Initial commit.

.gitignore

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+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[cod]
+*$py.class
+
+# C extensions
+*.so
+
+# Distribution / packaging
+.Python
+env/
+build/
+develop-eggs/
+dist/
+downloads/
+eggs/
+.eggs/
+lib/
+lib64/
+parts/
+sdist/
+var/
+*.egg-info/
+.installed.cfg
+*.egg
+
+# PyInstaller
+#  Usually these files are written by a python script from a template
+#  before PyInstaller builds the exe, so as to inject date/other infos into it.
+*.manifest
+*.spec
+
+# Installer logs
+pip-log.txt
+pip-delete-this-directory.txt
+
+# Unit test / coverage reports
+htmlcov/
+.tox/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*,cover
+.hypothesis/
+.napari_cache
+
+# Translations
+*.mo
+*.pot
+
+# Django stuff:
+*.log
+local_settings.py
+
+# Flask instance folder
+instance/
+
+# Sphinx documentation
+docs/_build/
+
+# MkDocs documentation
+/site/
+
+# PyBuilder
+target/
+
+# Pycharm and VSCode
+.idea/
+venv/
+.vscode/
+
+# IPython Notebook
+.ipynb_checkpoints
+
+# pyenv
+.python-version
+
+# OS
+.DS_Store
+
+# written by setuptools_scm
+**/_version.py
+
+# scratchpad
+scratchpad/

.pre-commit-config.yaml

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+repos:
+  - repo: https://github.com/pre-commit/pre-commit-hooks
+    rev: v4.4.0
+    hooks:
+      - id: check-docstring-first
+      - id: end-of-file-fixer
+      - id: trailing-whitespace
+  - repo: https://github.com/asottile/setup-cfg-fmt
+    rev: v2.2.0
+    hooks:
+      - id: setup-cfg-fmt
+  - repo: https://github.com/PyCQA/flake8
+    rev: 6.0.0
+    hooks:
+      - id: flake8
+        args: ["--ignore=E501,W503,E203", ]
+        additional_dependencies: [flake8-typing-imports==1.14.0,
+        flake8-black==0.3.6]
+  - repo: https://github.com/myint/autoflake
+    rev: v2.0.0
+    hooks:
+      - id: autoflake
+        args: ["--in-place", "--remove-all-unused-imports"]
+  - repo: https://github.com/PyCQA/isort
+    rev: 5.12.0
+    hooks:
+      - id: isort
+        args: ["--profile", "black"]
+  - repo: https://github.com/psf/black
+    rev: 23.1.0
+    hooks:
+      - id: black
+  - repo: https://github.com/asottile/pyupgrade
+    rev: v3.3.1
+    hooks:
+      - id: pyupgrade
+        args: [--py39-plus, --keep-runtime-typing]

LICENSE

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+Copyright (c) 2023, Friedrich Miescher Institute for Biomedical Research
+All rights reserved.
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+* Redistributions of source code must retain the above copyright notice, this
+  list of conditions and the following disclaimer.
+
+* Redistributions in binary form must reproduce the above copyright notice,
+  this list of conditions and the following disclaimer in the documentation
+  and/or other materials provided with the distribution.
+
+* Neither the name of prefect-faim-hcs nor the names of its
+  contributors may be used to endorse or promote products derived from
+  this software without specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

MANIFEST.in

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+include LICENSE
+include README.md
+include requirements.txt
+
+recursive-exclude * __pycache__
+recursive-exclude * *.py[co]
+recursive-exclude tests *
+recursive-exclude scratchpad *
+recursive-exclude resources *
+recursive-exclude examples *

README.md

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+# Prefect-FAIM-HCS
+
+Prefect flows for faim-hcs functionality.

environment.yaml

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+name: faim-hcs
+dependencies:
+  - python==3.9
+  - conda-forge::mobie_utils==0.4.2
+  - pip
+  - pip:
+      - prefect
+      - git+https://github.com/fmi-faim/[email protected]
+      - git+https://github.com/fmi-faim/[email protected]

pyproject.toml

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+[build-system]
+requires = [
+    "setuptools>=42",
+    "wheel",
+    "setuptools_scm"
+]
+build-backend = "setuptools.build_meta"
+
+[tool.setuptools_scm]
+write_to = "src/prefect_faim_hcs/_version.py"

setup.cfg

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+[metadata]
+name = prefect_faim_hcs
+description = Prefect flows for HCS processing.
+long_description = file: README.md
+long_description_content_type = text/markdown
+url = https://github.com/fmi-faim/prefect-faim-hcs.git
+author = Tim-Oliver Buchholz, Jan Eglinger
+author_email = [email protected], [email protected]
+license = BSD-3-Clause
+license_file = LICENSE
+classifiers =
+    Development Status :: 3 - Alpha
+    Intended Audience :: Developers
+    License :: OSI Approved :: BSD License
+    Operating System :: OS Independent
+    Programming Language :: Python
+    Programming Language :: Python :: 3
+    Programming Language :: Python :: 3 :: Only
+    Topic :: Software Development :: Testing
+project_urls =
+    Bug Tracker = https://github.com/fmi-faim/prefect-faim-hcs/issues
+    Documentation = https://github.com/fmi-faim/prefect-faim-hcs#README.md
+    Source Code = https://github.com/fmi-faim/prefect-faim-hcs
+    User Support = https://github.com/fmi-faim/prefect-faim-hcs/issues
+
+[options]
+packages = find:
+install_requires =
+    cpr@git+https://github.com/fmi-faim/custom-prefect-result
+    faim-hcs@git+https://github.com/fmi-faim/faim-hcs
+    prefect
+python_requires = >=3.9
+package_dir =
+    = src
+setup_requires =
+    setuptools-scm
+
+[options.packages.find]
+where = src