diff --git a/poetry.lock b/poetry.lock index b482a3f..e30bc23 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,4 +1,4 @@ -# This file is automatically @generated by Poetry 1.6.1 and should not be changed by hand. +# This file is automatically @generated by Poetry 1.7.1 and should not be changed by hand. [[package]] name = "atomicwrites" @@ -483,17 +483,18 @@ gitdb = ">=4.0.1,<5" [[package]] name = "gtfparse" -version = "1.3.0" -description = "GTF Parsing" +version = "2.3.0" +description = "Parsing library for extracting data frames of genomic features from GTF files" optional = false -python-versions = "*" +python-versions = ">=3.7" files = [ - {file = "gtfparse-1.3.0.tar.gz", hash = "sha256:d957f18e5f70413f89a28ef83068c461b6407eb38fd30e99b8da3d69143527b1"}, + {file = "gtfparse-2.3.0-py3-none-any.whl", hash = "sha256:f4dee0590c389bcbd34c1a82e0a465e4c1b911e388d4bceda8a82a4feb65365b"}, + {file = "gtfparse-2.3.0.tar.gz", hash = "sha256:c2d74d6964d54d710e2d6264d47ca9e0a5288a781d47d3db08b4f6a5ee7e15f1"}, ] [package.dependencies] -numpy = ">=1.7" -pandas = ">=0.15" +polars = ">=0.20.2,<0.21.0" +pyarrow = ">=14.0.2,<14.1.0" [[package]] name = "idna" @@ -684,6 +685,16 @@ files = [ {file = "MarkupSafe-2.1.3-cp311-cp311-musllinux_1_1_x86_64.whl", hash = "sha256:5bbe06f8eeafd38e5d0a4894ffec89378b6c6a625ff57e3028921f8ff59318ac"}, {file = "MarkupSafe-2.1.3-cp311-cp311-win32.whl", hash = "sha256:dd15ff04ffd7e05ffcb7fe79f1b98041b8ea30ae9234aed2a9168b5797c3effb"}, {file = "MarkupSafe-2.1.3-cp311-cp311-win_amd64.whl", hash = "sha256:134da1eca9ec0ae528110ccc9e48041e0828d79f24121a1a146161103c76e686"}, + {file = "MarkupSafe-2.1.3-cp312-cp312-macosx_10_9_universal2.whl", hash = "sha256:f698de3fd0c4e6972b92290a45bd9b1536bffe8c6759c62471efaa8acb4c37bc"}, + {file = "MarkupSafe-2.1.3-cp312-cp312-macosx_10_9_x86_64.whl", hash = "sha256:aa57bd9cf8ae831a362185ee444e15a93ecb2e344c8e52e4d721ea3ab6ef1823"}, + {file = "MarkupSafe-2.1.3-cp312-cp312-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:ffcc3f7c66b5f5b7931a5aa68fc9cecc51e685ef90282f4a82f0f5e9b704ad11"}, + {file = "MarkupSafe-2.1.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:47d4f1c5f80fc62fdd7777d0d40a2e9dda0a05883ab11374334f6c4de38adffd"}, + {file = "MarkupSafe-2.1.3-cp312-cp312-manylinux_2_5_i686.manylinux1_i686.manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:1f67c7038d560d92149c060157d623c542173016c4babc0c1913cca0564b9939"}, + {file = "MarkupSafe-2.1.3-cp312-cp312-musllinux_1_1_aarch64.whl", hash = "sha256:9aad3c1755095ce347e26488214ef77e0485a3c34a50c5a5e2471dff60b9dd9c"}, + {file = "MarkupSafe-2.1.3-cp312-cp312-musllinux_1_1_i686.whl", hash = "sha256:14ff806850827afd6b07a5f32bd917fb7f45b046ba40c57abdb636674a8b559c"}, + {file = "MarkupSafe-2.1.3-cp312-cp312-musllinux_1_1_x86_64.whl", hash = "sha256:8f9293864fe09b8149f0cc42ce56e3f0e54de883a9de90cd427f191c346eb2e1"}, + {file = "MarkupSafe-2.1.3-cp312-cp312-win32.whl", hash = "sha256:715d3562f79d540f251b99ebd6d8baa547118974341db04f5ad06d5ea3eb8007"}, + {file = "MarkupSafe-2.1.3-cp312-cp312-win_amd64.whl", hash = "sha256:1b8dd8c3fd14349433c79fa8abeb573a55fc0fdd769133baac1f5e07abf54aeb"}, {file = "MarkupSafe-2.1.3-cp37-cp37m-macosx_10_9_x86_64.whl", hash = "sha256:8e254ae696c88d98da6555f5ace2279cf7cd5b3f52be2b5cf97feafe883b58d2"}, {file = "MarkupSafe-2.1.3-cp37-cp37m-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:cb0932dc158471523c9637e807d9bfb93e06a95cbf010f1a38b98623b929ef2b"}, {file = "MarkupSafe-2.1.3-cp37-cp37m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:9402b03f1a1b4dc4c19845e5c749e3ab82d5078d16a2a4c2cd2df62d57bb0707"}, @@ -879,73 +890,6 @@ files = [ {file = "packaging-23.1.tar.gz", hash = "sha256:a392980d2b6cffa644431898be54b0045151319d1e7ec34f0cfed48767dd334f"}, ] -[[package]] -name = "pandas" -version = "2.0.3" -description = "Powerful data structures for data analysis, time series, and statistics" -optional = false -python-versions = ">=3.8" -files = [ - {file = "pandas-2.0.3-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:e4c7c9f27a4185304c7caf96dc7d91bc60bc162221152de697c98eb0b2648dd8"}, - {file = "pandas-2.0.3-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:f167beed68918d62bffb6ec64f2e1d8a7d297a038f86d4aed056b9493fca407f"}, - {file = "pandas-2.0.3-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:ce0c6f76a0f1ba361551f3e6dceaff06bde7514a374aa43e33b588ec10420183"}, - {file = "pandas-2.0.3-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:ba619e410a21d8c387a1ea6e8a0e49bb42216474436245718d7f2e88a2f8d7c0"}, - {file = "pandas-2.0.3-cp310-cp310-win32.whl", hash = "sha256:3ef285093b4fe5058eefd756100a367f27029913760773c8bf1d2d8bebe5d210"}, - {file = "pandas-2.0.3-cp310-cp310-win_amd64.whl", hash = "sha256:9ee1a69328d5c36c98d8e74db06f4ad518a1840e8ccb94a4ba86920986bb617e"}, - {file = "pandas-2.0.3-cp311-cp311-macosx_10_9_x86_64.whl", hash = "sha256:b084b91d8d66ab19f5bb3256cbd5ea661848338301940e17f4492b2ce0801fe8"}, - {file = "pandas-2.0.3-cp311-cp311-macosx_11_0_arm64.whl", hash = "sha256:37673e3bdf1551b95bf5d4ce372b37770f9529743d2498032439371fc7b7eb26"}, - {file = "pandas-2.0.3-cp311-cp311-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:b9cb1e14fdb546396b7e1b923ffaeeac24e4cedd14266c3497216dd4448e4f2d"}, - {file = "pandas-2.0.3-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:d9cd88488cceb7635aebb84809d087468eb33551097d600c6dad13602029c2df"}, - {file = "pandas-2.0.3-cp311-cp311-win32.whl", hash = "sha256:694888a81198786f0e164ee3a581df7d505024fbb1f15202fc7db88a71d84ebd"}, - {file = "pandas-2.0.3-cp311-cp311-win_amd64.whl", hash = "sha256:6a21ab5c89dcbd57f78d0ae16630b090eec626360085a4148693def5452d8a6b"}, - {file = "pandas-2.0.3-cp38-cp38-macosx_10_9_x86_64.whl", hash = "sha256:9e4da0d45e7f34c069fe4d522359df7d23badf83abc1d1cef398895822d11061"}, - {file = "pandas-2.0.3-cp38-cp38-macosx_11_0_arm64.whl", hash = "sha256:32fca2ee1b0d93dd71d979726b12b61faa06aeb93cf77468776287f41ff8fdc5"}, - {file = "pandas-2.0.3-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:258d3624b3ae734490e4d63c430256e716f488c4fcb7c8e9bde2d3aa46c29089"}, - {file = "pandas-2.0.3-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:9eae3dc34fa1aa7772dd3fc60270d13ced7346fcbcfee017d3132ec625e23bb0"}, - {file = "pandas-2.0.3-cp38-cp38-win32.whl", hash = "sha256:f3421a7afb1a43f7e38e82e844e2bca9a6d793d66c1a7f9f0ff39a795bbc5e02"}, - {file = "pandas-2.0.3-cp38-cp38-win_amd64.whl", hash = "sha256:69d7f3884c95da3a31ef82b7618af5710dba95bb885ffab339aad925c3e8ce78"}, - {file = "pandas-2.0.3-cp39-cp39-macosx_10_9_x86_64.whl", hash = "sha256:5247fb1ba347c1261cbbf0fcfba4a3121fbb4029d95d9ef4dc45406620b25c8b"}, - {file = "pandas-2.0.3-cp39-cp39-macosx_11_0_arm64.whl", hash = "sha256:81af086f4543c9d8bb128328b5d32e9986e0c84d3ee673a2ac6fb57fd14f755e"}, - {file = "pandas-2.0.3-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:1994c789bf12a7c5098277fb43836ce090f1073858c10f9220998ac74f37c69b"}, - {file = "pandas-2.0.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:5ec591c48e29226bcbb316e0c1e9423622bc7a4eaf1ef7c3c9fa1a3981f89641"}, - {file = "pandas-2.0.3-cp39-cp39-win32.whl", hash = "sha256:04dbdbaf2e4d46ca8da896e1805bc04eb85caa9a82e259e8eed00254d5e0c682"}, - {file = "pandas-2.0.3-cp39-cp39-win_amd64.whl", hash = "sha256:1168574b036cd8b93abc746171c9b4f1b83467438a5e45909fed645cf8692dbc"}, - {file = "pandas-2.0.3.tar.gz", hash = "sha256:c02f372a88e0d17f36d3093a644c73cfc1788e876a7c4bcb4020a77512e2043c"}, -] - -[package.dependencies] -numpy = [ - {version = ">=1.23.2", markers = "python_version >= \"3.11\""}, - {version = ">=1.21.0", markers = "python_version >= \"3.10\" and python_version < \"3.11\""}, - {version = ">=1.20.3", markers = "python_version < \"3.10\""}, -] -python-dateutil = ">=2.8.2" -pytz = ">=2020.1" -tzdata = ">=2022.1" - -[package.extras] -all = ["PyQt5 (>=5.15.1)", "SQLAlchemy (>=1.4.16)", "beautifulsoup4 (>=4.9.3)", "bottleneck (>=1.3.2)", "brotlipy (>=0.7.0)", "fastparquet (>=0.6.3)", "fsspec (>=2021.07.0)", "gcsfs (>=2021.07.0)", "html5lib (>=1.1)", "hypothesis (>=6.34.2)", "jinja2 (>=3.0.0)", "lxml (>=4.6.3)", "matplotlib (>=3.6.1)", "numba (>=0.53.1)", "numexpr (>=2.7.3)", "odfpy (>=1.4.1)", "openpyxl (>=3.0.7)", "pandas-gbq (>=0.15.0)", "psycopg2 (>=2.8.6)", "pyarrow (>=7.0.0)", "pymysql (>=1.0.2)", "pyreadstat (>=1.1.2)", "pytest (>=7.3.2)", "pytest-asyncio (>=0.17.0)", "pytest-xdist (>=2.2.0)", "python-snappy (>=0.6.0)", "pyxlsb (>=1.0.8)", "qtpy (>=2.2.0)", "s3fs (>=2021.08.0)", "scipy (>=1.7.1)", "tables (>=3.6.1)", "tabulate (>=0.8.9)", "xarray (>=0.21.0)", "xlrd (>=2.0.1)", "xlsxwriter (>=1.4.3)", "zstandard (>=0.15.2)"] -aws = ["s3fs (>=2021.08.0)"] -clipboard = ["PyQt5 (>=5.15.1)", "qtpy (>=2.2.0)"] -compression = ["brotlipy (>=0.7.0)", "python-snappy (>=0.6.0)", "zstandard (>=0.15.2)"] -computation = ["scipy (>=1.7.1)", "xarray (>=0.21.0)"] -excel = ["odfpy (>=1.4.1)", "openpyxl (>=3.0.7)", "pyxlsb (>=1.0.8)", "xlrd (>=2.0.1)", "xlsxwriter (>=1.4.3)"] -feather = ["pyarrow (>=7.0.0)"] -fss = ["fsspec (>=2021.07.0)"] -gcp = ["gcsfs (>=2021.07.0)", "pandas-gbq (>=0.15.0)"] -hdf5 = ["tables (>=3.6.1)"] -html = ["beautifulsoup4 (>=4.9.3)", "html5lib (>=1.1)", "lxml (>=4.6.3)"] -mysql = ["SQLAlchemy (>=1.4.16)", "pymysql (>=1.0.2)"] -output-formatting = ["jinja2 (>=3.0.0)", "tabulate (>=0.8.9)"] -parquet = ["pyarrow (>=7.0.0)"] -performance = ["bottleneck (>=1.3.2)", "numba (>=0.53.1)", "numexpr (>=2.7.1)"] -plot = ["matplotlib (>=3.6.1)"] -postgresql = ["SQLAlchemy (>=1.4.16)", "psycopg2 (>=2.8.6)"] -spss = ["pyreadstat (>=1.1.2)"] -sql-other = ["SQLAlchemy (>=1.4.16)"] -test = ["hypothesis (>=6.34.2)", "pytest (>=7.3.2)", "pytest-asyncio (>=0.17.0)", "pytest-xdist (>=2.2.0)"] -xml = ["lxml (>=4.6.3)"] - [[package]] name = "pathspec" version = "0.11.2" @@ -1001,6 +945,43 @@ files = [ dev = ["pre-commit", "tox"] testing = ["pytest", "pytest-benchmark"] +[[package]] +name = "polars" +version = "0.20.4" +description = "Blazingly fast DataFrame library" +optional = false +python-versions = ">=3.8" +files = [ + {file = "polars-0.20.4-cp38-abi3-macosx_10_12_x86_64.whl", hash = "sha256:5fa84f74fc2274e3926d083ccd084c81b3e04debdc66fd917cafe7026d1df19c"}, + {file = "polars-0.20.4-cp38-abi3-macosx_11_0_arm64.whl", hash = "sha256:4c5a9f981708f3d090dd5513d83806bcb8a1725653d80bcf63bb738a097b1162"}, + {file = "polars-0.20.4-cp38-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:bfdc2672423c9c73e34161b7b4833c40d042b9d36e899866dc858e8a221b0849"}, + {file = "polars-0.20.4-cp38-abi3-manylinux_2_24_aarch64.whl", hash = "sha256:76f270fb17955c97958c2e301c5c2fa10015ccf3048697964ad9c2198e4c6fe6"}, + {file = "polars-0.20.4-cp38-abi3-win_amd64.whl", hash = "sha256:96a067be35745942d3fe6cd3ad1513f9ab7f4249d2b2502484ee64b30d221f96"}, + {file = "polars-0.20.4.tar.gz", hash = "sha256:21a90aa0c7401c80fc814b4db371dced780df6bd5ac81a329307e796b5821190"}, +] + +[package.extras] +adbc = ["adbc_driver_sqlite"] +all = ["polars[adbc,cloudpickle,connectorx,deltalake,fsspec,gevent,numpy,pandas,plot,pyarrow,pydantic,pyiceberg,sqlalchemy,timezone,xlsx2csv,xlsxwriter]"] +cloudpickle = ["cloudpickle"] +connectorx = ["connectorx (>=0.3.2)"] +deltalake = ["deltalake (>=0.14.0)"] +fsspec = ["fsspec"] +gevent = ["gevent"] +matplotlib = ["matplotlib"] +numpy = ["numpy (>=1.16.0)"] +openpyxl = ["openpyxl (>=3.0.0)"] +pandas = ["pandas", "pyarrow (>=7.0.0)"] +plot = ["hvplot (>=0.9.1)"] +pyarrow = ["pyarrow (>=7.0.0)"] +pydantic = ["pydantic"] +pyiceberg = ["pyiceberg (>=0.5.0)"] +pyxlsb = ["pyxlsb (>=1.0)"] +sqlalchemy = ["pandas", "sqlalchemy"] +timezone = ["backports.zoneinfo", "tzdata"] +xlsx2csv = ["xlsx2csv (>=0.8.0)"] +xlsxwriter = ["xlsxwriter"] + [[package]] name = "py" version = "1.11.0" @@ -1012,6 +993,54 @@ files = [ {file = "py-1.11.0.tar.gz", hash = "sha256:51c75c4126074b472f746a24399ad32f6053d1b34b68d2fa41e558e6f4a98719"}, ] +[[package]] +name = "pyarrow" +version = "14.0.2" +description = "Python library for Apache Arrow" +optional = false +python-versions = ">=3.8" +files = [ + {file = "pyarrow-14.0.2-cp310-cp310-macosx_10_14_x86_64.whl", hash = "sha256:ba9fe808596c5dbd08b3aeffe901e5f81095baaa28e7d5118e01354c64f22807"}, + {file = "pyarrow-14.0.2-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:22a768987a16bb46220cef490c56c671993fbee8fd0475febac0b3e16b00a10e"}, + {file = "pyarrow-14.0.2-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:2dbba05e98f247f17e64303eb876f4a80fcd32f73c7e9ad975a83834d81f3fda"}, + {file = "pyarrow-14.0.2-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:a898d134d00b1eca04998e9d286e19653f9d0fcb99587310cd10270907452a6b"}, + {file = "pyarrow-14.0.2-cp310-cp310-manylinux_2_28_aarch64.whl", hash = "sha256:87e879323f256cb04267bb365add7208f302df942eb943c93a9dfeb8f44840b1"}, + {file = "pyarrow-14.0.2-cp310-cp310-manylinux_2_28_x86_64.whl", hash = "sha256:76fc257559404ea5f1306ea9a3ff0541bf996ff3f7b9209fc517b5e83811fa8e"}, + {file = "pyarrow-14.0.2-cp310-cp310-win_amd64.whl", hash = "sha256:b0c4a18e00f3a32398a7f31da47fefcd7a927545b396e1f15d0c85c2f2c778cd"}, + {file = "pyarrow-14.0.2-cp311-cp311-macosx_10_14_x86_64.whl", hash = "sha256:87482af32e5a0c0cce2d12eb3c039dd1d853bd905b04f3f953f147c7a196915b"}, + {file = "pyarrow-14.0.2-cp311-cp311-macosx_11_0_arm64.whl", hash = "sha256:059bd8f12a70519e46cd64e1ba40e97eae55e0cbe1695edd95384653d7626b23"}, + {file = "pyarrow-14.0.2-cp311-cp311-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:3f16111f9ab27e60b391c5f6d197510e3ad6654e73857b4e394861fc79c37200"}, + {file = "pyarrow-14.0.2-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:06ff1264fe4448e8d02073f5ce45a9f934c0f3db0a04460d0b01ff28befc3696"}, + {file = "pyarrow-14.0.2-cp311-cp311-manylinux_2_28_aarch64.whl", hash = "sha256:6dd4f4b472ccf4042f1eab77e6c8bce574543f54d2135c7e396f413046397d5a"}, + {file = "pyarrow-14.0.2-cp311-cp311-manylinux_2_28_x86_64.whl", hash = "sha256:32356bfb58b36059773f49e4e214996888eeea3a08893e7dbde44753799b2a02"}, + {file = "pyarrow-14.0.2-cp311-cp311-win_amd64.whl", hash = "sha256:52809ee69d4dbf2241c0e4366d949ba035cbcf48409bf404f071f624ed313a2b"}, + {file = "pyarrow-14.0.2-cp312-cp312-macosx_10_14_x86_64.whl", hash = "sha256:c87824a5ac52be210d32906c715f4ed7053d0180c1060ae3ff9b7e560f53f944"}, + {file = "pyarrow-14.0.2-cp312-cp312-macosx_11_0_arm64.whl", hash = "sha256:a25eb2421a58e861f6ca91f43339d215476f4fe159eca603c55950c14f378cc5"}, + {file = "pyarrow-14.0.2-cp312-cp312-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:5c1da70d668af5620b8ba0a23f229030a4cd6c5f24a616a146f30d2386fec422"}, + {file = "pyarrow-14.0.2-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:2cc61593c8e66194c7cdfae594503e91b926a228fba40b5cf25cc593563bcd07"}, + {file = "pyarrow-14.0.2-cp312-cp312-manylinux_2_28_aarch64.whl", hash = "sha256:78ea56f62fb7c0ae8ecb9afdd7893e3a7dbeb0b04106f5c08dbb23f9c0157591"}, + {file = "pyarrow-14.0.2-cp312-cp312-manylinux_2_28_x86_64.whl", hash = "sha256:37c233ddbce0c67a76c0985612fef27c0c92aef9413cf5aa56952f359fcb7379"}, + {file = "pyarrow-14.0.2-cp312-cp312-win_amd64.whl", hash = "sha256:e4b123ad0f6add92de898214d404e488167b87b5dd86e9a434126bc2b7a5578d"}, + {file = "pyarrow-14.0.2-cp38-cp38-macosx_10_14_x86_64.whl", hash = "sha256:e354fba8490de258be7687f341bc04aba181fc8aa1f71e4584f9890d9cb2dec2"}, + {file = "pyarrow-14.0.2-cp38-cp38-macosx_11_0_arm64.whl", hash = "sha256:20e003a23a13da963f43e2b432483fdd8c38dc8882cd145f09f21792e1cf22a1"}, + {file = "pyarrow-14.0.2-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:fc0de7575e841f1595ac07e5bc631084fd06ca8b03c0f2ecece733d23cd5102a"}, + {file = "pyarrow-14.0.2-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:66e986dc859712acb0bd45601229021f3ffcdfc49044b64c6d071aaf4fa49e98"}, + {file = "pyarrow-14.0.2-cp38-cp38-manylinux_2_28_aarch64.whl", hash = "sha256:f7d029f20ef56673a9730766023459ece397a05001f4e4d13805111d7c2108c0"}, + {file = "pyarrow-14.0.2-cp38-cp38-manylinux_2_28_x86_64.whl", hash = "sha256:209bac546942b0d8edc8debda248364f7f668e4aad4741bae58e67d40e5fcf75"}, + {file = "pyarrow-14.0.2-cp38-cp38-win_amd64.whl", hash = "sha256:1e6987c5274fb87d66bb36816afb6f65707546b3c45c44c28e3c4133c010a881"}, + {file = "pyarrow-14.0.2-cp39-cp39-macosx_10_14_x86_64.whl", hash = "sha256:a01d0052d2a294a5f56cc1862933014e696aa08cc7b620e8c0cce5a5d362e976"}, + {file = "pyarrow-14.0.2-cp39-cp39-macosx_11_0_arm64.whl", hash = "sha256:a51fee3a7db4d37f8cda3ea96f32530620d43b0489d169b285d774da48ca9785"}, + {file = "pyarrow-14.0.2-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:64df2bf1ef2ef14cee531e2dfe03dd924017650ffaa6f9513d7a1bb291e59c15"}, + {file = "pyarrow-14.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:3c0fa3bfdb0305ffe09810f9d3e2e50a2787e3a07063001dcd7adae0cee3601a"}, + {file = "pyarrow-14.0.2-cp39-cp39-manylinux_2_28_aarch64.whl", hash = "sha256:c65bf4fd06584f058420238bc47a316e80dda01ec0dfb3044594128a6c2db794"}, + {file = "pyarrow-14.0.2-cp39-cp39-manylinux_2_28_x86_64.whl", hash = "sha256:63ac901baec9369d6aae1cbe6cca11178fb018a8d45068aaf5bb54f94804a866"}, + {file = "pyarrow-14.0.2-cp39-cp39-win_amd64.whl", hash = "sha256:75ee0efe7a87a687ae303d63037d08a48ef9ea0127064df18267252cfe2e9541"}, + {file = "pyarrow-14.0.2.tar.gz", hash = "sha256:36cef6ba12b499d864d1def3e990f97949e0b79400d08b7cf74504ffbd3eb025"}, +] + +[package.dependencies] +numpy = ">=1.16.6" + [[package]] name = "pycodestyle" version = "2.11.0" @@ -1207,17 +1236,6 @@ docs = ["Jinja2 (==3.0.3)", "Sphinx (==1.8.6)"] mypy = ["mypy", "types-requests"] test = ["coverage (>=5,<6)", "mock (==1.3.0)", "pytest (>=7,<8)", "pytest-mock (>=2,<3)", "pytest-xdist (>=1,<2)", "responses (==0.13.3)"] -[[package]] -name = "pytz" -version = "2023.3" -description = "World timezone definitions, modern and historical" -optional = false -python-versions = "*" -files = [ - {file = "pytz-2023.3-py2.py3-none-any.whl", hash = "sha256:a151b3abb88eda1d4e34a9814df37de2a80e301e68ba0fd856fb9b46bfbbbffb"}, - {file = "pytz-2023.3.tar.gz", hash = "sha256:1d8ce29db189191fb55338ee6d0387d82ab59f3d00eac103412d64e0ebd0c588"}, -] - [[package]] name = "pywin32-ctypes" version = "0.2.2" @@ -1241,6 +1259,7 @@ files = [ {file = "PyYAML-6.0.1-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:69b023b2b4daa7548bcfbd4aa3da05b3a74b772db9e23b982788168117739938"}, {file = "PyYAML-6.0.1-cp310-cp310-manylinux_2_17_s390x.manylinux2014_s390x.whl", hash = "sha256:81e0b275a9ecc9c0c0c07b4b90ba548307583c125f54d5b6946cfee6360c733d"}, {file = "PyYAML-6.0.1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:ba336e390cd8e4d1739f42dfe9bb83a3cc2e80f567d8805e11b46f4a943f5515"}, + {file = "PyYAML-6.0.1-cp310-cp310-musllinux_1_1_x86_64.whl", hash = "sha256:326c013efe8048858a6d312ddd31d56e468118ad4cdeda36c719bf5bb6192290"}, {file = "PyYAML-6.0.1-cp310-cp310-win32.whl", hash = "sha256:bd4af7373a854424dabd882decdc5579653d7868b8fb26dc7d0e99f823aa5924"}, {file = "PyYAML-6.0.1-cp310-cp310-win_amd64.whl", hash = "sha256:fd1592b3fdf65fff2ad0004b5e363300ef59ced41c2e6b3a99d4089fa8c5435d"}, {file = "PyYAML-6.0.1-cp311-cp311-macosx_10_9_x86_64.whl", hash = "sha256:6965a7bc3cf88e5a1c3bd2e0b5c22f8d677dc88a455344035f03399034eb3007"}, @@ -1248,8 +1267,15 @@ files = [ {file = "PyYAML-6.0.1-cp311-cp311-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:42f8152b8dbc4fe7d96729ec2b99c7097d656dc1213a3229ca5383f973a5ed6d"}, {file = "PyYAML-6.0.1-cp311-cp311-manylinux_2_17_s390x.manylinux2014_s390x.whl", hash = "sha256:062582fca9fabdd2c8b54a3ef1c978d786e0f6b3a1510e0ac93ef59e0ddae2bc"}, {file = "PyYAML-6.0.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:d2b04aac4d386b172d5b9692e2d2da8de7bfb6c387fa4f801fbf6fb2e6ba4673"}, + {file = "PyYAML-6.0.1-cp311-cp311-musllinux_1_1_x86_64.whl", hash = "sha256:e7d73685e87afe9f3b36c799222440d6cf362062f78be1013661b00c5c6f678b"}, {file = "PyYAML-6.0.1-cp311-cp311-win32.whl", hash = "sha256:1635fd110e8d85d55237ab316b5b011de701ea0f29d07611174a1b42f1444741"}, {file = "PyYAML-6.0.1-cp311-cp311-win_amd64.whl", hash = "sha256:bf07ee2fef7014951eeb99f56f39c9bb4af143d8aa3c21b1677805985307da34"}, + {file = "PyYAML-6.0.1-cp312-cp312-macosx_10_9_x86_64.whl", hash = "sha256:855fb52b0dc35af121542a76b9a84f8d1cd886ea97c84703eaa6d88e37a2ad28"}, + {file = "PyYAML-6.0.1-cp312-cp312-macosx_11_0_arm64.whl", hash = "sha256:40df9b996c2b73138957fe23a16a4f0ba614f4c0efce1e9406a184b6d07fa3a9"}, + {file = "PyYAML-6.0.1-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:6c22bec3fbe2524cde73d7ada88f6566758a8f7227bfbf93a408a9d86bcc12a0"}, + {file = "PyYAML-6.0.1-cp312-cp312-musllinux_1_1_x86_64.whl", hash = "sha256:8d4e9c88387b0f5c7d5f281e55304de64cf7f9c0021a3525bd3b1c542da3b0e4"}, + {file = "PyYAML-6.0.1-cp312-cp312-win32.whl", hash = "sha256:d483d2cdf104e7c9fa60c544d92981f12ad66a457afae824d146093b8c294c54"}, + {file = "PyYAML-6.0.1-cp312-cp312-win_amd64.whl", hash = "sha256:0d3304d8c0adc42be59c5f8a4d9e3d7379e6955ad754aa9d6ab7a398b59dd1df"}, {file = "PyYAML-6.0.1-cp36-cp36m-macosx_10_9_x86_64.whl", hash = "sha256:50550eb667afee136e9a77d6dc71ae76a44df8b3e51e41b77f6de2932bfe0f47"}, {file = "PyYAML-6.0.1-cp36-cp36m-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:1fe35611261b29bd1de0070f0b2f47cb6ff71fa6595c077e42bd0c419fa27b98"}, {file = "PyYAML-6.0.1-cp36-cp36m-manylinux_2_17_s390x.manylinux2014_s390x.whl", hash = "sha256:704219a11b772aea0d8ecd7058d0082713c3562b4e271b849ad7dc4a5c90c13c"}, @@ -1266,6 +1292,7 @@ files = [ {file = "PyYAML-6.0.1-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:a0cd17c15d3bb3fa06978b4e8958dcdc6e0174ccea823003a106c7d4d7899ac5"}, {file = "PyYAML-6.0.1-cp38-cp38-manylinux_2_17_s390x.manylinux2014_s390x.whl", hash = "sha256:28c119d996beec18c05208a8bd78cbe4007878c6dd15091efb73a30e90539696"}, {file = "PyYAML-6.0.1-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:7e07cbde391ba96ab58e532ff4803f79c4129397514e1413a7dc761ccd755735"}, + {file = "PyYAML-6.0.1-cp38-cp38-musllinux_1_1_x86_64.whl", hash = "sha256:49a183be227561de579b4a36efbb21b3eab9651dd81b1858589f796549873dd6"}, {file = "PyYAML-6.0.1-cp38-cp38-win32.whl", hash = "sha256:184c5108a2aca3c5b3d3bf9395d50893a7ab82a38004c8f61c258d4428e80206"}, {file = "PyYAML-6.0.1-cp38-cp38-win_amd64.whl", hash = "sha256:1e2722cc9fbb45d9b87631ac70924c11d3a401b2d7f410cc0e3bbf249f2dca62"}, {file = "PyYAML-6.0.1-cp39-cp39-macosx_10_9_x86_64.whl", hash = "sha256:9eb6caa9a297fc2c2fb8862bc5370d0303ddba53ba97e71f08023b6cd73d16a8"}, @@ -1273,6 +1300,7 @@ files = [ {file = "PyYAML-6.0.1-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:5773183b6446b2c99bb77e77595dd486303b4faab2b086e7b17bc6bef28865f6"}, {file = "PyYAML-6.0.1-cp39-cp39-manylinux_2_17_s390x.manylinux2014_s390x.whl", hash = "sha256:b786eecbdf8499b9ca1d697215862083bd6d2a99965554781d0d8d1ad31e13a0"}, {file = "PyYAML-6.0.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:bc1bf2925a1ecd43da378f4db9e4f799775d6367bdb94671027b73b393a7c42c"}, + {file = "PyYAML-6.0.1-cp39-cp39-musllinux_1_1_x86_64.whl", hash = "sha256:04ac92ad1925b2cff1db0cfebffb6ffc43457495c9b3c39d3fcae417d7125dc5"}, {file = "PyYAML-6.0.1-cp39-cp39-win32.whl", hash = "sha256:faca3bdcf85b2fc05d06ff3fbc1f83e1391b3e724afa3feba7d13eeab355484c"}, {file = "PyYAML-6.0.1-cp39-cp39-win_amd64.whl", hash = "sha256:510c9deebc5c0225e8c96813043e62b680ba2f9c50a08d3724c7f28a747d1486"}, {file = "PyYAML-6.0.1.tar.gz", hash = "sha256:bfdf460b1736c775f2ba9f6a92bca30bc2095067b8a9d77876d1fad6cc3b4a43"}, @@ -1528,17 +1556,6 @@ files = [ {file = "typing_extensions-4.7.1.tar.gz", hash = "sha256:b75ddc264f0ba5615db7ba217daeb99701ad295353c45f9e95963337ceeeffb2"}, ] -[[package]] -name = "tzdata" -version = "2023.3" -description = "Provider of IANA time zone data" -optional = false -python-versions = ">=2" -files = [ - {file = "tzdata-2023.3-py2.py3-none-any.whl", hash = "sha256:7e65763eef3120314099b6939b5546db7adce1e7d6f2e179e3df563c70511eda"}, - {file = "tzdata-2023.3.tar.gz", hash = "sha256:11ef1e08e54acb0d4f95bdb1be05da659673de4acbd21bf9c69e94cc5e907a3a"}, -] - [[package]] name = "urllib3" version = "2.0.4" @@ -1638,4 +1655,4 @@ testing = ["big-O", "jaraco.functools", "jaraco.itertools", "more-itertools", "p [metadata] lock-version = "2.0" python-versions = "^3.8" -content-hash = "e9d0af233c804d6e828561040925183cf76774c63023b3992d811ccbcd717889" +content-hash = "c07bf514e3b2fb5f4bb807630ef5cca5f93f3b3b0ef9e13b56bbdd88e8c78f46" diff --git a/pyproject.toml b/pyproject.toml index 58012af..07fa8ec 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -34,7 +34,7 @@ packages = [ python = "^3.8" colorlog = "^6.6.0" rstr = "^3.0.0" -gtfparse = "^1.2.1" +gtfparse = ">=1.2.1,<3.0.0" sortedcontainers = "^2.4.0" pytabix = "^0.1" pysam = "^0.21"