From 0e65b7af8efbaf17b9ab4e16971459b71fe9a408 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Sun, 30 Jun 2024 21:35:33 -0400
Subject: [PATCH] Support for Python 3.12

---
 poetry.lock    | 214 +++++++++++++++++++++++++++++++++++++++++++++----
 pyproject.toml |   4 +-
 2 files changed, 200 insertions(+), 18 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index bd38bb10f5..5372e0bce5 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -1,9 +1,10 @@
-# This file is automatically @generated by Poetry 1.8.3 and should not be changed by hand.
+# This file is automatically @generated by Poetry 1.4.2 and should not be changed by hand.
 
 [[package]]
 name = "apipkg"
 version = "3.0.2"
 description = "apipkg: namespace control and lazy-import mechanism"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -15,6 +16,7 @@ files = [
 name = "appdirs"
 version = "1.4.4"
 description = "A small Python module for determining appropriate platform-specific dirs, e.g. a \"user data dir\"."
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -26,6 +28,7 @@ files = [
 name = "arrow"
 version = "1.3.0"
 description = "Better dates & times for Python"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -39,12 +42,13 @@ 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.*)", "pre-commit", "pytest", "pytest-cov", "pytest-mock", "pytz (==2021.1)", "simplejson (==3.*)"]
+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 = "async-timeout"
 version = "4.0.3"
 description = "Timeout context manager for asyncio programs"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -56,6 +60,7 @@ files = [
 name = "attrs"
 version = "23.2.0"
 description = "Classes Without Boilerplate"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -75,6 +80,7 @@ tests-no-zope = ["attrs[tests-mypy]", "cloudpickle", "hypothesis", "pympler", "p
 name = "aws-requests-auth"
 version = "0.4.3"
 description = "AWS signature version 4 signing process for the python requests module"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -89,6 +95,7 @@ requests = ">=0.14.0"
 name = "awscli"
 version = "1.33.18"
 description = "Universal Command Line Environment for AWS."
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -108,6 +115,7 @@ s3transfer = ">=0.10.0,<0.11.0"
 name = "beautifulsoup4"
 version = "4.12.3"
 description = "Screen-scraping library"
+category = "main"
 optional = false
 python-versions = ">=3.6.0"
 files = [
@@ -129,6 +137,7 @@ lxml = ["lxml"]
 name = "bitarray"
 version = "2.9.2"
 description = "efficient arrays of booleans -- C extension"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -260,6 +269,7 @@ files = [
 name = "boto3"
 version = "1.34.136"
 description = "The AWS SDK for Python"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -279,6 +289,7 @@ crt = ["botocore[crt] (>=1.21.0,<2.0a0)"]
 name = "boto3-stubs"
 version = "1.34.136"
 description = "Type annotations for boto3 1.34.136 generated with mypy-boto3-builder 7.24.0"
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -685,6 +696,7 @@ xray = ["mypy-boto3-xray (>=1.34.0,<1.35.0)"]
 name = "botocore"
 version = "1.34.136"
 description = "Low-level, data-driven core of boto 3."
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -707,6 +719,7 @@ crt = ["awscrt (==0.20.11)"]
 name = "botocore-stubs"
 version = "1.34.136"
 description = "Type annotations and code completion for botocore"
+category = "dev"
 optional = false
 python-versions = "<4.0,>=3.8"
 files = [
@@ -724,6 +737,7 @@ botocore = ["botocore"]
 name = "certifi"
 version = "2024.6.2"
 description = "Python package for providing Mozilla's CA Bundle."
+category = "main"
 optional = false
 python-versions = ">=3.6"
 files = [
@@ -735,6 +749,7 @@ files = [
 name = "cffi"
 version = "1.16.0"
 description = "Foreign Function Interface for Python calling C code."
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -799,6 +814,7 @@ pycparser = "*"
 name = "chardet"
 version = "5.2.0"
 description = "Universal encoding detector for Python 3"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -810,6 +826,7 @@ files = [
 name = "charset-normalizer"
 version = "3.3.2"
 description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet."
+category = "main"
 optional = false
 python-versions = ">=3.7.0"
 files = [
@@ -909,6 +926,7 @@ files = [
 name = "click"
 version = "8.1.7"
 description = "Composable command line interface toolkit"
+category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -923,6 +941,7 @@ colorama = {version = "*", markers = "platform_system == \"Windows\""}
 name = "codacy-coverage"
 version = "1.3.11"
 description = "Codacy coverage reporter for Python"
+category = "dev"
 optional = false
 python-versions = "*"
 files = [
@@ -941,6 +960,7 @@ test = ["coverage", "nosetests"]
 name = "codeguru-profiler-agent"
 version = "1.2.5"
 description = "The Python agent to be used for Amazon CodeGuru Profiler"
+category = "main"
 optional = false
 python-versions = ">=3.6"
 files = [
@@ -955,6 +975,7 @@ boto3 = ">=1.14.0"
 name = "colorama"
 version = "0.3.3"
 description = "Cross-platform colored terminal text."
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -965,6 +986,7 @@ files = [
 name = "contourpy"
 version = "1.2.1"
 description = "Python library for calculating contours of 2D quadrilateral grids"
+category = "main"
 optional = false
 python-versions = ">=3.9"
 files = [
@@ -1028,6 +1050,7 @@ test-no-images = ["pytest", "pytest-cov", "pytest-xdist", "wurlitzer"]
 name = "coverage"
 version = "7.5.4"
 description = "Code coverage measurement for Python"
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -1095,6 +1118,7 @@ toml = ["tomli"]
 name = "coveralls"
 version = "4.0.1"
 description = "Show coverage stats online via coveralls.io"
+category = "dev"
 optional = false
 python-versions = "<3.13,>=3.8"
 files = [
@@ -1103,7 +1127,7 @@ files = [
 ]
 
 [package.dependencies]
-coverage = {version = ">=5.0,<6.0.dev0 || >6.1,<6.1.1 || >6.1.1,<8.0", extras = ["toml"]}
+coverage = {version = ">=5.0,<6.0.0 || >6.1,<6.1.1 || >6.1.1,<8.0", extras = ["toml"]}
 docopt = ">=0.6.1,<0.7.0"
 requests = ">=1.0.0,<3.0.0"
 
@@ -1114,6 +1138,7 @@ yaml = ["pyyaml (>=3.10,<7.0)"]
 name = "cryptography"
 version = "39.0.2"
 description = "cryptography is a package which provides cryptographic recipes and primitives to Python developers."
+category = "main"
 optional = false
 python-versions = ">=3.6"
 files = [
@@ -1159,6 +1184,7 @@ tox = ["tox"]
 name = "cycler"
 version = "0.12.1"
 description = "Composable style cycles"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -1174,6 +1200,7 @@ tests = ["pytest", "pytest-cov", "pytest-xdist"]
 name = "cython"
 version = "3.0.10"
 description = "The Cython compiler for writing C extensions in the Python language."
+category = "main"
 optional = false
 python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,>=2.7"
 files = [
@@ -1241,6 +1268,7 @@ files = [
 name = "dcicpyvcf"
 version = "3.0.0.1b7"
 description = "Variant Call Format (VCF) parser for Python"
+category = "main"
 optional = false
 python-versions = "<3.13,>=3.8.0"
 files = [
@@ -1255,20 +1283,21 @@ setuptools = "*"
 
 [[package]]
 name = "dcicsnovault"
-version = "11.16.0.1b6"
+version = "11.17.0.1b3"
 description = "Storage support for 4DN Data Portals."
+category = "main"
 optional = false
 python-versions = "<3.13,>=3.9"
 files = [
-    {file = "dcicsnovault-11.16.0.1b6-py3-none-any.whl", hash = "sha256:71a502ec455c1c74188edca87802c4accb9a66f17a06fa229930281a1e967967"},
-    {file = "dcicsnovault-11.16.0.1b6.tar.gz", hash = "sha256:a4e843323f0560a8ffb87d1e6ec2c9a292cafa2bc3584bbc7669fe2e137663c4"},
+    {file = "dcicsnovault-11.17.0.1b3-py3-none-any.whl", hash = "sha256:94bc5367fe8cc75f6928020d413648740ed2ddf3d0c825c6e0c34f39d36dcfcd"},
+    {file = "dcicsnovault-11.17.0.1b3.tar.gz", hash = "sha256:c655cb7d8ed9b16ba48ab1e0c5a6b1cd2913705023f1f6b4e967131cb1805150"},
 ]
 
 [package.dependencies]
 aws_requests_auth = ">=0.4.1,<0.5.0"
 boto3 = ">=1.34.136,<2.0.0"
 botocore = ">=1.34.136,<2.0.0"
-dcicutils = "8.12.0.1b6"
+dcicutils = "8.12.0.1b8"
 elasticsearch = "7.13.4"
 elasticsearch_dsl = ">=7.4.0,<8.0.0"
 future = ">=0.15.2,<1"
@@ -1313,26 +1342,27 @@ xlrd = ">=1.0.0,<2.0.0"
 
 [[package]]
 name = "dcicutils"
-version = "8.12.0.1b6"
+version = "8.12.0.1b8"
 description = "Utility package for interacting with the 4DN Data Portal and other 4DN resources"
+category = "main"
 optional = false
 python-versions = "<3.13,>=3.8.1"
 files = [
-    {file = "dcicutils-8.12.0.1b6-py3-none-any.whl", hash = "sha256:99411d522326bc0777f7a980c5713bcb4f15a9ef17b4e36c4de3fbdd7405426f"},
-    {file = "dcicutils-8.12.0.1b6.tar.gz", hash = "sha256:4b98e75e05a9776159a90dab36e19bd6aa3543b0baa45013a323c855b83e854c"},
+    {file = "dcicutils-8.12.0.1b8-py3-none-any.whl", hash = "sha256:1d0f2f9fbadfdad5436d035666ede5a9b94da39eb80e95c4649af6a0ccb3386c"},
+    {file = "dcicutils-8.12.0.1b8.tar.gz", hash = "sha256:e821286530759ed0fc3332602e716d00d269e97623e77944356784231a89ee9f"},
 ]
 
 [package.dependencies]
 appdirs = ">=1.4.4,<2.0.0"
 aws-requests-auth = ">=0.4.2,<1"
-boto3 = ">=1.34.93,<2.0.0"
-botocore = ">=1.34.93,<2.0.0"
+boto3 = ">=1.34.136,<2.0.0"
+botocore = ">=1.34.136,<2.0.0"
 chardet = ">=5.2.0,<6.0.0"
 docker = ">=4.4.4,<5.0.0"
 elasticsearch = "7.13.4"
 gitpython = ">=3.1.2,<4.0.0"
 jsonc-parser = ">=1.1.5,<2.0.0"
-jsonschema = ">=4.19.0,<5.0.0"
+jsonschema = ">=4.22.0,<5.0.0"
 openpyxl = ">=3.1.2,<4.0.0"
 opensearch-py = ">=2.0.1,<3.0.0"
 PyJWT = ">=2.6.0,<3.0.0"
@@ -1349,13 +1379,14 @@ structlog = ">=19.2.0,<20.0.0"
 toml = ">=0.10.1,<1"
 tqdm = ">=4.66.2,<5.0.0"
 typing-extensions = ">=3.8"
-urllib3 = ">=1.26.6,<2.0.0"
+urllib3 = ">=1.26.19,<2.0.0"
 webtest = ">=2.0.34,<3.0.0"
 
 [[package]]
 name = "docker"
 version = "4.4.4"
 description = "A Python library for the Docker Engine API."
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 files = [
@@ -1377,6 +1408,7 @@ tls = ["cryptography (>=1.3.4)", "idna (>=2.0.0)", "pyOpenSSL (>=17.5.0)"]
 name = "docopt"
 version = "0.6.2"
 description = "Pythonic argument parser, that will make you smile"
+category = "dev"
 optional = false
 python-versions = "*"
 files = [
@@ -1387,6 +1419,7 @@ files = [
 name = "docutils"
 version = "0.16"
 description = "Docutils -- Python Documentation Utilities"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 files = [
@@ -1398,6 +1431,7 @@ files = [
 name = "elasticsearch"
 version = "7.13.4"
 description = "Python client for Elasticsearch"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, <4"
 files = [
@@ -1419,6 +1453,7 @@ requests = ["requests (>=2.4.0,<3.0.0)"]
 name = "elasticsearch-dsl"
 version = "7.4.1"
 description = "Python client for Elasticsearch"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 files = [
@@ -1438,6 +1473,7 @@ develop = ["coverage (<5.0.0)", "mock", "pytest (>=3.0.0)", "pytest-cov", "pytes
 name = "et-xmlfile"
 version = "1.1.0"
 description = "An implementation of lxml.xmlfile for the standard library"
+category = "main"
 optional = false
 python-versions = ">=3.6"
 files = [
@@ -1449,6 +1485,7 @@ files = [
 name = "events"
 version = "0.5"
 description = "Bringing the elegance of C# EventHandler to Python"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -1459,6 +1496,7 @@ files = [
 name = "exceptiongroup"
 version = "1.2.1"
 description = "Backport of PEP 654 (exception groups)"
+category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1473,6 +1511,7 @@ test = ["pytest (>=6)"]
 name = "execnet"
 version = "1.4.1"
 description = "execnet: rapid multi-Python deployment"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -1487,6 +1526,7 @@ apipkg = ">=1.4"
 name = "flake8"
 version = "7.1.0"
 description = "the modular source code checker: pep8 pyflakes and co"
+category = "dev"
 optional = false
 python-versions = ">=3.8.1"
 files = [
@@ -1503,6 +1543,7 @@ pyflakes = ">=3.2.0,<3.3.0"
 name = "flaky"
 version = "3.8.1"
 description = "Plugin for pytest that automatically reruns flaky tests."
+category = "dev"
 optional = false
 python-versions = ">=3.5"
 files = [
@@ -1514,6 +1555,7 @@ files = [
 name = "flask"
 version = "2.1.3"
 description = "A simple framework for building complex web applications."
+category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1536,6 +1578,7 @@ dotenv = ["python-dotenv"]
 name = "fonttools"
 version = "4.53.0"
 description = "Tools to manipulate font files"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -1601,6 +1644,7 @@ woff = ["brotli (>=1.0.1)", "brotlicffi (>=0.8.0)", "zopfli (>=0.1.4)"]
 name = "fqdn"
 version = "1.5.1"
 description = "Validates fully-qualified domain names against RFC 1123, so that they are acceptable to modern bowsers"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0, !=3.1, !=3.2, !=3.3, !=3.4, <4"
 files = [
@@ -1612,6 +1656,7 @@ files = [
 name = "future"
 version = "0.18.3"
 description = "Clean single-source support for Python 3 and 2"
+category = "main"
 optional = false
 python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*"
 files = [
@@ -1622,6 +1667,7 @@ files = [
 name = "gitdb"
 version = "4.0.11"
 description = "Git Object Database"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1636,6 +1682,7 @@ smmap = ">=3.0.1,<6"
 name = "gitpython"
 version = "3.1.43"
 description = "GitPython is a Python library used to interact with Git repositories"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1654,6 +1701,7 @@ test = ["coverage[toml]", "ddt (>=1.1.1,!=1.4.3)", "mock", "mypy", "pre-commit",
 name = "granite-suite"
 version = "0.2.0.1b4"
 description = "granite is a collection of software to call, filter and work with genomic variants."
+category = "main"
 optional = false
 python-versions = "<4.0,>=3.9"
 files = [
@@ -1673,6 +1721,7 @@ pytabix = ">=0.1,<0.2"
 name = "greenlet"
 version = "3.0.3"
 description = "Lightweight in-process concurrent programming"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1744,6 +1793,7 @@ test = ["objgraph", "psutil"]
 name = "h5py"
 version = "3.11.0"
 description = "Read and write HDF5 files from Python"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -1777,6 +1827,7 @@ numpy = ">=1.17.3"
 name = "html5lib"
 version = "1.1"
 description = "HTML parser based on the WHATWG HTML specification"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 files = [
@@ -1798,6 +1849,7 @@ lxml = ["lxml"]
 name = "humanfriendly"
 version = "1.44.9"
 description = "Human friendly output for text interfaces using Python"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -1809,6 +1861,7 @@ files = [
 name = "hupper"
 version = "1.5"
 description = "Integrated process monitor for developing and reloading daemons."
+category = "main"
 optional = false
 python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*"
 files = [
@@ -1824,6 +1877,7 @@ testing = ["mock", "pytest", "pytest-cov", "watchdog"]
 name = "idna"
 version = "2.10"
 description = "Internationalized Domain Names in Applications (IDNA)"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 files = [
@@ -1835,6 +1889,7 @@ files = [
 name = "importlib-metadata"
 version = "8.0.0"
 description = "Read metadata from Python packages"
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -1854,6 +1909,7 @@ test = ["flufl.flake8", "importlib-resources (>=1.3)", "jaraco.test (>=5.4)", "p
 name = "importlib-resources"
 version = "6.4.0"
 description = "Read resources from Python packages"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -1872,6 +1928,7 @@ testing = ["jaraco.test (>=5.4)", "pytest (>=6)", "pytest-checkdocs (>=2.4)", "p
 name = "iniconfig"
 version = "2.0.0"
 description = "brain-dead simple config-ini parsing"
+category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1883,6 +1940,7 @@ files = [
 name = "isodate"
 version = "0.6.1"
 description = "An ISO 8601 date/time/duration parser and formatter"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -1897,6 +1955,7 @@ six = "*"
 name = "isoduration"
 version = "20.11.0"
 description = "Operations with ISO 8601 durations"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1911,6 +1970,7 @@ arrow = ">=0.15.0"
 name = "itsdangerous"
 version = "2.2.0"
 description = "Safely pass data to untrusted environments and back."
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -1922,6 +1982,7 @@ files = [
 name = "jinja2"
 version = "3.1.4"
 description = "A very fast and expressive template engine."
+category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1939,6 +2000,7 @@ i18n = ["Babel (>=2.7)"]
 name = "jmespath"
 version = "0.10.0"
 description = "JSON Matching Expressions"
+category = "main"
 optional = false
 python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*"
 files = [
@@ -1950,6 +2012,7 @@ files = [
 name = "joblib"
 version = "1.4.2"
 description = "Lightweight pipelining with Python functions"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -1961,6 +2024,7 @@ files = [
 name = "jsonc-parser"
 version = "1.1.5"
 description = "A lightweight, native tool for parsing .jsonc files"
+category = "main"
 optional = false
 python-versions = ">=3.5"
 files = [
@@ -1972,6 +2036,7 @@ files = [
 name = "jsonpointer"
 version = "3.0.0"
 description = "Identify specific nodes in a JSON document (RFC 6901)"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1983,6 +2048,7 @@ files = [
 name = "jsonschema"
 version = "4.22.0"
 description = "An implementation of JSON Schema validation for Python"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -2012,6 +2078,7 @@ format-nongpl = ["fqdn", "idna", "isoduration", "jsonpointer (>1.13)", "rfc3339-
 name = "jsonschema-specifications"
 version = "2023.12.1"
 description = "The JSON Schema meta-schemas and vocabularies, exposed as a Registry"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -2026,6 +2093,7 @@ referencing = ">=0.31.0"
 name = "kiwisolver"
 version = "1.4.5"
 description = "A fast implementation of the Cassowary constraint solver"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -2139,6 +2207,7 @@ files = [
 name = "markupsafe"
 version = "2.1.5"
 description = "Safely add untrusted strings to HTML/XML markup."
+category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -2208,6 +2277,7 @@ files = [
 name = "matplotlib"
 version = "3.9.0"
 description = "Python plotting package"
+category = "main"
 optional = false
 python-versions = ">=3.9"
 files = [
@@ -2261,6 +2331,7 @@ dev = ["meson-python (>=0.13.1)", "numpy (>=1.25)", "pybind11 (>=2.6)", "setupto
 name = "mccabe"
 version = "0.7.0"
 description = "McCabe checker, plugin for flake8"
+category = "dev"
 optional = false
 python-versions = ">=3.6"
 files = [
@@ -2272,6 +2343,7 @@ files = [
 name = "moto"
 version = "4.0.3"
 description = "A library that allows your python tests to easily mock out the boto library"
+category = "dev"
 optional = false
 python-versions = ">=3.6"
 files = [
@@ -2320,6 +2392,7 @@ xray = ["aws-xray-sdk (>=0.93,!=0.96)", "setuptools"]
 name = "negspy"
 version = "0.2.24"
 description = "Python NGS tools"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -2330,6 +2403,7 @@ files = [
 name = "netaddr"
 version = "0.10.1"
 description = "A network address manipulation library for Python"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -2341,6 +2415,7 @@ files = [
 name = "numpy"
 version = "1.26.4"
 description = "Fundamental package for array computing in Python"
+category = "main"
 optional = false
 python-versions = ">=3.9"
 files = [
@@ -2386,6 +2461,7 @@ files = [
 name = "openpyxl"
 version = "3.1.5"
 description = "A Python library to read/write Excel 2010 xlsx/xlsm files"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -2400,6 +2476,7 @@ et-xmlfile = "*"
 name = "opensearch-py"
 version = "2.6.0"
 description = "Python client for OpenSearch"
+category = "main"
 optional = false
 python-versions = "<4,>=3.8"
 files = [
@@ -2428,6 +2505,7 @@ kerberos = ["requests-kerberos"]
 name = "packaging"
 version = "24.1"
 description = "Core utilities for Python packages"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -2439,6 +2517,7 @@ files = [
 name = "pandas"
 version = "2.2.2"
 description = "Powerful data structures for data analysis, time series, and statistics"
+category = "main"
 optional = false
 python-versions = ">=3.9"
 files = [
@@ -2512,6 +2591,7 @@ xml = ["lxml (>=4.9.2)"]
 name = "passlib"
 version = "1.7.4"
 description = "comprehensive password hashing framework supporting over 30 schemes"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -2529,6 +2609,7 @@ totp = ["cryptography"]
 name = "pastedeploy"
 version = "1.5.2"
 description = "Load, configure, and compose WSGI applications and servers"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -2543,6 +2624,7 @@ paste = ["Paste"]
 name = "patsy"
 version = "0.5.6"
 description = "A Python package for describing statistical models and for building design matrices."
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -2561,6 +2643,7 @@ test = ["pytest", "pytest-cov", "scipy"]
 name = "pbkdf2"
 version = "1.3"
 description = "PKCS#5 v2.0 PBKDF2 Module"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -2571,6 +2654,7 @@ files = [
 name = "pillow"
 version = "9.5.0"
 description = "Python Imaging Library (Fork)"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -2650,6 +2734,7 @@ tests = ["check-manifest", "coverage", "defusedxml", "markdown2", "olefile", "pa
 name = "pip"
 version = "24.1.1"
 description = "The PyPA recommended tool for installing Python packages."
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -2661,6 +2746,7 @@ files = [
 name = "pip-licenses"
 version = "3.5.5"
 description = "Dump the software license list of Python packages installed with pip."
+category = "dev"
 optional = false
 python-versions = "~=3.7"
 files = [
@@ -2678,6 +2764,7 @@ test = ["docutils", "pytest-cov", "pytest-pycodestyle", "pytest-runner"]
 name = "pipdeptree"
 version = "2.23.0"
 description = "Command line utility to show dependency tree of packages."
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -2697,6 +2784,7 @@ test = ["covdefaults (>=2.3)", "diff-cover (>=8.0.1)", "pytest (>=7.4.3)", "pyte
 name = "plaster"
 version = "1.0"
 description = "A loader interface around multiple config file formats."
+category = "main"
 optional = false
 python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*"
 files = [
@@ -2715,6 +2803,7 @@ testing = ["pytest", "pytest-cov"]
 name = "plaster-pastedeploy"
 version = "0.6"
 description = "A loader implementing the PasteDeploy syntax to be used by plaster."
+category = "main"
 optional = false
 python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*"
 files = [
@@ -2733,6 +2822,7 @@ testing = ["pytest", "pytest-cov"]
 name = "pluggy"
 version = "1.5.0"
 description = "plugin and hook calling mechanisms for python"
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -2748,6 +2838,7 @@ testing = ["pytest", "pytest-benchmark"]
 name = "pmdarima"
 version = "2.0.4"
 description = "Python's forecast::auto.arima equivalent"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -2799,6 +2890,7 @@ urllib3 = "*"
 name = "psutil"
 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.*, !=3.4.*, !=3.5.*"
 files = [
@@ -2827,6 +2919,7 @@ test = ["enum34", "ipaddress", "mock", "pywin32", "wmi"]
 name = "psycopg2"
 version = "2.9.9"
 description = "psycopg2 - Python-PostgreSQL Database Adapter"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -2849,6 +2942,7 @@ files = [
 name = "psycopg2-binary"
 version = "2.9.9"
 description = "psycopg2 - Python-PostgreSQL Database Adapter"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -2930,6 +3024,7 @@ files = [
 name = "ptable"
 version = "0.9.2"
 description = "A simple Python library for easily displaying tabular data in a visually appealing ASCII table format"
+category = "dev"
 optional = false
 python-versions = "*"
 files = [
@@ -2940,6 +3035,7 @@ files = [
 name = "py"
 version = "1.11.0"
 description = "library with cross-python path, ini-parsing, io, code, log facilities"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 files = [
@@ -2951,6 +3047,7 @@ files = [
 name = "pyasn1"
 version = "0.1.9"
 description = "ASN.1 types and codecs"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -2962,6 +3059,7 @@ files = [
 name = "pybrowserid"
 version = "0.14.0"
 description = "Python library for the BrowserID Protocol"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -2976,6 +3074,7 @@ requests = "*"
 name = "pycodestyle"
 version = "2.12.0"
 description = "Python style guide checker"
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -2987,6 +3086,7 @@ files = [
 name = "pycparser"
 version = "2.14"
 description = "C parser in Python"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -2997,6 +3097,7 @@ files = [
 name = "pyflakes"
 version = "3.2.0"
 description = "passive checker of Python programs"
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -3008,6 +3109,7 @@ files = [
 name = "pyjwt"
 version = "2.8.0"
 description = "JSON Web Token implementation in Python"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -3025,6 +3127,7 @@ tests = ["coverage[toml] (==5.0.4)", "pytest (>=6.0.0,<7.0.0)"]
 name = "pyopenssl"
 version = "23.2.0"
 description = "Python wrapper module around the OpenSSL library"
+category = "main"
 optional = false
 python-versions = ">=3.6"
 files = [
@@ -3043,6 +3146,7 @@ test = ["flaky", "pretend", "pytest (>=3.0.1)"]
 name = "pyparsing"
 version = "3.1.2"
 description = "pyparsing module - Classes and methods to define and execute parsing grammars"
+category = "main"
 optional = false
 python-versions = ">=3.6.8"
 files = [
@@ -3057,6 +3161,7 @@ diagrams = ["jinja2", "railroad-diagrams"]
 name = "pyperclip"
 version = "1.9.0"
 description = "A cross-platform clipboard module for Python. (Only handles plain text for now.)"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3067,6 +3172,7 @@ files = [
 name = "pyramid"
 version = "1.10.8"
 description = "The Pyramid Web Framework, a Pylons project"
+category = "main"
 optional = false
 python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*"
 files = [
@@ -3093,6 +3199,7 @@ testing = ["coverage", "nose", "virtualenv", "webtest (>=1.3.1)", "zope.componen
 name = "pyramid-multiauth"
 version = "0.9.0"
 description = "pyramid_multiauth"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3107,6 +3214,7 @@ pyramid = "*"
 name = "pyramid-retry"
 version = "1.0"
 description = "An execution policy for Pyramid that supports retrying requests after certain failure exceptions."
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3126,6 +3234,7 @@ testing = ["WebTest", "pytest", "pytest-cov"]
 name = "pyramid-tm"
 version = "2.5"
 description = "A package which allows Pyramid requests to join the active transaction"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -3145,6 +3254,7 @@ testing = ["WebTest", "coverage (>=5.0)", "pytest", "pytest-cov"]
 name = "pyramid-translogger"
 version = "0.1"
 description = "access log logger tween (almost stolen from Paste.translogger)"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3158,6 +3268,7 @@ setuptools = "*"
 name = "pysam"
 version = "0.22.1"
 description = "Package for reading, manipulating, and writing genomic data"
+category = "main"
 optional = false
 python-versions = ">=3.6"
 files = [
@@ -3194,6 +3305,7 @@ files = [
 name = "pytabix"
 version = "0.1"
 description = "Python interface for tabix"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3204,6 +3316,7 @@ files = [
 name = "pytest"
 version = "8.2.2"
 description = "pytest: simple powerful testing with Python"
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -3226,6 +3339,7 @@ dev = ["argcomplete", "attrs (>=19.2)", "hypothesis (>=3.56)", "mock", "pygments
 name = "pytest-cov"
 version = "5.0.0"
 description = "Pytest plugin for measuring coverage."
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -3244,6 +3358,7 @@ testing = ["fields", "hunter", "process-tests", "pytest-xdist", "virtualenv"]
 name = "pytest-instafail"
 version = "0.5.0"
 description = "pytest plugin to show failures instantly"
+category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -3258,6 +3373,7 @@ pytest = ">=5"
 name = "pytest-mock"
 version = "3.14.0"
 description = "Thin-wrapper around the mock package for easier use with pytest"
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -3275,6 +3391,7 @@ dev = ["pre-commit", "pytest-asyncio", "tox"]
 name = "pytest-timeout"
 version = "2.3.1"
 description = "pytest plugin to abort hanging tests"
+category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -3289,6 +3406,7 @@ pytest = ">=7.0.0"
 name = "pytest-xdist"
 version = "3.1.0"
 description = "pytest xdist plugin for distributed testing, most importantly across multiple CPUs"
+category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -3309,6 +3427,7 @@ testing = ["filelock"]
 name = "python-dateutil"
 version = "2.9.0.post0"
 description = "Extensions to the standard Python datetime module"
+category = "main"
 optional = false
 python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,>=2.7"
 files = [
@@ -3323,6 +3442,7 @@ six = ">=1.5"
 name = "python-magic"
 version = "0.4.27"
 description = "File type identification using libmagic"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 files = [
@@ -3334,6 +3454,7 @@ files = [
 name = "pytz"
 version = "2024.1"
 description = "World timezone definitions, modern and historical"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3345,6 +3466,7 @@ files = [
 name = "pywin32"
 version = "227"
 description = "Python for Window Extensions"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3366,6 +3488,7 @@ files = [
 name = "pyyaml"
 version = "6.0.1"
 description = "YAML parser and emitter for Python"
+category = "main"
 optional = false
 python-versions = ">=3.6"
 files = [
@@ -3426,6 +3549,7 @@ files = [
 name = "rdflib"
 version = "4.2.2"
 description = "RDFLib is a Python library for working with RDF, a simple yet powerful language for representing information."
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3445,6 +3569,7 @@ sparql = ["SPARQLWrapper"]
 name = "rdflib-jsonld"
 version = "0.6.0"
 description = "rdflib extension adding JSON-LD parser and serializer"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3459,6 +3584,7 @@ rdflib = "*"
 name = "redis"
 version = "4.6.0"
 description = "Python client for Redis database and key-value store"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -3477,6 +3603,7 @@ ocsp = ["cryptography (>=36.0.1)", "pyopenssl (==20.0.1)", "requests (>=2.26.0)"
 name = "referencing"
 version = "0.35.1"
 description = "JSON Referencing + Python"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -3492,6 +3619,7 @@ rpds-py = ">=0.7.0"
 name = "repoze-debug"
 version = "1.1"
 description = "Forensic debugging WSGI middleware"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3510,6 +3638,7 @@ testing = ["WebOb", "coverage", "nose"]
 name = "requests"
 version = "2.32.3"
 description = "Python HTTP for Humans."
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -3531,6 +3660,7 @@ use-chardet-on-py3 = ["chardet (>=3.0.2,<6)"]
 name = "responses"
 version = "0.25.3"
 description = "A utility library for mocking out the `requests` Python library."
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -3550,6 +3680,7 @@ tests = ["coverage (>=6.0.0)", "flake8", "mypy", "pytest (>=7.0.0)", "pytest-asy
 name = "rfc3339-validator"
 version = "0.1.4"
 description = "A pure python RFC3339 validator"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 files = [
@@ -3564,6 +3695,7 @@ six = "*"
 name = "rfc3986"
 version = "1.5.0"
 description = "Validating URI References per RFC 3986"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3578,6 +3710,7 @@ idna2008 = ["idna"]
 name = "rfc3986-validator"
 version = "0.1.1"
 description = "Pure python rfc3986 validator"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 files = [
@@ -3589,6 +3722,7 @@ files = [
 name = "rpds-py"
 version = "0.18.1"
 description = "Python bindings to Rust's persistent data structures (rpds)"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -3697,6 +3831,7 @@ files = [
 name = "rsa"
 version = "3.3"
 description = "Pure-Python RSA implementation"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3711,6 +3846,7 @@ pyasn1 = ">=0.1.3"
 name = "rutter"
 version = "0.4"
 description = "Py3k-compatible fork of Paste's urlmap"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3728,6 +3864,7 @@ testing = ["WebTest", "coverage", "pytest", "pytest-cov"]
 name = "s3transfer"
 version = "0.10.2"
 description = "An Amazon S3 Transfer Manager"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -3745,6 +3882,7 @@ crt = ["botocore[crt] (>=1.33.2,<2.0a.0)"]
 name = "scikit-learn"
 version = "1.5.0"
 description = "A set of python modules for machine learning and data mining"
+category = "main"
 optional = false
 python-versions = ">=3.9"
 files = [
@@ -3790,6 +3928,7 @@ tests = ["black (>=24.3.0)", "matplotlib (>=3.3.4)", "mypy (>=1.9)", "numpydoc (
 name = "scipy"
 version = "1.13.1"
 description = "Fundamental algorithms for scientific computing in Python"
+category = "main"
 optional = false
 python-versions = ">=3.9"
 files = [
@@ -3832,6 +3971,7 @@ test = ["array-api-strict", "asv", "gmpy2", "hypothesis (>=6.30)", "mpmath", "po
 name = "sentry-sdk"
 version = "1.45.0"
 description = "Python client for Sentry (https://sentry.io)"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -3879,6 +4019,7 @@ tornado = ["tornado (>=5)"]
 name = "setuptools"
 version = "70.1.1"
 description = "Easily download, build, install, upgrade, and uninstall Python packages"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -3894,6 +4035,7 @@ testing = ["build[virtualenv] (>=1.0.3)", "filelock (>=3.4.0)", "importlib-metad
 name = "shortuuid"
 version = "1.0.13"
 description = "A generator library for concise, unambiguous and URL-safe UUIDs."
+category = "main"
 optional = false
 python-versions = ">=3.6"
 files = [
@@ -3905,6 +4047,7 @@ files = [
 name = "simplejson"
 version = "3.19.2"
 description = "Simple, fast, extensible JSON encoder/decoder for Python"
+category = "main"
 optional = false
 python-versions = ">=2.5, !=3.0.*, !=3.1.*, !=3.2.*"
 files = [
@@ -4012,6 +4155,7 @@ files = [
 name = "six"
 version = "1.16.0"
 description = "Python 2 and 3 compatibility utilities"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*"
 files = [
@@ -4023,6 +4167,7 @@ files = [
 name = "smmap"
 version = "5.0.1"
 description = "A pure Python implementation of a sliding window memory map manager"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -4034,6 +4179,7 @@ files = [
 name = "soupsieve"
 version = "2.5"
 description = "A modern CSS selector implementation for Beautiful Soup."
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -4045,6 +4191,7 @@ files = [
 name = "sparqlwrapper"
 version = "1.8.5"
 description = "SPARQL Endpoint interface to Python"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -4063,6 +4210,7 @@ keepalive = ["keepalive (>=0.5)"]
 name = "sqlalchemy"
 version = "1.4.41"
 description = "Database Abstraction Library"
+category = "main"
 optional = false
 python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,>=2.7"
 files = [
@@ -4110,7 +4258,7 @@ files = [
 ]
 
 [package.dependencies]
-greenlet = {version = "!=0.4.17", markers = "python_version >= \"3\" and (platform_machine == \"aarch64\" or platform_machine == \"ppc64le\" or platform_machine == \"x86_64\" or platform_machine == \"amd64\" or platform_machine == \"AMD64\" or platform_machine == \"win32\" or platform_machine == \"WIN32\")"}
+greenlet = {version = "!=0.4.17", markers = "python_version >= \"3\" and platform_machine == \"aarch64\" or python_version >= \"3\" and platform_machine == \"ppc64le\" or python_version >= \"3\" and platform_machine == \"x86_64\" or python_version >= \"3\" and platform_machine == \"amd64\" or python_version >= \"3\" and platform_machine == \"AMD64\" or python_version >= \"3\" and platform_machine == \"win32\" or python_version >= \"3\" and platform_machine == \"WIN32\""}
 
 [package.extras]
 aiomysql = ["aiomysql", "greenlet (!=0.4.17)"]
@@ -4137,6 +4285,7 @@ sqlcipher = ["sqlcipher3-binary"]
 name = "statsmodels"
 version = "0.14.2"
 description = "Statistical computations and models for Python"
+category = "main"
 optional = false
 python-versions = ">=3.9"
 files = [
@@ -4182,6 +4331,7 @@ docs = ["ipykernel", "jupyter-client", "matplotlib", "nbconvert", "nbformat", "n
 name = "structlog"
 version = "19.2.0"
 description = "Structured Logging for Python"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -4202,6 +4352,7 @@ tests = ["coverage", "freezegun (>=0.2.8)", "pretend", "pytest (>=3.3.0)", "pyth
 name = "subprocess-middleware"
 version = "0.3"
 description = "Subprocess WSGI middleware and Pyramid tween."
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -4218,6 +4369,7 @@ test = ["WebTest", "pyramid", "pytest"]
 name = "supervisor"
 version = "4.2.5"
 description = "A system for controlling process state under UNIX"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -4235,6 +4387,7 @@ testing = ["pytest", "pytest-cov"]
 name = "threadpoolctl"
 version = "3.5.0"
 description = "threadpoolctl"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -4246,6 +4399,7 @@ files = [
 name = "toml"
 version = "0.10.2"
 description = "Python Library for Tom's Obvious, Minimal Language"
+category = "main"
 optional = false
 python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*"
 files = [
@@ -4257,6 +4411,7 @@ files = [
 name = "tomli"
 version = "2.0.1"
 description = "A lil' TOML parser"
+category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -4268,6 +4423,7 @@ files = [
 name = "tqdm"
 version = "4.66.4"
 description = "Fast, Extensible Progress Meter"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -4288,6 +4444,7 @@ telegram = ["requests"]
 name = "transaction"
 version = "3.1.0"
 description = "Transaction management for Python"
+category = "main"
 optional = false
 python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*"
 files = [
@@ -4307,6 +4464,7 @@ testing = ["coverage", "mock", "nose"]
 name = "translationstring"
 version = "1.3"
 description = "Utility library for i18n relied on by various Repoze and Pyramid packages"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -4318,6 +4476,7 @@ files = [
 name = "types-awscrt"
 version = "0.20.12"
 description = "Type annotations and code completion for awscrt"
+category = "dev"
 optional = false
 python-versions = "<4.0,>=3.7"
 files = [
@@ -4329,6 +4488,7 @@ files = [
 name = "types-python-dateutil"
 version = "2.9.0.20240316"
 description = "Typing stubs for python-dateutil"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -4340,6 +4500,7 @@ files = [
 name = "types-s3transfer"
 version = "0.10.1"
 description = "Type annotations and code completion for s3transfer"
+category = "dev"
 optional = false
 python-versions = "<4.0,>=3.8"
 files = [
@@ -4351,6 +4512,7 @@ files = [
 name = "typing-extensions"
 version = "4.12.2"
 description = "Backported and Experimental Type Hints for Python 3.8+"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -4362,6 +4524,7 @@ files = [
 name = "tzdata"
 version = "2024.1"
 description = "Provider of IANA time zone data"
+category = "main"
 optional = false
 python-versions = ">=2"
 files = [
@@ -4373,6 +4536,7 @@ files = [
 name = "uptime"
 version = "3.0.1"
 description = "Cross-platform uptime library"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -4383,6 +4547,7 @@ files = [
 name = "uri-template"
 version = "1.3.0"
 description = "RFC 6570 URI Template Processor"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -4397,6 +4562,7 @@ dev = ["flake8", "flake8-annotations", "flake8-bandit", "flake8-bugbear", "flake
 name = "urllib3"
 version = "1.26.19"
 description = "HTTP library with thread-safe connection pooling, file post, and more."
+category = "main"
 optional = false
 python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,>=2.7"
 files = [
@@ -4413,6 +4579,7 @@ socks = ["PySocks (>=1.5.6,!=1.5.7,<2.0)"]
 name = "venusian"
 version = "3.1.0"
 description = "A library for deferring decorator actions"
+category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -4428,6 +4595,7 @@ testing = ["coverage", "pytest", "pytest-cov"]
 name = "waitress"
 version = "2.1.2"
 description = "Waitress WSGI server"
+category = "main"
 optional = false
 python-versions = ">=3.7.0"
 files = [
@@ -4443,6 +4611,7 @@ testing = ["coverage (>=5.0)", "pytest", "pytest-cover"]
 name = "webcolors"
 version = "24.6.0"
 description = "A library for working with the color formats defined by HTML and CSS."
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -4458,6 +4627,7 @@ tests = ["coverage[toml]"]
 name = "webencodings"
 version = "0.5.1"
 description = "Character encoding aliases for legacy web content"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -4469,6 +4639,7 @@ files = [
 name = "webob"
 version = "1.8.7"
 description = "WSGI request and response object"
+category = "main"
 optional = false
 python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*"
 files = [
@@ -4484,6 +4655,7 @@ testing = ["coverage", "pytest (>=3.1.0)", "pytest-cov", "pytest-xdist"]
 name = "websocket-client"
 version = "1.8.0"
 description = "WebSocket client for Python with low level API options"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -4500,6 +4672,7 @@ test = ["websockets"]
 name = "webtest"
 version = "2.0.35"
 description = "Helper to test WSGI applications"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -4521,6 +4694,7 @@ tests = ["PasteDeploy", "WSGIProxy2", "coverage", "mock", "nose (<1.3.0)", "pyqu
 name = "werkzeug"
 version = "2.1.2"
 description = "The comprehensive WSGI web application library."
+category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -4535,6 +4709,7 @@ watchdog = ["watchdog"]
 name = "wheel"
 version = "0.43.0"
 description = "A built-package format for Python"
+category = "dev"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -4549,6 +4724,7 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 name = "wsgiproxy2"
 version = "0.4.2"
 description = "UNKNOWN"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -4563,6 +4739,7 @@ webob = "*"
 name = "xlrd"
 version = "1.2.0"
 description = "Library for developers to extract data from Microsoft Excel (tm) spreadsheet files"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 files = [
@@ -4574,6 +4751,7 @@ files = [
 name = "xmltodict"
 version = "0.13.0"
 description = "Makes working with XML feel like you are working with JSON"
+category = "dev"
 optional = false
 python-versions = ">=3.4"
 files = [
@@ -4585,6 +4763,7 @@ files = [
 name = "zipp"
 version = "3.19.2"
 description = "Backport of pathlib-compatible object wrapper for zip files"
+category = "main"
 optional = false
 python-versions = ">=3.8"
 files = [
@@ -4600,6 +4779,7 @@ test = ["big-O", "importlib-resources", "jaraco.functools", "jaraco.itertools",
 name = "zope-deprecation"
 version = "4.4.0"
 description = "Zope Deprecation Infrastructure"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -4618,6 +4798,7 @@ test = ["zope.testrunner"]
 name = "zope-interface"
 version = "5.5.2"
 description = "Interfaces for Python"
+category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 files = [
@@ -4671,6 +4852,7 @@ testing = ["coverage (>=5.0.3)", "zope.event", "zope.testing"]
 name = "zope-sqlalchemy"
 version = "1.6"
 description = "Minimal Zope/SQLAlchemy transaction integration"
+category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -4690,4 +4872,4 @@ test = ["zope.testing"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.9,<3.13"
-content-hash = "7a8ff8366f1fdcf6c6bb7db1137c205d86c0878e2037ce174f001667a9094480"
+content-hash = "5d16d4ad2767be3f058f08d3e1586e86e01a1268c6954b5a526e8c38b8211ad4"
diff --git a/pyproject.toml b/pyproject.toml
index 211b828b8e..3fa97c0c46 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -54,9 +54,9 @@ colorama = "0.3.3"
 # dcicpyvcf = "^3.0.0"
 dcicpyvcf = "^3.0.0.1b7"
 #dcicsnovault = "^11.14.2"
-dcicsnovault = "11.16.0.1b6"
+dcicsnovault = "11.17.0.1b3"
 #dcicutils = "^8.8.5"
-dcicutils = "8.12.0.1b6"
+dcicutils = "8.12.0.1b8"
 elasticsearch = "7.13.4"
 execnet = "1.4.1"
 future = ">=0.18.2,<1"