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Version 3.6 #447

Merged
merged 14 commits into from
Aug 17, 2022
Merged

Version 3.6 #447

merged 14 commits into from
Aug 17, 2022

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sepandhaghighi
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@sepandhaghighi sepandhaghighi commented Aug 13, 2022

Reference Issues/PRs

#349
#350
close #402

What does this implement/fix? Explain your changes.

Version 3.6

Acknowledgement

This version has been funded by the NLnet foundation.

sepandhaghighi and others added 11 commits May 25, 2022 18:26
* fix : website address changed

* fix : website address changed

* fix : website address changed

* doc : CHANGELOG updated

* doc : Document and examples updated

* fix : website address changed

* fix : minor edit in setup.py #437
Bumps [numpy](https://github.com/numpy/numpy) from 1.22.3 to 1.22.4.
- [Release notes](https://github.com/numpy/numpy/releases)
- [Changelog](https://github.com/numpy/numpy/blob/main/doc/HOWTO_RELEASE.rst.txt)
- [Commits](numpy/numpy@v1.22.3...v1.22.4)

---
updated-dependencies:
- dependency-name: numpy
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <[email protected]>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
* add : __obj_array_handler__ function added.

* edit : `matrix` is now accepting arrays.

* add : pycmArrayError added.

* test : tests added.

* log : changes logged. (#402)

* edit : minor edits.

* edit : pycmArrayError removed.

* test : tests added.

* add : transpose flag added to __obj_array_handler__.

* add : documents added.

* edit : minor edits in vector_check.

* update : documents updated.

* update : Document.ipynb updated.

* edit : tests edited.

* add : `classes` parameter added to `matrix_params_from_table`.

* log : changes logged.

* remove : class lenght check relocated to `matrix_params_from_table`.

* add : class and array len check added.

* add : classes subset check added.

* fix : trailing whitespaces in tests fixed.

* edit : table -> matrix.

* edit : __obj_matrix_handler__ arguments reordered.

* fix : minor typo in __init__ fixed.

* add : tests for numpy added.

* fix : typo fixed.

* remove : extra sections removed.

* edit : numpy.int64 -> numpy.integer.

* edit : `transpose` -> `self.transpose`.

* fix : typo fixed.

* edit : minor computational improvements in `matrix_params_from_table`.

* add : `classes` docstring added to `__obj_matrix_handler__`.

* edit : `CLASSES_LENGHT_ERROR` edited.

* update : CHANGELOG.md updated.
Bumps [numpy](https://github.com/numpy/numpy) from 1.22.4 to 1.23.0.
- [Release notes](https://github.com/numpy/numpy/releases)
- [Changelog](https://github.com/numpy/numpy/blob/main/doc/HOWTO_RELEASE.rst)
- [Commits](numpy/numpy@v1.22.4...v1.23.0)

---
updated-dependencies:
- dependency-name: numpy
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <[email protected]>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Bumps [numpy](https://github.com/numpy/numpy) from 1.23.0 to 1.23.1.
- [Release notes](https://github.com/numpy/numpy/releases)
- [Changelog](https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst)
- [Commits](numpy/numpy@v1.23.0...v1.23.1)

---
updated-dependencies:
- dependency-name: numpy
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <[email protected]>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Bumps [art](https://github.com/sepandhaghighi/art) from 5.6 to 5.7.
- [Release notes](https://github.com/sepandhaghighi/art/releases)
- [Changelog](https://github.com/sepandhaghighi/art/blob/master/CHANGELOG.md)
- [Commits](sepandhaghighi/art@v5.6...v5.7)

---
updated-dependencies:
- dependency-name: art
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <[email protected]>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
* feat : hamming distance added to class statistics

* fix : verified tests added

* fix : tests updated

* doc : Document updated

* doc : CHANGELOG updated

* fix : autopep8

* doc : references format updated

* doc : minor edit in references ids
* feat : Braun-Blanquet-similarity added #349

* fix : BB verified test added #349

* fix : tests updated #349

* fix : minor bug in BB verified tests fixed

* doc : Document updated #349

* doc : minor edit in Document #349

* fix : autopep8

* doc : CHANGELOG updated

* doc : new reference added

* doc : references format updated

* doc : minor edit in BB reference #444
* doc : README.md summarized

* doc : CHANGELOG updated

* doc : minor edit in README
* doc : toc tags added to Document

* doc : toc meta added to Document

* doc : doc_to_html script added

* doc : minor edit in toc skip tag

* doc : doc_run script added

* fix : minor edit in doc_to_html script

* fix : doc_to_html script updated

* fix : doc_run script moved to Otherfiles folder

* fix : doc_run script updated

* fix : doc_to_html script updated

* fix : doc_run script updated

* fix : doc_run script updated
@codecov-commenter
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codecov-commenter commented Aug 13, 2022

Codecov Report

Merging #447 (c620613) into master (5045b64) will increase coverage by 0.01%.
The diff coverage is 100.00%.

@@            Coverage Diff             @@
##           master     #447      +/-   ##
==========================================
+ Coverage   99.26%   99.27%   +0.01%     
==========================================
  Files          11       11              
  Lines        2404     2434      +30     
  Branches      388      396       +8     
==========================================
+ Hits         2386     2416      +30     
  Misses          6        6              
  Partials       12       12              
Impacted Files Coverage Δ
pycm/pycm_class_func.py 100.00% <100.00%> (ø)
pycm/pycm_handler.py 100.00% <100.00%> (ø)
pycm/pycm_obj.py 98.62% <100.00%> (ø)
pycm/pycm_output.py 96.20% <100.00%> (ø)
pycm/pycm_param.py 100.00% <100.00%> (ø)
pycm/pycm_util.py 99.67% <100.00%> (+0.01%) ⬆️

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@sepandhaghighi
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@alirezazolanvari @sadrasabouri Hi folks
Please complete this review until Wednesday - 2022-08-17 - 11:59 AM GMT+3:30
Notice: Only review, don't need to merge

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@sadrasabouri sadrasabouri left a comment

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Ready to go 🚀.

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@alirezazolanvari alirezazolanvari left a comment

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LGTM!

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@sadrasabouri sadrasabouri left a comment

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LGTM 👍

@sepandhaghighi sepandhaghighi merged commit 3d17e47 into master Aug 17, 2022
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