From 0c130fb2a5dbae0c23a6cf859ef3928349343387 Mon Sep 17 00:00:00 2001 From: William Benoit Date: Fri, 2 Jun 2023 15:51:04 -0700 Subject: [PATCH] Updated a number of packages --- .pre-commit-config.yaml | 2 +- environment.yaml | 8 +- hermes | 2 +- libs/trainer/poetry.lock | 195 ++- libs/trainer/pyproject.toml | 8 +- projects/sandbox/README.md | 4 +- projects/sandbox/analyze/poetry.lock | 364 +++-- projects/sandbox/export/export.py | 3 +- projects/sandbox/export/poetry.lock | 1303 ++++++++++++------ projects/sandbox/export/pyproject.toml | 6 +- projects/sandbox/infer/infer.py | 11 +- projects/sandbox/infer/poetry.lock | 1737 ++++++++++++++++-------- projects/sandbox/pyproject.toml | 1 + projects/sandbox/train/poetry.lock | 209 ++- projects/sandbox/train/pyproject.toml | 6 + 15 files changed, 2650 insertions(+), 1209 deletions(-) diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 169f57a..42b0000 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -1,6 +1,6 @@ repos: - repo: https://github.com/pycqa/isort - rev: 5.8.0 + rev: 5.12.0 hooks: - id: isort name: isort (python) diff --git a/environment.yaml b/environment.yaml index 9e658aa..49eda0d 100644 --- a/environment.yaml +++ b/environment.yaml @@ -4,10 +4,10 @@ channels: - conda-forge dependencies: - python=3.9 - - gwpy=2.1.0 - - astropy<5.0.0 - - python-ldas-tools-framecpp + - gwpy=2.1.5 + - astropy + - python-ldas-tools-framecpp<3.0.0 - python-nds2-client - - pytorch + - pytorch=1.13.1 - torchvision - cudatoolkit=11.3 diff --git a/hermes b/hermes index 30df0c7..f068a09 160000 --- a/hermes +++ b/hermes @@ -1 +1 @@ -Subproject commit 30df0c7a364b43d99cd0d403eedbed96d03ac7a9 +Subproject commit f068a099903f71e920adc5b3c13d99e6a636b2a7 diff --git a/libs/trainer/poetry.lock b/libs/trainer/poetry.lock index 61860ca..da26d4b 100644 --- a/libs/trainer/poetry.lock +++ b/libs/trainer/poetry.lock @@ -11,9 +11,9 @@ numpy = ">=1.17" pyerfa = ">=1.7.3" [package.extras] -all = ["scipy (>=1.1)", 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a/libs/trainer/pyproject.toml b/libs/trainer/pyproject.toml index 39be73d..172246c 100644 --- a/libs/trainer/pyproject.toml +++ b/libs/trainer/pyproject.toml @@ -10,7 +10,7 @@ packages = [ [tool.poetry.dependencies] python = "^3.8,<3.10" -torch = "^1.0" +torch = {version = "^1.13", source = "torch"} # include signal processing libraries # for preprocessing steps @@ -26,6 +26,12 @@ torch = "^1.0" "hermes.typeo" = "^0.1.5" +[[tool.poetry.source]] +name = "torch" +url = "https://download.pytorch.org/whl/cu116" +secondary = true +default = false + [tool.poetry.dev-dependencies] pytest = "^6.2" diff --git a/projects/sandbox/README.md b/projects/sandbox/README.md index 07a3918..d0b9380 100644 --- a/projects/sandbox/README.md +++ b/projects/sandbox/README.md @@ -17,10 +17,10 @@ Compute and plot the ASDs of the raw and cleaned frames, as well as the ratio be ## Running If you installed the `pinto` command line utility described in the root [README](../../README.md), you can build each component's environment individually by running `pinto build `. Consult each component's documentation for the commands and options they expose. -Running the workflow end-to-end requires exporting three environment variables (with apologies for the inconsistent naming conventions for now) +Running the workflow end-to-end requires exporting three environment variables ```console -PROJECT_DIRECTORY="..." # the directory to write workflow outputs to +PROJECT_DIR="..." # the directory to write workflow outputs to DATA_DIR="..." # the path to a directory of 1s .gwf witness/strain files MODEL_REPOSITORY="..." # the directory to serve models from ``` diff --git a/projects/sandbox/analyze/poetry.lock b/projects/sandbox/analyze/poetry.lock index f0ded3d..3f1d1f3 100644 --- a/projects/sandbox/analyze/poetry.lock +++ b/projects/sandbox/analyze/poetry.lock @@ -11,9 +11,9 @@ numpy = ">=1.17" pyerfa = ">=1.7.3" [package.extras] -all = ["scipy (>=1.1)", "certifi", "dask", "h5py", "beautifulsoup4", "html5lib", "bleach", "PyYAML (>=3.13)", "pandas", 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"main" +optional = false +python-versions = ">=3.6" + +[package.dependencies] +aiosignal = ">=1.1.2" +async-timeout = ">=4.0.0a3,<5.0" +attrs = ">=17.3.0" +charset-normalizer = ">=2.0,<4.0" +frozenlist = ">=1.1.1" +multidict = ">=4.5,<7.0" +yarl = ">=1.0,<2.0" + +[package.extras] +speedups = ["Brotli", "aiodns", "cchardet"] + +[[package]] +name = "aiosignal" +version = "1.3.1" +description = "aiosignal: a list of registered asynchronous callbacks" +category = "main" +optional = false +python-versions = ">=3.7" + +[package.dependencies] +frozenlist = ">=1.1.0" + [[package]] name = "astropy" version = "4.3.1" @@ -11,9 +42,17 @@ numpy = ">=1.17" pyerfa = ">=1.7.3" [package.extras] -all = ["scipy (>=1.1)", "certifi", "dask", "h5py", "beautifulsoup4", "html5lib", "bleach", "PyYAML (>=3.13)", "pandas", "sortedcontainers", "pytz", "jplephem", "matplotlib (>=3.0,!=3.4.0)", "mpmath", "asdf (>=2.6)", "bottleneck", "ipython (>=4.2)", "pytest"] -docs = ["sphinx (<4)", "sphinx-astropy (>=1.3)", "pytest", "PyYAML (>=3.13)", "scipy (>=1.1)", "matplotlib (>=3.1,!=3.4.0)", "sphinx-changelog (>=1.1.0)", "packaging"] -test = ["pytest-astropy (>=0.8)", "pytest-xdist", "objgraph", "ipython (>=4.2)", "coverage", "skyfield (>=1.20)", "sgp4 (>=2.3)", "packaging"] +all = ["PyYAML (>=3.13)", "asdf (>=2.6)", "beautifulsoup4", "bleach", "bottleneck", "certifi", "dask[array]", "h5py", "html5lib", "ipython (>=4.2)", "jplephem", "matplotlib (>=3.0,!=3.4.0)", "mpmath", "pandas", "pytest", "pytz", "scipy (>=1.1)", "sortedcontainers"] +docs = ["PyYAML (>=3.13)", "matplotlib (>=3.1,!=3.4.0)", "packaging", "pytest", "scipy (>=1.1)", "sphinx (<4)", "sphinx-astropy (>=1.3)", "sphinx-changelog (>=1.1.0)"] +test = ["coverage", "ipython (>=4.2)", "objgraph", "packaging", "pytest-astropy (>=0.8)", "pytest-xdist", "sgp4 (>=2.3)", "skyfield (>=1.20)"] + +[[package]] +name = "async-timeout" +version = "4.0.2" +description = "Timeout context manager for asyncio programs" +category = "main" +optional = false +python-versions = ">=3.6" [[package]] name = "atomicwrites" @@ -25,17 +64,18 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "attrs" -version = "22.1.0" +version = "23.1.0" description = "Classes Without Boilerplate" -category = "dev" +category = "main" optional = false -python-versions = ">=3.5" +python-versions = ">=3.7" [package.extras] -dev = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "mypy (>=0.900,!=0.940)", "pytest-mypy-plugins", "zope-interface", "furo", "sphinx", "sphinx-notfound-page", "pre-commit", "cloudpickle"] -docs = ["furo", "sphinx", "zope-interface", "sphinx-notfound-page"] -tests = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "mypy (>=0.900,!=0.940)", "pytest-mypy-plugins", "zope-interface", "cloudpickle"] -tests_no_zope = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "mypy (>=0.900,!=0.940)", "pytest-mypy-plugins", "cloudpickle"] +cov = ["attrs[tests]", "coverage[toml] (>=5.3)"] +dev = ["attrs[docs,tests]", "pre-commit"] +docs = ["furo", "myst-parser", "sphinx", "sphinx-notfound-page", "sphinxcontrib-towncrier", "towncrier", "zope-interface"] +tests = ["attrs[tests-no-zope]", "zope-interface"] +tests-no-zope = ["cloudpickle", "hypothesis", "mypy (>=1.1.1)", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "pytest-xdist[psutil]"] [[package]] name = "brotli" @@ -47,7 +87,7 @@ python-versions = "*" [[package]] name = "certifi" -version = "2022.9.24" +version = "2023.5.7" description = "Python package for providing Mozilla's CA Bundle." category = "main" optional = false @@ -66,22 +106,24 @@ pycparser = "*" [[package]] name = "charset-normalizer" -version = "2.1.1" +version = "3.1.0" description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet." category = "main" optional = false -python-versions = ">=3.6.0" - -[package.extras] -unicode_backport = ["unicodedata2"] +python-versions = ">=3.7.0" [[package]] name = "colorama" -version = "0.4.5" +version = "0.4.6" description = "Cross-platform colored terminal text." category = "dev" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" +python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,!=3.6.*,>=2.7" + +[package.source] +type = "legacy" +url = "https://download.pytorch.org/whl/cpu" +reference = "torch" [[package]] name = "deepclean-architectures" @@ -163,9 +205,17 @@ develop = true type = "directory" url = "../../../libs/logging" +[[package]] +name = "frozenlist" +version = "1.3.3" +description = "A list-like structure which implements collections.abc.MutableSequence" +category = "main" +optional = false +python-versions = ">=3.7" + [[package]] name = "gevent" -version = "21.12.0" +version = "22.10.2" description = "Coroutine-based network library" category = "main" optional = false @@ -173,17 +223,17 @@ python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5" [package.dependencies] cffi = {version = ">=1.12.2", markers = "platform_python_implementation == \"CPython\" and sys_platform == \"win32\""} -greenlet = {version = ">=1.1.0,<2.0", markers = "platform_python_implementation == \"CPython\""} +greenlet = {version = ">=2.0.0", markers = "platform_python_implementation == \"CPython\""} setuptools = "*" "zope.event" = "*" "zope.interface" = "*" [package.extras] dnspython = ["dnspython (>=1.16.0,<2.0)", "idna"] -docs = ["repoze-sphinx-autointerface", "sphinxcontrib-programoutput", "zope-schema"] +docs = ["repoze.sphinx.autointerface", "sphinxcontrib-programoutput", "zope.schema"] monitor = ["psutil (>=5.7.0)"] -recommended = ["cffi (>=1.12.2)", "dnspython (>=1.16.0,<2.0)", "idna", "selectors2", "backports-socketpair", "psutil (>=5.7.0)"] -test = ["requests", "objgraph", "cffi (>=1.12.2)", "dnspython (>=1.16.0,<2.0)", "idna", "selectors2", "futures", "mock", "backports-socketpair", "contextvars (==2.4)", "coverage (>=5.0)", "coveralls (>=1.7.0)", "psutil (>=5.7.0)"] +recommended = ["backports.socketpair", "cffi (>=1.12.2)", "dnspython (>=1.16.0,<2.0)", "idna", "psutil (>=5.7.0)", "selectors2"] +test = ["backports.socketpair", "cffi (>=1.12.2)", "contextvars (==2.4)", "coverage (>=5.0)", "coveralls (>=1.7.0)", "dnspython (>=1.16.0,<2.0)", "futures", "idna", "mock", "objgraph", "psutil (>=5.7.0)", "requests", "selectors2"] [[package]] name = "geventhttpclient" @@ -201,32 +251,30 @@ six = "*" [[package]] name = "greenlet" -version = "1.1.3" +version = "2.0.2" description = "Lightweight in-process concurrent programming" category = "main" optional = false python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*" [package.extras] -docs = ["sphinx"] +docs = ["Sphinx", "docutils (<0.18)"] +test = ["objgraph", "psutil"] [[package]] name = "grpcio" -version = "1.41.0" +version = "1.54.2" description = "HTTP/2-based RPC framework" category = "main" optional = false -python-versions = "*" - -[package.dependencies] -six = ">=1.5.2" +python-versions = ">=3.7" [package.extras] -protobuf = ["grpcio-tools (>=1.41.0)"] +protobuf = ["grpcio-tools (>=1.54.2)"] [[package]] name = "h5py" -version = "3.7.0" +version = "3.8.0" description = "Read and write HDF5 files from Python" category = "main" optional = false @@ -247,15 +295,13 @@ develop = true [package.dependencies] protobuf = "^3.17" requests = "^2.26.0" -torch = {version = "^1.7", optional = true} tritonclient = {version = "^2.22", extras = ["all"]} -urllib3 = {version = "^1.26", optional = true} [package.extras] -tensorflow = ["tensorflow (>=2.3,<3.0)", "libclang (<12.0)"] -torch = ["torch (>=1.7,<2.0)", "urllib3 (>=1.26,<2.0)"] gcs = ["google-cloud-storage (>=1.38,<2.0)"] +tensorflow = ["tensorflow (>=2.3,<3.0)"] tensorrt = ["nvidia-tensorrt (>=8.0,<9.0)"] +torch = ["torch (>=1.7,<2.0)"] [package.source] type = "directory" @@ -280,13 +326,26 @@ category = "main" optional = false python-versions = ">=3.5" +[package.source] +type = "legacy" +url = "https://download.pytorch.org/whl/cpu" +reference = "torch" + [[package]] name = "iniconfig" -version = "1.1.1" -description = "iniconfig: brain-dead simple config-ini parsing" +version = "2.0.0" +description = "brain-dead simple config-ini parsing" category = "dev" optional = false -python-versions = "*" +python-versions = ">=3.7" + +[[package]] +name = "multidict" +version = "6.0.4" +description = "multidict implementation" +category = "main" +optional = false +python-versions = ">=3.7" [[package]] name = "numpy" @@ -316,8 +375,8 @@ optional = false python-versions = ">=3.6" [package.extras] -testing = ["pytest-benchmark", "pytest"] -dev = ["tox", "pre-commit"] +dev = ["pre-commit", "tox"] +testing = ["pytest", "pytest-benchmark"] [[package]] name = "protobuf" @@ -345,7 +404,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "pyerfa" -version = "2.0.0.1" +version = "2.0.0.3" description = "Python bindings for ERFA" category = "main" optional = false @@ -367,7 +426,7 @@ optional = false python-versions = ">=3.6.8" [package.extras] -diagrams = ["railroad-diagrams", "jinja2"] +diagrams = ["jinja2", "railroad-diagrams"] [[package]] name = "pytest" @@ -392,7 +451,7 @@ testing = ["argcomplete", "hypothesis (>=3.56)", "mock", "nose", "requests", "xm [[package]] name = "python-rapidjson" -version = "1.8" +version = "1.10" description = "Python wrapper around rapidjson" category = "main" optional = false @@ -400,21 +459,21 @@ python-versions = ">=3.6" [[package]] name = "requests" -version = "2.28.1" +version = "2.31.0" description = "Python HTTP for Humans." category = "main" optional = false -python-versions = ">=3.7, <4" +python-versions = ">=3.7" [package.dependencies] certifi = ">=2017.4.17" -charset-normalizer = ">=2,<3" +charset-normalizer = ">=2,<4" idna = ">=2.5,<4" -urllib3 = ">=1.21.1,<1.27" +urllib3 = ">=1.21.1,<3" [package.extras] socks = ["PySocks (>=1.5.6,!=1.5.7)"] -use_chardet_on_py3 = ["chardet (>=3.0.2,<6)"] +use-chardet-on-py3 = ["chardet (>=3.0.2,<6)"] [[package]] name = "scipy" @@ -429,16 +488,16 @@ numpy = ">=1.16.5,<1.23.0" [[package]] name = "setuptools" -version = "65.4.1" +version = "67.8.0" description = "Easily download, build, install, upgrade, and uninstall Python packages" category = "main" optional = false python-versions = ">=3.7" [package.extras] -docs = ["sphinx (>=3.5)", "jaraco.packaging (>=9)", "rst.linker (>=1.9)", "jaraco.tidelift (>=1.4)", "sphinx-notfound-page (==0.8.3)", "sphinx-hoverxref (<2)", "pygments-github-lexers (==0.0.5)", "sphinx-favicon", "sphinx-inline-tabs", "sphinx-reredirects", "sphinxcontrib-towncrier", "furo"] -testing = ["pytest (>=6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "flake8 (<5)", "pytest-enabler (>=1.3)", "pytest-perf", "mock", "flake8-2020", "virtualenv (>=13.0.0)", "wheel", "pip (>=19.1)", "jaraco.envs (>=2.2)", "pytest-xdist", "jaraco.path (>=3.2.0)", "build", "filelock (>=3.4.0)", "pip-run (>=8.8)", "ini2toml[lite] (>=0.9)", "tomli-w (>=1.0.0)", "pytest-black (>=0.3.7)", "pytest-cov", "pytest-mypy (>=0.9.1)"] -testing-integration = ["pytest", "pytest-xdist", "pytest-enabler", "virtualenv (>=13.0.0)", "tomli", "wheel", "jaraco.path (>=3.2.0)", "jaraco.envs (>=2.2)", "build", "filelock (>=3.4.0)"] +docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "pygments-github-lexers (==0.0.5)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-favicon", "sphinx-hoverxref (<2)", "sphinx-inline-tabs", "sphinx-lint", "sphinx-notfound-page (==0.8.3)", "sphinx-reredirects", "sphinxcontrib-towncrier"] +testing = ["build[virtualenv]", "filelock (>=3.4.0)", "flake8-2020", "ini2toml[lite] (>=0.9)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pip (>=19.1)", "pip-run (>=8.8)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-mypy (>=0.9.1)", "pytest-perf", "pytest-ruff", "pytest-timeout", "pytest-xdist", "tomli-w (>=1.0.0)", "virtualenv (>=13.0.0)", "wheel"] +testing-integration = ["build[virtualenv]", "filelock (>=3.4.0)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pytest", "pytest-enabler", "pytest-xdist", "tomli", "virtualenv (>=13.0.0)", "wheel"] [[package]] name = "six" @@ -458,7 +517,7 @@ python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*" [[package]] name = "torch" -version = "1.12.1" +version = "1.13.1+cpu" description = "Tensors and Dynamic neural networks in Python with strong GPU acceleration" category = "main" optional = false @@ -467,29 +526,39 @@ python-versions = ">=3.7.0" [package.dependencies] typing-extensions = "*" +[package.extras] +opt-einsum = ["opt-einsum (>=3.3)"] + +[package.source] +type = "legacy" +url = "https://download.pytorch.org/whl/cpu" +reference = "torch" + [[package]] name = "tritonclient" -version = "2.22.0" +version = "2.34.0" description = "Python client library and utilities for communicating with Triton Inference Server" category = "main" optional = false python-versions = "*" [package.dependencies] -geventhttpclient = {version = ">=1.4.4", optional = true, markers = "extra == \"all\""} -grpcio = {version = "1.41.0", optional = true, markers = "extra == \"all\""} +aiohttp = {version = ">=3.8.1,<4.0.0", optional = true, markers = "extra == \"all\""} +geventhttpclient = {version = ">=1.4.4,<=2.0.2", optional = true, markers = "extra == \"all\""} +grpcio = {version = ">=1.41.0", optional = true, markers = "extra == \"all\""} numpy = ">=1.19.1" -protobuf = {version = ">=3.5.0", optional = true, markers = "extra == \"all\""} +packaging = {version = ">=14.1", optional = true, markers = "extra == \"all\""} +protobuf = {version = ">=3.5.0,<4", optional = true, markers = "extra == \"all\""} python-rapidjson = ">=0.9.1" [package.extras] -all = ["protobuf (>=3.5.0)", "grpcio (==1.41.0)", "numpy (>=1.19.1)", "python-rapidjson (>=0.9.1)", "geventhttpclient (>=1.4.4)"] -grpc = ["protobuf (>=3.5.0)", "grpcio (==1.41.0)", "numpy (>=1.19.1)", "python-rapidjson (>=0.9.1)"] -http = ["geventhttpclient (>=1.4.4)", "numpy (>=1.19.1)", "python-rapidjson (>=0.9.1)"] +all = ["aiohttp (>=3.8.1,<4.0.0)", "geventhttpclient (>=1.4.4,<=2.0.2)", "grpcio (>=1.41.0)", "numpy (>=1.19.1)", "packaging (>=14.1)", "protobuf (>=3.5.0,<4)", "python-rapidjson (>=0.9.1)"] +grpc = ["grpcio (>=1.41.0)", "numpy (>=1.19.1)", "packaging (>=14.1)", "protobuf (>=3.5.0,<4)", "python-rapidjson (>=0.9.1)"] +http = ["aiohttp (>=3.8.1,<4.0.0)", "geventhttpclient (>=1.4.4,<=2.0.2)", "numpy (>=1.19.1)", "python-rapidjson (>=0.9.1)"] [[package]] name = "typing-extensions" -version = "4.3.0" +version = "4.6.3" description = "Backported and Experimental Type Hints for Python 3.7+" category = "main" optional = false @@ -497,20 +566,33 @@ python-versions = ">=3.7" [[package]] name = "urllib3" -version = "1.26.12" +version = "2.0.2" description = "HTTP library with thread-safe connection pooling, file post, and more." category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*, <4" +python-versions = ">=3.7" [package.extras] -brotli = ["brotlicffi (>=0.8.0)", "brotli (>=1.0.9)", "brotlipy (>=0.6.0)"] -secure = ["pyOpenSSL (>=0.14)", "cryptography (>=1.3.4)", "idna (>=2.0.0)", "certifi", "urllib3-secure-extra", "ipaddress"] -socks = ["PySocks (>=1.5.6,!=1.5.7,<2.0)"] +brotli = ["brotli (>=1.0.9)", "brotlicffi (>=0.8.0)"] +secure = ["certifi", "cryptography (>=1.9)", "idna (>=2.0.0)", "pyopenssl (>=17.1.0)", "urllib3-secure-extra"] +socks = ["pysocks (>=1.5.6,!=1.5.7,<2.0)"] +zstd = ["zstandard (>=0.18.0)"] + +[[package]] +name = "yarl" +version = "1.9.2" +description = "Yet another URL library" +category = "main" +optional = false +python-versions = ">=3.7" + +[package.dependencies] +idna = 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+torch = {version = "^1.13.1", source = "torch"} "deepclean.export" = {path = "../../../libs/export", develop = true} "deepclean.gwftools" = {path = "../../../libs/gwftools", develop = true} @@ -23,7 +24,10 @@ h5py = "^3.7.0" [tool.poetry.dependencies."hermes.quiver"] path = "../../../hermes/hermes/hermes.quiver" develop = true -extras = ["torch"] + +[[tool.poetry.source]] +name = "torch" +url = "https://download.pytorch.org/whl/cpu" [tool.poetry.dev-dependencies] pytest = "^6.2" diff --git a/projects/sandbox/infer/infer.py b/projects/sandbox/infer/infer.py index 99465a1..7f6547a 100644 --- a/projects/sandbox/infer/infer.py +++ b/projects/sandbox/infer/infer.py @@ -33,6 +33,7 @@ def main( url: str, model_repo_dir: str, model_name: str, + image: str, channels: ChannelList, t0: int, duration: int, @@ -68,6 +69,12 @@ def main( Directory containing models to serve for inference model_name: Model to which to send streaming inference requests + image: + The path to the Singularity image to execute + Triton inside of. If given as a relative path, + will first be checked relative to the current + working directory, then relative to + /cvmfs/singularity.opensciencegrid.org/ml4gw output_directory: Directory to save logs and cleaned frames channels: @@ -133,7 +140,9 @@ def main( # take care of some data bookkeeping while we wait for # it to come online log_file = output_directory / "server.log" - serve_ctx = serve(model_repo_dir, gpus=gpus, log_file=log_file, wait=False) + serve_ctx = serve( + model_repo_dir, gpus=gpus, image=image, log_file=log_file, wait=False + ) with serve_ctx as instance: # load all of the test data into memory, making sure we # have enough to fully process the desired interval diff --git a/projects/sandbox/infer/poetry.lock b/projects/sandbox/infer/poetry.lock index ab8443e..a725a6c 100644 --- a/projects/sandbox/infer/poetry.lock +++ b/projects/sandbox/infer/poetry.lock @@ -1,6 +1,62 @@ +[[package]] +name = "aiohttp" +version = "3.8.4" +description = "Async http client/server framework (asyncio)" +category = "main" +optional = false +python-versions = ">=3.6" + +[package.dependencies] +aiosignal = ">=1.1.2" +async-timeout = ">=4.0.0a3,<5.0" +attrs = ">=17.3.0" +charset-normalizer = ">=2.0,<4.0" +frozenlist = ">=1.1.1" +multidict = ">=4.5,<7.0" +yarl = ">=1.0,<2.0" + +[package.extras] +speedups = ["Brotli", "aiodns", "cchardet"] + +[[package]] +name = "aiosignal" +version = "1.3.1" +description = "aiosignal: a list of registered asynchronous callbacks" +category = "main" +optional = false +python-versions = ">=3.7" + +[package.dependencies] +frozenlist = ">=1.1.0" + +[[package]] +name = "astropy" +version = "4.3.1" +description = "Astronomy and astrophysics core library" +category = "main" +optional = false +python-versions = ">=3.7" + +[package.dependencies] +numpy = ">=1.17" +pyerfa = ">=1.7.3" + +[package.extras] +all = ["PyYAML (>=3.13)", "asdf (>=2.6)", "beautifulsoup4", "bleach", "bottleneck", "certifi", "dask[array]", "h5py", "html5lib", "ipython (>=4.2)", "jplephem", "matplotlib (>=3.0,!=3.4.0)", "mpmath", "pandas", "pytest", "pytz", "scipy (>=1.1)", "sortedcontainers"] +docs = ["PyYAML (>=3.13)", "matplotlib (>=3.1,!=3.4.0)", "packaging", "pytest", "scipy (>=1.1)", "sphinx (<4)", "sphinx-astropy (>=1.3)", "sphinx-changelog (>=1.1.0)"] +test = ["coverage", "ipython (>=4.2)", "objgraph", "packaging", "pytest-astropy (>=0.8)", "pytest-xdist", "sgp4 (>=2.3)", "skyfield (>=1.20)"] + +[[package]] +name = "async-timeout" +version = "4.0.2" +description = "Timeout context manager for asyncio programs" +category = "main" +optional = false +python-versions = ">=3.6" + [[package]] name = "atomicwrites" -version = "1.4.0" +version = "1.4.1" description = "Atomic file writes." category = "dev" optional = false @@ -8,17 +64,18 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "attrs" -version = "21.4.0" +version = "23.1.0" description = "Classes Without Boilerplate" -category = "dev" +category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" +python-versions = ">=3.7" [package.extras] -dev = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "zope.interface", "furo", "sphinx", "sphinx-notfound-page", "pre-commit", "cloudpickle"] -docs = ["furo", "sphinx", "zope.interface", "sphinx-notfound-page"] -tests = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "zope.interface", "cloudpickle"] -tests_no_zope = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "cloudpickle"] +cov = ["attrs[tests]", "coverage[toml] (>=5.3)"] +dev = ["attrs[docs,tests]", "pre-commit"] +docs = ["furo", "myst-parser", "sphinx", "sphinx-notfound-page", "sphinxcontrib-towncrier", "towncrier", "zope-interface"] +tests = ["attrs[tests-no-zope]", "zope-interface"] +tests-no-zope = ["cloudpickle", "hypothesis", "mypy (>=1.1.1)", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "pytest-xdist[psutil]"] [[package]] name = "brotli" @@ -30,7 +87,7 @@ python-versions = "*" [[package]] name = "certifi" -version = "2022.6.15" +version = "2023.5.7" description = "Python package for providing Mozilla's CA Bundle." category = "main" optional = false @@ -38,7 +95,7 @@ python-versions = ">=3.6" [[package]] name = "cffi" -version = "1.15.0" +version = "1.15.1" description = "Foreign Function Interface for Python calling C code." category = "main" optional = false @@ -49,25 +106,41 @@ pycparser = "*" [[package]] name = "charset-normalizer" -version = "2.0.12" +version = "3.1.0" description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet." category = "main" optional = false -python-versions = ">=3.5.0" - -[package.extras] -unicode_backport = ["unicodedata2"] +python-versions = ">=3.7.0" [[package]] name = "colorama" -version = "0.4.5" +version = "0.4.6" description = "Cross-platform colored terminal text." category = "dev" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" +python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,!=3.6.*,>=2.7" + +[[package]] +name = "deepclean-base" +version = "0.0.1" +description = "Dummy base library for constraining versions" +category = "main" +optional = false +python-versions = "^3.8,<3.11" +develop = true + +[package.dependencies] +astropy = "<5.0" +numpy = "<1.23" +packaging = "<21.0" +scipy = "<1.8" + +[package.source] +type = "directory" +url = "../../../libs/base" [[package]] -name = "deepclean.gwftools" +name = "deepclean-gwftools" version = "0.0.1" description = "Utilites for managing gwf file conventions" category = "main" @@ -75,12 +148,15 @@ optional = false python-versions = "^3.8,<3.11" develop = true +[package.dependencies] +"deepclean.base" = {path = "../base", develop = true} + [package.source] type = "directory" url = "../../../libs/gwftools" [[package]] -name = "deepclean.infer" +name = "deepclean-infer" version = "0.0.1" description = "DeepClean inference utilities" category = "main" @@ -89,10 +165,9 @@ python-versions = "^3.8,<3.11" develop = true [package.dependencies] +"deepclean.base" = {path = "../base", develop = true} "deepclean.gwftools" = {path = "../gwftools", develop = true} "deepclean.signal" = {path = "../signal", develop = true} -"hermes.stillwater" = {path = "../../hermes/hermes/hermes.stillwater", develop = true} -numpy = "^1.21" tritonclient = {version = "^2.18.0", extras = ["all"]} [package.source] @@ -100,7 +175,7 @@ type = "directory" url = "../../../libs/infer" [[package]] -name = "deepclean.logging" +name = "deepclean-logging" version = "0.0.1" description = "Utilities for standardizing logging practices" category = "main" @@ -113,7 +188,7 @@ type = "directory" url = "../../../libs/logging" [[package]] -name = "deepclean.signal" +name = "deepclean-signal" version = "0.0.1" description = "DeepClean signal processing utilities" category = "main" @@ -129,9 +204,17 @@ scipy = "^1.7" type = "directory" url = "../../../libs/signal" +[[package]] +name = "frozenlist" +version = "1.3.3" +description = "A list-like structure which implements collections.abc.MutableSequence" +category = "main" +optional = false +python-versions = ">=3.7" + [[package]] name = "gevent" -version = "21.12.0" +version = "22.10.2" description = "Coroutine-based network library" category = "main" optional = false @@ -139,7 +222,7 @@ python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5" [package.dependencies] cffi = {version = ">=1.12.2", markers = "platform_python_implementation == \"CPython\" and sys_platform == \"win32\""} -greenlet = {version = ">=1.1.0,<2.0", markers = "platform_python_implementation == \"CPython\""} +greenlet = {version = ">=2.0.0", markers = "platform_python_implementation == \"CPython\""} setuptools = "*" "zope.event" = "*" "zope.interface" = "*" @@ -148,12 +231,12 @@ setuptools = "*" dnspython = ["dnspython (>=1.16.0,<2.0)", "idna"] docs = ["repoze.sphinx.autointerface", "sphinxcontrib-programoutput", "zope.schema"] monitor = ["psutil (>=5.7.0)"] -recommended = ["cffi (>=1.12.2)", "dnspython (>=1.16.0,<2.0)", "idna", "selectors2", "backports.socketpair", "psutil (>=5.7.0)"] -test = ["requests", "objgraph", "cffi (>=1.12.2)", "dnspython (>=1.16.0,<2.0)", "idna", "selectors2", "futures", "mock", "backports.socketpair", "contextvars (==2.4)", "coverage (>=5.0)", "coveralls (>=1.7.0)", "psutil (>=5.7.0)"] +recommended = ["backports.socketpair", "cffi (>=1.12.2)", "dnspython (>=1.16.0,<2.0)", "idna", "psutil (>=5.7.0)", "selectors2"] +test = ["backports.socketpair", "cffi (>=1.12.2)", "contextvars (==2.4)", "coverage (>=5.0)", "coveralls (>=1.7.0)", "dnspython (>=1.16.0,<2.0)", "futures", "idna", "mock", "objgraph", "psutil (>=5.7.0)", "requests", "selectors2"] [[package]] name = "geventhttpclient" -version = "1.5.4" +version = "2.0.2" description = "http client library for gevent" category = "main" optional = false @@ -167,32 +250,30 @@ six = "*" [[package]] name = "greenlet" -version = "1.1.2" +version = "2.0.2" description = "Lightweight in-process concurrent programming" category = "main" optional = false python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*" [package.extras] -docs = ["sphinx"] +docs = ["Sphinx", "docutils (<0.18)"] +test = ["objgraph", "psutil"] [[package]] name = "grpcio" -version = "1.41.0" +version = "1.54.2" description = "HTTP/2-based RPC framework" category = "main" optional = false -python-versions = "*" - -[package.dependencies] -six = ">=1.5.2" +python-versions = ">=3.7" [package.extras] -protobuf = ["grpcio-tools (>=1.41.0)"] +protobuf = ["grpcio-tools (>=1.54.2)"] [[package]] -name = "hermes.aeriel" -version = "0.0.1" +name = "hermes-aeriel" +version = "0.1.0" description = "Triton wrapper utilities" category = "main" optional = false @@ -200,38 +281,19 @@ python-versions = ">=3.8,<3.11" develop = true [package.dependencies] -numpy = "<1.22.4" -spython = {version = "^0.1", optional = true} -tritonclient = {version = "^2.18", extras = ["all"]} +spython = {version = "^0.2", optional = true} +tritonclient = {version = "^2.22", extras = ["all"]} [package.extras] -serve = ["spython (>=0.1,<0.2)"] +client = ["numpy (>=1.22,<2.0)"] +serve = ["spython (>=0.2,<0.3)"] [package.source] type = "directory" url = "../../../hermes/hermes/hermes.aeriel" [[package]] -name = "hermes.stillwater" -version = "0.1.0" -description = "Tools for building asynchronous inference pipelines" -category = "main" -optional = false -python-versions = ">=3.8,<3.11" -develop = true - -[package.dependencies] -numpy = "<1.22.4" -requests = "^2.26.0" -tblib = "^1.7" -tritonclient = {version = "^2.18", extras = ["all"]} - -[package.source] -type = "directory" -url = "../../../hermes/hermes/hermes.stillwater" - -[[package]] -name = "hermes.typeo" +name = "hermes-typeo" version = "0.1.5" description = "Utilities for running functions as scripts" category = "main" @@ -243,7 +305,7 @@ toml = ">=0.10.2,<0.11.0" [[package]] name = "idna" -version = "3.3" +version = "3.4" description = "Internationalized Domain Names in Applications (IDNA)" category = "main" optional = false @@ -251,15 +313,23 @@ python-versions = ">=3.5" [[package]] name = "iniconfig" -version = "1.1.1" -description = "iniconfig: brain-dead simple config-ini parsing" +version = "2.0.0" +description = "brain-dead simple config-ini parsing" category = "dev" optional = false -python-versions = "*" +python-versions = ">=3.7" + +[[package]] +name = "multidict" +version = "6.0.4" +description = "multidict implementation" +category = "main" +optional = false +python-versions = ">=3.7" [[package]] name = "numpy" -version = "1.22.3" +version = "1.22.4" description = "NumPy is the fundamental package for array computing with Python." category = "main" optional = false @@ -267,14 +337,14 @@ python-versions = ">=3.8" [[package]] name = "packaging" -version = "21.3" +version = "20.9" description = "Core utilities for Python packages" -category = "dev" +category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [package.dependencies] -pyparsing = ">=2.0.2,<3.0.5 || >3.0.5" +pyparsing = ">=2.0.2" [[package]] name = "pluggy" @@ -290,11 +360,11 @@ testing = ["pytest", "pytest-benchmark"] [[package]] name = "protobuf" -version = "3.19.4" +version = "3.20.3" description = "Protocol Buffers" category = "main" optional = false -python-versions = ">=3.5" +python-versions = ">=3.7" [[package]] name = "py" @@ -312,16 +382,31 @@ category = 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"hermes/tritonserver:22.12" model_name = "deepclean-stream-${base.max_latency}" output_directory = "${PROJECT_DIR}" diff --git a/projects/sandbox/train/poetry.lock b/projects/sandbox/train/poetry.lock index 93e8f80..c4f73e9 100644 --- a/projects/sandbox/train/poetry.lock +++ b/projects/sandbox/train/poetry.lock @@ -11,9 +11,9 @@ numpy = ">=1.17" pyerfa = ">=1.7.3" [package.extras] -all = ["scipy (>=1.1)", "certifi", "dask", "h5py", "beautifulsoup4", "html5lib", "bleach", "PyYAML (>=3.13)", "pandas", "sortedcontainers", "pytz", "jplephem", "matplotlib (>=3.0,!=3.4.0)", "mpmath", "asdf (>=2.6)", "bottleneck", "ipython (>=4.2)", "pytest"] -docs = ["sphinx (<4)", "sphinx-astropy (>=1.3)", "pytest", "PyYAML (>=3.13)", "scipy (>=1.1)", "matplotlib (>=3.1,!=3.4.0)", "sphinx-changelog (>=1.1.0)", "packaging"] -test = ["pytest-astropy (>=0.8)", "pytest-xdist", "objgraph", "ipython (>=4.2)", "coverage", "skyfield (>=1.20)", "sgp4 (>=2.3)", "packaging"] +all = ["PyYAML (>=3.13)", "asdf (>=2.6)", 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