtered out warnings in limits.py

Version 0.9.13, October 30, 2015

pbrod (21):

• Updated README.rst and CHANGES.rst.

• updated Limits.

• Made it possible to differentiate complex functions and allow zero’th order derivative.

• BUG: added missing derivative order, n to Gradient, Hessian, Jacobian.

• Made test more robust.

• Updated structure in setup according to pyscaffold version 2.4.2.

• Updated setup.cfg and deleted duplicate tests folder.

• removed unused code.

• Added appveyor.yml.

• Added required appveyor install scripts

• Fixed bug in appveyor.yml.

• added wheel to requirements.txt.

• updated appveyor.yml.

• Removed import matplotlib.

Justin Lecher (1):

• Fix min version for numpy.

kikocorreoso (1):

• fix some prints on run_benchmark.py to make it work with py3

Version 0.9.12, August 28, 2015

pbrod (12):

• Updated documentation.

• Updated version in conf.py.

• Updated CHANGES.rst.

• Reimplemented outlier detection and made it more robust.

• Added limits.py with tests.

• Updated main tests folder.

• Moved Richardson and dea3 to extrapolation.py.

• Making a new release in order to upload to pypi.

Version 0.9.11, August 27, 2015

pbrod (2):

• Fixed sphinx-build and updated docs.

• Fixed issue #9 Backward differentiation method fails with additional parameters.

Version 0.9.10, August 26, 2015

pbrod (7):

• Fixed sphinx-build and updated docs.

• Added more tests to nd_algopy.

• Dropped support for Python 2.6.

Version 0.9.4, August 26, 2015

pbrod (7):

• Fixed sphinx-build and updated docs.

Version 0.9.3, August 23, 2015

Paul Kienzle (1):

• more useful benchmark plots.

pbrod (7):

• Fixed bugs and updated docs.

• Major rewrite of the easy to use interface to Algopy.

• Added possibility to calculate n’th order derivative not just for n=1 in nd_algopy.

• Added tests to the easy to use interface to algopy.

Version 0.9.2, August 20, 2015

pbrod (3):

• Updated documentation

• Added parenthesis to a call to the print function

• Made the test less strict in order to pass the tests on Travis for python 2.6 and 3.2.

Version 0.9.1, August 20,2015

Christoph Deil (1):

• Fix Sphinx build

pbrod (47):

• Total remake of numdifftools with slightly different call syntax.

  • Can compute derivatives of order up to 10-14 depending on function and method used.

  • Updated documentation and tests accordingly.

  • Fixed a bug in dea3.

  • Added StepsGenerator as an replacement for the adaptive option.

  • Added bicomplex class for testing the complex step second derivative.

  • Added fornberg_weights_all for computing optimal finite difference rules in a stable way.

  • Added higher order complex step derivative methods.

Version 0.7.7, December 18, 2014

pbrod (35):

• Got travis-ci working in order to run the tests automatically.

• Fixed bugs in Dea class.

• Fixed better error estimate for the Hessian.

• Fixed tests for python 2.6.

• Adding tests as subpackage.

• Restructerd folders of numdifftools.

Version 0.7.3, December 17, 2014

pbrod (5):

• Small cosmetic fixes.

• pep8 + some refactorings.

• Simplified code by refactoring.

Version 0.6.0, February 8, 2014

pbrod (20):

• Update and rename README.md to README.rst.

• Simplified call to Derivative: removed step_fix.

• Deleted unused code.

• Simplified and Refactored. Now possible to choose step_num=1.

• Changed default step_nom from max(abs(x0), 0.2) to max(log2(abs(x0)), 0.2).

• pep8ified code and made sure that all tests pass.

Version 0.5.0, January 10, 2014

pbrod (9):

• Updated the examples in Gradient class and in info.py.

• Added test for vec2mat and docstrings + cosmetic fixes.

• Refactored code into private methods.

• Fixed issue #7: Derivative(fun)(numpy.ones((10,5)) * 2) failed.

• Made print statements compatible with python 3.

Version 0.4.0, May 5, 2012

pbrod (1)

• Fixed a bug for inf and nan values.

Version 0.3.5, May 19, 2011

pbrod (1)

• Fixed a bug for inf and nan values.

Version 0.3.4, Feb 24, 2011

pbrod (11)

• Made automatic choice for the stepsize more robust.

• Added easy to use interface to the algopy and scientificpython modules.

Version 0.3.1, May 20, 2009

pbrod (4)

• First version of numdifftools published on google.code