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Release v1.0.1 #38

Merged
merged 50 commits into from
Dec 16, 2024
Merged

Release v1.0.1 #38

merged 50 commits into from
Dec 16, 2024

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dmartmillan
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@dmartmillan dmartmillan commented Nov 24, 2024

Release v1.0.1, with:

  • Fixed Python (3.12 - 3.13) incompatibilities Openvariant | Failing with Python 3.13 #28
  • Fixed some security vulnerabilities on outdated packages.
  • Added ISSUE_TEMPLATES.
  • Added CodeQL (code scanning) on GitHub repository.

Before approve PR and merge, we should:

  • Add changes to release_notes section on Documentation.
  • Add reference of the paper on the Documentation.
  • Create a tag for v1.0.1.
  • Upload the new version on PyPI.
  • Add CITATION.cff

David MARTINEZ MILLAN and others added 30 commits November 15, 2024 19:12
Bumps [idna](https://github.com/kjd/idna) from 3.3 to 3.7.
- [Release notes](https://github.com/kjd/idna/releases)
- [Changelog](https://github.com/kjd/idna/blob/master/HISTORY.rst)
- [Commits](kjd/idna@v3.3...v3.7)

---
updated-dependencies:
- dependency-name: idna
  dependency-type: direct:production
...

Signed-off-by: dependabot[bot] <[email protected]>
Bumps [tqdm](https://github.com/tqdm/tqdm) from 4.64.0 to 4.66.3.
- [Release notes](https://github.com/tqdm/tqdm/releases)
- [Commits](tqdm/tqdm@v4.64.0...v4.66.3)

---
updated-dependencies:
- dependency-name: tqdm
  dependency-type: direct:production
...

Signed-off-by: dependabot[bot] <[email protected]>
Bumps [tornado](https://github.com/tornadoweb/tornado) from 6.2 to 6.4.1.
- [Changelog](https://github.com/tornadoweb/tornado/blob/master/docs/releases.rst)
- [Commits](tornadoweb/tornado@v6.2.0...v6.4.1)

---
updated-dependencies:
- dependency-name: tornado
  dependency-type: direct:production
...

Signed-off-by: dependabot[bot] <[email protected]>
Bumps [jinja2](https://github.com/pallets/jinja) from 3.1.2 to 3.1.4.
- [Release notes](https://github.com/pallets/jinja/releases)
- [Changelog](https://github.com/pallets/jinja/blob/main/CHANGES.rst)
- [Commits](pallets/jinja@3.1.2...3.1.4)

---
updated-dependencies:
- dependency-name: jinja2
  dependency-type: direct:production
...

Signed-off-by: dependabot[bot] <[email protected]>
Bumps [requests](https://github.com/psf/requests) from 2.28.1 to 2.32.2.
- [Release notes](https://github.com/psf/requests/releases)
- [Changelog](https://github.com/psf/requests/blob/main/HISTORY.md)
- [Commits](psf/requests@v2.28.1...v2.32.2)

---
updated-dependencies:
- dependency-name: requests
  dependency-type: direct:production
...

Signed-off-by: dependabot[bot] <[email protected]>
Bumps [pygments](https://github.com/pygments/pygments) from 2.12.0 to 2.15.0.
- [Release notes](https://github.com/pygments/pygments/releases)
- [Changelog](https://github.com/pygments/pygments/blob/master/CHANGES)
- [Commits](pygments/pygments@2.12.0...2.15.0)

---
updated-dependencies:
- dependency-name: pygments
  dependency-type: direct:production
...

Signed-off-by: dependabot[bot] <[email protected]>
build(deps): bump pygments from 2.12.0 to 2.15.0
build(deps): bump requests from 2.28.1 to 2.32.2
build(deps): bump jinja2 from 3.1.2 to 3.1.4
build(deps): bump tornado from 6.2 to 6.4.1
build(deps): bump tqdm from 4.64.0 to 4.66.3
build(deps): bump idna from 3.3 to 3.7
…n-313

Openvariant | Failing with Python 3.13
Bumps [tornado](https://github.com/tornadoweb/tornado) from 6.2 to 6.4.2.
- [Changelog](https://github.com/tornadoweb/tornado/blob/v6.4.2/docs/releases.rst)
- [Commits](tornadoweb/tornado@v6.2.0...v6.4.2)

---
updated-dependencies:
- dependency-name: tornado
  dependency-type: direct:production
...

Signed-off-by: dependabot[bot] <[email protected]>
build(deps): bump tornado from 6.2 to 6.4.2
@dmartmillan dmartmillan self-assigned this Nov 24, 2024
@FedericaBrando
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FedericaBrando commented Dec 13, 2024

added citation and updated release notes to docs


as of now we use setup.py as a way to package openvariant, should we switch to pyproject.toml - it is now becoming pretty standard in the python community - or should we leave it for another release?

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@FedericaBrando FedericaBrando left a comment

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I was running a linter (ruff) and I found one thing that was not caught by the test - any clue on why is that so?

openvariant/variant/variant.py Show resolved Hide resolved
* add: uv packaging

- update github workflow
- run linter

* fix: F821 Undefined name `AnnotationTypesProcess`

* fix: readthedocs.yaml

* fix: add dep to docs group

* update: fix some issues

* update: license on pyproject.toml

---------

Co-authored-by: David Martínez Millán <[email protected]>
@FedericaBrando FedericaBrando self-requested a review December 16, 2024 13:04
@FedericaBrando FedericaBrando merged commit 84e92d1 into master Dec 16, 2024
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2 participants