From 7c07cadfab899618403e6b30e2a72d1dd665dd3f Mon Sep 17 00:00:00 2001 From: Ben Galewsky Date: Thu, 22 Feb 2024 14:32:34 -0600 Subject: [PATCH 01/12] Databinder Eats the World --- examples/bigger_uproot.py | 34 +- examples/config_databinder_func_adl.yaml | 19 + ...der.yaml => config_databinder_python.yaml} | 13 +- examples/databinder.py | 21 +- examples/python_codegen.py | 32 +- examples/single_file_uproot.py | 48 +- poetry.lock | 2930 +++++++++-------- servicex/__init__.py | 5 +- servicex/databinder_models.py | 165 + servicex/dataset_group.py | 2 + servicex/func_adl/func_adl_dataset.py | 2 +- servicex/servicex_client.py | 56 + 12 files changed, 1895 insertions(+), 1432 deletions(-) create mode 100644 examples/config_databinder_func_adl.yaml rename examples/{config_databinder.yaml => config_databinder_python.yaml} (74%) create mode 100644 servicex/databinder_models.py diff --git a/examples/bigger_uproot.py b/examples/bigger_uproot.py index 3dd8e34c..c57dc737 100644 --- a/examples/bigger_uproot.py +++ b/examples/bigger_uproot.py @@ -26,18 +26,26 @@ # OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE # OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. -from servicex import RucioDatasetIdentifier -from servicex import ResultFormat -from servicex import ServiceXClient +from servicex import ServiceXSpec, General, Sample +from servicex.func_adl.func_adl_dataset import FuncADLDataset +from servicex.servicex_client import deliver -sx = ServiceXClient(backend="uc-af") +query = FuncADLDataset().Select(lambda e: {'el_pt': e['el_pt']}) -dataset_id = RucioDatasetIdentifier("user.kchoi:user.kchoi.fcnc_tHq_ML.ttH.v8") - -ds = sx.func_adl_dataset(dataset_id, title="bigger_uproot") - -q = ds.Select(lambda e: {'el_pt': e['el_pt']})\ - .set_result_format(ResultFormat.parquet).set_tree("nominal")\ - .as_signed_urls() - -print(q) +spec = ServiceXSpec( + General=General( + ServiceX="testing1", + Codegen="uproot", + OutputFormat="parquet", + Delivery="LocalCache" + ), + Sample=[ + Sample( + Name="bigger_uproot", + RucioDID="user.kchoi:user.kchoi.fcnc_tHq_ML.ttH.v8", + Tree="nominal", + Query=query + ) + ] +) +print(deliver(spec)) diff --git a/examples/config_databinder_func_adl.yaml b/examples/config_databinder_func_adl.yaml new file mode 100644 index 00000000..9424a09e --- /dev/null +++ b/examples/config_databinder_func_adl.yaml @@ -0,0 +1,19 @@ +General: + ServiceX: DEF_backend + Codegen: uproot + OutputFormat: root-file + Delivery: LocalCache + +Sample: + - Name: ggH + RootFile: DEF_ggH_input + NFiles: 5 + Query: DEF_ttH_nominal_query + +Definition: + DEF_backend: "testing1" + DEF_ttH_nominal_query: | + Select(lambda e: {'lep_pt': e['lep_pt']}).Where(lambda e: e['lep_pt'] > 1000) + + DEF_ggH_input: "root://eospublic.cern.ch//eos/opendata/atlas/OutreachDatasets\ + /2020-01-22/4lep/MC/mc_345060.ggH125_ZZ4lep.4lep.root" diff --git a/examples/config_databinder.yaml b/examples/config_databinder_python.yaml similarity index 74% rename from examples/config_databinder.yaml rename to examples/config_databinder_python.yaml index 0c18b27e..a849350f 100644 --- a/examples/config_databinder.yaml +++ b/examples/config_databinder_python.yaml @@ -1,7 +1,7 @@ General: - ServiceX: uc-af + ServiceX: DEF_backend Codegen: python - OutputFormat: root + OutputFormat: root-file Delivery: LocalCache Sample: @@ -17,14 +17,19 @@ Sample: Function: DEF_function1 - Name: ggH - XRootDFiles: root://eospublic.cern.ch//eos/opendata/atlas/OutreachDatasets/2020-01-22/4lep/MC/mc_345060.ggH125_ZZ4lep.4lep.root + RootFile: DEF_ggH_input Function: DEF_function2 Definition: + DEF_backend: "testing1" + + DEF_ggH_input: "root://eospublic.cern.ch//eos/opendata/atlas/OutreachDatasets\ + /2020-01-22/4lep/MC/mc_345060.ggH125_ZZ4lep.4lep.root" + DEF_function1: | def run_query(input_filenames=None): import uproot - + with uproot.open({input_filenames:"nominal"}) as o: br = o.arrays("mu_pt") return br diff --git a/examples/databinder.py b/examples/databinder.py index eb7840b9..954b2457 100644 --- a/examples/databinder.py +++ b/examples/databinder.py @@ -25,11 +25,24 @@ # CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, # OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE # OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. +import sys -from servicex.databinder import DataBinder +import yaml -sx = DataBinder("config_databinder.yaml") +from servicex import ServiceXSpec +from servicex.servicex_client import deliver -out_dict = sx.deliver() +if len(sys.argv) != 2: + print("Usage: python databinder.py ") + sys.exit(1) -print(out_dict) +try: + with open(sys.argv[1]) as f: + data = yaml.safe_load(f) +except FileNotFoundError: + print(f"File {sys.argv[1]} not found") + sys.exit(1) + + +spec = ServiceXSpec.parse_obj(data) +print(deliver(spec)) diff --git a/examples/python_codegen.py b/examples/python_codegen.py index 62cfbb9e..fe136995 100644 --- a/examples/python_codegen.py +++ b/examples/python_codegen.py @@ -27,19 +27,10 @@ # OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE # OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. -from servicex import FileListDataset +from servicex import FileListDataset, ServiceXSpec, General, Sample from servicex import ServiceXClient from servicex import ResultFormat - -sx = ServiceXClient(backend="uc-af") -dataset_id = FileListDataset("root://eospublic.cern.ch//eos/opendata/atlas/OutreachDatasets/2020-01-22/4lep/MC/mc_345060.ggH125_ZZ4lep.4lep.root") # NOQA 501 - -ds = sx.python_dataset( - dataset_id, - codegen="python", - title="Python", - result_format=ResultFormat.parquet -) +from servicex.servicex_client import deliver def run_query(input_filenames=None): @@ -49,5 +40,20 @@ def run_query(input_filenames=None): return br -sx3 = ds.with_uproot_function(run_query).as_pandas() -print(sx3) +spec = ServiceXSpec( + General=General( + ServiceX="testing1", + Codegen="python", + OutputFormat="parquet", + Delivery="LocalCache" + ), + Sample=[ + Sample( + Name="Python Codegen", + RootFile="root://eospublic.cern.ch//eos/opendata/atlas/OutreachDatasets/2020-01-22/4lep/MC/mc_345060.ggH125_ZZ4lep.4lep.root", + Function=run_query + ) + ] +) +print(deliver(spec)) + diff --git a/examples/single_file_uproot.py b/examples/single_file_uproot.py index 522bab23..6ed1b644 100644 --- a/examples/single_file_uproot.py +++ b/examples/single_file_uproot.py @@ -26,20 +26,42 @@ # OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE # OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. -from servicex import FileListDataset -from servicex import ResultFormat -from servicex import ServiceXClient +import ast -sx = ServiceXClient(backend="uc-af") -dataset_id = FileListDataset("root://eospublic.cern.ch//eos/opendata/atlas/OutreachDatasets/2020-01-22/4lep/MC/mc_345060.ggH125_ZZ4lep.4lep.root") # NOQA 501 +import qastle -ds = sx.func_adl_dataset(dataset_id, codegen="uproot", - title="Root", - result_format=ResultFormat.parquet) +from servicex import ServiceXSpec, General, Sample +from servicex.func_adl.func_adl_dataset import FuncADLDataset +from servicex.servicex_client import deliver -sx3 = ds.Select(lambda e: {'lep_pt': e['lep_pt']}). \ - Where(lambda e: e['lep_pt'] > 1000). \ - set_tree("mini"). \ - as_pandas() +query = FuncADLDataset().Select(lambda e: {'lep_pt': e['lep_pt']}). \ + Where(lambda e: e['lep_pt'] > 1000) -print(sx3) +qstr = """ +FuncADLDataset().Select(lambda e: {'lep_pt': e['lep_pt']}). \ + Where(lambda e: e['lep_pt'] > 1000) +""" +query_ast = ast.parse(qstr) +qastle_query = qastle.python_ast_to_text_ast(qastle.insert_linq_nodes(query_ast)) +print("From str", qastle_query) +q2 = FuncADLDataset() +q2.set_provided_qastle(qastle_query) +print(q2.generate_selection_string()) +print("From python", query.generate_selection_string()) +spec = ServiceXSpec( + General=General( + ServiceX="testing1", + Codegen="uproot", + OutputFormat="parquet", + Delivery="LocalCache" + ), + Sample=[ + Sample( + Name="mc_345060.ggH125_ZZ4lep.4lep", + RootFile="root://eospublic.cern.ch//eos/opendata/atlas/OutreachDatasets/2020-01-22/4lep/MC/mc_345060.ggH125_ZZ4lep.4lep.root", # NOQA E501 + Query=query + ) + ] +) + +print(deliver(spec)) diff --git a/poetry.lock b/poetry.lock index e741ebf5..41993145 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,6 +1,6 @@ [[package]] name = "aiofile" -version = "3.8.7" +version = "3.8.8" description = "Asynchronous file operations." category = "main" optional = false @@ -14,23 +14,22 @@ develop = ["aiomisc-pytest", "coveralls", "pytest", "pytest-cov", "pytest-rst"] [[package]] name = "aiohttp" -version = "3.8.4" +version = "3.9.3" description = "Async http client/server framework (asyncio)" category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.8" [package.dependencies] aiosignal = ">=1.1.2" -async-timeout = ">=4.0.0a3,<5.0" +async-timeout = {version = ">=4.0,<5.0", markers = "python_version < \"3.11\""} 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"] +speedups = ["Brotli", "aiodns", "brotlicffi"] [[package]] name = "aiosignal" @@ -53,45 +52,47 @@ python-versions = ">=3.6" [[package]] name = "anyio" -version = "3.7.1" +version = "4.3.0" description = "High level compatibility layer for multiple asynchronous event loop implementations" category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.dependencies] -exceptiongroup = {version = "*", markers = "python_version < \"3.11\""} +exceptiongroup = {version = ">=1.0.2", markers = "python_version < \"3.11\""} idna = ">=2.8" sniffio = ">=1.1" +typing-extensions = {version = ">=4.1", markers = "python_version < \"3.11\""} [package.extras] -doc = ["Sphinx", "packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx-rtd-theme (>=1.2.2)", "sphinxcontrib-jquery"] -test = ["anyio[trio]", "coverage[toml] (>=4.5)", "hypothesis (>=4.0)", "mock (>=4)", "psutil (>=5.9)", "pytest (>=7.0)", "pytest-mock (>=3.6.1)", "trustme", "uvloop (>=0.17)"] -trio = ["trio (<0.22)"] +doc = ["Sphinx (>=7)", "packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx-rtd-theme"] +test = ["anyio[trio]", "coverage[toml] (>=7)", "exceptiongroup (>=1.2.0)", "hypothesis (>=4.0)", "psutil (>=5.9)", "pytest (>=7.0)", "pytest-mock (>=3.6.1)", "trustme", "uvloop (>=0.17)"] +trio = ["trio (>=0.23)"] [[package]] name = "appnope" -version = "0.1.3" +version = "0.1.4" description = "Disable App Nap on macOS >= 10.9" category = "main" optional = false -python-versions = "*" +python-versions = ">=3.6" [[package]] name = "argon2-cffi" -version = "21.3.0" -description = "The secure Argon2 password hashing algorithm." +version = "23.1.0" +description = "Argon2 for Python" category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" [package.dependencies] argon2-cffi-bindings = "*" [package.extras] -dev = ["cogapp", "coverage[toml] (>=5.0.2)", "furo", "hypothesis", "pre-commit", "pytest", "sphinx", "sphinx-notfound-page", "tomli"] -docs = ["furo", "sphinx", "sphinx-notfound-page"] -tests = ["coverage[toml] (>=5.0.2)", "hypothesis", "pytest"] +dev = ["argon2-cffi[tests,typing]", "tox (>4)"] +docs = ["furo", "myst-parser", "sphinx", "sphinx-copybutton", "sphinx-notfound-page"] +tests = ["hypothesis", "pytest"] +typing = ["mypy"] [[package]] name = "argon2-cffi-bindings" @@ -110,36 +111,53 @@ tests = ["pytest"] [[package]] name = "arrow" -version = "1.2.3" +version = "1.3.0" description = "Better dates & times for Python" category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.8" [package.dependencies] python-dateutil = ">=2.7.0" +types-python-dateutil = ">=2.8.10" + +[package.extras] +doc = ["doc8", "sphinx (>=7.0.0)", "sphinx-autobuild", "sphinx-autodoc-typehints", "sphinx_rtd_theme (>=1.3.0)"] +test = ["dateparser (>=1.0.0,<2.0.0)", "pre-commit", "pytest", "pytest-cov", "pytest-mock", "pytz (==2021.1)", "simplejson (>=3.0.0,<4.0.0)"] [[package]] name = "asttokens" -version = "2.2.1" +version = "2.4.1" description = "Annotate AST trees with source code positions" category = "main" optional = false python-versions = "*" [package.dependencies] -six = "*" +six = ">=1.12.0" [package.extras] -test = ["astroid", "pytest"] +astroid = ["astroid (>=1,<2)", "astroid (>=2,<4)"] +test = ["astroid (>=1,<2)", "astroid (>=2,<4)", "pytest"] + +[[package]] +name = "async-lru" +version = "2.0.4" +description = "Simple LRU cache for asyncio" +category = "main" +optional = false +python-versions = ">=3.8" + +[package.dependencies] +typing-extensions = {version = ">=4.0.0", markers = "python_version < \"3.11\""} [[package]] name = "async-timeout" -version = "4.0.2" +version = "4.0.3" description = "Timeout context manager for asyncio programs" category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" [[package]] name = "asyncmock" @@ -154,7 +172,7 @@ mock = "*" [[package]] name = "attrs" -version = "23.1.0" +version = "23.2.0" description = "Classes Without Boilerplate" category = "main" optional = false @@ -162,22 +180,26 @@ python-versions = ">=3.7" [package.extras] cov = ["attrs[tests]", "coverage[toml] (>=5.3)"] -dev = ["attrs[docs,tests]", "pre-commit"] +dev = ["attrs[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]"] +tests-mypy = ["mypy (>=1.6)", "pytest-mypy-plugins"] +tests-no-zope = ["attrs[tests-mypy]", "cloudpickle", "hypothesis", "pympler", "pytest (>=4.3.0)", "pytest-xdist[psutil]"] [[package]] name = "babel" -version = "2.12.1" +version = "2.14.0" description = "Internationalization utilities" category = "main" -optional = true +optional = false python-versions = ">=3.7" [package.dependencies] pytz = {version = ">=2015.7", markers = "python_version < \"3.9\""} +[package.extras] +dev = ["freezegun (>=1.0,<2.0)", "pytest (>=6.0)", "pytest-cov"] + [[package]] name = "backcall" version = "0.2.0" @@ -188,7 +210,7 @@ python-versions = "*" [[package]] name = "beautifulsoup4" -version = "4.12.2" +version = "4.12.3" description = "Screen-scraping library" category = "main" optional = false @@ -198,27 +220,30 @@ python-versions = ">=3.6.0" soupsieve = ">1.2" [package.extras] +cchardet = ["cchardet"] +chardet = ["chardet"] +charset-normalizer = ["charset-normalizer"] html5lib = ["html5lib"] lxml = ["lxml"] [[package]] name = "bleach" -version = "6.0.0" +version = "6.1.0" description = "An easy safelist-based HTML-sanitizing tool." category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.dependencies] six = ">=1.9.0" webencodings = "*" [package.extras] -css = ["tinycss2 (>=1.1.0,<1.2)"] +css = ["tinycss2 (>=1.1.0,<1.3)"] [[package]] name = "cachetools" -version = "5.3.1" +version = "5.3.2" description = "Extensible memoizing collections and decorators" category = "main" optional = false @@ -226,7 +251,7 @@ python-versions = ">=3.7" [[package]] name = "caio" -version = "0.9.12" +version = "0.9.13" description = "Asynchronous file IO for Linux MacOS or Windows." category = "main" optional = false @@ -237,7 +262,7 @@ develop = ["aiomisc-pytest", "pytest", "pytest-cov"] [[package]] name = "certifi" -version = "2023.5.7" +version = "2024.2.2" description = "Python package for providing Mozilla's CA Bundle." category = "main" optional = false @@ -245,18 +270,18 @@ python-versions = ">=3.6" [[package]] name = "cffi" -version = "1.15.1" +version = "1.16.0" description = "Foreign Function Interface for Python calling C code." category = "main" optional = false -python-versions = "*" +python-versions = ">=3.8" [package.dependencies] pycparser = "*" [[package]] name = "charset-normalizer" -version = "3.2.0" +version = "3.3.2" description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet." category = "main" optional = false @@ -264,7 +289,7 @@ python-versions = ">=3.7.0" [[package]] name = "click" -version = "8.1.5" +version = "8.1.7" description = "Composable command line interface toolkit" category = "main" optional = false @@ -283,27 +308,25 @@ python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,!=3.6.*,>=2.7 [[package]] name = "comm" -version = "0.1.3" +version = "0.2.1" description = "Jupyter Python Comm implementation, for usage in ipykernel, xeus-python etc." category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.8" [package.dependencies] -traitlets = ">=5.3" +traitlets = ">=4" [package.extras] -lint = ["black (>=22.6.0)", "mdformat (>0.7)", "mdformat-gfm (>=0.3.5)", "ruff (>=0.0.156)"] test = ["pytest"] -typing = ["mypy (>=0.990)"] [[package]] name = "coverage" -version = "7.2.7" +version = "7.4.2" description = "Code coverage measurement for Python" category = "dev" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.dependencies] tomli = {version = "*", optional = true, markers = "python_full_version <= \"3.11.0a6\" and extra == \"toml\""} @@ -313,19 +336,22 @@ toml = ["tomli"] [[package]] name = "cramjam" -version = "2.6.2" +version = "2.8.1" description = "Thin Python bindings to de/compression algorithms in Rust" category = "main" optional = true python-versions = ">=3.7" +[package.extras] +dev = ["black (==22.3.0)", "hypothesis", "numpy", "pytest (>=5.30)", "pytest-xdist"] + [[package]] name = "debugpy" -version = "1.6.7" +version = "1.8.1" description = "An implementation of the Debug Adapter Protocol for Python" category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [[package]] name = "decorator" @@ -353,7 +379,7 @@ python-versions = ">=3.7" [[package]] name = "exceptiongroup" -version = "1.1.2" +version = "1.2.0" description = "Backport of PEP 654 (exception groups)" category = "main" optional = false @@ -364,18 +390,18 @@ test = ["pytest (>=6)"] [[package]] name = "executing" -version = "1.2.0" +version = "2.0.1" description = "Get the currently executing AST node of a frame, and other information" category = "main" optional = false -python-versions = "*" +python-versions = ">=3.5" [package.extras] -tests = ["asttokens", "littleutils", "pytest", "rich"] +tests = ["asttokens (>=2.1.0)", "coverage", "coverage-enable-subprocess", "ipython", "littleutils", "pytest", "rich"] [[package]] name = "fastjsonschema" -version = "2.17.1" +version = "2.19.1" description = "Fastest Python implementation of JSON schema" category = "main" optional = false @@ -386,7 +412,7 @@ devel = ["colorama", "json-spec", "jsonschema", "pylint", "pytest", "pytest-benc [[package]] name = "fastparquet" -version = "2023.7.0" +version = "2023.10.1" description = "Python support for Parquet file format" category = "main" optional = true @@ -425,7 +451,7 @@ python-versions = ">=2.7, !=3.0, !=3.1, !=3.2, !=3.3, !=3.4, <4" [[package]] name = "frozenlist" -version = "1.4.0" +version = "1.4.1" description = "A list-like structure which implements collections.abc.MutableSequence" category = "main" optional = false @@ -433,7 +459,7 @@ python-versions = ">=3.8" [[package]] name = "fsspec" -version = "2023.6.0" +version = "2024.2.0" description = "File-system specification" category = "main" optional = true @@ -454,7 +480,7 @@ github = ["requests"] gs = ["gcsfs"] gui = ["panel"] hdfs = ["pyarrow (>=1)"] -http = ["aiohttp (!=4.0.0a0,!=4.0.0a1)", "requests"] +http = ["aiohttp (!=4.0.0a0,!=4.0.0a1)"] libarchive = ["libarchive-c"] oci = ["ocifs"] s3 = ["s3fs"] @@ -465,26 +491,26 @@ tqdm = ["tqdm"] [[package]] name = "func-adl" -version = "3.2.6" +version = "3.2.7" description = "Functional Analysis Description Language Base Package" category = "main" optional = false -python-versions = ">=3.6, <3.12" +python-versions = ">=3.6, <3.13" [package.dependencies] make-it-sync = "*" [package.extras] -complete = ["astunparse", "black", "coverage", "flake8", "isort", "pytest", "pytest-asyncio", "pytest-cov", "twine", "wheel"] -test = ["astunparse", "black", "coverage", "flake8", "isort", "pytest", "pytest-asyncio", "pytest-cov", "twine", "wheel"] +complete = ["astunparse", "black", "coverage", "flake8", "isort", "numpy", "pytest", "pytest-asyncio", "pytest-cov", "twine", "wheel"] +test = ["astunparse", "black", "coverage", "flake8", "isort", "numpy", "pytest", "pytest-asyncio", "pytest-cov", "twine", "wheel"] [[package]] name = "furo" -version = "2023.5.20" +version = "2023.9.10" description = "A clean customisable Sphinx documentation theme." category = "main" optional = true -python-versions = ">=3.7" +python-versions = ">=3.8" [package.dependencies] beautifulsoup4 = "*" @@ -494,18 +520,16 @@ sphinx-basic-ng = "*" [[package]] name = "google-auth" -version = "2.22.0" +version = "2.28.1" description = "Google Authentication Library" category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" [package.dependencies] cachetools = ">=2.0.0,<6.0" pyasn1-modules = ">=0.2.1" rsa = ">=3.1.4,<5" -six = ">=1.9.0" -urllib3 = "<2.0" [package.extras] aiohttp = ["aiohttp (>=3.6.2,<4.0.0.dev0)", "requests (>=2.20.0,<3.0.0.dev0)"] @@ -562,7 +586,7 @@ socks = ["socksio (>=1.0.0,<2.0.0)"] [[package]] name = "idna" -version = "3.4" +version = "3.6" description = "Internationalized Domain Names in Applications (IDNA)" category = "main" optional = false @@ -578,7 +602,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "importlib-metadata" -version = "6.8.0" +version = "7.0.1" description = "Read metadata from Python packages" category = "main" optional = false @@ -588,13 +612,13 @@ python-versions = ">=3.8" zipp = ">=0.5" [package.extras] -docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"] +docs = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (<7.2.5)", "sphinx (>=3.5)", "sphinx-lint"] perf = ["ipython"] testing = ["flufl.flake8", "importlib-resources (>=1.3)", "packaging", "pyfakefs", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=2.2)", "pytest-mypy (>=0.9.1)", "pytest-perf (>=0.9.2)", "pytest-ruff"] [[package]] name = "importlib-resources" -version = "6.0.0" +version = "6.1.1" description = "Read resources from Python packages" category = "main" optional = false @@ -604,8 +628,8 @@ python-versions = ">=3.8" zipp = {version = ">=3.1.0", markers = "python_version < \"3.10\""} [package.extras] -docs = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"] -testing = ["pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=2.2)", "pytest-mypy (>=0.9.1)", "pytest-ruff"] +docs = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (<7.2.5)", "sphinx (>=3.5)", "sphinx-lint"] +testing = ["pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=2.2)", "pytest-mypy (>=0.9.1)", "pytest-ruff", "zipp (>=3.17)"] [[package]] name = "iniconfig" @@ -617,7 +641,7 @@ python-versions = ">=3.7" [[package]] name = "ipykernel" -version = "6.24.0" +version = "6.29.2" description = "IPython Kernel for Jupyter" category = "main" optional = false @@ -634,7 +658,7 @@ matplotlib-inline = ">=0.1" nest-asyncio = "*" packaging = "*" psutil = "*" -pyzmq = ">=20" +pyzmq = ">=24" tornado = ">=6.1" traitlets = ">=5.4.0" @@ -643,11 +667,11 @@ cov = ["coverage[toml]", "curio", "matplotlib", "pytest-cov", "trio"] docs = ["myst-parser", "pydata-sphinx-theme", "sphinx", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-spelling", "trio"] pyqt5 = ["pyqt5"] pyside6 = ["pyside6"] -test = ["flaky", "ipyparallel", "pre-commit", "pytest (>=7.0)", "pytest-asyncio", "pytest-cov", "pytest-timeout"] +test = ["flaky", "ipyparallel", "pre-commit", "pytest (>=7.0)", "pytest-asyncio (==0.23.4)", "pytest-cov", "pytest-timeout"] [[package]] name = "ipython" -version = "8.12.2" +version = "8.12.3" description = "IPython: Productive Interactive Computing" category = "main" optional = false @@ -681,28 +705,20 @@ qtconsole = ["qtconsole"] test = ["pytest (<7.1)", "pytest-asyncio", "testpath"] test-extra = ["curio", "matplotlib (!=3.2.0)", "nbformat", "numpy (>=1.21)", "pandas", "pytest (<7.1)", "pytest-asyncio", "testpath", "trio"] -[[package]] -name = "ipython-genutils" -version = "0.2.0" -description = "Vestigial utilities from IPython" -category = "main" -optional = false -python-versions = "*" - [[package]] name = "ipywidgets" -version = "8.0.7" +version = "8.1.2" description = "Jupyter interactive widgets" category = "main" optional = false python-versions = ">=3.7" [package.dependencies] -ipykernel = ">=4.5.1" +comm = ">=0.1.3" ipython = ">=6.1.0" -jupyterlab-widgets = ">=3.0.7,<3.1.0" +jupyterlab-widgets = ">=3.0.10,<3.1.0" traitlets = ">=4.3.1" -widgetsnbextension = ">=4.0.7,<4.1.0" +widgetsnbextension = ">=4.0.10,<4.1.0" [package.extras] test = ["ipykernel", "jsonschema", "pytest (>=3.6.0)", "pytest-cov", "pytz"] @@ -720,23 +736,23 @@ arrow = ">=0.15.0" [[package]] name = "jedi" -version = "0.18.2" +version = "0.19.1" description = "An autocompletion tool for Python that can be used for text editors." category = "main" optional = false python-versions = ">=3.6" [package.dependencies] -parso = ">=0.8.0,<0.9.0" +parso = ">=0.8.3,<0.9.0" [package.extras] docs = ["Jinja2 (==2.11.3)", "MarkupSafe (==1.1.1)", "Pygments (==2.8.1)", "alabaster (==0.7.12)", "babel (==2.9.1)", "chardet (==4.0.0)", "commonmark (==0.8.1)", "docutils (==0.17.1)", "future (==0.18.2)", "idna (==2.10)", "imagesize (==1.2.0)", "mock (==1.0.1)", "packaging (==20.9)", "pyparsing (==2.4.7)", "pytz (==2021.1)", "readthedocs-sphinx-ext (==2.1.4)", "recommonmark (==0.5.0)", "requests (==2.25.1)", "six (==1.15.0)", "snowballstemmer (==2.1.0)", "sphinx (==1.8.5)", "sphinx-rtd-theme (==0.4.3)", "sphinxcontrib-serializinghtml (==1.1.4)", "sphinxcontrib-websupport (==1.2.4)", "urllib3 (==1.26.4)"] -qa = ["flake8 (==3.8.3)", "mypy (==0.782)"] -testing = ["Django (<3.1)", "attrs", "colorama", "docopt", "pytest (<7.0.0)"] +qa = ["flake8 (==5.0.4)", "mypy (==0.971)", "types-setuptools (==67.2.0.1)"] +testing = ["Django", "attrs", "colorama", "docopt", "pytest (<7.0.0)"] [[package]] name = "jinja2" -version = "3.1.2" +version = "3.1.3" description = "A very fast and expressive template engine." category = "main" optional = false @@ -748,6 +764,17 @@ MarkupSafe = ">=2.0" [package.extras] i18n = ["Babel (>=2.7)"] +[[package]] +name = "json5" +version = "0.9.17" +description = "A Python implementation of the JSON5 data format." +category = "main" +optional = false +python-versions = ">=3.8" + +[package.extras] +dev = ["hypothesis"] + [[package]] name = "jsonpointer" version = "2.4" @@ -758,7 +785,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*, [[package]] name = "jsonschema" -version = "4.18.3" +version = "4.21.1" description = "An implementation of JSON Schema validation for Python" category = "main" optional = false @@ -786,7 +813,7 @@ format-nongpl = ["fqdn", "idna", "isoduration", "jsonpointer (>1.13)", "rfc3339- [[package]] name = "jsonschema-specifications" -version = "2023.6.1" +version = "2023.12.1" description = "The JSON Schema meta-schemas and vocabularies, exposed as a Registry" category = "main" optional = false @@ -794,7 +821,7 @@ python-versions = ">=3.8" [package.dependencies] importlib-resources = {version = ">=1.4.0", markers = "python_version < \"3.9\""} -referencing = ">=0.28.0" +referencing = ">=0.31.0" [[package]] name = "jupyter" @@ -814,7 +841,7 @@ qtconsole = "*" [[package]] name = "jupyter-client" -version = "8.3.0" +version = "8.6.0" description = "Jupyter protocol implementation and client libraries" category = "main" optional = false @@ -855,7 +882,7 @@ test = ["flaky", "pexpect", "pytest"] [[package]] name = "jupyter-core" -version = "5.3.1" +version = "5.7.1" description = "Jupyter core package. A base package on which Jupyter projects rely." category = "main" optional = false @@ -867,21 +894,22 @@ pywin32 = {version = ">=300", markers = "sys_platform == \"win32\" and platform_ traitlets = ">=5.3" [package.extras] -docs = ["myst-parser", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-spelling", "traitlets"] +docs = ["myst-parser", "pydata-sphinx-theme", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-spelling", "traitlets"] test = ["ipykernel", "pre-commit", "pytest", "pytest-cov", "pytest-timeout"] [[package]] name = "jupyter-events" -version = "0.6.3" +version = "0.9.0" description = "Jupyter Event System library" category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.dependencies] -jsonschema = {version = ">=3.2.0", extras = ["format-nongpl"]} +jsonschema = {version = ">=4.18.0", extras = ["format-nongpl"]} python-json-logger = ">=2.0.4" pyyaml = ">=5.3" +referencing = "*" rfc3339-validator = "*" rfc3986-validator = ">=0.1.1" traitlets = ">=5.3" @@ -889,11 +917,23 @@ traitlets = ">=5.3" [package.extras] cli = ["click", "rich"] docs = ["jupyterlite-sphinx", "myst-parser", "pydata-sphinx-theme", "sphinxcontrib-spelling"] -test = ["click", "coverage", "pre-commit", "pytest (>=7.0)", "pytest-asyncio (>=0.19.0)", "pytest-console-scripts", "pytest-cov", "rich"] +test = ["click", "pre-commit", "pytest (>=7.0)", "pytest-asyncio (>=0.19.0)", "pytest-console-scripts", "rich"] + +[[package]] +name = "jupyter-lsp" +version = "2.2.2" +description = "Multi-Language Server WebSocket proxy for Jupyter Notebook/Lab server" +category = "main" +optional = false +python-versions = ">=3.8" + +[package.dependencies] +importlib-metadata = {version = ">=4.8.3", markers = "python_version < \"3.10\""} +jupyter-server = ">=1.1.2" [[package]] name = "jupyter-server" -version = "2.7.0" +version = "2.12.5" description = "The backend—i.e. core services, APIs, and REST endpoints—to Jupyter web applications." category = "main" optional = false @@ -905,7 +945,7 @@ argon2-cffi = "*" jinja2 = "*" jupyter-client = ">=7.4.4" jupyter-core = ">=4.12,<5.0.0 || >=5.1.0" -jupyter-events = ">=0.6.0" +jupyter-events = ">=0.9.0" jupyter-server-terminals = "*" nbconvert = ">=6.4.4" nbformat = ">=5.3.0" @@ -914,7 +954,7 @@ packaging = "*" prometheus-client = "*" pywinpty = {version = "*", markers = "os_name == \"nt\""} pyzmq = ">=24" -send2trash = "*" +send2trash = ">=1.8.2" terminado = ">=0.8.3" tornado = ">=6.2.0" traitlets = ">=5.6.0" @@ -926,7 +966,7 @@ test = ["flaky", "ipykernel", "pre-commit", "pytest (>=7.0)", "pytest-console-sc [[package]] name = "jupyter-server-terminals" -version = "0.4.4" +version = "0.5.2" description = "A Jupyter Server Extension Providing Terminals." category = "main" optional = false @@ -937,35 +977,89 @@ pywinpty = {version = ">=2.0.3", markers = "os_name == \"nt\""} terminado = ">=0.8.3" [package.extras] -docs = ["jinja2", "jupyter-server", "mistune (<3.0)", "myst-parser", "nbformat", "packaging", "pydata-sphinx-theme", "sphinxcontrib-github-alt", "sphinxcontrib-openapi", "sphinxcontrib-spelling", "sphinxemoji", "tornado"] -test = ["coverage", "jupyter-server (>=2.0.0)", "pytest (>=7.0)", "pytest-cov", "pytest-jupyter[server] (>=0.5.3)", "pytest-timeout"] +docs = ["jinja2", "jupyter-server", "mistune (<4.0)", "myst-parser", "nbformat", "packaging", "pydata-sphinx-theme", "sphinxcontrib-github-alt", "sphinxcontrib-openapi", "sphinxcontrib-spelling", "sphinxemoji", "tornado"] +test = ["jupyter-server (>=2.0.0)", "pytest (>=7.0)", "pytest-jupyter[server] (>=0.5.3)", "pytest-timeout"] + +[[package]] +name = "jupyterlab" +version = "4.0.12" +description = "JupyterLab computational environment" +category = "main" +optional = false +python-versions = ">=3.8" + +[package.dependencies] +async-lru = ">=1.0.0" +importlib-metadata = {version = ">=4.8.3", markers = "python_version < \"3.10\""} +importlib-resources = {version = ">=1.4", markers = "python_version < \"3.9\""} +ipykernel = "*" +jinja2 = ">=3.0.3" +jupyter-core = "*" +jupyter-lsp = ">=2.0.0" +jupyter-server = ">=2.4.0,<3" +jupyterlab-server = ">=2.19.0,<3" +notebook-shim = ">=0.2" +packaging = "*" +tomli = {version = "*", markers = "python_version < \"3.11\""} +tornado = ">=6.2.0" +traitlets = "*" + +[package.extras] +dev = ["build", "bump2version", "coverage", "hatch", "pre-commit", "pytest-cov", "ruff (==0.1.6)"] +docs = ["jsx-lexer", "myst-parser", "pydata-sphinx-theme (>=0.13.0)", "pytest", "pytest-check-links", "pytest-tornasync", "sphinx (>=1.8,<7.2.0)", "sphinx-copybutton"] +docs-screenshots = ["altair (==5.0.1)", "ipython (==8.14.0)", "ipywidgets (==8.0.6)", "jupyterlab-geojson (==3.4.0)", "jupyterlab-language-pack-zh-cn (==4.0.post0)", "matplotlib (==3.7.1)", "nbconvert (>=7.0.0)", "pandas (==2.0.2)", "scipy (==1.10.1)", "vega-datasets (==0.9.0)"] +test = ["coverage", "pytest (>=7.0)", "pytest-check-links (>=0.7)", "pytest-console-scripts", "pytest-cov", "pytest-jupyter (>=0.5.3)", "pytest-timeout", "pytest-tornasync", "requests", "requests-cache", "virtualenv"] [[package]] name = "jupyterlab-pygments" -version = "0.2.2" +version = "0.3.0" description = "Pygments theme using JupyterLab CSS variables" category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" + +[[package]] +name = "jupyterlab-server" +version = "2.25.3" +description = "A set of server components for JupyterLab and JupyterLab like applications." +category = "main" +optional = false +python-versions = ">=3.8" + +[package.dependencies] +babel = ">=2.10" +importlib-metadata = {version = ">=4.8.3", markers = "python_version < \"3.10\""} +jinja2 = ">=3.0.3" +json5 = ">=0.9.0" +jsonschema = ">=4.18.0" +jupyter-server = ">=1.21,<3" +packaging = ">=21.3" +requests = ">=2.31" + +[package.extras] +docs = ["autodoc-traits", "jinja2 (<3.2.0)", "mistune (<4)", "myst-parser", "pydata-sphinx-theme", "sphinx", "sphinx-copybutton", "sphinxcontrib-openapi (>0.8)"] +openapi = ["openapi-core (>=0.18.0,<0.19.0)", "ruamel-yaml"] +test = ["hatch", "ipykernel", "openapi-core (>=0.18.0,<0.19.0)", "openapi-spec-validator (>=0.6.0,<0.8.0)", "pytest (>=7.0)", "pytest-console-scripts", "pytest-cov", "pytest-jupyter[server] (>=0.6.2)", "pytest-timeout", "requests-mock", "ruamel-yaml", "sphinxcontrib-spelling", "strict-rfc3339", "werkzeug"] [[package]] name = "jupyterlab-widgets" -version = "3.0.8" +version = "3.0.10" description = "Jupyter interactive widgets for JupyterLab" category = "main" optional = false python-versions = ">=3.7" [[package]] -name = "lark-parser" -version = "0.12.0" +name = "lark" +version = "1.1.9" description = "a modern parsing library" category = "main" optional = false -python-versions = "*" +python-versions = ">=3.6" [package.extras] atomic-cache = ["atomicwrites"] +interegular = ["interegular (>=0.3.1,<0.4.0)"] nearley = ["js2py"] regex = ["regex"] @@ -1003,7 +1097,7 @@ testing = ["coverage", "pytest", "pytest-cov", "pytest-regressions"] [[package]] name = "markupsafe" -version = "2.1.3" +version = "2.1.5" description = "Safely add untrusted strings to HTML/XML markup." category = "main" optional = false @@ -1038,8 +1132,8 @@ python-versions = ">=3.7" [[package]] name = "miniopy-async" -version = "1.15" -description = "Asynchronous MinIO Python Client API" +version = "1.19" +description = "Asynchronous MinIO Client SDK for Python" category = "main" optional = false python-versions = ">3.6" @@ -1052,7 +1146,7 @@ urllib3 = "*" [[package]] name = "mistune" -version = "3.0.1" +version = "3.0.2" description = "A sane and fast Markdown parser with useful plugins and renderers" category = "main" optional = false @@ -1073,7 +1167,7 @@ test = ["pytest", "pytest-cov"] [[package]] name = "multidict" -version = "6.0.4" +version = "6.0.5" description = "multidict implementation" category = "main" optional = false @@ -1105,41 +1199,9 @@ category = "dev" optional = false python-versions = ">=3.5" -[[package]] -name = "nbclassic" -version = "1.0.0" -description = "Jupyter Notebook as a Jupyter Server extension." -category = "main" -optional = false -python-versions = ">=3.7" - -[package.dependencies] -argon2-cffi = "*" -ipykernel = "*" -ipython-genutils = "*" -jinja2 = "*" -jupyter-client = ">=6.1.1" -jupyter-core = ">=4.6.1" -jupyter-server = ">=1.8" -nbconvert = ">=5" -nbformat = "*" -nest-asyncio = ">=1.5" -notebook-shim = ">=0.2.3" -prometheus-client = "*" -pyzmq = ">=17" -Send2Trash = ">=1.8.0" -terminado = ">=0.8.3" -tornado = ">=6.1" -traitlets = ">=4.2.1" - -[package.extras] -docs = ["myst-parser", "nbsphinx", "sphinx", "sphinx-rtd-theme", "sphinxcontrib-github-alt"] -json-logging = ["json-logging"] -test = ["coverage", "nbval", "pytest", "pytest-cov", "pytest-jupyter", "pytest-playwright", "pytest-tornasync", "requests", "requests-unixsocket", "testpath"] - [[package]] name = "nbclient" -version = "0.8.0" +version = "0.9.0" description = "A client library for executing notebooks. Formerly nbconvert's ExecutePreprocessor." category = "main" optional = false @@ -1158,11 +1220,11 @@ test = ["flaky", "ipykernel (>=6.19.3)", "ipython", "ipywidgets", "nbconvert (>= [[package]] name = "nbconvert" -version = "7.6.0" -description = "Converting Jupyter Notebooks" +version = "7.16.1" +description = "Converting Jupyter Notebooks (.ipynb files) to other formats. Output formats include asciidoc, html, latex, markdown, pdf, py, rst, script. nbconvert can be used both as a Python library (`import nbconvert`) or as a command line tool (invoked as `jupyter nbconvert ...`)." category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.dependencies] beautifulsoup4 = "*" @@ -1188,12 +1250,12 @@ docs = ["ipykernel", "ipython", "myst-parser", "nbsphinx (>=0.2.12)", "pydata-sp qtpdf = ["nbconvert[qtpng]"] qtpng = ["pyqtwebengine (>=5.15)"] serve = ["tornado (>=6.1)"] -test = ["ipykernel", "ipywidgets (>=7)", "pre-commit", "pytest", "pytest-dependency"] -webpdf = ["pyppeteer (>=1,<1.1)"] +test = ["flaky", "ipykernel", "ipywidgets (>=7.5)", "pytest"] +webpdf = ["playwright"] [[package]] name = "nbformat" -version = "5.9.1" +version = "5.9.2" description = "The Jupyter Notebook format" category = "main" optional = false @@ -1211,7 +1273,7 @@ test = ["pep440", "pre-commit", "pytest", "testpath"] [[package]] name = "nest-asyncio" -version = "1.5.6" +version = "1.6.0" description = "Patch asyncio to allow nested event loops" category = "main" optional = false @@ -1219,38 +1281,27 @@ python-versions = ">=3.5" [[package]] name = "notebook" -version = "6.5.4" -description = "A web-based notebook environment for interactive computing" +version = "7.0.8" +description = "Jupyter Notebook - A web-based notebook environment for interactive computing" category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.dependencies] -argon2-cffi = "*" -ipykernel = "*" -ipython-genutils = "*" -jinja2 = "*" -jupyter-client = ">=5.3.4" -jupyter-core = ">=4.6.1" -nbclassic = ">=0.4.7" -nbconvert = ">=5" -nbformat = "*" -nest-asyncio = ">=1.5" -prometheus-client = "*" -pyzmq = ">=17" -Send2Trash = ">=1.8.0" -terminado = ">=0.8.3" -tornado = ">=6.1" -traitlets = ">=4.2.1" +jupyter-server = ">=2.4.0,<3" +jupyterlab = ">=4.0.2,<4.1" +jupyterlab-server = ">=2.22.1,<3" +notebook-shim = ">=0.2,<0.3" +tornado = ">=6.2.0" [package.extras] -docs = ["myst-parser", "nbsphinx", "sphinx", "sphinx-rtd-theme", "sphinxcontrib-github-alt"] -json-logging = ["json-logging"] -test = ["coverage", "nbval", "pytest", "pytest-cov", "requests", "requests-unixsocket", "selenium (==4.1.5)", "testpath"] +dev = ["hatch", "pre-commit"] +docs = ["myst-parser", "nbsphinx", "pydata-sphinx-theme", "sphinx (>=1.3.6)", "sphinxcontrib-github-alt", "sphinxcontrib-spelling"] +test = ["importlib-resources (>=5.0)", "ipykernel", "jupyter-server[test] (>=2.4.0,<3)", "jupyterlab-server[test] (>=2.22.1,<3)", "nbval", "pytest (>=7.0)", "pytest-console-scripts", "pytest-timeout", "pytest-tornasync", "requests"] [[package]] name = "notebook-shim" -version = "0.2.3" +version = "0.2.4" description = "A shim layer for notebook traits and config" category = "main" optional = false @@ -1272,7 +1323,7 @@ python-versions = ">=3.8" [[package]] name = "overrides" -version = "7.3.1" +version = "7.7.0" description = "A decorator to automatically detect mismatch when overriding a method." category = "main" optional = false @@ -1280,7 +1331,7 @@ python-versions = ">=3.6" [[package]] name = "packaging" -version = "23.1" +version = "23.2" description = "Core utilities for Python packages" category = "main" optional = false @@ -1329,7 +1380,7 @@ xml = ["lxml (>=4.6.3)"] [[package]] name = "pandocfilters" -version = "1.5.0" +version = "1.5.1" description = "Utilities for writing pandoc filters in python" category = "main" optional = false @@ -1349,7 +1400,7 @@ testing = ["docopt", "pytest (<6.0.0)"] [[package]] name = "pexpect" -version = "4.8.0" +version = "4.9.0" description = "Pexpect allows easy control of interactive console applications." category = "main" optional = false @@ -1376,23 +1427,23 @@ python-versions = ">=3.6" [[package]] name = "platformdirs" -version = "3.8.1" +version = "4.2.0" description = "A small Python package for determining appropriate platform-specific dirs, e.g. a \"user data dir\"." category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.extras] -docs = ["furo (>=2023.5.20)", "proselint (>=0.13)", "sphinx (>=7.0.1)", "sphinx-autodoc-typehints (>=1.23,!=1.23.4)"] -test = ["appdirs (==1.4.4)", "covdefaults (>=2.3)", "pytest (>=7.3.1)", "pytest-cov (>=4.1)", "pytest-mock (>=3.10)"] +docs = ["furo (>=2023.9.10)", "proselint (>=0.13)", "sphinx (>=7.2.6)", "sphinx-autodoc-typehints (>=1.25.2)"] +test = ["appdirs (==1.4.4)", "covdefaults (>=2.3)", "pytest (>=7.4.3)", "pytest-cov (>=4.1)", "pytest-mock (>=3.12)"] [[package]] name = "pluggy" -version = "1.2.0" +version = "1.4.0" description = "plugin and hook calling mechanisms for python" category = "dev" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.extras] dev = ["pre-commit", "tox"] @@ -1400,18 +1451,18 @@ testing = ["pytest", "pytest-benchmark"] [[package]] name = "prometheus-client" -version = "0.17.1" +version = "0.20.0" description = "Python client for the Prometheus monitoring system." category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.8" [package.extras] twisted = ["twisted"] [[package]] name = "prompt-toolkit" -version = "3.0.39" +version = "3.0.43" description = "Library for building powerful interactive command lines in Python" category = "main" optional = false @@ -1422,11 +1473,11 @@ wcwidth = "*" [[package]] name = "psutil" -version = "5.9.5" +version = "5.9.8" description = "Cross-platform lib for process and system monitoring in Python." category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" +python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*" [package.extras] test = ["enum34", "ipaddress", "mock", "pywin32", "wmi"] @@ -1463,7 +1514,7 @@ numpy = ">=1.16.6" [[package]] name = "pyasn1" -version = "0.5.0" +version = "0.5.1" description = "Pure-Python implementation of ASN.1 types and DER/BER/CER codecs (X.208)" category = "main" optional = false @@ -1498,7 +1549,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "pydantic" -version = "1.10.11" +version = "1.10.14" description = "Data validation and settings management using python type hints" category = "main" optional = false @@ -1521,7 +1572,7 @@ python-versions = ">=3.6" [[package]] name = "pygments" -version = "2.15.1" +version = "2.17.2" description = "Pygments is a syntax highlighting package written in Python." category = "main" optional = false @@ -1529,10 +1580,11 @@ python-versions = ">=3.7" [package.extras] plugins = ["importlib-metadata"] +windows-terminal = ["colorama (>=0.4.6)"] [[package]] name = "pytest" -version = "7.4.0" +version = "7.4.4" description = "pytest: simple powerful testing with Python" category = "dev" optional = false @@ -1581,11 +1633,11 @@ testing = ["fields", "hunter", "process-tests", "pytest-xdist", "six", "virtuale [[package]] name = "pytest-mock" -version = "3.11.1" +version = "3.12.0" description = "Thin-wrapper around the mock package for easier use with pytest" category = "dev" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.dependencies] pytest = ">=5.0" @@ -1614,10 +1666,10 @@ python-versions = ">=3.6" [[package]] name = "pytz" -version = "2023.3" +version = "2024.1" description = "World timezone definitions, modern and historical" category = "main" -optional = true +optional = false python-versions = "*" [[package]] @@ -1630,15 +1682,15 @@ python-versions = "*" [[package]] name = "pywinpty" -version = "2.0.10" +version = "2.0.12" description = "Pseudo terminal support for Windows from Python." category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [[package]] name = "pyyaml" -version = "6.0" +version = "6.0.1" description = "YAML parser and emitter for Python" category = "main" optional = false @@ -1646,7 +1698,7 @@ python-versions = ">=3.6" [[package]] name = "pyzmq" -version = "25.1.0" +version = "25.1.2" description = "Python bindings for 0MQ" category = "main" optional = false @@ -1657,35 +1709,34 @@ cffi = {version = "*", markers = "implementation_name == \"pypy\""} [[package]] name = "qastle" -version = "0.16.0" +version = "0.16.1" description = "Query AST Language Expressions" category = "main" optional = false python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*, <3.12" [package.dependencies] -lark-parser = ">=0.6.5" +lark = "*" [package.extras] test = ["flake8", "pytest", "pytest-cov"] [[package]] name = "qtconsole" -version = "5.4.3" +version = "5.5.1" description = "Jupyter Qt console" category = "main" optional = false -python-versions = ">= 3.7" +python-versions = ">= 3.8" [package.dependencies] ipykernel = ">=4.1" -ipython-genutils = "*" jupyter-client = ">=4.1" jupyter-core = "*" packaging = "*" pygments = "*" pyzmq = ">=17.1" -qtpy = ">=2.0.1" +qtpy = ">=2.4.0" traitlets = "<5.2.1 || >5.2.1,<5.2.2 || >5.2.2" [package.extras] @@ -1694,7 +1745,7 @@ test = ["flaky", "pytest", "pytest-qt"] [[package]] name = "qtpy" -version = "2.3.1" +version = "2.4.1" description = "Provides an abstraction layer on top of the various Qt bindings (PyQt5/6 and PySide2/6)." category = "main" optional = false @@ -1708,7 +1759,7 @@ test = ["pytest (>=6,!=7.0.0,!=7.0.1)", "pytest-cov (>=3.0.0)", "pytest-qt"] [[package]] name = "referencing" -version = "0.29.1" +version = "0.33.0" description = "JSON Referencing + Python" category = "main" optional = false @@ -1757,7 +1808,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" [[package]] name = "rich" -version = "13.4.2" +version = "13.7.0" description = "Render rich text, tables, progress bars, syntax highlighting, markdown and more to the terminal" category = "main" optional = false @@ -1773,7 +1824,7 @@ jupyter = ["ipywidgets (>=7.5.1,<9)"] [[package]] name = "rpds-py" -version = "0.8.10" +version = "0.18.0" description = "Python bindings to Rust's persistent data structures (rpds)" category = "main" optional = false @@ -1805,7 +1856,7 @@ win32 = ["pywin32"] [[package]] name = "shellingham" -version = "1.5.0.post1" +version = "1.5.4" description = "Tool to Detect Surrounding Shell" category = "main" optional = false @@ -1837,15 +1888,15 @@ python-versions = "*" [[package]] name = "soupsieve" -version = "2.4.1" +version = "2.5" description = "A modern CSS selector implementation for Beautiful Soup." category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [[package]] name = "sphinx" -version = "7.0.1" +version = "7.1.2" description = "Python documentation generator" category = "main" optional = true @@ -1962,7 +2013,7 @@ test = ["pytest"] [[package]] name = "stack-data" -version = "0.6.2" +version = "0.6.3" description = "Extract data from python stack frames and tracebacks for informative displays" category = "main" optional = false @@ -1978,11 +2029,11 @@ tests = ["cython", "littleutils", "pygments", "pytest", "typeguard"] [[package]] name = "terminado" -version = "0.17.1" +version = "0.18.0" description = "Tornado websocket backend for the Xterm.js Javascript terminal emulator library." category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.dependencies] ptyprocess = {version = "*", markers = "os_name != \"nt\""} @@ -1992,6 +2043,7 @@ tornado = ">=6.1.0" [package.extras] docs = ["myst-parser", "pydata-sphinx-theme", "sphinx"] test = ["pre-commit", "pytest (>=7.0)", "pytest-timeout"] +typing = ["mypy (>=1.6,<2.0)", "traitlets (>=5.11.1)"] [[package]] name = "tinycss2" @@ -2020,13 +2072,13 @@ python-versions = ">=3.7,<4.0" name = "tomli" version = "2.0.1" description = "A lil' TOML parser" -category = "dev" +category = "main" optional = false python-versions = ">=3.7" [[package]] name = "tornado" -version = "6.3.2" +version = "6.4" description = "Tornado is a Python web framework and asynchronous networking library, originally developed at FriendFeed." category = "main" optional = false @@ -2034,15 +2086,15 @@ python-versions = ">= 3.8" [[package]] name = "traitlets" -version = "5.9.0" +version = "5.14.1" description = "Traitlets Python configuration system" category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.extras] docs = ["myst-parser", "pydata-sphinx-theme", "sphinx"] -test = ["argcomplete (>=2.0)", "pre-commit", "pytest", "pytest-mock"] +test = ["argcomplete (>=3.0.3)", "mypy (>=1.7.0)", "pre-commit", "pytest (>=7.0,<7.5)", "pytest-mock", "pytest-mypy-testing"] [[package]] name = "typer" @@ -2065,9 +2117,17 @@ dev = ["autoflake (>=1.3.1,<2.0.0)", "flake8 (>=3.8.3,<4.0.0)", "pre-commit (>=2 doc = ["cairosvg (>=2.5.2,<3.0.0)", "mdx-include (>=1.4.1,<2.0.0)", "mkdocs (>=1.1.2,<2.0.0)", "mkdocs-material (>=8.1.4,<9.0.0)", "pillow (>=9.3.0,<10.0.0)"] test = ["black (>=22.3.0,<23.0.0)", "coverage (>=6.2,<7.0)", "isort (>=5.0.6,<6.0.0)", "mypy (==0.910)", "pytest (>=4.4.0,<8.0.0)", "pytest-cov (>=2.10.0,<5.0.0)", "pytest-sugar (>=0.9.4,<0.10.0)", "pytest-xdist (>=1.32.0,<4.0.0)", "rich (>=10.11.0,<14.0.0)", "shellingham (>=1.3.0,<2.0.0)"] +[[package]] +name = "types-python-dateutil" +version = "2.8.19.20240106" +description = "Typing stubs for python-dateutil" +category = "main" +optional = false +python-versions = ">=3.8" + [[package]] name = "types-pyyaml" -version = "6.0.12.10" +version = "6.0.12.12" description = "Typing stubs for PyYAML" category = "main" optional = false @@ -2075,15 +2135,15 @@ python-versions = "*" [[package]] name = "typing-extensions" -version = "4.7.1" -description = "Backported and Experimental Type Hints for Python 3.7+" +version = "4.9.0" +description = "Backported and Experimental Type Hints for Python 3.8+" category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [[package]] name = "tzdata" -version = "2023.3" +version = "2024.1" description = "Provider of IANA time zone data" category = "main" optional = true @@ -2102,20 +2162,21 @@ dev = ["flake8", "flake8-annotations", "flake8-bandit", "flake8-bugbear", "flake [[package]] name = "urllib3" -version = "1.26.16" +version = "2.2.1" 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.*" +python-versions = ">=3.8" [package.extras] -brotli = ["brotli (>=1.0.9)", "brotlicffi (>=0.8.0)", "brotlipy (>=0.6.0)"] -secure = ["certifi", "cryptography (>=1.3.4)", "idna (>=2.0.0)", "ipaddress", "pyOpenSSL (>=0.14)", "urllib3-secure-extra"] -socks = ["PySocks (>=1.5.6,!=1.5.7,<2.0)"] +brotli = ["brotli (>=1.0.9)", "brotlicffi (>=0.8.0)"] +h2 = ["h2 (>=4,<5)"] +socks = ["pysocks (>=1.5.6,!=1.5.7,<2.0)"] +zstd = ["zstandard (>=0.18.0)"] [[package]] name = "wcwidth" -version = "0.2.6" +version = "0.2.13" description = "Measures the displayed width of unicode strings in a terminal" category = "main" optional = false @@ -2143,20 +2204,20 @@ python-versions = "*" [[package]] name = "websocket-client" -version = "1.6.1" +version = "1.7.0" description = "WebSocket client for Python with low level API options" category = "main" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.extras] -docs = ["Sphinx (>=3.4)", "sphinx-rtd-theme (>=0.5)"] +docs = ["Sphinx (>=6.0)", "sphinx-rtd-theme (>=1.1.0)"] optional = ["python-socks", "wsaccel"] test = ["websockets"] [[package]] name = "widgetsnbextension" -version = "4.0.8" +version = "4.0.10" description = "Jupyter interactive widgets for Jupyter Notebook" category = "main" optional = false @@ -2164,7 +2225,7 @@ python-versions = ">=3.7" [[package]] name = "yarl" -version = "1.9.2" +version = "1.9.4" description = "Yet another URL library" category = "main" optional = false @@ -2176,15 +2237,15 @@ multidict = ">=4.0" [[package]] name = "zipp" -version = "3.16.1" +version = "3.17.0" description = 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"General", + "ServiceXSpec", ] diff --git a/servicex/databinder_models.py b/servicex/databinder_models.py new file mode 100644 index 00000000..ed61c149 --- /dev/null +++ b/servicex/databinder_models.py @@ -0,0 +1,165 @@ +# Copyright (c) 2022, IRIS-HEP +# All rights reserved. +# +# Redistribution and use in source and binary forms, with or without +# modification, are permitted provided that the following conditions are met: +# +# * Redistributions of source code must retain the above copyright notice, this +# list of conditions and the following disclaimer. +# +# * Redistributions in binary form must reproduce the above copyright notice, +# this list of conditions and the following disclaimer in the documentation +# and/or other materials provided with the distribution. +# +# * Neither the name of the copyright holder nor the names of its +# contributors may be used to endorse or promote products derived from +# this software without specific prior written permission. +# +# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" +# AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE +# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE +# DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE +# FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL +# DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR +# SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER +# CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, +# OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE +# OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. +from enum import Enum +from typing import Union, Optional, Callable +from pydantic import BaseModel, Field, AnyUrl, root_validator, constr, validator + +from servicex.dataset_identifier import RucioDatasetIdentifier, FileListDataset +from servicex.func_adl.func_adl_dataset import Dataset + + +class Sample(BaseModel): + Name: str + RucioDID: Optional[str] + RootFile: Optional[Union[str, AnyUrl]] + NFiles: Optional[int] = Field(default=None) + Function: Optional[Union[str, Callable]] = Field(default=None) + Query: Optional[Union[str, Dataset]] = Field(default=None) + Tree: Optional[str] = Field(default=None) + IgnoreLocalCache: bool = False + + class Config: + arbitrary_types_allowed = True + + @property + def dataset_identifier(self): + if self.RucioDID: + return RucioDatasetIdentifier(self.RucioDID) + elif self.RootFile: + return FileListDataset(self.RootFile) + + @root_validator + def validate_did_xor_file(cls, values): + """ + Ensure that only one of RootFile or RucioDID is specified. + :param values: + :return: + """ + if values['RootFile'] and values['RucioDID']: + raise ValueError("Only specify one of RootFile or RucioDID, not both.") + if not values['RootFile'] and not values['RucioDID']: + raise ValueError("Must specify one of RootFile or RucioDID.") + return values + + @root_validator + def validate_function_xor_query(cls, values): + """ + Ensure that only one of Function or Query is specified. + :param values: + :return: + """ + if values['Function'] and values['Query']: + raise ValueError("Only specify one of Function or Query, not both.") + if not values['Function'] and not values['Query']: + raise ValueError("Must specify one of Function or Query.") + return values + + +class General(BaseModel): + class OutputFormatEnum(str, Enum): + parquet = "parquet" + root = "root-file" + + class DeliveryEnum(str, Enum): + LocalCache = "LocalCache" + SignedURLs = "SignedURLs" + + ServiceX: str = Field(..., alias="ServiceX") + Codegen: str + OutputFormat: Union[OutputFormatEnum, constr(regex='^(parquet|root-file)$')] # NOQA F722 + Delivery: Union[DeliveryEnum, constr(regex='^(LocalCache|SignedURLs)$')] # NOQA F722 + + +class Definition(BaseModel): + class Config: + extra = "allow" # Allow additional fields not defined in the model + + @root_validator + def check_def_name(cls, values): + """ + Ensure that the definition name is DEF_XXX format + :param values: + :return: + """ + for field in values: + if not field.startswith("DEF_"): + raise ValueError(f"Definition key {field} does not meet the convention of DEF_XXX format") # NOQA E501 + return values + + +class ServiceXSpec(BaseModel): + General: General + Sample: list[Sample] + Definition: Optional[Definition] + + @validator('Sample') + def check_tree_property(cls, v, values): + if 'General' in values and values['General'].Codegen != 'uproot': + for sample in v: + if 'Tree' in sample: + raise ValueError('"Tree" property is not allowed when codegen is not "uproot"') + return v + + @root_validator(pre=False, skip_on_failure=True) + def replace_definition(cls, values): + """ + Replace the definition name with the actual definition value looking + through the Samples and the General sections + :param values: + :return: + """ + def replace_value_from_def(value, defs): + """ + Replace the value with the actual definition value + :param value: + :param defs: + :return: + """ + if isinstance(value, dict): + for field in value.keys(): + value[field] = replace_value_from_def(value[field], defs) + elif isinstance(value, str): + if value.startswith("DEF_"): + if value in defs: + value = defs[value] + else: + raise ValueError(f"Definition {value} not found") + return value + + if 'Definition' in values: + defs = values['Definition'].dict() + else: + defs = {} + + for sample_field in values['Sample']: + replace_value_from_def(sample_field.__dict__, defs) + + replace_value_from_def(values['General'].__dict__, defs) + + print(values) + return values diff --git a/servicex/dataset_group.py b/servicex/dataset_group.py index 5229a85d..4061bcc2 100644 --- a/servicex/dataset_group.py +++ b/servicex/dataset_group.py @@ -87,3 +87,5 @@ async def as_files_async(self, for d in self.datasets ] return await asyncio.gather(*self.tasks) + + as_files = make_sync(as_files_async) diff --git a/servicex/func_adl/func_adl_dataset.py b/servicex/func_adl/func_adl_dataset.py index b719e899..087ca9ad 100644 --- a/servicex/func_adl/func_adl_dataset.py +++ b/servicex/func_adl/func_adl_dataset.py @@ -73,7 +73,7 @@ def check_data_format_request(self, f_name: str): def __init__( self, - dataset_identifier: DID, + dataset_identifier: DID = None, sx_adapter: ServiceXAdapter = None, title: str = "ServiceX Client", codegen: str = None, diff --git a/servicex/servicex_client.py b/servicex/servicex_client.py index 8aa853b2..3c758392 100644 --- a/servicex/servicex_client.py +++ b/servicex/servicex_client.py @@ -34,14 +34,70 @@ from servicex.servicex_adapter import ServiceXAdapter from servicex.types import DID from servicex.python_dataset import PythonDataset +from servicex.dataset_group import DatasetGroup +import ast +import qastle from make_it_sync import make_sync +from servicex.databinder_models import ServiceXSpec, General import rich T = TypeVar("T") +def deliver(config: ServiceXSpec): + sx = ServiceXClient(backend=config.General.ServiceX) + datasets = [] + for sample in config.Sample: + if sample.Query: + if type(sample.Query) is str: + qastle_query = qastle.python_ast_to_text_ast(ast.parse(sample.Query)) # NOQA E501 + sample.Query = FuncADLDataset() + + sample.Query.set_provided_qastle(qastle_query) + + query = sx.func_adl_dataset(sample.dataset_identifier, sample.Name, + config.General.Codegen, + config.General.OutputFormat) + query._q_ast = sample.Query._q_ast + query._item_type = sample.Query._item_type + if sample.Tree: + query = query.set_tree(sample.Tree) + + sample.Query = query + sample.Query.ignore_cache = sample.IgnoreLocalCache + + datasets.append(sample.Query) + elif sample.Function: + # The function field can be a callable if this was all initialized + # in python, or it can be a string if it was initialized from a + # yaml file. If it comes from a string, let's validate the syntax + # now to avoid nasty surprises later. + if type(sample.Function) == str: + try: + exec(sample.Function) + except SyntaxError as e: + raise SyntaxError(f"Syntax error in {sample.Name}: {e}") + + dataset = sx.python_dataset(sample.dataset_identifier, sample.Name, + config.General.Codegen, + config.General.OutputFormat) + dataset.python_function = sample.Function + dataset.ignore_cache = sample.IgnoreLocalCache + datasets.append(dataset) + + group = DatasetGroup(datasets) + + if config.General.Delivery == General.DeliveryEnum.SignedURLs: + results = group.as_signed_urls() + return {obj.title: obj.signed_url_list for obj in results} + + elif config.General.Delivery == General.DeliveryEnum.LocalCache: + results = group.as_files() + return {obj.title: obj.file_list for obj in results} + + class ServiceXClient: r""" Connection to a ServiceX deployment. Instances of this class can deployment From 212839eea440101cf51b80285665bc99f72480b4 Mon Sep 17 00:00:00 2001 From: Ben Galewsky Date: Thu, 22 Feb 2024 14:54:41 -0600 Subject: [PATCH 02/12] Rename dataset to query --- examples/bigger_uproot.py | 4 ++-- examples/single_file_uproot.py | 6 +++--- servicex/__init__.py | 6 ++---- servicex/databinder_models.py | 4 ++-- servicex/dataset_group.py | 6 +++--- servicex/func_adl/func_adl_dataset.py | 18 +++++++++--------- servicex/python_dataset.py | 6 +++--- servicex/{dataset.py => query.py} | 6 +++--- servicex/servicex_client.py | 14 +++++++------- tests/conftest.py | 4 ++-- tests/test_dataset.py | 18 +++++++++--------- tests/test_python_dataset.py | 26 +++++++++++++------------- tests/test_servicex_dataset.py | 10 +++++----- 13 files changed, 63 insertions(+), 65 deletions(-) rename servicex/{dataset.py => query.py} (99%) diff --git a/examples/bigger_uproot.py b/examples/bigger_uproot.py index c57dc737..398d3c6c 100644 --- a/examples/bigger_uproot.py +++ b/examples/bigger_uproot.py @@ -27,10 +27,10 @@ # OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. from servicex import ServiceXSpec, General, Sample -from servicex.func_adl.func_adl_dataset import FuncADLDataset +from servicex.func_adl.func_adl_dataset import FuncADLQuery from servicex.servicex_client import deliver -query = FuncADLDataset().Select(lambda e: {'el_pt': e['el_pt']}) +query = FuncADLQuery().Select(lambda e: {'el_pt': e['el_pt']}) spec = ServiceXSpec( General=General( diff --git a/examples/single_file_uproot.py b/examples/single_file_uproot.py index 6ed1b644..606dd887 100644 --- a/examples/single_file_uproot.py +++ b/examples/single_file_uproot.py @@ -31,10 +31,10 @@ import qastle from servicex import ServiceXSpec, General, Sample -from servicex.func_adl.func_adl_dataset import FuncADLDataset +from servicex.func_adl.func_adl_dataset import FuncADLQuery from servicex.servicex_client import deliver -query = FuncADLDataset().Select(lambda e: {'lep_pt': e['lep_pt']}). \ +query = FuncADLQuery().Select(lambda e: {'lep_pt': e['lep_pt']}). \ Where(lambda e: e['lep_pt'] > 1000) qstr = """ @@ -44,7 +44,7 @@ query_ast = ast.parse(qstr) qastle_query = qastle.python_ast_to_text_ast(qastle.insert_linq_nodes(query_ast)) print("From str", qastle_query) -q2 = FuncADLDataset() +q2 = FuncADLQuery() q2.set_provided_qastle(qastle_query) print(q2.generate_selection_string()) print("From python", query.generate_selection_string()) diff --git a/servicex/__init__.py b/servicex/__init__.py index dbfbbd8d..c4677d25 100644 --- a/servicex/__init__.py +++ b/servicex/__init__.py @@ -25,14 +25,13 @@ # CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, # OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE # OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. -from servicex import dataset from servicex import dataset_group from servicex import models from servicex import servicex_client from servicex import dataset_identifier from servicex.databinder_models import Sample, General, ServiceXSpec from .servicex_client import ServiceXClient -from .dataset import Dataset +from .query import Query from .models import ResultFormat, ResultDestination from .dataset_group import DatasetGroup from .dataset_identifier import RucioDatasetIdentifier, FileListDataset @@ -40,12 +39,11 @@ __all__ = [ "ServiceXClient", - "Dataset", + "Query", "DatasetGroup", "ResultFormat", "ResultDestination", "servicex_client", - "dataset", "dataset_group", "models", "dataset_identifier", diff --git a/servicex/databinder_models.py b/servicex/databinder_models.py index ed61c149..b9a0b628 100644 --- a/servicex/databinder_models.py +++ b/servicex/databinder_models.py @@ -30,7 +30,7 @@ from pydantic import BaseModel, Field, AnyUrl, root_validator, constr, validator from servicex.dataset_identifier import RucioDatasetIdentifier, FileListDataset -from servicex.func_adl.func_adl_dataset import Dataset +from servicex.func_adl import func_adl_dataset class Sample(BaseModel): @@ -39,7 +39,7 @@ class Sample(BaseModel): RootFile: Optional[Union[str, AnyUrl]] NFiles: Optional[int] = Field(default=None) Function: Optional[Union[str, Callable]] = Field(default=None) - Query: Optional[Union[str, Dataset]] = Field(default=None) + Query: Optional[Union[str, func_adl_dataset.Query]] = Field(default=None) Tree: Optional[str] = Field(default=None) IgnoreLocalCache: bool = False diff --git a/servicex/dataset_group.py b/servicex/dataset_group.py index 4061bcc2..581112de 100644 --- a/servicex/dataset_group.py +++ b/servicex/dataset_group.py @@ -30,14 +30,14 @@ from rich.progress import Progress -from servicex.dataset import Dataset +from servicex.query import Query from servicex.expandable_progress import ExpandableProgress -from servicex.func_adl.func_adl_dataset import FuncADLDataset +from servicex.func_adl.func_adl_dataset import FuncADLQuery from servicex.models import TransformedResults, ResultFormat from make_it_sync import make_sync -DatasetGroupMember = Union[Dataset, FuncADLDataset] +DatasetGroupMember = Union[Query, FuncADLQuery] class DatasetGroup: diff --git a/servicex/func_adl/func_adl_dataset.py b/servicex/func_adl/func_adl_dataset.py index 087ca9ad..45cd0619 100644 --- a/servicex/func_adl/func_adl_dataset.py +++ b/servicex/func_adl/func_adl_dataset.py @@ -46,7 +46,7 @@ from func_adl import EventDataset, find_EventDataset from func_adl.object_stream import S from servicex.configuration import Configuration -from servicex.dataset import Dataset +from servicex.query import Query from servicex.func_adl.util import has_tuple from servicex.models import ResultFormat from servicex.query_cache import QueryCache @@ -56,7 +56,7 @@ T = TypeVar("T") -class FuncADLDataset(Dataset, EventDataset[T]): +class FuncADLQuery(Query, EventDataset[T]): r""" ServiceX Dataset class that uses func_adl query syntax. """ @@ -83,7 +83,7 @@ def __init__( item_type: Type = Any, ignore_cache: bool = False, ): - Dataset.__init__( + Query.__init__( self, dataset_identifier=dataset_identifier, title=title, @@ -122,7 +122,7 @@ def __deepcopy__(self, memo): def SelectMany( self, func: Union[str, ast.Lambda, Callable[[T], Iterable[S]]] - ) -> FuncADLDataset[S]: + ) -> FuncADLQuery[S]: r""" Given the current stream's object type is an array or other iterable, return the items in this objects type, one-by-one. This has the effect of flattening a @@ -142,7 +142,7 @@ def SelectMany( """ return super().SelectMany(func) - def Select(self, f: Union[str, ast.Lambda, Callable[[T], S]]) -> FuncADLDataset[S]: + def Select(self, f: Union[str, ast.Lambda, Callable[[T], S]]) -> FuncADLQuery[S]: r""" Apply a transformation function to each object in the stream, yielding a new type of object. There is a one-to-one correspondence between the input objects and output objects. @@ -168,7 +168,7 @@ def generate_selection_string(self) -> str: def Where( self, filter: Union[str, ast.Lambda, Callable[[T], bool]] - ) -> FuncADLDataset[T]: + ) -> FuncADLQuery[T]: r""" Filter the object stream, allowing only items for which `filter` evaluates as true through. @@ -187,7 +187,7 @@ def Where( return super().Where(filter) - def MetaData(self, metadata: Dict[str, Any]) -> FuncADLDataset[T]: + def MetaData(self, metadata: Dict[str, Any]) -> FuncADLQuery[T]: r"""Add metadata to the current object stream. The metadata is an arbitrary set of string key-value pairs. The backend must be able to properly interpret the metadata. @@ -197,7 +197,7 @@ def MetaData(self, metadata: Dict[str, Any]) -> FuncADLDataset[T]: return super().MetaData(metadata) - def QMetaData(self, metadata: Dict[str, Any]) -> FuncADLDataset[T]: + def QMetaData(self, metadata: Dict[str, Any]) -> FuncADLQuery[T]: r"""Add query metadata to the current object stream. - Metadata is never transmitted to any back end @@ -213,7 +213,7 @@ def QMetaData(self, metadata: Dict[str, Any]) -> FuncADLDataset[T]: """ return super().QMetaData(metadata) - def set_tree(self, tree_name: str) -> FuncADLDataset[T]: + def set_tree(self, tree_name: str) -> FuncADLQuery[T]: r"""Set the tree name for the query. Args: tree_name (str): Name of the tree to use for the query diff --git a/servicex/python_dataset.py b/servicex/python_dataset.py index fbc4e9ea..dec81fab 100644 --- a/servicex/python_dataset.py +++ b/servicex/python_dataset.py @@ -30,14 +30,14 @@ from base64 import b64encode from servicex.configuration import Configuration -from servicex.dataset import Dataset +from servicex.query import Query from servicex.models import ResultFormat from servicex.query_cache import QueryCache from servicex.servicex_adapter import ServiceXAdapter from servicex.types import DID -class PythonDataset(Dataset): +class PythonQuery(Query): def __init__(self, dataset_identifier: DID, sx_adapter: ServiceXAdapter = None, @@ -59,7 +59,7 @@ def __init__(self, dataset_identifier: DID, self.python_function = None - def with_uproot_function(self, f: typing.Union[str, typing.Callable]) -> Dataset: + def with_uproot_function(self, f: typing.Union[str, typing.Callable]) -> Query: self.python_function = f return self diff --git a/servicex/dataset.py b/servicex/query.py similarity index 99% rename from servicex/dataset.py rename to servicex/query.py index 13c5677b..039b8c69 100644 --- a/servicex/dataset.py +++ b/servicex/query.py @@ -64,7 +64,7 @@ ProgressIndicators = Union[Progress, ExpandableProgress] -class Dataset(ABC): +class Query(ABC): def __init__( self, dataset_identifier: DID, @@ -95,7 +95,7 @@ def __init__( :param result_format: :param ignore_cache: If true, ignore the cache and always submit a new transform """ - super(Dataset, self).__init__() + super(Query, self).__init__() self.servicex = sx_adapter self.configuration = config self.cache = query_cache @@ -142,7 +142,7 @@ def transform_request(self): self.dataset_identifier.populate_transform_request(sx_request) return sx_request - def set_title(self, title: str) -> Dataset: + def set_title(self, title: str) -> Query: self.title = title return self diff --git a/servicex/servicex_client.py b/servicex/servicex_client.py index 3c758392..52c5fb27 100644 --- a/servicex/servicex_client.py +++ b/servicex/servicex_client.py @@ -28,12 +28,12 @@ from typing import Optional, List, TypeVar, Any, Type from servicex.configuration import Configuration -from servicex.func_adl.func_adl_dataset import FuncADLDataset +from servicex.func_adl.func_adl_dataset import FuncADLQuery from servicex.models import ResultFormat, TransformStatus from servicex.query_cache import QueryCache from servicex.servicex_adapter import ServiceXAdapter from servicex.types import DID -from servicex.python_dataset import PythonDataset +from servicex.python_dataset import PythonQuery from servicex.dataset_group import DatasetGroup import ast import qastle @@ -53,7 +53,7 @@ def deliver(config: ServiceXSpec): if sample.Query: if type(sample.Query) is str: qastle_query = qastle.python_ast_to_text_ast(ast.parse(sample.Query)) # NOQA E501 - sample.Query = FuncADLDataset() + sample.Query = FuncADLQuery() sample.Query.set_provided_qastle(qastle_query) @@ -182,7 +182,7 @@ def func_adl_dataset( result_format: Optional[ResultFormat] = None, item_type: Type[T] = Any, ignore_cache: bool = False - ) -> FuncADLDataset[T]: + ) -> FuncADLQuery[T]: r""" Generate a dataset that can use func_adl query language @@ -202,7 +202,7 @@ def func_adl_dataset( f"deployment at {self.servicex.url}" ) - return FuncADLDataset( + return FuncADLQuery( dataset_identifier, sx_adapter=self.servicex, title=title, @@ -221,7 +221,7 @@ def python_dataset( codegen: str = "uproot", result_format: Optional[ResultFormat] = None, ignore_cache: bool = False - ) -> PythonDataset: + ) -> PythonQuery: r""" Generate a dataset that can use accept a python function for the query @@ -242,7 +242,7 @@ def python_dataset( f"deployment at {self.servicex.url}" ) - return PythonDataset( + return PythonQuery( dataset_identifier, sx_adapter=self.servicex, title=title, diff --git a/tests/conftest.py b/tests/conftest.py index 82686263..5884709b 100644 --- a/tests/conftest.py +++ b/tests/conftest.py @@ -28,7 +28,7 @@ from datetime import datetime from pytest_asyncio import fixture -from servicex.python_dataset import PythonDataset +from servicex.python_dataset import PythonQuery from servicex.models import ( TransformRequest, ResultDestination, @@ -64,7 +64,7 @@ def minio_adapter() -> MinioAdapter: @fixture def python_dataset(dummy_parquet_file): did = FileListDataset(dummy_parquet_file) - dataset = PythonDataset( + dataset = PythonQuery( title="Test submission", dataset_identifier=did, codegen="uproot", diff --git a/tests/test_dataset.py b/tests/test_dataset.py index a8df6382..c192f8b3 100644 --- a/tests/test_dataset.py +++ b/tests/test_dataset.py @@ -7,7 +7,7 @@ from servicex.dataset_identifier import FileListDataset from servicex.configuration import Configuration from servicex.minio_adapter import MinioAdapter -from servicex.python_dataset import PythonDataset +from servicex.python_dataset import PythonQuery from servicex.query_cache import QueryCache from servicex.expandable_progress import ExpandableProgress @@ -23,8 +23,8 @@ async def test_as_signed_urls_happy(transformed_result): # Test when display_progress is True and provided_progress is None did = FileListDataset("/foo/bar/baz.root") - dataset = PythonDataset(dataset_identifier=did, codegen="uproot", - sx_adapter=None, query_cache=None) + dataset = PythonQuery(dataset_identifier=did, codegen="uproot", + sx_adapter=None, query_cache=None) dataset.submit_and_download = AsyncMock() dataset.submit_and_download.return_value = transformed_result @@ -36,8 +36,8 @@ async def test_as_signed_urls_happy(transformed_result): async def test_as_signed_urls_happy_dataset_group(transformed_result): # Test when display_progress is True and provided_progress is None did = FileListDataset("/foo/bar/baz.root") - dataset = PythonDataset(dataset_identifier=did, codegen="uproot", - sx_adapter=None, query_cache=None) + dataset = PythonQuery(dataset_identifier=did, codegen="uproot", + sx_adapter=None, query_cache=None) dataset.submit_and_download = AsyncMock() dataset.submit_and_download.return_value = transformed_result @@ -49,8 +49,8 @@ async def test_as_signed_urls_happy_dataset_group(transformed_result): @pytest.mark.asyncio async def test_as_files_happy(transformed_result): did = FileListDataset("/foo/bar/baz.root") - dataset = PythonDataset(dataset_identifier=did, codegen="uproot", - sx_adapter=None, query_cache=None) + dataset = PythonQuery(dataset_identifier=did, codegen="uproot", + sx_adapter=None, query_cache=None) dataset.submit_and_download = AsyncMock() dataset.submit_and_download.return_value = transformed_result @@ -65,8 +65,8 @@ async def test_as_pandas_happy(transformed_result): with tempfile.TemporaryDirectory() as temp_dir: config = Configuration(cache_path=temp_dir, api_endpoints=[]) cache = QueryCache(config) - dataset = PythonDataset(dataset_identifier=did, codegen="uproot", sx_adapter=servicex, - query_cache=cache) + dataset = PythonQuery(dataset_identifier=did, codegen="uproot", sx_adapter=servicex, + query_cache=cache) dataset.submit_and_download = AsyncMock() dataset.submit_and_download.return_value = transformed_result result = dataset.as_pandas(display_progress=False) diff --git a/tests/test_python_dataset.py b/tests/test_python_dataset.py index 656a66f5..1c2c541e 100644 --- a/tests/test_python_dataset.py +++ b/tests/test_python_dataset.py @@ -30,15 +30,15 @@ import pytest from servicex.dataset_identifier import FileListDataset -from servicex.python_dataset import PythonDataset +from servicex.python_dataset import PythonQuery def test_no_provided_function(): did = FileListDataset("/foo/bar/baz.root") - datasource = PythonDataset(dataset_identifier=did, - codegen="uproot", - sx_adapter=None, - query_cache=None) + datasource = PythonQuery(dataset_identifier=did, + codegen="uproot", + sx_adapter=None, + query_cache=None) with pytest.raises(ValueError): print(datasource.generate_selection_string()) @@ -46,10 +46,10 @@ def test_no_provided_function(): def test_generate_transform(): did = FileListDataset("/foo/bar/baz.root") - datasource = PythonDataset(dataset_identifier=did, - codegen="uproot", - sx_adapter=None, - query_cache=None) + datasource = PythonQuery(dataset_identifier=did, + codegen="uproot", + sx_adapter=None, + query_cache=None) def run_query(input_filenames=None): print("Greetings from your query") @@ -63,10 +63,10 @@ def run_query(input_filenames=None): def test_function_as_string(): did = FileListDataset("/foo/bar/baz.root") - datasource = PythonDataset(dataset_identifier=did, - codegen="uproot", - sx_adapter=None, - query_cache=None) + datasource = PythonQuery(dataset_identifier=did, + codegen="uproot", + sx_adapter=None, + query_cache=None) string_function = """ def run_query(input_filenames=None): diff --git a/tests/test_servicex_dataset.py b/tests/test_servicex_dataset.py index 11f4f90b..77464a25 100644 --- a/tests/test_servicex_dataset.py +++ b/tests/test_servicex_dataset.py @@ -34,7 +34,7 @@ from servicex.configuration import Configuration from servicex.dataset_identifier import FileListDataset from servicex.expandable_progress import ExpandableProgress -from servicex.func_adl.func_adl_dataset import FuncADLDataset +from servicex.func_adl.func_adl_dataset import FuncADLQuery from servicex.models import TransformStatus, Status, ResultFile, ResultFormat from servicex.query_cache import QueryCache @@ -116,7 +116,7 @@ async def test_submit(mocker): mock_cache = mocker.MagicMock(QueryCache) mocker.patch("servicex.minio_adapter.MinioAdapter", return_value=mock_minio) did = FileListDataset("/foo/bar/baz.root") - datasource = FuncADLDataset( + datasource = FuncADLQuery( dataset_identifier=did, codegen="uproot", sx_adapter=servicex, @@ -135,7 +135,7 @@ def test_transform_request(): with tempfile.TemporaryDirectory() as temp_dir: config = Configuration(cache_path=temp_dir, api_endpoints=[]) cache = QueryCache(config) - datasource = FuncADLDataset( + datasource = FuncADLQuery( dataset_identifier=did, codegen="uproot", sx_adapter=servicex, @@ -162,7 +162,7 @@ def fork_it_over(self) -> int: ... did = FileListDataset("/foo/bar/baz.root") - datasource = FuncADLDataset[my_type_info]( + datasource = FuncADLQuery[my_type_info]( dataset_identifier=did, codegen="uproot", item_type=my_type_info ) @@ -172,5 +172,5 @@ def fork_it_over(self) -> int: def test_type_any(): "Test the type is any if no type is given" did = FileListDataset("/foo/bar/baz.root") - datasource = FuncADLDataset(dataset_identifier=did, codegen="uproot") + datasource = FuncADLQuery(dataset_identifier=did, codegen="uproot") assert datasource.item_type == Any From 14eceaf811020ccb13050d558b415543f0df4bd2 Mon Sep 17 00:00:00 2001 From: Ketan Mahajan Date: Wed, 28 Feb 2024 17:15:04 -0600 Subject: [PATCH 03/12] Added a condition to check if Definition values are not None which was causing a 'Nonetype has no dict()' error --- servicex/databinder_models.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/servicex/databinder_models.py b/servicex/databinder_models.py index b9a0b628..13daf6ab 100644 --- a/servicex/databinder_models.py +++ b/servicex/databinder_models.py @@ -151,7 +151,7 @@ def replace_value_from_def(value, defs): raise ValueError(f"Definition {value} not found") return value - if 'Definition' in values: + if 'Definition' in values and values['Definition'] is not None: defs = values['Definition'].dict() else: defs = {} From 3a27d71fbdf56aa91290fdf08ca69c34a1c585e9 Mon Sep 17 00:00:00 2001 From: KyungEon Choi Date: Mon, 4 Mar 2024 15:03:38 -0600 Subject: [PATCH 04/12] Do not print ServiceXSpec --- servicex/databinder_models.py | 1 - 1 file changed, 1 deletion(-) diff --git a/servicex/databinder_models.py b/servicex/databinder_models.py index 13daf6ab..12313229 100644 --- a/servicex/databinder_models.py +++ b/servicex/databinder_models.py @@ -161,5 +161,4 @@ def replace_value_from_def(value, defs): replace_value_from_def(values['General'].__dict__, defs) - print(values) return values From e6ee696846a14d2e7317c54848109184663a782a Mon Sep 17 00:00:00 2001 From: KyungEon Choi Date: Mon, 4 Mar 2024 17:00:59 -0600 Subject: [PATCH 05/12] Rename RootFile to XRootdFile --- servicex/databinder_models.py | 14 +++++++------- 1 file changed, 7 insertions(+), 7 deletions(-) diff --git a/servicex/databinder_models.py b/servicex/databinder_models.py index 12313229..50619071 100644 --- a/servicex/databinder_models.py +++ b/servicex/databinder_models.py @@ -36,7 +36,7 @@ class Sample(BaseModel): Name: str RucioDID: Optional[str] - RootFile: Optional[Union[str, AnyUrl]] + XRootdFile: Optional[Union[str, AnyUrl]] NFiles: Optional[int] = Field(default=None) Function: Optional[Union[str, Callable]] = Field(default=None) Query: Optional[Union[str, func_adl_dataset.Query]] = Field(default=None) @@ -50,8 +50,8 @@ class Config: def dataset_identifier(self): if self.RucioDID: return RucioDatasetIdentifier(self.RucioDID) - elif self.RootFile: - return FileListDataset(self.RootFile) + elif self.XRootdFile: + return FileListDataset(self.XRootdFile) @root_validator def validate_did_xor_file(cls, values): @@ -60,10 +60,10 @@ def validate_did_xor_file(cls, values): :param values: :return: """ - if values['RootFile'] and values['RucioDID']: - raise ValueError("Only specify one of RootFile or RucioDID, not both.") - if not values['RootFile'] and not values['RucioDID']: - raise ValueError("Must specify one of RootFile or RucioDID.") + if values['XRootdFile'] and values['RucioDID']: + raise ValueError("Only specify one of XRootdFile or RucioDID, not both.") + if not values['XRootdFile'] and not values['RucioDID']: + raise ValueError("Must specify one of XRootdFile or RucioDID.") return values @root_validator From a848d2a6c627496b167dd8730d3bf36dc29d9452 Mon Sep 17 00:00:00 2001 From: KyungEon Choi Date: Tue, 5 Mar 2024 09:30:10 -0600 Subject: [PATCH 06/12] Update init to reduce imports --- servicex/__init__.py | 8 ++++++-- 1 file changed, 6 insertions(+), 2 deletions(-) diff --git a/servicex/__init__.py b/servicex/__init__.py index c4677d25..005a2e04 100644 --- a/servicex/__init__.py +++ b/servicex/__init__.py @@ -29,8 +29,9 @@ from servicex import models from servicex import servicex_client from servicex import dataset_identifier -from servicex.databinder_models import Sample, General, ServiceXSpec -from .servicex_client import ServiceXClient +from servicex.databinder_models import Sample, General, Definition, ServiceXSpec +from servicex.func_adl.func_adl_dataset import FuncADLQuery +from servicex.servicex_client import ServiceXClient, deliver from .query import Query from .models import ResultFormat, ResultDestination from .dataset_group import DatasetGroup @@ -49,7 +50,10 @@ "dataset_identifier", "RucioDatasetIdentifier", "FileListDataset", + "FuncADLQuery", "Sample", "General", + "Definition", "ServiceXSpec", + "deliver" ] From 8d52d2e709cdbac7e1398464536d398adf510375 Mon Sep 17 00:00:00 2001 From: KyungEon Choi Date: Tue, 5 Mar 2024 09:30:53 -0600 Subject: [PATCH 07/12] Codegen can be overwritten per Sample --- servicex/databinder_models.py | 1 + servicex/servicex_client.py | 14 ++++++++++++-- 2 files changed, 13 insertions(+), 2 deletions(-) diff --git a/servicex/databinder_models.py b/servicex/databinder_models.py index 50619071..001a3c7e 100644 --- a/servicex/databinder_models.py +++ b/servicex/databinder_models.py @@ -35,6 +35,7 @@ class Sample(BaseModel): Name: str + Codegen: Optional[str] RucioDID: Optional[str] XRootdFile: Optional[Union[str, AnyUrl]] NFiles: Optional[int] = Field(default=None) diff --git a/servicex/servicex_client.py b/servicex/servicex_client.py index 52c5fb27..1be862f8 100644 --- a/servicex/servicex_client.py +++ b/servicex/servicex_client.py @@ -57,8 +57,13 @@ def deliver(config: ServiceXSpec): sample.Query.set_provided_qastle(qastle_query) + if sample.Codegen: + codegen = sample.Codegen + else: + codegen = config.General.Codegen + query = sx.func_adl_dataset(sample.dataset_identifier, sample.Name, - config.General.Codegen, + codegen, config.General.OutputFormat) query._q_ast = sample.Query._q_ast query._item_type = sample.Query._item_type @@ -80,8 +85,13 @@ def deliver(config: ServiceXSpec): except SyntaxError as e: raise SyntaxError(f"Syntax error in {sample.Name}: {e}") + if sample.Codegen: + codegen = sample.Codegen + else: + codegen = config.General.Codegen + dataset = sx.python_dataset(sample.dataset_identifier, sample.Name, - config.General.Codegen, + codegen, config.General.OutputFormat) dataset.python_function = sample.Function dataset.ignore_cache = sample.IgnoreLocalCache From df0f602ccc30e232742f0ab529c744b2540ada12 Mon Sep 17 00:00:00 2001 From: KyungEon Choi Date: Wed, 6 Mar 2024 13:03:56 -0600 Subject: [PATCH 08/12] Enable NFiles per sample --- servicex/databinder_models.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/servicex/databinder_models.py b/servicex/databinder_models.py index 001a3c7e..510c4d7a 100644 --- a/servicex/databinder_models.py +++ b/servicex/databinder_models.py @@ -50,7 +50,7 @@ class Config: @property def dataset_identifier(self): if self.RucioDID: - return RucioDatasetIdentifier(self.RucioDID) + return RucioDatasetIdentifier(self.RucioDID, num_files=self.NFiles or 0) elif self.XRootdFile: return FileListDataset(self.XRootdFile) From 39230d0c12acea838dfaa372472bc8af86dc039c Mon Sep 17 00:00:00 2001 From: Ben Galewsky Date: Thu, 14 Mar 2024 15:45:54 -0500 Subject: [PATCH 09/12] Remove duplicate code --- servicex/servicex_client.py | 22 +++++++++------------- 1 file changed, 9 insertions(+), 13 deletions(-) diff --git a/servicex/servicex_client.py b/servicex/servicex_client.py index 1be862f8..62807fbc 100644 --- a/servicex/servicex_client.py +++ b/servicex/servicex_client.py @@ -39,7 +39,7 @@ import qastle from make_it_sync import make_sync -from servicex.databinder_models import ServiceXSpec, General +from servicex.databinder_models import ServiceXSpec, General, Sample import rich @@ -47,6 +47,12 @@ def deliver(config: ServiceXSpec): + def get_codegen(_sample: Sample, _general: General): + if _sample.Codegen: + return _sample.Codegen + else: + return _general.Codegen + sx = ServiceXClient(backend=config.General.ServiceX) datasets = [] for sample in config.Sample: @@ -57,13 +63,8 @@ def deliver(config: ServiceXSpec): sample.Query.set_provided_qastle(qastle_query) - if sample.Codegen: - codegen = sample.Codegen - else: - codegen = config.General.Codegen - query = sx.func_adl_dataset(sample.dataset_identifier, sample.Name, - codegen, + get_codegen(sample, config.General), config.General.OutputFormat) query._q_ast = sample.Query._q_ast query._item_type = sample.Query._item_type @@ -85,13 +86,8 @@ def deliver(config: ServiceXSpec): except SyntaxError as e: raise SyntaxError(f"Syntax error in {sample.Name}: {e}") - if sample.Codegen: - codegen = sample.Codegen - else: - codegen = config.General.Codegen - dataset = sx.python_dataset(sample.dataset_identifier, sample.Name, - codegen, + get_codegen(sample, config.General), config.General.OutputFormat) dataset.python_function = sample.Function dataset.ignore_cache = sample.IgnoreLocalCache From fa83c18cc08bec1d04a4960e42a4beef50e27e82 Mon Sep 17 00:00:00 2001 From: Ben Galewsky Date: Thu, 14 Mar 2024 15:46:33 -0500 Subject: [PATCH 10/12] Make examples compatble with new spec --- examples/config_databinder_func_adl.yaml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/examples/config_databinder_func_adl.yaml b/examples/config_databinder_func_adl.yaml index 9424a09e..e0ea405d 100644 --- a/examples/config_databinder_func_adl.yaml +++ b/examples/config_databinder_func_adl.yaml @@ -6,12 +6,12 @@ General: Sample: - Name: ggH - RootFile: DEF_ggH_input + XRootdFile: DEF_ggH_input NFiles: 5 Query: DEF_ttH_nominal_query Definition: - DEF_backend: "testing1" + DEF_backend: "servicex-uc-af" DEF_ttH_nominal_query: | Select(lambda e: {'lep_pt': e['lep_pt']}).Where(lambda e: e['lep_pt'] > 1000) From 9cf8271cc77587485f11e0589e516f6a7f4c4002 Mon Sep 17 00:00:00 2001 From: Ketan Mahajan Date: Mon, 11 Mar 2024 14:34:49 -0500 Subject: [PATCH 11/12] added default tmp with username extension for cache clear fix --- servicex/configuration.py | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/servicex/configuration.py b/servicex/configuration.py index 61abaf3b..38911696 100644 --- a/servicex/configuration.py +++ b/servicex/configuration.py @@ -55,8 +55,9 @@ def expand_cache_path(cls, v): :param v: :return: """ + #create a folder inside the tmp directory if not specified in cache_path if not v: - v = "/tmp" + v = "/tmp/servicex_${USER}" s_path = os.path.expanduser(v) From 4a203a20d2e131ef7dcdca8da22647aa94b13ced Mon Sep 17 00:00:00 2001 From: Ketan Mahajan Date: Mon, 11 Mar 2024 14:35:52 -0500 Subject: [PATCH 12/12] tests for tmp file with username extension --- servicex/configuration.py | 2 +- tests/test_config.py | 11 ++++++++++- 2 files changed, 11 insertions(+), 2 deletions(-) diff --git a/servicex/configuration.py b/servicex/configuration.py index 38911696..1f75aa33 100644 --- a/servicex/configuration.py +++ b/servicex/configuration.py @@ -55,7 +55,7 @@ def expand_cache_path(cls, v): :param v: :return: """ - #create a folder inside the tmp directory if not specified in cache_path + # create a folder inside the tmp directory if not specified in cache_path if not v: v = "/tmp/servicex_${USER}" diff --git a/tests/test_config.py b/tests/test_config.py index 7a4568cb..2f3c38f5 100644 --- a/tests/test_config.py +++ b/tests/test_config.py @@ -50,5 +50,14 @@ def test_config_read(tempdir): @patch('servicex.configuration.tempfile.gettempdir', return_value="./mytemp") def test_default_cache_path(tempdir): + # Windows style user name + os.environ['UserName'] = "p_higgs" + c = Configuration.read(config_path="tests/example_config_no_cache_path.yaml") + assert c.cache_path == "mytemp/servicex_p_higgs" + del os.environ['UserName'] + + # Linux style user name + os.environ['USER'] = "p_higgs" c = Configuration.read(config_path="tests/example_config_no_cache_path.yaml") - assert c.cache_path == "mytemp" + assert c.cache_path == "mytemp/servicex_p_higgs" + del os.environ['USER']