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aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=posteo.net header.s=2017 header.b=OkVwMb2Z; dmarc=fail reason="SPF not aligned (strict)" header.from=posteo.net (policy=none); spf=pass (aspmx1.migadu.com: domain of guix-patches-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=guix-patches-bounces@gnu.org X-Migadu-Spam-Score: 3.69 Authentication-Results: aspmx1.migadu.com; dkim=fail ("headers rsa verify failed") header.d=posteo.net header.s=2017 header.b=OkVwMb2Z; dmarc=fail reason="SPF not aligned (strict)" header.from=posteo.net (policy=none); spf=pass (aspmx1.migadu.com: domain of guix-patches-bounces@gnu.org designates 209.51.188.17 as permitted sender) smtp.mailfrom=guix-patches-bounces@gnu.org X-Migadu-Queue-Id: 4060F276F4 X-Spam-Score: 3.69 X-Migadu-Scanner: scn0.migadu.com X-TUID: lGXRjlB3yzu4 * gnu/packages/machine-learning.scm (python-optuna): New variable. --- gnu/packages/machine-learning.scm | 96 +++++++++++++++++++++++++++++++ 1 file changed, 96 insertions(+) diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm index fd3e6b2090..3b6f709c4e 100644 --- a/gnu/packages/machine-learning.scm +++ b/gnu/packages/machine-learning.scm @@ -74,6 +74,7 @@ #:use-module (gnu packages ocaml) #:use-module (gnu packages onc-rpc) #:use-module (gnu packages parallel) + #:use-module (gnu packages openstack) #:use-module (gnu packages perl) #:use-module (gnu packages pkg-config) #:use-module (gnu packages protobuf) @@ -938,6 +939,101 @@ computing environments.") (home-page "http://dlib.net") (license license:boost1.0))) +(define-public python-optuna + (package + (name "python-optuna") + (version "2.9.1") + (source + (origin + ;; No tests in the PyPI tarball. + (method git-fetch) + (uri (git-reference + (url "https://github.com/optuna/optuna") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1fx80qjrkmnvn2mg9fx26qn3sjlwnwqlmkaf6sqhdw79pn6khlpi")))) + (build-system python-build-system) + (arguments + `(#:phases + (modify-phases %standard-phases + (add-after 'unpack 'dont-check-deps + ;; Don't check for dependencies we don't have or don't need. + ;; TODO: Package and enable some of these. + (lambda _ + (substitute* "setup.py" + ((".*allennlp.*") "") + ((".*bokeh.*") "") + ((".*catalyst.*") "") + ((".*chainer.*") "") + ((".*fastai.*") "") + ((".*keras.*") "") + ((".*lightgbm.*") "") + ((".*mlflow.*") "") + ((".*mxnet.*") "") + ((".*plotly.*") "") + ((".*scikit-optimize.*") "") + ((".*skorch.*") "") + ((".*tensorflow.*") "") + ((".*torch.*") "") + ((".*xgboost.*") "")))) + (add-after 'unpack 'disable-some-tests + (lambda _ + ;; Integration tests require most of the dependencies above. + (delete-file-recursively "tests/integration_tests") + ;; TODO: Requires scikit-optimize. + (delete-file "tests/samplers_tests/test_samplers.py") + ;; TODO: Requires bokeh. + (delete-file "tests/test_dashboard.py") + ;; FIXME: "Optuna" executable is not found. + (delete-file "tests/test_cli.py") + ;; FIXME: Files below require plotly but setup fails to identify + ;; plotly version and suggests an upgrade to >= 4.0.0. + (delete-file "tests/visualization_tests/test_contour.py") + (delete-file (string-append "tests/multi_objective_tests/" + "visualization_tests/" + "test_pareto_front.py")) + (delete-file-recursively "tests/visualization_tests"))) + (replace 'check + (lambda* (#:key inputs outputs tests? #:allow-other-keys) + (when tests? + (add-installed-pythonpath inputs outputs) + (invoke "python" "-m" "pytest" "-k" + ;; redis.exceptions.ResponseError: unknown command 'TIME'. + (string-append + "not test_retry_failed_trial_callback" + " and not test_failed_trial_callback" + " and not test_fail_stale_trials_with_optimize")))))))) + (propagated-inputs + `(("python-alembic" ,python-alembic) + ("python-cliff" ,python-cliff) + ("python-cmaes" ,python-cmaes) + ("python-colorlog" ,python-colorlog) + ("python-numpy" ,python-numpy) + ("python-packaging" ,python-packaging) + ("python-pyyaml" ,python-pyyaml) + ("python-scipy" ,python-scipy) + ("python-sqlalchemy" ,python-sqlalchemy) + ("python-tqdm" ,python-tqdm))) + (native-inputs + `(("python-cma" ,python-cma) + ("python-fakeredis" ,python-fakeredis) + ("python-matplotlib" ,python-matplotlib) + ("python-mpi4py" ,python-mpi4py) + ("python-pandas" ,python-pandas) + ("python-pytest" ,python-pytest) + ("python-redis" ,python-redis) + ("python-scikit-learn" ,python-scikit-learn) + ("which" ,which))) + (home-page "https://optuna.org/") + (synopsis "Hyperparameter optimization framework") + (description "Optuna is an automatic hyperparameter optimization software +framework, particularly designed for machine learning. It features an +imperative, @emph{define-by-run} style user API. Thanks to it, the code +written with Optuna enjoys high modularity, and the user of Optuna can +dynamically construct the search spaces for the hyperparameters.") + (license license:expat))) + (define-public python-scikit-learn (package (name "python-scikit-learn") -- 2.30.2