diff --git a/.github/workflows/CI.yml b/.github/workflows/CI.yml index 91a22d8..36fab6d 100644 --- a/.github/workflows/CI.yml +++ b/.github/workflows/CI.yml @@ -7,46 +7,37 @@ jobs: run-pofff-local: permissions: contents: read - pull-requests: write timeout-minutes: 60 runs-on: ubuntu-26.04 steps: - - uses: actions/checkout@v2 - with: - fetch-depth: 0 - - - name: Set up Python 3.14 - uses: actions/setup-python@v2 - with: - python-version: 3.14 + - uses: actions/checkout@v5 - name: Install Flow Simulator run: | sudo apt-get update - sudo apt-get install software-properties-common + sudo apt-get install software-properties-common mpi-default-bin sudo apt-add-repository ppa:opm/ppa sudo apt-get update - sudo apt-get install mpi-default-bin sudo apt-get install libopm-simulators-bin - - name: Install plotting (LaTeX) and ert dependencies + - name: Install (optional but recommended) plotting (LaTeX) and ert dependencies run: | sudo apt-get install texlive-fonts-recommended texlive-fonts-extra dvipng cm-super sudo apt-get install freeglut3-dev - - name: Install Python dependecies + - name: Install pofff and python requirements run: | + python3.14 -m venv vpofff + . vpofff/bin/activate + echo "$PWD/vpofff/bin" >> $GITHUB_PATH pip install --upgrade pip setuptools wheel - pip install -r dev-requirements.txt - - - name: Install pofff - run: | pip install . + pip install -r dev-requirements.txt - name: Check code style and linting run: | - black --target-version py312 src/ tests/ publication/ --check + black --target-version py314 src/ tests/ publication/ --check pylint src/ tests/ publication/ ruff check src/ tests/ publication/ mypy --ignore-missing-imports src/ tests/ publication/ @@ -58,4 +49,4 @@ jobs: - name: Build documentation run: | pushd docs - make html + make html SPHINXOPTS="-W" diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md index dd7c52c..899e5e3 100644 --- a/CONTRIBUTING.md +++ b/CONTRIBUTING.md @@ -14,7 +14,7 @@ Contributions are more than welcome using the fork and pull request approach 1. Work on your own fork of the main repo 1. In the main repo execute: 1. **pip install -r dev-requirements.txt** (this installs the [_dev-requirements.txt_](https://github.com/cssr-tools/pofff/blob/main/dev-requirements.txt)) - 1. **black --target-version py312 src/ tests/ publication/** (this formats the code) + 1. **black --target-version py314 src/ tests/ publication/** (this formats the code) 1. **pylint src/ tests/ publication/** (this analyses the code, and might rise issues that need to be fixed before the pull request) 1. **ruff check src/ tests/ publication/** (this also analyses the code, and might rise issues that need to be fixed before the pull request) 1. **mypy --ignore-missing-imports src/ tests/ publication/** (this is a static checker, and might rise issues that need to be fixed before the pull request) diff --git a/docs/_sources/contributing.rst.txt b/docs/_sources/contributing.rst.txt index a6b013b..4fcc813 100644 --- a/docs/_sources/contributing.rst.txt +++ b/docs/_sources/contributing.rst.txt @@ -23,7 +23,7 @@ Contribute to the software #. In the main repo execute: #. **pip install -r dev-requirements.txt** (this installs the `dev-requirements.txt `_) - #. **black \-\-target-version py312 src/ tests/ publication/** (this formats the code) + #. **black \-\-target-version py314 src/ tests/ publication/** (this formats the code) #. **pylint src/ tests/ publication/** (this analyses the code, and might rise issues that need to be fixed before the pull request) #. **ruff check src/ tests/ publication/** (this also analyses the code, and might rise issues that need to be fixed before the pull request) #. **mypy \-\-ignore-missing-imports src/ tests/** (this is a static checker, and might rise issues that need to be fixed before the pull request) diff --git a/docs/_sources/installation.rst.txt b/docs/_sources/installation.rst.txt index b59cba8..ef29fab 100644 --- a/docs/_sources/installation.rst.txt +++ b/docs/_sources/installation.rst.txt @@ -14,7 +14,9 @@ supported Python versions are 3.12 to 3.14. .. code-block:: bash - brew install cssr-tools/opm/resinsight + brew tap cssr-tools/opm + brew trust cssr-tools/opm + brew install cssr-tools/opm/resinsight -y Then, you should be able to open resinsight by typing in the terminal **resinsight**. @@ -128,11 +130,13 @@ Brew formula for macOS ++++++++++++++++++++++ For macOS, there are no available binary packages, so OPM Flow needs to be built from source. Recently, a formula to build flow using brew has been added in `https://github.com/cssr-tools/homebrew-opm `_. -Then, you can try to install flow (v2026.02) by simply typing: +Then, you can try to install flow (v2026.07 interim release) by simply typing: .. code-block:: console - brew install cssr-tools/opm/opm-simulators + brew tap cssr-tools/opm + brew trust cssr-tools/opm + brew install cssr-tools/opm/opm-simulators -y You can check if the installation of OPM Flow succeded by typing in the terminal **flow \-\-help**. diff --git a/docs/contributing.html b/docs/contributing.html index 595d12e..144f60e 100644 --- a/docs/contributing.html +++ b/docs/contributing.html @@ -109,7 +109,7 @@

Contribute to the software

  • pip install -r dev-requirements.txt (this installs the dev-requirements.txt)

    • -

  • black --target-version py312 src/ tests/ publication/ (this formats the code)

    • +

  • black --target-version py314 src/ tests/ publication/ (this formats the code)

  • pylint src/ tests/ publication/ (this analyses the code, and might rise issues that need to be fixed before the pull request)

  • ruff check src/ tests/ publication/ (this also analyses the code, and might rise issues that need to be fixed before the pull request)

  • mypy --ignore-missing-imports src/ tests/ (this is a static checker, and might rise issues that need to be fixed before the pull request)

    • diff --git a/docs/installation.html b/docs/installation.html index 8c1068e..f90d953 100644 --- a/docs/installation.html +++ b/docs/installation.html @@ -100,7 +100,9 @@

    Installation

    Note

    There are binary packages for Linux and Windows to install Resinsight, see the ResInsight Documentation. For macOS users, you could try to install it using brew by executing:

    -
    brew install cssr-tools/opm/resinsight
+
    brew tap cssr-tools/opm
+brew trust cssr-tools/opm
+brew install cssr-tools/opm/resinsight -y
 
    
 
    
 
    Then, you should be able to open resinsight by typing in the terminal resinsight.
    
@@ -198,8 +200,10 @@ 
    Source build in Linux/Windows
    Brew formula for macOS
    
 
    For macOS, there are no available binary packages, so OPM Flow needs to be built from source. Recently, a formula to build flow using brew has
 been added in https://github.com/cssr-tools/homebrew-opm.
-Then, you can try to install flow (v2026.02) by simply typing:
    
-
    brew install cssr-tools/opm/opm-simulators
+Then, you can try to install flow (v2026.07 interim release) by simply typing:
    
+
    brew tap cssr-tools/opm
+brew trust cssr-tools/opm
+brew install cssr-tools/opm/opm-simulators -y
 
    
 
    
 
    You can check if the installation of OPM Flow succeded by typing in the terminal flow --help.
    
diff --git a/docs/pofff.config.config.html b/docs/pofff.config.config.html
index 0ecb1fb..b02f9f1 100644
--- a/docs/pofff.config.config.html
+++ b/docs/pofff.config.config.html
@@ -154,13 +154,13 @@
 
 
    
 
    
-class pofff.config.config.PofffConfig(path: Path, fol: Path = PosixPath('output'), deck: Path = PosixPath('output'), jobs: Path = PosixPath('output'), experiment: str = 'run2', times: str = '0.25', msat: str = '1e-2', mcon: str = '1e-1', mode: str = 'single', figures: str = 'basic', location: str = '', use: str = '1', flow: str = 'flow', grid: str = 'corner-point', thickness: str = 'final', mult_thickness: float = 1.0, x: List[int] = <factory>, z: List[int] = <factory>, temperature: List[float] = <factory>, pressure: float = 0.0, diffusion: ndarray = <factory>, sources: List[List[float]] = <factory>, inj: List[List[Any]] = <factory>, krw: str = '(max(0, (sw - swi) / (1 - swi))) ** nkrw', krn: str = '(max(0, (1 - sw - sni) / (1 - sni))) ** nkrn', cap: str = 'pen * ((sw-swi) / (1-swi)) ** (-(1.0 / npen))', cores: int | None = None, maxtime: float | None = None, delete: bool | None = None, ertargs: str | None = None, ensembles: int | None = None, enkf_alpha: float | None = None, errors: ndarray | None = None, random_seed: int | None = None, min_realizations_success: int | None = None, max_function_evaluations: int | None = None, max_batch_num: int | None = None, args: Any, ...] | None=None, strategy: str | None = None, maxiter: int | None = None, popsize: int | None = None, tol: float | None = None, mutation: float | ~typing.Tuple[float, float] | None=None, recombination: float | None = None, rng: Any | None = None, callback: Callable | None = None, disp: bool | None = None, polish: bool | None = None, init: str | None = None, atol: float | None = None, updating: str | None = None, workers: int | None = None, constraints: Iterable[Any] | None = None, x0: Sequence[float] | None = None, integrality: Sequence[bool] | None = None, vectorized: bool | None = None, facies: list[int] = <factory>, fluxnum: list[str] = <factory>, fipnum: list[str] = <factory>, porv: list[str] = <factory>, multpv: list[str] = <factory>, dx: list | None = <factory>, dz: list | None = <factory>, dims: List[float] = <factory>, sensors: List[List[float]] = <factory>, sensor_ik: List[List[int]] = <factory>, source_ik: List[List[int]] = <factory>, boxa: List[List[float]] = <factory>, boxb: List[List[float]] = <factory>, boxc: List[List[float]] = <factory>, hm: Dict[str, ~typing.Any]=<factory>, monotonic: bool = False, hascellmaps: bool = False, everert: bool = False, tuning: bool = False, para: Dict[str, ~typing.Any]=<factory>, nxz: List[int] = <factory>, data: str | None = None)
    
+class pofff.config.config.PofffConfig(path: Path, fol: Path = PosixPath('output'), deck: Path = PosixPath('output'), jobs: Path = PosixPath('output'), experiment: str = 'run2', times: str = '0.25', msat: str = '1e-2', mcon: str = '1e-1', mode: str = 'single', figures: str = 'basic', location: str = '', use: str = '1', flow: str = 'flow', grid: str = 'corner-point', thickness: str = 'final', mult_thickness: float = 1.0, x: list[int] = <factory>, z: list[int] = <factory>, temperature: list[float] = <factory>, pressure: float = 0.0, diffusion: ndarray = <factory>, sources: list[list[float]] = <factory>, inj: list[list[Any]] = <factory>, krw: str = '(max(0, (sw - swi) / (1 - swi))) ** nkrw', krn: str = '(max(0, (1 - sw - sni) / (1 - sni))) ** nkrn', cap: str = 'pen * ((sw-swi) / (1-swi)) ** (-(1.0 / npen))', cores: int | None = None, maxtime: float | None = None, delete: bool | None = None, ertargs: str | None = None, ensembles: int | None = None, enkf_alpha: float | None = None, errors: ndarray | None = None, random_seed: int | None = None, min_realizations_success: int | None = None, max_function_evaluations: int | None = None, max_batch_num: int | None = None, args: tuple[~typing.Any, ...] | None=None, strategy: str | None = None, maxiter: int | None = None, popsize: int | None = None, tol: float | None = None, mutation: float | tuple[float, float] | None=None, recombination: float | None = None, rng: Any | None = None, callback: Callable | None = None, disp: bool | None = None, polish: bool | None = None, init: str | None = None, atol: float | None = None, updating: str | None = None, workers: int | None = None, constraints: Iterable[Any] | None = None, x0: Sequence[float] | None = None, integrality: Sequence[bool] | None = None, vectorized: bool | None = None, facies: list[int] = <factory>, fluxnum: list[str] = <factory>, fipnum: list[str] = <factory>, porv: list[str] = <factory>, multpv: list[str] = <factory>, dx: list | None = <factory>, dz: list | None = <factory>, dims: list[float] = <factory>, sensors: list[list[float]] = <factory>, sensor_ik: list[list[int]] = <factory>, source_ik: list[list[int]] = <factory>, boxa: list[list[float]] = <factory>, boxb: list[list[float]] = <factory>, boxc: list[list[float]] = <factory>, hm: dict[str, ~typing.Any]=<factory>, monotonic: bool = False, hascellmaps: bool = False, everert: bool = False, tuning: bool = False, para: dict[str, ~typing.Any]=<factory>, nxz: list[int] = <factory>, data: str | None = None)
 
    Bases: object
    
 
    Central configuration object for pofff.
    
 
    Combines CLI options, TOML inputs, and derived runtime settings.
    
 
    
 
    
-args: Tuple[Any, ...] | None
    
+args: tuple[Any, ...] | None
 
    
 
 
    
@@ -170,17 +170,17 @@
 
 
    
 
    
-boxa: List[List[float]]
    
+boxa: list[list[float]]
 
    
 
 
    
 
    
-boxb: List[List[float]]
    
+boxb: list[list[float]]
 
    
 
 
    
 
    
-boxc: List[List[float]]
    
+boxc: list[list[float]]
 
    
 
 
    
@@ -225,7 +225,7 @@
 
 
    
 
    
-dims: List[float]
    
+dims: list[float]
 
    
 
 
    
@@ -315,7 +315,7 @@
 
 
    
 
    
-hm: Dict[str, Any]
    
+hm: dict[str, Any]
 
    
 
 
    
@@ -325,7 +325,7 @@
 
 
    
 
    
-inj: List[List[Any]]
    
+inj: list[list[Any]]
 
    
 
 
    
@@ -410,17 +410,17 @@
 
 
    
 
    
-mutation: float | Tuple[float, float] | None
    
+mutation: float | tuple[float, float] | None
 
    
 
 
    
 
    
-nxz: List[int]
    
+nxz: list[int]
 
    
 
 
    
 
    
-para: Dict[str, Any]
    
+para: dict[str, Any]
 
    
 
 
    
@@ -465,22 +465,22 @@
 
 
    
 
    
-sensor_ik: List[List[int]]
    
+sensor_ik: list[list[int]]
 
    
 
 
    
 
    
-sensors: List[List[float]]
    
+sensors: list[list[float]]
 
    
 
 
    
 
    
-source_ik: List[List[int]]
    
+source_ik: list[list[int]]
 
    
 
 
    
 
    
-sources: List[List[float]]
    
+sources: list[list[float]]
 
    
 
 
    
@@ -490,7 +490,7 @@
 
 
    
 
    
-temperature: List[float]
    
+temperature: list[float]
 
    
 
 
    
@@ -535,7 +535,7 @@
 
 
    
 
    
-x: List[int]
    
+x: list[int]
 
    
 
 
    
@@ -545,7 +545,7 @@
 
 
    
 
    
-z: List[int]
    
+z: list[int]
 
    
 
 
    
diff --git a/docs/pofff.visualization.everert.html b/docs/pofff.visualization.everert.html
index b4fc4ae..7601e03 100644
--- a/docs/pofff.visualization.everert.html
+++ b/docs/pofff.visualization.everert.html
@@ -90,7 +90,7 @@
 Generates diagnostics, plots, and extracts best simulations.
    
 
    
 
    
-class pofff.visualization.everert.Config(path: Path, times: str, jobs: List[str], external: Path, run: str, maps: Path, min_saturation: float, min_concentration: float)
    
+class pofff.visualization.everert.Config(path: Path, times: str, jobs: list[str], external: Path, run: str, maps: Path, min_saturation: float, min_concentration: float)
 
    Bases: object
    
 
    Runtime configuration and paths.
    
 
    
@@ -100,7 +100,7 @@
 
 
    
 
    
-jobs: List[str]
    
+jobs: list[str]
 
    
 
 
    
@@ -137,22 +137,22 @@
 
 
    
 
    
-class pofff.visualization.everert.EnsembleState(observations: ndarray, n_e: int, n_i: int, no_obs: int, no_para: int, simulations: List[List[list]] = <factory>, sim_ens: List[List[float]] = <factory>, miss_ens: List[List[float]] = <factory>, par_dis: List[List[float]] = <factory>, idrealisation: List[List[int]] = <factory>, num_ens: List[int] = <factory>, cumulative: List[List[List[float]]] = <factory>, para_file: Path | None = None, para_names: List[str] = <factory>)
    
+class pofff.visualization.everert.EnsembleState(observations: ndarray, n_e: int, n_i: int, no_obs: int, no_para: int, simulations: list[list[list]] = <factory>, sim_ens: list[list[float]] = <factory>, miss_ens: list[list[float]] = <factory>, par_dis: list[list[float]] = <factory>, idrealisation: list[list[int]] = <factory>, num_ens: list[int] = <factory>, cumulative: list[list[list[float]]] = <factory>, para_file: Path | None = None, para_names: list[str] = <factory>)
 
    Bases: object
    
 
    Holds ensemble simulations and diagnostics.
    
 
    
 
    
-cumulative: List[List[List[float]]]
    
+cumulative: list[list[list[float]]]
 
    
 
 
    
 
    
-idrealisation: List[List[int]]
    
+idrealisation: list[list[int]]
 
    
 
 
    
 
    
-miss_ens: List[List[float]]
    
+miss_ens: list[list[float]]
 
    
 
 
    
@@ -177,7 +177,7 @@
 
 
    
 
    
-num_ens: List[int]
    
+num_ens: list[int]
 
    
 
 
    
@@ -187,7 +187,7 @@
 
 
    
 
    
-par_dis: List[List[float]]
    
+par_dis: list[list[float]]
 
    
 
 
    
@@ -197,24 +197,24 @@
 
 
    
 
    
-para_names: List[str]
    
+para_names: list[str]
 
    
 
 
    
 
    
-sim_ens: List[List[float]]
    
+sim_ens: list[list[float]]
 
    
 
 
    
 
    
-simulations: List[List[list]]
    
+simulations: list[list[list]]
 
    
 
 
    
 
 
    
 
    
-class pofff.visualization.everert.OptimizationState(optimization: List[float] = <factory>, optimal_value: float = -inf, ind_batch: int = 0, ind_sim: int = 0, tot_eval: int = 0, s: List[List[int]] = <factory>, x: List[int] = <factory>)
    
+class pofff.visualization.everert.OptimizationState(optimization: list[float] = <factory>, optimal_value: float = -inf, ind_batch: int = 0, ind_sim: int = 0, tot_eval: int = 0, s: list[list[int]] = <factory>, x: list[int] = <factory>)
 
    Bases: object
    
 
    Tracks optimization progress and outcomes.
    
 
    
@@ -234,12 +234,12 @@
 
 
    
 
    
-optimization: List[float]
    
+optimization: list[float]
 
    
 
 
    
 
    
-s: List[List[int]]
    
+s: list[list[int]]
 
    
 
 
    
@@ -249,7 +249,7 @@
 
 
    
 
    
-x: List[int]
    
+x: list[int]
 
    
 
 
    
@@ -352,7 +352,7 @@
 
 
    
 
    
-pofff.visualization.everert.run(cmd: List[str]) → None
    
+pofff.visualization.everert.run(cmd: list[str]) → None
 
    Execute external command and abort on failure.
    
 
    
 
diff --git a/docs/searchindex.js b/docs/searchindex.js
index 121bdd8..731ee45 100644
--- a/docs/searchindex.js
+++ b/docs/searchindex.js
@@ -1 +1 @@
-Search.setIndex({"alltitles":{"About pofff":[[0,null]],"Adding your results":[[4,"adding-your-results"]],"Binary packages":[[6,"binary-packages"]],"Brew formula for macOS":[[6,"brew-formula-for-macos"]],"Citing":[[0,"citing"]],"Concept":[[7,"concept"]],"Configuration file":[[2,null]],"Contribute to the software":[[3,"contribute-to-the-software"]],"Contributing":[[3,null]],"ERT":[[9,"ert"]],"Everest":[[9,"everest"]],"Examples":[[4,null]],"Ground Rules":[[3,"ground-rules"]],"Hello world":[[4,"hello-world"]],"History matching":[[4,"history-matching"]],"Indices and tables":[[5,"indices-and-tables"]],"Installation":[[6,null]],"Introduction":[[7,null]],"Module contents":[[10,"module-pofff"],[11,"module-pofff.config"],[13,"module-pofff.core"],[15,"module-pofff.jobs"],[19,"module-pofff.utils"],[24,"module-pofff.visualization"]],"OPM Flow":[[6,"opm-flow"]],"Output folder":[[9,null]],"Overview":[[7,"overview"]],"Publication":[[30,null]],"Python 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\ No newline at end of file
diff --git a/docs/text/contributing.rst b/docs/text/contributing.rst
index a6b013b..4fcc813 100644
--- a/docs/text/contributing.rst
+++ b/docs/text/contributing.rst
@@ -23,7 +23,7 @@ Contribute to the software
 #. In the main repo execute:
 
     #. **pip install -r dev-requirements.txt** (this installs the `dev-requirements.txt `_)
-    #. **black \-\-target-version py312 src/ tests/ publication/** (this formats the code)
+    #. **black \-\-target-version py314 src/ tests/ publication/** (this formats the code)
     #. **pylint src/ tests/ publication/** (this analyses the code, and might rise issues that need to be fixed before the pull request)
     #. **ruff check src/ tests/ publication/** (this also analyses the code, and might rise issues that need to be fixed before the pull request)
     #. **mypy \-\-ignore-missing-imports src/ tests/** (this is a static checker, and might rise issues that need to be fixed before the pull request)
diff --git a/docs/text/installation.rst b/docs/text/installation.rst
index b59cba8..ef29fab 100644
--- a/docs/text/installation.rst
+++ b/docs/text/installation.rst
@@ -14,7 +14,9 @@ supported Python versions are 3.12 to 3.14.
 
     .. code-block:: bash
 
-        brew install cssr-tools/opm/resinsight
+        brew tap cssr-tools/opm
+        brew trust cssr-tools/opm
+        brew install cssr-tools/opm/resinsight -y
     
     Then, you should be able to open resinsight by typing in the terminal **resinsight**.
 
@@ -128,11 +130,13 @@ Brew formula for macOS
 ++++++++++++++++++++++
 For macOS, there are no available binary packages, so OPM Flow needs to be built from source. Recently, a formula to build flow using brew has
 been added in `https://github.com/cssr-tools/homebrew-opm `_. 
-Then, you can try to install flow (v2026.02) by simply typing:
+Then, you can try to install flow (v2026.07 interim release) by simply typing:
 
 .. code-block:: console
 
-    brew install cssr-tools/opm/opm-simulators
+    brew tap cssr-tools/opm
+    brew trust cssr-tools/opm
+    brew install cssr-tools/opm/opm-simulators -y
 
 You can check if the installation of OPM Flow succeded by typing in the terminal **flow \-\-help**.
 
diff --git a/publication/accuracy.py b/publication/accuracy.py
index baaecf6..9fb44e8 100644
--- a/publication/accuracy.py
+++ b/publication/accuracy.py
@@ -6,11 +6,11 @@
 Accuracy vs wall-time trade-offs for CNV solver tolerances.
 """
 
-from pathlib import Path
 import subprocess
+from pathlib import Path
 
-from opm.io.ecl import ESmry as OpmSummary
 from mako.template import Template
+from opm.io.ecl import ESmry as OpmSummary
 
 # -----------------------------------------------------------------------------
 # Configuration
diff --git a/publication/profiling.py b/publication/profiling.py
index aabedb7..4be8cd8 100644
--- a/publication/profiling.py
+++ b/publication/profiling.py
@@ -7,16 +7,16 @@
 Profiling workflow wall-time and OPM Flow simulation statistics.
 """
 
-from pathlib import Path
 import shutil
 import subprocess
 import time
+from pathlib import Path
 
-import numpy as np
 import matplotlib
 import matplotlib.pyplot as plt
-from opm.io.ecl import ESmry as OpmSummary
+import numpy as np
 from mako.template import Template
+from opm.io.ecl import ESmry as OpmSummary
 
 # -----------------------------------------------------------------------------
 # Configuration
diff --git a/publication/sensitivity.py b/publication/sensitivity.py
index 58ce3de..34acb16 100644
--- a/publication/sensitivity.py
+++ b/publication/sensitivity.py
@@ -4,6 +4,7 @@
 """Table 8 in the pofff paper"""
 
 import subprocess
+
 from mako.template import Template
 
 mytemplate = Template(filename="appendixc.mako")
diff --git a/src/pofff/config/config.py b/src/pofff/config/config.py
index 8830622..a70320e 100644
--- a/src/pofff/config/config.py
+++ b/src/pofff/config/config.py
@@ -1,4 +1,3 @@
-#!/usr/bin/env python3
 # SPDX-FileCopyrightText: 2023-2026 NORCE Research AS
 # SPDX-License-Identifier: GPL-3.0
 
@@ -10,9 +9,11 @@
 - PofffConfig: unified runtime and TOML-based configuration
 """
 
+from collections.abc import Callable, Iterable, Sequence
 from dataclasses import dataclass, field
 from pathlib import Path
-from typing import Any, Callable, Dict, List, Iterable, Sequence, Tuple, Optional, Union
+from typing import Any
+
 import numpy as np
 
 
@@ -66,13 +67,13 @@ class PofffConfig:
     grid: str = "corner-point"
     thickness: str = "final"
     mult_thickness: float = 1.0
-    x: List[int] = field(default_factory=list)
-    z: List[int] = field(default_factory=list)
-    temperature: List[float] = field(default_factory=lambda: [20, 20])
+    x: list[int] = field(default_factory=list)
+    z: list[int] = field(default_factory=list)
+    temperature: list[float] = field(default_factory=lambda: [20, 20])
     pressure: float = 0.0
     diffusion: np.ndarray = field(default_factory=lambda: np.array([1e-9, 2e-8]))
-    sources: List[List[float]] = field(default_factory=lambda: [[0, 0], [0, 0]])
-    inj: List[List[Any]] = field(default_factory=lambda: [[]])
+    sources: list[list[float]] = field(default_factory=lambda: [[0, 0], [0, 0]])
+    inj: list[list[Any]] = field(default_factory=lambda: [[]])
     krw: str = "(max(0, (sw - swi) / (1 - swi))) ** nkrw"
     krn: str = "(max(0, (1 - sw - sni) / (1 - sni))) ** nkrn"
     cap: str = "pen * ((sw-swi) / (1-swi)) ** (-(1.0 / npen))"
@@ -80,48 +81,48 @@ class PofffConfig:
     # ------------------------------------------------------------------
     # TOML configuration (ERT / everest runtime)
     # ------------------------------------------------------------------
-    cores: Optional[int] = None
-    maxtime: Optional[float] = None
-    delete: Optional[bool] = None
+    cores: int | None = None
+    maxtime: float | None = None
+    delete: bool | None = None
 
     # ------------------------------------------------------------------
     # TOML configuration (ERT)
     # ------------------------------------------------------------------
-    ertargs: Optional[str] = None
-    ensembles: Optional[int] = None
-    enkf_alpha: Optional[float] = None
-    errors: Optional[np.ndarray] = None
-    random_seed: Optional[int] = None  # Used by scipy differential evolution
+    ertargs: str | None = None
+    ensembles: int | None = None
+    enkf_alpha: float | None = None
+    errors: np.ndarray | None = None
+    random_seed: int | None = None  # Used by scipy differential evolution
 
     # ------------------------------------------------------------------
     # TOML configuration (everest)
     # ------------------------------------------------------------------
-    min_realizations_success: Optional[int] = None
-    max_function_evaluations: Optional[int] = None
-    max_batch_num: Optional[int] = None
+    min_realizations_success: int | None = None
+    max_function_evaluations: int | None = None
+    max_batch_num: int | None = None
 
     # ------------------------------------------------------------------
     # TOML differential evolution parameters (via everest)
     # ------------------------------------------------------------------
-    args: Optional[Tuple[Any, ...]] = None
-    strategy: Optional[str] = None
-    maxiter: Optional[int] = None
-    popsize: Optional[int] = None
-    tol: Optional[float] = None
-    mutation: Optional[Union[float, Tuple[float, float]]] = None
-    recombination: Optional[float] = None
-    rng: Optional[Any] = None
-    callback: Optional[Callable] = None
-    disp: Optional[bool] = None
-    polish: Optional[bool] = None
-    init: Optional[str] = None
-    atol: Optional[float] = None
-    updating: Optional[str] = None
-    workers: Optional[int] = None
-    constraints: Optional[Iterable[Any]] = None
-    x0: Optional[Sequence[float]] = None
-    integrality: Optional[Sequence[bool]] = None
-    vectorized: Optional[bool] = None
+    args: tuple[Any, ...] | None = None
+    strategy: str | None = None
+    maxiter: int | None = None
+    popsize: int | None = None
+    tol: float | None = None
+    mutation: float | tuple[float, float] | None = None
+    recombination: float | None = None
+    rng: Any | None = None
+    callback: Callable | None = None
+    disp: bool | None = None
+    polish: bool | None = None
+    init: str | None = None
+    atol: float | None = None
+    updating: str | None = None
+    workers: int | None = None
+    constraints: Iterable[Any] | None = None
+    x0: Sequence[float] | None = None
+    integrality: Sequence[bool] | None = None
+    vectorized: bool | None = None
 
     # ------------------------------------------------------------------
     # OPM input arrays
@@ -131,28 +132,28 @@ class PofffConfig:
     fipnum: list[str] = field(default_factory=list)
     porv: list[str] = field(default_factory=list)
     multpv: list[str] = field(default_factory=list)
-    dx: Optional[list] = field(default_factory=list)
-    dz: Optional[list] = field(default_factory=list)
+    dx: list | None = field(default_factory=list)
+    dz: list | None = field(default_factory=list)
 
     # ------------------------------------------------------------------
     # FluidFlower geometry and observation setup
     # ------------------------------------------------------------------
-    dims: List[float] = field(default_factory=lambda: [2.8, 0.019, 1.2])
-    sensors: List[List[float]] = field(default_factory=lambda: [[1.5, 0.5], [1.7, 1.1]])
-    sensor_ik: List[List[int]] = field(default_factory=lambda: [[0, 0], [0, 0]])
-    source_ik: List[List[int]] = field(default_factory=lambda: [[0, 0], [0, 0]])
-    boxa: List[List[float]] = field(default_factory=lambda: [[1.1, 0.0], [2.8, 0.6]])
-    boxb: List[List[float]] = field(default_factory=lambda: [[0.0, 0.6], [1.1, 1.2]])
-    boxc: List[List[float]] = field(default_factory=lambda: [[1.1, 0.1], [2.6, 0.4]])
+    dims: list[float] = field(default_factory=lambda: [2.8, 0.019, 1.2])
+    sensors: list[list[float]] = field(default_factory=lambda: [[1.5, 0.5], [1.7, 1.1]])
+    sensor_ik: list[list[int]] = field(default_factory=lambda: [[0, 0], [0, 0]])
+    source_ik: list[list[int]] = field(default_factory=lambda: [[0, 0], [0, 0]])
+    boxa: list[list[float]] = field(default_factory=lambda: [[1.1, 0.0], [2.8, 0.6]])
+    boxb: list[list[float]] = field(default_factory=lambda: [[0.0, 0.6], [1.1, 1.2]])
+    boxc: list[list[float]] = field(default_factory=lambda: [[1.1, 0.1], [2.6, 0.4]])
 
     # ------------------------------------------------------------------
     # Miscellaneous runtime flags and metadata
     # ------------------------------------------------------------------
-    hm: Dict[str, Any] = field(default_factory=dict)
+    hm: dict[str, Any] = field(default_factory=dict)
     monotonic: bool = False
     hascellmaps: bool = False
     everert: bool = False
     tuning: bool = False
-    para: Dict[str, Any] = field(default_factory=dict)
-    nxz: List[int] = field(default_factory=lambda: [0, 0])
-    data: Optional[str] = None
+    para: dict[str, Any] = field(default_factory=dict)
+    nxz: list[int] = field(default_factory=lambda: [0, 0])
+    data: str | None = None
diff --git a/src/pofff/core/pofff.py b/src/pofff/core/pofff.py
index 2c475a9..872df5c 100644
--- a/src/pofff/core/pofff.py
+++ b/src/pofff/core/pofff.py
@@ -3,16 +3,16 @@
 
 """Main entry script for pofff."""
 
+import argparse
 import os
 import shutil
-import argparse
 from pathlib import Path
 
 from pofff.config.config import CliConfig, PofffConfig
-from pofff.utils.inputvalues import load_toml, build_config, postprocess_config
-from pofff.utils.runs import flow, data, benchmark, everest, ert, postprocess
-from pofff.utils.writefile import write_files
+from pofff.utils.inputvalues import build_config, load_toml, postprocess_config
 from pofff.utils.mapproperties import grid_and_properties
+from pofff.utils.runs import benchmark, data, ert, everest, flow, postprocess
+from pofff.utils.writefile import write_files
 
 
 def main() -> None:
diff --git a/src/pofff/fluidflower/general/evaluation/calculate_segmented_emds_pofff.py b/src/pofff/fluidflower/general/evaluation/calculate_segmented_emds_pofff.py
old mode 100644
new mode 100755
index ae9a946..2aa4283
--- a/src/pofff/fluidflower/general/evaluation/calculate_segmented_emds_pofff.py
+++ b/src/pofff/fluidflower/general/evaluation/calculate_segmented_emds_pofff.py
@@ -7,11 +7,13 @@
 Script to calculate Wasserstein distances between segmented data.
 """
 
+import argparse
 import os
 import os.path
-import argparse
+
 import numpy as np
 from PIL import Image
+
 import pofff.fluidflower.general.visualization.generate_segmented_images as seg
 from pofff.fluidflower.general.evaluation import emd
 
@@ -20,8 +22,8 @@ def calculateEMD(modelResult, experimentalData):
     """Calculate Wasserstein distance"""
     modImage = Image.new("L", (280, 120))
     modPixels = modImage.load()
-    for i in range(0, modImage.size[0]):
-        for j in range(0, modImage.size[1]):
+    for i in range(modImage.size[0]):
+        for j in range(modImage.size[1]):
             if modelResult[j, i] == 1:
                 modPixels[i, j] = 128
             elif modelResult[j, i] == 2:
@@ -33,8 +35,8 @@ def calculateEMD(modelResult, experimentalData):
 
     expImage = Image.new("L", (280, 120))
     expPixels = expImage.load()
-    for i in range(0, expImage.size[0]):
-        for j in range(0, expImage.size[1]):
+    for i in range(expImage.size[0]):
+        for j in range(expImage.size[1]):
             if experimentalData[j, i] == 1:
                 expPixels[i, j] = 128
             elif experimentalData[j, i] == 2:
diff --git a/src/pofff/fluidflower/general/evaluation/calculate_segmented_emds_simplified_pofff.py b/src/pofff/fluidflower/general/evaluation/calculate_segmented_emds_simplified_pofff.py
old mode 100644
new mode 100755
index 354a584..18c114b
--- a/src/pofff/fluidflower/general/evaluation/calculate_segmented_emds_simplified_pofff.py
+++ b/src/pofff/fluidflower/general/evaluation/calculate_segmented_emds_simplified_pofff.py
@@ -7,11 +7,13 @@
 Script to calculate Wasserstein distances between segmented data.
 """
 
+import argparse
 import os
 import os.path
-import argparse
+
 import numpy as np
 from PIL import Image
+
 import pofff.fluidflower.general.visualization.generate_segmented_images as seg
 from pofff.fluidflower.general.evaluation import emd
 
@@ -20,8 +22,8 @@ def calculateEMD(modelResult, experimentalData):
     """Calculate Wasserstein distance"""
     modImage = Image.new("L", (280, 120))
     modPixels = modImage.load()
-    for i in range(0, modImage.size[0]):
-        for j in range(0, modImage.size[1]):
+    for i in range(modImage.size[0]):
+        for j in range(modImage.size[1]):
             if modelResult[j, i] == 1:
                 modPixels[i, j] = 128
             elif modelResult[j, i] == 2:
@@ -33,8 +35,8 @@ def calculateEMD(modelResult, experimentalData):
 
     expImage = Image.new("L", (280, 120))
     expPixels = expImage.load()
-    for i in range(0, expImage.size[0]):
-        for j in range(0, expImage.size[1]):
+    for i in range(expImage.size[0]):
+        for j in range(expImage.size[1]):
             if experimentalData[j, i] == 1:
                 expPixels[i, j] = 128
             elif experimentalData[j, i] == 2:
diff --git a/src/pofff/fluidflower/general/evaluation/compare_sparse_data_pofff.py b/src/pofff/fluidflower/general/evaluation/compare_sparse_data_pofff.py
old mode 100644
new mode 100755
index 21e40d3..80ae499
--- a/src/pofff/fluidflower/general/evaluation/compare_sparse_data_pofff.py
+++ b/src/pofff/fluidflower/general/evaluation/compare_sparse_data_pofff.py
@@ -5,12 +5,13 @@
 
 """Generate the sparse data figure"""
 
+import argparse
 import os
 import shutil
-import argparse
-import numpy as np
-import matplotlib.pyplot as plt
+
 import matplotlib
+import matplotlib.pyplot as plt
+import numpy as np
 
 
 def visualizeRow(means, stddevs, expData, ax, colors, groups, withlegend):
diff --git a/src/pofff/fluidflower/general/evaluation/compare_time_series_pofff.py b/src/pofff/fluidflower/general/evaluation/compare_time_series_pofff.py
old mode 100644
new mode 100755
index 4e4455f..fa8f15a
--- a/src/pofff/fluidflower/general/evaluation/compare_time_series_pofff.py
+++ b/src/pofff/fluidflower/general/evaluation/compare_time_series_pofff.py
@@ -7,13 +7,14 @@
 Generate the time series figures.
 """
 
+import argparse
 import os
 import shutil
-import argparse
 from operator import methodcaller
-import numpy as np
+
 import matplotlib
 import matplotlib.pyplot as plt
+import numpy as np
 from scipy import interpolate
 
 
diff --git a/src/pofff/fluidflower/general/evaluation/emd.py b/src/pofff/fluidflower/general/evaluation/emd.py
old mode 100644
new mode 100755
index 88fb4cc..56f59dd
--- a/src/pofff/fluidflower/general/evaluation/emd.py
+++ b/src/pofff/fluidflower/general/evaluation/emd.py
@@ -8,8 +8,9 @@
 """
 
 import argparse
-import ot
+
 import numpy as np
+import ot
 from PIL import Image
 
 
diff --git a/src/pofff/fluidflower/general/evaluation/means_from_segmented_distances_pofff.py b/src/pofff/fluidflower/general/evaluation/means_from_segmented_distances_pofff.py
old mode 100644
new mode 100755
index 6171cca..2319c8d
--- a/src/pofff/fluidflower/general/evaluation/means_from_segmented_distances_pofff.py
+++ b/src/pofff/fluidflower/general/evaluation/means_from_segmented_distances_pofff.py
@@ -7,12 +7,13 @@
 Generate the Wasserstein distance plots.
 """
 
+import argparse
 import os
 import shutil
-import argparse
-import numpy as np
-import matplotlib.pyplot as plt
+
 import matplotlib
+import matplotlib.pyplot as plt
+import numpy as np
 
 parser = argparse.ArgumentParser()
 parser.add_argument(
@@ -329,7 +330,7 @@
 )
 
 for k, hour, ki, kj in zip(
-    range(0, 5), [24, 48, 72, 96, 120], [0, 0, 0, 1, 1], [0, 1, 2, 0, 1]
+    range(5), [24, 48, 72, 96, 120], [0, 0, 0, 1, 1], [0, 1, 2, 0, 1]
 ):
     # axs[ki][kj].set_xlim((0, 120))
     axs[ki][kj].set_xlim((0, 80))
diff --git a/src/pofff/fluidflower/general/visualization/generate_segmented_images.py b/src/pofff/fluidflower/general/visualization/generate_segmented_images.py
old mode 100644
new mode 100755
index 64b80b2..b4ba830
--- a/src/pofff/fluidflower/general/visualization/generate_segmented_images.py
+++ b/src/pofff/fluidflower/general/visualization/generate_segmented_images.py
@@ -9,6 +9,7 @@
 """
 
 import argparse
+
 import numpy as np
 from PIL import Image
 
@@ -19,8 +20,8 @@ def generateImages(
     "Generate images"
     modImage = Image.new("RGBA", (280, 120))
     modPixels = modImage.load()
-    for i in range(0, modImage.size[0]):
-        for j in range(0, modImage.size[1]):
+    for i in range(modImage.size[0]):
+        for j in range(modImage.size[1]):
             if modelResult[j, i] == 1:
                 modPixels[i, j] = (0, 255, 0)
             elif modelResult[j, i] == 2:
@@ -36,8 +37,8 @@ def generateImages(
 
     expImage = Image.new("RGBA", (280, 120))
     expPixels = expImage.load()
-    for i in range(0, expImage.size[0]):
-        for j in range(0, expImage.size[1]):
+    for i in range(expImage.size[0]):
+        for j in range(expImage.size[1]):
             if experimentalData[j, i] == 1:
                 expPixels[i, j] = (0, 255, 0)
             elif experimentalData[j, i] == 2:
diff --git a/src/pofff/jobs/data.py b/src/pofff/jobs/data.py
index 61dfbcc..5729606 100755
--- a/src/pofff/jobs/data.py
+++ b/src/pofff/jobs/data.py
@@ -8,18 +8,16 @@
 
 import argparse
 import sys
-from pathlib import Path
-from typing import Optional, Union
 from dataclasses import dataclass, field
+from pathlib import Path
 
 import numpy as np
-from scipy.interpolate import interp1d
 from numpy.typing import NDArray
-
 from opm.io.ecl import EclFile as OpmFile
 from opm.io.ecl import EGrid as OpmGrid
 from opm.io.ecl import ERst as OpmRestart
 from opm.io.ecl import ESmry as OpmSummary
+from scipy.interpolate import interp1d
 
 SECONDS_IN_DAY = 86400.0
 GAS_DEN_REF = 1.86843
@@ -31,7 +29,7 @@
 FIP_DISS_B = (3, 6)
 FIP_SEAL_B = (6,)
 
-ArrayLike = Union[float, NDArray]
+ArrayLike = float | NDArray
 
 
 @dataclass
@@ -44,18 +42,18 @@ class SimulationContext:
     where: Path = Path(".")
     sparse_t: float = 600.0
     dims: NDArray = field(default_factory=lambda: np.array([2.8, 1.0, 1.2]))
-    sim: Optional[Path] = None
-    unrst: Optional[OpmRestart] = None
-    ini: Optional[OpmFile] = None
-    egrid: Optional[OpmGrid] = None
-    smspec: Optional[OpmSummary] = None
+    sim: Path | None = None
+    unrst: OpmRestart | None = None
+    ini: OpmFile | None = None
+    egrid: OpmGrid | None = None
+    smspec: OpmSummary | None = None
     times: list[float] = field(default_factory=list)
-    times_summary: Optional[NDArray] = None
+    times_summary: NDArray | None = None
     time_initial: float = 0.0
-    porv: Optional[NDArray] = None
-    actind: Optional[NDArray] = None
-    gxyz: Optional[tuple[int, int, int]] = None
-    norst: Optional[int] = None
+    porv: NDArray | None = None
+    actind: NDArray | None = None
+    gxyz: tuple[int, int, int] | None = None
+    norst: int | None = None
 
     @property
     def nxz(self) -> NDArray:
@@ -84,7 +82,7 @@ class SparseResults:
     sealb: NDArray = field(init=False)
     sealt: NDArray = field(init=False)
     m_c_series: list[float] = field(default_factory=list)
-    m_c: Optional[NDArray] = None
+    m_c: NDArray | None = None
 
     def __post_init__(self) -> None:
         assert self.ctx.ini
@@ -136,7 +134,7 @@ def read_opm(ctx: SimulationContext) -> None:
     assert ctx.sim
     ctx.unrst = OpmRestart(f"{ctx.sim}.UNRST")
 
-    t0: Optional[float] = None
+    t0: float | None = None
     for i in range(len(ctx.unrst.report_steps)):
         t = SECONDS_IN_DAY * float(ctx.unrst["DOUBHEAD", i][0])
 
@@ -175,8 +173,9 @@ def create_from_summary(ctx: SimulationContext, res: SparseResults) -> None:
     """Extract sparse quantities from OPM summary vectors."""
     assert ctx.smspec
     smry = ctx.smspec
+    smry_keys = smry.keys()
 
-    bwpr = sorted(k for k in smry.keys() if k.startswith("BWPR") and "," in k)[:2]
+    bwpr = sorted(k for k in smry_keys if k.startswith("BWPR") and "," in k)[:2]
 
     def initial_pressure(fip: int) -> float:
         assert ctx.unrst
diff --git a/src/pofff/jobs/delete.py b/src/pofff/jobs/delete.py
index 9463221..45d9c87 100755
--- a/src/pofff/jobs/delete.py
+++ b/src/pofff/jobs/delete.py
@@ -4,8 +4,8 @@
 
 """Script to delete large files"""
 
-from pathlib import Path
 import sys
+from pathlib import Path
 
 if Path("NOMONOTONIC").exists():
     sys.exit(0)
diff --git a/src/pofff/jobs/metric.py b/src/pofff/jobs/metric.py
index 1139552..fb5fd54 100755
--- a/src/pofff/jobs/metric.py
+++ b/src/pofff/jobs/metric.py
@@ -8,9 +8,10 @@
 import argparse
 import os
 import sys
+
 import numpy as np
-from numpy.typing import NDArray
 import ot
+from numpy.typing import NDArray
 from PIL import Image
 
 
diff --git a/src/pofff/utils/inputvalues.py b/src/pofff/utils/inputvalues.py
index b55c9a4..53da72b 100644
--- a/src/pofff/utils/inputvalues.py
+++ b/src/pofff/utils/inputvalues.py
@@ -5,6 +5,7 @@
 
 import tomllib
 from pathlib import Path
+
 import numpy as np
 
 from pofff.config.config import CliConfig, PofffConfig
diff --git a/src/pofff/utils/mapproperties.py b/src/pofff/utils/mapproperties.py
index 5a23715..a9681ef 100644
--- a/src/pofff/utils/mapproperties.py
+++ b/src/pofff/utils/mapproperties.py
@@ -5,18 +5,19 @@
 """Utility functions for grid generation and spatial indexing
 in geological FluidFlower-style models."""
 
-import sys
 import csv
 import shutil
-from pathlib import Path
+import sys
 from contextlib import nullcontext
+from pathlib import Path
+
 import numpy as np
+from alive_progress import alive_bar
 from numpy.typing import NDArray
 from shapely.geometry import Point, Polygon
-from alive_progress import alive_bar
 
-from pofff.utils.writefile import create_corner_point_grid
 from pofff.config.config import PofffConfig
+from pofff.utils.writefile import create_corner_point_grid
 
 
 def grid_and_properties(cfg: PofffConfig) -> None:
@@ -53,8 +54,8 @@ def tensor(parts, dim):
         cfg.nxz = [len(xvert) - 1, len(zvert) - 1]
     xcent = 0.5 * (xvert[:-1] + xvert[1:])
     zcent = 0.5 * (zvert[:-1] + zvert[1:])
-    setattr(cfg, "dx", xvert[1:] - xvert[:-1])
-    setattr(cfg, "dz", zvert[1:] - zvert[:-1])
+    cfg.dx = list(xvert[1:] - xvert[:-1])
+    cfg.dz = list(zvert[1:] - zvert[:-1])
     positions(cfg, polygons, xcent=xcent, zcent=zcent)
     if cfg.grid == "tensor":
         cfg.dx = list(map(str, xvert[1:] - xvert[:-1]))
diff --git a/src/pofff/utils/runs.py b/src/pofff/utils/runs.py
index 73bd93c..103d1c3 100644
--- a/src/pofff/utils/runs.py
+++ b/src/pofff/utils/runs.py
@@ -4,14 +4,14 @@
 """Utility functions for running simulations, processing data,
 and generating benchmark plots."""
 
-from pathlib import Path
 import subprocess
-from typing import Sequence
+from collections.abc import Sequence
+from pathlib import Path
 
 from pofff.config.config import PofffConfig
 from pofff.visualization.benchmark import run_benchmark
-from pofff.visualization.everert import run_everert
 from pofff.visualization.error_table import run_error_table
+from pofff.visualization.everert import run_everert
 from pofff.visualization.maps import run_maps
 
 
diff --git a/src/pofff/utils/writefile.py b/src/pofff/utils/writefile.py
index 5cfc558..de3fc5f 100644
--- a/src/pofff/utils/writefile.py
+++ b/src/pofff/utils/writefile.py
@@ -6,8 +6,10 @@
 
 import os
 import subprocess
-from mako.template import Template
+from itertools import pairwise
+
 import numpy as np
+from mako.template import Template
 from numpy.typing import NDArray
 
 from pofff.config.config import PofffConfig
@@ -186,7 +188,7 @@ def render_monotonic(cfg: PofffConfig) -> None:
     inc_lines = []
     for name in inc_names:
         keys = [f"{name}{i}" for i in range(1, 8) if f"{name}{i}" in cfg.hm]
-        for prev, cur in zip(keys, keys[1:]):
+        for prev, cur in pairwise(keys):
             inc_lines.append(
                 f"if coef['{prev}'] < coef['{cur}']:\n" f"    nomonotonic = True"
             )
@@ -194,7 +196,7 @@ def render_monotonic(cfg: PofffConfig) -> None:
     dec_lines = []
     for name in dec_names:
         keys = [f"{name}{i}" for i in reversed(range(1, 8)) if f"{name}{i}" in cfg.hm]
-        for prev, cur in zip(keys, keys[1:]):
+        for prev, cur in pairwise(keys):
             dec_lines.append(
                 f"if coef['{prev}'] < coef['{cur}']:\n" f"    nomonotonic = True"
             )
@@ -352,16 +354,12 @@ def render_flow(cfg: PofffConfig) -> None:
 
     delete_block = ""
     if cfg.delete:
-        delete_block = "\n".join(
-            [
-                (
-                    '    for suff in ["INC", "EGRID", "DBG", "PRT", "SMSPEC", "UNRST", '
-                    '"UNSMRY", "INIT", "ESMRY", "DATA"]:'
-                ),
-                '        os.system(f"rm -rf *.{suff}")',
-                '    for pref in ["thickness_eval","metr_eval","safu_eval","poro_eval"]:',
-                '        os.system(f"rm -rf {pref}.*")',
-            ]
+        delete_block = (
+            '    for suff in ["INC", "EGRID", "DBG", "PRT", "SMSPEC", "UNRST", '
+            '"UNSMRY", "INIT", "ESMRY", "DATA"]:\n'
+            '        os.system(f"rm -rf *.{suff}")\n'
+            '    for pref in ["thickness_eval","metr_eval","safu_eval","poro_eval"]:\n'
+            '        os.system(f"rm -rf {pref}.*")'
         )
 
     tmpl = Template(filename=f"{cfg.path}/templates/flow.mako")
@@ -601,15 +599,10 @@ def render_everest(cfg: PofffConfig) -> None:
 
     install_jobs_block = (
         (
-            "\n".join(
-                [
-                    "  - name: scale",
-                    "    executable: jobs/scale.py",
-                    "  - name: monotonic",
-                    "    executable: jobs/monotonic.py",
-                ]
-            )
-            + "\n"
+            "  - name: scale\n"
+            "    executable: jobs/scale.py\n"
+            "  - name: monotonic\n"
+            "    executable: jobs/monotonic.py\n"
         )
         if cfg.monotonic
         else ""
@@ -630,7 +623,7 @@ def render_everest(cfg: PofffConfig) -> None:
     )
 
     forward_block = (
-        (("\n".join(["  - scale", "  - monotonic"]) + "\n") if cfg.monotonic else "")
+        ("  - scale\n  - monotonic\n" if cfg.monotonic else "")
         + "\n".join(
             [
                 "  - copyd",
diff --git a/src/pofff/visualization/benchmark.py b/src/pofff/visualization/benchmark.py
old mode 100644
new mode 100755
index 0c5102d..b974d3f
--- a/src/pofff/visualization/benchmark.py
+++ b/src/pofff/visualization/benchmark.py
@@ -6,8 +6,8 @@
 
 import argparse
 import shutil
-import sys
 import subprocess
+import sys
 from pathlib import Path
 
 import matplotlib
diff --git a/src/pofff/visualization/error_table.py b/src/pofff/visualization/error_table.py
old mode 100644
new mode 100755
index d960630..a7b436c
--- a/src/pofff/visualization/error_table.py
+++ b/src/pofff/visualization/error_table.py
@@ -6,8 +6,9 @@
 """Quantify errors between simulation results and experimental data
 and summarize them in a comparison table."""
 
-import os
 import argparse
+import os
+
 import numpy as np
 
 NUM_EXPERIMENTS = 5  # Number of experimental realizations
diff --git a/src/pofff/visualization/everert.py b/src/pofff/visualization/everert.py
old mode 100644
new mode 100755
index 8cf825d..28dff14
--- a/src/pofff/visualization/everert.py
+++ b/src/pofff/visualization/everert.py
@@ -15,11 +15,10 @@
 import subprocess
 from dataclasses import dataclass, field
 from pathlib import Path
-from typing import List
 
-import numpy as np
 import matplotlib
 import matplotlib.pyplot as plt
+import numpy as np
 from matplotlib.ticker import MaxNLocator
 
 
@@ -29,7 +28,7 @@ class Config:
 
     path: Path
     times: str
-    jobs: List[str]
+    jobs: list[str]
     external: Path
     run: str
     maps: Path
@@ -46,31 +45,31 @@ class EnsembleState:
     n_i: int
     no_obs: int
     no_para: int
-    simulations: List[List[list]] = field(default_factory=list)
-    sim_ens: List[List[float]] = field(default_factory=list)
-    miss_ens: List[List[float]] = field(default_factory=list)
-    par_dis: List[List[float]] = field(default_factory=list)
-    idrealisation: List[List[int]] = field(default_factory=list)
-    num_ens: List[int] = field(default_factory=list)
-    cumulative: List[List[List[float]]] = field(default_factory=list)
+    simulations: list[list[list]] = field(default_factory=list)
+    sim_ens: list[list[float]] = field(default_factory=list)
+    miss_ens: list[list[float]] = field(default_factory=list)
+    par_dis: list[list[float]] = field(default_factory=list)
+    idrealisation: list[list[int]] = field(default_factory=list)
+    num_ens: list[int] = field(default_factory=list)
+    cumulative: list[list[list[float]]] = field(default_factory=list)
     para_file: Path | None = None
-    para_names: List[str] = field(default_factory=list)
+    para_names: list[str] = field(default_factory=list)
 
 
 @dataclass
 class OptimizationState:
     """Tracks optimization progress and outcomes."""
 
-    optimization: List[float] = field(default_factory=list)
+    optimization: list[float] = field(default_factory=list)
     optimal_value: float = -np.inf
     ind_batch: int = 0
     ind_sim: int = 0
     tot_eval: int = 0
-    s: List[List[int]] = field(default_factory=lambda: [[], [], []])
-    x: List[int] = field(default_factory=lambda: [0, 0, 0])
+    s: list[list[int]] = field(default_factory=lambda: [[], [], []])
+    x: list[int] = field(default_factory=lambda: [0, 0, 0])
 
 
-def run(cmd: List[str]) -> None:
+def run(cmd: list[str]) -> None:
     """Execute external command and abort on failure."""
     subprocess.run(cmd, check=True)
 
diff --git a/src/pofff/visualization/maps.py b/src/pofff/visualization/maps.py
old mode 100644
new mode 100755
index 8072db0..81afa4e
--- a/src/pofff/visualization/maps.py
+++ b/src/pofff/visualization/maps.py
@@ -6,11 +6,12 @@
 """Overlay simulated spatial maps with experimental contour boundaries."""
 
 import argparse
-import shutil
 import csv
-import numpy as np
+import shutil
+
 import matplotlib
 import matplotlib.pyplot as plt
+import numpy as np
 from matplotlib import colors
 
 DX = 1.0e-2  # Grid spacing [m]
diff --git a/src/pofff/visualization/sparse_values.py b/src/pofff/visualization/sparse_values.py
old mode 100644
new mode 100755
index 7a51267..c672578
--- a/src/pofff/visualization/sparse_values.py
+++ b/src/pofff/visualization/sparse_values.py
@@ -6,6 +6,7 @@
 
 import sys
 from pathlib import Path
+
 import numpy as np
 
 SECONDS_PER_HOUR = 3600
diff --git a/tests/test_a_main.py b/tests/test_a_main.py
index d9968bb..ec6d741 100644
--- a/tests/test_a_main.py
+++ b/tests/test_a_main.py
@@ -3,11 +3,12 @@
 
 """Test the configuration files"""
 
-from pathlib import Path
 import shutil
+from pathlib import Path
+
 import numpy as np
-from opm.io.ecl import EGrid as OpmGrid
 from opm.io.ecl import EclFile as OpmFile
+from opm.io.ecl import EGrid as OpmGrid
 
 from pofff.core.pofff import main
 
diff --git a/tests/test_b_grid.py b/tests/test_b_grid.py
index 3635d42..d862336 100644
--- a/tests/test_b_grid.py
+++ b/tests/test_b_grid.py
@@ -3,8 +3,8 @@
 
 """Test the ert functionality via the configuration file"""
 
-from pathlib import Path
 import subprocess
+from pathlib import Path
 
 
 def test_b_grid(tmp_path, monkeypatch):
diff --git a/tests/test_c_data.py b/tests/test_c_data.py
index 8dfff95..60fc601 100644
--- a/tests/test_c_data.py
+++ b/tests/test_c_data.py
@@ -3,8 +3,8 @@
 
 """Test the functionality of the data generation"""
 
-from pathlib import Path
 import shutil
+from pathlib import Path
 
 from pofff.jobs.data import main
 
diff --git a/tests/test_d_metric.py b/tests/test_d_metric.py
index 6391722..f674f15 100644
--- a/tests/test_d_metric.py
+++ b/tests/test_d_metric.py
@@ -3,8 +3,8 @@
 
 """Test the functionality of the metric evaluations"""
 
-from pathlib import Path
 import shutil
+from pathlib import Path
 
 from pofff.jobs.metric import main
 
diff --git a/tests/test_e_ert.py b/tests/test_e_ert.py
index 8b7a92c..fccd7f4 100644
--- a/tests/test_e_ert.py
+++ b/tests/test_e_ert.py
@@ -3,8 +3,8 @@
 
 """Test the ert functionality via the configuration file"""
 
-from pathlib import Path
 import subprocess
+from pathlib import Path
 
 
 def test_e_ert(tmp_path, monkeypatch):
diff --git a/tests/test_f_everest.py b/tests/test_f_everest.py
index ac4d402..cd094b3 100644
--- a/tests/test_f_everest.py
+++ b/tests/test_f_everest.py
@@ -3,8 +3,8 @@
 
 """Test the everest functionality via the configuration file"""
 
-from pathlib import Path
 import subprocess
+from pathlib import Path
 
 
 def test_f_everest(tmp_path, monkeypatch):
diff --git a/tests/test_g_sparse.py b/tests/test_g_sparse.py
index d2e0e28..3da7b5a 100644
--- a/tests/test_g_sparse.py
+++ b/tests/test_g_sparse.py
@@ -3,8 +3,8 @@
 
 """Test the sparse data generation"""
 
-from pathlib import Path
 import shutil
+from pathlib import Path
 
 from pofff.visualization.sparse_values import main
 
diff --git a/tests/test_h_benchmark.py b/tests/test_h_benchmark.py
index c60af77..5b06925 100644
--- a/tests/test_h_benchmark.py
+++ b/tests/test_h_benchmark.py
@@ -3,8 +3,8 @@
 
 """Test the single functionality and plotting for the benchmark"""
 
-from pathlib import Path
 import subprocess
+from pathlib import Path
 
 
 def test_h_benchmark(tmp_path, monkeypatch):