From 4fefcd6d2733e945d349643c8c5369abb6a1c264 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 30 Apr 2025 15:49:43 -0500 Subject: [PATCH 01/49] bump pydantic versions --- .github/workflows/basic.yml | 10 +++++----- .github/workflows/extra.yml | 22 +++++++++++----------- 2 files changed, 16 insertions(+), 16 deletions(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index 7a008367d..62491b5dd 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -18,28 +18,28 @@ jobs: os: [ubuntu-latest] mpi-version: [mpich] python-version: ["3.10", "3.11", "3.12", "3.13"] - pydantic-version: ["2.10.6"] + pydantic-version: ["2.11.4"] comms-type: [m, l] include: - os: macos-latest python-version: "3.11" mpi-version: mpich - pydantic-version: "2.10.6" + pydantic-version: "2.11.4" comms-type: m - os: macos-latest python-version: "3.11" mpi-version: mpich - pydantic-version: "2.10.6" + pydantic-version: "2.11.4" comms-type: l - os: ubuntu-latest mpi-version: mpich python-version: "3.10" - pydantic-version: "1.10.21" + pydantic-version: "1.10.22" comms-type: m - os: ubuntu-latest mpi-version: mpich python-version: "3.10" - pydantic-version: "1.10.21" + pydantic-version: "1.10.22" comms-type: l env: diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index e9b0275dd..605a73a3f 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -12,38 +12,38 @@ jobs: os: [ubuntu-latest] mpi-version: [mpich] python-version: ['3.10', '3.11', '3.12', '3.13'] - pydantic-version: ['2.10.6'] + pydantic-version: ['2.11.4'] comms-type: [m, l] include: - os: macos-latest python-version: '3.13' mpi-version: mpich - pydantic-version: '2.10.6' + pydantic-version: '2.11.4' comms-type: m - os: macos-latest python-version: '3.13' mpi-version: mpich - pydantic-version: '2.10.6' + pydantic-version: '2.11.4' comms-type: l - os: ubuntu-latest python-version: '3.12' mpi-version: mpich - pydantic-version: '2.10.6' + pydantic-version: '2.11.4' comms-type: t - os: ubuntu-latest mpi-version: 'openmpi' - pydantic-version: '2.10.6' + pydantic-version: '2.11.4' python-version: '3.12' comms-type: l - os: ubuntu-latest mpi-version: mpich python-version: '3.12' - pydantic-version: '1.10.21' + pydantic-version: '1.10.22' comms-type: m - os: ubuntu-latest mpi-version: mpich python-version: '3.12' - pydantic-version: '1.10.21' + pydantic-version: '1.10.22' comms-type: l env: @@ -111,7 +111,7 @@ jobs: pip install scikit-build packaging - name: Install Balsam on Pydantic 1 - if: matrix.pydantic-version == '1.10.21' + if: matrix.pydantic-version == '1.10.22' run: | conda install pyzmq git clone https://github.com/argonne-lcf/balsam.git @@ -139,18 +139,18 @@ jobs: rm ./libensemble/tests/regression_tests/test_gpCAM.py # needs gpcam, which doesn't build on 3.13 - name: Install redis/proxystore on Pydantic 2 - if: matrix.pydantic-version == '2.10.6' + if: matrix.pydantic-version == '2.11.4' run: | pip install redis pip install proxystore==0.7.0 - name: Remove proxystore test on Pydantic 1 - if: matrix.pydantic-version == '1.10.21' + if: matrix.pydantic-version == '1.10.22' run: | rm ./libensemble/tests/regression_tests/test_proxystore_integration.py - name: Remove Balsam/Globus-compute tests on Pydantic 2 - if: matrix.pydantic-version == '2.10.6' + if: matrix.pydantic-version == '2.11.4' run: | rm ./libensemble/tests/unit_tests/test_ufunc_runners.py rm ./libensemble/tests/unit_tests/test_executor_balsam.py From 6f014b13e2c3054d12a336a6ea099413b974d35b Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 30 Apr 2025 16:01:24 -0500 Subject: [PATCH 02/49] try simplifying basic.yml github actions file with pixi --- .github/workflows/basic.yml | 39 +++++-------------------------------- 1 file changed, 5 insertions(+), 34 deletions(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index 62491b5dd..d9e43b0ec 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -53,45 +53,16 @@ jobs: steps: - uses: actions/checkout@v4 - - name: Setup conda - Python ${{ matrix.python-version }} - uses: conda-incubator/setup-miniconda@v3 + - uses: prefix-dev/setup-pixi@v0.8.3 with: - activate-environment: condaenv - miniconda-version: "latest" - python-version: ${{ matrix.python-version }} - channels: conda-forge - channel-priority: flexible - auto-update-conda: true - - - name: Force-update certifi and pip - run: | - python --version - python -m pip install --upgrade pip - python -m pip install -I --upgrade certifi - - - name: Install Ubuntu compilers - if: matrix.os == 'ubuntu-latest' - run: | - conda install gcc_linux-64 - pip install nlopt==2.9.0 - - # Roundabout solution on macos for proper linking with mpicc - - name: Install macOS compilers - if: matrix.os == 'macos-latest' - run: | - conda install clang_osx-64 - pip install nlopt==2.8.0 + pixi-version: v0.46.0 + cache: true + environments: "dev" + activate-environment: "dev" - name: Install basic testing/feature dependencies run: | - pip install -r install/testing_requirements.txt - pip install -r install/misc_feature_requirements.txt source install/install_ibcdfo.sh - conda install numpy scipy - - - name: Install mpi4py and MPI from conda - run: | - conda install mpi4py ${{ matrix.mpi-version }} - name: Install libEnsemble, test flake8 run: | From 2d7871eb6758342008d4266bd02f2e0179276981 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 30 Apr 2025 16:02:51 -0500 Subject: [PATCH 03/49] add pixi.lock --- pixi.lock | 8113 +++++++++++++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 8113 insertions(+) create mode 100644 pixi.lock diff --git a/pixi.lock b/pixi.lock new file mode 100644 index 000000000..d5360362d --- /dev/null +++ b/pixi.lock @@ -0,0 +1,8113 @@ +version: 6 +environments: + default: + channels: + - url: https://conda.anaconda.org/conda-forge/ + indexes: + - https://pypi.org/simple + packages: + linux-64: + - conda: https://conda.anaconda.org/conda-forge/linux-64/_libgcc_mutex-0.1-conda_forge.tar.bz2 + - conda: https://conda.anaconda.org/conda-forge/linux-64/_openmp_mutex-4.5-2_gnu.tar.bz2 + - conda: https://conda.anaconda.org/conda-forge/noarch/annotated-types-0.7.0-pyhd8ed1ab_1.conda + - conda: https://conda.anaconda.org/conda-forge/linux-64/bzip2-1.0.8-h4bc722e_7.conda + - 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name: Run simple tests, macOS if: matrix.os == 'macos-latest' run: | + pip install rich ./libensemble/tests/run_tests.py -A "-W error" -${{ matrix.comms-type }} - name: Merge coverage From 120ac91117fd972b96a79cb15296b907fe09ae34 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 30 Apr 2025 16:19:21 -0500 Subject: [PATCH 08/49] maybe try pixi run for macos --- .github/workflows/basic.yml | 3 +-- 1 file changed, 1 insertion(+), 2 deletions(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index 9b31771c4..9e3caf455 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -84,8 +84,7 @@ jobs: - name: Run simple tests, macOS if: matrix.os == 'macos-latest' run: | - pip install rich - ./libensemble/tests/run_tests.py -A "-W error" -${{ matrix.comms-type }} + pixi run -e dev ./libensemble/tests/run_tests.py -A "-W error" -${{ matrix.comms-type }} - name: Merge coverage run: | From ddb7cc34a451a0124329bcbde7beb3f2def8560c Mon Sep 17 00:00:00 2001 From: jlnav Date: Thu, 1 May 2025 09:29:11 -0500 Subject: [PATCH 09/49] try running ibcdfo install via pixi run --- .github/workflows/basic.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index 9e3caf455..a2c6f10d9 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -63,7 +63,7 @@ jobs: - name: Install basic testing/feature dependencies run: | - source install/install_ibcdfo.sh + pixi run -e dev ./install/install_ibcdfo.sh - name: Install libEnsemble, test flake8 run: | From b6f358348ea2c12e7e779d40cb7a8f136d73649d Mon Sep 17 00:00:00 2001 From: jlnav Date: Fri, 2 May 2025 12:09:25 -0500 Subject: [PATCH 10/49] lockfile adjust --- pixi.lock | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/pixi.lock b/pixi.lock index 285621df7..20d667a9d 100644 --- a/pixi.lock +++ b/pixi.lock @@ -3342,7 +3342,7 @@ packages: - pypi: . name: libensemble version: 1.5.0+dev - sha256: b382f993661013a18d63478abbc4d8627085a4caa3ca654327bbd4b0095b36a5 + sha256: a69ede470e6f435addd3351ac52d9681a592fea2480621b2d477a521ed5e93a7 requires_dist: - numpy - psutil From 77ae61b11c74abaed4a85c10b2c570c8367a385d Mon Sep 17 00:00:00 2001 From: jlnav Date: Thu, 8 May 2025 09:39:22 -0500 Subject: [PATCH 11/49] lock nlopt to previously-used-on-ci version --- pixi.lock | 48 ++++++++++++++++++++++++------------------------ pyproject.toml | 2 +- 2 files changed, 25 insertions(+), 25 deletions(-) diff --git a/pixi.lock b/pixi.lock index 20d667a9d..ba9d68c0c 100644 --- a/pixi.lock +++ b/pixi.lock @@ -350,7 +350,7 @@ environments: - 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timestamp: 1742433432699 +version https://git-lfs.github.com/spec/v1 +oid sha256:0d9768a0314d493e55440d71ab46992cc6ad417e5ef0b3fc71d76fcf60f23878 +size 857728 diff --git a/pyproject.toml b/pyproject.toml index 098f87798..f85075b76 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -72,6 +72,7 @@ mock = ">=5.1.0,<6" python-dateutil = ">=2.9.0.post0,<3" rich = ">=13.9.4,<14" pre-commit = ">=4.1.0,<5" +git-lfs = ">=3.6.1,<4" [tool.pixi.feature.basic.dependencies] mpi = ">=1.0.1,<2" From 24899371ba8bdb46a472943b3e88f0b726dcb6ff Mon Sep 17 00:00:00 2001 From: jlnav Date: Fri, 9 May 2025 15:11:26 -0500 Subject: [PATCH 15/49] explicit step to checkout lockfile in CI --- .github/workflows/basic.yml | 6 ++++++ 1 file changed, 6 insertions(+) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index 9b897d386..c08d259a6 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -53,6 +53,12 @@ jobs: steps: - uses: actions/checkout@v4 + with: + lfs: true + + - name: Checkout lockfile + run: git lfs checkout + - uses: prefix-dev/setup-pixi@v0.8.8 with: pixi-version: v0.45.0 From 2f40de1185dbab5d4aefbfc18e61b3cceadce03e Mon Sep 17 00:00:00 2001 From: jlnav Date: Fri, 9 May 2025 16:16:31 -0500 Subject: [PATCH 16/49] in turn, try simplifying dependency install in extra-ci --- .github/workflows/basic.yml | 2 +- .github/workflows/extra.yml | 77 ++++++++++--------------------------- pyproject.toml | 17 ++++---- 3 files changed, 30 insertions(+), 66 deletions(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index c08d259a6..7ee01bfd2 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -67,7 +67,7 @@ jobs: environments: "dev" activate-environment: "dev" - - name: Install basic testing/feature dependencies + - name: Install IBCDFO run: | pixi run -e dev ./install/install_ibcdfo.sh diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index e5de5b166..5ff8137f0 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -57,58 +57,24 @@ jobs: steps: - uses: actions/checkout@v4 - - name: Setup conda - Python ${{ matrix.python-version }} - uses: conda-incubator/setup-miniconda@v3 with: - activate-environment: condaenv - miniconda-version: 'latest' - python-version: ${{ matrix.python-version }} - channels: conda-forge - channel-priority: flexible - auto-update-conda: true - - - name: Force-update certifi - run: | - python --version - pip install -I --upgrade certifi - - - name: Install Ubuntu compilers - if: matrix.os == 'ubuntu-latest' - run: | - conda install gcc_linux-64 - pip install nlopt==2.9.0 + lfs: true - # Roundabout solution on macos for proper linking with mpicc - - name: Install macOS compilers - if: matrix.os == 'macos-latest' - run: | - conda install clang_osx-64 - pip install nlopt==2.8.0 + - name: Checkout lockfile + run: git lfs checkout - - name: Install mpi4py and MPI from conda - run: | - conda install mpi4py ${{ matrix.mpi-version }} - - - name: Install generator dependencies - run: | - conda env update --file install/gen_deps_environment.yml - - - name: Install gpcam and octave # Neither yet support 3.13 - if: matrix.python-version <= '3.12' - run: | - pip install gpcam - conda install octave + - uses: prefix-dev/setup-pixi@v0.8.8 + with: + pixi-version: v0.45.0 + cache: true + frozen: true + environments: "dev" + activate-environment: "dev" - - name: Install surmise and Tasmanian + - name: Install surmise if: matrix.os == 'ubuntu-latest' run: | pip install --upgrade git+https://github.com/bandframework/surmise.git - pip install Tasmanian --user - - - name: Install generator dependencies for Ubuntu tests - if: matrix.os == 'ubuntu-latest' && matrix.python-version <= '3.12' - run: | - pip install scikit-build packaging - name: Install Balsam on Pydantic 1 if: matrix.pydantic-version == '1.10.22' @@ -118,12 +84,9 @@ jobs: sed -i -e "s/pyzmq>=22.1.0,<23.0.0/pyzmq>=23.0.0,<24.0.0/" ./balsam/setup.cfg cd balsam; pip install -e .; cd .. - - name: Install other testing dependencies + - name: Install IBCDFO run: | - pip install -r install/testing_requirements.txt - pip install -r install/misc_feature_requirements.txt - source install/install_ibcdfo.sh - conda install numpy scipy + pixi run -e dev ./install/install_ibcdfo.sh - name: Install libEnsemble, flake8, lock environment run: | @@ -138,12 +101,6 @@ jobs: rm ./libensemble/tests/regression_tests/test_persistent_aposmm_external_localopt.py # needs octave, which doesn't yet support 3.13 rm ./libensemble/tests/regression_tests/test_gpCAM.py # needs gpcam, which doesn't build on 3.13 - - name: Install redis/proxystore on Pydantic 2 - if: matrix.pydantic-version == '2.11.4' - run: | - pip install redis - pip install proxystore==0.7.0 - - name: Remove proxystore test on Pydantic 1 if: matrix.pydantic-version == '1.10.22' run: | @@ -161,10 +118,16 @@ jobs: with: redis-version: 7 - - name: Run extensive tests + - name: Run extensive tests, Ubuntu + if: matrix.os == 'ubuntu-latest' run: | ./libensemble/tests/run_tests.py -e -${{ matrix.comms-type }} + - name: Run extensive tests, macOS + if: matrix.os == 'macos-latest' + run: | + pixi run -e dev ./libensemble/tests/run_tests.py -e -${{ matrix.comms-type }} + - name: Merge coverage run: | mv libensemble/tests/.cov* . diff --git a/pyproject.toml b/pyproject.toml index f85075b76..3c2a130dc 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -63,14 +63,6 @@ docs = ["docs", "basic"] dev = ["dev", "basic", "extra", "docs"] [tool.pixi.feature.dev.dependencies] -flake8 = ">=7.1.2,<8" -coverage = ">=7.6.12,<8" -pytest = ">=8.3.4,<9" -pytest-cov = ">=6.0.0,<7" -pytest-timeout = ">=2.3.1,<3" -mock = ">=5.1.0,<6" -python-dateutil = ">=2.9.0.post0,<3" -rich = ">=13.9.4,<14" pre-commit = ">=4.1.0,<5" git-lfs = ">=3.6.1,<4" @@ -81,6 +73,15 @@ mpi4py = ">=4.0.3,<5" nlopt = "==2.8.0" scipy = ">=1.15.2,<2" mpmath = ">=1.3.0,<2" +# "dev" dependencies to run basic.yml +flake8 = ">=7.1.2,<8" +coverage = ">=7.6.12,<8" +pytest = ">=8.3.4,<9" +pytest-cov = ">=6.0.0,<7" +pytest-timeout = ">=2.3.1,<3" +mock = ">=5.1.0,<6" +python-dateutil = ">=2.9.0.post0,<3" +rich = ">=13.9.4,<14" [tool.pixi.feature.extra.dependencies] ax-platform = ">=0.5.0,<0.6" From b5a7429bef84009045bbd698fa81b06387eabf2c Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 14 May 2025 10:53:43 -0500 Subject: [PATCH 17/49] experiment with github actions to describe lockfile updates in PR --- .github/workflows/update-lockfiles.yml | 36 ++++++++++++++++++++++++++ pixi.lock | 4 +-- 2 files changed, 38 insertions(+), 2 deletions(-) create mode 100644 .github/workflows/update-lockfiles.yml diff --git a/.github/workflows/update-lockfiles.yml b/.github/workflows/update-lockfiles.yml new file mode 100644 index 000000000..8b6abb92c --- /dev/null +++ b/.github/workflows/update-lockfiles.yml @@ -0,0 +1,36 @@ +name: Update lockfiles + +permissions: + contents: write + pull-requests: write + +on: + workflow_dispatch: + schedule: + - cron: 0 5 1 * * + +jobs: + pixi-update: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v4 + - name: Set up pixi + uses: prefix-dev/setup-pixi@v0.8.3 + with: + run-install: false + - name: Update lockfiles + run: | + set -o pipefail + pixi update --json | pixi exec pixi-diff-to-markdown >> diff.md + - name: Create pull request + uses: peter-evans/create-pull-request@v7 + with: + token: ${{ secrets.GITHUB_TOKEN }} + commit-message: Update pixi lockfile + title: Update pixi lockfile + body-path: diff.md + branch: update-pixi + base: main + labels: pixi + delete-branch: true + add-paths: pixi.lock diff --git a/pixi.lock b/pixi.lock index ce56f9743..9ed1c908f 100644 --- a/pixi.lock +++ b/pixi.lock @@ -1,3 +1,3 @@ version https://git-lfs.github.com/spec/v1 -oid sha256:0d9768a0314d493e55440d71ab46992cc6ad417e5ef0b3fc71d76fcf60f23878 -size 857728 +oid sha256:16bf243b816ec0df3294577cadbe0cc71ea3cbdd2f6fe5988b9fa82590270663 +size 871406 From 1f83fbba09d365b8a6fe3e483e0d95ea10108f83 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 14 May 2025 11:02:11 -0500 Subject: [PATCH 18/49] what happens if pixi.lock is removed? --- pixi.lock | 3 --- 1 file changed, 3 deletions(-) delete mode 100644 pixi.lock diff --git a/pixi.lock b/pixi.lock deleted file mode 100644 index 9ed1c908f..000000000 --- a/pixi.lock +++ /dev/null @@ -1,3 +0,0 @@ -version https://git-lfs.github.com/spec/v1 -oid sha256:16bf243b816ec0df3294577cadbe0cc71ea3cbdd2f6fe5988b9fa82590270663 -size 871406 From d09de8d362e07f9cb3ace261d69d2476e584f277 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 14 May 2025 11:03:04 -0500 Subject: [PATCH 19/49] try that without cache and frozen --- .github/workflows/basic.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index 7ee01bfd2..2ef46757a 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -62,8 +62,8 @@ jobs: - uses: prefix-dev/setup-pixi@v0.8.8 with: pixi-version: v0.45.0 - cache: true - frozen: true + # cache: true + # frozen: true environments: "dev" activate-environment: "dev" From c143109731f4a480a8e159bbe76e89e3dfb05408 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 14 May 2025 11:36:16 -0500 Subject: [PATCH 20/49] actions ran without lockfile thankfully, so remove git-lfs file and update-lockfiles action --- .gitattributes | 1 - .github/workflows/update-lockfiles.yml | 36 -------------------------- 2 files changed, 37 deletions(-) delete mode 100644 .gitattributes delete mode 100644 .github/workflows/update-lockfiles.yml diff --git a/.gitattributes b/.gitattributes deleted file mode 100644 index 40510bd73..000000000 --- a/.gitattributes +++ /dev/null @@ -1 +0,0 @@ -*.lock filter=lfs diff=lfs merge=lfs -text diff --git a/.github/workflows/update-lockfiles.yml b/.github/workflows/update-lockfiles.yml deleted file mode 100644 index 8b6abb92c..000000000 --- a/.github/workflows/update-lockfiles.yml +++ /dev/null @@ -1,36 +0,0 @@ -name: Update lockfiles - -permissions: - contents: write - pull-requests: write - -on: - workflow_dispatch: - schedule: - - cron: 0 5 1 * * - -jobs: - pixi-update: - runs-on: ubuntu-latest - steps: - - uses: actions/checkout@v4 - - name: Set up pixi - uses: prefix-dev/setup-pixi@v0.8.3 - with: - run-install: false - - name: Update lockfiles - run: | - set -o pipefail - pixi update --json | pixi exec pixi-diff-to-markdown >> diff.md - - name: Create pull request - uses: peter-evans/create-pull-request@v7 - with: - token: ${{ secrets.GITHUB_TOKEN }} - commit-message: Update pixi lockfile - title: Update pixi lockfile - body-path: diff.md - branch: update-pixi - base: main - labels: pixi - delete-branch: true - add-paths: pixi.lock From 3abb69b0afecb241a56c2ab9daf7ea07dd20e229 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 14 May 2025 11:45:39 -0500 Subject: [PATCH 21/49] now try basic-ci only install basic deps --- .github/workflows/basic.yml | 4 ++-- pyproject.toml | 2 +- 2 files changed, 3 insertions(+), 3 deletions(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index 2ef46757a..e5c1030e6 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -64,8 +64,8 @@ jobs: pixi-version: v0.45.0 # cache: true # frozen: true - environments: "dev" - activate-environment: "dev" + environments: "basic" + activate-environment: "basic" - name: Install IBCDFO run: | diff --git a/pyproject.toml b/pyproject.toml index 3c2a130dc..8b16b3094 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -82,6 +82,7 @@ pytest-timeout = ">=2.3.1,<3" mock = ">=5.1.0,<6" python-dateutil = ">=2.9.0.post0,<3" rich = ">=13.9.4,<14" +matplotlib = ">=3.10.1,<4" [tool.pixi.feature.extra.dependencies] ax-platform = ">=0.5.0,<0.6" @@ -99,7 +100,6 @@ sphinx_rtd_theme = ">=3.0.1,<4" sphinx-copybutton = ">=0.5.2,<0.6" sphinxcontrib-spelling = ">=8.0.1,<9" autodoc-pydantic = ">=2.1.0,<3" -matplotlib = ">=3.10.1,<4" [tool.pixi.feature.extra.target.linux-64.dependencies] petsc = ">=3.23.0,<4" From 73e8e98888cd83e484c52cc86416d0b02606b93d Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 14 May 2025 12:20:48 -0500 Subject: [PATCH 22/49] forgot to swap envs elsewhere --- .github/workflows/basic.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index e5c1030e6..f7862d45f 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -69,7 +69,7 @@ jobs: - name: Install IBCDFO run: | - pixi run -e dev ./install/install_ibcdfo.sh + pixi run -e basic ./install/install_ibcdfo.sh - name: Install libEnsemble, test flake8 run: | @@ -90,7 +90,7 @@ jobs: - name: Run simple tests, macOS if: matrix.os == 'macos-latest' run: | - pixi run -e dev ./libensemble/tests/run_tests.py -A "-W error" -${{ matrix.comms-type }} + pixi run -e basic ./libensemble/tests/run_tests.py -A "-W error" -${{ matrix.comms-type }} - name: Merge coverage run: | From 3320994806dbce4e7cc201e37065ba243b779978 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 14 May 2025 14:32:28 -0500 Subject: [PATCH 23/49] fixes in extra ci --- .github/workflows/extra.yml | 10 ++++------ 1 file changed, 4 insertions(+), 6 deletions(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index 5ff8137f0..e802cd950 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -66,10 +66,8 @@ jobs: - uses: prefix-dev/setup-pixi@v0.8.8 with: pixi-version: v0.45.0 - cache: true - frozen: true - environments: "dev" - activate-environment: "dev" + environments: "extra" + activate-environment: "extra" - name: Install surmise if: matrix.os == 'ubuntu-latest' @@ -86,7 +84,7 @@ jobs: - name: Install IBCDFO run: | - pixi run -e dev ./install/install_ibcdfo.sh + pixi run -e extra ./install/install_ibcdfo.sh - name: Install libEnsemble, flake8, lock environment run: | @@ -126,7 +124,7 @@ jobs: - name: Run extensive tests, macOS if: matrix.os == 'macos-latest' run: | - pixi run -e dev ./libensemble/tests/run_tests.py -e -${{ matrix.comms-type }} + pixi run -e extra ./libensemble/tests/run_tests.py -e -${{ matrix.comms-type }} - name: Merge coverage run: | From d0821de41eb85edd588cd8971f3da2cf635f8489 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 14 May 2025 16:11:13 -0500 Subject: [PATCH 24/49] add pip install Tasmanian --user --- .github/workflows/extra.yml | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index e802cd950..73df2beaa 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -69,10 +69,11 @@ jobs: environments: "extra" activate-environment: "extra" - - name: Install surmise + - name: Install surmise and Tasmanian if: matrix.os == 'ubuntu-latest' run: | pip install --upgrade git+https://github.com/bandframework/surmise.git + pip install Tasmanian --user - name: Install Balsam on Pydantic 1 if: matrix.pydantic-version == '1.10.22' From d67ae4faad52697769bd4fe7f3b5882bdfd77d39 Mon Sep 17 00:00:00 2001 From: jlnav Date: Thu, 15 May 2025 10:49:11 -0500 Subject: [PATCH 25/49] python 3.10 - 3.13 "basic" dependencies environments. need to add to matrix for basic.yml --- pyproject.toml | 16 +++++++++++++++- 1 file changed, 15 insertions(+), 1 deletion(-) diff --git a/pyproject.toml b/pyproject.toml index 8b16b3094..86216ae27 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -62,6 +62,11 @@ extra = ["basic", "extra"] docs = ["docs", "basic"] dev = ["dev", "basic", "extra", "docs"] +py310 = ["py310", "basic"] +py311 = ["py311", "basic"] +py312 = ["py312", "basic"] +py313 = ["py313", "basic"] + [tool.pixi.feature.dev.dependencies] pre-commit = ">=4.1.0,<5" git-lfs = ">=3.6.1,<4" @@ -110,6 +115,15 @@ packaging = ">=25.0,<26" [tool.pixi.feature.extra.target.linux-64.pypi-dependencies] tasmanian = ">=8.1, <9" +[tool.pixi.feature.py310.dependencies] +python = "3.10.*" +[tool.pixi.feature.py311.dependencies] +python = "3.11.*" +[tool.pixi.feature.py312.dependencies] +python = "3.12.*" +[tool.pixi.feature.py313.dependencies] +python = "3.13.*" + [tool.pixi.dependencies] python = ">=3.10,<3.14" pip = ">=24.3.1,<25" @@ -162,4 +176,4 @@ noy = "noy" extend-exclude = ["*.bib", "*.xml", "docs/nitpicky"] [dependency-groups] -extra = ["pyenchant", "enchant>=0.0.1,<0.0.2", "gpcam>=7.4.2,<8", "globus-compute-sdk>=2.28.0,<3", "proxystore==0.7.0", "redis>=6.0.0,<7"] +extra = ["pyenchant", "enchant>=0.0.1,<0.0.2", "proxystore==0.7.0", "redis>=6.0.0,<7", "globus-compute-sdk>=2.28.0,<3",] From 7fffb9ae28ab23065ebe9fbb88c4f93fdf8b291c Mon Sep 17 00:00:00 2001 From: jlnav Date: Thu, 15 May 2025 10:52:55 -0500 Subject: [PATCH 26/49] now slot those environments into the basic.yml matrix --- .github/workflows/basic.yml | 22 +++++++++++----------- 1 file changed, 11 insertions(+), 11 deletions(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index f7862d45f..aff4cf894 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -17,28 +17,28 @@ jobs: matrix: os: [ubuntu-latest] mpi-version: [mpich] - python-version: ["3.10", "3.11", "3.12", "3.13"] + python-version: ["py310", "py311", "py312", "py313"] pydantic-version: ["2.11.4"] comms-type: [m, l] include: - os: macos-latest - python-version: "3.11" + python-version: "py311" mpi-version: mpich pydantic-version: "2.11.4" comms-type: m - os: macos-latest - python-version: "3.11" + python-version: "py311" mpi-version: mpich pydantic-version: "2.11.4" comms-type: l - os: ubuntu-latest mpi-version: mpich - python-version: "3.10" + python-version: "py310" pydantic-version: "1.10.22" comms-type: m - os: ubuntu-latest mpi-version: mpich - python-version: "3.10" + python-version: "py310" pydantic-version: "1.10.22" comms-type: l @@ -64,12 +64,12 @@ jobs: pixi-version: v0.45.0 # cache: true # frozen: true - environments: "basic" - activate-environment: "basic" + environments: ${{ matrix.python-version }} + activate-environment: ${{ matrix.python-version }} - name: Install IBCDFO run: | - pixi run -e basic ./install/install_ibcdfo.sh + pixi run -e ${{ matrix.python-version }} ./install/install_ibcdfo.sh - name: Install libEnsemble, test flake8 run: | @@ -78,9 +78,9 @@ jobs: flake8 libensemble - name: Remove various tests on newer pythons - if: matrix.python-version >= '3.11' + if: matrix.python-version == 'py311' || matrix.python-version == 'py312' || matrix.python-version == 'py313' run: | - rm ./libensemble/tests/functionality_tests/test_local_sine_tutorial*.py # matplotlib errors on 3.12 + rm ./libensemble/tests/functionality_tests/test_local_sine_tutorial*.py # matplotlib errors on py312 - name: Run simple tests, Ubuntu if: matrix.os == 'ubuntu-latest' @@ -90,7 +90,7 @@ jobs: - name: Run simple tests, macOS if: matrix.os == 'macos-latest' run: | - pixi run -e basic ./libensemble/tests/run_tests.py -A "-W error" -${{ matrix.comms-type }} + pixi run -e ${{ matrix.python-version }} ./libensemble/tests/run_tests.py -A "-W error" -${{ matrix.comms-type }} - name: Merge coverage run: | From cc9734037847c78b23ed2b15c6d192cc1bd59e68 Mon Sep 17 00:00:00 2001 From: jlnav Date: Fri, 16 May 2025 13:04:53 -0500 Subject: [PATCH 27/49] some rearranging, prepare extra.yml for pixi usage? --- .github/workflows/extra.yml | 28 ++++++++++++++-------------- pyproject.toml | 22 +++++++++++----------- 2 files changed, 25 insertions(+), 25 deletions(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index 73df2beaa..663c92cc6 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -11,38 +11,38 @@ jobs: matrix: os: [ubuntu-latest] mpi-version: [mpich] - python-version: ['3.10', '3.11', '3.12', '3.13'] + python-version: ["py310", "py311", "py312", "py313"] pydantic-version: ['2.11.4'] comms-type: [m, l] include: - os: macos-latest - python-version: '3.13' + python-version: "py313" mpi-version: mpich pydantic-version: '2.11.4' comms-type: m - os: macos-latest - python-version: '3.13' + python-version: "py313" mpi-version: mpich pydantic-version: '2.11.4' comms-type: l - os: ubuntu-latest - python-version: '3.12' + python-version: "py312" mpi-version: mpich pydantic-version: '2.11.4' comms-type: t - os: ubuntu-latest mpi-version: 'openmpi' pydantic-version: '2.11.4' - python-version: '3.12' + python-version: "py312" comms-type: l - os: ubuntu-latest mpi-version: mpich - python-version: '3.12' + python-version: "py312" pydantic-version: '1.10.22' comms-type: m - os: ubuntu-latest mpi-version: mpich - python-version: '3.12' + python-version: "py312" pydantic-version: '1.10.22' comms-type: l @@ -66,8 +66,8 @@ jobs: - uses: prefix-dev/setup-pixi@v0.8.8 with: pixi-version: v0.45.0 - environments: "extra" - activate-environment: "extra" + environments: ${{ matrix.python-version }} + activate-environment: ${{ matrix.python-version }} - name: Install surmise and Tasmanian if: matrix.os == 'ubuntu-latest' @@ -78,14 +78,14 @@ jobs: - name: Install Balsam on Pydantic 1 if: matrix.pydantic-version == '1.10.22' run: | - conda install pyzmq git clone https://github.com/argonne-lcf/balsam.git sed -i -e "s/pyzmq>=22.1.0,<23.0.0/pyzmq>=23.0.0,<24.0.0/" ./balsam/setup.cfg cd balsam; pip install -e .; cd .. - - name: Install IBCDFO + - name: Install GPCAM and IBCDFO run: | - pixi run -e extra ./install/install_ibcdfo.sh + pip install gpcam + pixi run -e ${{ matrix.python-version }} ./install/install_ibcdfo.sh - name: Install libEnsemble, flake8, lock environment run: | @@ -94,7 +94,7 @@ jobs: flake8 libensemble - name: Remove test using octave, gpcam on Python 3.13 - if: matrix.python-version >= '3.13' + if: matrix.python-version == 'py313' run: | rm ./libensemble/tests/regression_tests/test_persistent_fd_param_finder.py # needs octave, which doesn't yet support 3.13 rm ./libensemble/tests/regression_tests/test_persistent_aposmm_external_localopt.py # needs octave, which doesn't yet support 3.13 @@ -125,7 +125,7 @@ jobs: - name: Run extensive tests, macOS if: matrix.os == 'macos-latest' run: | - pixi run -e extra ./libensemble/tests/run_tests.py -e -${{ matrix.comms-type }} + pixi run -e ${{ matrix.python-version }} ./libensemble/tests/run_tests.py -e -${{ matrix.comms-type }} - name: Merge coverage run: | diff --git a/pyproject.toml b/pyproject.toml index 86216ae27..33cd8b0ec 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -4,7 +4,7 @@ authors = [{name = "Jeffrey Larson"}, {name = "Stephen Hudson"}, {name = "Stefan M. Wild"}, {name = "David Bindel"}, {name = "John-Luke Navarro"}] -dependencies = [ "numpy", "psutil", "pydantic", "pyyaml", "tomli"] +dependencies = [ "numpy>=1.21,<3", "psutil>=5.9.4,<7", "pydantic>=1.10,<3", "pyyaml>=6.0,<7", "tomli>=1.2.1,<3"] description = "A Python toolkit for coordinating asynchronous and dynamic ensembles of calculations." name = "libensemble" @@ -50,7 +50,7 @@ version = {attr = "libensemble.version.__version__"} [tool.pixi.project] channels = ["conda-forge"] -platforms = ["osx-arm64", "linux-64", "osx-64"] +platforms = ["osx-arm64", "osx-64", "linux-64"] [tool.pixi.pypi-dependencies] libensemble = { path = ".", editable = true } @@ -60,12 +60,11 @@ default = [] basic = ["basic"] extra = ["basic", "extra"] docs = ["docs", "basic"] -dev = ["dev", "basic", "extra", "docs"] - py310 = ["py310", "basic"] py311 = ["py311", "basic"] py312 = ["py312", "basic"] py313 = ["py313", "basic"] +dev = ["dev", "basic", "extra", "docs"] [tool.pixi.feature.dev.dependencies] pre-commit = ">=4.1.0,<5" @@ -73,10 +72,10 @@ git-lfs = ">=3.6.1,<4" [tool.pixi.feature.basic.dependencies] mpi = ">=1.0.1,<2" -mpich = ">=4.3.0,<5" +mpich = ">=4.0.0,<5" mpi4py = ">=4.0.3,<5" -nlopt = "==2.8.0" -scipy = ">=1.15.2,<2" +nlopt = "<=2.8.0" +scipy = ">=1.13,<2" mpmath = ">=1.3.0,<2" # "dev" dependencies to run basic.yml flake8 = ">=7.1.2,<8" @@ -96,6 +95,7 @@ hypre = ">=2.32.0,<3" mumps-mpi = ">=5.7.3,<6" dfo-ls = ">=1.3.0,<2" octave = ">=9.4.0,<10" +pyzmq = ">=26.4.0,<27" [tool.pixi.feature.docs.dependencies] sphinx = ">=8.2.1,<9" @@ -113,7 +113,7 @@ scikit-build = ">=0.18.1,<0.19" packaging = ">=25.0,<26" [tool.pixi.feature.extra.target.linux-64.pypi-dependencies] -tasmanian = ">=8.1, <9" +tasmanian = ">=8.1,<9" [tool.pixi.feature.py310.dependencies] python = "3.10.*" @@ -140,6 +140,9 @@ clang_osx-arm64 = ">=19.1.2,<20" [tool.pixi.target.linux-64.dependencies] gxx_linux-64 = ">=14.2.0,<15" +[dependency-groups] +extra = ["pyenchant", "enchant>=0.0.1,<0.0.2", "proxystore>=0.7.0", "redis>=6.0.0,<7", "globus-compute-sdk>=2.28.0,<3"] + [tool.black] line-length = 120 target-version = ['py310', 'py311', 'py312', 'py313'] @@ -174,6 +177,3 @@ noy = "noy" [tool.typos.files] extend-exclude = ["*.bib", "*.xml", "docs/nitpicky"] - -[dependency-groups] -extra = ["pyenchant", "enchant>=0.0.1,<0.0.2", "proxystore==0.7.0", "redis>=6.0.0,<7", "globus-compute-sdk>=2.28.0,<3",] From 92c34e7f315cd40b42bd4797a4d8d9edf0ff65eb Mon Sep 17 00:00:00 2001 From: jlnav Date: Fri, 16 May 2025 14:43:39 -0500 Subject: [PATCH 28/49] the extra tests need slightly different environments --- .github/workflows/extra.yml | 16 ++++++++-------- pyproject.toml | 19 +++++++++++++++++-- 2 files changed, 25 insertions(+), 10 deletions(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index 663c92cc6..cbdee81ec 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -11,38 +11,38 @@ jobs: matrix: os: [ubuntu-latest] mpi-version: [mpich] - python-version: ["py310", "py311", "py312", "py313"] + python-version: ["py310e", "py311e", "py312e", "py313e"] pydantic-version: ['2.11.4'] comms-type: [m, l] include: - os: macos-latest - python-version: "py313" + python-version: "py313e" mpi-version: mpich pydantic-version: '2.11.4' comms-type: m - os: macos-latest - python-version: "py313" + python-version: "py313e" mpi-version: mpich pydantic-version: '2.11.4' comms-type: l - os: ubuntu-latest - python-version: "py312" + python-version: "py312e" mpi-version: mpich pydantic-version: '2.11.4' comms-type: t - os: ubuntu-latest mpi-version: 'openmpi' pydantic-version: '2.11.4' - python-version: "py312" + python-version: "py312e" comms-type: l - os: ubuntu-latest mpi-version: mpich - python-version: "py312" + python-version: "py312e" pydantic-version: '1.10.22' comms-type: m - os: ubuntu-latest mpi-version: mpich - python-version: "py312" + python-version: "py312e" pydantic-version: '1.10.22' comms-type: l @@ -94,7 +94,7 @@ jobs: flake8 libensemble - name: Remove test using octave, gpcam on Python 3.13 - if: matrix.python-version == 'py313' + if: matrix.python-version == 'py313e' run: | rm ./libensemble/tests/regression_tests/test_persistent_fd_param_finder.py # needs octave, which doesn't yet support 3.13 rm ./libensemble/tests/regression_tests/test_persistent_aposmm_external_localopt.py # needs octave, which doesn't yet support 3.13 diff --git a/pyproject.toml b/pyproject.toml index 33cd8b0ec..a0d0f0514 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -60,11 +60,18 @@ default = [] basic = ["basic"] extra = ["basic", "extra"] docs = ["docs", "basic"] + +dev = ["dev", "basic", "extra", "docs"] + py310 = ["py310", "basic"] py311 = ["py311", "basic"] py312 = ["py312", "basic"] py313 = ["py313", "basic"] -dev = ["dev", "basic", "extra", "docs"] + +py310e = ["py310", "py310e", "extra"] +py311e = ["py311", "py311e", "extra"] +py312e = ["py312", "py312e", "extra"] +py313e = ["py313", "py313e", "extra"] [tool.pixi.feature.dev.dependencies] pre-commit = ">=4.1.0,<5" @@ -94,7 +101,6 @@ superlu_dist = ">=9.0.0,<10" hypre = ">=2.32.0,<3" mumps-mpi = ">=5.7.3,<6" dfo-ls = ">=1.3.0,<2" -octave = ">=9.4.0,<10" pyzmq = ">=26.4.0,<27" [tool.pixi.feature.docs.dependencies] @@ -124,6 +130,15 @@ python = "3.12.*" [tool.pixi.feature.py313.dependencies] python = "3.13.*" +# Octave only works up to 3.12 on Linux +[tool.pixi.feature.py310e.target.linux-64.dependencies] +octave = ">=9.4.0,<10" +[tool.pixi.feature.py311e.target.linux-64.dependencies] +octave = ">=9.4.0,<10" +[tool.pixi.feature.py312e.target.linux-64.dependencies] +octave = ">=9.4.0,<10" +[tool.pixi.feature.py313e.target.linux-64.dependencies] + [tool.pixi.dependencies] python = ">=3.10,<3.14" pip = ">=24.3.1,<25" From 1fae3e06d444589235b28c4beaeb700466196efd Mon Sep 17 00:00:00 2001 From: jlnav Date: Tue, 20 May 2025 14:37:12 -0500 Subject: [PATCH 29/49] additional changes to extra envs --- pyproject.toml | 9 +++++---- 1 file changed, 5 insertions(+), 4 deletions(-) diff --git a/pyproject.toml b/pyproject.toml index a0d0f0514..31816ca3f 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -68,10 +68,10 @@ py311 = ["py311", "basic"] py312 = ["py312", "basic"] py313 = ["py313", "basic"] -py310e = ["py310", "py310e", "extra"] -py311e = ["py311", "py311e", "extra"] -py312e = ["py312", "py312e", "extra"] -py313e = ["py313", "py313e", "extra"] +py310e = ["py310", "py310e", "basic", "extra"] +py311e = ["py311", "py311e", "basic", "extra"] +py312e = ["py312", "py312e", "basic", "extra"] +py313e = ["py313", "py313e", "basic", "extra"] [tool.pixi.feature.dev.dependencies] pre-commit = ">=4.1.0,<5" @@ -84,6 +84,7 @@ mpi4py = ">=4.0.3,<5" nlopt = "<=2.8.0" scipy = ">=1.13,<2" mpmath = ">=1.3.0,<2" + # "dev" dependencies to run basic.yml flake8 = ">=7.1.2,<8" coverage = ">=7.6.12,<8" From 504a8733d161aebb2352b7bfcee0a64800945bbc Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 21 May 2025 11:25:48 -0500 Subject: [PATCH 30/49] check if doing pixi run for tests gets the Tasmanian install --- .github/workflows/extra.yml | 8 +------- 1 file changed, 1 insertion(+), 7 deletions(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index cbdee81ec..e8e43badb 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -117,13 +117,7 @@ jobs: with: redis-version: 7 - - name: Run extensive tests, Ubuntu - if: matrix.os == 'ubuntu-latest' - run: | - ./libensemble/tests/run_tests.py -e -${{ matrix.comms-type }} - - - name: Run extensive tests, macOS - if: matrix.os == 'macos-latest' + - name: Run extensive tests run: | pixi run -e ${{ matrix.python-version }} ./libensemble/tests/run_tests.py -e -${{ matrix.comms-type }} From 948545378ace60f868311e57f8fac6b7c0e0dc7e Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 21 May 2025 13:38:57 -0500 Subject: [PATCH 31/49] I wonder if this works for pip too --- .github/workflows/extra.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index e8e43badb..9849d4078 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -84,7 +84,7 @@ jobs: - name: Install GPCAM and IBCDFO run: | - pip install gpcam + pixi run -e ${{ matrix.python-version }} pip install gpcam pixi run -e ${{ matrix.python-version }} ./install/install_ibcdfo.sh - name: Install libEnsemble, flake8, lock environment From 4e5b6f27acb7e0a04439b532279f4bedf36b2386 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 21 May 2025 14:13:51 -0500 Subject: [PATCH 32/49] pixi run Tasmanian install --- .github/workflows/extra.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index 9849d4078..0aa32d088 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -73,7 +73,7 @@ jobs: if: matrix.os == 'ubuntu-latest' run: | pip install --upgrade git+https://github.com/bandframework/surmise.git - pip install Tasmanian --user + pixi run -e ${{ matrix.python-version }} pip install Tasmanian --user - name: Install Balsam on Pydantic 1 if: matrix.pydantic-version == '1.10.22' From 4c87cdcd1ee5b6135875fad1a0c7c5778b86a7b6 Mon Sep 17 00:00:00 2001 From: jlnav Date: Thu, 22 May 2025 08:57:56 -0500 Subject: [PATCH 33/49] the petsc tests actually get run on macOS normally --- pyproject.toml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/pyproject.toml b/pyproject.toml index 31816ca3f..1f3ebc179 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -103,6 +103,8 @@ hypre = ">=2.32.0,<3" mumps-mpi = ">=5.7.3,<6" dfo-ls = ">=1.3.0,<2" pyzmq = ">=26.4.0,<27" +petsc = ">=3.23.0,<4" +petsc4py = ">=3.23.0,<4" [tool.pixi.feature.docs.dependencies] sphinx = ">=8.2.1,<9" @@ -114,8 +116,6 @@ sphinxcontrib-spelling = ">=8.0.1,<9" autodoc-pydantic = ">=2.1.0,<3" [tool.pixi.feature.extra.target.linux-64.dependencies] -petsc = ">=3.23.0,<4" -petsc4py = ">=3.23.0,<4" scikit-build = ">=0.18.1,<0.19" packaging = ">=25.0,<26" From dd34c19a9c85bbff5e8177110c287cf52be9f1f7 Mon Sep 17 00:00:00 2001 From: jlnav Date: Thu, 22 May 2025 09:01:44 -0500 Subject: [PATCH 34/49] we already have Tasmanian? --- .github/workflows/extra.yml | 1 - 1 file changed, 1 deletion(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index 0aa32d088..193099286 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -73,7 +73,6 @@ jobs: if: matrix.os == 'ubuntu-latest' run: | pip install --upgrade git+https://github.com/bandframework/surmise.git - pixi run -e ${{ matrix.python-version }} pip install Tasmanian --user - name: Install Balsam on Pydantic 1 if: matrix.pydantic-version == '1.10.22' From cdee3a1f01741805ab62841ee8c78309fed12f85 Mon Sep 17 00:00:00 2001 From: jlnav Date: Fri, 30 May 2025 11:26:19 -0500 Subject: [PATCH 35/49] lock gpcam --- .github/workflows/extra.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index 193099286..0b645aa2c 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -83,7 +83,7 @@ jobs: - name: Install GPCAM and IBCDFO run: | - pixi run -e ${{ matrix.python-version }} pip install gpcam + pixi run -e ${{ matrix.python-version }} pip install gpcam==8.2.0 pixi run -e ${{ matrix.python-version }} ./install/install_ibcdfo.sh - name: Install libEnsemble, flake8, lock environment From 08aab0200f8e3b81f48d359a0796e1a17f91f216 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 29 Oct 2025 14:48:35 -0500 Subject: [PATCH 36/49] various new commentary in pyproject.toml - add pixi.lock to git-lfs. remove balsam mention from docs/conf.py --- docs/conf.py | 2 +- pixi.lock | 3 +++ pyproject.toml | 21 +++++++++++++++------ 3 files changed, 19 insertions(+), 7 deletions(-) create mode 100644 pixi.lock diff --git a/docs/conf.py b/docs/conf.py index 7686b741f..0b7e2b3dd 100644 --- a/docs/conf.py +++ b/docs/conf.py @@ -31,7 +31,7 @@ def __getattr__(cls, name): return MagicMock() -autodoc_mock_imports = ["ax", "balsam", "gpcam", "IPython", "matplotlib", "pandas", "scipy", "surmise"] +autodoc_mock_imports = ["ax", "gpcam", "IPython", "matplotlib", "pandas", "scipy", "surmise"] MOCK_MODULES = [ "argparse", diff --git a/pixi.lock b/pixi.lock new file mode 100644 index 000000000..9c15de290 --- /dev/null +++ b/pixi.lock @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:21b4096ad3b7ab25101251a9b0061d49e332a83729815865929727f8ab729571 +size 1330876 diff --git a/pyproject.toml b/pyproject.toml index 3b4eaa0f1..f171ce14a 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -63,6 +63,7 @@ docs = ["docs", "basic"] dev = ["dev", "basic", "extra", "docs"] +# CI environments py310 = ["py310", "basic"] py311 = ["py311", "basic"] py312 = ["py312", "basic"] @@ -73,10 +74,12 @@ py311e = ["py311", "py311e", "basic", "extra"] py312e = ["py312", "py312e", "basic", "extra"] py313e = ["py313", "py313e", "basic", "extra"] +# Extra tools for dev environment [tool.pixi.feature.dev.dependencies] pre-commit = ">=4.1.0,<5" git-lfs = ">=3.6.1,<4" +# Basic dependencies for basic CI [tool.pixi.feature.basic.dependencies] mpi = ">=1.0.1,<2" mpich = ">=4.0.0,<5" @@ -85,7 +88,7 @@ nlopt = "<=2.8.0" scipy = ">=1.13,<2" mpmath = ">=1.3.0,<2" -# "dev" dependencies to run basic.yml +# "dev" dependencies needed for basic CI flake8 = ">=7.1.2,<8" coverage = ">=7.6.12,<8" pytest = ">=8.3.4,<9" @@ -96,6 +99,7 @@ python-dateutil = ">=2.9.0.post0,<3" rich = ">=13.9.4,<14" matplotlib = ">=3.10.1,<4" +# Extra dependencies for extra CI [tool.pixi.feature.extra.dependencies] ax-platform = ">=0.5.0,<0.6" superlu_dist = ">=9.0.0,<10" @@ -113,7 +117,6 @@ sphinx-design = ">=0.6.1,<0.7" sphinx_rtd_theme = ">=3.0.1,<4" sphinx-copybutton = ">=0.5.2,<0.6" pre-commit = ">=4.2.0,<5" -nlopt = ">=2.10.0,<3" scipy = ">=1.15.2,<2" ax-platform = ">=0.5.0,<0.6" sphinxcontrib-spelling = ">=8.0.1,<9" @@ -123,13 +126,16 @@ mypy = ">=1.15.0,<2" types-psutil = ">=6.1.0.20241221,<7" types-pyyaml = ">=6.0.12.20250402,<7" +# Linux dependencies, only for extra tests [tool.pixi.feature.extra.target.linux-64.dependencies] scikit-build = ">=0.18.1,<0.19" packaging = ">=25.0,<26" +# Linux dependencies, only for extra tests, from pypi [tool.pixi.feature.extra.target.linux-64.pypi-dependencies] tasmanian = ">=8.1,<9" +# Python versions [tool.pixi.feature.py310.dependencies] python = "3.10.*" [tool.pixi.feature.py311.dependencies] @@ -148,25 +154,31 @@ octave = ">=9.4.0,<10" octave = ">=9.4.0,<10" [tool.pixi.feature.py313e.target.linux-64.dependencies] +# Dependencies for libEnsemble [tool.pixi.dependencies] python = ">=3.10,<3.14" pip = ">=24.3.1,<25" setuptools = ">=75.6.0,<76" numpy = ">=1.21,<3" -pydantic = ">=1.10,<3" +pydantic = ">=2,<3" pyyaml = ">=6.0,<7" tomli = ">=1.2.1,<3" psutil = ">=5.9.4,<7" +# macOS dependencies [tool.pixi.target.osx-arm64.dependencies] clang_osx-arm64 = ">=19.1.2,<20" +# Linux dependencies [tool.pixi.target.linux-64.dependencies] gxx_linux-64 = ">=14.2.0,<15" +# Extra dependencies, from pypi [dependency-groups] extra = ["pyenchant", "enchant>=0.0.1,<0.0.2", "proxystore>=0.7.0", "redis>=6.0.0,<7", "globus-compute-sdk>=2.28.0,<3"] +dev = ["wat>=0.7.0,<0.8"] +# Various config from here onward [tool.black] line-length = 120 target-version = ['py310', 'py311', 'py312', 'py313'] @@ -205,6 +217,3 @@ extend-exclude = ["*.bib", "*.xml", "docs/nitpicky"] [tool.mypy] disable_error_code = ["import-not-found", "import-untyped"] - -[dependency-groups] -dev = ["pyenchant", "enchant>=0.0.1,<0.0.2", "flake8-modern-annotations>=1.6.0,<2", "flake8-type-checking>=3.0.0,<4"] From b8227c8c1fb600586e6a8f5cae47e78afb2ec07e Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 29 Oct 2025 14:53:01 -0500 Subject: [PATCH 37/49] various fixes --- .github/workflows/basic.yml | 6 +++--- .github/workflows/extra.yml | 7 +------ 2 files changed, 4 insertions(+), 9 deletions(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index 62e5783fd..4bf7eb4cb 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -17,7 +17,7 @@ jobs: matrix: os: [ubuntu-latest] mpi-version: [mpich] - python-version: ["3.10", "3.11", "3.12", "3.13"] + python-version: ["py310", "py311", "py312", "py313"] comms-type: [m, l] include: - os: macos-latest @@ -25,7 +25,7 @@ jobs: mpi-version: mpich comms-type: m - os: macos-latest - python-version: "3.11" + python-version: "py3.11" mpi-version: mpich comms-type: l @@ -71,7 +71,7 @@ jobs: - name: Run simple tests, Ubuntu if: matrix.os == 'ubuntu-latest' run: | - ./libensemble/tests/run_tests.py -A "-W error" -${{ matrix.comms-type }} + ./libensemble/tests/run_tests.py -A "-W error" -${{ matrix.comms-type }} - name: Run simple tests, macOS if: matrix.os == 'macos-latest' diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index 3c46e0826..20a3b5a0c 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -28,7 +28,7 @@ jobs: comms-type: t - os: ubuntu-latest mpi-version: 'openmpi' - python-version: '3.12' + python-version: 'py312e' comms-type: l env: @@ -76,11 +76,6 @@ jobs: rm ./libensemble/tests/regression_tests/test_persistent_aposmm_external_localopt.py # needs octave, which doesn't yet support 3.13 rm ./libensemble/tests/regression_tests/test_gpCAM.py # needs gpcam, which doesn't build on 3.13 - - name: Install redis/proxystore - run: | - pip install redis - pip install proxystore==0.7.0 - - name: Start Redis if: matrix.os == 'ubuntu-latest' uses: supercharge/redis-github-action@1.8.0 From 2221fb025c4e78be3bdfb672b7690f867274034a Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 29 Oct 2025 15:25:17 -0500 Subject: [PATCH 38/49] fix env name --- .github/workflows/basic.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index 4bf7eb4cb..337ba9ce1 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -25,7 +25,7 @@ jobs: mpi-version: mpich comms-type: m - os: macos-latest - python-version: "py3.11" + python-version: "py311" mpi-version: mpich comms-type: l From c10226561e79674cf167585504b10ca9509643d2 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 29 Oct 2025 15:38:20 -0500 Subject: [PATCH 39/49] what does it take to use the lockfile? --- .github/workflows/basic.yml | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index 337ba9ce1..5b1a2d903 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -46,11 +46,11 @@ jobs: - name: Checkout lockfile run: git lfs checkout - - uses: prefix-dev/setup-pixi@v0.8.8 + - uses: prefix-dev/setup-pixi@v0.9.2 with: - pixi-version: v0.45.0 - # cache: true - # frozen: true + pixi-version: v0.55.0 + cache: true + frozen: true environments: ${{ matrix.python-version }} activate-environment: ${{ matrix.python-version }} From f69d026e273576c10fce0585c527f601a72ecf2d Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 29 Oct 2025 15:39:06 -0500 Subject: [PATCH 40/49] looks like I needed this file --- .gitattributes | 1 + 1 file changed, 1 insertion(+) create mode 100644 .gitattributes diff --git a/.gitattributes b/.gitattributes new file mode 100644 index 000000000..d9f4f2f80 --- /dev/null +++ b/.gitattributes @@ -0,0 +1 @@ +pixi.lock filter=lfs diff=lfs merge=lfs -text From 7b43d51ae842dedb702dcb11101e0691265b44a3 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 29 Oct 2025 16:20:22 -0500 Subject: [PATCH 41/49] update lockfile? --- pixi.lock | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/pixi.lock b/pixi.lock index 9c15de290..a6be61bd4 100644 --- a/pixi.lock +++ b/pixi.lock @@ -1,3 +1,3 @@ version https://git-lfs.github.com/spec/v1 -oid sha256:21b4096ad3b7ab25101251a9b0061d49e332a83729815865929727f8ab729571 +oid sha256:6c5713a945888ef929c7e065f4405d2d0c3f8b30813fbc1ced24d37870ab405f size 1330876 From 368b6cc7b11213c2baa91089c39eb6e1242bd2cb Mon Sep 17 00:00:00 2001 From: jlnav Date: Thu, 30 Oct 2025 14:30:11 -0500 Subject: [PATCH 42/49] lets see if these changes at least help with Tasmanian on Ci...? --- .github/workflows/extra.yml | 2 +- pixi.lock | 4 ++-- pyproject.toml | 9 +++------ 3 files changed, 6 insertions(+), 9 deletions(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index 20a3b5a0c..391fc6e75 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -54,7 +54,7 @@ jobs: environments: ${{ matrix.python-version }} activate-environment: ${{ matrix.python-version }} - - name: Install surmise and Tasmanian + - name: Install surmise if: matrix.os == 'ubuntu-latest' run: | pip install --upgrade git+https://github.com/bandframework/surmise.git diff --git a/pixi.lock b/pixi.lock index a6be61bd4..8d86e4307 100644 --- a/pixi.lock +++ b/pixi.lock @@ -1,3 +1,3 @@ version https://git-lfs.github.com/spec/v1 -oid sha256:6c5713a945888ef929c7e065f4405d2d0c3f8b30813fbc1ced24d37870ab405f -size 1330876 +oid sha256:7445076d08cc69f116c0723df90d815731ad9836a3f486f868daf771cb4b42b2 +size 1338817 diff --git a/pyproject.toml b/pyproject.toml index f171ce14a..aea6af872 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -109,6 +109,7 @@ dfo-ls = ">=1.3.0,<2" pyzmq = ">=26.4.0,<27" petsc = ">=3.23.0,<4" petsc4py = ">=3.23.0,<4" +ninja = ">=1.13.1,<2" # for building Tasmanian from pypi [tool.pixi.feature.docs.dependencies] sphinx = ">=8.2.1,<9" @@ -131,10 +132,6 @@ types-pyyaml = ">=6.0.12.20250402,<7" scikit-build = ">=0.18.1,<0.19" packaging = ">=25.0,<26" -# Linux dependencies, only for extra tests, from pypi -[tool.pixi.feature.extra.target.linux-64.pypi-dependencies] -tasmanian = ">=8.1,<9" - # Python versions [tool.pixi.feature.py310.dependencies] python = "3.10.*" @@ -167,7 +164,7 @@ psutil = ">=5.9.4,<7" # macOS dependencies [tool.pixi.target.osx-arm64.dependencies] -clang_osx-arm64 = ">=19.1.2,<20" +clang_osx-arm64 = ">=21.1.4,<22" # Linux dependencies [tool.pixi.target.linux-64.dependencies] @@ -175,7 +172,7 @@ gxx_linux-64 = ">=14.2.0,<15" # Extra dependencies, from pypi [dependency-groups] -extra = ["pyenchant", "enchant>=0.0.1,<0.0.2", "proxystore>=0.7.0", "redis>=6.0.0,<7", "globus-compute-sdk>=2.28.0,<3"] +extra = ["pyenchant", "enchant>=0.0.1,<0.0.2", "proxystore>=0.7.0", "redis>=6.0.0,<7", "globus-compute-sdk>=2.28.0,<3", "tasmanian>=8.1,<9"] dev = ["wat>=0.7.0,<0.8"] # Various config from here onward From f6a5014333c0f61b4c05cff6b6fd274c75ed25b2 Mon Sep 17 00:00:00 2001 From: jlnav Date: Fri, 31 Oct 2025 15:41:30 -0500 Subject: [PATCH 43/49] give up and try throwing tasmanian back into extra.yml --- .github/workflows/extra.yml | 1 + pixi.lock | 4 ++-- pyproject.toml | 2 +- 3 files changed, 4 insertions(+), 3 deletions(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index 391fc6e75..730eb1652 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -58,6 +58,7 @@ jobs: if: matrix.os == 'ubuntu-latest' run: | pip install --upgrade git+https://github.com/bandframework/surmise.git + pixi run -e ${{ matrix.python-version }} pip install Tasmanian - name: Install other testing dependencies run: | diff --git a/pixi.lock b/pixi.lock index 8d86e4307..e4a46c635 100644 --- a/pixi.lock +++ b/pixi.lock @@ -1,3 +1,3 @@ version https://git-lfs.github.com/spec/v1 -oid sha256:7445076d08cc69f116c0723df90d815731ad9836a3f486f868daf771cb4b42b2 -size 1338817 +oid sha256:11ec013d45f87d4e4ff63ee18827bd3ed29f4c8d261ef8b22e9777a43f6e1230 +size 1336004 diff --git a/pyproject.toml b/pyproject.toml index aea6af872..3e802269b 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -172,7 +172,7 @@ gxx_linux-64 = ">=14.2.0,<15" # Extra dependencies, from pypi [dependency-groups] -extra = ["pyenchant", "enchant>=0.0.1,<0.0.2", "proxystore>=0.7.0", "redis>=6.0.0,<7", "globus-compute-sdk>=2.28.0,<3", "tasmanian>=8.1,<9"] +extra = ["pyenchant", "enchant>=0.0.1,<0.0.2", "proxystore>=0.7.0", "redis>=6.0.0,<7", "globus-compute-sdk>=2.28.0,<3"] dev = ["wat>=0.7.0,<0.8"] # Various config from here onward From 6d1882e4d3dc66e64d18d2a4b4590c56fca13cc2 Mon Sep 17 00:00:00 2001 From: jlnav Date: Fri, 14 Nov 2025 09:23:22 -0600 Subject: [PATCH 44/49] lets use the typical extra-testing setup - use pixi just on basic.yml for now as a transitory measure? --- .github/workflows/extra.yml | 82 ++++++++++++++++++++++++++++--------- 1 file changed, 62 insertions(+), 20 deletions(-) diff --git a/.github/workflows/extra.yml b/.github/workflows/extra.yml index 730eb1652..e41de99af 100644 --- a/.github/workflows/extra.yml +++ b/.github/workflows/extra.yml @@ -11,24 +11,24 @@ jobs: matrix: os: [ubuntu-latest] mpi-version: [mpich] - python-version: ["py310e", "py311e", "py312e", "py313e"] + python-version: ['3.10', '3.11', '3.12', '3.13'] comms-type: [m, l] include: - os: macos-latest - python-version: "py313e" + python-version: '3.13' mpi-version: mpich comms-type: m - os: macos-latest - python-version: "py313e" + python-version: '3.13' mpi-version: mpich comms-type: l - os: ubuntu-latest - python-version: "py312e" + python-version: '3.12' mpi-version: mpich comms-type: t - os: ubuntu-latest mpi-version: 'openmpi' - python-version: 'py312e' + python-version: '3.12' comms-type: l env: @@ -41,29 +41,66 @@ jobs: shell: bash -l {0} steps: - - uses: actions/checkout@v4 + - uses: actions/checkout@v5 + - name: Setup conda - Python ${{ matrix.python-version }} + uses: conda-incubator/setup-miniconda@v3 with: - lfs: true + activate-environment: condaenv + miniconda-version: 'latest' + python-version: ${{ matrix.python-version }} + channels: conda-forge + channel-priority: strict + auto-update-conda: true + + - name: Force-update certifi + run: | + python --version + pip install -I --upgrade certifi + + - name: Install Ubuntu compilers + if: matrix.os == 'ubuntu-latest' + run: | + conda install -c conda-forge gcc_linux-64 + pip install nlopt==2.9.0 - - name: Checkout lockfile - run: git lfs checkout + # Roundabout solution on macos for proper linking with mpicc + - name: Install macOS compilers + if: matrix.os == 'macos-latest' + run: | + conda install clang_osx-64 + pip install nlopt==2.8.0 - - uses: prefix-dev/setup-pixi@v0.8.8 - with: - pixi-version: v0.45.0 - environments: ${{ matrix.python-version }} - activate-environment: ${{ matrix.python-version }} + - name: Install mpi4py and MPI from conda + run: | + conda install mpi4py ${{ matrix.mpi-version }} - - name: Install surmise + - name: Install generator dependencies + run: | + conda env update --file install/gen_deps_environment.yml + + - name: Install gpcam and octave # Neither yet support 3.13 + if: matrix.python-version <= '3.12' + run: | + pip install gpcam==8.1.13 + conda install octave + + - name: Install surmise and Tasmanian if: matrix.os == 'ubuntu-latest' run: | pip install --upgrade git+https://github.com/bandframework/surmise.git - pixi run -e ${{ matrix.python-version }} pip install Tasmanian + pip install Tasmanian --user + + - name: Install generator dependencies for Ubuntu tests + if: matrix.os == 'ubuntu-latest' && matrix.python-version <= '3.12' + run: | + pip install scikit-build packaging - name: Install other testing dependencies run: | - pixi run -e ${{ matrix.python-version }} pip install gpcam==8.2.0 - pixi run -e ${{ matrix.python-version }} ./install/install_ibcdfo.sh + pip install -r install/testing_requirements.txt + pip install -r install/misc_feature_requirements.txt + source install/install_ibcdfo.sh + conda install numpy scipy - name: Install libEnsemble, flake8, lock environment run: | @@ -71,12 +108,17 @@ jobs: flake8 libensemble - name: Remove test using octave, gpcam on Python 3.13 - if: matrix.python-version == 'py313e' + if: matrix.python-version >= '3.13' run: | rm ./libensemble/tests/regression_tests/test_persistent_fd_param_finder.py # needs octave, which doesn't yet support 3.13 rm ./libensemble/tests/regression_tests/test_persistent_aposmm_external_localopt.py # needs octave, which doesn't yet support 3.13 rm ./libensemble/tests/regression_tests/test_gpCAM.py # needs gpcam, which doesn't build on 3.13 + - name: Install redis/proxystore + run: | + pip install redis + pip install proxystore==0.7.0 + - name: Start Redis if: matrix.os == 'ubuntu-latest' uses: supercharge/redis-github-action@1.8.0 @@ -85,7 +127,7 @@ jobs: - name: Run extensive tests run: | - pixi run -e ${{ matrix.python-version }} ./libensemble/tests/run_tests.py -e -${{ matrix.comms-type }} + ./libensemble/tests/run_tests.py -e -${{ matrix.comms-type }} - name: Merge coverage run: | From 281ec191471e0cef6ba248e2a87a9767e9f668e4 Mon Sep 17 00:00:00 2001 From: jlnav Date: Fri, 5 Dec 2025 14:16:16 -0600 Subject: [PATCH 45/49] determining which test dependencies need to be not included for python 3.14. remove osx-64 platform (non-arm) --- pixi.lock | 4 +- pyproject.toml | 101 +++++++++++++++++++++++++++++++------------------ 2 files changed, 67 insertions(+), 38 deletions(-) diff --git a/pixi.lock b/pixi.lock index e4a46c635..9905debb9 100644 --- a/pixi.lock +++ b/pixi.lock @@ -1,3 +1,3 @@ version https://git-lfs.github.com/spec/v1 -oid sha256:11ec013d45f87d4e4ff63ee18827bd3ed29f4c8d261ef8b22e9777a43f6e1230 -size 1336004 +oid sha256:f12fcf6fa40cc64a5391833889ed6aff2219ec126852adebba2adfe072544e89 +size 1481698 diff --git a/pyproject.toml b/pyproject.toml index 3e802269b..b8780f30d 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,34 +1,39 @@ [project] -authors = [{name = "Jeffrey Larson"}, {name = "Stephen Hudson"}, - {name = "Stefan M. Wild"}, {name = "David Bindel"}, - {name = "John-Luke Navarro"}] +authors = [ + { name = "Jeffrey Larson" }, + { name = "Stephen Hudson" }, + { name = "Stefan M. Wild" }, + { name = "David Bindel" }, + { name = "John-Luke Navarro" }, +] -dependencies = [ "numpy", "psutil", "pydantic", "pyyaml", "tomli"] +dependencies = ["numpy", "psutil", "pydantic", "pyyaml", "tomli"] description = "A Python toolkit for coordinating asynchronous and dynamic ensembles of calculations." name = "libensemble" requires-python = ">=3.10" -license = {file = "LICENSE"} +license = { file = "LICENSE" } readme = "README.rst" classifiers = [ - "Development Status :: 5 - Production/Stable", - "Intended Audience :: Developers", - "Intended Audience :: Science/Research", - "License :: OSI Approved :: BSD License", - "Natural Language :: English", - "Operating System :: POSIX :: Linux", - "Operating System :: Unix", - "Operating System :: MacOS", - "Programming Language :: Python :: 3", - "Programming Language :: Python :: 3.10", - "Programming Language :: Python :: 3.11", - "Programming Language :: Python :: 3.12", - "Programming Language :: Python :: 3.13", - "Programming Language :: Python :: Implementation :: CPython", - "Topic :: Scientific/Engineering", - "Topic :: Software Development :: Libraries :: Python Modules", + "Development Status :: 5 - Production/Stable", + "Intended Audience :: Developers", + "Intended Audience :: Science/Research", + "License :: OSI Approved :: BSD License", + "Natural Language :: English", + "Operating System :: POSIX :: Linux", + "Operating System :: Unix", + "Operating System :: MacOS", + "Programming Language :: Python :: 3", + "Programming Language :: Python :: 3.10", + "Programming Language :: Python :: 3.11", + "Programming Language :: Python :: 3.12", + "Programming Language :: Python :: 3.13", + "Programming Language :: Python :: 3.14", + "Programming Language :: Python :: Implementation :: CPython", + "Topic :: Scientific/Engineering", + "Topic :: Software Development :: Libraries :: Python Modules", ] dynamic = ["version"] @@ -39,16 +44,16 @@ Issues = "https://github.com/Libensemble/libensemble/issues" [build-system] build-backend = "setuptools.build_meta" -requires = ["setuptools", "wheel", "pip>=24.3.1,<26", "setuptools>=75.1.0,<81", ] +requires = ["setuptools", "wheel", "pip>=24.3.1,<26", "setuptools>=75.1.0,<81"] [tool.setuptools.packages.find] where = ["."] include = ["libensemble*"] [tool.setuptools.dynamic] -version = {attr = "libensemble.version.__version__"} +version = { attr = "libensemble.version.__version__" } -[tool.pixi.project] +[tool.pixi.workspace] channels = ["conda-forge"] platforms = ["osx-arm64", "osx-64", "linux-64"] @@ -68,11 +73,13 @@ py310 = ["py310", "basic"] py311 = ["py311", "basic"] py312 = ["py312", "basic"] py313 = ["py313", "basic"] +py314 = ["py314", "basic"] py310e = ["py310", "py310e", "basic", "extra"] py311e = ["py311", "py311e", "basic", "extra"] py312e = ["py312", "py312e", "basic", "extra"] py313e = ["py313", "py313e", "basic", "extra"] +py314e = ["py314", "py314e", "basic", "extra"] # Extra tools for dev environment [tool.pixi.feature.dev.dependencies] @@ -84,7 +91,6 @@ git-lfs = ">=3.6.1,<4" mpi = ">=1.0.1,<2" mpich = ">=4.0.0,<5" mpi4py = ">=4.0.3,<5" -nlopt = "<=2.8.0" scipy = ">=1.13,<2" mpmath = ">=1.3.0,<2" @@ -101,15 +107,13 @@ matplotlib = ">=3.10.1,<4" # Extra dependencies for extra CI [tool.pixi.feature.extra.dependencies] -ax-platform = ">=0.5.0,<0.6" superlu_dist = ">=9.0.0,<10" hypre = ">=2.32.0,<3" mumps-mpi = ">=5.7.3,<6" dfo-ls = ">=1.3.0,<2" -pyzmq = ">=26.4.0,<27" petsc = ">=3.23.0,<4" petsc4py = ">=3.23.0,<4" -ninja = ">=1.13.1,<2" # for building Tasmanian from pypi +ninja = ">=1.13.1,<2" # for building Tasmanian from pypi [tool.pixi.feature.docs.dependencies] sphinx = ">=8.2.1,<9" @@ -133,27 +137,49 @@ scikit-build = ">=0.18.1,<0.19" packaging = ">=25.0,<26" # Python versions +# nlopt only works up to python 3.13 [tool.pixi.feature.py310.dependencies] python = "3.10.*" +nlopt = "<=2.9.0" [tool.pixi.feature.py311.dependencies] python = "3.11.*" +nlopt = "<=2.9.0" [tool.pixi.feature.py312.dependencies] python = "3.12.*" +nlopt = "<=2.9.0" [tool.pixi.feature.py313.dependencies] python = "3.13.*" +nlopt = "<=2.9.0" +[tool.pixi.feature.py314.dependencies] +python = "3.14.*" -# Octave only works up to 3.12 on Linux +# Octave, ax-platform only works up to 3.13 on Linux [tool.pixi.feature.py310e.target.linux-64.dependencies] octave = ">=9.4.0,<10" +ax-platform = ">=0.5.0,<0.6" +pyzmq = ">=26.4.0,<27" + [tool.pixi.feature.py311e.target.linux-64.dependencies] octave = ">=9.4.0,<10" +ax-platform = ">=0.5.0,<0.6" +pyzmq = ">=26.4.0,<27" + [tool.pixi.feature.py312e.target.linux-64.dependencies] octave = ">=9.4.0,<10" +ax-platform = ">=0.5.0,<0.6" +pyzmq = ">=26.4.0,<27" + [tool.pixi.feature.py313e.target.linux-64.dependencies] +octave = ">=9.4.0,<10" +ax-platform = ">=0.5.0,<0.6" +pyzmq = ">=26.4.0,<27" + +[tool.pixi.feature.py314e.target.linux-64.dependencies] + # Dependencies for libEnsemble [tool.pixi.dependencies] -python = ">=3.10,<3.14" +python = ">=3.10,<3.15" pip = ">=24.3.1,<25" setuptools = ">=75.6.0,<76" numpy = ">=1.21,<3" @@ -172,13 +198,19 @@ gxx_linux-64 = ">=14.2.0,<15" # Extra dependencies, from pypi [dependency-groups] -extra = ["pyenchant", "enchant>=0.0.1,<0.0.2", "proxystore>=0.7.0", "redis>=6.0.0,<7", "globus-compute-sdk>=2.28.0,<3"] +extra = [ + "pyenchant", + "enchant>=0.0.1,<0.0.2", + "proxystore>=0.7.0", + "redis>=6.0.0,<7", + "globus-compute-sdk>=2.28.0,<3", +] dev = ["wat>=0.7.0,<0.8"] # Various config from here onward [tool.black] line-length = 120 -target-version = ['py310', 'py311', 'py312', 'py313'] +target-version = ['py310', 'py311', 'py312', 'py313', 'py314'] force-exclude = ''' ( /( @@ -190,10 +222,7 @@ force-exclude = ''' ''' [tool.typos.default] -extend-ignore-identifiers-re = [ - ".*NDArray.*", - "8ba9de56.*" -] +extend-ignore-identifiers-re = [".*NDArray.*", "8ba9de56.*"] [tool.typos.default.extend-words] als = "als" From a113559e27eafd21f70862d7d35e57f87794148f Mon Sep 17 00:00:00 2001 From: jlnav Date: Fri, 5 Dec 2025 14:22:01 -0600 Subject: [PATCH 46/49] remove osx-64 platform (non-arm), bump many dependencies, add black to dev env --- pixi.lock | 4 ++-- pyproject.toml | 64 ++++++++++++++++++++++++++------------------------ 2 files changed, 35 insertions(+), 33 deletions(-) diff --git a/pixi.lock b/pixi.lock index 9905debb9..bcf121665 100644 --- a/pixi.lock +++ b/pixi.lock @@ -1,3 +1,3 @@ version https://git-lfs.github.com/spec/v1 -oid sha256:f12fcf6fa40cc64a5391833889ed6aff2219ec126852adebba2adfe072544e89 -size 1481698 +oid sha256:e86f6edaab56cec5885fe9167b1a580cdb93c0a8eecb2807ed7d025c8821518f +size 1063783 diff --git a/pyproject.toml b/pyproject.toml index b8780f30d..2e564b205 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -55,7 +55,7 @@ version = { attr = "libensemble.version.__version__" } [tool.pixi.workspace] channels = ["conda-forge"] -platforms = ["osx-arm64", "osx-64", "linux-64"] +platforms = ["osx-arm64", "linux-64"] [tool.pixi.pypi-dependencies] libensemble = { path = ".", editable = true } @@ -81,39 +81,41 @@ py312e = ["py312", "py312e", "basic", "extra"] py313e = ["py313", "py313e", "basic", "extra"] py314e = ["py314", "py314e", "basic", "extra"] + # Extra tools for dev environment [tool.pixi.feature.dev.dependencies] -pre-commit = ">=4.1.0,<5" -git-lfs = ">=3.6.1,<4" +pre-commit = ">=4.5.0,<5" +git-lfs = ">=3.7.1,<4" +black = ">=25.1.0,<26" # Basic dependencies for basic CI [tool.pixi.feature.basic.dependencies] mpi = ">=1.0.1,<2" -mpich = ">=4.0.0,<5" -mpi4py = ">=4.0.3,<5" -scipy = ">=1.13,<2" +mpich = ">=4.3.2,<5" +mpi4py = ">=4.1.1,<5" +scipy = ">=1.15.2,<2" mpmath = ">=1.3.0,<2" # "dev" dependencies needed for basic CI -flake8 = ">=7.1.2,<8" -coverage = ">=7.6.12,<8" -pytest = ">=8.3.4,<9" -pytest-cov = ">=6.0.0,<7" -pytest-timeout = ">=2.3.1,<3" +flake8 = ">=7.3.0,<8" +coverage = ">=7.12.0,<8" +pytest = ">=9.0.1,<10" +pytest-cov = ">=7.0.0,<8" +pytest-timeout = ">=2.4.0,<3" mock = ">=5.2.0,<6" python-dateutil = ">=2.9.0.post0,<3" -rich = ">=13.9.4,<14" -matplotlib = ">=3.10.1,<4" +rich = ">=14.2.0,<15" +matplotlib = ">=3.10.8,<4" # Extra dependencies for extra CI [tool.pixi.feature.extra.dependencies] superlu_dist = ">=9.0.0,<10" hypre = ">=2.32.0,<3" -mumps-mpi = ">=5.7.3,<6" +mumps-mpi = ">=5.8.1,<6" dfo-ls = ">=1.3.0,<2" -petsc = ">=3.23.0,<4" -petsc4py = ">=3.23.0,<4" -ninja = ">=1.13.1,<2" # for building Tasmanian from pypi +petsc = ">=3.24.2,<4" +petsc4py = ">=3.24.2,<4" +ninja = ">=1.13.2,<2" # for building Tasmanian from pypi [tool.pixi.feature.docs.dependencies] sphinx = ">=8.2.1,<9" @@ -133,8 +135,8 @@ types-pyyaml = ">=6.0.12.20250402,<7" # Linux dependencies, only for extra tests [tool.pixi.feature.extra.target.linux-64.dependencies] -scikit-build = ">=0.18.1,<0.19" -packaging = ">=25.0,<26" +scikit-build = "*" +packaging = "*" # Python versions # nlopt only works up to python 3.13 @@ -180,29 +182,29 @@ pyzmq = ">=26.4.0,<27" # Dependencies for libEnsemble [tool.pixi.dependencies] python = ">=3.10,<3.15" -pip = ">=24.3.1,<25" -setuptools = ">=75.6.0,<76" -numpy = ">=1.21,<3" -pydantic = ">=2,<3" -pyyaml = ">=6.0,<7" -tomli = ">=1.2.1,<3" -psutil = ">=5.9.4,<7" +pip = ">=25.3,<26" +setuptools = ">=80.9.0,<81" +numpy = ">=2.2.6,<3" +pydantic = ">=2.12.5,<3" +pyyaml = ">=6.0.3,<7" +tomli = ">=2.3.0,<3" +psutil = ">=7.1.3,<8" # macOS dependencies [tool.pixi.target.osx-arm64.dependencies] -clang_osx-arm64 = ">=21.1.4,<22" +clang_osx-arm64 = ">=21.1.7,<22" # Linux dependencies [tool.pixi.target.linux-64.dependencies] -gxx_linux-64 = ">=14.2.0,<15" +gxx_linux-64 = ">=15.2.0,<16" # Extra dependencies, from pypi [dependency-groups] extra = [ - "pyenchant", + "pyenchant==3.2.2", "enchant>=0.0.1,<0.0.2", - "proxystore>=0.7.0", - "redis>=6.0.0,<7", + "proxystore>=0.8.3,<0.9", + "redis>=7.1.0,<8", "globus-compute-sdk>=2.28.0,<3", ] dev = ["wat>=0.7.0,<0.8"] From 3167b16393d3c410ced25793e03f23cb953b0059 Mon Sep 17 00:00:00 2001 From: jlnav Date: Thu, 11 Dec 2025 16:37:01 -0600 Subject: [PATCH 47/49] nlopt is now extra dependency in pyproject matrix --- pixi.lock | 4 ++-- pyproject.toml | 6 +----- 2 files changed, 3 insertions(+), 7 deletions(-) diff --git a/pixi.lock b/pixi.lock index bcf121665..6c88ffaa8 100644 --- a/pixi.lock +++ b/pixi.lock @@ -1,3 +1,3 @@ version https://git-lfs.github.com/spec/v1 -oid sha256:e86f6edaab56cec5885fe9167b1a580cdb93c0a8eecb2807ed7d025c8821518f -size 1063783 +oid sha256:746abea47addd75fe4af0a4aa5e9fbe60ede056d4be694c3cf2d736f8fab7733 +size 1064587 diff --git a/pyproject.toml b/pyproject.toml index 2e564b205..aa551b02a 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -116,6 +116,7 @@ dfo-ls = ">=1.3.0,<2" petsc = ">=3.24.2,<4" petsc4py = ">=3.24.2,<4" ninja = ">=1.13.2,<2" # for building Tasmanian from pypi +nlopt = ">=2.10.0,<3" [tool.pixi.feature.docs.dependencies] sphinx = ">=8.2.1,<9" @@ -139,19 +140,14 @@ scikit-build = "*" packaging = "*" # Python versions -# nlopt only works up to python 3.13 [tool.pixi.feature.py310.dependencies] python = "3.10.*" -nlopt = "<=2.9.0" [tool.pixi.feature.py311.dependencies] python = "3.11.*" -nlopt = "<=2.9.0" [tool.pixi.feature.py312.dependencies] python = "3.12.*" -nlopt = "<=2.9.0" [tool.pixi.feature.py313.dependencies] python = "3.13.*" -nlopt = "<=2.9.0" [tool.pixi.feature.py314.dependencies] python = "3.14.*" From 7e9ba17fe41840447975cacfedf8370ae91d6334 Mon Sep 17 00:00:00 2001 From: jlnav Date: Wed, 17 Dec 2025 13:04:32 -0600 Subject: [PATCH 48/49] try python 3.14 job on basic.ci, using resolved pixi env --- .github/workflows/basic.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/basic.yml b/.github/workflows/basic.yml index 4562169d5..5f273a990 100644 --- a/.github/workflows/basic.yml +++ b/.github/workflows/basic.yml @@ -17,7 +17,7 @@ jobs: matrix: os: [ubuntu-latest] mpi-version: [mpich] - python-version: ["py310", "py311", "py312", "py313"] + python-version: ["py310", "py311", "py312", "py313", "py314"] comms-type: [m, l] include: - os: macos-latest @@ -64,7 +64,7 @@ jobs: flake8 libensemble - name: Remove various tests on newer pythons - if: matrix.python-version == 'py311' || matrix.python-version == 'py312' || matrix.python-version == 'py313' + if: matrix.python-version == 'py311' || matrix.python-version == 'py312' || matrix.python-version == 'py313' || matrix.python-version == 'py314' run: | rm ./libensemble/tests/functionality_tests/test_local_sine_tutorial*.py # matplotlib errors on py312 From e350ad658d4ed92ac211f90c7387178ea7685adf Mon Sep 17 00:00:00 2001 From: jlnav Date: Thu, 18 Dec 2025 08:28:21 -0600 Subject: [PATCH 49/49] bumping many dependencies, making globus-compute-sdk newest versions affirmatively available up to py 3.12 --- pixi.lock | 4 +-- pyproject.toml | 70 ++++++++++++++++++++++++++------------------------ 2 files changed, 39 insertions(+), 35 deletions(-) diff --git a/pixi.lock b/pixi.lock index 6c88ffaa8..c7ebed04e 100644 --- a/pixi.lock +++ b/pixi.lock @@ -1,3 +1,3 @@ version https://git-lfs.github.com/spec/v1 -oid sha256:746abea47addd75fe4af0a4aa5e9fbe60ede056d4be694c3cf2d736f8fab7733 -size 1064587 +oid sha256:751e13cc32dc1d88c00f1e2e9c2b029d20a5884d43f86e1b67ced74b8015823b +size 1089301 diff --git a/pyproject.toml b/pyproject.toml index aa551b02a..271c171b4 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -84,9 +84,10 @@ py314e = ["py314", "py314e", "basic", "extra"] # Extra tools for dev environment [tool.pixi.feature.dev.dependencies] -pre-commit = ">=4.5.0,<5" +pre-commit = ">=4.5.1,<5" git-lfs = ">=3.7.1,<4" -black = ">=25.1.0,<26" +black = ">=25.12.0,<26" + # Basic dependencies for basic CI [tool.pixi.feature.basic.dependencies] @@ -98,8 +99,9 @@ mpmath = ">=1.3.0,<2" # "dev" dependencies needed for basic CI flake8 = ">=7.3.0,<8" -coverage = ">=7.12.0,<8" -pytest = ">=9.0.1,<10" +coverage = ">=7.13.0,<8" +pytest = ">=9.0.2,<10" + pytest-cov = ">=7.0.0,<8" pytest-timeout = ">=2.4.0,<3" mock = ">=5.2.0,<6" @@ -109,7 +111,7 @@ matplotlib = ">=3.10.8,<4" # Extra dependencies for extra CI [tool.pixi.feature.extra.dependencies] -superlu_dist = ">=9.0.0,<10" +superlu_dist = ">=9.1.0,<10" hypre = ">=2.32.0,<3" mumps-mpi = ">=5.8.1,<6" dfo-ls = ">=1.3.0,<2" @@ -119,25 +121,27 @@ ninja = ">=1.13.2,<2" # for building Tasmanian from pypi nlopt = ">=2.10.0,<3" [tool.pixi.feature.docs.dependencies] -sphinx = ">=8.2.1,<9" -sphinxcontrib-bibtex = ">=2.6.3,<3" +sphinx = ">=8.2.3,<9" +sphinxcontrib-bibtex = ">=2.6.5,<3" sphinx-design = ">=0.6.1,<0.7" -sphinx_rtd_theme = ">=3.0.1,<4" +sphinx_rtd_theme = ">=3.0.2,<4" sphinx-copybutton = ">=0.5.2,<0.6" -pre-commit = ">=4.2.0,<5" +pre-commit = ">=4.5.1,<5" scipy = ">=1.15.2,<2" -ax-platform = ">=0.5.0,<0.6" -sphinxcontrib-spelling = ">=8.0.1,<9" +ax-platform = ">=1.2.1,<2" +sphinxcontrib-spelling = ">=8.0.2,<9" autodoc-pydantic = ">=2.1.0,<3" ipdb = ">=0.13.13,<0.14" -mypy = ">=1.15.0,<2" +mypy = ">=1.19.1,<2" types-psutil = ">=6.1.0.20241221,<7" -types-pyyaml = ">=6.0.12.20250402,<7" +types-pyyaml = ">=6.0.12.20250915,<7" # Linux dependencies, only for extra tests [tool.pixi.feature.extra.target.linux-64.dependencies] scikit-build = "*" packaging = "*" +octave = ">=9.4.0,<11" +pyzmq = ">=26.4.0,<28" # Python versions [tool.pixi.feature.py310.dependencies] @@ -151,40 +155,41 @@ python = "3.13.*" [tool.pixi.feature.py314.dependencies] python = "3.14.*" -# Octave, ax-platform only works up to 3.13 on Linux +# ax-platform only works up to 3.13 on Linux [tool.pixi.feature.py310e.target.linux-64.dependencies] -octave = ">=9.4.0,<10" -ax-platform = ">=0.5.0,<0.6" -pyzmq = ">=26.4.0,<27" +ax-platform = ">=1.2.1,<2" + +[tool.pixi.feature.py310e.dependencies] +globus-compute-sdk = ">=4.3.0,<5" [tool.pixi.feature.py311e.target.linux-64.dependencies] -octave = ">=9.4.0,<10" -ax-platform = ">=0.5.0,<0.6" -pyzmq = ">=26.4.0,<27" +ax-platform = ">=1.2.1,<2" + +[tool.pixi.feature.py311e.dependencies] +globus-compute-sdk = ">=4.3.0,<5" [tool.pixi.feature.py312e.target.linux-64.dependencies] -octave = ">=9.4.0,<10" -ax-platform = ">=0.5.0,<0.6" -pyzmq = ">=26.4.0,<27" +ax-platform = ">=1.2.1,<2" + +[tool.pixi.feature.py312e.dependencies] +globus-compute-sdk = ">=4.3.0,<5" [tool.pixi.feature.py313e.target.linux-64.dependencies] -octave = ">=9.4.0,<10" ax-platform = ">=0.5.0,<0.6" -pyzmq = ">=26.4.0,<27" -[tool.pixi.feature.py314e.target.linux-64.dependencies] +[tool.pixi.feature.py314e] # Dependencies for libEnsemble [tool.pixi.dependencies] python = ">=3.10,<3.15" -pip = ">=25.3,<26" -setuptools = ">=80.9.0,<81" +pip = ">=25.2,<26" +setuptools = ">=80.8.0,<81" numpy = ">=2.2.6,<3" -pydantic = ">=2.12.5,<3" -pyyaml = ">=6.0.3,<7" -tomli = ">=2.3.0,<3" -psutil = ">=7.1.3,<8" +pydantic = ">=2.12.4,<3" +pyyaml = ">=6.0.2,<7" +tomli = ">=2.2.1,<3" + # macOS dependencies [tool.pixi.target.osx-arm64.dependencies] @@ -201,7 +206,6 @@ extra = [ "enchant>=0.0.1,<0.0.2", "proxystore>=0.8.3,<0.9", "redis>=7.1.0,<8", - "globus-compute-sdk>=2.28.0,<3", ] dev = ["wat>=0.7.0,<0.8"]