Mypy type checking (#443)

* Mypy type checking

* Optimize CI

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* Fixing some more type hints

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* more fixes for cmd

* fix ruff

* fix test

* fix tests again

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* fix ssh port

* Use get_transport()

* fixes for remote

* fixed type hints

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* Format black

* final mypy fixes

* fix type for _ssh_proxy_connection

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* add get_transport() function

* extend validate coverage

* fix missing line in torque

* fix moab test

* more remote tests

* Add test without working directory

* another remote test

* extend commandline test

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Co-authored-by: pyiron-runner <pyiron@mpie.de>

Bump pandas from 2.3.0 to 2.3.1 (#426)

* Bump pandas from 2.3.0 to 2.3.1

Bumps [pandas](https://github.com/pandas-dev/pandas) from 2.3.0 to 2.3.1.
- [Release notes](https://github.com/pandas-dev/pandas/releases)
- [Commits](pandas-dev/pandas@v2.3.0...v2.3.1)

---
updated-dependencies:
- dependency-name: pandas
  dependency-version: 2.3.1
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>

* [dependabot skip] Update environment

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Co-authored-by: pyironrunner <pyiron@mpie.de>

pandas 2.3.0 (#420)

* Update pyproject.toml

* Update environment.yml

* Update environment.yml

* Update environment-docs.yml

Transition from setuptools to hatchling (#410)

* Transition from setuptools to hatchling

* Format black

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Co-authored-by: pyiron-runner <pyiron@mpie.de>

Bump jinja2 from 3.1.5 to 3.1.6 (#392)

* Bump jinja2 from 3.1.5 to 3.1.6

Bumps [jinja2](https://github.com/pallets/jinja) from 3.1.5 to 3.1.6.
- [Release notes](https://github.com/pallets/jinja/releases)
- [Changelog](https://github.com/pallets/jinja/blob/main/CHANGES.rst)
- [Commits](pallets/jinja@3.1.5...3.1.6)

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

Signed-off-by: dependabot[bot] <support@github.com>

* [dependabot skip] Update environment

---------

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Co-authored-by: pyironrunner <pyiron@mpie.de>

[pre-commit.ci] pre-commit autoupdate (#374)

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.8.3 → v0.8.4](astral-sh/ruff-pre-commit@v0.8.3...v0.8.4)

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>