Migrate to pyproject.toml, update for numpy 2.0 (#39)

* move to pyproject file

* remove setup.py

* not needed anymore

* files included by default by Hatch since they are not ignored by VSC

* ensure last empty line

* switch to np.nan for numpy 2.0 compatibility

* and bump patch version for release

* and add to changelog

* update authors metadata as discussed

Author: fsoubelet

.github/workflows/coverage.yml

@@ -13,4 +13,4 @@ jobs:
       with:
         src-dir: pylhc_submitter
         pytest-options: -m "not cern_network"
-      secrets: inherit
+      secrets: inherit

.github/workflows/documentation.yml

@@ -11,4 +11,4 @@ on:  # Runs on any push event in a PR or any push event to master
 
 jobs:
   documentation:
-        uses: pylhc/.github/.github/workflows/documentation.yml@master
+        uses: pylhc/.github/.github/workflows/documentation.yml@master

.github/workflows/publish.yml

@@ -8,4 +8,4 @@ on:  # Runs everytime a release is added to the repository
 jobs:
   deploy:
     uses: pylhc/.github/.github/workflows/publish.yml@master
-    secrets: inherit
+    secrets: inherit

.github/workflows/tests.yml

@@ -15,4 +15,3 @@ jobs:
     uses: pylhc/.github/.github/workflows/tests.yml@master
     with:
       pytest-options: -m "not cern_network"
-      

CHANGELOG.md

@@ -1,5 +1,9 @@
 # `pylhc-submitter` Changelog
 
+## Version 2.0.4
+
+- Fixed use of `np.NaN` to ensure compatibility with `numpy 2.0`.
+
 ## Version 2.0.3
 
 - Fixing `job_submitter`: Do not transfer any output files, when the `output_destination` is given.

MANIFEST.in

@@ -10,7 +10,7 @@
 __title__ = "pylhc_submitter"
 __description__ = "pylhc-submitter contains scripts to simplify the creation and submission of jobs to HTCondor at CERN"
 __url__ = "https://github.com/pylhc/submitter"
-__version__ = "2.0.3"
+__version__ = "2.0.4"
 __author__ = "pylhc"
 __author_email__ = "[email protected]"
 __license__ = "MIT"

pylhc_submitter/__init__.py

@@ -261,7 +261,7 @@ def _plot_seeds(ax, df_da: TfsDataFrame, da_col: str, interpolated: bool) -> Tup
             seed_mask = df_da[SEED] == seed
             angles = np.deg2rad(df_da.loc[seed_mask, ANGLE])
             da_data = df_da.loc[seed_mask, da_col]
-            da_data.loc[da_data == 0] = np.NaN
+            da_data.loc[da_data == 0] = np.nan
             if interpolated:
                 seed_h, _, _ = _interpolated_line(
                     ax,

pylhc_submitter/sixdesk_tools/post_process_da.py

@@ -0,0 +1,84 @@
+[build-system]
+requires = ["hatchling"]
+build-backend = "hatchling.build"
+
+[tool.hatch.version]
+path = "pylhc_submitter/__init__.py"
+
+[tool.hatch.build.targets.sdist]
+exclude = [
+  "/.github",
+  "/doc",
+  "/tests",
+]
+
+[tool.hatch.build.targets.wheel]
+packages = ["pylhc_submitter"]
+
+[project]
+name = "pylhc_submitter"
+readme = "README.md"
+description = "pylhc-submitter contains scripts to simplify the creation and submission of jobs to HTCondor at CERN"
+authors = [
+    {name = "OMC Team", email = "[email protected]"},  # see zenodo file / commits for details
+]
+license = "MIT"
+dynamic = ["version"]
+requires-python = ">=3.9"
+
+classifiers = [
+    "Intended Audience :: Science/Research",
+    "License :: OSI Approved :: MIT License",
+    "Natural Language :: English",
+    "Operating System :: OS Independent",
+    "Programming Language :: Python :: 3 :: Only",
+    "Programming Language :: Python :: 3.9",
+    "Programming Language :: Python :: 3.10",
+    "Programming Language :: Python :: 3.11",
+    "Programming Language :: Python :: 3.12",
+    "Programming Language :: Python :: Implementation :: CPython",
+    "Topic :: Software Development :: Libraries :: Python Modules",
+    "Typing :: Typed",
+]
+
+dependencies = [
+    "numpy >= 1.24",
+    "scipy >= 1.10",
+    "pandas >= 2.1",
+    "tfs-pandas >= 3.8",
+    "matplotlib >= 3.8",
+    "htcondor >= 8.9.2 ; sys_platform=='linux'",  # no bindings for macOS or windows on PyPI
+    "generic-parser >= 1.1",
+]
+
+[project.optional-dependencies]
+test = [
+    "pytest>=7.0",
+    "pytest-cov>=2.9",
+    "pytest-mpl>=0.15",
+]
+doc = [
+    "sphinx >= 7.0",
+    "sphinx_rtd_theme >= 2.0",
+]
+
+all = [
+    "pylhc_submitter[test]",
+    "pylhc_submitter[doc]",
+]
+
+[project.urls]
+homepage = "https://github.com/pylhc/submitter"
+repository = "https://github.com/pylhc/submitter"
+documentation = "https://pylhc.github.io/submitter/"
+changelog = "https://github.com/pylhc/submitter/blob/master/CHANGELOG.md"
+
+# ----- Testing ----- #
+
+[tool.pytest.ini_options]
+markers = [
+    "cern_network: tests that require access to afs or the technical network",
+]
+# Helpful for pytest-debugging (leave commented out on commit):
+# log_cli=true
+# log_level=DEBUG