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pyproject.toml
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pyproject.toml
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[build-system]
requires = ["setuptools >= 61.0"]
build-backend = "setuptools.build_meta"
[tool.setuptools.packages.find]
include = ["bfabric*"]
[project]
name = "bfabric"
description = "Python client for the B-Fabric WSDL API"
version = "1.13.6"
license = { text = "GPL-3.0" }
authors = [
{name = "Christian Panse", email = "cp@fgcz.ethz.ch"},
{name = "Leonardo Schwarz", email = "leonardo.schwarz@fgcz.ethz.ch"},
{name = "Aleksejs Fomins"},
{name = "Marco Schmidt"},
{name = "Maria d'Errico"},
{name = "Witold Eryk Wolski"}
]
requires-python = ">=3.9"
dependencies = [
"suds >= 1.1.2",
"PyYAML >= 6.0",
"Flask >= 3.0.3",
"rich >= 13.7.1",
"zeep >= 4.2.1",
"polars-lts-cpu >= 0.20.25",
"loguru>=0.7",
"setuptools",
"pydantic",
"eval_type_backport; python_version < '3.10'",
"python-dateutil >= 2.9.0",
]
[project.optional-dependencies]
dev = [
"black",
"isort",
"ruff",
"licensecheck",
"pytest",
"pytest-mock",
"logot",
"nox",
"uv",
"mkdocs",
"mkdocs-material",
"mkdocstrings[python]",
]
[project.urls]
Homepage = "https://github.com/fgcz/bfabricPy"
Repository = "https://github.com/fgcz/bfabricPy"
[project.scripts]
"bfabric_flask.py"="bfabric.scripts.bfabric_flask:main"
#bfabric_feeder_resource_autoQC="bfabric.scripts.bfabric_feeder_resource_autoQC:main"
"bfabric_list_not_existing_storage_directories.py"="bfabric.scripts.bfabric_list_not_existing_storage_directories:main"
"bfabric_list_not_available_proteomics_workunits.py"="bfabric.scripts.bfabric_list_not_available_proteomics_workunits:main"
"bfabric_list_workunit_parameters.py"="bfabric.scripts.bfabric_list_workunit_parameters:main"
"bfabric_upload_resource.py"="bfabric.scripts.bfabric_upload_resource:main"
"bfabric_logthis.py"="bfabric.scripts.bfabric_logthis:main"
"bfabric_setResourceStatus_available.py"="bfabric.scripts.bfabric_setResourceStatus_available:main"
"bfabric_setExternalJobStatus_done.py"="bfabric.scripts.bfabric_setExternalJobStatus_done:main"
"bfabric_setWorkunitStatus_available.py"="bfabric.scripts.bfabric_setWorkunitStatus:main_available"
"bfabric_setWorkunitStatus_processing.py"="bfabric.scripts.bfabric_setWorkunitStatus:main_processing"
"bfabric_setWorkunitStatus_failed.py"="bfabric.scripts.bfabric_setWorkunitStatus:main_failed"
"bfabric_delete.py"="bfabric.scripts.bfabric_delete:main"
"bfabric_read.py"="bfabric.scripts.bfabric_read:main"
"bfabric_read_samples_of_workunit.py"="bfabric.scripts.bfabric_read_samples_of_workunit:main"
"bfabric_read_samples_from_dataset.py"="bfabric.scripts.bfabric_read_samples_from_dataset:main"
"bfabric_save_csv2dataset.py"="bfabric.scripts.bfabric_save_csv2dataset:main"
"bfabric_save_dataset2csv.py"="bfabric.scripts.bfabric_save_dataset2csv:main"
"bfabric_save_fasta.py"="bfabric.scripts.bfabric_save_fasta:main"
"bfabric_save_importresource_sample.py"="bfabric.scripts.bfabric_save_importresource_sample:main"
"bfabric_save_link_to_workunit.py"="bfabric.scripts.bfabric_save_link_to_workunit:main"
#bfabric_save_resource="bfabric.scripts.bfabric_save_resource:main"
"bfabric_save_workunit_attribute.py"="bfabric.scripts.bfabric_save_workunit_attribute:main"
"bfabric_save_workflowstep.py"="bfabric.scripts.bfabric_save_workflowstep:main"
"bfabric_slurm_queue_status.py"="bfabric.scripts.bfabric_slurm_queue_status:main"
[tool.black]
line-length = 120
target-version = ["py39"]
[tool.ruff]
line-length = 120
indent-width = 4
target-version = "py39"
[tool.ruff.lint]
#select = ["ANN", "BLE", "D103", "E", "F", "PLW", "PTH", "SIM", "UP", "TCH", "N"]
select = ["PLW", "SIM", "UP", "EXE", "E701", "E702", "E703", "E711", "E713", "E714", "FA100", "FA102", "W191"]
ignore = ["ANN101", "ANN102"]
[tool.licensecheck]
using = "PEP631"
[tool.pytest.ini_options]
logot_capturer = "logot.loguru.LoguruCapturer"