From a1c7d837de4b8eaa5426c314fa7001634ab33ec9 Mon Sep 17 00:00:00 2001 From: Ali Khan Date: Mon, 22 Jul 2024 15:14:28 -0400 Subject: [PATCH] add fsspec dependencies --- poetry.lock | 516 +++++++++++++++++++++++++++++++++++++++++++++++-- pyproject.toml | 6 + 2 files changed, 507 insertions(+), 15 deletions(-) diff --git a/poetry.lock b/poetry.lock index 3101687..e7b1bfb 100644 --- a/poetry.lock +++ b/poetry.lock @@ -282,6 +282,26 @@ files = [ {file = "bids_validator-1.14.6.tar.gz", hash = "sha256:df2b6b5d1aaad61d34ccad0494f2ed73ce3082825ada31954c4e14c2538d485c"}, ] +[[package]] +name = "boto3" +version = "1.34.131" +description = "The AWS SDK for Python" +category = "main" +optional = false +python-versions = ">=3.8" +files = [ + {file = "boto3-1.34.131-py3-none-any.whl", hash = "sha256:05e388cb937e82be70bfd7eb0c84cf8011ff35cf582a593873ac21675268683b"}, + {file = "boto3-1.34.131.tar.gz", hash = "sha256:dab8f72a6c4e62b4fd70da09e08a6b2a65ea2115b27dd63737142005776ef216"}, +] + 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snakemake-interface-common = ">=1.12.0,<2.0.0" throttler = ">=1.2.2,<2.0.0" wrapt = ">=1.15.0,<2.0.0" +[[package]] +name = "snakemake-storage-plugin-gcs" +version = "1.0.0" +description = "A Snakemake storage plugin for Google Cloud Storage" +category = "main" +optional = false +python-versions = "<4.0,>=3.11" +files = [ + {file = "snakemake_storage_plugin_gcs-1.0.0-py3-none-any.whl", hash = "sha256:0e52fca115a6be3cb1df6067e37a0d2e9ff440a9521391b7239ddb5217ea61aa"}, + {file = "snakemake_storage_plugin_gcs-1.0.0.tar.gz", hash = "sha256:a5ca15813a74ae18d41cc5dbde0792e2ec5bfc32e8615d458b41dded1b430e14"}, +] + +[package.dependencies] +google-cloud-storage = ">=2.12.0,<3.0.0" +google-crc32c = ">=1.1.2,<2.0.0" +snakemake-interface-common = ">=1.14.2,<2.0.0" +snakemake-interface-storage-plugins = ">=3.0.0,<4.0.0" + +[[package]] +name = "snakemake-storage-plugin-s3" +version = "0.2.11" +description = "A Snakemake storage plugin for S3 API storage (AWS S3, MinIO, etc.)" +category = "main" +optional = false +python-versions = "<4.0,>=3.11" +files = [ + {file = "snakemake_storage_plugin_s3-0.2.11-py3-none-any.whl", hash = "sha256:b192e529a07d71188b02605ec630e240d54da83070e636dc3b77fb24d5c3803d"}, + {file = "snakemake_storage_plugin_s3-0.2.11.tar.gz", hash = "sha256:edbac21ca22d2e674eaadf05f21c611891df37366d4fbd6a712d79172d788895"}, +] + +[package.dependencies] +boto3 = ">=1.33,<2.0" +botocore = ">=1.33,<2.0" +snakemake-interface-common = ">=1.14.0,<2.0.0" +snakemake-interface-storage-plugins = ">=3.2.2,<4.0.0" +urllib3 = ">=2.0,<2.2" + [[package]] name = "sortedcontainers" version = "2.4.0" @@ -4051,21 +4519,39 @@ files = [ {file = "tzdata-2024.1.tar.gz", hash = "sha256:2674120f8d891909751c38abcdfd386ac0a5a1127954fbc332af6b5ceae07efd"}, ] +[[package]] +name = "universal-pathlib" +version = "0.2.2" +description = "pathlib api extended to use fsspec backends" +category = "main" +optional = false +python-versions = ">=3.8" +files = [ + {file = "universal_pathlib-0.2.2-py3-none-any.whl", hash = "sha256:9bc176112d593348bb29806a47e409eda78dff8d95391d66dd6f85e443aaa75d"}, + {file = "universal_pathlib-0.2.2.tar.gz", hash = "sha256:6bc215548792ad5db3553708b1c19bafd9e2fa1667dc925ed404c95e52ae2f13"}, +] + +[package.dependencies] +fsspec = ">=2022.1.0" + +[package.extras] +dev = ["adlfs", "aiohttp", "cheroot", "gcsfs", "moto[s3,server] (<5)", "mypy (==1.8.0)", "packaging", "pydantic", "pydantic-settings", "pylint (==2.17.4)", "pytest (==8.0.0)", "pytest-cov (==4.1.0)", "pytest-mock (==3.12.0)", "pytest-sugar (==0.9.7)", "requests", "s3fs", "webdav4[fsspec]", "wsgidav"] +tests = ["mypy (==1.8.0)", "packaging", "pylint (==2.17.4)", "pytest (==8.0.0)", "pytest-cov (==4.1.0)", "pytest-mock (==3.12.0)", "pytest-sugar (==0.9.7)"] + [[package]] name = "urllib3" -version = "2.2.2" +version = "2.1.0" description = "HTTP library with thread-safe connection pooling, file post, and more." category = "main" optional = false python-versions = ">=3.8" files = [ - {file = "urllib3-2.2.2-py3-none-any.whl", hash = "sha256:a448b2f64d686155468037e1ace9f2d2199776e17f0a46610480d311f73e3472"}, - {file = "urllib3-2.2.2.tar.gz", hash = "sha256:dd505485549a7a552833da5e6063639d0d177c04f23bc3864e41e5dc5f612168"}, + {file = "urllib3-2.1.0-py3-none-any.whl", hash = "sha256:55901e917a5896a349ff771be919f8bd99aff50b79fe58fec595eb37bbc56bb3"}, + {file = "urllib3-2.1.0.tar.gz", hash = "sha256:df7aa8afb0148fa78488e7899b2c59b5f4ffcfa82e6c54ccb9dd37c1d7b52d54"}, ] [package.extras] 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)"] @@ -4368,4 +4854,4 @@ test = ["big-O", "importlib-resources", "jaraco.functools", "jaraco.itertools", [metadata] lock-version = "2.0" python-versions = ">=3.11,<3.13" -content-hash = "31d46a9e1628461909114a5ed1a05539fb6bd46abafdc64fcde8049677a3f720" +content-hash = "358c9218204a215c1c3e4e6adb409ca9ef581668e5f752315050c5a31257d7a6" diff --git a/pyproject.toml b/pyproject.toml index 8d2c6bf..343a5dd 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -23,6 +23,12 @@ numpy = "^1.26.4" zarrnii = "0.1.3a1" dask = "^2024.7.0" distributed = "^2024.7.0" +snakemake-storage-plugin-s3 = "^0.2.11" +snakemake-storage-plugin-gcs = "^1.0.0" +gcsfs = "^2024.3.1" +s3fs = "^2024.3.1" +universal-pathlib = "^0.2.2" + [build-system] requires = ["poetry-core"]