Phenotyping

[Thomzoy]

Description

Checklist

• [ ] If this PR is a bug fix, the bug is documented in the test suite.
• [ ] Changes were documented in the changelog (pending section).
• [ ] If necessary, changes were made to the documentation (eg new pipeline).

[codecov-commenter]

Codecov Report

Patch coverage: 21.25% and project coverage change: -8.45 :warning:

Comparison is base (bbab536) 91.89% compared to head (ce62741) 83.44%.

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Additional details and impacted files

```diff @@ Coverage Diff @@ ## main #38 +/- ## ========================================== - Coverage 91.89% 83.44% -8.45% ========================================== Files 67 80 +13 Lines 2146 2416 +270 ========================================== + Hits 1972 2016 +44 - Misses 174 400 +226 ``` | [Impacted Files](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp) | Coverage Δ | | |---|---|---| | [eds\_scikit/io/settings.py](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp#diff-ZWRzX3NjaWtpdC9pby9zZXR0aW5ncy5weQ==) | `100.00% <ø> (ø)` | | | [eds\_scikit/phenotype/\_\_init\_\_.py](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp#diff-ZWRzX3NjaWtpdC9waGVub3R5cGUvX19pbml0X18ucHk=) | `0.00% <0.00%> (ø)` | | | [eds\_scikit/phenotype/base.py](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp#diff-ZWRzX3NjaWtpdC9waGVub3R5cGUvYmFzZS5weQ==) | `0.00% <0.00%> (ø)` | | | [eds\_scikit/phenotype/cancer/\_\_init\_\_.py](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp#diff-ZWRzX3NjaWtpdC9waGVub3R5cGUvY2FuY2VyL19faW5pdF9fLnB5) | `0.00% <0.00%> (ø)` | | | [eds\_scikit/phenotype/cancer/cancer.py](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp#diff-ZWRzX3NjaWtpdC9waGVub3R5cGUvY2FuY2VyL2NhbmNlci5weQ==) | `0.00% <0.00%> (ø)` | | | [eds\_scikit/phenotype/diabetes/\_\_init\_\_.py](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp#diff-ZWRzX3NjaWtpdC9waGVub3R5cGUvZGlhYmV0ZXMvX19pbml0X18ucHk=) | `0.00% <0.00%> (ø)` | | | [eds\_scikit/phenotype/diabetes/diabetes.py](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp#diff-ZWRzX3NjaWtpdC9waGVub3R5cGUvZGlhYmV0ZXMvZGlhYmV0ZXMucHk=) | `0.00% <0.00%> (ø)` | | | [...\_scikit/phenotype/psychiatric\_disorder/\_\_init\_\_.py](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp#diff-ZWRzX3NjaWtpdC9waGVub3R5cGUvcHN5Y2hpYXRyaWNfZGlzb3JkZXIvX19pbml0X18ucHk=) | `0.00% <0.00%> (ø)` | | | [...otype/psychiatric\_disorder/psychiatric\_disorder.py](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp#diff-ZWRzX3NjaWtpdC9waGVub3R5cGUvcHN5Y2hpYXRyaWNfZGlzb3JkZXIvcHN5Y2hpYXRyaWNfZGlzb3JkZXIucHk=) | `0.00% <0.00%> (ø)` | | | [eds\_scikit/phenotype/suicide\_attempt/\_\_init\_\_.py](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp#diff-ZWRzX3NjaWtpdC9waGVub3R5cGUvc3VpY2lkZV9hdHRlbXB0L19faW5pdF9fLnB5) | `0.00% <0.00%> (ø)` | | | ... and [15 more](https://codecov.io/gh/aphp/eds-scikit/pull/38?src=pr&el=tree-more&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp) | | Help us with your feedback. Take ten seconds to tell us [how you rate us](https://about.codecov.io/nps?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp). Have a feature suggestion? [Share it here.](https://app.codecov.io/gh/feedback/?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=aphp)

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[Vincent-Maladiere]

Hi @Thomzoy, could you please chunk this PR into smaller ones? A PR should only address a specific issue or feature at the time.