From d17f4984cf13b3aaf92d2a53c5e5d669499c60d8 Mon Sep 17 00:00:00 2001 From: David Lougheed Date: Fri, 31 May 2024 14:10:58 -0400 Subject: [PATCH] feat: add streaming module with range header parsing + exc defs --- README.md | 6 + bento_lib/__init__.py | 5 +- bento_lib/streaming/__init__.py | 0 bento_lib/streaming/exceptions.py | 38 ++++ bento_lib/streaming/range.py | 80 +++++++++ poetry.lock | 286 +++++++++++++++--------------- pyproject.toml | 2 +- tests/test_streaming.py | 54 ++++++ 8 files changed, 326 insertions(+), 145 deletions(-) create mode 100644 bento_lib/streaming/__init__.py create mode 100644 bento_lib/streaming/exceptions.py create mode 100644 bento_lib/streaming/range.py create mode 100644 tests/test_streaming.py diff --git a/README.md b/README.md index 5cd2791..509683c 100644 --- a/README.md +++ b/README.md @@ -160,6 +160,12 @@ methods for creating and processing ASTs. for common structures and operations related to GA4GH's `/service-info` specification. +### `streaming` + +`streaming` contains helper code for streaming bytes via HTTP from files, and +proxied HTTP resources, including exception definitions and HTTP `Range` header +parsing. + ### `workflows` `workflows` contains common code used for handling workflow metadata processing diff --git a/bento_lib/__init__.py b/bento_lib/__init__.py index a9ab877..7053863 100644 --- a/bento_lib/__init__.py +++ b/bento_lib/__init__.py @@ -7,7 +7,10 @@ from . import schemas from . import search from . import service_info +from . import streaming from . import workflows __version__ = metadata.version(__name__) -__all__ = ["__version__", "apps", "auth", "drs", "events", "schemas", "search", "service_info", "workflows"] +__all__ = [ + "__version__", "apps", "auth", "drs", "events", "schemas", "search", "service_info", "streaming", "workflows" +] diff --git a/bento_lib/streaming/__init__.py b/bento_lib/streaming/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/bento_lib/streaming/exceptions.py b/bento_lib/streaming/exceptions.py new file mode 100644 index 0000000..be535d9 --- /dev/null +++ b/bento_lib/streaming/exceptions.py @@ -0,0 +1,38 @@ +__all__ = [ + "StreamingRangeNotSatisfiable", + "StreamingBadRange", + "StreamingProxyingError", + "StreamingResponseExceededLimit", + "StreamingBadURI", + "StreamingUnsupportedURIScheme", +] + + +class StreamingRangeNotSatisfiable(Exception): + def __init__(self, message: str, n_bytes: int | None): + self._n_bytes: int | None = n_bytes + super().__init__(message) + + @property + def n_bytes(self) -> int: + return self._n_bytes + + +class StreamingBadRange(Exception): + pass + + +class StreamingProxyingError(Exception): + pass + + +class StreamingResponseExceededLimit(Exception): + pass + + +class StreamingBadURI(Exception): + pass + + +class StreamingUnsupportedURIScheme(Exception): + pass diff --git a/bento_lib/streaming/range.py b/bento_lib/streaming/range.py new file mode 100644 index 0000000..10de164 --- /dev/null +++ b/bento_lib/streaming/range.py @@ -0,0 +1,80 @@ +import re + +from .exceptions import StreamingRangeNotSatisfiable, StreamingBadRange + +__all__ = ["parse_range_header"] + + +BYTE_RANGE_INTERVAL_SPLIT = re.compile(r",\s*") +BYTE_RANGE_START_ONLY = re.compile(r"^(\d+)-$") +BYTE_RANGE_START_END = re.compile(r"^(\d+)-(\d+)$") +BYTE_RANGE_SUFFIX = re.compile(r"^-(\d+)$") + + +def parse_range_header( + range_header: str | None, content_length: int, refget_mode: bool = False +) -> tuple[tuple[int, int], ...]: + """ + Parse a range header (given a particular content length) into a validated series of sorted, non-overlapping + start/end-inclusive intervals. + """ + + if range_header is None: + return ((0, content_length - 1),) + + intervals: list[tuple[int, int]] = [] + + if not range_header.startswith("bytes="): + raise StreamingBadRange("only bytes range headers are supported") + + intervals_str = range_header.removeprefix("bytes=") + + # Cases: start- | start-end | -suffix, [start- | start-end | -suffix], ... + + intervals_str_split = BYTE_RANGE_INTERVAL_SPLIT.split(intervals_str) + + for iv in intervals_str_split: + if m := BYTE_RANGE_START_ONLY.match(iv): + intervals.append((int(m.group(1)), content_length - 1)) + elif m := BYTE_RANGE_START_END.match(iv): + intervals.append((int(m.group(1)), int(m.group(2)))) + elif m := BYTE_RANGE_SUFFIX.match(iv): + inclusive_content_length = content_length - 1 + suffix_length = int(m.group(1)) # suffix: -500 === last 500: + intervals.append((max(inclusive_content_length - suffix_length + 1, 0), inclusive_content_length)) + else: + raise StreamingBadRange("byte range did not match any pattern") + + intervals.sort() + n_intervals: int = len(intervals) + + # validate intervals are not inverted and do not overlap each other: + for i, int1 in enumerate(intervals): + int1_start, int1_end = int1 + + # Order of these checks is important - we want to give a 416 if start/end is beyond content length (which also + # results in an inverted interval) + + if int1_start >= content_length: + # both ends of the range are 0-indexed, inclusive - so it starts at 0 and ends at content_length - 1 + if refget_mode: # sigh... GA4GH moment + raise StreamingBadRange(f"start is beyond content length: {int1_start} >= {content_length}") + raise StreamingRangeNotSatisfiable(f"not satisfiable: {int1_start} >= {content_length}", content_length) + + if int1_end >= content_length: + # both ends of the range are 0-indexed, inclusive - so it starts at 0 and ends at content_length - 1 + if refget_mode: # sigh... GA4GH moment + raise StreamingBadRange(f"end is beyond content length: {int1_end} >= {content_length}") + raise StreamingRangeNotSatisfiable(f"not satisfiable: {int1_end} >= {content_length}", content_length) + + if not refget_mode and int1_start > int1_end: + raise StreamingRangeNotSatisfiable(f"inverted interval: {int1}", content_length) + + if i < n_intervals - 1: + int2 = intervals[i + 1] + int2_start, int2_end = int2 + + if int1_end >= int2_start: + raise StreamingRangeNotSatisfiable(f"intervals overlap: {int1}, {int2}", content_length) + + return tuple(intervals) diff --git a/poetry.lock b/poetry.lock index 4a12732..7504850 100644 --- a/poetry.lock +++ b/poetry.lock @@ -506,63 +506,63 @@ files = [ [[package]] name = "coverage" -version = "7.5.2" +version = "7.5.3" description = "Code coverage measurement for Python" optional = false python-versions = ">=3.8" files = [ - {file = "coverage-7.5.2-cp310-cp310-macosx_10_9_x86_64.whl", hash = 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["zstandard (>=0.18.0)"] [[package]] name = "uvicorn" -version = "0.29.0" +version = "0.30.0" description = "The lightning-fast ASGI server." optional = true python-versions = ">=3.8" files = [ - {file = "uvicorn-0.29.0-py3-none-any.whl", hash = "sha256:2c2aac7ff4f4365c206fd773a39bf4ebd1047c238f8b8268ad996829323473de"}, - {file = "uvicorn-0.29.0.tar.gz", hash = "sha256:6a69214c0b6a087462412670b3ef21224fa48cae0e452b5883e8e8bdfdd11dd0"}, + {file = "uvicorn-0.30.0-py3-none-any.whl", hash = "sha256:78fa0b5f56abb8562024a59041caeb555c86e48d0efdd23c3fe7de7a4075bdab"}, + {file = "uvicorn-0.30.0.tar.gz", hash = "sha256:f678dec4fa3a39706bbf49b9ec5fc40049d42418716cea52b53f07828a60aa37"}, ] [package.dependencies] diff --git a/pyproject.toml b/pyproject.toml index c0d201e..04c6e28 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,6 +1,6 @@ [tool.poetry] name = "bento-lib" -version = "11.10.1" +version = "11.11.0" description = "A set of common utilities and helpers for Bento platform services." authors = [ "David Lougheed ", diff --git a/tests/test_streaming.py b/tests/test_streaming.py new file mode 100644 index 0000000..d337166 --- /dev/null +++ b/tests/test_streaming.py @@ -0,0 +1,54 @@ +import pytest +from typing import Type + +from bento_lib.streaming import exceptions as s, range as r + +CONTENT_LENGTH = 10000 + + +def test_streaming_exceptions(): + e = s.StreamingRangeNotSatisfiable("Not satisfiable", 100) + assert e.n_bytes == 100 + assert str(e) == "Not satisfiable" + + +@pytest.mark.parametrize( + "range_header,refget_mode,exc", + [ + ("bites=0-100", False, s.StreamingBadRange), + ("bytes=500", False, s.StreamingBadRange), + ("bytes=100-0", False, s.StreamingRangeNotSatisfiable), + ("bytes=abc-", False, s.StreamingBadRange), + ("bytes=-10-20", False, s.StreamingBadRange), + ("bytes=5bc-600", False, s.StreamingBadRange), + ("bytes=0-50,100-0", False, s.StreamingRangeNotSatisfiable), # terminal inverted range + ("bytes=0-50,30-100", False, s.StreamingRangeNotSatisfiable), # don't support overlapping ranges + ("bytes=0-30,30-100", False, s.StreamingRangeNotSatisfiable), # don't support overlapping ranges (inclusive) + ("bytes=0-30,35-33,40-100", False, s.StreamingRangeNotSatisfiable), # non-terminal inverted range + ("bytes=100000-", False, s.StreamingRangeNotSatisfiable), # past end of file + ("bytes=0-100000", False, s.StreamingRangeNotSatisfiable), # past end of file + # Refget mode: 400 instead of 416 for past-EOF errors + ("bytes=100000-", True, s.StreamingBadRange), # past end of file + ("bytes=0-100000", True, s.StreamingBadRange), # past end of file + ], +) +def test_parse_range_header_errors(range_header: str, refget_mode: bool, exc: Type[Exception]): + with pytest.raises(exc): + r.parse_range_header(range_header, CONTENT_LENGTH, refget_mode=refget_mode) + + +@pytest.mark.parametrize( + "range_header,intervals", + [ + (None, ((0, CONTENT_LENGTH - 1),)), + ("bytes=0-100", ((0, 100),)), + ("bytes=0-", ((0, CONTENT_LENGTH - 1),)), + ("bytes=5-10", ((5, 10),)), + ("bytes=5-10, 15-20", ((5, 10), (15, 20))), + ("bytes=5-10, 15-", ((5, 10), (15, CONTENT_LENGTH - 1))), + ("bytes=-500", ((CONTENT_LENGTH - 500, CONTENT_LENGTH - 1),)), + ("bytes=0-100, -500", ((0, 100), (CONTENT_LENGTH - 500, CONTENT_LENGTH - 1),)), + ], +) +def test_parse_range_header_valid(range_header: str | None, intervals: tuple[tuple[int, int], ...]): + assert r.parse_range_header(range_header, CONTENT_LENGTH) == intervals