coco-visualize 0.1.0a1__tar.gz

coco_visualize-0.1.0a1/.github/workflows/build-wheel.yml

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+name: Build wheels
+
+on:
+  push:
+    branches: [ "main" ]
+  pull_request:
+    branches: [ "main" ]
+
+jobs:
+  wheel:
+    runs-on: ubuntu-latest
+    steps:
+    - uses: actions/checkout@v4
+    - name: Set up Python
+      uses: actions/setup-python@v5
+      with:
+        python-version: "3.10"
+    - name: Install dependencies
+      run: python -m pip install --upgrade pip
+    - name: Build wheel
+      run: python -m pip wheel -w dist/ .
+    - name: Archive wheel
+      uses: actions/upload-artifact@v4
+      with:
+        name: python-wheel
+        path: dist/cocoviz*.whl

coco_visualize-0.1.0a1/.github/workflows/tag_release.yml

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+name: tag-release
+
+on:
+  push:
+    # Pattern matched against refs/tags
+    tags:        
+      - 'v*' # This includes only tags starting with v
+
+jobs:
+  build-source:
+    runs-on: ubuntu-latest
+    permissions:
+      contents: write
+      id-token: write
+    # Dedicated environments with protections for publishing are strongly recommended.
+    environment:
+      name: release
+      # OPTIONAL: uncomment and update to include your PyPI project URL in the deployment status:
+      # url: https://pypi.org/p/YOURPROJECT
+    steps:
+    - uses: actions/checkout@v4
+    - uses: actions/setup-python@v5
+      with:
+        python-version: "3.10"
+        cache: "pip"
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        python -m pip install build
+    - name: Build source Python package
+      run: python -m build -s -o dist .
+    - name: Publish release distributions to PyPI
+      uses: pypa/gh-action-pypi-publish@release/v1
+    - name: Release
+      uses: softprops/action-gh-release@v2
+      with:
+        files: |
+          ./dist/**
+
+

coco_visualize-0.1.0a1/.github/workflows/test.yml

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+name: Tests
+
+on:
+  push:
+  pull_request:
+    branches: [ "main" ]
+
+jobs:
+  test:
+    strategy:
+      fail-fast: false
+      matrix:
+        runs-on: [ubuntu-latest, macos-latest, windows-latest]
+        python-version: ["3.10", "3.11", "3.12"]
+    runs-on: ${{matrix.runs-on}}
+    steps:
+    - uses: actions/checkout@v4
+    - name: Set up Python ${{ matrix.python-version }}
+      uses: actions/setup-python@v5
+      with:
+        python-version: ${{ matrix.python-version }}
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        python -m pip install ruff pytest
+    - name: Install package
+      run: python -m pip install .
+    - name: Lint with ruff
+      run: ruff check --output-format=github .
+    - name: Run tests
+      run: python -m pytest tests/

coco_visualize-0.1.0a1/AUTHORS

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+In alphabetical order:
+
+- Dimo Brockhoff
+- Nikolaus Hansen
+- Olaf Mersmann
+- Tea Tušar

coco_visualize-0.1.0a1/LICENSE

@@ -0,0 +1,34 @@
+Copyright (c) by the NumBBO/CoCO team. See AUTHORS for more details.
+
+Some rights reserved. 
+
+### 3-clause BSD License ###
+
+Redistribution and use in source and binary forms of the software as well
+as documentation, with or without modification, are permitted provided
+that the following conditions are met:
+
+1. Redistributions of source code must retain the above copyright
+  notice, this list of conditions and the following disclaimer.
+
+2. 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.
+
+3. The names of the contributors may not be used to endorse or
+  promote products derived from this software without specific
+  prior written permission.
+
+THIS SOFTWARE AND DOCUMENTATION 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 OWNER
+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 AND DOCUMENTATION, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH
+DAMAGE.

coco_visualize-0.1.0a1/MANIFEST.in

@@ -0,0 +1,4 @@
+graft test
+# Build artifacts not meant for source distribution
+global-exclude *.pyc
+global-exclude __pycache__

coco_visualize-0.1.0a1/PKG-INFO

@@ -0,0 +1,39 @@
+Metadata-Version: 2.1
+Name: coco-visualize
+Version: 0.1.0a1
+Summary: Standalone COCO visualization toolbox
+Author-email: Dimo Brockhoff <dimo.brockhoff@inria.fr>, Nikolaus Hansen <nikolaus.hansen@inria.fr>, Olaf Mersmann <olafm@p-value.net>, Tea Tušar <tea.tusar@ijs.si>
+License: BSD-3-Clause
+Project-URL: Homepage, https://github.com/numbbo/coco
+Project-URL: Documentation, https://numbbo.github.io/coco-doc/apidocs/cocoex/
+Project-URL: Issues, https://github.com/numbbo/coco/issues
+Classifier: Development Status :: 4 - Beta
+Classifier: License :: OSI Approved :: BSD License
+Classifier: Programming Language :: Python
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Programming Language :: Python :: 3.11
+Classifier: Programming Language :: Python :: 3.12
+Classifier: Programming Language :: Python :: Implementation :: CPython
+Requires-Python: >=3.10
+Description-Content-Type: text/markdown
+License-File: LICENSE
+License-File: AUTHORS
+Requires-Dist: numpy>=2.0
+Requires-Dist: polars>=0.20
+Requires-Dist: matplotlib>=3.7
+Requires-Dist: scipy>=1.14.0
+
+<h1 align="center">
+<img src="https://raw.githubusercontent.com/numbbo/coco-visualize/main/cocoviz.svg" width="400">
+</h1><br>
+
+[![PyPI Downloads](https://img.shields.io/pypi/dm/coco-visualize.svg?label=PyPI%20downloads)](https://pypi.org/project/coco-visualize/)
+[![GitHub Issues](https://img.shields.io/github/issues/numbbo/coco-visualize)](https://github.com/numbbo/coco-visualize/issues)
+![GitHub Repo stars](https://img.shields.io/github/stars/numbbo/coco-visualize?style=flat)
+
+`cocoviz` is a minimalist visualization toolkit for benchmark experiments.
+
+- **Website:** https://numbbo.github.io
+- **Source code:** https://github.com/numbbo/coco-visualize/
+- **Contributing:** https://github.com/numbbo/coco-visualize/pulls
+- **Bug reports:** https://github.com/numbbo/coco-visualize/issues

coco_visualize-0.1.0a1/README.md

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+<h1 align="center">
+<img src="https://raw.githubusercontent.com/numbbo/coco-visualize/main/cocoviz.svg" width="400">
+</h1><br>
+
+[![PyPI Downloads](https://img.shields.io/pypi/dm/coco-visualize.svg?label=PyPI%20downloads)](https://pypi.org/project/coco-visualize/)
+[![GitHub Issues](https://img.shields.io/github/issues/numbbo/coco-visualize)](https://github.com/numbbo/coco-visualize/issues)
+![GitHub Repo stars](https://img.shields.io/github/stars/numbbo/coco-visualize?style=flat)
+
+`cocoviz` is a minimalist visualization toolkit for benchmark experiments.
+
+- **Website:** https://numbbo.github.io
+- **Source code:** https://github.com/numbbo/coco-visualize/
+- **Contributing:** https://github.com/numbbo/coco-visualize/pulls
+- **Bug reports:** https://github.com/numbbo/coco-visualize/issues

coco_visualize-0.1.0a1/cocoviz.svg

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coco_visualize-0.1.0a1/example.ipynb

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+{
+ "cells": [
+  {
+   "cell_type": "markdown",
+   "id": "cedd9575-a97a-4c77-82ed-67e8bedfc64b",
+   "metadata": {},
+   "source": [
+    "If you haven't installed `coco-visualize` yet, run the cell below. \n",
+    "It runs `pip install -U coco-visualize` from inside the notebook. \n",
+    "You could also run the above command in a terminal."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "83109af5-159c-4d5c-9acf-a4ba7af1bd18",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "import sys\n",
+    "print(f\"Installing `coco-visualize` for {sys.executable}.\")\n",
+    "!\"{sys.executable}\" -m pip install -U coco-visualize"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "ac5d1ded-be32-4d3a-a8e1-4099e17322a6",
+   "metadata": {},
+   "source": [
+    "Now we are ready to load all the required libraries."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "7a828d09-1ddf-43c9-b4d3-4f5d6f8e7fbd",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "import itertools\n",
+    "import pandas as pd\n",
+    "import matplotlib.pyplot as plt\n",
+    "\n",
+    "from tqdm.auto import tqdm\n",
+    "from pathlib import Path\n",
+    "from cocoviz import ProblemDescription, Result, ResultSet, Indicator, rtpplot\n",
+    "\n",
+    "DATA_DIR = Path(\"data/\")"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "bb372e9b-88a0-418f-8e8f-99ba0e6906b9",
+   "metadata": {},
+   "source": [
+    "# Load demo results\n",
+    "\n",
+    "Here we are going to look at some data where we ran `MOEAD`, `NSGA-II`, and `GDE3` three times on `ZDT[1..4,6]` with 10 or 30 dimensions.\n",
+    "The data is hosted in an S3 bucket and needs to be downloaded the first time you run the notebook. \n",
+    "Afterwards it is stored locally in Parquet files.\n",
+    "\n",
+    "Let us define all results we expect to find:"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "69eea50f-9550-41f2-bc6f-97b92066fdfe",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "ALGORITHMS = [\"MOEAD\", \"NSGA-II\", \"GDE3\"]\n",
+    "FUNCTIONS = [\"ZDT1\", \"ZDT2\", \"ZDT3\", \"ZDT4\", \"ZDT6\"]\n",
+    "VARS = [10, 30]\n",
+    "RUN = [1, 2, 3]\n",
+    "ALL_RESULTS = list(itertools.product(ALGORITHMS, FUNCTIONS, VARS, RUN))"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "ae7e5d13-42d5-4239-afba-552e9424fc10",
+   "metadata": {},
+   "source": [
+    "Now we can iterate over the expected results, load them from the local Parquet file if present or download them otherwise.\n",
+    "This shows you both how to load data from a CSV file as well as quickly reloading data from binary files."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "83f94523-b7f2-436f-b152-0894e20353e4",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "results = ResultSet()\n",
+    "\n",
+    "for alg, fn, var, run in tqdm(ALL_RESULTS):\n",
+    "    LOCAL = Path(f\"result-{alg}_{fn}_{var}_{run}.parquet\")\n",
+    "    if not LOCAL.exists(): # Need to fetch results over the network\n",
+    "        URL = f\"https://cocoviz-demo-data.s3.us-west-000.backblazeb2.com/{alg}_{fn}_vars={var}_run={run}.csv\"        \n",
+    "        data = pd.read_csv(URL)\n",
+    "        # Add artifical performance indicator that must be minimized\n",
+    "        data[\"neg_hv\"] = -data[\"Hypervolume\"]\n",
+    "                \n",
+    "        problem = ProblemDescription(fn, 1, var, 2)\n",
+    "        result = Result(alg, problem, data, \"Evaluations\")\n",
+    "        result.to_parquet(LOCAL)\n",
+    "    \n",
+    "    results.append(Result.from_parquet(LOCAL))"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "440a95d7-aa07-41dd-a2ff-3a3ba0eba993",
+   "metadata": {},
+   "source": [
+    "# Create a runtime profile plot each problem in the result set"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "17f1ebd9-c24f-4459-9407-d564db0582ef",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "number_of_targets = 101\n",
+    "\n",
+    "INDICATOR = [\n",
+    "    Indicator(\"Hypervolume\", larger_is_better=True),\n",
+    "    Indicator(\"neg_hv\", larger_is_better=False)    \n",
+    "]\n",
+    "\n",
+    "nvar = len(results.number_of_variables)\n",
+    "fig, axes = plt.subplots(nvar, 2, figsize=(12, 12))\n",
+    "for axrow, (d, result_subset) in zip(axes, results.by_number_of_variables()):\n",
+    "    for ax, ind in zip(axrow, INDICATOR):\n",
+    "        rtpplot(result_subset, ind, number_of_targets=number_of_targets, ax=ax)\n",
+    "        ax.set_title(f\"{ind.name} / {d} decision variables\")"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "a3c21ca7-220f-47a3-a7b0-3ba1cf0c2bb2",
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  }
+ ],
+ "metadata": {
+  "kernelspec": {
+   "display_name": "Python 3 (ipykernel)",
+   "language": "python",
+   "name": "python3"
+  },
+  "language_info": {
+   "codemirror_mode": {
+    "name": "ipython",
+    "version": 3
+   },
+   "file_extension": ".py",
+   "mimetype": "text/x-python",
+   "name": "python",
+   "nbconvert_exporter": "python",
+   "pygments_lexer": "ipython3",
+   "version": "3.12.4"
+  }
+ },
+ "nbformat": 4,
+ "nbformat_minor": 5
+}

coco_visualize-0.1.0a1/pyproject.toml

@@ -0,0 +1,59 @@
+[build-system]
+requires = [
+  "setuptools >= 67.0",
+  "setuptools-scm >= 8",
+  "wheel",
+]
+build-backend = "setuptools.build_meta"
+
+[project]
+name = "coco-visualize"
+authors = [
+  {name = "Dimo Brockhoff", email = "dimo.brockhoff@inria.fr" },
+  {name = "Nikolaus Hansen", email = "nikolaus.hansen@inria.fr" },
+  {name = "Olaf Mersmann", email = "olafm@p-value.net"},
+  {name = "Tea Tušar", email = "tea.tusar@ijs.si" },
+]
+description = 'Standalone COCO visualization toolbox'
+readme = "README.md"
+requires-python = ">=3.10"
+license = {text = "BSD-3-Clause"}
+classifiers = [
+  "Development Status :: 4 - Beta",
+  "License :: OSI Approved :: BSD License",
+  "Programming Language :: Python",
+  "Programming Language :: Python :: 3.10",
+  "Programming Language :: Python :: 3.11",
+  "Programming Language :: Python :: 3.12",
+  "Programming Language :: Python :: Implementation :: CPython",
+]
+dependencies = [ 
+  "numpy >= 2.0",
+  "polars >= 0.20",
+  "matplotlib >= 3.7",
+  "scipy >= 1.14.0"
+]
+dynamic = ["version"]
+
+[tool.setuptools_scm]
+version_file = "src/cocoviz/_version.py"
+
+[tool.setuptools.packages.find]
+where = ["src"]
+
+[tool.ruff]
+line-length = 120
+
+[tool.ruff.format]
+quote-style = "double"
+docstring-code-format = true
+docstring-code-line-length = 80
+
+[tool.pytest]
+log_cli = true
+addopts = "--doctest-modules"
+
+[project.urls]
+Homepage = "https://github.com/numbbo/coco"
+Documentation = "https://numbbo.github.io/coco-doc/apidocs/cocoex/"
+Issues = "https://github.com/numbbo/coco/issues"

coco_visualize-0.1.0a1/setup.cfg

@@ -0,0 +1,4 @@
+[egg_info]
+tag_build = 
+tag_date = 0
+

coco_visualize-0.1.0a1/src/coco_visualize.egg-info/PKG-INFO

@@ -0,0 +1,39 @@
+Metadata-Version: 2.1
+Name: coco-visualize
+Version: 0.1.0a1
+Summary: Standalone COCO visualization toolbox
+Author-email: Dimo Brockhoff <dimo.brockhoff@inria.fr>, Nikolaus Hansen <nikolaus.hansen@inria.fr>, Olaf Mersmann <olafm@p-value.net>, Tea Tušar <tea.tusar@ijs.si>
+License: BSD-3-Clause
+Project-URL: Homepage, https://github.com/numbbo/coco
+Project-URL: Documentation, https://numbbo.github.io/coco-doc/apidocs/cocoex/
+Project-URL: Issues, https://github.com/numbbo/coco/issues
+Classifier: Development Status :: 4 - Beta
+Classifier: License :: OSI Approved :: BSD License
+Classifier: Programming Language :: Python
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Programming Language :: Python :: 3.11
+Classifier: Programming Language :: Python :: 3.12
+Classifier: Programming Language :: Python :: Implementation :: CPython
+Requires-Python: >=3.10
+Description-Content-Type: text/markdown
+License-File: LICENSE
+License-File: AUTHORS
+Requires-Dist: numpy>=2.0
+Requires-Dist: polars>=0.20
+Requires-Dist: matplotlib>=3.7
+Requires-Dist: scipy>=1.14.0
+
+<h1 align="center">
+<img src="https://raw.githubusercontent.com/numbbo/coco-visualize/main/cocoviz.svg" width="400">
+</h1><br>
+
+[![PyPI Downloads](https://img.shields.io/pypi/dm/coco-visualize.svg?label=PyPI%20downloads)](https://pypi.org/project/coco-visualize/)
+[![GitHub Issues](https://img.shields.io/github/issues/numbbo/coco-visualize)](https://github.com/numbbo/coco-visualize/issues)
+![GitHub Repo stars](https://img.shields.io/github/stars/numbbo/coco-visualize?style=flat)
+
+`cocoviz` is a minimalist visualization toolkit for benchmark experiments.
+
+- **Website:** https://numbbo.github.io
+- **Source code:** https://github.com/numbbo/coco-visualize/
+- **Contributing:** https://github.com/numbbo/coco-visualize/pulls
+- **Bug reports:** https://github.com/numbbo/coco-visualize/issues