From 66c4116ecb85f84133e12c5f8d2245f9de50a067 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Wed, 20 Sep 2023 14:17:59 -0400
Subject: [PATCH 01/30] Update to Python 3.11

---
 CHANGELOG.rst  |    4 +
 poetry.lock    | 1394 ++++++++++++------------------------------------
 pyproject.toml |   16 +-
 3 files changed, 342 insertions(+), 1072 deletions(-)

diff --git a/CHANGELOG.rst b/CHANGELOG.rst
index c7d3bb71..064600ef 100644
--- a/CHANGELOG.rst
+++ b/CHANGELOG.rst
@@ -7,6 +7,10 @@ foursight-cgap
 Change Log
 ----------
 
+4.0.0
+=====
+* Update to Python 3.11.
+
 3.6.1
 =====
 * Add ingestion type to POST body for VCF ingestion action
diff --git a/poetry.lock b/poetry.lock
index a8b83dd8..c154158e 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -1,10 +1,9 @@
-# This file is automatically @generated by Poetry and should not be changed by hand.
+# This file is automatically @generated by Poetry 1.5.1 and should not be changed by hand.
 
 [[package]]
 name = "ansicon"
 version = "1.89.0"
 description = "Python wrapper for loading Jason Hood's ANSICON"
-category = "dev"
 optional = false
 python-versions = "*"
 files = [
@@ -12,26 +11,10 @@ files = [
     {file = "ansicon-1.89.0.tar.gz", hash = "sha256:e4d039def5768a47e4afec8e89e83ec3ae5a26bf00ad851f914d1240b444d2b1"},
 ]
 
-[[package]]
-name = "async-timeout"
-version = "4.0.2"
-description = "Timeout context manager for asyncio programs"
-category = "main"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "async-timeout-4.0.2.tar.gz", hash = "sha256:2163e1640ddb52b7a8c80d0a67a08587e5d245cc9c553a74a847056bc2976b15"},
-    {file = "async_timeout-4.0.2-py3-none-any.whl", hash = "sha256:8ca1e4fcf50d07413d66d1a5e416e42cfdf5851c981d679a09851a6853383b3c"},
-]
-
-[package.dependencies]
-typing-extensions = {version = ">=3.6.5", markers = "python_version < \"3.8\""}
-
 [[package]]
 name = "atomicwrites"
 version = "1.4.1"
 description = "Atomic file writes."
-category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 files = [
@@ -42,7 +25,6 @@ files = [
 name = "attrs"
 version = "23.1.0"
 description = "Classes Without Boilerplate"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -60,86 +42,10 @@ docs = ["furo", "myst-parser", "sphinx", "sphinx-notfound-page", "sphinxcontrib-
 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]"]
 
-[[package]]
-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 = [
-    {file = "aws-requests-auth-0.4.3.tar.gz", hash = "sha256:33593372018b960a31dbbe236f89421678b885c35f0b6a7abfae35bb77e069b2"},
-    {file = "aws_requests_auth-0.4.3-py2.py3-none-any.whl", hash = "sha256:646bc37d62140ea1c709d20148f5d43197e6bd2d63909eb36fa4bb2345759977"},
-]
-
-[package.dependencies]
-requests = ">=0.14.0"
-
-[[package]]
-name = "backports-zoneinfo"
-version = "0.2.1"
-description = "Backport of the standard library zoneinfo module"
-category = "main"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-macosx_10_14_x86_64.whl", hash = "sha256:da6013fd84a690242c310d77ddb8441a559e9cb3d3d59ebac9aca1a57b2e18bc"},
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_i686.whl", hash = "sha256:89a48c0d158a3cc3f654da4c2de1ceba85263fafb861b98b59040a5086259722"},
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_x86_64.whl", hash = "sha256:1c5742112073a563c81f786e77514969acb58649bcdf6cdf0b4ed31a348d4546"},
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-]
-
-[package.extras]
-tzdata = ["tzdata"]
-
-[[package]]
-name = "beautifulsoup4"
-version = "4.12.2"
-description = "Screen-scraping library"
-category = "main"
-optional = false
-python-versions = ">=3.6.0"
-files = [
-    {file = "beautifulsoup4-4.12.2-py3-none-any.whl", hash = "sha256:bd2520ca0d9d7d12694a53d44ac482d181b4ec1888909b035a3dbf40d0f57d4a"},
-    {file = "beautifulsoup4-4.12.2.tar.gz", hash = "sha256:492bbc69dca35d12daac71c4db1bfff0c876c00ef4a2ffacce226d4638eb72da"},
-]
-
-[package.dependencies]
-soupsieve = ">1.2"
-
-[package.extras]
-html5lib = ["html5lib"]
-lxml = ["lxml"]
-
-[[package]]
-name = "benchmark-4dn"
-version = "0.5.23"
-description = "Benchmark functions that returns total space, mem, cpu given input size and parameters for the CWL workflows"
-category = "main"
-optional = false
-python-versions = ">=3.5,<4.0"
-files = [
-    {file = "Benchmark-4dn-0.5.23.tar.gz", hash = "sha256:f17a02c5cd9669f96ea65cb31603106bb77a0a01775b4fd2983a95ab66ee7b7c"},
-    {file = "benchmark_4dn-0.5.23-py3-none-any.whl", hash = "sha256:bd8aa8c252e868f1d7afa2c2003e1148f409e6dc825af5656f37cd5fec30e2c3"},
-]
-
 [[package]]
 name = "blessed"
 version = "1.20.0"
 description = "Easy, practical library for making terminal apps, by providing an elegant, well-documented interface to Colors, Keyboard input, and screen Positioning capabilities."
-category = "dev"
 optional = false
 python-versions = ">=2.7"
 files = [
@@ -152,36 +58,15 @@ jinxed = {version = ">=1.1.0", markers = "platform_system == \"Windows\""}
 six = ">=1.9.0"
 wcwidth = ">=0.1.4"
 
-[[package]]
-name = "boto3"
-version = "1.26.122"
-description = "The AWS SDK for Python"
-category = "main"
-optional = false
-python-versions = ">= 3.7"
-files = [
-    {file = "boto3-1.26.122-py3-none-any.whl", hash = "sha256:4d575c180312bec6108852bae12e6396b9d1bb404154d652c57ee849c62fbb83"},
-    {file = "boto3-1.26.122.tar.gz", hash = "sha256:38ca632be379963f2a2749b5f63a81fe1679913b954914f470ad282c77674bbc"},
-]
-
-[package.dependencies]
-botocore = ">=1.29.122,<1.30.0"
-jmespath = ">=0.7.1,<2.0.0"
-s3transfer = ">=0.6.0,<0.7.0"
-
-[package.extras]
-crt = ["botocore[crt] (>=1.21.0,<2.0a0)"]
-
 [[package]]
 name = "botocore"
-version = "1.29.122"
+version = "1.31.51"
 description = "Low-level, data-driven core of boto 3."
-category = "main"
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "botocore-1.29.122-py3-none-any.whl", hash = "sha256:c3b41078d235761b9c5dc22f534a76952622ef96787b96bbd10242ec4d73f2a5"},
-    {file = "botocore-1.29.122.tar.gz", hash = "sha256:9e4984a9e9777c6b949aa1e98323fa35480d9f99d447af7e179ae611f7ed5af9"},
+    {file = "botocore-1.31.51-py3-none-any.whl", hash = "sha256:91dfb38801d45214875a892bd1e908fc7a894c2ed170bacd67e6929af72f2bd2"},
+    {file = "botocore-1.31.51.tar.gz", hash = "sha256:8e133add22f07b55d21e14176b97b82e993d5f9aca70f5b0cd0908cb105ba53a"},
 ]
 
 [package.dependencies]
@@ -190,135 +75,39 @@ python-dateutil = ">=2.1,<3.0.0"
 urllib3 = ">=1.25.4,<1.27"
 
 [package.extras]
-crt = ["awscrt (==0.16.9)"]
+crt = ["awscrt (==0.16.26)"]
 
 [[package]]
 name = "cachetools"
-version = "5.3.0"
+version = "5.3.1"
 description = "Extensible memoizing collections and decorators"
-category = "main"
 optional = false
-python-versions = "~=3.7"
+python-versions = ">=3.7"
 files = [
-    {file = "cachetools-5.3.0-py3-none-any.whl", hash = "sha256:429e1a1e845c008ea6c85aa35d4b98b65d6a9763eeef3e37e92728a12d1de9d4"},
-    {file = "cachetools-5.3.0.tar.gz", hash = "sha256:13dfddc7b8df938c21a940dfa6557ce6e94a2f1cdfa58eb90c805721d58f2c14"},
+    {file = "cachetools-5.3.1-py3-none-any.whl", hash = "sha256:95ef631eeaea14ba2e36f06437f36463aac3a096799e876ee55e5cdccb102590"},
+    {file = "cachetools-5.3.1.tar.gz", hash = "sha256:dce83f2d9b4e1f732a8cd44af8e8fab2dbe46201467fc98b3ef8f269092bf62b"},
 ]
 
 [[package]]
 name = "certifi"
-version = "2022.12.7"
+version = "2023.7.22"
 description = "Python package for providing Mozilla's CA Bundle."
-category = "main"
 optional = false
 python-versions = ">=3.6"
 files = [
-    {file = "certifi-2022.12.7-py3-none-any.whl", hash = "sha256:4ad3232f5e926d6718ec31cfc1fcadfde020920e278684144551c91769c7bc18"},
-    {file = "certifi-2022.12.7.tar.gz", hash = "sha256:35824b4c3a97115964b408844d64aa14db1cc518f6562e8d7261699d1350a9e3"},
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-
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-name = "cffi"
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-description = "Foreign Function Interface for Python calling C code."
-category = "main"
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-python-versions = "*"
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-[package.dependencies]
-pycparser = "*"
-
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-magma-suite = ">=0.2.1"
-
 [[package]]
 name = "chalice"
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 description = "Microframework"
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 python-versions = "*"
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 [package.dependencies]
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 click = ">=7,<9.0"
 inquirer = ">=2.7.0,<3.0.0"
 jmespath = ">=0.9.3,<2.0.0"
-pip = ">=9,<23.1"
+pip = ">=9,<23.2"
 pyyaml = ">=5.3.1,<7.0.0"
 setuptools = "*"
 six = ">=1.10.0,<2.0.0"
@@ -336,28 +125,96 @@ wheel = "*"
 [package.extras]
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 cdkv2 = ["aws-cdk-lib (>2.0,<3.0)"]
-event-file-poller = ["watchdog (==0.9.0)"]
+event-file-poller = ["watchdog (==2.3.1)"]
 
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-typing-extensions = ">=3.8"
-urllib3 = ">=1.26.6,<2.0.0"
-webtest = ">=2.0.34,<3.0.0"
+[package.source]
+type = "directory"
+url = "../utils"
 
 [[package]]
 name = "decorator"
 version = "5.1.1"
 description = "Decorators for Humans"
-category = "main"
 optional = false
 python-versions = ">=3.5"
 files = [
@@ -547,50 +329,15 @@ files = [
     {file = "decorator-5.1.1.tar.gz", hash = "sha256:637996211036b6385ef91435e4fae22989472f9d571faba8927ba8253acbc330"},
 ]
 
-[[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 = [
-    {file = "docker-4.4.4-py2.py3-none-any.whl", hash = "sha256:f3607d5695be025fa405a12aca2e5df702a57db63790c73b927eb6a94aac60af"},
-    {file = "docker-4.4.4.tar.gz", hash = "sha256:d3393c878f575d3a9ca3b94471a3c89a6d960b35feb92f033c0de36cc9d934db"},
-]
-
-[package.dependencies]
-pywin32 = {version = "227", markers = "sys_platform == \"win32\""}
-requests = ">=2.14.2,<2.18.0 || >2.18.0"
-six = ">=1.4.0"
-websocket-client = ">=0.32.0"
-
-[package.extras]
-ssh = ["paramiko (>=2.4.2)"]
-tls = ["cryptography (>=1.3.4)", "idna (>=2.0.0)", "pyOpenSSL (>=17.5.0)"]
-
-[[package]]
-name = "docutils"
-version = "0.19"
-description = "Docutils -- Python Documentation Utilities"
-category = "main"
-optional = false
-python-versions = ">=3.7"
-files = [
-    {file = "docutils-0.19-py3-none-any.whl", hash = "sha256:5e1de4d849fee02c63b040a4a3fd567f4ab104defd8a5511fbbc24a8a017efbc"},
-    {file = "docutils-0.19.tar.gz", hash = "sha256:33995a6753c30b7f577febfc2c50411fec6aac7f7ffeb7c4cfe5991072dcf9e6"},
-]
-
 [[package]]
 name = "elasticsearch"
-version = "7.13.4"
+version = "7.17.9"
 description = "Python client for Elasticsearch"
-category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, <4"
 files = [
-    {file = "elasticsearch-7.13.4-py2.py3-none-any.whl", hash = "sha256:5920df0ab2630778680376d86bea349dc99860977eec9b6d2bd0860f337313f2"},
-    {file = "elasticsearch-7.13.4.tar.gz", hash = "sha256:52dda85f76eeb85ec873bf9ffe0ba6849e544e591f66d4048a5e48016de268e0"},
+    {file = "elasticsearch-7.17.9-py2.py3-none-any.whl", hash = "sha256:0e2454645dc00517dee4c6de3863411a9c5f1955d013c5fefa29123dadc92f98"},
+    {file = "elasticsearch-7.17.9.tar.gz", hash = "sha256:66c4ece2adfe7cc120e2b6a6798a1fd5c777aecf82eec39bb95cef7cfc7ea2b3"},
 ]
 
 [package.dependencies]
@@ -607,7 +354,6 @@ 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 = [
@@ -627,7 +373,6 @@ develop = ["coverage (<5.0.0)", "mock", "pytest (>=3.0.0)", "pytest-cov", "pytes
 name = "flaky"
 version = "3.6.1"
 description = "Plugin for nose or pytest that automatically reruns flaky tests."
-category = "dev"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 files = [
@@ -637,42 +382,21 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.4.0"
+version = "4.5.0.1b1"
 description = "Serverless Chalice Application for Monitoring"
-category = "main"
 optional = false
-python-versions = ">=3.7,<3.10"
-files = [
-    {file = "foursight_core-4.4.0-py3-none-any.whl", hash = "sha256:1d926faec11442669acd09bcc946afaa287c7171c4dd77322ce25c0a87ddedb7"},
-    {file = "foursight_core-4.4.0.tar.gz", hash = "sha256:e04a7ffd592b8ea6f40608f1d543de9b40720dd37caebff0e66d78a754754b2a"},
-]
+python-versions = "*"
+files = []
+develop = true
 
-[package.dependencies]
-click = ">=7.1.2,<8.0.0"
-cron-descriptor = ">=1.2.31,<2.0.0"
-cryptography = "39.0.2"
-dcicutils = ">=7.5.2,<8.0.0"
-elasticsearch = "7.13.4"
-elasticsearch-dsl = ">=7.0.0,<8.0.0"
-geocoder = "1.38.1"
-gitpython = ">=3.1.2,<4.0.0"
-google = ">=3.0.0,<4.0.0"
-google-api-python-client = ">=1.12.5,<2.0.0"
-google-auth-oauthlib = ">=0.7.0,<0.8.0"
-Jinja2 = "2.10.1"
-MarkupSafe = "1.1.1"
-pyDes = ">=2.0.1,<3.0.0"
-PyJWT = ">=2.5.0,<3.0.0"
-pytz = ">=2020.1"
-redis = ">=4.5.1,<5.0.0"
-toml = ">=0.10.2,<1"
-tzlocal = ">=5.0.1,<6.0.0"
+[package.source]
+type = "directory"
+url = "../foursight-core"
 
 [[package]]
 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 = [
@@ -683,7 +407,6 @@ files = [
 name = "geocoder"
 version = "1.38.1"
 description = "Geocoder is a simple and consistent geocoding library."
-category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -702,7 +425,6 @@ six = "*"
 name = "gitdb"
 version = "4.0.10"
 description = "Git Object Database"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -715,63 +437,48 @@ smmap = ">=3.0.1,<6"
 
 [[package]]
 name = "gitpython"
-version = "3.1.31"
+version = "3.1.36"
 description = "GitPython is a Python library used to interact with Git repositories"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "GitPython-3.1.31-py3-none-any.whl", hash = "sha256:f04893614f6aa713a60cbbe1e6a97403ef633103cdd0ef5eb6efe0deb98dbe8d"},
-    {file = "GitPython-3.1.31.tar.gz", hash = "sha256:8ce3bcf69adfdf7c7d503e78fd3b1c492af782d58893b650adb2ac8912ddd573"},
+    {file = "GitPython-3.1.36-py3-none-any.whl", hash = "sha256:8d22b5cfefd17c79914226982bb7851d6ade47545b1735a9d010a2a4c26d8388"},
+    {file = "GitPython-3.1.36.tar.gz", hash = "sha256:4bb0c2a6995e85064140d31a33289aa5dce80133a23d36fcd372d716c54d3ebf"},
 ]
 
 [package.dependencies]
 gitdb = ">=4.0.1,<5"
 typing-extensions = {version = ">=3.7.4.3", markers = "python_version < \"3.8\""}
 
-[[package]]
-name = "google"
-version = "3.0.0"
-description = "Python bindings to the Google search engine."
-category = "main"
-optional = false
-python-versions = "*"
-files = [
-    {file = "google-3.0.0-py2.py3-none-any.whl", hash = "sha256:889cf695f84e4ae2c55fbc0cfdaf4c1e729417fa52ab1db0485202ba173e4935"},
-    {file = "google-3.0.0.tar.gz", hash = "sha256:143530122ee5130509ad5e989f0512f7cb218b2d4eddbafbad40fd10e8d8ccbe"},
-]
-
-[package.dependencies]
-beautifulsoup4 = "*"
+[package.extras]
+test = ["black", "coverage[toml]", "ddt (>=1.1.1,!=1.4.3)", "mypy", "pre-commit", "pytest", "pytest-cov", "pytest-sugar", "virtualenv"]
 
 [[package]]
 name = "google-api-core"
-version = "2.11.0"
+version = "2.11.1"
 description = "Google API client core library"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "google-api-core-2.11.0.tar.gz", hash = "sha256:4b9bb5d5a380a0befa0573b302651b8a9a89262c1730e37bf423cec511804c22"},
-    {file = "google_api_core-2.11.0-py3-none-any.whl", hash = "sha256:ce222e27b0de0d7bc63eb043b956996d6dccab14cc3b690aaea91c9cc99dc16e"},
+    {file = "google-api-core-2.11.1.tar.gz", hash = "sha256:25d29e05a0058ed5f19c61c0a78b1b53adea4d9364b464d014fbda941f6d1c9a"},
+    {file = "google_api_core-2.11.1-py3-none-any.whl", hash = "sha256:d92a5a92dc36dd4f4b9ee4e55528a90e432b059f93aee6ad857f9de8cc7ae94a"},
 ]
 
 [package.dependencies]
-google-auth = ">=2.14.1,<3.0dev"
-googleapis-common-protos = ">=1.56.2,<2.0dev"
-protobuf = ">=3.19.5,<3.20.0 || >3.20.0,<3.20.1 || >3.20.1,<4.21.0 || >4.21.0,<4.21.1 || >4.21.1,<4.21.2 || >4.21.2,<4.21.3 || >4.21.3,<4.21.4 || >4.21.4,<4.21.5 || >4.21.5,<5.0.0dev"
-requests = ">=2.18.0,<3.0.0dev"
+google-auth = ">=2.14.1,<3.0.dev0"
+googleapis-common-protos = ">=1.56.2,<2.0.dev0"
+protobuf = ">=3.19.5,<3.20.0 || >3.20.0,<3.20.1 || >3.20.1,<4.21.0 || >4.21.0,<4.21.1 || >4.21.1,<4.21.2 || >4.21.2,<4.21.3 || >4.21.3,<4.21.4 || >4.21.4,<4.21.5 || >4.21.5,<5.0.0.dev0"
+requests = ">=2.18.0,<3.0.0.dev0"
 
 [package.extras]
-grpc = ["grpcio (>=1.33.2,<2.0dev)", "grpcio (>=1.49.1,<2.0dev)", "grpcio-status (>=1.33.2,<2.0dev)", "grpcio-status (>=1.49.1,<2.0dev)"]
-grpcgcp = ["grpcio-gcp (>=0.2.2,<1.0dev)"]
-grpcio-gcp = ["grpcio-gcp (>=0.2.2,<1.0dev)"]
+grpc = ["grpcio (>=1.33.2,<2.0dev)", "grpcio (>=1.49.1,<2.0dev)", "grpcio-status (>=1.33.2,<2.0.dev0)", "grpcio-status (>=1.49.1,<2.0.dev0)"]
+grpcgcp = ["grpcio-gcp (>=0.2.2,<1.0.dev0)"]
+grpcio-gcp = ["grpcio-gcp (>=0.2.2,<1.0.dev0)"]
 
 [[package]]
 name = "google-api-python-client"
 version = "1.12.11"
 description = "Google API Client Library for Python"
-category = "main"
 optional = false
 python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*"
 files = [
@@ -789,88 +496,64 @@ uritemplate = ">=3.0.0,<4dev"
 
 [[package]]
 name = "google-auth"
-version = "2.17.3"
+version = "2.23.0"
 description = "Google Authentication Library"
-category = "main"
 optional = false
-python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*"
+python-versions = ">=3.7"
 files = [
-    {file = "google-auth-2.17.3.tar.gz", hash = "sha256:ce311e2bc58b130fddf316df57c9b3943c2a7b4f6ec31de9663a9333e4064efc"},
-    {file = "google_auth-2.17.3-py2.py3-none-any.whl", hash = "sha256:f586b274d3eb7bd932ea424b1c702a30e0393a2e2bc4ca3eae8263ffd8be229f"},
+    {file = "google-auth-2.23.0.tar.gz", hash = "sha256:753a26312e6f1eaeec20bc6f2644a10926697da93446e1f8e24d6d32d45a922a"},
+    {file = "google_auth-2.23.0-py2.py3-none-any.whl", hash = "sha256:2cec41407bd1e207f5b802638e32bb837df968bb5c05f413d0fa526fac4cf7a7"},
 ]
 
 [package.dependencies]
 cachetools = ">=2.0.0,<6.0"
 pyasn1-modules = ">=0.2.1"
-rsa = {version = ">=3.1.4,<5", markers = "python_version >= \"3.6\""}
-six = ">=1.9.0"
+rsa = ">=3.1.4,<5"
+urllib3 = "<2.0"
 
 [package.extras]
-aiohttp = ["aiohttp (>=3.6.2,<4.0.0dev)", "requests (>=2.20.0,<3.0.0dev)"]
+aiohttp = ["aiohttp (>=3.6.2,<4.0.0.dev0)", "requests (>=2.20.0,<3.0.0.dev0)"]
 enterprise-cert = ["cryptography (==36.0.2)", "pyopenssl (==22.0.0)"]
 pyopenssl = ["cryptography (>=38.0.3)", "pyopenssl (>=20.0.0)"]
 reauth = ["pyu2f (>=0.1.5)"]
-requests = ["requests (>=2.20.0,<3.0.0dev)"]
+requests = ["requests (>=2.20.0,<3.0.0.dev0)"]
 
 [[package]]
 name = "google-auth-httplib2"
-version = "0.1.0"
+version = "0.1.1"
 description = "Google Authentication Library: httplib2 transport"
-category = "main"
 optional = false
 python-versions = "*"
 files = [
-    {file = "google-auth-httplib2-0.1.0.tar.gz", hash = "sha256:a07c39fd632becacd3f07718dfd6021bf396978f03ad3ce4321d060015cc30ac"},
-    {file = "google_auth_httplib2-0.1.0-py2.py3-none-any.whl", hash = "sha256:31e49c36c6b5643b57e82617cb3e021e3e1d2df9da63af67252c02fa9c1f4a10"},
+    {file = "google-auth-httplib2-0.1.1.tar.gz", hash = "sha256:c64bc555fdc6dd788ea62ecf7bccffcf497bf77244887a3f3d7a5a02f8e3fc29"},
+    {file = "google_auth_httplib2-0.1.1-py2.py3-none-any.whl", hash = "sha256:42c50900b8e4dcdf8222364d1f0efe32b8421fb6ed72f2613f12f75cc933478c"},
 ]
 
 [package.dependencies]
 google-auth = "*"
-httplib2 = ">=0.15.0"
-six = "*"
-
-[[package]]
-name = "google-auth-oauthlib"
-version = "0.7.1"
-description = "Google Authentication Library"
-category = "main"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "google-auth-oauthlib-0.7.1.tar.gz", hash = "sha256:9940f543f77d1447432a93781d7c931fb53e418023351ad4bf9e92837a1154ec"},
-    {file = "google_auth_oauthlib-0.7.1-py2.py3-none-any.whl", hash = "sha256:860e54c4b58b2664116c9cb44325bc0ec92bcd93e8211698ceea911b1b873b86"},
-]
-
-[package.dependencies]
-google-auth = ">=2.14.0"
-requests-oauthlib = ">=0.7.0"
-
-[package.extras]
-tool = ["click (>=6.0.0)"]
+httplib2 = ">=0.19.0"
 
 [[package]]
 name = "googleapis-common-protos"
-version = "1.59.0"
+version = "1.60.0"
 description = "Common protobufs used in Google APIs"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "googleapis-common-protos-1.59.0.tar.gz", hash = "sha256:4168fcb568a826a52f23510412da405abd93f4d23ba544bb68d943b14ba3cb44"},
-    {file = "googleapis_common_protos-1.59.0-py2.py3-none-any.whl", hash = "sha256:b287dc48449d1d41af0c69f4ea26242b5ae4c3d7249a38b0984c86a4caffff1f"},
+    {file = "googleapis-common-protos-1.60.0.tar.gz", hash = "sha256:e73ebb404098db405ba95d1e1ae0aa91c3e15a71da031a2eeb6b2e23e7bc3708"},
+    {file = "googleapis_common_protos-1.60.0-py2.py3-none-any.whl", hash = "sha256:69f9bbcc6acde92cab2db95ce30a70bd2b81d20b12eff3f1aabaffcbe8a93918"},
 ]
 
 [package.dependencies]
-protobuf = ">=3.19.5,<3.20.0 || >3.20.0,<3.20.1 || >3.20.1,<4.21.1 || >4.21.1,<4.21.2 || >4.21.2,<4.21.3 || >4.21.3,<4.21.4 || >4.21.4,<4.21.5 || >4.21.5,<5.0.0dev"
+protobuf = ">=3.19.5,<3.20.0 || >3.20.0,<3.20.1 || >3.20.1,<4.21.1 || >4.21.1,<4.21.2 || >4.21.2,<4.21.3 || >4.21.3,<4.21.4 || >4.21.4,<4.21.5 || >4.21.5,<5.0.0.dev0"
 
 [package.extras]
-grpc = ["grpcio (>=1.44.0,<2.0.0dev)"]
+grpc = ["grpcio (>=1.44.0,<2.0.0.dev0)"]
 
 [[package]]
 name = "httplib2"
 version = "0.22.0"
 description = "A comprehensive HTTP client library."
-category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 files = [
@@ -885,7 +568,6 @@ pyparsing = {version = ">=2.4.2,<3.0.0 || >3.0.0,<3.0.1 || >3.0.1,<3.0.2 || >3.0
 name = "idna"
 version = "3.4"
 description = "Internationalized Domain Names in Applications (IDNA)"
-category = "main"
 optional = false
 python-versions = ">=3.5"
 files = [
@@ -895,14 +577,13 @@ files = [
 
 [[package]]
 name = "importlib-metadata"
-version = "6.6.0"
+version = "6.7.0"
 description = "Read metadata from Python packages"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "importlib_metadata-6.6.0-py3-none-any.whl", hash = "sha256:43dd286a2cd8995d5eaef7fee2066340423b818ed3fd70adf0bad5f1fac53fed"},
-    {file = "importlib_metadata-6.6.0.tar.gz", hash = "sha256:92501cdf9cc66ebd3e612f1b4f0c0765dfa42f0fa38ffb319b6bd84dd675d705"},
+    {file = "importlib_metadata-6.7.0-py3-none-any.whl", hash = "sha256:cb52082e659e97afc5dac71e79de97d8681de3aa07ff18578330904a9d18e5b5"},
+    {file = "importlib_metadata-6.7.0.tar.gz", hash = "sha256:1aaf550d4f73e5d6783e7acb77aec43d49da8017410afae93822cc9cca98c4d4"},
 ]
 
 [package.dependencies]
@@ -912,13 +593,12 @@ zipp = ">=0.5"
 [package.extras]
 docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"]
 perf = ["ipython"]
-testing = ["flake8 (<5)", "flufl.flake8", "importlib-resources (>=1.3)", "packaging", "pyfakefs", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)", "pytest-perf (>=0.9.2)"]
+testing = ["flufl.flake8", "importlib-resources (>=1.3)", "packaging", "pyfakefs", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-mypy (>=0.9.1)", "pytest-perf (>=0.9.2)", "pytest-ruff"]
 
 [[package]]
 name = "inquirer"
 version = "2.10.1"
 description = "Collection of common interactive command line user interfaces, based on Inquirer.js"
-category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -935,7 +615,6 @@ readchar = ">=3.0.6"
 name = "jinja2"
 version = "2.10.1"
 description = "A small but fast and easy to use stand-alone template engine written in pure python."
-category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -953,7 +632,6 @@ i18n = ["Babel (>=0.8)"]
 name = "jinxed"
 version = "1.2.0"
 description = "Jinxed Terminal Library"
-category = "dev"
 optional = false
 python-versions = "*"
 files = [
@@ -968,7 +646,6 @@ ansicon = {version = "*", markers = "platform_system == \"Windows\""}
 name = "jmespath"
 version = "1.0.1"
 description = "JSON Matching Expressions"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -978,25 +655,21 @@ files = [
 
 [[package]]
 name = "magma-suite"
-version = "1.2.2"
+version = "1.5.0.1b2"
 description = "Collection of tools to manage meta-workflows automation."
-category = "main"
 optional = false
-python-versions = ">=3.7,<3.9"
-files = [
-    {file = "magma_suite-1.2.2-py3-none-any.whl", hash = "sha256:1d639dc91945bed4d9116f9ebaf22aa4c031bd21937968428d19ae825359ec29"},
-    {file = "magma_suite-1.2.2.tar.gz", hash = "sha256:8b1eb2d2387e83ca736ff817d7b1401c1deee71366740eae179eb951d29933bc"},
-]
+python-versions = "*"
+files = []
+develop = true
 
-[package.dependencies]
-dcicutils = ">=7.0.0,<8.0.0"
-tibanna-ff = ">=1.3.3,<2.0.0"
+[package.source]
+type = "directory"
+url = "../magma"
 
 [[package]]
 name = "markupsafe"
 version = "1.1.1"
 description = "Safely add untrusted strings to HTML/XML markup."
-category = "main"
 optional = false
 python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*"
 files = [
@@ -1058,7 +731,6 @@ files = [
 name = "more-itertools"
 version = "9.1.0"
 description = "More routines for operating on iterables, beyond itertools"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1066,53 +738,10 @@ files = [
     {file = "more_itertools-9.1.0-py3-none-any.whl", hash = "sha256:d2bc7f02446e86a68911e58ded76d6561eea00cddfb2a91e7019bbb586c799f3"},
 ]
 
-[[package]]
-name = "oauthlib"
-version = "3.2.2"
-description = "A generic, spec-compliant, thorough implementation of the OAuth request-signing logic"
-category = "main"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "oauthlib-3.2.2-py3-none-any.whl", hash = "sha256:8139f29aac13e25d502680e9e19963e83f16838d48a0d71c287fe40e7067fbca"},
-    {file = "oauthlib-3.2.2.tar.gz", hash = "sha256:9859c40929662bec5d64f34d01c99e093149682a3f38915dc0655d5a633dd918"},
-]
-
-[package.extras]
-rsa = ["cryptography (>=3.0.0)"]
-signals = ["blinker (>=1.4.0)"]
-signedtoken = ["cryptography (>=3.0.0)", "pyjwt (>=2.0.0,<3)"]
-
-[[package]]
-name = "opensearch-py"
-version = "2.2.0"
-description = "Python client for OpenSearch"
-category = "main"
-optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, <4"
-files = [
-    {file = "opensearch-py-2.2.0.tar.gz", hash = "sha256:109fe8d2e1e8f419a22358eb901025f51e6ad2f50014c8962e23796b2a23cb67"},
-    {file = "opensearch_py-2.2.0-py2.py3-none-any.whl", hash = "sha256:595dcebe42e21cdf945add0b5dbaecccace1a8a5ba65d60314813767b564263c"},
-]
-
-[package.dependencies]
-certifi = ">=2022.12.07"
-python-dateutil = "*"
-requests = ">=2.4.0,<3.0.0"
-six = "*"
-urllib3 = ">=1.21.1,<2"
-
-[package.extras]
-async = ["aiohttp (>=3,<4)"]
-develop = ["black", "botocore", "coverage (<7.0.0)", "jinja2", "mock", "myst-parser", "pytest (>=3.0.0)", "pytest-cov", "pytest-mock (<4.0.0)", "pytz", "pyyaml", "requests (>=2.0.0,<3.0.0)", "sphinx", "sphinx-copybutton", "sphinx-rtd-theme"]
-docs = ["myst-parser", "sphinx", "sphinx-copybutton", "sphinx-rtd-theme"]
-kerberos = ["requests-kerberos"]
-
 [[package]]
 name = "packaging"
 version = "23.1"
 description = "Core utilities for Python packages"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1122,21 +751,19 @@ files = [
 
 [[package]]
 name = "pip"
-version = "23.0.1"
+version = "23.1.2"
 description = "The PyPA recommended tool for installing Python packages."
-category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "pip-23.0.1-py3-none-any.whl", hash = "sha256:236bcb61156d76c4b8a05821b988c7b8c35bf0da28a4b614e8d6ab5212c25c6f"},
-    {file = "pip-23.0.1.tar.gz", hash = "sha256:cd015ea1bfb0fcef59d8a286c1f8bebcb983f6317719d415dc5351efb7cd7024"},
+    {file = "pip-23.1.2-py3-none-any.whl", hash = "sha256:3ef6ac33239e4027d9a5598a381b9d30880a1477e50039db2eac6e8a8f6d1b18"},
+    {file = "pip-23.1.2.tar.gz", hash = "sha256:0e7c86f486935893c708287b30bd050a36ac827ec7fe5e43fe7cb198dd835fba"},
 ]
 
 [[package]]
 name = "pluggy"
 version = "0.13.1"
 description = "plugin and hook calling mechanisms for python"
-category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 files = [
@@ -1150,34 +777,45 @@ importlib-metadata = {version = ">=0.12", markers = "python_version < \"3.8\""}
 [package.extras]
 dev = ["pre-commit", "tox"]
 
+[[package]]
+name = "portal-pipeline-utils"
+version = "2.1.0.1b1"
+description = "Utilities for deploying pipelines and interfacing with portal infrastructure."
+optional = false
+python-versions = "*"
+files = []
+develop = true
+
+[package.source]
+type = "directory"
+url = "../portal-pipeline-utils"
+
 [[package]]
 name = "protobuf"
-version = "4.22.3"
+version = "4.24.3"
 description = ""
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
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-    {file = "protobuf-4.22.3.tar.gz", hash = "sha256:23452f2fdea754a8251d0fc88c0317735ae47217e0d27bf330a30eec2848811a"},
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+    {file = "protobuf-4.24.3-cp310-abi3-win_amd64.whl", hash = "sha256:3d42e9e4796a811478c783ef63dc85b5a104b44aaaca85d4864d5b886e4b05e3"},
+    {file = "protobuf-4.24.3-cp37-abi3-macosx_10_9_universal2.whl", hash = "sha256:6e514e8af0045be2b56e56ae1bb14f43ce7ffa0f68b1c793670ccbe2c4fc7d2b"},
+    {file = "protobuf-4.24.3-cp37-abi3-manylinux2014_aarch64.whl", hash = "sha256:ba53c2f04798a326774f0e53b9c759eaef4f6a568ea7072ec6629851c8435959"},
+    {file = "protobuf-4.24.3-cp37-abi3-manylinux2014_x86_64.whl", hash = "sha256:f6ccbcf027761a2978c1406070c3788f6de4a4b2cc20800cc03d52df716ad675"},
+    {file = "protobuf-4.24.3-cp37-cp37m-win32.whl", hash = "sha256:1b182c7181a2891e8f7f3a1b5242e4ec54d1f42582485a896e4de81aa17540c2"},
+    {file = "protobuf-4.24.3-cp37-cp37m-win_amd64.whl", hash = "sha256:b0271a701e6782880d65a308ba42bc43874dabd1a0a0f41f72d2dac3b57f8e76"},
+    {file = "protobuf-4.24.3-cp38-cp38-win32.whl", hash = "sha256:e29d79c913f17a60cf17c626f1041e5288e9885c8579832580209de8b75f2a52"},
+    {file = "protobuf-4.24.3-cp38-cp38-win_amd64.whl", hash = "sha256:067f750169bc644da2e1ef18c785e85071b7c296f14ac53e0900e605da588719"},
+    {file = "protobuf-4.24.3-cp39-cp39-win32.whl", hash = "sha256:2da777d34b4f4f7613cdf85c70eb9a90b1fbef9d36ae4a0ccfe014b0b07906f1"},
+    {file = "protobuf-4.24.3-cp39-cp39-win_amd64.whl", hash = "sha256:f631bb982c5478e0c1c70eab383af74a84be66945ebf5dd6b06fc90079668d0b"},
+    {file = "protobuf-4.24.3-py3-none-any.whl", hash = "sha256:f6f8dc65625dadaad0c8545319c2e2f0424fede988368893ca3844261342c11a"},
+    {file = "protobuf-4.24.3.tar.gz", hash = "sha256:12e9ad2ec079b833176d2921be2cb24281fa591f0b119b208b788adc48c2561d"},
 ]
 
 [[package]]
 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 = [
@@ -1189,7 +827,6 @@ files = [
 name = "pyasn1"
 version = "0.5.0"
 description = "Pure-Python implementation of ASN.1 types and DER/BER/CER codecs (X.208)"
-category = "main"
 optional = false
 python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,>=2.7"
 files = [
@@ -1201,7 +838,6 @@ files = [
 name = "pyasn1-modules"
 version = "0.3.0"
 description = "A collection of ASN.1-based protocols modules"
-category = "main"
 optional = false
 python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,>=2.7"
 files = [
@@ -1212,76 +848,35 @@ files = [
 [package.dependencies]
 pyasn1 = ">=0.4.6,<0.6.0"
 
-[[package]]
-name = "pycparser"
-version = "2.21"
-description = "C parser in Python"
-category = "main"
-optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
-files = [
-    {file = "pycparser-2.21-py2.py3-none-any.whl", hash = "sha256:8ee45429555515e1f6b185e78100aea234072576aa43ab53aefcae078162fca9"},
-    {file = "pycparser-2.21.tar.gz", hash = "sha256:e644fdec12f7872f86c58ff790da456218b10f863970249516d60a5eaca77206"},
-]
-
-[[package]]
-name = "pydes"
-version = "2.0.1"
-description = "Pure python implementation of DES and TRIPLE DES encryption algorithm"
-category = "main"
-optional = false
-python-versions = "*"
-files = [
-    {file = "pyDes-2.0.1.tar.gz", hash = "sha256:e2ab8e21d2b83e90d90dbfdcb6fb8ac0000b813238b7ecaede04f8435c389012"},
-]
-
 [[package]]
 name = "pyjwt"
-version = "2.6.0"
+version = "2.8.0"
 description = "JSON Web Token implementation in Python"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "PyJWT-2.6.0-py3-none-any.whl", hash = "sha256:d83c3d892a77bbb74d3e1a2cfa90afaadb60945205d1095d9221f04466f64c14"},
-    {file = "PyJWT-2.6.0.tar.gz", hash = "sha256:69285c7e31fc44f68a1feb309e948e0df53259d579295e6cfe2b1792329f05fd"},
+    {file = "PyJWT-2.8.0-py3-none-any.whl", hash = "sha256:59127c392cc44c2da5bb3192169a91f429924e17aff6534d70fdc02ab3e04320"},
+    {file = "PyJWT-2.8.0.tar.gz", hash = "sha256:57e28d156e3d5c10088e0c68abb90bfac3df82b40a71bd0daa20c65ccd5c23de"},
 ]
 
+[package.dependencies]
+typing-extensions = {version = "*", markers = "python_version <= \"3.7\""}
+
 [package.extras]
 crypto = ["cryptography (>=3.4.0)"]
 dev = ["coverage[toml] (==5.0.4)", "cryptography (>=3.4.0)", "pre-commit", "pytest (>=6.0.0,<7.0.0)", "sphinx (>=4.5.0,<5.0.0)", "sphinx-rtd-theme", "zope.interface"]
 docs = ["sphinx (>=4.5.0,<5.0.0)", "sphinx-rtd-theme", "zope.interface"]
 tests = ["coverage[toml] (==5.0.4)", "pytest (>=6.0.0,<7.0.0)"]
 
-[[package]]
-name = "pyopenssl"
-version = "23.2.0"
-description = "Python wrapper module around the OpenSSL library"
-category = "main"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "pyOpenSSL-23.2.0-py3-none-any.whl", hash = "sha256:24f0dc5227396b3e831f4c7f602b950a5e9833d292c8e4a2e06b709292806ae2"},
-    {file = "pyOpenSSL-23.2.0.tar.gz", hash = "sha256:276f931f55a452e7dea69c7173e984eb2a4407ce413c918aa34b55f82f9b8bac"},
-]
-
-[package.dependencies]
-cryptography = ">=38.0.0,<40.0.0 || >40.0.0,<40.0.1 || >40.0.1,<42"
-
-[package.extras]
-docs = ["sphinx (!=5.2.0,!=5.2.0.post0)", "sphinx-rtd-theme"]
-test = ["flaky", "pretend", "pytest (>=3.0.1)"]
-
 [[package]]
 name = "pyparsing"
-version = "3.0.9"
+version = "3.1.1"
 description = "pyparsing module - Classes and methods to define and execute parsing grammars"
-category = "main"
 optional = false
 python-versions = ">=3.6.8"
 files = [
-    {file = "pyparsing-3.0.9-py3-none-any.whl", hash = "sha256:5026bae9a10eeaefb61dab2f09052b9f4307d44aee4eda64b309723d8d206bbc"},
-    {file = "pyparsing-3.0.9.tar.gz", hash = "sha256:2b020ecf7d21b687f219b71ecad3631f644a47f01403fa1d1036b0c6416d70fb"},
+    {file = "pyparsing-3.1.1-py3-none-any.whl", hash = "sha256:32c7c0b711493c72ff18a981d24f28aaf9c1fb7ed5e9667c9e84e3db623bdbfb"},
+    {file = "pyparsing-3.1.1.tar.gz", hash = "sha256:ede28a1a32462f5a9705e07aea48001a08f7cf81a021585011deba701581a0db"},
 ]
 
 [package.extras]
@@ -1291,7 +886,6 @@ diagrams = ["jinja2", "railroad-diagrams"]
 name = "pytest"
 version = "5.1.2"
 description = "pytest: simple powerful testing with Python"
-category = "main"
 optional = false
 python-versions = ">=3.5"
 files = [
@@ -1317,7 +911,6 @@ testing = ["argcomplete", "hypothesis (>=3.56)", "mock", "nose", "requests", "xm
 name = "pytest-cov"
 version = "2.7.1"
 description = "Pytest plugin for measuring coverage."
-category = "dev"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 files = [
@@ -1336,7 +929,6 @@ testing = ["fields", "hunter", "process-tests (==2.0.2)", "six", "virtualenv"]
 name = "python-dateutil"
 version = "2.8.2"
 description = "Extensions to the standard Python datetime module"
-category = "main"
 optional = false
 python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,>=2.7"
 files = [
@@ -1351,7 +943,6 @@ six = ">=1.5"
 name = "python-editor"
 version = "1.0.4"
 description = "Programmatically open an editor, capture the result."
-category = "dev"
 optional = false
 python-versions = "*"
 files = [
@@ -1360,28 +951,10 @@ files = [
     {file = "python_editor-1.0.4-py3-none-any.whl", hash = "sha256:1bf6e860a8ad52a14c3ee1252d5dc25b2030618ed80c022598f00176adc8367d"},
 ]
 
-[[package]]
-name = "python-lambda-4dn"
-version = "0.12.3"
-description = "FORKED for 4dn-dcic. Use to package and deploy lambda functions."
-category = "main"
-optional = false
-python-versions = "*"
-files = [
-    {file = "python-lambda-4dn-0.12.3.tar.gz", hash = "sha256:41765ea05224c035e146c89d60ef23d0d2c043ccc79e380cbeae60143547b1dc"},
-    {file = "python_lambda_4dn-0.12.3-py2.py3-none-any.whl", hash = "sha256:a87fd330fcf6702165904dbe884610df5bf029c55cd2cc176d22f788b04a5f21"},
-]
-
-[package.dependencies]
-boto3 = ">=1.7.42"
-botocore = ">=1.10.42"
-docutils = ">=0.14"
-
 [[package]]
 name = "pytz"
 version = "2020.5"
 description = "World timezone definitions, modern and historical"
-category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -1389,72 +962,59 @@ files = [
     {file = "pytz-2020.5.tar.gz", hash = "sha256:180befebb1927b16f6b57101720075a984c019ac16b1b7575673bea42c6c3da5"},
 ]
 
-[[package]]
-name = "pywin32"
-version = "227"
-description = "Python for Window Extensions"
-category = "main"
-optional = false
-python-versions = "*"
-files = [
-    {file = "pywin32-227-cp27-cp27m-win32.whl", hash = "sha256:371fcc39416d736401f0274dd64c2302728c9e034808e37381b5e1b22be4a6b0"},
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-    {file = "pywin32-227-cp38-cp38-win32.whl", hash = "sha256:7f18199fbf29ca99dff10e1f09451582ae9e372a892ff03a28528a24d55875bc"},
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-]
-
 [[package]]
 name = "pyyaml"
-version = "5.4.1"
+version = "6.0.1"
 description = "YAML parser and emitter for Python"
-category = "main"
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*"
+python-versions = ">=3.6"
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 description = "Makes it easy to respect rate limits."
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 optional = false
 python-versions = "*"
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@@ -1469,7 +1029,6 @@ decorator = "*"
 name = "readchar"
 version = "4.0.5"
 description = "Library to easily read single chars and key strokes"
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 optional = false
 python-versions = ">=3.7"
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@@ -1480,88 +1039,31 @@ files = [
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 name = "rsa"
 version = "4.9"
 description = "Pure-Python RSA implementation"
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 files = [
@@ -1572,46 +1074,26 @@ files = [
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-
 [[package]]
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 description = "Easily download, build, install, upgrade, and uninstall Python packages"
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 files = [
-    {file = "setuptools-67.7.2-py3-none-any.whl", hash = "sha256:23aaf86b85ca52ceb801d32703f12d77517b2556af839621c641fca11287952b"},
-    {file = "setuptools-67.7.2.tar.gz", hash = "sha256:f104fa03692a2602fa0fec6c6a9e63b6c8a968de13e17c026957dd1f53d80990"},
+    {file = "setuptools-68.0.0-py3-none-any.whl", hash = "sha256:11e52c67415a381d10d6b462ced9cfb97066179f0e871399e006c4ab101fc85f"},
+    {file = "setuptools-68.0.0.tar.gz", hash = "sha256:baf1fdb41c6da4cd2eae722e135500da913332ab3f2f5c7d33af9b492acb5235"},
 ]
 
 [package.extras]
 docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "pygments-github-lexers (==0.0.5)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-favicon", "sphinx-hoverxref (<2)", "sphinx-inline-tabs", "sphinx-lint", "sphinx-notfound-page (==0.8.3)", "sphinx-reredirects", "sphinxcontrib-towncrier"]
-testing = ["build[virtualenv]", "filelock (>=3.4.0)", "flake8 (<5)", "flake8-2020", "ini2toml[lite] (>=0.9)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pip (>=19.1)", "pip-run (>=8.8)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)", "pytest-perf", "pytest-timeout", "pytest-xdist", "tomli-w (>=1.0.0)", "virtualenv (>=13.0.0)", "wheel"]
+testing = ["build[virtualenv]", "filelock (>=3.4.0)", "flake8-2020", "ini2toml[lite] (>=0.9)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pip (>=19.1)", "pip-run (>=8.8)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-mypy (>=0.9.1)", "pytest-perf", "pytest-ruff", "pytest-timeout", "pytest-xdist", "tomli-w (>=1.0.0)", "virtualenv (>=13.0.0)", "wheel"]
 testing-integration = ["build[virtualenv]", "filelock (>=3.4.0)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pytest", "pytest-enabler", "pytest-xdist", "tomli", "virtualenv (>=13.0.0)", "wheel"]
 
 [[package]]
 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 = [
@@ -1621,182 +1103,43 @@ files = [
 
 [[package]]
 name = "smmap"
-version = "5.0.0"
+version = "5.0.1"
 description = "A pure Python implementation of a sliding window memory map manager"
-category = "main"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "smmap-5.0.0-py3-none-any.whl", hash = "sha256:2aba19d6a040e78d8b09de5c57e96207b09ed71d8e55ce0959eeee6c8e190d94"},
-    {file = "smmap-5.0.0.tar.gz", hash = "sha256:c840e62059cd3be204b0c9c9f74be2c09d5648eddd4580d9314c3ecde0b30936"},
-]
-
-[[package]]
-name = "soupsieve"
-version = "2.4.1"
-description = "A modern CSS selector implementation for Beautiful Soup."
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "soupsieve-2.4.1-py3-none-any.whl", hash = "sha256:1c1bfee6819544a3447586c889157365a27e10d88cde3ad3da0cf0ddf646feb8"},
-    {file = "soupsieve-2.4.1.tar.gz", hash = "sha256:89d12b2d5dfcd2c9e8c22326da9d9aa9cb3dfab0a83a024f05704076ee8d35ea"},
-]
-
-[[package]]
-name = "structlog"
-version = "19.2.0"
-description = "Structured Logging for Python"
-category = "main"
-optional = false
-python-versions = "*"
-files = [
-    {file = "structlog-19.2.0-py2.py3-none-any.whl", hash = "sha256:6640e6690fc31d5949bc614c1a630464d3aaa625284aeb7c6e486c3010d73e12"},
-    {file = "structlog-19.2.0.tar.gz", hash = "sha256:4287058cf4ce1a59bc5dea290d6386d37f29a37529c9a51cdf7387e51710152b"},
-]
-
-[package.dependencies]
-six = "*"
-
-[package.extras]
-azure-pipelines = ["coverage", "freezegun (>=0.2.8)", "pretend", "pytest (>=3.3.0)", "pytest-azurepipelines", "python-rapidjson", "simplejson"]
-dev = ["coverage", "freezegun (>=0.2.8)", "pre-commit", "pretend", "pytest (>=3.3.0)", "python-rapidjson", "simplejson", "sphinx", "twisted"]
-docs = ["sphinx", "twisted"]
-tests = ["coverage", "freezegun (>=0.2.8)", "pretend", "pytest (>=3.3.0)", "python-rapidjson", "simplejson"]
-
-[[package]]
-name = "tibanna"
-version = "3.3.1"
-description = "Tibanna runs portable pipelines (in CWL/WDL) on the AWS Cloud."
-category = "main"
-optional = false
-python-versions = ">=3.7,<3.9"
-files = [
-    {file = "tibanna-3.3.1-py3-none-any.whl", hash = "sha256:38f6e9da6008ffda617ba2dcc4f8eca178722622e4c6592af9d6474e53a146bb"},
-    {file = "tibanna-3.3.1.tar.gz", hash = "sha256:8e0f4762af32eb1580941056d69506280dbed7afc02905506326f002c7548ecf"},
+    {file = "smmap-5.0.1-py3-none-any.whl", hash = "sha256:e6d8668fa5f93e706934a62d7b4db19c8d9eb8cf2adbb75ef1b675aa332b69da"},
+    {file = "smmap-5.0.1.tar.gz", hash = "sha256:dceeb6c0028fdb6734471eb07c0cd2aae706ccaecab45965ee83f11c8d3b1f62"},
 ]
 
-[package.dependencies]
-Benchmark-4dn = ">=0.5.23,<0.6.0"
-boto3 = ">=1.9.0,<2.0.0"
-botocore = ">=1.12.1,<2.0.0"
-python-lambda-4dn = "0.12.3"
-requests = "2.27.1"
-tomlkit = ">=0.11.0,<0.12.0"
-
 [[package]]
 name = "tibanna-ff"
-version = "1.3.3"
+version = "2.0.1.1b1"
 description = "Tibanna runs portable pipelines (in CWL/WDL) on the AWS Cloud."
-category = "main"
-optional = false
-python-versions = ">=3.7,<3.9"
-files = [
-    {file = "tibanna_ff-1.3.3-py3-none-any.whl", hash = "sha256:80e51b7b0c88b5d03a94bf7e681f9ea18d054550f97db057ef420e0bf5f1440f"},
-    {file = "tibanna_ff-1.3.3.tar.gz", hash = "sha256:4d40da5c76a655b9f606650d49ffc50bd96525b7c864a50a7c39ea1c8880f0b2"},
-]
-
-[package.dependencies]
-boto3 = ">=1.9.0,<2.0.0"
-botocore = ">=1.12.1,<2.0.0"
-dcicutils = ">=7.0.0,<8.0.0"
-requests = "2.27.1"
-tibanna = ">=3.3.1,<4.0.0"
-tomlkit = ">=0.11.0,<0.12.0"
-
-[[package]]
-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 = [
-    {file = "toml-0.10.2-py2.py3-none-any.whl", hash = "sha256:806143ae5bfb6a3c6e736a764057db0e6a0e05e338b5630894a5f779cabb4f9b"},
-    {file = "toml-0.10.2.tar.gz", hash = "sha256:b3bda1d108d5dd99f4a20d24d9c348e91c4db7ab1b749200bded2f839ccbe68f"},
-]
-
-[[package]]
-name = "tomlkit"
-version = "0.11.8"
-description = "Style preserving TOML library"
-category = "main"
-optional = false
-python-versions = ">=3.7"
-files = [
-    {file = "tomlkit-0.11.8-py3-none-any.whl", hash = "sha256:8c726c4c202bdb148667835f68d68780b9a003a9ec34167b6c673b38eff2a171"},
-    {file = "tomlkit-0.11.8.tar.gz", hash = "sha256:9330fc7faa1db67b541b28e62018c17d20be733177d290a13b24c62d1614e0c3"},
-]
-
-[[package]]
-name = "tqdm"
-version = "4.65.0"
-description = "Fast, Extensible Progress Meter"
-category = "main"
-optional = false
-python-versions = ">=3.7"
-files = [
-    {file = "tqdm-4.65.0-py3-none-any.whl", hash = "sha256:c4f53a17fe37e132815abceec022631be8ffe1b9381c2e6e30aa70edc99e9671"},
-    {file = "tqdm-4.65.0.tar.gz", hash = "sha256:1871fb68a86b8fb3b59ca4cdd3dcccbc7e6d613eeed31f4c332531977b89beb5"},
-]
-
-[package.dependencies]
-colorama = {version = "*", markers = "platform_system == \"Windows\""}
+python-versions = "*"
+files = []
+develop = true
 
-[package.extras]
-dev = ["py-make (>=0.1.0)", "twine", "wheel"]
-notebook = ["ipywidgets (>=6)"]
-slack = ["slack-sdk"]
-telegram = ["requests"]
+[package.source]
+type = "directory"
+url = "../tibanna_ff"
 
 [[package]]
 name = "typing-extensions"
-version = "4.5.0"
+version = "4.7.1"
 description = "Backported and Experimental Type Hints for Python 3.7+"
-category = "main"
-optional = false
-python-versions = ">=3.7"
-files = [
-    {file = "typing_extensions-4.5.0-py3-none-any.whl", hash = "sha256:fb33085c39dd998ac16d1431ebc293a8b3eedd00fd4a32de0ff79002c19511b4"},
-    {file = "typing_extensions-4.5.0.tar.gz", hash = "sha256:5cb5f4a79139d699607b3ef622a1dedafa84e115ab0024e0d9c044a9479ca7cb"},
-]
-
-[[package]]
-name = "tzdata"
-version = "2023.3"
-description = "Provider of IANA time zone data"
-category = "main"
-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 = "tzlocal"
-version = "5.0.1"
-description = "tzinfo object for the local timezone"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "tzlocal-5.0.1-py3-none-any.whl", hash = "sha256:f3596e180296aaf2dbd97d124fe76ae3a0e3d32b258447de7b939b3fd4be992f"},
-    {file = "tzlocal-5.0.1.tar.gz", hash = "sha256:46eb99ad4bdb71f3f72b7d24f4267753e240944ecfc16f25d2719ba89827a803"},
+    {file = "typing_extensions-4.7.1-py3-none-any.whl", hash = "sha256:440d5dd3af93b060174bf433bccd69b0babc3b15b1a8dca43789fd7f61514b36"},
+    {file = "typing_extensions-4.7.1.tar.gz", hash = "sha256:b75ddc264f0ba5615db7ba217daeb99701ad295353c45f9e95963337ceeeffb2"},
 ]
 
-[package.dependencies]
-"backports.zoneinfo" = {version = "*", markers = "python_version < \"3.9\""}
-tzdata = {version = "*", markers = "platform_system == \"Windows\""}
-
-[package.extras]
-devenv = ["black", "check-manifest", "flake8", "pyroma", "pytest (>=4.3)", "pytest-cov", "pytest-mock (>=3.3)", "zest.releaser"]
-
 [[package]]
 name = "uritemplate"
 version = "3.0.1"
 description = "URI templates"
-category = "main"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 files = [
@@ -1806,14 +1149,13 @@ files = [
 
 [[package]]
 name = "urllib3"
-version = "1.26.15"
+version = "1.26.16"
 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.*"
 files = [
-    {file = "urllib3-1.26.15-py2.py3-none-any.whl", hash = "sha256:aa751d169e23c7479ce47a0cb0da579e3ede798f994f5816a74e4f4500dcea42"},
-    {file = "urllib3-1.26.15.tar.gz", hash = "sha256:8a388717b9476f934a21484e8c8e61875ab60644d29b9b39e11e4b9dc1c6b305"},
+    {file = "urllib3-1.26.16-py2.py3-none-any.whl", hash = "sha256:8d36afa7616d8ab714608411b4a3b13e58f463aee519024578e062e141dce20f"},
+    {file = "urllib3-1.26.16.tar.gz", hash = "sha256:8f135f6502756bde6b2a9b28989df5fbe87c9970cecaa69041edcce7f0589b14"},
 ]
 
 [package.extras]
@@ -1821,27 +1163,10 @@ 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)"]
 
-[[package]]
-name = "waitress"
-version = "2.1.2"
-description = "Waitress WSGI server"
-category = "main"
-optional = false
-python-versions = ">=3.7.0"
-files = [
-    {file = "waitress-2.1.2-py3-none-any.whl", hash = "sha256:7500c9625927c8ec60f54377d590f67b30c8e70ef4b8894214ac6e4cad233d2a"},
-    {file = "waitress-2.1.2.tar.gz", hash = "sha256:780a4082c5fbc0fde6a2fcfe5e26e6efc1e8f425730863c04085769781f51eba"},
-]
-
-[package.extras]
-docs = ["Sphinx (>=1.8.1)", "docutils", "pylons-sphinx-themes (>=1.0.9)"]
-testing = ["coverage (>=5.0)", "pytest", "pytest-cover"]
-
 [[package]]
 name = "wcwidth"
 version = "0.2.6"
 description = "Measures the displayed width of unicode strings in a terminal"
-category = "main"
 optional = false
 python-versions = "*"
 files = [
@@ -1849,81 +1174,24 @@ files = [
     {file = "wcwidth-0.2.6.tar.gz", hash = "sha256:a5220780a404dbe3353789870978e472cfe477761f06ee55077256e509b156d0"},
 ]
 
-[[package]]
-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 = [
-    {file = "WebOb-1.8.7-py2.py3-none-any.whl", hash = "sha256:73aae30359291c14fa3b956f8b5ca31960e420c28c1bec002547fb04928cf89b"},
-    {file = "WebOb-1.8.7.tar.gz", hash = "sha256:b64ef5141be559cfade448f044fa45c2260351edcb6a8ef6b7e00c7dcef0c323"},
-]
-
-[package.extras]
-docs = ["Sphinx (>=1.7.5)", "pylons-sphinx-themes"]
-testing = ["coverage", "pytest (>=3.1.0)", "pytest-cov", "pytest-xdist"]
-
-[[package]]
-name = "websocket-client"
-version = "1.6.1"
-description = "WebSocket client for Python with low level API options"
-category = "main"
-optional = false
-python-versions = ">=3.7"
-files = [
-    {file = "websocket-client-1.6.1.tar.gz", hash = "sha256:c951af98631d24f8df89ab1019fc365f2227c0892f12fd150e935607c79dd0dd"},
-    {file = "websocket_client-1.6.1-py3-none-any.whl", hash = "sha256:f1f9f2ad5291f0225a49efad77abf9e700b6fef553900623060dad6e26503b9d"},
-]
-
-[package.extras]
-docs = ["Sphinx (>=3.4)", "sphinx-rtd-theme (>=0.5)"]
-optional = ["python-socks", "wsaccel"]
-test = ["websockets"]
-
-[[package]]
-name = "webtest"
-version = "2.0.35"
-description = "Helper to test WSGI applications"
-category = "main"
-optional = false
-python-versions = "*"
-files = [
-    {file = "WebTest-2.0.35-py2.py3-none-any.whl", hash = "sha256:44ddfe99b5eca4cf07675e7222c81dd624d22f9a26035d2b93dc8862dc1153c6"},
-    {file = "WebTest-2.0.35.tar.gz", hash = "sha256:aac168b5b2b4f200af4e35867cf316712210e3d5db81c1cbdff38722647bb087"},
-]
-
-[package.dependencies]
-beautifulsoup4 = "*"
-six = "*"
-waitress = ">=0.8.5"
-WebOb = ">=1.2"
-
-[package.extras]
-docs = ["Sphinx (>=1.8.1)", "docutils", "pylons-sphinx-themes (>=1.0.8)"]
-tests = ["PasteDeploy", "WSGIProxy2", "coverage", "mock", "nose (<1.3.0)", "pyquery"]
-
 [[package]]
 name = "wheel"
-version = "0.40.0"
+version = "0.41.2"
 description = "A built-package format for Python"
-category = "dev"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "wheel-0.40.0-py3-none-any.whl", hash = "sha256:d236b20e7cb522daf2390fa84c55eea81c5c30190f90f29ae2ca1ad8355bf247"},
-    {file = "wheel-0.40.0.tar.gz", hash = "sha256:cd1196f3faee2b31968d626e1731c94f99cbdb67cf5a46e4f5656cbee7738873"},
+    {file = "wheel-0.41.2-py3-none-any.whl", hash = "sha256:75909db2664838d015e3d9139004ee16711748a52c8f336b52882266540215d8"},
+    {file = "wheel-0.41.2.tar.gz", hash = "sha256:0c5ac5ff2afb79ac23ab82bab027a0be7b5dbcf2e54dc50efe4bf507de1f7985"},
 ]
 
 [package.extras]
-test = ["pytest (>=6.0.0)"]
+test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 
 [[package]]
 name = "zipp"
 version = "3.15.0"
 description = "Backport of pathlib-compatible object wrapper for zip files"
-category = "main"
 optional = false
 python-versions = ">=3.7"
 files = [
@@ -1937,5 +1205,5 @@ testing = ["big-O", "flake8 (<5)", "jaraco.functools", "jaraco.itertools", "more
 
 [metadata]
 lock-version = "2.0"
-python-versions = ">=3.7.1,<3.8"
-content-hash = "b5ebf03d4a1d9495530a0ce430694198cb14f7dad71f25d90215d45dd380406c"
+python-versions = ">=3.7.1,<3.12"
+content-hash = "d7345f279e4090cdb7c1e541a75bfc6eca8b3afed0d9fca29bda56d8e827dd8e"
diff --git a/pyproject.toml b/pyproject.toml
index 12b125de..627d304d 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1"
+version = "3.6.1.1b1"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -9,10 +9,8 @@ packages = [
 ]
 
 [tool.poetry.dependencies]
-# Cannot go to Python 3.8 because cgap-pipeilne is stuck on Python 3.7.
-python = ">=3.7.1,<3.8"
-#dcicutils = "^7.5.1"
-dcicutils = "7.6.0.1b4"
+python = ">=3.7.1,<3.12"
+dcicutils = "7.12.0.1b1"
 click = "^7.1.2"
 PyJWT = "^2.5.0"
 Jinja2 = "2.10.1"
@@ -22,13 +20,13 @@ elasticsearch = "^7.13.4"
 elasticsearch-dsl = "^7.0.0"
 gitpython = "^3.1.2"
 pytz = "^2020.1"
-magma-suite = "^1.2.2"
-tibanna-ff = "^1.3.0"
+magma-suite = "1.5.0.1b2"
+tibanna-ff = "2.0.1.1b1"
 MarkupSafe = "1.1.1"
-foursight-core = "4.4.0"
+foursight-core = "4.5.0.1b1"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
-cgap-pipeline-utils = "23.0"
+portal-pipeline-utils = "2.1.0.1b1"
 pytest = "5.1.2"
 
 [tool.poetry.dev-dependencies]

From f83fa9ec7c14a0bc06c35a06e1ec11e50b3aa1e1 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Thu, 21 Sep 2023 07:52:35 -0400
Subject: [PATCH 02/30] poetry update

---
 poetry.lock    | 136 ++++++++++++++++++++++++-------------------------
 pyproject.toml |   9 ++--
 2 files changed, 73 insertions(+), 72 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index c154158e..787da9c0 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -60,13 +60,13 @@ wcwidth = ">=0.1.4"
 
 [[package]]
 name = "botocore"
-version = "1.31.51"
+version = "1.31.52"
 description = "Low-level, data-driven core of boto 3."
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "botocore-1.31.51-py3-none-any.whl", hash = "sha256:91dfb38801d45214875a892bd1e908fc7a894c2ed170bacd67e6929af72f2bd2"},
-    {file = "botocore-1.31.51.tar.gz", hash = "sha256:8e133add22f07b55d21e14176b97b82e993d5f9aca70f5b0cd0908cb105ba53a"},
+    {file = "botocore-1.31.52-py3-none-any.whl", hash = "sha256:46b0a75a38521aa6a75fddccb1542e002930e609d4e13516f40fef170d32e515"},
+    {file = "botocore-1.31.52.tar.gz", hash = "sha256:6d09881c5a8be34b497872ca3936f8757d886a6f42f2a8703411928189cfedc0"},
 ]
 
 [package.dependencies]
@@ -331,13 +331,13 @@ files = [
 
 [[package]]
 name = "elasticsearch"
-version = "7.17.9"
+version = "7.13.4"
 description = "Python client for Elasticsearch"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, <4"
 files = [
-    {file = "elasticsearch-7.17.9-py2.py3-none-any.whl", hash = "sha256:0e2454645dc00517dee4c6de3863411a9c5f1955d013c5fefa29123dadc92f98"},
-    {file = "elasticsearch-7.17.9.tar.gz", hash = "sha256:66c4ece2adfe7cc120e2b6a6798a1fd5c777aecf82eec39bb95cef7cfc7ea2b3"},
+    {file = "elasticsearch-7.13.4-py2.py3-none-any.whl", hash = "sha256:5920df0ab2630778680376d86bea349dc99860977eec9b6d2bd0860f337313f2"},
+    {file = "elasticsearch-7.13.4.tar.gz", hash = "sha256:52dda85f76eeb85ec873bf9ffe0ba6849e544e591f66d4048a5e48016de268e0"},
 ]
 
 [package.dependencies]
@@ -613,20 +613,20 @@ readchar = ">=3.0.6"
 
 [[package]]
 name = "jinja2"
-version = "2.10.1"
-description = "A small but fast and easy to use stand-alone template engine written in pure python."
+version = "3.1.2"
+description = "A very fast and expressive template engine."
 optional = false
-python-versions = "*"
+python-versions = ">=3.7"
 files = [
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-    {file = "Jinja2-2.10.1.tar.gz", hash = "sha256:065c4f02ebe7f7cf559e49ee5a95fb800a9e4528727aec6f24402a5374c65013"},
+    {file = "Jinja2-3.1.2-py3-none-any.whl", hash = "sha256:6088930bfe239f0e6710546ab9c19c9ef35e29792895fed6e6e31a023a182a61"},
+    {file = "Jinja2-3.1.2.tar.gz", hash = "sha256:31351a702a408a9e7595a8fc6150fc3f43bb6bf7e319770cbc0db9df9437e852"},
 ]
 
 [package.dependencies]
-MarkupSafe = ">=0.23"
+MarkupSafe = ">=2.0"
 
 [package.extras]
-i18n = ["Babel (>=0.8)"]
+i18n = ["Babel (>=2.7)"]
 
 [[package]]
 name = "jinxed"
@@ -668,63 +668,61 @@ url = "../magma"
 
 [[package]]
 name = "markupsafe"
-version = "1.1.1"
+version = "2.1.3"
 description = "Safely add untrusted strings to HTML/XML markup."
 optional = false
-python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*"
+python-versions = ">=3.7"
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+    {file = "MarkupSafe-2.1.3-cp38-cp38-macosx_10_9_universal2.whl", hash = "sha256:2ef12179d3a291be237280175b542c07a36e7f60718296278d8593d21ca937d4"},
+    {file = "MarkupSafe-2.1.3-cp38-cp38-macosx_10_9_x86_64.whl", hash = "sha256:2c1b19b3aaacc6e57b7e25710ff571c24d6c3613a45e905b1fde04d691b98ee0"},
+    {file = "MarkupSafe-2.1.3-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:8afafd99945ead6e075b973fefa56379c5b5c53fd8937dad92c662da5d8fd5ee"},
+    {file = "MarkupSafe-2.1.3-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:8c41976a29d078bb235fea9b2ecd3da465df42a562910f9022f1a03107bd02be"},
+    {file = "MarkupSafe-2.1.3-cp38-cp38-manylinux_2_5_i686.manylinux1_i686.manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:d080e0a5eb2529460b30190fcfcc4199bd7f827663f858a226a81bc27beaa97e"},
+    {file = "MarkupSafe-2.1.3-cp38-cp38-musllinux_1_1_aarch64.whl", hash = "sha256:69c0f17e9f5a7afdf2cc9fb2d1ce6aabdb3bafb7f38017c0b77862bcec2bbad8"},
+    {file = "MarkupSafe-2.1.3-cp38-cp38-musllinux_1_1_i686.whl", hash = "sha256:504b320cd4b7eff6f968eddf81127112db685e81f7e36e75f9f84f0df46041c3"},
+    {file = "MarkupSafe-2.1.3-cp38-cp38-musllinux_1_1_x86_64.whl", hash = "sha256:42de32b22b6b804f42c5d98be4f7e5e977ecdd9ee9b660fda1a3edf03b11792d"},
+    {file = "MarkupSafe-2.1.3-cp38-cp38-win32.whl", hash = "sha256:ceb01949af7121f9fc39f7d27f91be8546f3fb112c608bc4029aef0bab86a2a5"},
+    {file = "MarkupSafe-2.1.3-cp38-cp38-win_amd64.whl", hash = "sha256:1b40069d487e7edb2676d3fbdb2b0829ffa2cd63a2ec26c4938b2d34391b4ecc"},
+    {file = "MarkupSafe-2.1.3-cp39-cp39-macosx_10_9_universal2.whl", hash = "sha256:8023faf4e01efadfa183e863fefde0046de576c6f14659e8782065bcece22198"},
+    {file = "MarkupSafe-2.1.3-cp39-cp39-macosx_10_9_x86_64.whl", hash = "sha256:6b2b56950d93e41f33b4223ead100ea0fe11f8e6ee5f641eb753ce4b77a7042b"},
+    {file = "MarkupSafe-2.1.3-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:9dcdfd0eaf283af041973bff14a2e143b8bd64e069f4c383416ecd79a81aab58"},
+    {file = "MarkupSafe-2.1.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:05fb21170423db021895e1ea1e1f3ab3adb85d1c2333cbc2310f2a26bc77272e"},
+    {file = "MarkupSafe-2.1.3-cp39-cp39-manylinux_2_5_i686.manylinux1_i686.manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:282c2cb35b5b673bbcadb33a585408104df04f14b2d9b01d4c345a3b92861c2c"},
+    {file = "MarkupSafe-2.1.3-cp39-cp39-musllinux_1_1_aarch64.whl", hash = "sha256:ab4a0df41e7c16a1392727727e7998a467472d0ad65f3ad5e6e765015df08636"},
+    {file = "MarkupSafe-2.1.3-cp39-cp39-musllinux_1_1_i686.whl", hash = "sha256:7ef3cb2ebbf91e330e3bb937efada0edd9003683db6b57bb108c4001f37a02ea"},
+    {file = "MarkupSafe-2.1.3-cp39-cp39-musllinux_1_1_x86_64.whl", hash = "sha256:0a4e4a1aff6c7ac4cd55792abf96c915634c2b97e3cc1c7129578aa68ebd754e"},
+    {file = "MarkupSafe-2.1.3-cp39-cp39-win32.whl", hash = "sha256:fec21693218efe39aa7f8599346e90c705afa52c5b31ae019b2e57e8f6542bb2"},
+    {file = "MarkupSafe-2.1.3-cp39-cp39-win_amd64.whl", hash = "sha256:3fd4abcb888d15a94f32b75d8fd18ee162ca0c064f35b11134be77050296d6ba"},
+    {file = "MarkupSafe-2.1.3.tar.gz", hash = "sha256:af598ed32d6ae86f1b747b82783958b1a4ab8f617b06fe68795c7f026abbdcad"},
 ]
 
 [[package]]
@@ -1113,7 +1111,7 @@ files = [
 ]
 
 [[package]]
-name = "tibanna-ff"
+name = "tibanna_ff"
 version = "2.0.1.1b1"
 description = "Tibanna runs portable pipelines (in CWL/WDL) on the AWS Cloud."
 optional = false
@@ -1206,4 +1204,4 @@ testing = ["big-O", "flake8 (<5)", "jaraco.functools", "jaraco.itertools", "more
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.7.1,<3.12"
-content-hash = "d7345f279e4090cdb7c1e541a75bfc6eca8b3afed0d9fca29bda56d8e827dd8e"
+content-hash = "95736db441235fb32ec5e1ff390f4dd7ba92b7f820de6768a2470be8464945aa"
diff --git a/pyproject.toml b/pyproject.toml
index 627d304d..10f32634 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -13,16 +13,19 @@ python = ">=3.7.1,<3.12"
 dcicutils = "7.12.0.1b1"
 click = "^7.1.2"
 PyJWT = "^2.5.0"
-Jinja2 = "2.10.1"
+Jinja2 = "^3.1.2"
 google-api-python-client = "^1.12.5"
 geocoder = "1.38.1"
-elasticsearch = "^7.13.4"
+# elasticsearch 7.17.9 (at least) has a problem:
+# Error: "The client noticed that the server is not Elasticsearch and we do not support this unknown product"
+# https://stackoverflow.com/questions/68802324/elasticsearch-in-go-err-the-client-noticed-that-the-server-is-not-elasticsear
+elasticsearch = "7.13.4"
 elasticsearch-dsl = "^7.0.0"
 gitpython = "^3.1.2"
 pytz = "^2020.1"
 magma-suite = "1.5.0.1b2"
 tibanna-ff = "2.0.1.1b1"
-MarkupSafe = "1.1.1"
+MarkupSafe = "^2.1.3"
 foursight-core = "4.5.0.1b1"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }

From 346677c7c2f93e0a2867d153d1626491280da840 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Thu, 21 Sep 2023 11:00:44 -0400
Subject: [PATCH 03/30] Removed references to Python 3.7

---
 poetry.lock    | 859 +++++++++++++++++++++++++++++++++++++++++--------
 pyproject.toml |   2 +-
 2 files changed, 724 insertions(+), 137 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 787da9c0..599dab85 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -11,6 +11,17 @@ files = [
     {file = "ansicon-1.89.0.tar.gz", hash = "sha256:e4d039def5768a47e4afec8e89e83ec3ae5a26bf00ad851f914d1240b444d2b1"},
 ]
 
+[[package]]
+name = "async-timeout"
+version = "4.0.3"
+description = "Timeout context manager for asyncio programs"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "async-timeout-4.0.3.tar.gz", hash = "sha256:4640d96be84d82d02ed59ea2b7105a0f7b33abe8703703cd0ab0bf87c427522f"},
+    {file = "async_timeout-4.0.3-py3-none-any.whl", hash = "sha256:7405140ff1230c310e51dc27b3145b9092d659ce68ff733fb0cefe3ee42be028"},
+]
+
 [[package]]
 name = "atomicwrites"
 version = "1.4.1"
@@ -32,9 +43,6 @@ files = [
     {file = "attrs-23.1.0.tar.gz", hash = "sha256:6279836d581513a26f1bf235f9acd333bc9115683f14f7e8fae46c98fc50e015"},
 ]
 
-[package.dependencies]
-importlib-metadata = {version = "*", markers = "python_version < \"3.8\""}
-
 [package.extras]
 cov = ["attrs[tests]", "coverage[toml] (>=5.3)"]
 dev = ["attrs[docs,tests]", "pre-commit"]
@@ -42,6 +50,66 @@ docs = ["furo", "myst-parser", "sphinx", "sphinx-notfound-page", "sphinxcontrib-
 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]"]
 
+[[package]]
+name = "aws-requests-auth"
+version = "0.4.3"
+description = "AWS signature version 4 signing process for the python requests module"
+optional = false
+python-versions = "*"
+files = [
+    {file = "aws-requests-auth-0.4.3.tar.gz", hash = "sha256:33593372018b960a31dbbe236f89421678b885c35f0b6a7abfae35bb77e069b2"},
+    {file = "aws_requests_auth-0.4.3-py2.py3-none-any.whl", hash = "sha256:646bc37d62140ea1c709d20148f5d43197e6bd2d63909eb36fa4bb2345759977"},
+]
+
+[package.dependencies]
+requests = ">=0.14.0"
+
+[[package]]
+name = "backports-zoneinfo"
+version = "0.2.1"
+description = "Backport of the standard library zoneinfo module"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-macosx_10_14_x86_64.whl", hash = "sha256:da6013fd84a690242c310d77ddb8441a559e9cb3d3d59ebac9aca1a57b2e18bc"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_i686.whl", hash = "sha256:89a48c0d158a3cc3f654da4c2de1ceba85263fafb861b98b59040a5086259722"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_x86_64.whl", hash = "sha256:1c5742112073a563c81f786e77514969acb58649bcdf6cdf0b4ed31a348d4546"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-win32.whl", hash = "sha256:e8236383a20872c0cdf5a62b554b27538db7fa1bbec52429d8d106effbaeca08"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-win_amd64.whl", hash = "sha256:8439c030a11780786a2002261569bdf362264f605dfa4d65090b64b05c9f79a7"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-macosx_10_14_x86_64.whl", hash = "sha256:f04e857b59d9d1ccc39ce2da1021d196e47234873820cbeaad210724b1ee28ac"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-manylinux1_i686.whl", hash = "sha256:17746bd546106fa389c51dbea67c8b7c8f0d14b5526a579ca6ccf5ed72c526cf"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-manylinux1_x86_64.whl", hash = "sha256:5c144945a7752ca544b4b78c8c41544cdfaf9786f25fe5ffb10e838e19a27570"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-win32.whl", hash = "sha256:e55b384612d93be96506932a786bbcde5a2db7a9e6a4bb4bffe8b733f5b9036b"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-win_amd64.whl", hash = "sha256:a76b38c52400b762e48131494ba26be363491ac4f9a04c1b7e92483d169f6582"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-macosx_10_14_x86_64.whl", hash = "sha256:8961c0f32cd0336fb8e8ead11a1f8cd99ec07145ec2931122faaac1c8f7fd987"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-manylinux1_i686.whl", hash = "sha256:e81b76cace8eda1fca50e345242ba977f9be6ae3945af8d46326d776b4cf78d1"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-manylinux1_x86_64.whl", hash = "sha256:7b0a64cda4145548fed9efc10322770f929b944ce5cee6c0dfe0c87bf4c0c8c9"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-win32.whl", hash = "sha256:1b13e654a55cd45672cb54ed12148cd33628f672548f373963b0bff67b217328"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-win_amd64.whl", hash = "sha256:4a0f800587060bf8880f954dbef70de6c11bbe59c673c3d818921f042f9954a6"},
+    {file = "backports.zoneinfo-0.2.1.tar.gz", hash = "sha256:fadbfe37f74051d024037f223b8e001611eac868b5c5b06144ef4d8b799862f2"},
+]
+
+[package.extras]
+tzdata = ["tzdata"]
+
+[[package]]
+name = "beautifulsoup4"
+version = "4.12.2"
+description = "Screen-scraping library"
+optional = false
+python-versions = ">=3.6.0"
+files = [
+    {file = "beautifulsoup4-4.12.2-py3-none-any.whl", hash = "sha256:bd2520ca0d9d7d12694a53d44ac482d181b4ec1888909b035a3dbf40d0f57d4a"},
+    {file = "beautifulsoup4-4.12.2.tar.gz", hash = "sha256:492bbc69dca35d12daac71c4db1bfff0c876c00ef4a2ffacce226d4638eb72da"},
+]
+
+[package.dependencies]
+soupsieve = ">1.2"
+
+[package.extras]
+html5lib = ["html5lib"]
+lxml = ["lxml"]
+
 [[package]]
 name = "blessed"
 version = "1.20.0"
@@ -58,6 +126,25 @@ jinxed = {version = ">=1.1.0", markers = "platform_system == \"Windows\""}
 six = ">=1.9.0"
 wcwidth = ">=0.1.4"
 
+[[package]]
+name = "boto3"
+version = "1.28.52"
+description = "The AWS SDK for Python"
+optional = false
+python-versions = ">= 3.7"
+files = [
+    {file = "boto3-1.28.52-py3-none-any.whl", hash = "sha256:1d36db102517d62c6968b3b0636303241f56859d12dd071def4882fc6e030b20"},
+    {file = "boto3-1.28.52.tar.gz", hash = "sha256:a34fc153cb2f6fb2f79a764286c967392e8aae9412381d943bddc576c4f7631a"},
+]
+
+[package.dependencies]
+botocore = ">=1.31.52,<1.32.0"
+jmespath = ">=0.7.1,<2.0.0"
+s3transfer = ">=0.6.0,<0.7.0"
+
+[package.extras]
+crt = ["botocore[crt] (>=1.21.0,<2.0a0)"]
+
 [[package]]
 name = "botocore"
 version = "1.31.52"
@@ -99,6 +186,82 @@ files = [
     {file = "certifi-2023.7.22.tar.gz", hash = "sha256:539cc1d13202e33ca466e88b2807e29f4c13049d6d87031a3c110744495cb082"},
 ]
 
+[[package]]
+name = "cffi"
+version = "1.15.1"
+description = "Foreign Function Interface for Python calling C code."
+optional = false
+python-versions = "*"
+files = [
+    {file = "cffi-1.15.1-cp27-cp27m-macosx_10_9_x86_64.whl", hash = "sha256:a66d3508133af6e8548451b25058d5812812ec3798c886bf38ed24a98216fab2"},
+    {file = "cffi-1.15.1-cp27-cp27m-manylinux1_i686.whl", hash = "sha256:470c103ae716238bbe698d67ad020e1db9d9dba34fa5a899b5e21577e6d52ed2"},
+    {file = "cffi-1.15.1-cp27-cp27m-manylinux1_x86_64.whl", hash = "sha256:9ad5db27f9cabae298d151c85cf2bad1d359a1b9c686a275df03385758e2f914"},
+    {file = "cffi-1.15.1-cp27-cp27m-win32.whl", hash = "sha256:b3bbeb01c2b273cca1e1e0c5df57f12dce9a4dd331b4fa1635b8bec26350bde3"},
+    {file = "cffi-1.15.1-cp27-cp27m-win_amd64.whl", hash = "sha256:e00b098126fd45523dd056d2efba6c5a63b71ffe9f2bbe1a4fe1716e1d0c331e"},
+    {file = "cffi-1.15.1-cp27-cp27mu-manylinux1_i686.whl", hash = "sha256:d61f4695e6c866a23a21acab0509af1cdfd2c013cf256bbf5b6b5e2695827162"},
+    {file = "cffi-1.15.1-cp27-cp27mu-manylinux1_x86_64.whl", hash = "sha256:ed9cb427ba5504c1dc15ede7d516b84757c3e3d7868ccc85121d9310d27eed0b"},
+    {file = "cffi-1.15.1-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:39d39875251ca8f612b6f33e6b1195af86d1b3e60086068be9cc053aa4376e21"},
+    {file = "cffi-1.15.1-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:285d29981935eb726a4399badae8f0ffdff4f5050eaa6d0cfc3f64b857b77185"},
+    {file = "cffi-1.15.1-cp310-cp310-manylinux_2_12_i686.manylinux2010_i686.manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:3eb6971dcff08619f8d91607cfc726518b6fa2a9eba42856be181c6d0d9515fd"},
+    {file = "cffi-1.15.1-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:21157295583fe8943475029ed5abdcf71eb3911894724e360acff1d61c1d54bc"},
+    {file = "cffi-1.15.1-cp310-cp310-manylinux_2_17_ppc64le.manylinux2014_ppc64le.whl", hash = "sha256:5635bd9cb9731e6d4a1132a498dd34f764034a8ce60cef4f5319c0541159392f"},
+    {file = "cffi-1.15.1-cp310-cp310-manylinux_2_17_s390x.manylinux2014_s390x.whl", hash = "sha256:2012c72d854c2d03e45d06ae57f40d78e5770d252f195b93f581acf3ba44496e"},
+    {file = "cffi-1.15.1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:dd86c085fae2efd48ac91dd7ccffcfc0571387fe1193d33b6394db7ef31fe2a4"},
+    {file = "cffi-1.15.1-cp310-cp310-musllinux_1_1_i686.whl", hash = "sha256:fa6693661a4c91757f4412306191b6dc88c1703f780c8234035eac011922bc01"},
+    {file = "cffi-1.15.1-cp310-cp310-musllinux_1_1_x86_64.whl", hash = "sha256:59c0b02d0a6c384d453fece7566d1c7e6b7bae4fc5874ef2ef46d56776d61c9e"},
+    {file = "cffi-1.15.1-cp310-cp310-win32.whl", hash = "sha256:cba9d6b9a7d64d4bd46167096fc9d2f835e25d7e4c121fb2ddfc6528fb0413b2"},
+    {file = "cffi-1.15.1-cp310-cp310-win_amd64.whl", hash = "sha256:ce4bcc037df4fc5e3d184794f27bdaab018943698f4ca31630bc7f84a7b69c6d"},
+    {file = "cffi-1.15.1-cp311-cp311-macosx_10_9_x86_64.whl", hash = "sha256:3d08afd128ddaa624a48cf2b859afef385b720bb4b43df214f85616922e6a5ac"},
+    {file = "cffi-1.15.1-cp311-cp311-macosx_11_0_arm64.whl", hash = "sha256:3799aecf2e17cf585d977b780ce79ff0dc9b78d799fc694221ce814c2c19db83"},
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+    {file = "cffi-1.15.1-cp311-cp311-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:3548db281cd7d2561c9ad9984681c95f7b0e38881201e157833a2342c30d5e8c"},
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+sdist = ["setuptools-rust (>=0.11.4)"]
+ssh = ["bcrypt (>=3.1.5)"]
+test = ["hypothesis (>=1.11.4,!=3.79.2)", "iso8601", "pretend", "pytest (>=6.2.0)", "pytest-benchmark", "pytest-cov", "pytest-shard (>=0.1.2)", "pytest-subtests", "pytest-xdist", "pytz"]
+test-randomorder = ["pytest-randomly"]
+tox = ["tox"]
+
 [[package]]
 name = "dcicutils"
 version = "7.12.0.1b1"
 description = "Utility package for interacting with the 4DN Data Portal and other 4DN resources"
 optional = false
-python-versions = "*"
-files = []
-develop = true
+python-versions = ">=3.8,<3.12"
+files = [
+    {file = "dcicutils-7.12.0.1b1-py3-none-any.whl", hash = "sha256:05413a4dd208fec6dfe7e87a1581b6b78f9640c9eae289461277bbf1c34e2569"},
+    {file = "dcicutils-7.12.0.1b1.tar.gz", hash = "sha256:36860a1637e4935b64f46232909b58961df5dd4f6f404c72deb679407d61d1a7"},
+]
 
-[package.source]
-type = "directory"
-url = "../utils"
+[package.dependencies]
+aws-requests-auth = ">=0.4.2,<1"
+boto3 = ">=1.28.51,<2.0.0"
+botocore = ">=1.31.51,<2.0.0"
+docker = ">=4.4.4,<5.0.0"
+elasticsearch = "7.13.4"
+gitpython = ">=3.1.2,<4.0.0"
+opensearch-py = ">=2.0.1,<3.0.0"
+PyJWT = ">=2.6.0,<3.0.0"
+pyOpenSSL = ">=23.1.1,<24.0.0"
+pytz = ">=2020.4"
+PyYAML = ">=6.0.1,<7.0.0"
+redis = ">=4.5.1,<5.0.0"
+requests = ">=2.21.0,<3.0.0"
+rfc3986 = ">=1.4.0,<2.0.0"
+structlog = ">=19.2.0,<20.0.0"
+toml = ">=0.10.1,<1"
+tqdm = ">=4.65.0,<5.0.0"
+typing-extensions = ">=3.8"
+urllib3 = ">=1.26.6,<2.0.0"
+webtest = ">=2.0.34,<3.0.0"
 
 [[package]]
 name = "decorator"
@@ -329,6 +562,27 @@ files = [
     {file = "decorator-5.1.1.tar.gz", hash = "sha256:637996211036b6385ef91435e4fae22989472f9d571faba8927ba8253acbc330"},
 ]
 
+[[package]]
+name = "docker"
+version = "4.4.4"
+description = "A Python library for the Docker Engine API."
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+files = [
+    {file = "docker-4.4.4-py2.py3-none-any.whl", hash = "sha256:f3607d5695be025fa405a12aca2e5df702a57db63790c73b927eb6a94aac60af"},
+    {file = "docker-4.4.4.tar.gz", hash = "sha256:d3393c878f575d3a9ca3b94471a3c89a6d960b35feb92f033c0de36cc9d934db"},
+]
+
+[package.dependencies]
+pywin32 = {version = "227", markers = "sys_platform == \"win32\""}
+requests = ">=2.14.2,<2.18.0 || >2.18.0"
+six = ">=1.4.0"
+websocket-client = ">=0.32.0"
+
+[package.extras]
+ssh = ["paramiko (>=2.4.2)"]
+tls = ["cryptography (>=1.3.4)", "idna (>=2.0.0)", "pyOpenSSL (>=17.5.0)"]
+
 [[package]]
 name = "elasticsearch"
 version = "7.13.4"
@@ -385,13 +639,32 @@ name = "foursight-core"
 version = "4.5.0.1b1"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
-python-versions = "*"
-files = []
-develop = true
+python-versions = ">=3.8,<3.12"
+files = [
+    {file = "foursight_core-4.5.0.1b1-py3-none-any.whl", hash = "sha256:8af8f74e3c0e14026658e2b71c0c83bace0f3288a64dfac3c9316f1eabcda9ba"},
+    {file = "foursight_core-4.5.0.1b1.tar.gz", hash = "sha256:6924fb4212693beb3d23c25ce65451159f8553a67a7f2c5e2be0848b6d5b63b3"},
+]
 
-[package.source]
-type = "directory"
-url = "../foursight-core"
+[package.dependencies]
+click = ">=7.1.2,<8.0.0"
+cron-descriptor = ">=1.2.31,<2.0.0"
+cryptography = "39.0.2"
+dcicutils = "7.12.0.1b1"
+elasticsearch = "7.13.4"
+elasticsearch-dsl = ">=7.0.0,<8.0.0"
+geocoder = "1.38.1"
+gitpython = ">=3.1.2,<4.0.0"
+google = ">=3.0.0,<4.0.0"
+google-api-python-client = ">=1.12.5,<2.0.0"
+google-auth-oauthlib = ">=0.7.0,<0.8.0"
+Jinja2 = ">=3.1.2,<4.0.0"
+MarkupSafe = ">=2.1.3,<3.0.0"
+pyDes = ">=2.0.1,<3.0.0"
+PyJWT = ">=2.5.0,<3.0.0"
+pytz = ">=2020.1"
+redis = ">=4.5.1,<5.0.0"
+toml = ">=0.10.2,<1"
+tzlocal = ">=5.0.1,<6.0.0"
 
 [[package]]
 name = "future"
@@ -448,11 +721,24 @@ files = [
 
 [package.dependencies]
 gitdb = ">=4.0.1,<5"
-typing-extensions = {version = ">=3.7.4.3", markers = "python_version < \"3.8\""}
 
 [package.extras]
 test = ["black", "coverage[toml]", "ddt (>=1.1.1,!=1.4.3)", "mypy", "pre-commit", "pytest", "pytest-cov", "pytest-sugar", "virtualenv"]
 
+[[package]]
+name = "google"
+version = "3.0.0"
+description = "Python bindings to the Google search engine."
+optional = false
+python-versions = "*"
+files = [
+    {file = "google-3.0.0-py2.py3-none-any.whl", hash = "sha256:889cf695f84e4ae2c55fbc0cfdaf4c1e729417fa52ab1db0485202ba173e4935"},
+    {file = "google-3.0.0.tar.gz", hash = "sha256:143530122ee5130509ad5e989f0512f7cb218b2d4eddbafbad40fd10e8d8ccbe"},
+]
+
+[package.dependencies]
+beautifulsoup4 = "*"
+
 [[package]]
 name = "google-api-core"
 version = "2.11.1"
@@ -533,6 +819,24 @@ files = [
 google-auth = "*"
 httplib2 = ">=0.19.0"
 
+[[package]]
+name = "google-auth-oauthlib"
+version = "0.7.1"
+description = "Google Authentication Library"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "google-auth-oauthlib-0.7.1.tar.gz", hash = "sha256:9940f543f77d1447432a93781d7c931fb53e418023351ad4bf9e92837a1154ec"},
+    {file = "google_auth_oauthlib-0.7.1-py2.py3-none-any.whl", hash = "sha256:860e54c4b58b2664116c9cb44325bc0ec92bcd93e8211698ceea911b1b873b86"},
+]
+
+[package.dependencies]
+google-auth = ">=2.14.0"
+requests-oauthlib = ">=0.7.0"
+
+[package.extras]
+tool = ["click (>=6.0.0)"]
+
 [[package]]
 name = "googleapis-common-protos"
 version = "1.60.0"
@@ -575,26 +879,6 @@ files = [
     {file = "idna-3.4.tar.gz", hash = "sha256:814f528e8dead7d329833b91c5faa87d60bf71824cd12a7530b5526063d02cb4"},
 ]
 
-[[package]]
-name = "importlib-metadata"
-version = "6.7.0"
-description = "Read metadata from Python packages"
-optional = false
-python-versions = ">=3.7"
-files = [
-    {file = "importlib_metadata-6.7.0-py3-none-any.whl", hash = "sha256:cb52082e659e97afc5dac71e79de97d8681de3aa07ff18578330904a9d18e5b5"},
-    {file = "importlib_metadata-6.7.0.tar.gz", hash = "sha256:1aaf550d4f73e5d6783e7acb77aec43d49da8017410afae93822cc9cca98c4d4"},
-]
-
-[package.dependencies]
-typing-extensions = {version = ">=3.6.4", markers = "python_version < \"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"]
-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 (>=1.3)", "pytest-mypy (>=0.9.1)", "pytest-perf (>=0.9.2)", "pytest-ruff"]
-
 [[package]]
 name = "inquirer"
 version = "2.10.1"
@@ -727,15 +1011,55 @@ files = [
 
 [[package]]
 name = "more-itertools"
-version = "9.1.0"
+version = "10.1.0"
 description = "More routines for operating on iterables, beyond itertools"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
+files = [
+    {file = "more-itertools-10.1.0.tar.gz", hash = "sha256:626c369fa0eb37bac0291bce8259b332fd59ac792fa5497b59837309cd5b114a"},
+    {file = "more_itertools-10.1.0-py3-none-any.whl", hash = "sha256:64e0735fcfdc6f3464ea133afe8ea4483b1c5fe3a3d69852e6503b43a0b222e6"},
+]
+
+[[package]]
+name = "oauthlib"
+version = "3.2.2"
+description = "A generic, spec-compliant, thorough implementation of the OAuth request-signing logic"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "oauthlib-3.2.2-py3-none-any.whl", hash = "sha256:8139f29aac13e25d502680e9e19963e83f16838d48a0d71c287fe40e7067fbca"},
+    {file = "oauthlib-3.2.2.tar.gz", hash = "sha256:9859c40929662bec5d64f34d01c99e093149682a3f38915dc0655d5a633dd918"},
+]
+
+[package.extras]
+rsa = ["cryptography (>=3.0.0)"]
+signals = ["blinker (>=1.4.0)"]
+signedtoken = ["cryptography (>=3.0.0)", "pyjwt (>=2.0.0,<3)"]
+
+[[package]]
+name = "opensearch-py"
+version = "2.3.1"
+description = "Python client for OpenSearch"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, <4"
 files = [
-    {file = "more-itertools-9.1.0.tar.gz", hash = "sha256:cabaa341ad0389ea83c17a94566a53ae4c9d07349861ecb14dc6d0345cf9ac5d"},
-    {file = "more_itertools-9.1.0-py3-none-any.whl", hash = "sha256:d2bc7f02446e86a68911e58ded76d6561eea00cddfb2a91e7019bbb586c799f3"},
+    {file = "opensearch-py-2.3.1.tar.gz", hash = "sha256:f82a2e914835f7d645a632777de9a62d0c0de60ffd2f8cdae2ccfa4cfc40a185"},
+    {file = "opensearch_py-2.3.1-py2.py3-none-any.whl", hash = "sha256:eafbc5d56a7ca696afba7d77bcda1bbb849050cbf9265d57d8476576cb576395"},
 ]
 
+[package.dependencies]
+certifi = ">=2022.12.07"
+python-dateutil = "*"
+requests = ">=2.4.0,<3.0.0"
+six = "*"
+urllib3 = ">=1.21.1,<2"
+
+[package.extras]
+async = ["aiohttp (>=3,<4)"]
+develop = ["black", "botocore", "coverage (<7.0.0)", "jinja2", "mock", "myst-parser", "pytest (>=3.0.0)", "pytest-cov", "pytest-mock (<4.0.0)", "pytz", "pyyaml", "requests (>=2.0.0,<3.0.0)", "sphinx", "sphinx-copybutton", "sphinx-rtd-theme"]
+docs = ["myst-parser", "sphinx", "sphinx-copybutton", "sphinx-rtd-theme"]
+kerberos = ["requests-kerberos"]
+
 [[package]]
 name = "packaging"
 version = "23.1"
@@ -769,9 +1093,6 @@ files = [
     {file = "pluggy-0.13.1.tar.gz", hash = "sha256:15b2acde666561e1298d71b523007ed7364de07029219b604cf808bfa1c765b0"},
 ]
 
-[package.dependencies]
-importlib-metadata = {version = ">=0.12", markers = "python_version < \"3.8\""}
-
 [package.extras]
 dev = ["pre-commit", "tox"]
 
@@ -846,6 +1167,27 @@ files = [
 [package.dependencies]
 pyasn1 = ">=0.4.6,<0.6.0"
 
+[[package]]
+name = "pycparser"
+version = "2.21"
+description = "C parser in Python"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+files = [
+    {file = "pycparser-2.21-py2.py3-none-any.whl", hash = "sha256:8ee45429555515e1f6b185e78100aea234072576aa43ab53aefcae078162fca9"},
+    {file = "pycparser-2.21.tar.gz", hash = "sha256:e644fdec12f7872f86c58ff790da456218b10f863970249516d60a5eaca77206"},
+]
+
+[[package]]
+name = "pydes"
+version = "2.0.1"
+description = "Pure python implementation of DES and TRIPLE DES encryption algorithm"
+optional = false
+python-versions = "*"
+files = [
+    {file = "pyDes-2.0.1.tar.gz", hash = "sha256:e2ab8e21d2b83e90d90dbfdcb6fb8ac0000b813238b7ecaede04f8435c389012"},
+]
+
 [[package]]
 name = "pyjwt"
 version = "2.8.0"
@@ -857,15 +1199,30 @@ files = [
     {file = "PyJWT-2.8.0.tar.gz", hash = "sha256:57e28d156e3d5c10088e0c68abb90bfac3df82b40a71bd0daa20c65ccd5c23de"},
 ]
 
-[package.dependencies]
-typing-extensions = {version = "*", markers = "python_version <= \"3.7\""}
-
 [package.extras]
 crypto = ["cryptography (>=3.4.0)"]
 dev = ["coverage[toml] (==5.0.4)", "cryptography (>=3.4.0)", "pre-commit", "pytest (>=6.0.0,<7.0.0)", "sphinx (>=4.5.0,<5.0.0)", "sphinx-rtd-theme", "zope.interface"]
 docs = ["sphinx (>=4.5.0,<5.0.0)", "sphinx-rtd-theme", "zope.interface"]
 tests = ["coverage[toml] (==5.0.4)", "pytest (>=6.0.0,<7.0.0)"]
 
+[[package]]
+name = "pyopenssl"
+version = "23.2.0"
+description = "Python wrapper module around the OpenSSL library"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "pyOpenSSL-23.2.0-py3-none-any.whl", hash = "sha256:24f0dc5227396b3e831f4c7f602b950a5e9833d292c8e4a2e06b709292806ae2"},
+    {file = "pyOpenSSL-23.2.0.tar.gz", hash = "sha256:276f931f55a452e7dea69c7173e984eb2a4407ce413c918aa34b55f82f9b8bac"},
+]
+
+[package.dependencies]
+cryptography = ">=38.0.0,<40.0.0 || >40.0.0,<40.0.1 || >40.0.1,<42"
+
+[package.extras]
+docs = ["sphinx (!=5.2.0,!=5.2.0.post0)", "sphinx-rtd-theme"]
+test = ["flaky", "pretend", "pytest (>=3.0.1)"]
+
 [[package]]
 name = "pyparsing"
 version = "3.1.1"
@@ -895,7 +1252,6 @@ files = [
 atomicwrites = ">=1.0"
 attrs = ">=17.4.0"
 colorama = {version = "*", markers = "sys_platform == \"win32\""}
-importlib-metadata = {version = ">=0.12", markers = "python_version < \"3.8\""}
 more-itertools = ">=4.0.0"
 packaging = "*"
 pluggy = ">=0.12,<1.0"
@@ -960,6 +1316,27 @@ files = [
     {file = "pytz-2020.5.tar.gz", hash = "sha256:180befebb1927b16f6b57101720075a984c019ac16b1b7575673bea42c6c3da5"},
 ]
 
+[[package]]
+name = "pywin32"
+version = "227"
+description = "Python for Window Extensions"
+optional = false
+python-versions = "*"
+files = [
+    {file = "pywin32-227-cp27-cp27m-win32.whl", hash = "sha256:371fcc39416d736401f0274dd64c2302728c9e034808e37381b5e1b22be4a6b0"},
+    {file = "pywin32-227-cp27-cp27m-win_amd64.whl", hash = "sha256:4cdad3e84191194ea6d0dd1b1b9bdda574ff563177d2adf2b4efec2a244fa116"},
+    {file = "pywin32-227-cp35-cp35m-win32.whl", hash = "sha256:f4c5be1a293bae0076d93c88f37ee8da68136744588bc5e2be2f299a34ceb7aa"},
+    {file = "pywin32-227-cp35-cp35m-win_amd64.whl", hash = "sha256:a929a4af626e530383a579431b70e512e736e9588106715215bf685a3ea508d4"},
+    {file = "pywin32-227-cp36-cp36m-win32.whl", hash = "sha256:300a2db938e98c3e7e2093e4491439e62287d0d493fe07cce110db070b54c0be"},
+    {file = "pywin32-227-cp36-cp36m-win_amd64.whl", hash = "sha256:9b31e009564fb95db160f154e2aa195ed66bcc4c058ed72850d047141b36f3a2"},
+    {file = "pywin32-227-cp37-cp37m-win32.whl", hash = "sha256:47a3c7551376a865dd8d095a98deba954a98f326c6fe3c72d8726ca6e6b15507"},
+    {file = "pywin32-227-cp37-cp37m-win_amd64.whl", hash = "sha256:31f88a89139cb2adc40f8f0e65ee56a8c585f629974f9e07622ba80199057511"},
+    {file = "pywin32-227-cp38-cp38-win32.whl", hash = "sha256:7f18199fbf29ca99dff10e1f09451582ae9e372a892ff03a28528a24d55875bc"},
+    {file = "pywin32-227-cp38-cp38-win_amd64.whl", hash = "sha256:7c1ae32c489dc012930787f06244426f8356e129184a02c25aef163917ce158e"},
+    {file = "pywin32-227-cp39-cp39-win32.whl", hash = "sha256:c054c52ba46e7eb6b7d7dfae4dbd987a1bb48ee86debe3f245a2884ece46e295"},
+    {file = "pywin32-227-cp39-cp39-win_amd64.whl", hash = "sha256:f27cec5e7f588c3d1051651830ecc00294f90728d19c3bf6916e6dba93ea357c"},
+]
+
 [[package]]
 name = "pyyaml"
 version = "6.0.1"
@@ -1037,6 +1414,24 @@ files = [
 [package.dependencies]
 setuptools = ">=41.0"
 
+[[package]]
+name = "redis"
+version = "4.6.0"
+description = "Python client for Redis database and key-value store"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "redis-4.6.0-py3-none-any.whl", hash = "sha256:e2b03db868160ee4591de3cb90d40ebb50a90dd302138775937f6a42b7ed183c"},
+    {file = "redis-4.6.0.tar.gz", hash = "sha256:585dc516b9eb042a619ef0a39c3d7d55fe81bdb4df09a52c9cdde0d07bf1aa7d"},
+]
+
+[package.dependencies]
+async-timeout = {version = ">=4.0.2", markers = "python_full_version <= \"3.11.2\""}
+
+[package.extras]
+hiredis = ["hiredis (>=1.0.0)"]
+ocsp = ["cryptography (>=36.0.1)", "pyopenssl (==20.0.1)", "requests (>=2.26.0)"]
+
 [[package]]
 name = "requests"
 version = "2.31.0"
@@ -1058,6 +1453,38 @@ urllib3 = ">=1.21.1,<3"
 socks = ["PySocks (>=1.5.6,!=1.5.7)"]
 use-chardet-on-py3 = ["chardet (>=3.0.2,<6)"]
 
+[[package]]
+name = "requests-oauthlib"
+version = "1.3.1"
+description = "OAuthlib authentication support for Requests."
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+files = [
+    {file = "requests-oauthlib-1.3.1.tar.gz", hash = "sha256:75beac4a47881eeb94d5ea5d6ad31ef88856affe2332b9aafb52c6452ccf0d7a"},
+    {file = "requests_oauthlib-1.3.1-py2.py3-none-any.whl", hash = "sha256:2577c501a2fb8d05a304c09d090d6e47c306fef15809d102b327cf8364bddab5"},
+]
+
+[package.dependencies]
+oauthlib = ">=3.0.0"
+requests = ">=2.0.0"
+
+[package.extras]
+rsa = ["oauthlib[signedtoken] (>=3.0.0)"]
+
+[[package]]
+name = "rfc3986"
+version = "1.5.0"
+description = "Validating URI References per RFC 3986"
+optional = false
+python-versions = "*"
+files = [
+    {file = "rfc3986-1.5.0-py2.py3-none-any.whl", hash = "sha256:a86d6e1f5b1dc238b218b012df0aa79409667bb209e58da56d0b94704e712a97"},
+    {file = "rfc3986-1.5.0.tar.gz", hash = "sha256:270aaf10d87d0d4e095063c65bf3ddbc6ee3d0b226328ce21e036f946e421835"},
+]
+
+[package.extras]
+idna2008 = ["idna"]
+
 [[package]]
 name = "rsa"
 version = "4.9"
@@ -1072,21 +1499,38 @@ files = [
 [package.dependencies]
 pyasn1 = ">=0.1.3"
 
+[[package]]
+name = "s3transfer"
+version = "0.6.2"
+description = "An Amazon S3 Transfer Manager"
+optional = false
+python-versions = ">= 3.7"
+files = [
+    {file = "s3transfer-0.6.2-py3-none-any.whl", hash = "sha256:b014be3a8a2aab98cfe1abc7229cc5a9a0cf05eb9c1f2b86b230fd8df3f78084"},
+    {file = "s3transfer-0.6.2.tar.gz", hash = "sha256:cab66d3380cca3e70939ef2255d01cd8aece6a4907a9528740f668c4b0611861"},
+]
+
+[package.dependencies]
+botocore = ">=1.12.36,<2.0a.0"
+
+[package.extras]
+crt = ["botocore[crt] (>=1.20.29,<2.0a.0)"]
+
 [[package]]
 name = "setuptools"
-version = "68.0.0"
+version = "68.2.2"
 description = "Easily download, build, install, upgrade, and uninstall Python packages"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 files = [
-    {file = "setuptools-68.0.0-py3-none-any.whl", hash = "sha256:11e52c67415a381d10d6b462ced9cfb97066179f0e871399e006c4ab101fc85f"},
-    {file = "setuptools-68.0.0.tar.gz", hash = "sha256:baf1fdb41c6da4cd2eae722e135500da913332ab3f2f5c7d33af9b492acb5235"},
+    {file = "setuptools-68.2.2-py3-none-any.whl", hash = "sha256:b454a35605876da60632df1a60f736524eb73cc47bbc9f3f1ef1b644de74fd2a"},
+    {file = "setuptools-68.2.2.tar.gz", hash = "sha256:4ac1475276d2f1c48684874089fefcd83bd7162ddaafb81fac866ba0db282a87"},
 ]
 
 [package.extras]
-docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "pygments-github-lexers (==0.0.5)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-favicon", "sphinx-hoverxref (<2)", "sphinx-inline-tabs", "sphinx-lint", "sphinx-notfound-page (==0.8.3)", "sphinx-reredirects", "sphinxcontrib-towncrier"]
-testing = ["build[virtualenv]", "filelock (>=3.4.0)", "flake8-2020", "ini2toml[lite] (>=0.9)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pip (>=19.1)", "pip-run (>=8.8)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-mypy (>=0.9.1)", "pytest-perf", "pytest-ruff", "pytest-timeout", "pytest-xdist", "tomli-w (>=1.0.0)", "virtualenv (>=13.0.0)", "wheel"]
-testing-integration = ["build[virtualenv]", "filelock (>=3.4.0)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pytest", "pytest-enabler", "pytest-xdist", "tomli", "virtualenv (>=13.0.0)", "wheel"]
+docs = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "pygments-github-lexers (==0.0.5)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-favicon", "sphinx-hoverxref (<2)", "sphinx-inline-tabs", "sphinx-lint", "sphinx-notfound-page (>=1,<2)", "sphinx-reredirects", "sphinxcontrib-towncrier"]
+testing = ["build[virtualenv]", "filelock (>=3.4.0)", "flake8-2020", "ini2toml[lite] (>=0.9)", "jaraco.develop (>=7.21)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pip (>=19.1)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=2.2)", "pytest-mypy (>=0.9.1)", "pytest-perf", "pytest-ruff", "pytest-timeout", "pytest-xdist", "tomli-w (>=1.0.0)", "virtualenv (>=13.0.0)", "wheel"]
+testing-integration = ["build[virtualenv] (>=1.0.3)", "filelock (>=3.4.0)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "packaging (>=23.1)", "pytest", "pytest-enabler", "pytest-xdist", "tomli", "virtualenv (>=13.0.0)", "wheel"]
 
 [[package]]
 name = "six"
@@ -1110,6 +1554,37 @@ files = [
     {file = "smmap-5.0.1.tar.gz", hash = "sha256:dceeb6c0028fdb6734471eb07c0cd2aae706ccaecab45965ee83f11c8d3b1f62"},
 ]
 
+[[package]]
+name = "soupsieve"
+version = "2.5"
+description = "A modern CSS selector implementation for Beautiful Soup."
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "soupsieve-2.5-py3-none-any.whl", hash = "sha256:eaa337ff55a1579b6549dc679565eac1e3d000563bcb1c8ab0d0fefbc0c2cdc7"},
+    {file = "soupsieve-2.5.tar.gz", hash = "sha256:5663d5a7b3bfaeee0bc4372e7fc48f9cff4940b3eec54a6451cc5299f1097690"},
+]
+
+[[package]]
+name = "structlog"
+version = "19.2.0"
+description = "Structured Logging for Python"
+optional = false
+python-versions = "*"
+files = [
+    {file = "structlog-19.2.0-py2.py3-none-any.whl", hash = "sha256:6640e6690fc31d5949bc614c1a630464d3aaa625284aeb7c6e486c3010d73e12"},
+    {file = "structlog-19.2.0.tar.gz", hash = "sha256:4287058cf4ce1a59bc5dea290d6386d37f29a37529c9a51cdf7387e51710152b"},
+]
+
+[package.dependencies]
+six = "*"
+
+[package.extras]
+azure-pipelines = ["coverage", "freezegun (>=0.2.8)", "pretend", "pytest (>=3.3.0)", "pytest-azurepipelines", "python-rapidjson", "simplejson"]
+dev = ["coverage", "freezegun (>=0.2.8)", "pre-commit", "pretend", "pytest (>=3.3.0)", "python-rapidjson", "simplejson", "sphinx", "twisted"]
+docs = ["sphinx", "twisted"]
+tests = ["coverage", "freezegun (>=0.2.8)", "pretend", "pytest (>=3.3.0)", "python-rapidjson", "simplejson"]
+
 [[package]]
 name = "tibanna_ff"
 version = "2.0.1.1b1"
@@ -1123,17 +1598,77 @@ develop = true
 type = "directory"
 url = "../tibanna_ff"
 
+[[package]]
+name = "toml"
+version = "0.10.2"
+description = "Python Library for Tom's Obvious, Minimal Language"
+optional = false
+python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*"
+files = [
+    {file = "toml-0.10.2-py2.py3-none-any.whl", hash = "sha256:806143ae5bfb6a3c6e736a764057db0e6a0e05e338b5630894a5f779cabb4f9b"},
+    {file = "toml-0.10.2.tar.gz", hash = "sha256:b3bda1d108d5dd99f4a20d24d9c348e91c4db7ab1b749200bded2f839ccbe68f"},
+]
+
+[[package]]
+name = "tqdm"
+version = "4.66.1"
+description = "Fast, Extensible Progress Meter"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "tqdm-4.66.1-py3-none-any.whl", hash = "sha256:d302b3c5b53d47bce91fea46679d9c3c6508cf6332229aa1e7d8653723793386"},
+    {file = "tqdm-4.66.1.tar.gz", hash = "sha256:d88e651f9db8d8551a62556d3cff9e3034274ca5d66e93197cf2490e2dcb69c7"},
+]
+
+[package.dependencies]
+colorama = {version = "*", markers = "platform_system == \"Windows\""}
+
+[package.extras]
+dev = ["pytest (>=6)", "pytest-cov", "pytest-timeout", "pytest-xdist"]
+notebook = ["ipywidgets (>=6)"]
+slack = ["slack-sdk"]
+telegram = ["requests"]
+
 [[package]]
 name = "typing-extensions"
-version = "4.7.1"
-description = "Backported and Experimental Type Hints for Python 3.7+"
+version = "4.8.0"
+description = "Backported and Experimental Type Hints for Python 3.8+"
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "typing_extensions-4.8.0-py3-none-any.whl", hash = "sha256:8f92fc8806f9a6b641eaa5318da32b44d401efaac0f6678c9bc448ba3605faa0"},
+    {file = "typing_extensions-4.8.0.tar.gz", hash = "sha256:df8e4339e9cb77357558cbdbceca33c303714cf861d1eef15e1070055ae8b7ef"},
+]
+
+[[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 = "tzlocal"
+version = "5.0.1"
+description = "tzinfo object for the local timezone"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "typing_extensions-4.7.1-py3-none-any.whl", hash = "sha256:440d5dd3af93b060174bf433bccd69b0babc3b15b1a8dca43789fd7f61514b36"},
-    {file = "typing_extensions-4.7.1.tar.gz", hash = "sha256:b75ddc264f0ba5615db7ba217daeb99701ad295353c45f9e95963337ceeeffb2"},
+    {file = "tzlocal-5.0.1-py3-none-any.whl", hash = "sha256:f3596e180296aaf2dbd97d124fe76ae3a0e3d32b258447de7b939b3fd4be992f"},
+    {file = "tzlocal-5.0.1.tar.gz", hash = "sha256:46eb99ad4bdb71f3f72b7d24f4267753e240944ecfc16f25d2719ba89827a803"},
 ]
 
+[package.dependencies]
+"backports.zoneinfo" = {version = "*", markers = "python_version < \"3.9\""}
+tzdata = {version = "*", markers = "platform_system == \"Windows\""}
+
+[package.extras]
+devenv = ["black", "check-manifest", "flake8", "pyroma", "pytest (>=4.3)", "pytest-cov", "pytest-mock (>=3.3)", "zest.releaser"]
+
 [[package]]
 name = "uritemplate"
 version = "3.0.1"
@@ -1161,6 +1696,21 @@ 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)"]
 
+[[package]]
+name = "waitress"
+version = "2.1.2"
+description = "Waitress WSGI server"
+optional = false
+python-versions = ">=3.7.0"
+files = [
+    {file = "waitress-2.1.2-py3-none-any.whl", hash = "sha256:7500c9625927c8ec60f54377d590f67b30c8e70ef4b8894214ac6e4cad233d2a"},
+    {file = "waitress-2.1.2.tar.gz", hash = "sha256:780a4082c5fbc0fde6a2fcfe5e26e6efc1e8f425730863c04085769781f51eba"},
+]
+
+[package.extras]
+docs = ["Sphinx (>=1.8.1)", "docutils", "pylons-sphinx-themes (>=1.0.9)"]
+testing = ["coverage (>=5.0)", "pytest", "pytest-cover"]
+
 [[package]]
 name = "wcwidth"
 version = "0.2.6"
@@ -1173,35 +1723,72 @@ files = [
 ]
 
 [[package]]
-name = "wheel"
-version = "0.41.2"
-description = "A built-package format for Python"
+name = "webob"
+version = "1.8.7"
+description = "WSGI request and response object"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*"
 files = [
-    {file = "wheel-0.41.2-py3-none-any.whl", hash = "sha256:75909db2664838d015e3d9139004ee16711748a52c8f336b52882266540215d8"},
-    {file = "wheel-0.41.2.tar.gz", hash = "sha256:0c5ac5ff2afb79ac23ab82bab027a0be7b5dbcf2e54dc50efe4bf507de1f7985"},
+    {file = "WebOb-1.8.7-py2.py3-none-any.whl", hash = "sha256:73aae30359291c14fa3b956f8b5ca31960e420c28c1bec002547fb04928cf89b"},
+    {file = "WebOb-1.8.7.tar.gz", hash = "sha256:b64ef5141be559cfade448f044fa45c2260351edcb6a8ef6b7e00c7dcef0c323"},
 ]
 
 [package.extras]
-test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
+docs = ["Sphinx (>=1.7.5)", "pylons-sphinx-themes"]
+testing = ["coverage", "pytest (>=3.1.0)", "pytest-cov", "pytest-xdist"]
+
+[[package]]
+name = "websocket-client"
+version = "1.6.3"
+description = "WebSocket client for Python with low level API options"
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "websocket-client-1.6.3.tar.gz", hash = "sha256:3aad25d31284266bcfcfd1fd8a743f63282305a364b8d0948a43bd606acc652f"},
+    {file = "websocket_client-1.6.3-py3-none-any.whl", hash = "sha256:6cfc30d051ebabb73a5fa246efdcc14c8fbebbd0330f8984ac3bb6d9edd2ad03"},
+]
+
+[package.extras]
+docs = ["Sphinx (>=6.0)", "sphinx-rtd-theme (>=1.1.0)"]
+optional = ["python-socks", "wsaccel"]
+test = ["websockets"]
 
 [[package]]
-name = "zipp"
-version = "3.15.0"
-description = "Backport of pathlib-compatible object wrapper for zip files"
+name = "webtest"
+version = "2.0.35"
+description = "Helper to test WSGI applications"
+optional = false
+python-versions = "*"
+files = [
+    {file = "WebTest-2.0.35-py2.py3-none-any.whl", hash = "sha256:44ddfe99b5eca4cf07675e7222c81dd624d22f9a26035d2b93dc8862dc1153c6"},
+    {file = "WebTest-2.0.35.tar.gz", hash = "sha256:aac168b5b2b4f200af4e35867cf316712210e3d5db81c1cbdff38722647bb087"},
+]
+
+[package.dependencies]
+beautifulsoup4 = "*"
+six = "*"
+waitress = ">=0.8.5"
+WebOb = ">=1.2"
+
+[package.extras]
+docs = ["Sphinx (>=1.8.1)", "docutils", "pylons-sphinx-themes (>=1.0.8)"]
+tests = ["PasteDeploy", "WSGIProxy2", "coverage", "mock", "nose (<1.3.0)", "pyquery"]
+
+[[package]]
+name = "wheel"
+version = "0.41.2"
+description = "A built-package format for Python"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "zipp-3.15.0-py3-none-any.whl", hash = "sha256:48904fc76a60e542af151aded95726c1a5c34ed43ab4134b597665c86d7ad556"},
-    {file = "zipp-3.15.0.tar.gz", hash = "sha256:112929ad649da941c23de50f356a2b5570c954b65150642bccdd66bf194d224b"},
+    {file = "wheel-0.41.2-py3-none-any.whl", hash = "sha256:75909db2664838d015e3d9139004ee16711748a52c8f336b52882266540215d8"},
+    {file = "wheel-0.41.2.tar.gz", hash = "sha256:0c5ac5ff2afb79ac23ab82bab027a0be7b5dbcf2e54dc50efe4bf507de1f7985"},
 ]
 
 [package.extras]
-docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"]
-testing = ["big-O", "flake8 (<5)", "jaraco.functools", "jaraco.itertools", "more-itertools", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)"]
+test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 
 [metadata]
 lock-version = "2.0"
-python-versions = ">=3.7.1,<3.12"
-content-hash = "95736db441235fb32ec5e1ff390f4dd7ba92b7f820de6768a2470be8464945aa"
+python-versions = ">=3.8,<3.12"
+content-hash = "4d34385ac655cff831c147f0954d6a21308a7822cd1cd38a80e759ce3ff955cb"
diff --git a/pyproject.toml b/pyproject.toml
index 10f32634..95ec31a9 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -9,7 +9,7 @@ packages = [
 ]
 
 [tool.poetry.dependencies]
-python = ">=3.7.1,<3.12"
+python = ">=3.8,<3.12"
 dcicutils = "7.12.0.1b1"
 click = "^7.1.2"
 PyJWT = "^2.5.0"

From 6dbd3e4e46221de61b898b2c8dd1d63cc7b4e4e6 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Thu, 21 Sep 2023 13:08:39 -0400
Subject: [PATCH 04/30] Update versions for magma-suite, dcicutils, tibanna-ff,
 foursight-core, pytest, pytest-redis, pytest-cov; removed
 portal-pipeline-utils dependency.

---
 poetry.lock    | 410 +++++++++++++++++++++++++++----------------------
 pyproject.toml |  16 +-
 2 files changed, 238 insertions(+), 188 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 599dab85..3fbc4546 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -22,34 +22,6 @@ files = [
     {file = "async_timeout-4.0.3-py3-none-any.whl", hash = "sha256:7405140ff1230c310e51dc27b3145b9092d659ce68ff733fb0cefe3ee42be028"},
 ]
 
-[[package]]
-name = "atomicwrites"
-version = "1.4.1"
-description = "Atomic file writes."
-optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
-files = [
-    {file = "atomicwrites-1.4.1.tar.gz", hash = "sha256:81b2c9071a49367a7f770170e5eec8cb66567cfbbc8c73d20ce5ca4a8d71cf11"},
-]
-
-[[package]]
-name = "attrs"
-version = "23.1.0"
-description = "Classes Without Boilerplate"
-optional = false
-python-versions = ">=3.7"
-files = [
-    {file = "attrs-23.1.0-py3-none-any.whl", hash = "sha256:1f28b4522cdc2fb4256ac1a020c78acf9cba2c6b461ccd2c126f3aa8e8335d04"},
-    {file = "attrs-23.1.0.tar.gz", hash = "sha256:6279836d581513a26f1bf235f9acd333bc9115683f14f7e8fae46c98fc50e015"},
-]
-
-[package.extras]
-cov = ["attrs[tests]", "coverage[toml] (>=5.3)"]
-dev = ["attrs[docs,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]"]
-
 [[package]]
 name = "aws-requests-auth"
 version = "0.4.3"
@@ -110,6 +82,17 @@ soupsieve = ">1.2"
 html5lib = ["html5lib"]
 lxml = ["lxml"]
 
+[[package]]
+name = "benchmark-4dn"
+version = "0.5.23"
+description = "Benchmark functions that returns total space, mem, cpu given input size and parameters for the CWL workflows"
+optional = false
+python-versions = ">=3.5,<4.0"
+files = [
+    {file = "Benchmark-4dn-0.5.23.tar.gz", hash = "sha256:f17a02c5cd9669f96ea65cb31603106bb77a0a01775b4fd2983a95ab66ee7b7c"},
+    {file = "benchmark_4dn-0.5.23-py3-none-any.whl", hash = "sha256:bd8aa8c252e868f1d7afa2c2003e1148f409e6dc825af5656f37cd5fec30e2c3"},
+]
+
 [[package]]
 name = "blessed"
 version = "1.20.0"
@@ -292,88 +275,18 @@ event-file-poller = ["watchdog (==2.3.1)"]
 
 [[package]]
 name = "charset-normalizer"
-version = "3.2.0"
+version = "2.0.12"
 description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet."
 optional = false
-python-versions = ">=3.7.0"
+python-versions = ">=3.5.0"
 files = [
-    {file = "charset-normalizer-3.2.0.tar.gz", hash = "sha256:3bb3d25a8e6c0aedd251753a79ae98a093c7e7b471faa3aa9a93a81431987ace"},
-    {file = "charset_normalizer-3.2.0-cp310-cp310-macosx_10_9_universal2.whl", hash = "sha256:0b87549028f680ca955556e3bd57013ab47474c3124dc069faa0b6545b6c9710"},
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+    {file = "charset-normalizer-2.0.12.tar.gz", hash = "sha256:2857e29ff0d34db842cd7ca3230549d1a697f96ee6d3fb071cfa6c7393832597"},
+    {file = "charset_normalizer-2.0.12-py3-none-any.whl", hash = "sha256:6881edbebdb17b39b4eaaa821b438bf6eddffb4468cf344f09f89def34a8b1df"},
 ]
 
+[package.extras]
+unicode-backport = ["unicodedata2"]
+
 [[package]]
 name = "click"
 version = "7.1.2"
@@ -457,6 +370,9 @@ files = [
     {file = "coverage-7.3.1.tar.gz", hash = "sha256:6cb7fe1581deb67b782c153136541e20901aa312ceedaf1467dcb35255787952"},
 ]
 
+[package.dependencies]
+tomli = {version = "*", optional = true, markers = "python_full_version <= \"3.11.0a6\" and extra == \"toml\""}
+
 [package.extras]
 toml = ["tomli"]
 
@@ -520,13 +436,13 @@ tox = ["tox"]
 
 [[package]]
 name = "dcicutils"
-version = "7.12.0.1b1"
+version = "7.12.0.1b5"
 description = "Utility package for interacting with the 4DN Data Portal and other 4DN resources"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "dcicutils-7.12.0.1b1-py3-none-any.whl", hash = "sha256:05413a4dd208fec6dfe7e87a1581b6b78f9640c9eae289461277bbf1c34e2569"},
-    {file = "dcicutils-7.12.0.1b1.tar.gz", hash = "sha256:36860a1637e4935b64f46232909b58961df5dd4f6f404c72deb679407d61d1a7"},
+    {file = "dcicutils-7.12.0.1b5-py3-none-any.whl", hash = "sha256:0a35b364a9c2d5d443a220a9146071d967c44291d35fb84b9a47815b06a20a2e"},
+    {file = "dcicutils-7.12.0.1b5.tar.gz", hash = "sha256:76484921d7def94a54a30b05a56faf28f3956815c6de7d093f9fc59e30743b30"},
 ]
 
 [package.dependencies]
@@ -583,6 +499,17 @@ websocket-client = ">=0.32.0"
 ssh = ["paramiko (>=2.4.2)"]
 tls = ["cryptography (>=1.3.4)", "idna (>=2.0.0)", "pyOpenSSL (>=17.5.0)"]
 
+[[package]]
+name = "docutils"
+version = "0.20.1"
+description = "Docutils -- Python Documentation Utilities"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "docutils-0.20.1-py3-none-any.whl", hash = "sha256:96f387a2c5562db4476f09f13bbab2192e764cac08ebbf3a34a95d9b1e4a59d6"},
+    {file = "docutils-0.20.1.tar.gz", hash = "sha256:f08a4e276c3a1583a86dce3e34aba3fe04d02bba2dd51ed16106244e8a923e3b"},
+]
+
 [[package]]
 name = "elasticsearch"
 version = "7.13.4"
@@ -623,6 +550,20 @@ six = "*"
 [package.extras]
 develop = ["coverage (<5.0.0)", "mock", "pytest (>=3.0.0)", "pytest-cov", "pytest-mock (<3.0.0)", "pytz", "sphinx", "sphinx-rtd-theme"]
 
+[[package]]
+name = "exceptiongroup"
+version = "1.1.3"
+description = "Backport of PEP 654 (exception groups)"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "exceptiongroup-1.1.3-py3-none-any.whl", hash = "sha256:343280667a4585d195ca1cf9cef84a4e178c4b6cf2274caef9859782b567d5e3"},
+    {file = "exceptiongroup-1.1.3.tar.gz", hash = "sha256:097acd85d473d75af5bb98e41b61ff7fe35efe6675e4f9370ec6ec5126d160e9"},
+]
+
+[package.extras]
+test = ["pytest (>=6)"]
+
 [[package]]
 name = "flaky"
 version = "3.6.1"
@@ -636,20 +577,20 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b1"
+version = "4.5.0.1b2"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b1-py3-none-any.whl", hash = "sha256:8af8f74e3c0e14026658e2b71c0c83bace0f3288a64dfac3c9316f1eabcda9ba"},
-    {file = "foursight_core-4.5.0.1b1.tar.gz", hash = "sha256:6924fb4212693beb3d23c25ce65451159f8553a67a7f2c5e2be0848b6d5b63b3"},
+    {file = "foursight_core-4.5.0.1b2-py3-none-any.whl", hash = "sha256:c856cac3bca4272e4f9cad5371c324d31ad3d4bb59cab3c1047456c2b49aa666"},
+    {file = "foursight_core-4.5.0.1b2.tar.gz", hash = "sha256:742161caf848b598f320e771b393af809ab9068848e3e080843a1ec80ab96318"},
 ]
 
 [package.dependencies]
 click = ">=7.1.2,<8.0.0"
 cron-descriptor = ">=1.2.31,<2.0.0"
 cryptography = "39.0.2"
-dcicutils = "7.12.0.1b1"
+dcicutils = "7.12.0.1b5"
 elasticsearch = "7.13.4"
 elasticsearch-dsl = ">=7.0.0,<8.0.0"
 geocoder = "1.38.1"
@@ -879,6 +820,17 @@ files = [
     {file = "idna-3.4.tar.gz", hash = "sha256:814f528e8dead7d329833b91c5faa87d60bf71824cd12a7530b5526063d02cb4"},
 ]
 
+[[package]]
+name = "iniconfig"
+version = "2.0.0"
+description = "brain-dead simple config-ini parsing"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "iniconfig-2.0.0-py3-none-any.whl", hash = "sha256:b6a85871a79d2e3b22d2d1b94ac2824226a63c6b741c88f7ae975f18b6778374"},
+    {file = "iniconfig-2.0.0.tar.gz", hash = "sha256:2d91e135bf72d31a410b17c16da610a82cb55f6b0477d1a902134b24a455b8b3"},
+]
+
 [[package]]
 name = "inquirer"
 version = "2.10.1"
@@ -939,16 +891,18 @@ files = [
 
 [[package]]
 name = "magma-suite"
-version = "1.5.0.1b2"
+version = "1.5.0.3b1"
 description = "Collection of tools to manage meta-workflows automation."
 optional = false
-python-versions = "*"
-files = []
-develop = true
+python-versions = ">=3.8,<3.12"
+files = [
+    {file = "magma_suite-1.5.0.3b1-py3-none-any.whl", hash = "sha256:b79bd31f13afffaf2be1f6aaee57e061e35691318904a90f9912b09625a1c481"},
+    {file = "magma_suite-1.5.0.3b1.tar.gz", hash = "sha256:be537aeff899495fcf7cf65630750f280211ad1d09e53ea6237886010d905dc9"},
+]
 
-[package.source]
-type = "directory"
-url = "../magma"
+[package.dependencies]
+dcicutils = "7.12.0.1b5"
+tibanna-ff = "2.0.1.1b5"
 
 [[package]]
 name = "markupsafe"
@@ -1010,16 +964,19 @@ files = [
 ]
 
 [[package]]
-name = "more-itertools"
-version = "10.1.0"
-description = "More routines for operating on iterables, beyond itertools"
+name = "mirakuru"
+version = "2.5.1"
+description = "Process executor (not only) for tests."
 optional = false
-python-versions = ">=3.8"
+python-versions = ">=3.7"
 files = [
-    {file = "more-itertools-10.1.0.tar.gz", hash = "sha256:626c369fa0eb37bac0291bce8259b332fd59ac792fa5497b59837309cd5b114a"},
-    {file = "more_itertools-10.1.0-py3-none-any.whl", hash = "sha256:64e0735fcfdc6f3464ea133afe8ea4483b1c5fe3a3d69852e6503b43a0b222e6"},
+    {file = "mirakuru-2.5.1-py3-none-any.whl", hash = "sha256:0a16f897841741f8cd784f790e54d74e61456ba36be9cb9de731b49e2e7a45dc"},
+    {file = "mirakuru-2.5.1.tar.gz", hash = "sha256:5a60d641fa92c8bfcd383f6e52f7a0bf3f081da0467fc6e3e6a3f6b3e3e47a7b"},
 ]
 
+[package.dependencies]
+psutil = {version = ">=4.0.0", markers = "sys_platform != \"cygwin\""}
+
 [[package]]
 name = "oauthlib"
 version = "3.2.2"
@@ -1084,30 +1041,29 @@ files = [
 
 [[package]]
 name = "pluggy"
-version = "0.13.1"
+version = "1.3.0"
 description = "plugin and hook calling mechanisms for python"
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+python-versions = ">=3.8"
 files = [
-    {file = "pluggy-0.13.1-py2.py3-none-any.whl", hash = "sha256:966c145cd83c96502c3c3868f50408687b38434af77734af1e9ca461a4081d2d"},
-    {file = "pluggy-0.13.1.tar.gz", hash = "sha256:15b2acde666561e1298d71b523007ed7364de07029219b604cf808bfa1c765b0"},
+    {file = "pluggy-1.3.0-py3-none-any.whl", hash = "sha256:d89c696a773f8bd377d18e5ecda92b7a3793cbe66c87060a6fb58c7b6e1061f7"},
+    {file = "pluggy-1.3.0.tar.gz", hash = "sha256:cf61ae8f126ac6f7c451172cf30e3e43d3ca77615509771b3a984a0730651e12"},
 ]
 
 [package.extras]
 dev = ["pre-commit", "tox"]
+testing = ["pytest", "pytest-benchmark"]
 
 [[package]]
-name = "portal-pipeline-utils"
-version = "2.1.0.1b1"
-description = "Utilities for deploying pipelines and interfacing with portal infrastructure."
+name = "port-for"
+version = "0.7.1"
+description = "Utility that helps with local TCP ports management. It can find an unused TCP localhost port and remember the association."
 optional = false
-python-versions = "*"
-files = []
-develop = true
-
-[package.source]
-type = "directory"
-url = "../portal-pipeline-utils"
+python-versions = ">=3.7"
+files = [
+    {file = "port-for-0.7.1.tar.gz", hash = "sha256:e0f3b8d7ec8bdc388c14d88bdbab8d6441c8081ed2bdec7847b38ca6d1563f23"},
+    {file = "port_for-0.7.1-py3-none-any.whl", hash = "sha256:8abdaa1a7810281b0cecf718a6319da5f8538fdae3a5101d1e9afd54da0baf8c"},
+]
 
 [[package]]
 name = "protobuf"
@@ -1132,16 +1088,31 @@ files = [
 ]
 
 [[package]]
-name = "py"
-version = "1.11.0"
-description = "library with cross-python path, ini-parsing, io, code, log facilities"
+name = "psutil"
+version = "5.9.5"
+description = "Cross-platform lib for process and system monitoring in Python."
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
 files = [
-    {file = "py-1.11.0-py2.py3-none-any.whl", hash = "sha256:607c53218732647dff4acdfcd50cb62615cedf612e72d1724fb1a0cc6405b378"},
-    {file = "py-1.11.0.tar.gz", hash = "sha256:51c75c4126074b472f746a24399ad32f6053d1b34b68d2fa41e558e6f4a98719"},
+    {file = "psutil-5.9.5-cp27-cp27m-macosx_10_9_x86_64.whl", hash = "sha256:be8929ce4313f9f8146caad4272f6abb8bf99fc6cf59344a3167ecd74f4f203f"},
+    {file = "psutil-5.9.5-cp27-cp27m-manylinux2010_i686.whl", hash = "sha256:ab8ed1a1d77c95453db1ae00a3f9c50227ebd955437bcf2a574ba8adbf6a74d5"},
+    {file = "psutil-5.9.5-cp27-cp27m-manylinux2010_x86_64.whl", hash = "sha256:4aef137f3345082a3d3232187aeb4ac4ef959ba3d7c10c33dd73763fbc063da4"},
+    {file = "psutil-5.9.5-cp27-cp27mu-manylinux2010_i686.whl", hash = "sha256:ea8518d152174e1249c4f2a1c89e3e6065941df2fa13a1ab45327716a23c2b48"},
+    {file = "psutil-5.9.5-cp27-cp27mu-manylinux2010_x86_64.whl", hash = "sha256:acf2aef9391710afded549ff602b5887d7a2349831ae4c26be7c807c0a39fac4"},
+    {file = "psutil-5.9.5-cp27-none-win32.whl", hash = "sha256:5b9b8cb93f507e8dbaf22af6a2fd0ccbe8244bf30b1baad6b3954e935157ae3f"},
+    {file = "psutil-5.9.5-cp27-none-win_amd64.whl", hash = "sha256:8c5f7c5a052d1d567db4ddd231a9d27a74e8e4a9c3f44b1032762bd7b9fdcd42"},
+    {file = "psutil-5.9.5-cp36-abi3-macosx_10_9_x86_64.whl", hash = "sha256:3c6f686f4225553615612f6d9bc21f1c0e305f75d7d8454f9b46e901778e7217"},
+    {file = "psutil-5.9.5-cp36-abi3-manylinux_2_12_i686.manylinux2010_i686.manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:7a7dd9997128a0d928ed4fb2c2d57e5102bb6089027939f3b722f3a210f9a8da"},
+    {file = "psutil-5.9.5-cp36-abi3-manylinux_2_12_x86_64.manylinux2010_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:89518112647f1276b03ca97b65cc7f64ca587b1eb0278383017c2a0dcc26cbe4"},
+    {file = "psutil-5.9.5-cp36-abi3-win32.whl", hash = "sha256:104a5cc0e31baa2bcf67900be36acde157756b9c44017b86b2c049f11957887d"},
+    {file = "psutil-5.9.5-cp36-abi3-win_amd64.whl", hash = "sha256:b258c0c1c9d145a1d5ceffab1134441c4c5113b2417fafff7315a917a026c3c9"},
+    {file = "psutil-5.9.5-cp38-abi3-macosx_11_0_arm64.whl", hash = "sha256:c607bb3b57dc779d55e1554846352b4e358c10fff3abf3514a7a6601beebdb30"},
+    {file = "psutil-5.9.5.tar.gz", hash = "sha256:5410638e4df39c54d957fc51ce03048acd8e6d60abc0f5107af51e5fb566eb3c"},
 ]
 
+[package.extras]
+test = ["enum34", "ipaddress", "mock", "pywin32", "wmi"]
+
 [[package]]
 name = "pyasn1"
 version = "0.5.0"
@@ -1239,45 +1210,60 @@ diagrams = ["jinja2", "railroad-diagrams"]
 
 [[package]]
 name = "pytest"
-version = "5.1.2"
+version = "7.4.2"
 description = "pytest: simple powerful testing with Python"
 optional = false
-python-versions = ">=3.5"
+python-versions = ">=3.7"
 files = [
-    {file = "pytest-5.1.2-py3-none-any.whl", hash = "sha256:95d13143cc14174ca1a01ec68e84d76ba5d9d493ac02716fd9706c949a505210"},
-    {file = "pytest-5.1.2.tar.gz", hash = "sha256:b78fe2881323bd44fd9bd76e5317173d4316577e7b1cddebae9136a4495ec865"},
+    {file = "pytest-7.4.2-py3-none-any.whl", hash = "sha256:1d881c6124e08ff0a1bb75ba3ec0bfd8b5354a01c194ddd5a0a870a48d99b002"},
+    {file = "pytest-7.4.2.tar.gz", hash = "sha256:a766259cfab564a2ad52cb1aae1b881a75c3eb7e34ca3779697c23ed47c47069"},
 ]
 
 [package.dependencies]
-atomicwrites = ">=1.0"
-attrs = ">=17.4.0"
 colorama = {version = "*", markers = "sys_platform == \"win32\""}
-more-itertools = ">=4.0.0"
+exceptiongroup = {version = ">=1.0.0rc8", markers = "python_version < \"3.11\""}
+iniconfig = "*"
 packaging = "*"
-pluggy = ">=0.12,<1.0"
-py = ">=1.5.0"
-wcwidth = "*"
+pluggy = ">=0.12,<2.0"
+tomli = {version = ">=1.0.0", markers = "python_version < \"3.11\""}
 
 [package.extras]
-testing = ["argcomplete", "hypothesis (>=3.56)", "mock", "nose", "requests", "xmlschema"]
+testing = ["argcomplete", "attrs (>=19.2.0)", "hypothesis (>=3.56)", "mock", "nose", "pygments (>=2.7.2)", "requests", "setuptools", "xmlschema"]
 
 [[package]]
 name = "pytest-cov"
-version = "2.7.1"
+version = "4.1.0"
 description = "Pytest plugin for measuring coverage."
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+python-versions = ">=3.7"
 files = [
-    {file = "pytest-cov-2.7.1.tar.gz", hash = "sha256:e00ea4fdde970725482f1f35630d12f074e121a23801aabf2ae154ec6bdd343a"},
-    {file = "pytest_cov-2.7.1-py2.py3-none-any.whl", hash = "sha256:2b097cde81a302e1047331b48cadacf23577e431b61e9c6f49a1170bbe3d3da6"},
+    {file = "pytest-cov-4.1.0.tar.gz", hash = "sha256:3904b13dfbfec47f003b8e77fd5b589cd11904a21ddf1ab38a64f204d6a10ef6"},
+    {file = "pytest_cov-4.1.0-py3-none-any.whl", hash = "sha256:6ba70b9e97e69fcc3fb45bfeab2d0a138fb65c4d0d6a41ef33983ad114be8c3a"},
 ]
 
 [package.dependencies]
-coverage = ">=4.4"
-pytest = ">=3.6"
+coverage = {version = ">=5.2.1", extras = ["toml"]}
+pytest = ">=4.6"
 
 [package.extras]
-testing = ["fields", "hunter", "process-tests (==2.0.2)", "six", "virtualenv"]
+testing = ["fields", "hunter", "process-tests", "pytest-xdist", "six", "virtualenv"]
+
+[[package]]
+name = "pytest-redis"
+version = "3.0.2"
+description = "Redis fixtures and fixture factories for Pytest."
+optional = false
+python-versions = ">=3.8"
+files = [
+    {file = "pytest-redis-3.0.2.tar.gz", hash = "sha256:e54660e95fb1ec0feb7426523e37710ac7850380c60f9ee693c4045a6fc28ac5"},
+    {file = "pytest_redis-3.0.2-py3-none-any.whl", hash = "sha256:e2fd39658f396b6ae22976b80f94c61ebda5bc2bb8fe7eabcc7a7f994f7659f8"},
+]
+
+[package.dependencies]
+mirakuru = "*"
+port-for = ">=0.6.0"
+pytest = ">=6.2"
+redis = ">=3"
 
 [[package]]
 name = "python-dateutil"
@@ -1305,6 +1291,22 @@ files = [
     {file = "python_editor-1.0.4-py3-none-any.whl", hash = "sha256:1bf6e860a8ad52a14c3ee1252d5dc25b2030618ed80c022598f00176adc8367d"},
 ]
 
+[[package]]
+name = "python-lambda-4dn"
+version = "0.12.3"
+description = "FORKED for 4dn-dcic. Use to package and deploy lambda functions."
+optional = false
+python-versions = "*"
+files = [
+    {file = "python-lambda-4dn-0.12.3.tar.gz", hash = "sha256:41765ea05224c035e146c89d60ef23d0d2c043ccc79e380cbeae60143547b1dc"},
+    {file = "python_lambda_4dn-0.12.3-py2.py3-none-any.whl", hash = "sha256:a87fd330fcf6702165904dbe884610df5bf029c55cd2cc176d22f788b04a5f21"},
+]
+
+[package.dependencies]
+boto3 = ">=1.7.42"
+botocore = ">=1.10.42"
+docutils = ">=0.14"
+
 [[package]]
 name = "pytz"
 version = "2020.5"
@@ -1434,24 +1436,24 @@ ocsp = ["cryptography (>=36.0.1)", "pyopenssl (==20.0.1)", "requests (>=2.26.0)"
 
 [[package]]
 name = "requests"
-version = "2.31.0"
+version = "2.27.1"
 description = "Python HTTP for Humans."
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*"
 files = [
-    {file = "requests-2.31.0-py3-none-any.whl", hash = "sha256:58cd2187c01e70e6e26505bca751777aa9f2ee0b7f4300988b709f44e013003f"},
-    {file = "requests-2.31.0.tar.gz", hash = "sha256:942c5a758f98d790eaed1a29cb6eefc7ffb0d1cf7af05c3d2791656dbd6ad1e1"},
+    {file = "requests-2.27.1-py2.py3-none-any.whl", hash = "sha256:f22fa1e554c9ddfd16e6e41ac79759e17be9e492b3587efa038054674760e72d"},
+    {file = "requests-2.27.1.tar.gz", hash = "sha256:68d7c56fd5a8999887728ef304a6d12edc7be74f1cfa47714fc8b414525c9a61"},
 ]
 
 [package.dependencies]
 certifi = ">=2017.4.17"
-charset-normalizer = ">=2,<4"
-idna = ">=2.5,<4"
-urllib3 = ">=1.21.1,<3"
+charset-normalizer = {version = ">=2.0.0,<2.1.0", markers = "python_version >= \"3\""}
+idna = {version = ">=2.5,<4", markers = "python_version >= \"3\""}
+urllib3 = ">=1.21.1,<1.27"
 
 [package.extras]
-socks = ["PySocks (>=1.5.6,!=1.5.7)"]
-use-chardet-on-py3 = ["chardet (>=3.0.2,<6)"]
+socks = ["PySocks (>=1.5.6,!=1.5.7)", "win-inet-pton"]
+use-chardet-on-py3 = ["chardet (>=3.0.2,<5)"]
 
 [[package]]
 name = "requests-oauthlib"
@@ -1586,17 +1588,41 @@ docs = ["sphinx", "twisted"]
 tests = ["coverage", "freezegun (>=0.2.8)", "pretend", "pytest (>=3.3.0)", "python-rapidjson", "simplejson"]
 
 [[package]]
-name = "tibanna_ff"
-version = "2.0.1.1b1"
+name = "tibanna"
+version = "4.0.0.1b2"
 description = "Tibanna runs portable pipelines (in CWL/WDL) on the AWS Cloud."
 optional = false
-python-versions = "*"
-files = []
-develop = true
+python-versions = ">=3.8,<3.12"
+files = [
+    {file = "tibanna-4.0.0.1b2-py3-none-any.whl", hash = "sha256:bc7f52cbe53c6b723d1650939afeaa46765893986d1760074d32d4aafe9967e7"},
+    {file = "tibanna-4.0.0.1b2.tar.gz", hash = "sha256:2565aa7da5d2ef55558fda69a02f3dac9dbe559a8f504fca107dbe072eec0d40"},
+]
 
-[package.source]
-type = "directory"
-url = "../tibanna_ff"
+[package.dependencies]
+Benchmark-4dn = ">=0.5.23,<0.6.0"
+boto3 = ">=1.28.51,<2.0.0"
+botocore = ">=1.31.51,<2.0.0"
+python-lambda-4dn = "0.12.3"
+tomlkit = ">=0.11.0,<0.12.0"
+
+[[package]]
+name = "tibanna-ff"
+version = "2.0.1.1b5"
+description = "Tibanna runs portable pipelines (in CWL/WDL) on the AWS Cloud."
+optional = false
+python-versions = ">=3.8,<3.12"
+files = [
+    {file = "tibanna_ff-2.0.1.1b5-py3-none-any.whl", hash = "sha256:5e3b68e77a9d9350fc10f8a54ac43f80d0007a823cac12d972fd9889eaad716b"},
+    {file = "tibanna_ff-2.0.1.1b5.tar.gz", hash = "sha256:064a4f0d8b30e758e7983df6507fdeeb725b82264320a89cef10505e20540898"},
+]
+
+[package.dependencies]
+boto3 = ">=1.28.51,<2.0.0"
+botocore = ">=1.31.51,<2.0.0"
+dcicutils = "7.12.0.1b5"
+requests = "2.27.1"
+tibanna = "4.0.0.1b2"
+tomlkit = ">=0.11.0,<0.12.0"
 
 [[package]]
 name = "toml"
@@ -1609,6 +1635,28 @@ files = [
     {file = "toml-0.10.2.tar.gz", hash = "sha256:b3bda1d108d5dd99f4a20d24d9c348e91c4db7ab1b749200bded2f839ccbe68f"},
 ]
 
+[[package]]
+name = "tomli"
+version = "2.0.1"
+description = "A lil' TOML parser"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "tomli-2.0.1-py3-none-any.whl", hash = "sha256:939de3e7a6161af0c887ef91b7d41a53e7c5a1ca976325f429cb46ea9bc30ecc"},
+    {file = "tomli-2.0.1.tar.gz", hash = "sha256:de526c12914f0c550d15924c62d72abc48d6fe7364aa87328337a31007fe8a4f"},
+]
+
+[[package]]
+name = "tomlkit"
+version = "0.11.8"
+description = "Style preserving TOML library"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "tomlkit-0.11.8-py3-none-any.whl", hash = "sha256:8c726c4c202bdb148667835f68d68780b9a003a9ec34167b6c673b38eff2a171"},
+    {file = "tomlkit-0.11.8.tar.gz", hash = "sha256:9330fc7faa1db67b541b28e62018c17d20be733177d290a13b24c62d1614e0c3"},
+]
+
 [[package]]
 name = "tqdm"
 version = "4.66.1"
@@ -1791,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "4d34385ac655cff831c147f0954d6a21308a7822cd1cd38a80e759ce3ff955cb"
+content-hash = "a23923ae40d7421b2c1efc2f39926ce2d1d00cb9b42fbebcddc82badf546f6eb"
diff --git a/pyproject.toml b/pyproject.toml
index 95ec31a9..6d3f72bd 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -10,7 +10,7 @@ packages = [
 
 [tool.poetry.dependencies]
 python = ">=3.8,<3.12"
-dcicutils = "7.12.0.1b1"
+dcicutils = "7.12.0.1b5"
 click = "^7.1.2"
 PyJWT = "^2.5.0"
 Jinja2 = "^3.1.2"
@@ -23,18 +23,20 @@ elasticsearch = "7.13.4"
 elasticsearch-dsl = "^7.0.0"
 gitpython = "^3.1.2"
 pytz = "^2020.1"
-magma-suite = "1.5.0.1b2"
-tibanna-ff = "2.0.1.1b1"
+magma-suite = "1.5.0.3b1"
+tibanna-ff = "2.0.1.1b5"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b1"
+foursight-core = "4.5.0.1b2"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
-portal-pipeline-utils = "2.1.0.1b1"
-pytest = "5.1.2"
+#portal-pipeline-utils = "2.1.0.1b1"
+# Need pytest-redis 3.0.2 or higher for pytest 7.4.2 (or higher).
+pytest = "^7.4.2"
+pytest-redis = "^3.0.2"
 
 [tool.poetry.dev-dependencies]
 chalice = "^1.21.6"
-pytest-cov = "2.7.1"
+pytest-cov = "^4.1.0"
 flaky = "3.6.1"
 
 [tool.poetry.scripts]

From 240bb44871c928c6aceb9372a50ed708b9df7879 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Thu, 21 Sep 2023 13:09:23 -0400
Subject: [PATCH 05/30] Update version

---
 pyproject.toml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/pyproject.toml b/pyproject.toml
index 6d3f72bd..0479d3b8 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.1b1"  # TODO: To become 4.0.0
+version = "3.6.1.1b2"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"

From cec57a52c78a75978391f56ef1fab53ad9e95e51 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Thu, 21 Sep 2023 13:09:56 -0400
Subject: [PATCH 06/30] Update version

---
 pyproject.toml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/pyproject.toml b/pyproject.toml
index 0479d3b8..fc5f0075 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.1b2"  # TODO: To become 4.0.0
+version = "3.6.1.2b1"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"

From c7dc28f3bf64191326db56591fbca710b84fb68d Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Thu, 21 Sep 2023 19:03:11 -0400
Subject: [PATCH 07/30] Update foursight-core version

---
 poetry.lock    | 8 ++++----
 pyproject.toml | 4 ++--
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 3fbc4546..019e4bf8 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -577,13 +577,13 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b2"
+version = "4.5.0.1b3"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b2-py3-none-any.whl", hash = "sha256:c856cac3bca4272e4f9cad5371c324d31ad3d4bb59cab3c1047456c2b49aa666"},
-    {file = "foursight_core-4.5.0.1b2.tar.gz", hash = "sha256:742161caf848b598f320e771b393af809ab9068848e3e080843a1ec80ab96318"},
+    {file = "foursight_core-4.5.0.1b3-py3-none-any.whl", hash = "sha256:a1e423ed66c7cb94c17ab9aea30d6359fb8d13ced16031408b9a27367e8383dc"},
+    {file = "foursight_core-4.5.0.1b3.tar.gz", hash = "sha256:ed9adeb3bfffc13f91bf617fc14809bb287dc00ccb6c867a7c0f145c5778fb4d"},
 ]
 
 [package.dependencies]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "a23923ae40d7421b2c1efc2f39926ce2d1d00cb9b42fbebcddc82badf546f6eb"
+content-hash = "c9a41448ef9efca84bea8c51231f74d35f88b9a81cc9d9cf65cf227c1cf35da6"
diff --git a/pyproject.toml b/pyproject.toml
index fc5f0075..ac006aab 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b1"  # TODO: To become 4.0.0
+version = "3.6.1.2b2"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b1"
 tibanna-ff = "2.0.1.1b5"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b2"
+foursight-core = "4.5.0.1b3"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From 65ef211f432de23627f7294eaf87cbe73b65ccef Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Fri, 22 Sep 2023 07:53:40 -0400
Subject: [PATCH 08/30] Update foursight-core version.

---
 poetry.lock    | 8 ++++----
 pyproject.toml | 4 ++--
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 019e4bf8..0a8141f2 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -577,13 +577,13 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b3"
+version = "4.5.0.1b6"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b3-py3-none-any.whl", hash = "sha256:a1e423ed66c7cb94c17ab9aea30d6359fb8d13ced16031408b9a27367e8383dc"},
-    {file = "foursight_core-4.5.0.1b3.tar.gz", hash = "sha256:ed9adeb3bfffc13f91bf617fc14809bb287dc00ccb6c867a7c0f145c5778fb4d"},
+    {file = "foursight_core-4.5.0.1b6-py3-none-any.whl", hash = "sha256:c2cecdfc6ea65f178a3a71dc028f629ca7bbba7392d10059013a7480dff88ac1"},
+    {file = "foursight_core-4.5.0.1b6.tar.gz", hash = "sha256:bb07c03ee3a6ee8d001cef151a8fcc023b62de1bd7e7fbcc61c4ad3bb0819bde"},
 ]
 
 [package.dependencies]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "c9a41448ef9efca84bea8c51231f74d35f88b9a81cc9d9cf65cf227c1cf35da6"
+content-hash = "490acb76b6fe1f9953a9a199bc8f394abc856026f6e48e93044b89eec7f5bc64"
diff --git a/pyproject.toml b/pyproject.toml
index ac006aab..891db2b5 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b2"  # TODO: To become 4.0.0
+version = "3.6.1.2b3"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b1"
 tibanna-ff = "2.0.1.1b5"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b3"
+foursight-core = "4.5.0.1b6"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From 63621374c8cc4ba21a96a82bd151ccd232aedbd7 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Fri, 22 Sep 2023 11:24:20 -0400
Subject: [PATCH 09/30] Update foursight-core version.

---
 poetry.lock    | 8 ++++----
 pyproject.toml | 4 ++--
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 0a8141f2..5d4ece58 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -577,13 +577,13 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b6"
+version = "4.5.0.1b7"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b6-py3-none-any.whl", hash = "sha256:c2cecdfc6ea65f178a3a71dc028f629ca7bbba7392d10059013a7480dff88ac1"},
-    {file = "foursight_core-4.5.0.1b6.tar.gz", hash = "sha256:bb07c03ee3a6ee8d001cef151a8fcc023b62de1bd7e7fbcc61c4ad3bb0819bde"},
+    {file = "foursight_core-4.5.0.1b7-py3-none-any.whl", hash = "sha256:74aa6615000cfa94d6ac7e438772df2ec299a32aa6ad27e9371f0e1d07d142c7"},
+    {file = "foursight_core-4.5.0.1b7.tar.gz", hash = "sha256:392d8d837eff87ed9a65e4e3820426b828eeb1cc073ad0ae628af1b4958560b4"},
 ]
 
 [package.dependencies]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "490acb76b6fe1f9953a9a199bc8f394abc856026f6e48e93044b89eec7f5bc64"
+content-hash = "9b10bcaaae7164182ccfd5e2dea079864df3ae7911d11bb3fbd47d7cec5ccb5b"
diff --git a/pyproject.toml b/pyproject.toml
index 891db2b5..391d544f 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b3"  # TODO: To become 4.0.0
+version = "3.6.1.2b5"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b1"
 tibanna-ff = "2.0.1.1b5"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b6"
+foursight-core = "4.5.0.1b7"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From 032661a443b71ded681c70fc5ca76a4764ce71fe Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Fri, 22 Sep 2023 11:47:05 -0400
Subject: [PATCH 10/30] Update foursight-core version.

---
 poetry.lock    | 8 ++++----
 pyproject.toml | 4 ++--
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 5d4ece58..dacff97f 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -577,13 +577,13 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b7"
+version = "4.5.0.1b8"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b7-py3-none-any.whl", hash = "sha256:74aa6615000cfa94d6ac7e438772df2ec299a32aa6ad27e9371f0e1d07d142c7"},
-    {file = "foursight_core-4.5.0.1b7.tar.gz", hash = "sha256:392d8d837eff87ed9a65e4e3820426b828eeb1cc073ad0ae628af1b4958560b4"},
+    {file = "foursight_core-4.5.0.1b8-py3-none-any.whl", hash = "sha256:77aa39ac0189d963d83b8f01958fcc87dfe8ac57fc58704181091eecba875c1f"},
+    {file = "foursight_core-4.5.0.1b8.tar.gz", hash = "sha256:66f3c2a5e5ed71d7ca906beefa17f8694940b654e09f6bffc10e80f0d73a3d38"},
 ]
 
 [package.dependencies]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "9b10bcaaae7164182ccfd5e2dea079864df3ae7911d11bb3fbd47d7cec5ccb5b"
+content-hash = "4cf8efc56d26b749a4a47b862f8f9e52b2184c8d94833abdb35930dbcfddc061"
diff --git a/pyproject.toml b/pyproject.toml
index 391d544f..6e256c43 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b5"  # TODO: To become 4.0.0
+version = "3.6.1.2b8"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b1"
 tibanna-ff = "2.0.1.1b5"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b7"
+foursight-core = "4.5.0.1b8"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From c3e63a4276cae58f88ae29d75b13a199d7895165 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Tue, 26 Sep 2023 15:48:23 -0400
Subject: [PATCH 11/30] update dcicutils, magma, tibanna-ff, foursight-core
 versions

---
 poetry.lock    | 299 +++++++++++--------------------------------------
 pyproject.toml |  10 +-
 2 files changed, 72 insertions(+), 237 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index dacff97f..7a40ab52 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -36,34 +36,6 @@ files = [
 [package.dependencies]
 requests = ">=0.14.0"
 
-[[package]]
-name = "backports-zoneinfo"
-version = "0.2.1"
-description = "Backport of the standard library zoneinfo module"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-macosx_10_14_x86_64.whl", hash = "sha256:da6013fd84a690242c310d77ddb8441a559e9cb3d3d59ebac9aca1a57b2e18bc"},
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_i686.whl", hash = "sha256:89a48c0d158a3cc3f654da4c2de1ceba85263fafb861b98b59040a5086259722"},
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_x86_64.whl", hash = "sha256:1c5742112073a563c81f786e77514969acb58649bcdf6cdf0b4ed31a348d4546"},
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-win32.whl", hash = "sha256:e8236383a20872c0cdf5a62b554b27538db7fa1bbec52429d8d106effbaeca08"},
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-win_amd64.whl", hash = "sha256:8439c030a11780786a2002261569bdf362264f605dfa4d65090b64b05c9f79a7"},
-    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-macosx_10_14_x86_64.whl", hash = "sha256:f04e857b59d9d1ccc39ce2da1021d196e47234873820cbeaad210724b1ee28ac"},
-    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-manylinux1_i686.whl", hash = "sha256:17746bd546106fa389c51dbea67c8b7c8f0d14b5526a579ca6ccf5ed72c526cf"},
-    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-manylinux1_x86_64.whl", hash = "sha256:5c144945a7752ca544b4b78c8c41544cdfaf9786f25fe5ffb10e838e19a27570"},
-    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-win32.whl", hash = "sha256:e55b384612d93be96506932a786bbcde5a2db7a9e6a4bb4bffe8b733f5b9036b"},
-    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-win_amd64.whl", hash = "sha256:a76b38c52400b762e48131494ba26be363491ac4f9a04c1b7e92483d169f6582"},
-    {file = "backports.zoneinfo-0.2.1-cp38-cp38-macosx_10_14_x86_64.whl", hash = "sha256:8961c0f32cd0336fb8e8ead11a1f8cd99ec07145ec2931122faaac1c8f7fd987"},
-    {file = "backports.zoneinfo-0.2.1-cp38-cp38-manylinux1_i686.whl", hash = "sha256:e81b76cace8eda1fca50e345242ba977f9be6ae3945af8d46326d776b4cf78d1"},
-    {file = "backports.zoneinfo-0.2.1-cp38-cp38-manylinux1_x86_64.whl", hash = "sha256:7b0a64cda4145548fed9efc10322770f929b944ce5cee6c0dfe0c87bf4c0c8c9"},
-    {file = "backports.zoneinfo-0.2.1-cp38-cp38-win32.whl", hash = "sha256:1b13e654a55cd45672cb54ed12148cd33628f672548f373963b0bff67b217328"},
-    {file = "backports.zoneinfo-0.2.1-cp38-cp38-win_amd64.whl", hash = "sha256:4a0f800587060bf8880f954dbef70de6c11bbe59c673c3d818921f042f9954a6"},
-    {file = "backports.zoneinfo-0.2.1.tar.gz", hash = "sha256:fadbfe37f74051d024037f223b8e001611eac868b5c5b06144ef4d8b799862f2"},
-]
-
-[package.extras]
-tzdata = ["tzdata"]
-
 [[package]]
 name = "beautifulsoup4"
 version = "4.12.2"
@@ -111,17 +83,17 @@ wcwidth = ">=0.1.4"
 
 [[package]]
 name = "boto3"
-version = "1.28.52"
+version = "1.28.54"
 description = "The AWS SDK for Python"
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "boto3-1.28.52-py3-none-any.whl", hash = "sha256:1d36db102517d62c6968b3b0636303241f56859d12dd071def4882fc6e030b20"},
-    {file = "boto3-1.28.52.tar.gz", hash = "sha256:a34fc153cb2f6fb2f79a764286c967392e8aae9412381d943bddc576c4f7631a"},
+    {file = "boto3-1.28.54-py3-none-any.whl", hash = "sha256:3cb2aee317a1b8686e3b23674e4099b8ff7451bd8acc61b9719acff86fa024d1"},
+    {file = "boto3-1.28.54.tar.gz", hash = "sha256:22e37d8c4f2d97b5e5c6ccc1d9edc7760717990b0ba8b8ea17a58cc87e57c5c9"},
 ]
 
 [package.dependencies]
-botocore = ">=1.31.52,<1.32.0"
+botocore = ">=1.31.54,<1.32.0"
 jmespath = ">=0.7.1,<2.0.0"
 s3transfer = ">=0.6.0,<0.7.0"
 
@@ -130,13 +102,13 @@ crt = ["botocore[crt] (>=1.21.0,<2.0a0)"]
 
 [[package]]
 name = "botocore"
-version = "1.31.52"
+version = "1.31.54"
 description = "Low-level, data-driven core of boto 3."
 optional = false
 python-versions = ">= 3.7"
 files = [
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+    {file = "botocore-1.31.54.tar.gz", hash = "sha256:c98e78a9490c4166b205f87912b46770e156bfe7d53bae54ccbd49c68a336ec6"},
 ]
 
 [package.dependencies]
@@ -376,49 +348,36 @@ tomli = {version = "*", optional = true, markers = "python_full_version <= \"3.1
 [package.extras]
 toml = ["tomli"]
 
-[[package]]
-name = "cron-descriptor"
-version = "1.4.0"
-description = "A Python library that converts cron expressions into human readable strings."
-optional = false
-python-versions = "*"
-files = [
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-]
-
-[package.extras]
-dev = ["polib"]
-
 [[package]]
 name = "cryptography"
-version = "39.0.2"
+version = "41.0.4"
 description = "cryptography is a package which provides cryptographic recipes and primitives to Python developers."
 optional = false
-python-versions = ">=3.6"
+python-versions = ">=3.7"
 files = [
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+    {file = "cryptography-41.0.4-pp39-pypy39_pp73-manylinux_2_28_aarch64.whl", hash = "sha256:0d9409894f495d465fe6fda92cb70e8323e9648af912d5b9141d616df40a87b8"},
+    {file = "cryptography-41.0.4-pp39-pypy39_pp73-manylinux_2_28_x86_64.whl", hash = "sha256:8ac4f9ead4bbd0bc8ab2d318f97d85147167a488be0e08814a37eb2f439d5cf6"},
+    {file = "cryptography-41.0.4-pp39-pypy39_pp73-win_amd64.whl", hash = "sha256:047c4603aeb4bbd8db2756e38f5b8bd7e94318c047cfe4efeb5d715e08b49311"},
+    {file = "cryptography-41.0.4.tar.gz", hash = "sha256:7febc3094125fc126a7f6fb1f420d0da639f3f32cb15c8ff0dc3997c4549f51a"},
 ]
 
 [package.dependencies]
@@ -427,28 +386,28 @@ cffi = ">=1.12"
 [package.extras]
 docs = ["sphinx (>=5.3.0)", "sphinx-rtd-theme (>=1.1.1)"]
 docstest = ["pyenchant (>=1.6.11)", "sphinxcontrib-spelling (>=4.0.1)", "twine (>=1.12.0)"]
-pep8test = ["black", "check-manifest", "mypy", "ruff", "types-pytz", "types-requests"]
-sdist = ["setuptools-rust (>=0.11.4)"]
+nox = ["nox"]
+pep8test = ["black", "check-sdist", "mypy", "ruff"]
+sdist = ["build"]
 ssh = ["bcrypt (>=3.1.5)"]
-test = ["hypothesis (>=1.11.4,!=3.79.2)", "iso8601", "pretend", "pytest (>=6.2.0)", "pytest-benchmark", "pytest-cov", "pytest-shard (>=0.1.2)", "pytest-subtests", "pytest-xdist", "pytz"]
+test = ["pretend", "pytest (>=6.2.0)", "pytest-benchmark", "pytest-cov", "pytest-xdist"]
 test-randomorder = ["pytest-randomly"]
-tox = ["tox"]
 
 [[package]]
 name = "dcicutils"
-version = "7.12.0.1b5"
+version = "7.12.0.2b6"
 description = "Utility package for interacting with the 4DN Data Portal and other 4DN resources"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "dcicutils-7.12.0.1b5-py3-none-any.whl", hash = "sha256:0a35b364a9c2d5d443a220a9146071d967c44291d35fb84b9a47815b06a20a2e"},
-    {file = "dcicutils-7.12.0.1b5.tar.gz", hash = "sha256:76484921d7def94a54a30b05a56faf28f3956815c6de7d093f9fc59e30743b30"},
+    {file = "dcicutils-7.12.0.2b6-py3-none-any.whl", hash = "sha256:6e03e4d168f7056d4db4ebf7ec6c0367af62c9a2d36ba9808b20ed1ead875752"},
+    {file = "dcicutils-7.12.0.2b6.tar.gz", hash = "sha256:1e499d539bef10d955ed1303530f74a5207aef7b454829ab5eedee7a76e2b7a2"},
 ]
 
 [package.dependencies]
 aws-requests-auth = ">=0.4.2,<1"
-boto3 = ">=1.28.51,<2.0.0"
-botocore = ">=1.31.51,<2.0.0"
+boto3 = ">=1.28.54,<2.0.0"
+botocore = ">=1.31.54,<2.0.0"
 docker = ">=4.4.4,<5.0.0"
 elasticsearch = "7.13.4"
 gitpython = ">=3.1.2,<4.0.0"
@@ -577,35 +536,16 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b8"
+version = "4.5.0.1b10"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
-python-versions = ">=3.8,<3.12"
-files = [
-    {file = "foursight_core-4.5.0.1b8-py3-none-any.whl", hash = "sha256:77aa39ac0189d963d83b8f01958fcc87dfe8ac57fc58704181091eecba875c1f"},
-    {file = "foursight_core-4.5.0.1b8.tar.gz", hash = "sha256:66f3c2a5e5ed71d7ca906beefa17f8694940b654e09f6bffc10e80f0d73a3d38"},
-]
+python-versions = "*"
+files = []
+develop = true
 
-[package.dependencies]
-click = ">=7.1.2,<8.0.0"
-cron-descriptor = ">=1.2.31,<2.0.0"
-cryptography = "39.0.2"
-dcicutils = "7.12.0.1b5"
-elasticsearch = "7.13.4"
-elasticsearch-dsl = ">=7.0.0,<8.0.0"
-geocoder = "1.38.1"
-gitpython = ">=3.1.2,<4.0.0"
-google = ">=3.0.0,<4.0.0"
-google-api-python-client = ">=1.12.5,<2.0.0"
-google-auth-oauthlib = ">=0.7.0,<0.8.0"
-Jinja2 = ">=3.1.2,<4.0.0"
-MarkupSafe = ">=2.1.3,<3.0.0"
-pyDes = ">=2.0.1,<3.0.0"
-PyJWT = ">=2.5.0,<3.0.0"
-pytz = ">=2020.1"
-redis = ">=4.5.1,<5.0.0"
-toml = ">=0.10.2,<1"
-tzlocal = ">=5.0.1,<6.0.0"
+[package.source]
+type = "directory"
+url = "../foursight-core"
 
 [[package]]
 name = "future"
@@ -651,44 +591,30 @@ smmap = ">=3.0.1,<6"
 
 [[package]]
 name = "gitpython"
-version = "3.1.36"
+version = "3.1.37"
 description = "GitPython is a Python library used to interact with Git repositories"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "GitPython-3.1.36-py3-none-any.whl", hash = "sha256:8d22b5cfefd17c79914226982bb7851d6ade47545b1735a9d010a2a4c26d8388"},
-    {file = "GitPython-3.1.36.tar.gz", hash = "sha256:4bb0c2a6995e85064140d31a33289aa5dce80133a23d36fcd372d716c54d3ebf"},
+    {file = "GitPython-3.1.37-py3-none-any.whl", hash = "sha256:5f4c4187de49616d710a77e98ddf17b4782060a1788df441846bddefbb89ab33"},
+    {file = "GitPython-3.1.37.tar.gz", hash = "sha256:f9b9ddc0761c125d5780eab2d64be4873fc6817c2899cbcb34b02344bdc7bc54"},
 ]
 
 [package.dependencies]
 gitdb = ">=4.0.1,<5"
 
 [package.extras]
-test = ["black", "coverage[toml]", "ddt (>=1.1.1,!=1.4.3)", "mypy", "pre-commit", "pytest", "pytest-cov", "pytest-sugar", "virtualenv"]
-
-[[package]]
-name = "google"
-version = "3.0.0"
-description = "Python bindings to the Google search engine."
-optional = false
-python-versions = "*"
-files = [
-    {file = "google-3.0.0-py2.py3-none-any.whl", hash = "sha256:889cf695f84e4ae2c55fbc0cfdaf4c1e729417fa52ab1db0485202ba173e4935"},
-    {file = "google-3.0.0.tar.gz", hash = "sha256:143530122ee5130509ad5e989f0512f7cb218b2d4eddbafbad40fd10e8d8ccbe"},
-]
-
-[package.dependencies]
-beautifulsoup4 = "*"
+test = ["black", "coverage[toml]", "ddt (>=1.1.1,!=1.4.3)", "mypy", "pre-commit", "pytest", "pytest-cov", "pytest-sugar"]
 
 [[package]]
 name = "google-api-core"
-version = "2.11.1"
+version = "2.12.0"
 description = "Google API client core library"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "google-api-core-2.11.1.tar.gz", hash = "sha256:25d29e05a0058ed5f19c61c0a78b1b53adea4d9364b464d014fbda941f6d1c9a"},
-    {file = "google_api_core-2.11.1-py3-none-any.whl", hash = "sha256:d92a5a92dc36dd4f4b9ee4e55528a90e432b059f93aee6ad857f9de8cc7ae94a"},
+    {file = "google-api-core-2.12.0.tar.gz", hash = "sha256:c22e01b1e3c4dcd90998494879612c38d0a3411d1f7b679eb89e2abe3ce1f553"},
+    {file = "google_api_core-2.12.0-py3-none-any.whl", hash = "sha256:ec6054f7d64ad13b41e43d96f735acbd763b0f3b695dabaa2d579673f6a6e160"},
 ]
 
 [package.dependencies]
@@ -760,24 +686,6 @@ files = [
 google-auth = "*"
 httplib2 = ">=0.19.0"
 
-[[package]]
-name = "google-auth-oauthlib"
-version = "0.7.1"
-description = "Google Authentication Library"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "google-auth-oauthlib-0.7.1.tar.gz", hash = "sha256:9940f543f77d1447432a93781d7c931fb53e418023351ad4bf9e92837a1154ec"},
-    {file = "google_auth_oauthlib-0.7.1-py2.py3-none-any.whl", hash = "sha256:860e54c4b58b2664116c9cb44325bc0ec92bcd93e8211698ceea911b1b873b86"},
-]
-
-[package.dependencies]
-google-auth = ">=2.14.0"
-requests-oauthlib = ">=0.7.0"
-
-[package.extras]
-tool = ["click (>=6.0.0)"]
-
 [[package]]
 name = "googleapis-common-protos"
 version = "1.60.0"
@@ -891,18 +799,18 @@ files = [
 
 [[package]]
 name = "magma-suite"
-version = "1.5.0.3b1"
+version = "1.5.0.3b2"
 description = "Collection of tools to manage meta-workflows automation."
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "magma_suite-1.5.0.3b1-py3-none-any.whl", hash = "sha256:b79bd31f13afffaf2be1f6aaee57e061e35691318904a90f9912b09625a1c481"},
-    {file = "magma_suite-1.5.0.3b1.tar.gz", hash = "sha256:be537aeff899495fcf7cf65630750f280211ad1d09e53ea6237886010d905dc9"},
+    {file = "magma_suite-1.5.0.3b2-py3-none-any.whl", hash = "sha256:017d3381790124b8272fa96b5451098a23ddb2c99097280fec416cd6f39fca9a"},
+    {file = "magma_suite-1.5.0.3b2.tar.gz", hash = "sha256:b45d0c91f8336a91c887d537c78142965766b619cae8c53fbf0c1e7cb3a69d6b"},
 ]
 
 [package.dependencies]
-dcicutils = "7.12.0.1b5"
-tibanna-ff = "2.0.1.1b5"
+dcicutils = "7.12.0.2b6"
+tibanna-ff = "2.0.1.1b6"
 
 [[package]]
 name = "markupsafe"
@@ -977,22 +885,6 @@ files = [
 [package.dependencies]
 psutil = {version = ">=4.0.0", markers = "sys_platform != \"cygwin\""}
 
-[[package]]
-name = "oauthlib"
-version = "3.2.2"
-description = "A generic, spec-compliant, thorough implementation of the OAuth request-signing logic"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "oauthlib-3.2.2-py3-none-any.whl", hash = "sha256:8139f29aac13e25d502680e9e19963e83f16838d48a0d71c287fe40e7067fbca"},
-    {file = "oauthlib-3.2.2.tar.gz", hash = "sha256:9859c40929662bec5d64f34d01c99e093149682a3f38915dc0655d5a633dd918"},
-]
-
-[package.extras]
-rsa = ["cryptography (>=3.0.0)"]
-signals = ["blinker (>=1.4.0)"]
-signedtoken = ["cryptography (>=3.0.0)", "pyjwt (>=2.0.0,<3)"]
-
 [[package]]
 name = "opensearch-py"
 version = "2.3.1"
@@ -1149,16 +1041,6 @@ files = [
     {file = "pycparser-2.21.tar.gz", hash = "sha256:e644fdec12f7872f86c58ff790da456218b10f863970249516d60a5eaca77206"},
 ]
 
-[[package]]
-name = "pydes"
-version = "2.0.1"
-description = "Pure python implementation of DES and TRIPLE DES encryption algorithm"
-optional = false
-python-versions = "*"
-files = [
-    {file = "pyDes-2.0.1.tar.gz", hash = "sha256:e2ab8e21d2b83e90d90dbfdcb6fb8ac0000b813238b7ecaede04f8435c389012"},
-]
-
 [[package]]
 name = "pyjwt"
 version = "2.8.0"
@@ -1455,24 +1337,6 @@ urllib3 = ">=1.21.1,<1.27"
 socks = ["PySocks (>=1.5.6,!=1.5.7)", "win-inet-pton"]
 use-chardet-on-py3 = ["chardet (>=3.0.2,<5)"]
 
-[[package]]
-name = "requests-oauthlib"
-version = "1.3.1"
-description = "OAuthlib authentication support for Requests."
-optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
-files = [
-    {file = "requests-oauthlib-1.3.1.tar.gz", hash = "sha256:75beac4a47881eeb94d5ea5d6ad31ef88856affe2332b9aafb52c6452ccf0d7a"},
-    {file = "requests_oauthlib-1.3.1-py2.py3-none-any.whl", hash = "sha256:2577c501a2fb8d05a304c09d090d6e47c306fef15809d102b327cf8364bddab5"},
-]
-
-[package.dependencies]
-oauthlib = ">=3.0.0"
-requests = ">=2.0.0"
-
-[package.extras]
-rsa = ["oauthlib[signedtoken] (>=3.0.0)"]
-
 [[package]]
 name = "rfc3986"
 version = "1.5.0"
@@ -1607,19 +1471,19 @@ tomlkit = ">=0.11.0,<0.12.0"
 
 [[package]]
 name = "tibanna-ff"
-version = "2.0.1.1b5"
+version = "2.0.1.1b6"
 description = "Tibanna runs portable pipelines (in CWL/WDL) on the AWS Cloud."
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "tibanna_ff-2.0.1.1b5-py3-none-any.whl", hash = "sha256:5e3b68e77a9d9350fc10f8a54ac43f80d0007a823cac12d972fd9889eaad716b"},
-    {file = "tibanna_ff-2.0.1.1b5.tar.gz", hash = "sha256:064a4f0d8b30e758e7983df6507fdeeb725b82264320a89cef10505e20540898"},
+    {file = "tibanna_ff-2.0.1.1b6-py3-none-any.whl", hash = "sha256:c30e777b3076683d7b367284ae7c22f574b470e6da1b8b268d6c167b41be9780"},
+    {file = "tibanna_ff-2.0.1.1b6.tar.gz", hash = "sha256:45f978dba2d215a3256d9256199bc97022d0dbbee74db2eadbb89ee9c95b7ca1"},
 ]
 
 [package.dependencies]
-boto3 = ">=1.28.51,<2.0.0"
-botocore = ">=1.31.51,<2.0.0"
-dcicutils = "7.12.0.1b5"
+boto3 = ">=1.28.54,<2.0.0"
+botocore = ">=1.31.54,<2.0.0"
+dcicutils = "7.12.0.2b6"
 requests = "2.27.1"
 tibanna = "4.0.0.1b2"
 tomlkit = ">=0.11.0,<0.12.0"
@@ -1688,35 +1552,6 @@ files = [
     {file = "typing_extensions-4.8.0.tar.gz", hash = "sha256:df8e4339e9cb77357558cbdbceca33c303714cf861d1eef15e1070055ae8b7ef"},
 ]
 
-[[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 = "tzlocal"
-version = "5.0.1"
-description = "tzinfo object for the local timezone"
-optional = false
-python-versions = ">=3.7"
-files = [
-    {file = "tzlocal-5.0.1-py3-none-any.whl", hash = "sha256:f3596e180296aaf2dbd97d124fe76ae3a0e3d32b258447de7b939b3fd4be992f"},
-    {file = "tzlocal-5.0.1.tar.gz", hash = "sha256:46eb99ad4bdb71f3f72b7d24f4267753e240944ecfc16f25d2719ba89827a803"},
-]
-
-[package.dependencies]
-"backports.zoneinfo" = {version = "*", markers = "python_version < \"3.9\""}
-tzdata = {version = "*", markers = "platform_system == \"Windows\""}
-
-[package.extras]
-devenv = ["black", "check-manifest", "flake8", "pyroma", "pytest (>=4.3)", "pytest-cov", "pytest-mock (>=3.3)", "zest.releaser"]
-
 [[package]]
 name = "uritemplate"
 version = "3.0.1"
@@ -1839,4 +1674,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "4cf8efc56d26b749a4a47b862f8f9e52b2184c8d94833abdb35930dbcfddc061"
+content-hash = "1d0f1ad55277bf2d53940ba31a5e7270bbecb5858dc8b6d8766d227682a1c6c8"
diff --git a/pyproject.toml b/pyproject.toml
index 6e256c43..42b663e9 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b8"  # TODO: To become 4.0.0
+version = "3.6.1.2b10"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -10,7 +10,7 @@ packages = [
 
 [tool.poetry.dependencies]
 python = ">=3.8,<3.12"
-dcicutils = "7.12.0.1b5"
+dcicutils = "7.12.0.2b6"
 click = "^7.1.2"
 PyJWT = "^2.5.0"
 Jinja2 = "^3.1.2"
@@ -23,10 +23,10 @@ elasticsearch = "7.13.4"
 elasticsearch-dsl = "^7.0.0"
 gitpython = "^3.1.2"
 pytz = "^2020.1"
-magma-suite = "1.5.0.3b1"
-tibanna-ff = "2.0.1.1b5"
+magma-suite = "1.5.0.3b2"
+tibanna-ff = "2.0.1.1b6"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b8"
+foursight-core = "4.5.0.1b10"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From da118535941f69861519edc54409941e947b75c7 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Tue, 26 Sep 2023 16:01:35 -0400
Subject: [PATCH 12/30] udpate foursight-core version

---
 poetry.lock    | 235 +++++++++++++++++++++++++++++++++++++++++--------
 pyproject.toml |   2 +-
 2 files changed, 201 insertions(+), 36 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 7a40ab52..32f6f042 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -36,6 +36,34 @@ files = [
 [package.dependencies]
 requests = ">=0.14.0"
 
+[[package]]
+name = "backports-zoneinfo"
+version = "0.2.1"
+description = "Backport of the standard library zoneinfo module"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-macosx_10_14_x86_64.whl", hash = "sha256:da6013fd84a690242c310d77ddb8441a559e9cb3d3d59ebac9aca1a57b2e18bc"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_i686.whl", hash = "sha256:89a48c0d158a3cc3f654da4c2de1ceba85263fafb861b98b59040a5086259722"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_x86_64.whl", hash = "sha256:1c5742112073a563c81f786e77514969acb58649bcdf6cdf0b4ed31a348d4546"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-win32.whl", hash = "sha256:e8236383a20872c0cdf5a62b554b27538db7fa1bbec52429d8d106effbaeca08"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-win_amd64.whl", hash = "sha256:8439c030a11780786a2002261569bdf362264f605dfa4d65090b64b05c9f79a7"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-macosx_10_14_x86_64.whl", hash = "sha256:f04e857b59d9d1ccc39ce2da1021d196e47234873820cbeaad210724b1ee28ac"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-manylinux1_i686.whl", hash = "sha256:17746bd546106fa389c51dbea67c8b7c8f0d14b5526a579ca6ccf5ed72c526cf"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-manylinux1_x86_64.whl", hash = "sha256:5c144945a7752ca544b4b78c8c41544cdfaf9786f25fe5ffb10e838e19a27570"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-win32.whl", hash = "sha256:e55b384612d93be96506932a786bbcde5a2db7a9e6a4bb4bffe8b733f5b9036b"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-win_amd64.whl", hash = "sha256:a76b38c52400b762e48131494ba26be363491ac4f9a04c1b7e92483d169f6582"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-macosx_10_14_x86_64.whl", hash = "sha256:8961c0f32cd0336fb8e8ead11a1f8cd99ec07145ec2931122faaac1c8f7fd987"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-manylinux1_i686.whl", hash = "sha256:e81b76cace8eda1fca50e345242ba977f9be6ae3945af8d46326d776b4cf78d1"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-manylinux1_x86_64.whl", hash = "sha256:7b0a64cda4145548fed9efc10322770f929b944ce5cee6c0dfe0c87bf4c0c8c9"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-win32.whl", hash = "sha256:1b13e654a55cd45672cb54ed12148cd33628f672548f373963b0bff67b217328"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-win_amd64.whl", hash = "sha256:4a0f800587060bf8880f954dbef70de6c11bbe59c673c3d818921f042f9954a6"},
+    {file = "backports.zoneinfo-0.2.1.tar.gz", hash = "sha256:fadbfe37f74051d024037f223b8e001611eac868b5c5b06144ef4d8b799862f2"},
+]
+
+[package.extras]
+tzdata = ["tzdata"]
+
 [[package]]
 name = "beautifulsoup4"
 version = "4.12.2"
@@ -348,36 +376,49 @@ tomli = {version = "*", optional = true, markers = "python_full_version <= \"3.1
 [package.extras]
 toml = ["tomli"]
 
+[[package]]
+name = "cron-descriptor"
+version = "1.4.0"
+description = "A Python library that converts cron expressions into human readable strings."
+optional = false
+python-versions = "*"
+files = [
+    {file = "cron_descriptor-1.4.0.tar.gz", hash = "sha256:b6ff4e3a988d7ca04a4ab150248e9f166fb7a5c828a85090e75bcc25aa93b4dd"},
+]
+
+[package.extras]
+dev = ["polib"]
+
 [[package]]
 name = "cryptography"
-version = "41.0.4"
+version = "39.0.2"
 description = "cryptography is a package which provides cryptographic recipes and primitives to Python developers."
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.6"
 files = [
-    {file = "cryptography-41.0.4-cp37-abi3-macosx_10_12_universal2.whl", hash = "sha256:80907d3faa55dc5434a16579952ac6da800935cd98d14dbd62f6f042c7f5e839"},
-    {file = "cryptography-41.0.4-cp37-abi3-macosx_10_12_x86_64.whl", hash = "sha256:35c00f637cd0b9d5b6c6bd11b6c3359194a8eba9c46d4e875a3660e3b400005f"},
-    {file = "cryptography-41.0.4-cp37-abi3-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:cecfefa17042941f94ab54f769c8ce0fe14beff2694e9ac684176a2535bf9714"},
-    {file = "cryptography-41.0.4-cp37-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:e40211b4923ba5a6dc9769eab704bdb3fbb58d56c5b336d30996c24fcf12aadb"},
-    {file = "cryptography-41.0.4-cp37-abi3-manylinux_2_28_aarch64.whl", hash = "sha256:23a25c09dfd0d9f28da2352503b23e086f8e78096b9fd585d1d14eca01613e13"},
-    {file = "cryptography-41.0.4-cp37-abi3-manylinux_2_28_x86_64.whl", hash = "sha256:2ed09183922d66c4ec5fdaa59b4d14e105c084dd0febd27452de8f6f74704143"},
-    {file = "cryptography-41.0.4-cp37-abi3-musllinux_1_1_aarch64.whl", hash = "sha256:5a0f09cefded00e648a127048119f77bc2b2ec61e736660b5789e638f43cc397"},
-    {file = "cryptography-41.0.4-cp37-abi3-musllinux_1_1_x86_64.whl", hash = "sha256:9eeb77214afae972a00dee47382d2591abe77bdae166bda672fb1e24702a3860"},
-    {file = "cryptography-41.0.4-cp37-abi3-win32.whl", hash = "sha256:3b224890962a2d7b57cf5eeb16ccaafba6083f7b811829f00476309bce2fe0fd"},
-    {file = "cryptography-41.0.4-cp37-abi3-win_amd64.whl", hash = "sha256:c880eba5175f4307129784eca96f4e70b88e57aa3f680aeba3bab0e980b0f37d"},
-    {file = "cryptography-41.0.4-pp310-pypy310_pp73-macosx_10_12_x86_64.whl", hash = "sha256:004b6ccc95943f6a9ad3142cfabcc769d7ee38a3f60fb0dddbfb431f818c3a67"},
-    {file = "cryptography-41.0.4-pp310-pypy310_pp73-manylinux_2_28_aarch64.whl", hash = "sha256:86defa8d248c3fa029da68ce61fe735432b047e32179883bdb1e79ed9bb8195e"},
-    {file = "cryptography-41.0.4-pp310-pypy310_pp73-manylinux_2_28_x86_64.whl", hash = "sha256:37480760ae08065437e6573d14be973112c9e6dcaf5f11d00147ee74f37a3829"},
-    {file = "cryptography-41.0.4-pp310-pypy310_pp73-win_amd64.whl", hash = "sha256:b5f4dfe950ff0479f1f00eda09c18798d4f49b98f4e2006d644b3301682ebdca"},
-    {file = "cryptography-41.0.4-pp38-pypy38_pp73-macosx_10_12_x86_64.whl", hash = "sha256:7e53db173370dea832190870e975a1e09c86a879b613948f09eb49324218c14d"},
-    {file = "cryptography-41.0.4-pp38-pypy38_pp73-manylinux_2_28_aarch64.whl", hash = "sha256:5b72205a360f3b6176485a333256b9bcd48700fc755fef51c8e7e67c4b63e3ac"},
-    {file = "cryptography-41.0.4-pp38-pypy38_pp73-manylinux_2_28_x86_64.whl", hash = "sha256:93530900d14c37a46ce3d6c9e6fd35dbe5f5601bf6b3a5c325c7bffc030344d9"},
-    {file = "cryptography-41.0.4-pp38-pypy38_pp73-win_amd64.whl", hash = "sha256:efc8ad4e6fc4f1752ebfb58aefece8b4e3c4cae940b0994d43649bdfce8d0d4f"},
-    {file = "cryptography-41.0.4-pp39-pypy39_pp73-macosx_10_12_x86_64.whl", hash = "sha256:c3391bd8e6de35f6f1140e50aaeb3e2b3d6a9012536ca23ab0d9c35ec18c8a91"},
-    {file = "cryptography-41.0.4-pp39-pypy39_pp73-manylinux_2_28_aarch64.whl", hash = "sha256:0d9409894f495d465fe6fda92cb70e8323e9648af912d5b9141d616df40a87b8"},
-    {file = "cryptography-41.0.4-pp39-pypy39_pp73-manylinux_2_28_x86_64.whl", hash = "sha256:8ac4f9ead4bbd0bc8ab2d318f97d85147167a488be0e08814a37eb2f439d5cf6"},
-    {file = "cryptography-41.0.4-pp39-pypy39_pp73-win_amd64.whl", hash = "sha256:047c4603aeb4bbd8db2756e38f5b8bd7e94318c047cfe4efeb5d715e08b49311"},
-    {file = "cryptography-41.0.4.tar.gz", hash = "sha256:7febc3094125fc126a7f6fb1f420d0da639f3f32cb15c8ff0dc3997c4549f51a"},
+    {file = "cryptography-39.0.2-cp36-abi3-macosx_10_12_universal2.whl", hash = "sha256:2725672bb53bb92dc7b4150d233cd4b8c59615cd8288d495eaa86db00d4e5c06"},
+    {file = "cryptography-39.0.2-cp36-abi3-macosx_10_12_x86_64.whl", hash = "sha256:23df8ca3f24699167daf3e23e51f7ba7334d504af63a94af468f468b975b7dd7"},
+    {file = "cryptography-39.0.2-cp36-abi3-manylinux_2_17_aarch64.manylinux2014_aarch64.manylinux_2_24_aarch64.whl", hash = "sha256:eb40fe69cfc6f5cdab9a5ebd022131ba21453cf7b8a7fd3631f45bbf52bed612"},
+    {file = "cryptography-39.0.2-cp36-abi3-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:bc0521cce2c1d541634b19f3ac661d7a64f9555135e9d8af3980965be717fd4a"},
+    {file = "cryptography-39.0.2-cp36-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:ffd394c7896ed7821a6d13b24657c6a34b6e2650bd84ae063cf11ccffa4f1a97"},
+    {file = "cryptography-39.0.2-cp36-abi3-manylinux_2_24_x86_64.whl", hash = "sha256:e8a0772016feeb106efd28d4a328e77dc2edae84dfbac06061319fdb669ff828"},
+    {file = "cryptography-39.0.2-cp36-abi3-manylinux_2_28_aarch64.whl", hash = "sha256:8f35c17bd4faed2bc7797d2a66cbb4f986242ce2e30340ab832e5d99ae60e011"},
+    {file = "cryptography-39.0.2-cp36-abi3-manylinux_2_28_x86_64.whl", hash = "sha256:b49a88ff802e1993b7f749b1eeb31134f03c8d5c956e3c125c75558955cda536"},
+    {file = "cryptography-39.0.2-cp36-abi3-musllinux_1_1_aarch64.whl", hash = "sha256:5f8c682e736513db7d04349b4f6693690170f95aac449c56f97415c6980edef5"},
+    {file = "cryptography-39.0.2-cp36-abi3-musllinux_1_1_x86_64.whl", hash = "sha256:d7d84a512a59f4412ca8549b01f94be4161c94efc598bf09d027d67826beddc0"},
+    {file = "cryptography-39.0.2-cp36-abi3-win32.whl", hash = "sha256:c43ac224aabcbf83a947eeb8b17eaf1547bce3767ee2d70093b461f31729a480"},
+    {file = "cryptography-39.0.2-cp36-abi3-win_amd64.whl", hash = "sha256:788b3921d763ee35dfdb04248d0e3de11e3ca8eb22e2e48fef880c42e1f3c8f9"},
+    {file = "cryptography-39.0.2-pp38-pypy38_pp73-macosx_10_12_x86_64.whl", hash = "sha256:d15809e0dbdad486f4ad0979753518f47980020b7a34e9fc56e8be4f60702fac"},
+    {file = "cryptography-39.0.2-pp38-pypy38_pp73-manylinux_2_28_aarch64.whl", hash = "sha256:50cadb9b2f961757e712a9737ef33d89b8190c3ea34d0fb6675e00edbe35d074"},
+    {file = "cryptography-39.0.2-pp38-pypy38_pp73-manylinux_2_28_x86_64.whl", hash = "sha256:103e8f7155f3ce2ffa0049fe60169878d47a4364b277906386f8de21c9234aa1"},
+    {file = "cryptography-39.0.2-pp38-pypy38_pp73-win_amd64.whl", hash = "sha256:6236a9610c912b129610eb1a274bdc1350b5df834d124fa84729ebeaf7da42c3"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-macosx_10_12_x86_64.whl", hash = "sha256:e944fe07b6f229f4c1a06a7ef906a19652bdd9fd54c761b0ff87e83ae7a30354"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-manylinux_2_17_aarch64.manylinux2014_aarch64.manylinux_2_24_aarch64.whl", hash = "sha256:35d658536b0a4117c885728d1a7032bdc9a5974722ae298d6c533755a6ee3915"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-manylinux_2_24_x86_64.whl", hash = "sha256:30b1d1bfd00f6fc80d11300a29f1d8ab2b8d9febb6ed4a38a76880ec564fae84"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-manylinux_2_28_aarch64.whl", hash = "sha256:e029b844c21116564b8b61216befabca4b500e6816fa9f0ba49527653cae2108"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-manylinux_2_28_x86_64.whl", hash = "sha256:fa507318e427169ade4e9eccef39e9011cdc19534f55ca2f36ec3f388c1f70f3"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-win_amd64.whl", hash = "sha256:8bc0008ef798231fac03fe7d26e82d601d15bd16f3afaad1c6113771566570f3"},
+    {file = "cryptography-39.0.2.tar.gz", hash = "sha256:bc5b871e977c8ee5a1bbc42fa8d19bcc08baf0c51cbf1586b0e87a2694dde42f"},
 ]
 
 [package.dependencies]
@@ -386,12 +427,12 @@ cffi = ">=1.12"
 [package.extras]
 docs = ["sphinx (>=5.3.0)", "sphinx-rtd-theme (>=1.1.1)"]
 docstest = ["pyenchant (>=1.6.11)", "sphinxcontrib-spelling (>=4.0.1)", "twine (>=1.12.0)"]
-nox = ["nox"]
-pep8test = ["black", "check-sdist", "mypy", "ruff"]
-sdist = ["build"]
+pep8test = ["black", "check-manifest", "mypy", "ruff", "types-pytz", "types-requests"]
+sdist = ["setuptools-rust (>=0.11.4)"]
 ssh = ["bcrypt (>=3.1.5)"]
-test = ["pretend", "pytest (>=6.2.0)", "pytest-benchmark", "pytest-cov", "pytest-xdist"]
+test = ["hypothesis (>=1.11.4,!=3.79.2)", "iso8601", "pretend", "pytest (>=6.2.0)", "pytest-benchmark", "pytest-cov", "pytest-shard (>=0.1.2)", "pytest-subtests", "pytest-xdist", "pytz"]
 test-randomorder = ["pytest-randomly"]
+tox = ["tox"]
 
 [[package]]
 name = "dcicutils"
@@ -539,13 +580,32 @@ name = "foursight-core"
 version = "4.5.0.1b10"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
-python-versions = "*"
-files = []
-develop = true
+python-versions = ">=3.8,<3.12"
+files = [
+    {file = "foursight_core-4.5.0.1b10-py3-none-any.whl", hash = "sha256:fdfc3137328901819c155c3e4e40f9bbecde5ee0433e6fc345d0aba5ca8f0927"},
+    {file = "foursight_core-4.5.0.1b10.tar.gz", hash = "sha256:70f431df08102b456dac60beed38ca88e8a4a32909284ff7ea1a355740563016"},
+]
 
-[package.source]
-type = "directory"
-url = "../foursight-core"
+[package.dependencies]
+click = ">=7.1.2,<8.0.0"
+cron-descriptor = ">=1.2.31,<2.0.0"
+cryptography = "39.0.2"
+dcicutils = "7.12.0.2b6"
+elasticsearch = "7.13.4"
+elasticsearch-dsl = ">=7.0.0,<8.0.0"
+geocoder = "1.38.1"
+gitpython = ">=3.1.2,<4.0.0"
+google = ">=3.0.0,<4.0.0"
+google-api-python-client = ">=1.12.5,<2.0.0"
+google-auth-oauthlib = ">=0.7.0,<0.8.0"
+Jinja2 = ">=3.1.2,<4.0.0"
+MarkupSafe = ">=2.1.3,<3.0.0"
+pyDes = ">=2.0.1,<3.0.0"
+PyJWT = ">=2.5.0,<3.0.0"
+pytz = ">=2020.1"
+redis = ">=4.5.1,<5.0.0"
+toml = ">=0.10.2,<1"
+tzlocal = ">=5.0.1,<6.0.0"
 
 [[package]]
 name = "future"
@@ -606,6 +666,20 @@ gitdb = ">=4.0.1,<5"
 [package.extras]
 test = ["black", "coverage[toml]", "ddt (>=1.1.1,!=1.4.3)", "mypy", "pre-commit", "pytest", "pytest-cov", "pytest-sugar"]
 
+[[package]]
+name = "google"
+version = "3.0.0"
+description = "Python bindings to the Google search engine."
+optional = false
+python-versions = "*"
+files = [
+    {file = "google-3.0.0-py2.py3-none-any.whl", hash = "sha256:889cf695f84e4ae2c55fbc0cfdaf4c1e729417fa52ab1db0485202ba173e4935"},
+    {file = "google-3.0.0.tar.gz", hash = "sha256:143530122ee5130509ad5e989f0512f7cb218b2d4eddbafbad40fd10e8d8ccbe"},
+]
+
+[package.dependencies]
+beautifulsoup4 = "*"
+
 [[package]]
 name = "google-api-core"
 version = "2.12.0"
@@ -686,6 +760,24 @@ files = [
 google-auth = "*"
 httplib2 = ">=0.19.0"
 
+[[package]]
+name = "google-auth-oauthlib"
+version = "0.7.1"
+description = "Google Authentication Library"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "google-auth-oauthlib-0.7.1.tar.gz", hash = "sha256:9940f543f77d1447432a93781d7c931fb53e418023351ad4bf9e92837a1154ec"},
+    {file = "google_auth_oauthlib-0.7.1-py2.py3-none-any.whl", hash = "sha256:860e54c4b58b2664116c9cb44325bc0ec92bcd93e8211698ceea911b1b873b86"},
+]
+
+[package.dependencies]
+google-auth = ">=2.14.0"
+requests-oauthlib = ">=0.7.0"
+
+[package.extras]
+tool = ["click (>=6.0.0)"]
+
 [[package]]
 name = "googleapis-common-protos"
 version = "1.60.0"
@@ -885,6 +977,22 @@ files = [
 [package.dependencies]
 psutil = {version = ">=4.0.0", markers = "sys_platform != \"cygwin\""}
 
+[[package]]
+name = "oauthlib"
+version = "3.2.2"
+description = "A generic, spec-compliant, thorough implementation of the OAuth request-signing logic"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "oauthlib-3.2.2-py3-none-any.whl", hash = "sha256:8139f29aac13e25d502680e9e19963e83f16838d48a0d71c287fe40e7067fbca"},
+    {file = "oauthlib-3.2.2.tar.gz", hash = "sha256:9859c40929662bec5d64f34d01c99e093149682a3f38915dc0655d5a633dd918"},
+]
+
+[package.extras]
+rsa = ["cryptography (>=3.0.0)"]
+signals = ["blinker (>=1.4.0)"]
+signedtoken = ["cryptography (>=3.0.0)", "pyjwt (>=2.0.0,<3)"]
+
 [[package]]
 name = "opensearch-py"
 version = "2.3.1"
@@ -1041,6 +1149,16 @@ files = [
     {file = "pycparser-2.21.tar.gz", hash = "sha256:e644fdec12f7872f86c58ff790da456218b10f863970249516d60a5eaca77206"},
 ]
 
+[[package]]
+name = "pydes"
+version = "2.0.1"
+description = "Pure python implementation of DES and TRIPLE DES encryption algorithm"
+optional = false
+python-versions = "*"
+files = [
+    {file = "pyDes-2.0.1.tar.gz", hash = "sha256:e2ab8e21d2b83e90d90dbfdcb6fb8ac0000b813238b7ecaede04f8435c389012"},
+]
+
 [[package]]
 name = "pyjwt"
 version = "2.8.0"
@@ -1337,6 +1455,24 @@ urllib3 = ">=1.21.1,<1.27"
 socks = ["PySocks (>=1.5.6,!=1.5.7)", "win-inet-pton"]
 use-chardet-on-py3 = ["chardet (>=3.0.2,<5)"]
 
+[[package]]
+name = "requests-oauthlib"
+version = "1.3.1"
+description = "OAuthlib authentication support for Requests."
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+files = [
+    {file = "requests-oauthlib-1.3.1.tar.gz", hash = "sha256:75beac4a47881eeb94d5ea5d6ad31ef88856affe2332b9aafb52c6452ccf0d7a"},
+    {file = "requests_oauthlib-1.3.1-py2.py3-none-any.whl", hash = "sha256:2577c501a2fb8d05a304c09d090d6e47c306fef15809d102b327cf8364bddab5"},
+]
+
+[package.dependencies]
+oauthlib = ">=3.0.0"
+requests = ">=2.0.0"
+
+[package.extras]
+rsa = ["oauthlib[signedtoken] (>=3.0.0)"]
+
 [[package]]
 name = "rfc3986"
 version = "1.5.0"
@@ -1552,6 +1688,35 @@ files = [
     {file = "typing_extensions-4.8.0.tar.gz", hash = "sha256:df8e4339e9cb77357558cbdbceca33c303714cf861d1eef15e1070055ae8b7ef"},
 ]
 
+[[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 = "tzlocal"
+version = "5.0.1"
+description = "tzinfo object for the local timezone"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "tzlocal-5.0.1-py3-none-any.whl", hash = "sha256:f3596e180296aaf2dbd97d124fe76ae3a0e3d32b258447de7b939b3fd4be992f"},
+    {file = "tzlocal-5.0.1.tar.gz", hash = "sha256:46eb99ad4bdb71f3f72b7d24f4267753e240944ecfc16f25d2719ba89827a803"},
+]
+
+[package.dependencies]
+"backports.zoneinfo" = {version = "*", markers = "python_version < \"3.9\""}
+tzdata = {version = "*", markers = "platform_system == \"Windows\""}
+
+[package.extras]
+devenv = ["black", "check-manifest", "flake8", "pyroma", "pytest (>=4.3)", "pytest-cov", "pytest-mock (>=3.3)", "zest.releaser"]
+
 [[package]]
 name = "uritemplate"
 version = "3.0.1"
diff --git a/pyproject.toml b/pyproject.toml
index 42b663e9..109614e3 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b10"  # TODO: To become 4.0.0
+version = "3.6.1.2b11"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"

From 98be730a3de3aa49944c4616c15690e4912e64bd Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Wed, 27 Sep 2023 15:02:53 -0400
Subject: [PATCH 13/30] Update foursight-core version.

---
 poetry.lock    | 30 +++++++++++++++---------------
 pyproject.toml |  4 ++--
 2 files changed, 17 insertions(+), 17 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 32f6f042..a31cc9f8 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -111,32 +111,32 @@ wcwidth = ">=0.1.4"
 
 [[package]]
 name = "boto3"
-version = "1.28.54"
+version = "1.28.55"
 description = "The AWS SDK for Python"
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "boto3-1.28.54-py3-none-any.whl", hash = "sha256:3cb2aee317a1b8686e3b23674e4099b8ff7451bd8acc61b9719acff86fa024d1"},
-    {file = "boto3-1.28.54.tar.gz", hash = "sha256:22e37d8c4f2d97b5e5c6ccc1d9edc7760717990b0ba8b8ea17a58cc87e57c5c9"},
+    {file = "boto3-1.28.55-py3-none-any.whl", hash = "sha256:2680c0e36167e672777110ccef5303d59fa4a6a4f10086f9c14158c5cb008d5c"},
+    {file = "boto3-1.28.55.tar.gz", hash = "sha256:2ceb644b1df7c3c8907913ab367a9900af79e271b4cfca37b542ec1fa142faf8"},
 ]
 
 [package.dependencies]
-botocore = ">=1.31.54,<1.32.0"
+botocore = ">=1.31.55,<1.32.0"
 jmespath = ">=0.7.1,<2.0.0"
-s3transfer = ">=0.6.0,<0.7.0"
+s3transfer = ">=0.7.0,<0.8.0"
 
 [package.extras]
 crt = ["botocore[crt] (>=1.21.0,<2.0a0)"]
 
 [[package]]
 name = "botocore"
-version = "1.31.54"
+version = "1.31.55"
 description = "Low-level, data-driven core of boto 3."
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "botocore-1.31.54-py3-none-any.whl", hash = "sha256:71fdb337ddcdb6bf378e1211cba9ce754c35f12b1524c7d0c0c147b2310356c7"},
-    {file = "botocore-1.31.54.tar.gz", hash = "sha256:c98e78a9490c4166b205f87912b46770e156bfe7d53bae54ccbd49c68a336ec6"},
+    {file = "botocore-1.31.55-py3-none-any.whl", hash = "sha256:5ec27caa440257619712af0a71524cc2e56110fc502853c3e4046f87b65e42e9"},
+    {file = "botocore-1.31.55.tar.gz", hash = "sha256:21ba89c4df083338ec463d9c2a8cffca42a99f9ad5f24bcac1870393b216c5a7"},
 ]
 
 [package.dependencies]
@@ -577,13 +577,13 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b10"
+version = "4.5.0.1b12"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b10-py3-none-any.whl", hash = "sha256:fdfc3137328901819c155c3e4e40f9bbecde5ee0433e6fc345d0aba5ca8f0927"},
-    {file = "foursight_core-4.5.0.1b10.tar.gz", hash = "sha256:70f431df08102b456dac60beed38ca88e8a4a32909284ff7ea1a355740563016"},
+    {file = "foursight_core-4.5.0.1b12-py3-none-any.whl", hash = "sha256:183b42bb1ba9fa6581508d35f7c847b490ae07a66e31ae213723466890216b95"},
+    {file = "foursight_core-4.5.0.1b12.tar.gz", hash = "sha256:dace4cb4620c46f94d3ae671f353a92356eb564e3349ae562dc837a569eb9675"},
 ]
 
 [package.dependencies]
@@ -1503,13 +1503,13 @@ pyasn1 = ">=0.1.3"
 
 [[package]]
 name = "s3transfer"
-version = "0.6.2"
+version = "0.7.0"
 description = "An Amazon S3 Transfer Manager"
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "s3transfer-0.6.2-py3-none-any.whl", hash = "sha256:b014be3a8a2aab98cfe1abc7229cc5a9a0cf05eb9c1f2b86b230fd8df3f78084"},
-    {file = "s3transfer-0.6.2.tar.gz", hash = "sha256:cab66d3380cca3e70939ef2255d01cd8aece6a4907a9528740f668c4b0611861"},
+    {file = "s3transfer-0.7.0-py3-none-any.whl", hash = "sha256:10d6923c6359175f264811ef4bf6161a3156ce8e350e705396a7557d6293c33a"},
+    {file = "s3transfer-0.7.0.tar.gz", hash = "sha256:fd3889a66f5fe17299fe75b82eae6cf722554edca744ca5d5fe308b104883d2e"},
 ]
 
 [package.dependencies]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "1d0f1ad55277bf2d53940ba31a5e7270bbecb5858dc8b6d8766d227682a1c6c8"
+content-hash = "fc9cf3ef05c8ce2061bb974faad336529fb02b41ea92d531957afaa99c5a47a7"
diff --git a/pyproject.toml b/pyproject.toml
index 109614e3..511bf0a7 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b11"  # TODO: To become 4.0.0
+version = "3.6.1.2b12"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b2"
 tibanna-ff = "2.0.1.1b6"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b10"
+foursight-core = "4.5.0.1b12"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From 5ad95cc0fcb418eb50dd2672244a7d666070af79 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Wed, 27 Sep 2023 15:26:31 -0400
Subject: [PATCH 14/30] Update foursight-core version.

---
 poetry.lock    | 8 ++++----
 pyproject.toml | 4 ++--
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index a31cc9f8..6039a08f 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -577,13 +577,13 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b12"
+version = "4.5.0.1b13"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b12-py3-none-any.whl", hash = "sha256:183b42bb1ba9fa6581508d35f7c847b490ae07a66e31ae213723466890216b95"},
-    {file = "foursight_core-4.5.0.1b12.tar.gz", hash = "sha256:dace4cb4620c46f94d3ae671f353a92356eb564e3349ae562dc837a569eb9675"},
+    {file = "foursight_core-4.5.0.1b13-py3-none-any.whl", hash = "sha256:0db37e54b3dc4748051b4bf4ae7990d5a0f46b75ea63dd7ab951fa179159ccfc"},
+    {file = "foursight_core-4.5.0.1b13.tar.gz", hash = "sha256:a28d091f5fa334afd283b6028314d32eb3973155f0c4b06e393792949285af71"},
 ]
 
 [package.dependencies]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "fc9cf3ef05c8ce2061bb974faad336529fb02b41ea92d531957afaa99c5a47a7"
+content-hash = "0322da4b4275dbb97f5c9d90c5c3b040c73e0010655bb69c5d79b7d4d8900bda"
diff --git a/pyproject.toml b/pyproject.toml
index 511bf0a7..7aa4b7a3 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b12"  # TODO: To become 4.0.0
+version = "3.6.1.2b13"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b2"
 tibanna-ff = "2.0.1.1b6"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b12"
+foursight-core = "4.5.0.1b13"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From 05ffcc9d32d65a30dbb12dea9d0e49da2c2f00b0 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Thu, 28 Sep 2023 08:08:21 -0400
Subject: [PATCH 15/30] Update main-CI.yml for Python 3.11

---
 .github/workflows/main-CI.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/main-CI.yml b/.github/workflows/main-CI.yml
index d20bcbc2..f1674bb4 100644
--- a/.github/workflows/main-CI.yml
+++ b/.github/workflows/main-CI.yml
@@ -26,7 +26,7 @@ jobs:
       - uses: actions/checkout@v2
       - uses: actions/setup-python@v2
         with:
-          python-version: '3.7'
+          python-version: '3.11'
 
       - name: Install Deps
         run: pip install poetry

From ab4f9c6a4b111346ecf4d4e27978c0f79e9e98e8 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Thu, 28 Sep 2023 08:11:55 -0400
Subject: [PATCH 16/30] CHANGES.rst update

---
 CHANGELOG.rst | 20 ++++++++++++++++++++
 1 file changed, 20 insertions(+)

diff --git a/CHANGELOG.rst b/CHANGELOG.rst
index 064600ef..eef790ad 100644
--- a/CHANGELOG.rst
+++ b/CHANGELOG.rst
@@ -9,22 +9,27 @@ Change Log
 
 4.0.0
 =====
+
 * Update to Python 3.11.
 
 3.6.1
 =====
+
 * Add ingestion type to POST body for VCF ingestion action
 
 3.6.0
 =====
+
 * Changes (to foursight-core) to the access key check; making sure the action does not run every single day.
 
 3.5.0
 =====
+
 * Changes in foursight-core (4.3.0) to fix access key check.
 
 3.4.5
 =====
+
 * Minor UI fixes for display of status text for checks/actions - in foursight-core.
 * Added UI warning for registered action functions with no associated check - in foursight-core.
 * Added UI display of Redis info on INFO page - in foursight-core.
@@ -32,17 +37,20 @@ Change Log
 
 3.4.4
 =====
+
 * Update foursight-core 4.1.2.
   Fixes for check arguments not being converted (from string) to int/float/etc as
   appropriate in the React version only (was not calling query_params_to_literals).
 
 3.4.2
 =====
+
 * Version changes related to foursight-core changes for SSL certificate and Portal access key checking.
 * Using new dcicutils.scripts.publish_to_pypi for publish.
 
 3.3.3
 =====
+
 * Dependency updates to update magma + tibanna_ff to fix cost updates on MWFRs
 * Lifecycle policy tweaks
   * Remove default deletion of "long term" storage options
@@ -50,19 +58,23 @@ Change Log
 
 3.3.2
 =====
+
 * Update to foursight-core 3.3.2 (and dcicutils 6.8.0).
 
 3.3.0
 =====
+
 * Changes related editing user projects/institutions.
 * Removed the trigger_codebuild_run check (in foursight-core now).
 
 3.2.0
 =====
+
 * Changes related to support for running actions in Foursight React.
 
 3.1.0
 =====
+
 * Updated foursight-core version; changes there related to /accounts page.
   Not actually used currently here, only in foursight.
 * Moved lookup of check_setup.json (and accounts.json) to foursight-core,
@@ -70,6 +82,7 @@ Change Log
 
 2.2.0
 =====
+
 * Changes related to Foursight React.
   * Renamed chalicelib directory to chalicelib_cgap.
   * Renamed target package (pyproject.toml) from chalicelib to chalicelib_cgap.
@@ -86,23 +99,28 @@ Change Log
 
 2.1.4
 =====
+
 * Bring in mamga v1.1.0
 
 2.1.3
 =====
+
 * Lifecycle management: Only check files with ``project.lifecycle_management_active=true``. Furthermore, exclude files with status ``uploading`` and ``to be uploaded by workflow`` from the check.
 
 2.1.2
 =====
+
 * Assign correct action status when patch_file_lifecycle_status fails.
 
 2.1.1
 =====
+
 * Move lifecycle checks to separate group in UI.
 * Automatically run action for lifecycle checks.
 
 2.1.0
 =====
+
 * Spruced up Foursight UI a bit (virtually all in foursight-core but mentioning here).
   * New header/footer.
     * Different looks for Foursight-CGAP (blue header) and Foursight-Fourfront (green header).
@@ -115,9 +133,11 @@ Change Log
 
 2.0.1
 =====
+
 * Work to spruce up the UI a bit.
 
 2.0.0
 =====
+
 * Created this CHANGELOG.rst file.
 * New version of foursight-core (1.0.0) for work related to C4-826 (IDENTITY-izing Foursight).

From 114592063256e46523437fd605781dca5eb487b2 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Thu, 28 Sep 2023 08:14:28 -0400
Subject: [PATCH 17/30] Update Ubuntu from 20.04 to 22.04 for GA.

---
 .github/workflows/main-CI.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/main-CI.yml b/.github/workflows/main-CI.yml
index f1674bb4..da7e142f 100644
--- a/.github/workflows/main-CI.yml
+++ b/.github/workflows/main-CI.yml
@@ -18,7 +18,7 @@ jobs:
   # This workflow contains a single job called "build"
   build:
     # The type of runner that the job will run on
-    runs-on: ubuntu-20.04
+    runs-on: ubuntu-22.04
 
     # Steps represent a sequence of tasks that will be executed as part of the job
     steps:

From e56f63f38ec1542e9f777b0f551a1e4e61e9eabf Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Thu, 28 Sep 2023 13:33:16 -0400
Subject: [PATCH 18/30] update dcicutils, foursigt-core, tibanna-ff,
 magma-suite versions.

---
 poetry.lock    | 64 +++++++++++++++++++++++++-------------------------
 pyproject.toml | 10 ++++----
 2 files changed, 37 insertions(+), 37 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 6039a08f..f76e33d8 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -111,17 +111,17 @@ wcwidth = ">=0.1.4"
 
 [[package]]
 name = "boto3"
-version = "1.28.55"
+version = "1.28.56"
 description = "The AWS SDK for Python"
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "boto3-1.28.55-py3-none-any.whl", hash = "sha256:2680c0e36167e672777110ccef5303d59fa4a6a4f10086f9c14158c5cb008d5c"},
-    {file = "boto3-1.28.55.tar.gz", hash = "sha256:2ceb644b1df7c3c8907913ab367a9900af79e271b4cfca37b542ec1fa142faf8"},
+    {file = "boto3-1.28.56-py3-none-any.whl", hash = "sha256:f5fcb27cdbd08ca38d699f2d2e32d96d1d9fab3368c15c6bc326256612d2cfd7"},
+    {file = "boto3-1.28.56.tar.gz", hash = "sha256:b927a7ed335d543c33c15fa63f1076f3fa8422959771c2187da74bc4395ab6e3"},
 ]
 
 [package.dependencies]
-botocore = ">=1.31.55,<1.32.0"
+botocore = ">=1.31.56,<1.32.0"
 jmespath = ">=0.7.1,<2.0.0"
 s3transfer = ">=0.7.0,<0.8.0"
 
@@ -130,13 +130,13 @@ crt = ["botocore[crt] (>=1.21.0,<2.0a0)"]
 
 [[package]]
 name = "botocore"
-version = "1.31.55"
+version = "1.31.56"
 description = "Low-level, data-driven core of boto 3."
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "botocore-1.31.55-py3-none-any.whl", hash = "sha256:5ec27caa440257619712af0a71524cc2e56110fc502853c3e4046f87b65e42e9"},
-    {file = "botocore-1.31.55.tar.gz", hash = "sha256:21ba89c4df083338ec463d9c2a8cffca42a99f9ad5f24bcac1870393b216c5a7"},
+    {file = "botocore-1.31.56-py3-none-any.whl", hash = "sha256:66c686e4eda7051ffcc9357d9075390c8ab2f95a2977669039618ee186fb533b"},
+    {file = "botocore-1.31.56.tar.gz", hash = "sha256:70252cd8abc2fe9b791328e187620f5a3911545e2520486b01ecfad31f41b9cb"},
 ]
 
 [package.dependencies]
@@ -436,13 +436,13 @@ tox = ["tox"]
 
 [[package]]
 name = "dcicutils"
-version = "7.12.0.2b6"
+version = "7.12.0.2b9"
 description = "Utility package for interacting with the 4DN Data Portal and other 4DN resources"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "dcicutils-7.12.0.2b6-py3-none-any.whl", hash = "sha256:6e03e4d168f7056d4db4ebf7ec6c0367af62c9a2d36ba9808b20ed1ead875752"},
-    {file = "dcicutils-7.12.0.2b6.tar.gz", hash = "sha256:1e499d539bef10d955ed1303530f74a5207aef7b454829ab5eedee7a76e2b7a2"},
+    {file = "dcicutils-7.12.0.2b9-py3-none-any.whl", hash = "sha256:12d3e6cd0f26ad7e464a5e8c7c646d28d23f63a1e423ca4fa7ae536f3b9fd4d2"},
+    {file = "dcicutils-7.12.0.2b9.tar.gz", hash = "sha256:ef0da351164cd2495e5570d393c6564fdf8dab1f60a1b613c40dfd405693894e"},
 ]
 
 [package.dependencies]
@@ -577,20 +577,20 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b13"
+version = "4.5.0.1b15"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b13-py3-none-any.whl", hash = "sha256:0db37e54b3dc4748051b4bf4ae7990d5a0f46b75ea63dd7ab951fa179159ccfc"},
-    {file = "foursight_core-4.5.0.1b13.tar.gz", hash = "sha256:a28d091f5fa334afd283b6028314d32eb3973155f0c4b06e393792949285af71"},
+    {file = "foursight_core-4.5.0.1b15-py3-none-any.whl", hash = "sha256:e39b8489105c944902b079cf92f08f43d28f5c66567e388d69fe58737626d0d4"},
+    {file = "foursight_core-4.5.0.1b15.tar.gz", hash = "sha256:68f2058930153dfcce3f349030cd1ccdd398a2bf836dd3ab55b0b60f52fc1ede"},
 ]
 
 [package.dependencies]
 click = ">=7.1.2,<8.0.0"
 cron-descriptor = ">=1.2.31,<2.0.0"
 cryptography = "39.0.2"
-dcicutils = "7.12.0.2b6"
+dcicutils = "7.12.0.2b9"
 elasticsearch = "7.13.4"
 elasticsearch-dsl = ">=7.0.0,<8.0.0"
 geocoder = "1.38.1"
@@ -891,18 +891,18 @@ files = [
 
 [[package]]
 name = "magma-suite"
-version = "1.5.0.3b2"
+version = "1.5.0.3b5"
 description = "Collection of tools to manage meta-workflows automation."
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "magma_suite-1.5.0.3b2-py3-none-any.whl", hash = "sha256:017d3381790124b8272fa96b5451098a23ddb2c99097280fec416cd6f39fca9a"},
-    {file = "magma_suite-1.5.0.3b2.tar.gz", hash = "sha256:b45d0c91f8336a91c887d537c78142965766b619cae8c53fbf0c1e7cb3a69d6b"},
+    {file = "magma_suite-1.5.0.3b5-py3-none-any.whl", hash = "sha256:bc9b97bae6dc2457cd66bd965238836e7a9d952c08417086e7ecf63abc47480b"},
+    {file = "magma_suite-1.5.0.3b5.tar.gz", hash = "sha256:85aa56cb69fb42377a95ceec80015e028dfa8d1262bc7539fe92be3fccafaccf"},
 ]
 
 [package.dependencies]
-dcicutils = "7.12.0.2b6"
-tibanna-ff = "2.0.1.1b6"
+dcicutils = "7.12.0.2b9"
+tibanna-ff = "2.0.1.1b10"
 
 [[package]]
 name = "markupsafe"
@@ -1589,39 +1589,39 @@ tests = ["coverage", "freezegun (>=0.2.8)", "pretend", "pytest (>=3.3.0)", "pyth
 
 [[package]]
 name = "tibanna"
-version = "4.0.0.1b2"
+version = "4.0.0.1b4"
 description = "Tibanna runs portable pipelines (in CWL/WDL) on the AWS Cloud."
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "tibanna-4.0.0.1b2-py3-none-any.whl", hash = "sha256:bc7f52cbe53c6b723d1650939afeaa46765893986d1760074d32d4aafe9967e7"},
-    {file = "tibanna-4.0.0.1b2.tar.gz", hash = "sha256:2565aa7da5d2ef55558fda69a02f3dac9dbe559a8f504fca107dbe072eec0d40"},
+    {file = "tibanna-4.0.0.1b4-py3-none-any.whl", hash = "sha256:f3fde1244f3a52641bdb0cdfd2688f46e3b31197b195b05f7fbb3161df2d4dfb"},
+    {file = "tibanna-4.0.0.1b4.tar.gz", hash = "sha256:6a8a8a4a2daa6c0c079ed9db764dd107ea97b0d1356941b90831f4437b24fbab"},
 ]
 
 [package.dependencies]
 Benchmark-4dn = ">=0.5.23,<0.6.0"
-boto3 = ">=1.28.51,<2.0.0"
-botocore = ">=1.31.51,<2.0.0"
+boto3 = ">=1.28.56,<2.0.0"
+botocore = ">=1.31.56,<2.0.0"
 python-lambda-4dn = "0.12.3"
 tomlkit = ">=0.11.0,<0.12.0"
 
 [[package]]
 name = "tibanna-ff"
-version = "2.0.1.1b6"
+version = "2.0.1.1b10"
 description = "Tibanna runs portable pipelines (in CWL/WDL) on the AWS Cloud."
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "tibanna_ff-2.0.1.1b6-py3-none-any.whl", hash = "sha256:c30e777b3076683d7b367284ae7c22f574b470e6da1b8b268d6c167b41be9780"},
-    {file = "tibanna_ff-2.0.1.1b6.tar.gz", hash = "sha256:45f978dba2d215a3256d9256199bc97022d0dbbee74db2eadbb89ee9c95b7ca1"},
+    {file = "tibanna_ff-2.0.1.1b10-py3-none-any.whl", hash = "sha256:0e482f6cf98bfa18b4353e91686da176d4cdc1b4636b5cc0bde1529bd70ef0bd"},
+    {file = "tibanna_ff-2.0.1.1b10.tar.gz", hash = "sha256:f08ad73325dce65157c36a780b8e0252ec56829dae17b0960bd86faae18aa594"},
 ]
 
 [package.dependencies]
-boto3 = ">=1.28.54,<2.0.0"
-botocore = ">=1.31.54,<2.0.0"
-dcicutils = "7.12.0.2b6"
+boto3 = ">=1.28.56,<2.0.0"
+botocore = ">=1.31.56,<2.0.0"
+dcicutils = "7.12.0.2b9"
 requests = "2.27.1"
-tibanna = "4.0.0.1b2"
+tibanna = "4.0.0.1b4"
 tomlkit = ">=0.11.0,<0.12.0"
 
 [[package]]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "0322da4b4275dbb97f5c9d90c5c3b040c73e0010655bb69c5d79b7d4d8900bda"
+content-hash = "d05382f54b34ede22a0db1b1eacfb8bc5c7f669ab0128809d7c14e1757e1cf7f"
diff --git a/pyproject.toml b/pyproject.toml
index 7aa4b7a3..41a77dfc 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b13"  # TODO: To become 4.0.0
+version = "3.6.1.2b15"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -10,7 +10,7 @@ packages = [
 
 [tool.poetry.dependencies]
 python = ">=3.8,<3.12"
-dcicutils = "7.12.0.2b6"
+dcicutils = "7.12.0.2b9"
 click = "^7.1.2"
 PyJWT = "^2.5.0"
 Jinja2 = "^3.1.2"
@@ -23,10 +23,10 @@ elasticsearch = "7.13.4"
 elasticsearch-dsl = "^7.0.0"
 gitpython = "^3.1.2"
 pytz = "^2020.1"
-magma-suite = "1.5.0.3b2"
-tibanna-ff = "2.0.1.1b6"
+magma-suite = "1.5.0.3b5"
+tibanna-ff = "2.0.1.1b10"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b13"
+foursight-core = "4.5.0.1b15"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From 5d4673ffc576f33f2933f24c39a00d0630272937 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Thu, 28 Sep 2023 13:59:55 -0400
Subject: [PATCH 19/30] update foursight-core version

---
 poetry.lock    | 8 ++++----
 pyproject.toml | 4 ++--
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index f76e33d8..697df792 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -577,13 +577,13 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b15"
+version = "4.5.0.1b16"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b15-py3-none-any.whl", hash = "sha256:e39b8489105c944902b079cf92f08f43d28f5c66567e388d69fe58737626d0d4"},
-    {file = "foursight_core-4.5.0.1b15.tar.gz", hash = "sha256:68f2058930153dfcce3f349030cd1ccdd398a2bf836dd3ab55b0b60f52fc1ede"},
+    {file = "foursight_core-4.5.0.1b16-py3-none-any.whl", hash = "sha256:51650560913591669deb6e9889161c9d0d08a3100b235dc9762f7be76ede9fba"},
+    {file = "foursight_core-4.5.0.1b16.tar.gz", hash = "sha256:a491139d223af7ad22f2246308087784b0a70b0ce6a5fbc36bb5cd61c64f2c16"},
 ]
 
 [package.dependencies]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "d05382f54b34ede22a0db1b1eacfb8bc5c7f669ab0128809d7c14e1757e1cf7f"
+content-hash = "b76e5297964f18046cca5002b25fdfef06e4e43477a9712290a8448f279515db"
diff --git a/pyproject.toml b/pyproject.toml
index 41a77dfc..a9ed1ca8 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b15"  # TODO: To become 4.0.0
+version = "3.6.1.2b16"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b5"
 tibanna-ff = "2.0.1.1b10"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b15"
+foursight-core = "4.5.0.1b16"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From e04b73a6f2559124561d6fe73358148d7b7f1d02 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Mon, 2 Oct 2023 10:42:12 -0400
Subject: [PATCH 20/30] update foursight related versions

---
 poetry.lock    | 8 ++++----
 pyproject.toml | 4 ++--
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 697df792..291ee3f0 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -577,13 +577,13 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b16"
+version = "4.5.0.1b18"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b16-py3-none-any.whl", hash = "sha256:51650560913591669deb6e9889161c9d0d08a3100b235dc9762f7be76ede9fba"},
-    {file = "foursight_core-4.5.0.1b16.tar.gz", hash = "sha256:a491139d223af7ad22f2246308087784b0a70b0ce6a5fbc36bb5cd61c64f2c16"},
+    {file = "foursight_core-4.5.0.1b18-py3-none-any.whl", hash = "sha256:03635536b1f15dad0748d59bc2f069b5217abe4aa35ebca7673aa35c07a8e915"},
+    {file = "foursight_core-4.5.0.1b18.tar.gz", hash = "sha256:1ef613a498a07db2ef22a8e8b913017edcddbd2d1e8ff6183e884f59b9cecdbd"},
 ]
 
 [package.dependencies]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "b76e5297964f18046cca5002b25fdfef06e4e43477a9712290a8448f279515db"
+content-hash = "e2dd75e728e4da6c3582e7228bd7ee0136baec5b9702e9ac7f241287cd2a4979"
diff --git a/pyproject.toml b/pyproject.toml
index a9ed1ca8..b90a2537 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b16"  # TODO: To become 4.0.0
+version = "3.6.1.2b18"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b5"
 tibanna-ff = "2.0.1.1b10"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b16"
+foursight-core = "4.5.0.1b18"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From a1e490408c9bc2b8fc55b907492ed23c6ca355f9 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Mon, 2 Oct 2023 11:10:51 -0400
Subject: [PATCH 21/30] update foursight related versions

---
 poetry.lock    | 8 ++++----
 pyproject.toml | 4 ++--
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 291ee3f0..2a3cdd21 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -577,13 +577,13 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b18"
+version = "4.5.0.1b19"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b18-py3-none-any.whl", hash = "sha256:03635536b1f15dad0748d59bc2f069b5217abe4aa35ebca7673aa35c07a8e915"},
-    {file = "foursight_core-4.5.0.1b18.tar.gz", hash = "sha256:1ef613a498a07db2ef22a8e8b913017edcddbd2d1e8ff6183e884f59b9cecdbd"},
+    {file = "foursight_core-4.5.0.1b19-py3-none-any.whl", hash = "sha256:e2f358fe135ffe9ae017fa47736eb7d9ae613b6771bbc7f84f40ab608faf2600"},
+    {file = "foursight_core-4.5.0.1b19.tar.gz", hash = "sha256:852acb9de2b5b14658badff91f51daaad612c2ccff66d82bce73f9f5c9f2926c"},
 ]
 
 [package.dependencies]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "e2dd75e728e4da6c3582e7228bd7ee0136baec5b9702e9ac7f241287cd2a4979"
+content-hash = "9336f397a8be3a08995ec722d2c141c792a578f12e2c6e9b2838c06f767d35e6"
diff --git a/pyproject.toml b/pyproject.toml
index b90a2537..95963dd9 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b18"  # TODO: To become 4.0.0
+version = "3.6.1.2b19"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b5"
 tibanna-ff = "2.0.1.1b10"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b18"
+foursight-core = "4.5.0.1b19"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From 2b48f7d2fdff324647f06803c8e55a20385386d9 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Tue, 10 Oct 2023 06:59:30 -0400
Subject: [PATCH 22/30] Testing tasks-page foursight-core (4.5.0.3.22)

---
 poetry.lock    | 14 +++++++-------
 pyproject.toml |  4 ++--
 2 files changed, 9 insertions(+), 9 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 2a3cdd21..d2b54c84 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -577,13 +577,13 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.1b19"
+version = "4.5.0.3b22"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.1b19-py3-none-any.whl", hash = "sha256:e2f358fe135ffe9ae017fa47736eb7d9ae613b6771bbc7f84f40ab608faf2600"},
-    {file = "foursight_core-4.5.0.1b19.tar.gz", hash = "sha256:852acb9de2b5b14658badff91f51daaad612c2ccff66d82bce73f9f5c9f2926c"},
+    {file = "foursight_core-4.5.0.3b22-py3-none-any.whl", hash = "sha256:e5f717ba18bb36417dc33513c8f87f0050dc6d420ae8cc8a3a3af171fe3a74fe"},
+    {file = "foursight_core-4.5.0.3b22.tar.gz", hash = "sha256:f4b71b214e545375741929e2748491eabff6c7ca9b6e2fe94481c34e764ae9ad"},
 ]
 
 [package.dependencies]
@@ -1701,13 +1701,13 @@ files = [
 
 [[package]]
 name = "tzlocal"
-version = "5.0.1"
+version = "5.1"
 description = "tzinfo object for the local timezone"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "tzlocal-5.0.1-py3-none-any.whl", hash = "sha256:f3596e180296aaf2dbd97d124fe76ae3a0e3d32b258447de7b939b3fd4be992f"},
-    {file = "tzlocal-5.0.1.tar.gz", hash = "sha256:46eb99ad4bdb71f3f72b7d24f4267753e240944ecfc16f25d2719ba89827a803"},
+    {file = "tzlocal-5.1-py3-none-any.whl", hash = "sha256:2938498395d5f6a898ab8009555cb37a4d360913ad375d4747ef16826b03ef23"},
+    {file = "tzlocal-5.1.tar.gz", hash = "sha256:a5ccb2365b295ed964e0a98ad076fe10c495591e75505d34f154d60a7f1ed722"},
 ]
 
 [package.dependencies]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "9336f397a8be3a08995ec722d2c141c792a578f12e2c6e9b2838c06f767d35e6"
+content-hash = "be3568713a15ddbc023afb1f18a7d499c574c25093d43cefe84f9e4e3785a39e"
diff --git a/pyproject.toml b/pyproject.toml
index 95963dd9..7895ac1f 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b19"  # TODO: To become 4.0.0
+version = "3.6.1.2b22"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b5"
 tibanna-ff = "2.0.1.1b10"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.1b19"
+foursight-core = "4.5.0.3b22"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From 87249ce0ac0c8fefca716e321abe5104e5116262 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Tue, 10 Oct 2023 07:03:26 -0400
Subject: [PATCH 23/30] Testing tasks-page foursight-core (4.5.0.3.22)

---
 pyproject.toml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/pyproject.toml b/pyproject.toml
index 7895ac1f..6a3fa1cd 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b22"  # TODO: To become 4.0.0
+version = "3.6.1.2b23"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"

From e2194b77bb89f55d5ebc24e6c6dd0b7edf110cdc Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Tue, 10 Oct 2023 07:45:54 -0400
Subject: [PATCH 24/30] Testing tasks-page foursight-core (4.5.0.3.24)

---
 poetry.lock    | 181 +++----------------------------------------------
 pyproject.toml |   4 +-
 2 files changed, 10 insertions(+), 175 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index d2b54c84..06e7f5d5 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -36,34 +36,6 @@ files = [
 [package.dependencies]
 requests = ">=0.14.0"
 
-[[package]]
-name = "backports-zoneinfo"
-version = "0.2.1"
-description = "Backport of the standard library zoneinfo module"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-macosx_10_14_x86_64.whl", hash = "sha256:da6013fd84a690242c310d77ddb8441a559e9cb3d3d59ebac9aca1a57b2e18bc"},
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_i686.whl", hash = "sha256:89a48c0d158a3cc3f654da4c2de1ceba85263fafb861b98b59040a5086259722"},
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_x86_64.whl", hash = "sha256:1c5742112073a563c81f786e77514969acb58649bcdf6cdf0b4ed31a348d4546"},
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-win32.whl", hash = "sha256:e8236383a20872c0cdf5a62b554b27538db7fa1bbec52429d8d106effbaeca08"},
-    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-win_amd64.whl", hash = "sha256:8439c030a11780786a2002261569bdf362264f605dfa4d65090b64b05c9f79a7"},
-    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-macosx_10_14_x86_64.whl", hash = "sha256:f04e857b59d9d1ccc39ce2da1021d196e47234873820cbeaad210724b1ee28ac"},
-    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-manylinux1_i686.whl", hash = "sha256:17746bd546106fa389c51dbea67c8b7c8f0d14b5526a579ca6ccf5ed72c526cf"},
-    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-manylinux1_x86_64.whl", hash = "sha256:5c144945a7752ca544b4b78c8c41544cdfaf9786f25fe5ffb10e838e19a27570"},
-    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-win32.whl", hash = "sha256:e55b384612d93be96506932a786bbcde5a2db7a9e6a4bb4bffe8b733f5b9036b"},
-    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-win_amd64.whl", hash = "sha256:a76b38c52400b762e48131494ba26be363491ac4f9a04c1b7e92483d169f6582"},
-    {file = "backports.zoneinfo-0.2.1-cp38-cp38-macosx_10_14_x86_64.whl", hash = "sha256:8961c0f32cd0336fb8e8ead11a1f8cd99ec07145ec2931122faaac1c8f7fd987"},
-    {file = "backports.zoneinfo-0.2.1-cp38-cp38-manylinux1_i686.whl", hash = "sha256:e81b76cace8eda1fca50e345242ba977f9be6ae3945af8d46326d776b4cf78d1"},
-    {file = "backports.zoneinfo-0.2.1-cp38-cp38-manylinux1_x86_64.whl", hash = "sha256:7b0a64cda4145548fed9efc10322770f929b944ce5cee6c0dfe0c87bf4c0c8c9"},
-    {file = "backports.zoneinfo-0.2.1-cp38-cp38-win32.whl", hash = "sha256:1b13e654a55cd45672cb54ed12148cd33628f672548f373963b0bff67b217328"},
-    {file = "backports.zoneinfo-0.2.1-cp38-cp38-win_amd64.whl", hash = "sha256:4a0f800587060bf8880f954dbef70de6c11bbe59c673c3d818921f042f9954a6"},
-    {file = "backports.zoneinfo-0.2.1.tar.gz", hash = "sha256:fadbfe37f74051d024037f223b8e001611eac868b5c5b06144ef4d8b799862f2"},
-]
-
-[package.extras]
-tzdata = ["tzdata"]
-
 [[package]]
 name = "beautifulsoup4"
 version = "4.12.2"
@@ -376,19 +348,6 @@ tomli = {version = "*", optional = true, markers = "python_full_version <= \"3.1
 [package.extras]
 toml = ["tomli"]
 
-[[package]]
-name = "cron-descriptor"
-version = "1.4.0"
-description = "A Python library that converts cron expressions into human readable strings."
-optional = false
-python-versions = "*"
-files = [
-    {file = "cron_descriptor-1.4.0.tar.gz", hash = "sha256:b6ff4e3a988d7ca04a4ab150248e9f166fb7a5c828a85090e75bcc25aa93b4dd"},
-]
-
-[package.extras]
-dev = ["polib"]
-
 [[package]]
 name = "cryptography"
 version = "39.0.2"
@@ -577,35 +536,16 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.3b22"
+version = "4.5.0.3b24"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
-python-versions = ">=3.8,<3.12"
-files = [
-    {file = "foursight_core-4.5.0.3b22-py3-none-any.whl", hash = "sha256:e5f717ba18bb36417dc33513c8f87f0050dc6d420ae8cc8a3a3af171fe3a74fe"},
-    {file = "foursight_core-4.5.0.3b22.tar.gz", hash = "sha256:f4b71b214e545375741929e2748491eabff6c7ca9b6e2fe94481c34e764ae9ad"},
-]
+python-versions = "*"
+files = []
+develop = true
 
-[package.dependencies]
-click = ">=7.1.2,<8.0.0"
-cron-descriptor = ">=1.2.31,<2.0.0"
-cryptography = "39.0.2"
-dcicutils = "7.12.0.2b9"
-elasticsearch = "7.13.4"
-elasticsearch-dsl = ">=7.0.0,<8.0.0"
-geocoder = "1.38.1"
-gitpython = ">=3.1.2,<4.0.0"
-google = ">=3.0.0,<4.0.0"
-google-api-python-client = ">=1.12.5,<2.0.0"
-google-auth-oauthlib = ">=0.7.0,<0.8.0"
-Jinja2 = ">=3.1.2,<4.0.0"
-MarkupSafe = ">=2.1.3,<3.0.0"
-pyDes = ">=2.0.1,<3.0.0"
-PyJWT = ">=2.5.0,<3.0.0"
-pytz = ">=2020.1"
-redis = ">=4.5.1,<5.0.0"
-toml = ">=0.10.2,<1"
-tzlocal = ">=5.0.1,<6.0.0"
+[package.source]
+type = "directory"
+url = "../foursight-core"
 
 [[package]]
 name = "future"
@@ -666,20 +606,6 @@ gitdb = ">=4.0.1,<5"
 [package.extras]
 test = ["black", "coverage[toml]", "ddt (>=1.1.1,!=1.4.3)", "mypy", "pre-commit", "pytest", "pytest-cov", "pytest-sugar"]
 
-[[package]]
-name = "google"
-version = "3.0.0"
-description = "Python bindings to the Google search engine."
-optional = false
-python-versions = "*"
-files = [
-    {file = "google-3.0.0-py2.py3-none-any.whl", hash = "sha256:889cf695f84e4ae2c55fbc0cfdaf4c1e729417fa52ab1db0485202ba173e4935"},
-    {file = "google-3.0.0.tar.gz", hash = "sha256:143530122ee5130509ad5e989f0512f7cb218b2d4eddbafbad40fd10e8d8ccbe"},
-]
-
-[package.dependencies]
-beautifulsoup4 = "*"
-
 [[package]]
 name = "google-api-core"
 version = "2.12.0"
@@ -760,24 +686,6 @@ files = [
 google-auth = "*"
 httplib2 = ">=0.19.0"
 
-[[package]]
-name = "google-auth-oauthlib"
-version = "0.7.1"
-description = "Google Authentication Library"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "google-auth-oauthlib-0.7.1.tar.gz", hash = "sha256:9940f543f77d1447432a93781d7c931fb53e418023351ad4bf9e92837a1154ec"},
-    {file = "google_auth_oauthlib-0.7.1-py2.py3-none-any.whl", hash = "sha256:860e54c4b58b2664116c9cb44325bc0ec92bcd93e8211698ceea911b1b873b86"},
-]
-
-[package.dependencies]
-google-auth = ">=2.14.0"
-requests-oauthlib = ">=0.7.0"
-
-[package.extras]
-tool = ["click (>=6.0.0)"]
-
 [[package]]
 name = "googleapis-common-protos"
 version = "1.60.0"
@@ -977,22 +885,6 @@ files = [
 [package.dependencies]
 psutil = {version = ">=4.0.0", markers = "sys_platform != \"cygwin\""}
 
-[[package]]
-name = "oauthlib"
-version = "3.2.2"
-description = "A generic, spec-compliant, thorough implementation of the OAuth request-signing logic"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "oauthlib-3.2.2-py3-none-any.whl", hash = "sha256:8139f29aac13e25d502680e9e19963e83f16838d48a0d71c287fe40e7067fbca"},
-    {file = "oauthlib-3.2.2.tar.gz", hash = "sha256:9859c40929662bec5d64f34d01c99e093149682a3f38915dc0655d5a633dd918"},
-]
-
-[package.extras]
-rsa = ["cryptography (>=3.0.0)"]
-signals = ["blinker (>=1.4.0)"]
-signedtoken = ["cryptography (>=3.0.0)", "pyjwt (>=2.0.0,<3)"]
-
 [[package]]
 name = "opensearch-py"
 version = "2.3.1"
@@ -1149,16 +1041,6 @@ files = [
     {file = "pycparser-2.21.tar.gz", hash = "sha256:e644fdec12f7872f86c58ff790da456218b10f863970249516d60a5eaca77206"},
 ]
 
-[[package]]
-name = "pydes"
-version = "2.0.1"
-description = "Pure python implementation of DES and TRIPLE DES encryption algorithm"
-optional = false
-python-versions = "*"
-files = [
-    {file = "pyDes-2.0.1.tar.gz", hash = "sha256:e2ab8e21d2b83e90d90dbfdcb6fb8ac0000b813238b7ecaede04f8435c389012"},
-]
-
 [[package]]
 name = "pyjwt"
 version = "2.8.0"
@@ -1455,24 +1337,6 @@ urllib3 = ">=1.21.1,<1.27"
 socks = ["PySocks (>=1.5.6,!=1.5.7)", "win-inet-pton"]
 use-chardet-on-py3 = ["chardet (>=3.0.2,<5)"]
 
-[[package]]
-name = "requests-oauthlib"
-version = "1.3.1"
-description = "OAuthlib authentication support for Requests."
-optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
-files = [
-    {file = "requests-oauthlib-1.3.1.tar.gz", hash = "sha256:75beac4a47881eeb94d5ea5d6ad31ef88856affe2332b9aafb52c6452ccf0d7a"},
-    {file = "requests_oauthlib-1.3.1-py2.py3-none-any.whl", hash = "sha256:2577c501a2fb8d05a304c09d090d6e47c306fef15809d102b327cf8364bddab5"},
-]
-
-[package.dependencies]
-oauthlib = ">=3.0.0"
-requests = ">=2.0.0"
-
-[package.extras]
-rsa = ["oauthlib[signedtoken] (>=3.0.0)"]
-
 [[package]]
 name = "rfc3986"
 version = "1.5.0"
@@ -1688,35 +1552,6 @@ files = [
     {file = "typing_extensions-4.8.0.tar.gz", hash = "sha256:df8e4339e9cb77357558cbdbceca33c303714cf861d1eef15e1070055ae8b7ef"},
 ]
 
-[[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 = "tzlocal"
-version = "5.1"
-description = "tzinfo object for the local timezone"
-optional = false
-python-versions = ">=3.7"
-files = [
-    {file = "tzlocal-5.1-py3-none-any.whl", hash = "sha256:2938498395d5f6a898ab8009555cb37a4d360913ad375d4747ef16826b03ef23"},
-    {file = "tzlocal-5.1.tar.gz", hash = "sha256:a5ccb2365b295ed964e0a98ad076fe10c495591e75505d34f154d60a7f1ed722"},
-]
-
-[package.dependencies]
-"backports.zoneinfo" = {version = "*", markers = "python_version < \"3.9\""}
-tzdata = {version = "*", markers = "platform_system == \"Windows\""}
-
-[package.extras]
-devenv = ["black", "check-manifest", "flake8", "pyroma", "pytest (>=4.3)", "pytest-cov", "pytest-mock (>=3.3)", "zest.releaser"]
-
 [[package]]
 name = "uritemplate"
 version = "3.0.1"
@@ -1839,4 +1674,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "be3568713a15ddbc023afb1f18a7d499c574c25093d43cefe84f9e4e3785a39e"
+content-hash = "1de888a460c6203e0fdf684692c27983ba1412565502d3b8f0a5eba3fa49400e"
diff --git a/pyproject.toml b/pyproject.toml
index 6a3fa1cd..6a928121 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b23"  # TODO: To become 4.0.0
+version = "3.6.1.2b24"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b5"
 tibanna-ff = "2.0.1.1b10"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.3b22"
+foursight-core = "4.5.0.3b24"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From aee2e9e033bdb912b59be608dd46a31fdfc2e284 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Tue, 10 Oct 2023 08:02:44 -0400
Subject: [PATCH 25/30] Testing tasks-page foursight-core (4.5.0.3.24)

---
 poetry.lock    | 181 ++++++++++++++++++++++++++++++++++++++++++++++---
 pyproject.toml |   4 +-
 2 files changed, 175 insertions(+), 10 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 06e7f5d5..6cb05379 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -36,6 +36,34 @@ files = [
 [package.dependencies]
 requests = ">=0.14.0"
 
+[[package]]
+name = "backports-zoneinfo"
+version = "0.2.1"
+description = "Backport of the standard library zoneinfo module"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-macosx_10_14_x86_64.whl", hash = "sha256:da6013fd84a690242c310d77ddb8441a559e9cb3d3d59ebac9aca1a57b2e18bc"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_i686.whl", hash = "sha256:89a48c0d158a3cc3f654da4c2de1ceba85263fafb861b98b59040a5086259722"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-manylinux1_x86_64.whl", hash = "sha256:1c5742112073a563c81f786e77514969acb58649bcdf6cdf0b4ed31a348d4546"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-win32.whl", hash = "sha256:e8236383a20872c0cdf5a62b554b27538db7fa1bbec52429d8d106effbaeca08"},
+    {file = "backports.zoneinfo-0.2.1-cp36-cp36m-win_amd64.whl", hash = "sha256:8439c030a11780786a2002261569bdf362264f605dfa4d65090b64b05c9f79a7"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-macosx_10_14_x86_64.whl", hash = "sha256:f04e857b59d9d1ccc39ce2da1021d196e47234873820cbeaad210724b1ee28ac"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-manylinux1_i686.whl", hash = "sha256:17746bd546106fa389c51dbea67c8b7c8f0d14b5526a579ca6ccf5ed72c526cf"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-manylinux1_x86_64.whl", hash = "sha256:5c144945a7752ca544b4b78c8c41544cdfaf9786f25fe5ffb10e838e19a27570"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-win32.whl", hash = "sha256:e55b384612d93be96506932a786bbcde5a2db7a9e6a4bb4bffe8b733f5b9036b"},
+    {file = "backports.zoneinfo-0.2.1-cp37-cp37m-win_amd64.whl", hash = "sha256:a76b38c52400b762e48131494ba26be363491ac4f9a04c1b7e92483d169f6582"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-macosx_10_14_x86_64.whl", hash = "sha256:8961c0f32cd0336fb8e8ead11a1f8cd99ec07145ec2931122faaac1c8f7fd987"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-manylinux1_i686.whl", hash = "sha256:e81b76cace8eda1fca50e345242ba977f9be6ae3945af8d46326d776b4cf78d1"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-manylinux1_x86_64.whl", hash = "sha256:7b0a64cda4145548fed9efc10322770f929b944ce5cee6c0dfe0c87bf4c0c8c9"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-win32.whl", hash = "sha256:1b13e654a55cd45672cb54ed12148cd33628f672548f373963b0bff67b217328"},
+    {file = "backports.zoneinfo-0.2.1-cp38-cp38-win_amd64.whl", hash = "sha256:4a0f800587060bf8880f954dbef70de6c11bbe59c673c3d818921f042f9954a6"},
+    {file = "backports.zoneinfo-0.2.1.tar.gz", hash = "sha256:fadbfe37f74051d024037f223b8e001611eac868b5c5b06144ef4d8b799862f2"},
+]
+
+[package.extras]
+tzdata = ["tzdata"]
+
 [[package]]
 name = "beautifulsoup4"
 version = "4.12.2"
@@ -348,6 +376,19 @@ tomli = {version = "*", optional = true, markers = "python_full_version <= \"3.1
 [package.extras]
 toml = ["tomli"]
 
+[[package]]
+name = "cron-descriptor"
+version = "1.4.0"
+description = "A Python library that converts cron expressions into human readable strings."
+optional = false
+python-versions = "*"
+files = [
+    {file = "cron_descriptor-1.4.0.tar.gz", hash = "sha256:b6ff4e3a988d7ca04a4ab150248e9f166fb7a5c828a85090e75bcc25aa93b4dd"},
+]
+
+[package.extras]
+dev = ["polib"]
+
 [[package]]
 name = "cryptography"
 version = "39.0.2"
@@ -536,16 +577,35 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.3b24"
+version = "4.5.0.3b25"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
-python-versions = "*"
-files = []
-develop = true
+python-versions = ">=3.8,<3.12"
+files = [
+    {file = "foursight_core-4.5.0.3b25-py3-none-any.whl", hash = "sha256:d0c1e2d8c192cd6001b474e3ad4d12467cc9663d760d1da86b091522bb628215"},
+    {file = "foursight_core-4.5.0.3b25.tar.gz", hash = "sha256:93760ef7f1f702c2b0a43db5534937f447a2aeef1c514201c64d015314f1467c"},
+]
 
-[package.source]
-type = "directory"
-url = "../foursight-core"
+[package.dependencies]
+click = ">=7.1.2,<8.0.0"
+cron-descriptor = ">=1.2.31,<2.0.0"
+cryptography = "39.0.2"
+dcicutils = "7.12.0.2b9"
+elasticsearch = "7.13.4"
+elasticsearch-dsl = ">=7.0.0,<8.0.0"
+geocoder = "1.38.1"
+gitpython = ">=3.1.2,<4.0.0"
+google = ">=3.0.0,<4.0.0"
+google-api-python-client = ">=1.12.5,<2.0.0"
+google-auth-oauthlib = ">=0.7.0,<0.8.0"
+Jinja2 = ">=3.1.2,<4.0.0"
+MarkupSafe = ">=2.1.3,<3.0.0"
+pyDes = ">=2.0.1,<3.0.0"
+PyJWT = ">=2.5.0,<3.0.0"
+pytz = ">=2020.1"
+redis = ">=4.5.1,<5.0.0"
+toml = ">=0.10.2,<1"
+tzlocal = ">=5.0.1,<6.0.0"
 
 [[package]]
 name = "future"
@@ -606,6 +666,20 @@ gitdb = ">=4.0.1,<5"
 [package.extras]
 test = ["black", "coverage[toml]", "ddt (>=1.1.1,!=1.4.3)", "mypy", "pre-commit", "pytest", "pytest-cov", "pytest-sugar"]
 
+[[package]]
+name = "google"
+version = "3.0.0"
+description = "Python bindings to the Google search engine."
+optional = false
+python-versions = "*"
+files = [
+    {file = "google-3.0.0-py2.py3-none-any.whl", hash = "sha256:889cf695f84e4ae2c55fbc0cfdaf4c1e729417fa52ab1db0485202ba173e4935"},
+    {file = "google-3.0.0.tar.gz", hash = "sha256:143530122ee5130509ad5e989f0512f7cb218b2d4eddbafbad40fd10e8d8ccbe"},
+]
+
+[package.dependencies]
+beautifulsoup4 = "*"
+
 [[package]]
 name = "google-api-core"
 version = "2.12.0"
@@ -686,6 +760,24 @@ files = [
 google-auth = "*"
 httplib2 = ">=0.19.0"
 
+[[package]]
+name = "google-auth-oauthlib"
+version = "0.7.1"
+description = "Google Authentication Library"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "google-auth-oauthlib-0.7.1.tar.gz", hash = "sha256:9940f543f77d1447432a93781d7c931fb53e418023351ad4bf9e92837a1154ec"},
+    {file = "google_auth_oauthlib-0.7.1-py2.py3-none-any.whl", hash = "sha256:860e54c4b58b2664116c9cb44325bc0ec92bcd93e8211698ceea911b1b873b86"},
+]
+
+[package.dependencies]
+google-auth = ">=2.14.0"
+requests-oauthlib = ">=0.7.0"
+
+[package.extras]
+tool = ["click (>=6.0.0)"]
+
 [[package]]
 name = "googleapis-common-protos"
 version = "1.60.0"
@@ -885,6 +977,22 @@ files = [
 [package.dependencies]
 psutil = {version = ">=4.0.0", markers = "sys_platform != \"cygwin\""}
 
+[[package]]
+name = "oauthlib"
+version = "3.2.2"
+description = "A generic, spec-compliant, thorough implementation of the OAuth request-signing logic"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "oauthlib-3.2.2-py3-none-any.whl", hash = "sha256:8139f29aac13e25d502680e9e19963e83f16838d48a0d71c287fe40e7067fbca"},
+    {file = "oauthlib-3.2.2.tar.gz", hash = "sha256:9859c40929662bec5d64f34d01c99e093149682a3f38915dc0655d5a633dd918"},
+]
+
+[package.extras]
+rsa = ["cryptography (>=3.0.0)"]
+signals = ["blinker (>=1.4.0)"]
+signedtoken = ["cryptography (>=3.0.0)", "pyjwt (>=2.0.0,<3)"]
+
 [[package]]
 name = "opensearch-py"
 version = "2.3.1"
@@ -1041,6 +1149,16 @@ files = [
     {file = "pycparser-2.21.tar.gz", hash = "sha256:e644fdec12f7872f86c58ff790da456218b10f863970249516d60a5eaca77206"},
 ]
 
+[[package]]
+name = "pydes"
+version = "2.0.1"
+description = "Pure python implementation of DES and TRIPLE DES encryption algorithm"
+optional = false
+python-versions = "*"
+files = [
+    {file = "pyDes-2.0.1.tar.gz", hash = "sha256:e2ab8e21d2b83e90d90dbfdcb6fb8ac0000b813238b7ecaede04f8435c389012"},
+]
+
 [[package]]
 name = "pyjwt"
 version = "2.8.0"
@@ -1337,6 +1455,24 @@ urllib3 = ">=1.21.1,<1.27"
 socks = ["PySocks (>=1.5.6,!=1.5.7)", "win-inet-pton"]
 use-chardet-on-py3 = ["chardet (>=3.0.2,<5)"]
 
+[[package]]
+name = "requests-oauthlib"
+version = "1.3.1"
+description = "OAuthlib authentication support for Requests."
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+files = [
+    {file = "requests-oauthlib-1.3.1.tar.gz", hash = "sha256:75beac4a47881eeb94d5ea5d6ad31ef88856affe2332b9aafb52c6452ccf0d7a"},
+    {file = "requests_oauthlib-1.3.1-py2.py3-none-any.whl", hash = "sha256:2577c501a2fb8d05a304c09d090d6e47c306fef15809d102b327cf8364bddab5"},
+]
+
+[package.dependencies]
+oauthlib = ">=3.0.0"
+requests = ">=2.0.0"
+
+[package.extras]
+rsa = ["oauthlib[signedtoken] (>=3.0.0)"]
+
 [[package]]
 name = "rfc3986"
 version = "1.5.0"
@@ -1552,6 +1688,35 @@ files = [
     {file = "typing_extensions-4.8.0.tar.gz", hash = "sha256:df8e4339e9cb77357558cbdbceca33c303714cf861d1eef15e1070055ae8b7ef"},
 ]
 
+[[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 = "tzlocal"
+version = "5.1"
+description = "tzinfo object for the local timezone"
+optional = false
+python-versions = ">=3.7"
+files = [
+    {file = "tzlocal-5.1-py3-none-any.whl", hash = "sha256:2938498395d5f6a898ab8009555cb37a4d360913ad375d4747ef16826b03ef23"},
+    {file = "tzlocal-5.1.tar.gz", hash = "sha256:a5ccb2365b295ed964e0a98ad076fe10c495591e75505d34f154d60a7f1ed722"},
+]
+
+[package.dependencies]
+"backports.zoneinfo" = {version = "*", markers = "python_version < \"3.9\""}
+tzdata = {version = "*", markers = "platform_system == \"Windows\""}
+
+[package.extras]
+devenv = ["black", "check-manifest", "flake8", "pyroma", "pytest (>=4.3)", "pytest-cov", "pytest-mock (>=3.3)", "zest.releaser"]
+
 [[package]]
 name = "uritemplate"
 version = "3.0.1"
@@ -1674,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "1de888a460c6203e0fdf684692c27983ba1412565502d3b8f0a5eba3fa49400e"
+content-hash = "87b888a28456af8879c00428cc3178a76598a34d82b816667ada15fab6bb591c"
diff --git a/pyproject.toml b/pyproject.toml
index 6a928121..d573bb11 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b24"  # TODO: To become 4.0.0
+version = "3.6.1.2b25"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b5"
 tibanna-ff = "2.0.1.1b10"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.3b24"
+foursight-core = "4.5.0.3b25"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From 9978288b2efba205dbed4a38487be9d02a551e7d Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Tue, 10 Oct 2023 08:19:53 -0400
Subject: [PATCH 26/30] Testing tasks-page foursight-core (4.5.0.3.24)

---
 poetry.lock    | 8 ++++----
 pyproject.toml | 4 ++--
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 6cb05379..71f96aa2 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -577,13 +577,13 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.3b25"
+version = "4.5.0.3b26"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.3b25-py3-none-any.whl", hash = "sha256:d0c1e2d8c192cd6001b474e3ad4d12467cc9663d760d1da86b091522bb628215"},
-    {file = "foursight_core-4.5.0.3b25.tar.gz", hash = "sha256:93760ef7f1f702c2b0a43db5534937f447a2aeef1c514201c64d015314f1467c"},
+    {file = "foursight_core-4.5.0.3b26-py3-none-any.whl", hash = "sha256:a11ff68f230a9c83a4d4fb6eb262b8c15eb793876d2e11eef88ba9a45e291f59"},
+    {file = "foursight_core-4.5.0.3b26.tar.gz", hash = "sha256:af11e32f8649dc346422fbb01d493a9a5c64e14a46e2161d05cdf29227f60cb1"},
 ]
 
 [package.dependencies]
@@ -1839,4 +1839,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "87b888a28456af8879c00428cc3178a76598a34d82b816667ada15fab6bb591c"
+content-hash = "ef46d803dd4da9b6557d93f2c591b2104ad917543d3c7a1152ed7b479498f835"
diff --git a/pyproject.toml b/pyproject.toml
index d573bb11..50a3e8cb 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b25"  # TODO: To become 4.0.0
+version = "3.6.1.2b26"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b5"
 tibanna-ff = "2.0.1.1b10"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.3b25"
+foursight-core = "4.5.0.3b26"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From 1d1ff9c57d5dbea1c57c835e2b43cd097c99ca0a Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Tue, 10 Oct 2023 11:53:01 -0400
Subject: [PATCH 27/30] Testing tasks-page foursight-core (4.5.0.3.27)

---
 poetry.lock    | 29 +++++++++++++++++------------
 pyproject.toml |  4 ++--
 2 files changed, 19 insertions(+), 14 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 71f96aa2..23078f83 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -111,17 +111,17 @@ wcwidth = ">=0.1.4"
 
 [[package]]
 name = "boto3"
-version = "1.28.56"
+version = "1.28.62"
 description = "The AWS SDK for Python"
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "boto3-1.28.56-py3-none-any.whl", hash = "sha256:f5fcb27cdbd08ca38d699f2d2e32d96d1d9fab3368c15c6bc326256612d2cfd7"},
-    {file = "boto3-1.28.56.tar.gz", hash = "sha256:b927a7ed335d543c33c15fa63f1076f3fa8422959771c2187da74bc4395ab6e3"},
+    {file = "boto3-1.28.62-py3-none-any.whl", hash = "sha256:0dfa2fc96ccafce4feb23044d6cba8b25075ad428a0c450d369d099c6a1059d2"},
+    {file = "boto3-1.28.62.tar.gz", hash = "sha256:148eeba0f1867b3db5b3e5ae2997d75a94d03fad46171374a0819168c36f7ed0"},
 ]
 
 [package.dependencies]
-botocore = ">=1.31.56,<1.32.0"
+botocore = ">=1.31.62,<1.32.0"
 jmespath = ">=0.7.1,<2.0.0"
 s3transfer = ">=0.7.0,<0.8.0"
 
@@ -130,19 +130,22 @@ crt = ["botocore[crt] (>=1.21.0,<2.0a0)"]
 
 [[package]]
 name = "botocore"
-version = "1.31.56"
+version = "1.31.62"
 description = "Low-level, data-driven core of boto 3."
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "botocore-1.31.56-py3-none-any.whl", hash = "sha256:66c686e4eda7051ffcc9357d9075390c8ab2f95a2977669039618ee186fb533b"},
-    {file = "botocore-1.31.56.tar.gz", hash = "sha256:70252cd8abc2fe9b791328e187620f5a3911545e2520486b01ecfad31f41b9cb"},
+    {file = "botocore-1.31.62-py3-none-any.whl", hash = "sha256:be792d806afc064694a2d0b9b25779f3ca0c1584b29a35ac32e67f0064ddb8b7"},
+    {file = "botocore-1.31.62.tar.gz", hash = "sha256:272b78ac65256b6294cb9cdb0ac484d447ad3a85642e33cb6a3b1b8afee15a4c"},
 ]
 
 [package.dependencies]
 jmespath = ">=0.7.1,<2.0.0"
 python-dateutil = ">=2.1,<3.0.0"
-urllib3 = ">=1.25.4,<1.27"
+urllib3 = [
+    {version = ">=1.25.4,<1.27", markers = "python_version < \"3.10\""},
+    {version = ">=1.25.4,<2.1", markers = "python_version >= \"3.10\""},
+]
 
 [package.extras]
 crt = ["awscrt (==0.16.26)"]
@@ -577,16 +580,18 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.3b26"
+version = "4.5.0.3b27"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "foursight_core-4.5.0.3b26-py3-none-any.whl", hash = "sha256:a11ff68f230a9c83a4d4fb6eb262b8c15eb793876d2e11eef88ba9a45e291f59"},
-    {file = "foursight_core-4.5.0.3b26.tar.gz", hash = "sha256:af11e32f8649dc346422fbb01d493a9a5c64e14a46e2161d05cdf29227f60cb1"},
+    {file = "foursight_core-4.5.0.3b27-py3-none-any.whl", hash = "sha256:66138b5d2617d8b8b2b277bc904595954f3f7a6bb3d5798a0b37e617608ff9e3"},
+    {file = "foursight_core-4.5.0.3b27.tar.gz", hash = "sha256:5f602d0c6717307ac131b8f1af86f618f16283824ae9e71f32ee9726d4c4b495"},
 ]
 
 [package.dependencies]
+boto3 = ">=1.28.62,<2.0.0"
+botocore = ">=1.31.62,<2.0.0"
 click = ">=7.1.2,<8.0.0"
 cron-descriptor = ">=1.2.31,<2.0.0"
 cryptography = "39.0.2"
@@ -1839,4 +1844,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "ef46d803dd4da9b6557d93f2c591b2104ad917543d3c7a1152ed7b479498f835"
+content-hash = "fc344bca2e42707d9423ad879a41608e4a78d6caf6f756daaffb93acba67e852"
diff --git a/pyproject.toml b/pyproject.toml
index 50a3e8cb..23fdda74 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b26"  # TODO: To become 4.0.0
+version = "3.6.1.2b27"  # TODO: To become 4.0.0
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -26,7 +26,7 @@ pytz = "^2020.1"
 magma-suite = "1.5.0.3b5"
 tibanna-ff = "2.0.1.1b10"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.3b26"
+foursight-core = "4.5.0.3b27"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"

From 1356905b494628de7788d55d7ef40b70ffc021d7 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Wed, 11 Oct 2023 07:47:42 -0400
Subject: [PATCH 28/30] Update versions; readying for merge.

---
 poetry.lock    | 522 ++++++++++++++++++++-----------------------------
 pyproject.toml |  12 +-
 2 files changed, 219 insertions(+), 315 deletions(-)

diff --git a/poetry.lock b/poetry.lock
index 23078f83..b2a4613b 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -174,75 +174,63 @@ files = [
 
 [[package]]
 name = "cffi"
-version = "1.15.1"
+version = "1.16.0"
 description = "Foreign Function Interface for Python calling C code."
 optional = false
-python-versions = "*"
+python-versions = ">=3.8"
 files = [
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 [package.dependencies]
@@ -394,34 +382,34 @@ dev = ["polib"]
 
 [[package]]
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 description = "cryptography is a package which provides cryptographic recipes and primitives to Python developers."
 optional = false
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+    {file = "cryptography-41.0.4-pp39-pypy39_pp73-win_amd64.whl", hash = "sha256:047c4603aeb4bbd8db2756e38f5b8bd7e94318c047cfe4efeb5d715e08b49311"},
+    {file = "cryptography-41.0.4.tar.gz", hash = "sha256:7febc3094125fc126a7f6fb1f420d0da639f3f32cb15c8ff0dc3997c4549f51a"},
 ]
 
 [package.dependencies]
@@ -430,31 +418,32 @@ cffi = ">=1.12"
 [package.extras]
 docs = ["sphinx (>=5.3.0)", "sphinx-rtd-theme (>=1.1.1)"]
 docstest = ["pyenchant (>=1.6.11)", "sphinxcontrib-spelling (>=4.0.1)", "twine (>=1.12.0)"]
-pep8test = ["black", "check-manifest", "mypy", "ruff", "types-pytz", "types-requests"]
-sdist = ["setuptools-rust (>=0.11.4)"]
+nox = ["nox"]
+pep8test = ["black", "check-sdist", "mypy", "ruff"]
+sdist = ["build"]
 ssh = ["bcrypt (>=3.1.5)"]
-test = ["hypothesis (>=1.11.4,!=3.79.2)", "iso8601", "pretend", "pytest (>=6.2.0)", "pytest-benchmark", "pytest-cov", "pytest-shard (>=0.1.2)", "pytest-subtests", "pytest-xdist", "pytz"]
+test = ["pretend", "pytest (>=6.2.0)", "pytest-benchmark", "pytest-cov", "pytest-xdist"]
 test-randomorder = ["pytest-randomly"]
-tox = ["tox"]
 
 [[package]]
 name = "dcicutils"
-version = "7.12.0.2b9"
+version = "8.0.0"
 description = "Utility package for interacting with the 4DN Data Portal and other 4DN resources"
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "dcicutils-7.12.0.2b9-py3-none-any.whl", hash = "sha256:12d3e6cd0f26ad7e464a5e8c7c646d28d23f63a1e423ca4fa7ae536f3b9fd4d2"},
-    {file = "dcicutils-7.12.0.2b9.tar.gz", hash = "sha256:ef0da351164cd2495e5570d393c6564fdf8dab1f60a1b613c40dfd405693894e"},
+    {file = "dcicutils-8.0.0-py3-none-any.whl", hash = "sha256:339834dd93a70fdc26d1c552273c1390275ba637583bbec41a4a8035270b0c72"},
+    {file = "dcicutils-8.0.0.tar.gz", hash = "sha256:50aafbe2dce173bb6779184be0db8497d818a41b62bd686851cf64de507c5b76"},
 ]
 
 [package.dependencies]
 aws-requests-auth = ">=0.4.2,<1"
-boto3 = ">=1.28.54,<2.0.0"
-botocore = ">=1.31.54,<2.0.0"
+boto3 = ">=1.28.57,<2.0.0"
+botocore = ">=1.31.57,<2.0.0"
 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"
 opensearch-py = ">=2.0.1,<3.0.0"
 PyJWT = ">=2.6.0,<3.0.0"
 pyOpenSSL = ">=23.1.1,<24.0.0"
@@ -580,37 +569,16 @@ files = [
 
 [[package]]
 name = "foursight-core"
-version = "4.5.0.3b27"
+version = "5.0.0"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
-python-versions = ">=3.8,<3.12"
-files = [
-    {file = "foursight_core-4.5.0.3b27-py3-none-any.whl", hash = "sha256:66138b5d2617d8b8b2b277bc904595954f3f7a6bb3d5798a0b37e617608ff9e3"},
-    {file = "foursight_core-4.5.0.3b27.tar.gz", hash = "sha256:5f602d0c6717307ac131b8f1af86f618f16283824ae9e71f32ee9726d4c4b495"},
-]
+python-versions = "*"
+files = []
+develop = true
 
-[package.dependencies]
-boto3 = ">=1.28.62,<2.0.0"
-botocore = ">=1.31.62,<2.0.0"
-click = ">=7.1.2,<8.0.0"
-cron-descriptor = ">=1.2.31,<2.0.0"
-cryptography = "39.0.2"
-dcicutils = "7.12.0.2b9"
-elasticsearch = "7.13.4"
-elasticsearch-dsl = ">=7.0.0,<8.0.0"
-geocoder = "1.38.1"
-gitpython = ">=3.1.2,<4.0.0"
-google = ">=3.0.0,<4.0.0"
-google-api-python-client = ">=1.12.5,<2.0.0"
-google-auth-oauthlib = ">=0.7.0,<0.8.0"
-Jinja2 = ">=3.1.2,<4.0.0"
-MarkupSafe = ">=2.1.3,<3.0.0"
-pyDes = ">=2.0.1,<3.0.0"
-PyJWT = ">=2.5.0,<3.0.0"
-pytz = ">=2020.1"
-redis = ">=4.5.1,<5.0.0"
-toml = ">=0.10.2,<1"
-tzlocal = ">=5.0.1,<6.0.0"
+[package.source]
+type = "directory"
+url = "../foursight-core"
 
 [[package]]
 name = "future"
@@ -671,20 +639,6 @@ gitdb = ">=4.0.1,<5"
 [package.extras]
 test = ["black", "coverage[toml]", "ddt (>=1.1.1,!=1.4.3)", "mypy", "pre-commit", "pytest", "pytest-cov", "pytest-sugar"]
 
-[[package]]
-name = "google"
-version = "3.0.0"
-description = "Python bindings to the Google search engine."
-optional = false
-python-versions = "*"
-files = [
-    {file = "google-3.0.0-py2.py3-none-any.whl", hash = "sha256:889cf695f84e4ae2c55fbc0cfdaf4c1e729417fa52ab1db0485202ba173e4935"},
-    {file = "google-3.0.0.tar.gz", hash = "sha256:143530122ee5130509ad5e989f0512f7cb218b2d4eddbafbad40fd10e8d8ccbe"},
-]
-
-[package.dependencies]
-beautifulsoup4 = "*"
-
 [[package]]
 name = "google-api-core"
 version = "2.12.0"
@@ -728,20 +682,19 @@ uritemplate = ">=3.0.0,<4dev"
 
 [[package]]
 name = "google-auth"
-version = "2.23.0"
+version = "2.23.3"
 description = "Google Authentication Library"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "google-auth-2.23.0.tar.gz", hash = "sha256:753a26312e6f1eaeec20bc6f2644a10926697da93446e1f8e24d6d32d45a922a"},
-    {file = "google_auth-2.23.0-py2.py3-none-any.whl", hash = "sha256:2cec41407bd1e207f5b802638e32bb837df968bb5c05f413d0fa526fac4cf7a7"},
+    {file = "google-auth-2.23.3.tar.gz", hash = "sha256:6864247895eea5d13b9c57c9e03abb49cb94ce2dc7c58e91cba3248c7477c9e3"},
+    {file = "google_auth-2.23.3-py2.py3-none-any.whl", hash = "sha256:a8f4608e65c244ead9e0538f181a96c6e11199ec114d41f1d7b1bffa96937bda"},
 ]
 
 [package.dependencies]
 cachetools = ">=2.0.0,<6.0"
 pyasn1-modules = ">=0.2.1"
 rsa = ">=3.1.4,<5"
-urllib3 = "<2.0"
 
 [package.extras]
 aiohttp = ["aiohttp (>=3.6.2,<4.0.0.dev0)", "requests (>=2.20.0,<3.0.0.dev0)"]
@@ -765,24 +718,6 @@ files = [
 google-auth = "*"
 httplib2 = ">=0.19.0"
 
-[[package]]
-name = "google-auth-oauthlib"
-version = "0.7.1"
-description = "Google Authentication Library"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "google-auth-oauthlib-0.7.1.tar.gz", hash = "sha256:9940f543f77d1447432a93781d7c931fb53e418023351ad4bf9e92837a1154ec"},
-    {file = "google_auth_oauthlib-0.7.1-py2.py3-none-any.whl", hash = "sha256:860e54c4b58b2664116c9cb44325bc0ec92bcd93e8211698ceea911b1b873b86"},
-]
-
-[package.dependencies]
-google-auth = ">=2.14.0"
-requests-oauthlib = ">=0.7.0"
-
-[package.extras]
-tool = ["click (>=6.0.0)"]
-
 [[package]]
 name = "googleapis-common-protos"
 version = "1.60.0"
@@ -894,20 +829,31 @@ files = [
     {file = "jmespath-1.0.1.tar.gz", hash = "sha256:90261b206d6defd58fdd5e85f478bf633a2901798906be2ad389150c5c60edbe"},
 ]
 
+[[package]]
+name = "jsonc-parser"
+version = "1.1.5"
+description = "A lightweight, native tool for parsing .jsonc files"
+optional = false
+python-versions = ">=3.5"
+files = [
+    {file = "jsonc-parser-1.1.5.tar.gz", hash = "sha256:7126d17725b0413cd40af4297d9f6412c4181a62135e4c41cdf8f6a82c5936e6"},
+    {file = "jsonc_parser-1.1.5-py3-none-any.whl", hash = "sha256:abd1db76a4c6d1733ec7bb5340a89c49cbc878a181a1e7947ee6719eedf2c6cc"},
+]
+
 [[package]]
 name = "magma-suite"
-version = "1.5.0.3b5"
+version = "2.0.0"
 description = "Collection of tools to manage meta-workflows automation."
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "magma_suite-1.5.0.3b5-py3-none-any.whl", hash = "sha256:bc9b97bae6dc2457cd66bd965238836e7a9d952c08417086e7ecf63abc47480b"},
-    {file = "magma_suite-1.5.0.3b5.tar.gz", hash = "sha256:85aa56cb69fb42377a95ceec80015e028dfa8d1262bc7539fe92be3fccafaccf"},
+    {file = "magma_suite-2.0.0-py3-none-any.whl", hash = "sha256:462845484ebf1edef187c74f4c470e49726c95ab30c90555ada112e2bbb90c95"},
+    {file = "magma_suite-2.0.0.tar.gz", hash = "sha256:03577b5567ffe6fb99409d26575dd44b836a166b7ed9b8ec268b8e754d46403a"},
 ]
 
 [package.dependencies]
-dcicutils = "7.12.0.2b9"
-tibanna-ff = "2.0.1.1b10"
+dcicutils = "8.0.0"
+tibanna-ff = "3.1.1"
 
 [[package]]
 name = "markupsafe"
@@ -982,31 +928,15 @@ files = [
 [package.dependencies]
 psutil = {version = ">=4.0.0", markers = "sys_platform != \"cygwin\""}
 
-[[package]]
-name = "oauthlib"
-version = "3.2.2"
-description = "A generic, spec-compliant, thorough implementation of the OAuth request-signing logic"
-optional = false
-python-versions = ">=3.6"
-files = [
-    {file = "oauthlib-3.2.2-py3-none-any.whl", hash = "sha256:8139f29aac13e25d502680e9e19963e83f16838d48a0d71c287fe40e7067fbca"},
-    {file = "oauthlib-3.2.2.tar.gz", hash = "sha256:9859c40929662bec5d64f34d01c99e093149682a3f38915dc0655d5a633dd918"},
-]
-
-[package.extras]
-rsa = ["cryptography (>=3.0.0)"]
-signals = ["blinker (>=1.4.0)"]
-signedtoken = ["cryptography (>=3.0.0)", "pyjwt (>=2.0.0,<3)"]
-
 [[package]]
 name = "opensearch-py"
-version = "2.3.1"
+version = "2.3.2"
 description = "Python client for OpenSearch"
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, <4"
 files = [
-    {file = "opensearch-py-2.3.1.tar.gz", hash = "sha256:f82a2e914835f7d645a632777de9a62d0c0de60ffd2f8cdae2ccfa4cfc40a185"},
-    {file = "opensearch_py-2.3.1-py2.py3-none-any.whl", hash = "sha256:eafbc5d56a7ca696afba7d77bcda1bbb849050cbf9265d57d8476576cb576395"},
+    {file = "opensearch-py-2.3.2.tar.gz", hash = "sha256:96e470b55107fd5bfd873722dc9808c333360eacfa174341f5cc2d021aa30448"},
+    {file = "opensearch_py-2.3.2-py2.py3-none-any.whl", hash = "sha256:b1d6607380c8f19d90c142470939d051f0bac96069ce0ac25970b3c39c431f8b"},
 ]
 
 [package.dependencies]
@@ -1014,7 +944,7 @@ certifi = ">=2022.12.07"
 python-dateutil = "*"
 requests = ">=2.4.0,<3.0.0"
 six = "*"
-urllib3 = ">=1.21.1,<2"
+urllib3 = ">=1.26.9"
 
 [package.extras]
 async = ["aiohttp (>=3,<4)"]
@@ -1024,13 +954,13 @@ kerberos = ["requests-kerberos"]
 
 [[package]]
 name = "packaging"
-version = "23.1"
+version = "23.2"
 description = "Core utilities for Python packages"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "packaging-23.1-py3-none-any.whl", hash = "sha256:994793af429502c4ea2ebf6bf664629d07c1a9fe974af92966e4b8d2df7edc61"},
-    {file = "packaging-23.1.tar.gz", hash = "sha256:a392980d2b6cffa644431898be54b0045151319d1e7ec34f0cfed48767dd334f"},
+    {file = "packaging-23.2-py3-none-any.whl", hash = "sha256:8c491190033a9af7e1d931d0b5dacc2ef47509b34dd0de67ed209b5203fc88c7"},
+    {file = "packaging-23.2.tar.gz", hash = "sha256:048fb0e9405036518eaaf48a55953c750c11e1a1b68e0dd1a9d62ed0c092cfc5"},
 ]
 
 [[package]]
@@ -1061,35 +991,35 @@ testing = ["pytest", "pytest-benchmark"]
 
 [[package]]
 name = "port-for"
-version = "0.7.1"
+version = "0.7.2"
 description = "Utility that helps with local TCP ports management. It can find an unused TCP localhost port and remember the association."
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 files = [
-    {file = "port-for-0.7.1.tar.gz", hash = "sha256:e0f3b8d7ec8bdc388c14d88bdbab8d6441c8081ed2bdec7847b38ca6d1563f23"},
-    {file = "port_for-0.7.1-py3-none-any.whl", hash = "sha256:8abdaa1a7810281b0cecf718a6319da5f8538fdae3a5101d1e9afd54da0baf8c"},
+    {file = "port-for-0.7.2.tar.gz", hash = "sha256:074f29335130578aa42fef3726985e57d01c15189e509633a8a1b0b7f9226349"},
+    {file = "port_for-0.7.2-py3-none-any.whl", hash = "sha256:16b279ab4f210bad33515c45bd9af0c6e048ab24c3b6bbd9cfc7e451782617df"},
 ]
 
 [[package]]
 name = "protobuf"
-version = "4.24.3"
+version = "4.24.4"
 description = ""
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "protobuf-4.24.3-cp310-abi3-win32.whl", hash = "sha256:20651f11b6adc70c0f29efbe8f4a94a74caf61b6200472a9aea6e19898f9fcf4"},
-    {file = "protobuf-4.24.3-cp310-abi3-win_amd64.whl", hash = "sha256:3d42e9e4796a811478c783ef63dc85b5a104b44aaaca85d4864d5b886e4b05e3"},
-    {file = "protobuf-4.24.3-cp37-abi3-macosx_10_9_universal2.whl", hash = "sha256:6e514e8af0045be2b56e56ae1bb14f43ce7ffa0f68b1c793670ccbe2c4fc7d2b"},
-    {file = "protobuf-4.24.3-cp37-abi3-manylinux2014_aarch64.whl", hash = "sha256:ba53c2f04798a326774f0e53b9c759eaef4f6a568ea7072ec6629851c8435959"},
-    {file = "protobuf-4.24.3-cp37-abi3-manylinux2014_x86_64.whl", hash = "sha256:f6ccbcf027761a2978c1406070c3788f6de4a4b2cc20800cc03d52df716ad675"},
-    {file = "protobuf-4.24.3-cp37-cp37m-win32.whl", hash = "sha256:1b182c7181a2891e8f7f3a1b5242e4ec54d1f42582485a896e4de81aa17540c2"},
-    {file = "protobuf-4.24.3-cp37-cp37m-win_amd64.whl", hash = "sha256:b0271a701e6782880d65a308ba42bc43874dabd1a0a0f41f72d2dac3b57f8e76"},
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-    {file = "protobuf-4.24.3-cp38-cp38-win_amd64.whl", hash = "sha256:067f750169bc644da2e1ef18c785e85071b7c296f14ac53e0900e605da588719"},
-    {file = "protobuf-4.24.3-cp39-cp39-win32.whl", hash = "sha256:2da777d34b4f4f7613cdf85c70eb9a90b1fbef9d36ae4a0ccfe014b0b07906f1"},
-    {file = "protobuf-4.24.3-cp39-cp39-win_amd64.whl", hash = "sha256:f631bb982c5478e0c1c70eab383af74a84be66945ebf5dd6b06fc90079668d0b"},
-    {file = "protobuf-4.24.3-py3-none-any.whl", hash = "sha256:f6f8dc65625dadaad0c8545319c2e2f0424fede988368893ca3844261342c11a"},
-    {file = "protobuf-4.24.3.tar.gz", hash = "sha256:12e9ad2ec079b833176d2921be2cb24281fa591f0b119b208b788adc48c2561d"},
+    {file = "protobuf-4.24.4-cp310-abi3-win32.whl", hash = "sha256:ec9912d5cb6714a5710e28e592ee1093d68c5ebfeda61983b3f40331da0b1ebb"},
+    {file = "protobuf-4.24.4-cp310-abi3-win_amd64.whl", hash = "sha256:1badab72aa8a3a2b812eacfede5020472e16c6b2212d737cefd685884c191085"},
+    {file = "protobuf-4.24.4-cp37-abi3-macosx_10_9_universal2.whl", hash = "sha256:8e61a27f362369c2f33248a0ff6896c20dcd47b5d48239cb9720134bef6082e4"},
+    {file = "protobuf-4.24.4-cp37-abi3-manylinux2014_aarch64.whl", hash = "sha256:bffa46ad9612e6779d0e51ae586fde768339b791a50610d85eb162daeb23661e"},
+    {file = "protobuf-4.24.4-cp37-abi3-manylinux2014_x86_64.whl", hash = "sha256:b493cb590960ff863743b9ff1452c413c2ee12b782f48beca77c8da3e2ffe9d9"},
+    {file = "protobuf-4.24.4-cp37-cp37m-win32.whl", hash = "sha256:dbbed8a56e56cee8d9d522ce844a1379a72a70f453bde6243e3c86c30c2a3d46"},
+    {file = "protobuf-4.24.4-cp37-cp37m-win_amd64.whl", hash = "sha256:6b7d2e1c753715dcfe9d284a25a52d67818dd43c4932574307daf836f0071e37"},
+    {file = "protobuf-4.24.4-cp38-cp38-win32.whl", hash = "sha256:02212557a76cd99574775a81fefeba8738d0f668d6abd0c6b1d3adcc75503dbe"},
+    {file = "protobuf-4.24.4-cp38-cp38-win_amd64.whl", hash = "sha256:2fa3886dfaae6b4c5ed2730d3bf47c7a38a72b3a1f0acb4d4caf68e6874b947b"},
+    {file = "protobuf-4.24.4-cp39-cp39-win32.whl", hash = "sha256:b77272f3e28bb416e2071186cb39efd4abbf696d682cbb5dc731308ad37fa6dd"},
+    {file = "protobuf-4.24.4-cp39-cp39-win_amd64.whl", hash = "sha256:9fee5e8aa20ef1b84123bb9232b3f4a5114d9897ed89b4b8142d81924e05d79b"},
+    {file = "protobuf-4.24.4-py3-none-any.whl", hash = "sha256:80797ce7424f8c8d2f2547e2d42bfbb6c08230ce5832d6c099a37335c9c90a92"},
+    {file = "protobuf-4.24.4.tar.gz", hash = "sha256:5a70731910cd9104762161719c3d883c960151eea077134458503723b60e3667"},
 ]
 
 [[package]]
@@ -1154,16 +1084,6 @@ files = [
     {file = "pycparser-2.21.tar.gz", hash = "sha256:e644fdec12f7872f86c58ff790da456218b10f863970249516d60a5eaca77206"},
 ]
 
-[[package]]
-name = "pydes"
-version = "2.0.1"
-description = "Pure python implementation of DES and TRIPLE DES encryption algorithm"
-optional = false
-python-versions = "*"
-files = [
-    {file = "pyDes-2.0.1.tar.gz", hash = "sha256:e2ab8e21d2b83e90d90dbfdcb6fb8ac0000b813238b7ecaede04f8435c389012"},
-]
-
 [[package]]
 name = "pyjwt"
 version = "2.8.0"
@@ -1460,24 +1380,6 @@ urllib3 = ">=1.21.1,<1.27"
 socks = ["PySocks (>=1.5.6,!=1.5.7)", "win-inet-pton"]
 use-chardet-on-py3 = ["chardet (>=3.0.2,<5)"]
 
-[[package]]
-name = "requests-oauthlib"
-version = "1.3.1"
-description = "OAuthlib authentication support for Requests."
-optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
-files = [
-    {file = "requests-oauthlib-1.3.1.tar.gz", hash = "sha256:75beac4a47881eeb94d5ea5d6ad31ef88856affe2332b9aafb52c6452ccf0d7a"},
-    {file = "requests_oauthlib-1.3.1-py2.py3-none-any.whl", hash = "sha256:2577c501a2fb8d05a304c09d090d6e47c306fef15809d102b327cf8364bddab5"},
-]
-
-[package.dependencies]
-oauthlib = ">=3.0.0"
-requests = ">=2.0.0"
-
-[package.extras]
-rsa = ["oauthlib[signedtoken] (>=3.0.0)"]
-
 [[package]]
 name = "rfc3986"
 version = "1.5.0"
@@ -1594,13 +1496,13 @@ tests = ["coverage", "freezegun (>=0.2.8)", "pretend", "pytest (>=3.3.0)", "pyth
 
 [[package]]
 name = "tibanna"
-version = "4.0.0.1b4"
+version = "5.1.0"
 description = "Tibanna runs portable pipelines (in CWL/WDL) on the AWS Cloud."
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "tibanna-4.0.0.1b4-py3-none-any.whl", hash = "sha256:f3fde1244f3a52641bdb0cdfd2688f46e3b31197b195b05f7fbb3161df2d4dfb"},
-    {file = "tibanna-4.0.0.1b4.tar.gz", hash = "sha256:6a8a8a4a2daa6c0c079ed9db764dd107ea97b0d1356941b90831f4437b24fbab"},
+    {file = "tibanna-5.1.0-py3-none-any.whl", hash = "sha256:fbe066eda6544a680690e9510f2cb535c79cb8b05ee70d627079e1e1cf8339ff"},
+    {file = "tibanna-5.1.0.tar.gz", hash = "sha256:3d293d701c822a97cb1e7ff0a015b310a87f6461087670898b4db4c41b918dfd"},
 ]
 
 [package.dependencies]
@@ -1612,21 +1514,21 @@ tomlkit = ">=0.11.0,<0.12.0"
 
 [[package]]
 name = "tibanna-ff"
-version = "2.0.1.1b10"
+version = "3.1.1"
 description = "Tibanna runs portable pipelines (in CWL/WDL) on the AWS Cloud."
 optional = false
 python-versions = ">=3.8,<3.12"
 files = [
-    {file = "tibanna_ff-2.0.1.1b10-py3-none-any.whl", hash = "sha256:0e482f6cf98bfa18b4353e91686da176d4cdc1b4636b5cc0bde1529bd70ef0bd"},
-    {file = "tibanna_ff-2.0.1.1b10.tar.gz", hash = "sha256:f08ad73325dce65157c36a780b8e0252ec56829dae17b0960bd86faae18aa594"},
+    {file = "tibanna_ff-3.1.1-py3-none-any.whl", hash = "sha256:fac37cc31318dcc9f0fa6ce9dd9b1ce6347452c704f499939d054d51cab167b4"},
+    {file = "tibanna_ff-3.1.1.tar.gz", hash = "sha256:7801dface3e60ef6b867b8cda875238cf511bce3938d2f52f28ccb77a83c6e17"},
 ]
 
 [package.dependencies]
 boto3 = ">=1.28.56,<2.0.0"
 botocore = ">=1.31.56,<2.0.0"
-dcicutils = "7.12.0.2b9"
+dcicutils = "8.0.0"
 requests = "2.27.1"
-tibanna = "4.0.0.1b4"
+tibanna = "5.1.0"
 tomlkit = ">=0.11.0,<0.12.0"
 
 [[package]]
@@ -1735,17 +1637,17 @@ files = [
 
 [[package]]
 name = "urllib3"
-version = "1.26.16"
+version = "1.26.17"
 description = "HTTP library with thread-safe connection pooling, file post, and more."
 optional = false
 python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*"
 files = [
-    {file = "urllib3-1.26.16-py2.py3-none-any.whl", hash = "sha256:8d36afa7616d8ab714608411b4a3b13e58f463aee519024578e062e141dce20f"},
-    {file = "urllib3-1.26.16.tar.gz", hash = "sha256:8f135f6502756bde6b2a9b28989df5fbe87c9970cecaa69041edcce7f0589b14"},
+    {file = "urllib3-1.26.17-py2.py3-none-any.whl", hash = "sha256:94a757d178c9be92ef5539b8840d48dc9cf1b2709c9d6b588232a055c524458b"},
+    {file = "urllib3-1.26.17.tar.gz", hash = "sha256:24d6a242c28d29af46c3fae832c36db3bbebcc533dd1bb549172cd739c82df21"},
 ]
 
 [package.extras]
-brotli = ["brotli (>=1.0.9)", "brotlicffi (>=0.8.0)", "brotlipy (>=0.6.0)"]
+brotli = ["brotli (==1.0.9)", "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)"]
 
@@ -1766,13 +1668,13 @@ testing = ["coverage (>=5.0)", "pytest", "pytest-cover"]
 
 [[package]]
 name = "wcwidth"
-version = "0.2.6"
+version = "0.2.8"
 description = "Measures the displayed width of unicode strings in a terminal"
 optional = false
 python-versions = "*"
 files = [
-    {file = "wcwidth-0.2.6-py2.py3-none-any.whl", hash = "sha256:795b138f6875577cd91bba52baf9e445cd5118fd32723b460e30a0af30ea230e"},
-    {file = "wcwidth-0.2.6.tar.gz", hash = "sha256:a5220780a404dbe3353789870978e472cfe477761f06ee55077256e509b156d0"},
+    {file = "wcwidth-0.2.8-py2.py3-none-any.whl", hash = "sha256:77f719e01648ed600dfa5402c347481c0992263b81a027344f3e1ba25493a704"},
+    {file = "wcwidth-0.2.8.tar.gz", hash = "sha256:8705c569999ffbb4f6a87c6d1b80f324bd6db952f5eb0b95bc07517f4c1813d4"},
 ]
 
 [[package]]
@@ -1792,13 +1694,13 @@ testing = ["coverage", "pytest (>=3.1.0)", "pytest-cov", "pytest-xdist"]
 
 [[package]]
 name = "websocket-client"
-version = "1.6.3"
+version = "1.6.4"
 description = "WebSocket client for Python with low level API options"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "websocket-client-1.6.3.tar.gz", hash = "sha256:3aad25d31284266bcfcfd1fd8a743f63282305a364b8d0948a43bd606acc652f"},
-    {file = "websocket_client-1.6.3-py3-none-any.whl", hash = "sha256:6cfc30d051ebabb73a5fa246efdcc14c8fbebbd0330f8984ac3bb6d9edd2ad03"},
+    {file = "websocket-client-1.6.4.tar.gz", hash = "sha256:b3324019b3c28572086c4a319f91d1dcd44e6e11cd340232978c684a7650d0df"},
+    {file = "websocket_client-1.6.4-py3-none-any.whl", hash = "sha256:084072e0a7f5f347ef2ac3d8698a5e0b4ffbfcab607628cadabc650fc9a83a24"},
 ]
 
 [package.extras]
@@ -1844,4 +1746,4 @@ test = ["pytest (>=6.0.0)", "setuptools (>=65)"]
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.8,<3.12"
-content-hash = "fc344bca2e42707d9423ad879a41608e4a78d6caf6f756daaffb93acba67e852"
+content-hash = "bb819ec8749404753ecd78c6b2051e48b0dbcb1393a96a7a959e11f34da3ff50"
diff --git a/pyproject.toml b/pyproject.toml
index 23fdda74..84842b95 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "foursight-cgap"
-version = "3.6.1.2b27"  # TODO: To become 4.0.0
+version = "4.0.0"
 description = "Serverless Chalice Application for Monitoring"
 authors = ["4DN-DCIC Team <support@4dnucleome.org>"]
 license = "MIT"
@@ -10,7 +10,8 @@ packages = [
 
 [tool.poetry.dependencies]
 python = ">=3.8,<3.12"
-dcicutils = "7.12.0.2b9"
+cron-descriptor = "^1.4.0"
+dcicutils = "^8.0.0"
 click = "^7.1.2"
 PyJWT = "^2.5.0"
 Jinja2 = "^3.1.2"
@@ -23,16 +24,17 @@ elasticsearch = "7.13.4"
 elasticsearch-dsl = "^7.0.0"
 gitpython = "^3.1.2"
 pytz = "^2020.1"
-magma-suite = "1.5.0.3b5"
-tibanna-ff = "2.0.1.1b10"
+magma-suite = "^2.0.0"
+tibanna-ff = "^3.1.1"
 MarkupSafe = "^2.1.3"
-foursight-core = "4.5.0.3b27"
+foursight-core = "^5.0.0"
 # use below for tests but not for deployment
 #foursight-core = { git = "https://github.com/4dn-dcic/foursight-core.git", branch="core2" }
 #portal-pipeline-utils = "2.1.0.1b1"
 # Need pytest-redis 3.0.2 or higher for pytest 7.4.2 (or higher).
 pytest = "^7.4.2"
 pytest-redis = "^3.0.2"
+tzlocal = "^5.1"
 
 [tool.poetry.dev-dependencies]
 chalice = "^1.21.6"

From ab2ada0fb058a2eb048b5d23b9b797c9eb236979 Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Wed, 11 Oct 2023 08:08:53 -0400
Subject: [PATCH 29/30] readying for merge to master

---
 .../scripts/local_check_execution.py          |  12 ++
 poetry.lock                                   | 167 ++++++++++++++----
 pyproject.toml                                |   1 +
 3 files changed, 145 insertions(+), 35 deletions(-)
 create mode 100644 chalicelib_cgap/scripts/local_check_execution.py

diff --git a/chalicelib_cgap/scripts/local_check_execution.py b/chalicelib_cgap/scripts/local_check_execution.py
new file mode 100644
index 00000000..4898eb26
--- /dev/null
+++ b/chalicelib_cgap/scripts/local_check_execution.py
@@ -0,0 +1,12 @@
+from foursight_core.captured_output import captured_output
+from foursight_core.scripts.local_check_execution import local_check_execution
+with captured_output():
+    from chalicelib_cgap.app_utils import app_utils_obj as app_utils
+
+
+def main():
+    local_check_execution(app_utils)
+
+
+if __name__ == "__main__":
+    main()
diff --git a/poetry.lock b/poetry.lock
index b2a4613b..75f2ab0e 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -382,34 +382,34 @@ dev = ["polib"]
 
 [[package]]
 name = "cryptography"
-version = "41.0.4"
+version = "39.0.2"
 description = "cryptography is a package which provides cryptographic recipes and primitives to Python developers."
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.6"
 files = [
-    {file = "cryptography-41.0.4-cp37-abi3-macosx_10_12_universal2.whl", hash = "sha256:80907d3faa55dc5434a16579952ac6da800935cd98d14dbd62f6f042c7f5e839"},
-    {file = "cryptography-41.0.4-cp37-abi3-macosx_10_12_x86_64.whl", hash = "sha256:35c00f637cd0b9d5b6c6bd11b6c3359194a8eba9c46d4e875a3660e3b400005f"},
-    {file = "cryptography-41.0.4-cp37-abi3-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:cecfefa17042941f94ab54f769c8ce0fe14beff2694e9ac684176a2535bf9714"},
-    {file = "cryptography-41.0.4-cp37-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:e40211b4923ba5a6dc9769eab704bdb3fbb58d56c5b336d30996c24fcf12aadb"},
-    {file = "cryptography-41.0.4-cp37-abi3-manylinux_2_28_aarch64.whl", hash = "sha256:23a25c09dfd0d9f28da2352503b23e086f8e78096b9fd585d1d14eca01613e13"},
-    {file = "cryptography-41.0.4-cp37-abi3-manylinux_2_28_x86_64.whl", hash = "sha256:2ed09183922d66c4ec5fdaa59b4d14e105c084dd0febd27452de8f6f74704143"},
-    {file = "cryptography-41.0.4-cp37-abi3-musllinux_1_1_aarch64.whl", hash = "sha256:5a0f09cefded00e648a127048119f77bc2b2ec61e736660b5789e638f43cc397"},
-    {file = "cryptography-41.0.4-cp37-abi3-musllinux_1_1_x86_64.whl", hash = "sha256:9eeb77214afae972a00dee47382d2591abe77bdae166bda672fb1e24702a3860"},
-    {file = "cryptography-41.0.4-cp37-abi3-win32.whl", hash = "sha256:3b224890962a2d7b57cf5eeb16ccaafba6083f7b811829f00476309bce2fe0fd"},
-    {file = "cryptography-41.0.4-cp37-abi3-win_amd64.whl", hash = "sha256:c880eba5175f4307129784eca96f4e70b88e57aa3f680aeba3bab0e980b0f37d"},
-    {file = "cryptography-41.0.4-pp310-pypy310_pp73-macosx_10_12_x86_64.whl", hash = "sha256:004b6ccc95943f6a9ad3142cfabcc769d7ee38a3f60fb0dddbfb431f818c3a67"},
-    {file = "cryptography-41.0.4-pp310-pypy310_pp73-manylinux_2_28_aarch64.whl", hash = "sha256:86defa8d248c3fa029da68ce61fe735432b047e32179883bdb1e79ed9bb8195e"},
-    {file = "cryptography-41.0.4-pp310-pypy310_pp73-manylinux_2_28_x86_64.whl", hash = "sha256:37480760ae08065437e6573d14be973112c9e6dcaf5f11d00147ee74f37a3829"},
-    {file = "cryptography-41.0.4-pp310-pypy310_pp73-win_amd64.whl", hash = "sha256:b5f4dfe950ff0479f1f00eda09c18798d4f49b98f4e2006d644b3301682ebdca"},
-    {file = "cryptography-41.0.4-pp38-pypy38_pp73-macosx_10_12_x86_64.whl", hash = "sha256:7e53db173370dea832190870e975a1e09c86a879b613948f09eb49324218c14d"},
-    {file = "cryptography-41.0.4-pp38-pypy38_pp73-manylinux_2_28_aarch64.whl", hash = "sha256:5b72205a360f3b6176485a333256b9bcd48700fc755fef51c8e7e67c4b63e3ac"},
-    {file = "cryptography-41.0.4-pp38-pypy38_pp73-manylinux_2_28_x86_64.whl", hash = "sha256:93530900d14c37a46ce3d6c9e6fd35dbe5f5601bf6b3a5c325c7bffc030344d9"},
-    {file = "cryptography-41.0.4-pp38-pypy38_pp73-win_amd64.whl", hash = "sha256:efc8ad4e6fc4f1752ebfb58aefece8b4e3c4cae940b0994d43649bdfce8d0d4f"},
-    {file = "cryptography-41.0.4-pp39-pypy39_pp73-macosx_10_12_x86_64.whl", hash = "sha256:c3391bd8e6de35f6f1140e50aaeb3e2b3d6a9012536ca23ab0d9c35ec18c8a91"},
-    {file = "cryptography-41.0.4-pp39-pypy39_pp73-manylinux_2_28_aarch64.whl", hash = "sha256:0d9409894f495d465fe6fda92cb70e8323e9648af912d5b9141d616df40a87b8"},
-    {file = "cryptography-41.0.4-pp39-pypy39_pp73-manylinux_2_28_x86_64.whl", hash = "sha256:8ac4f9ead4bbd0bc8ab2d318f97d85147167a488be0e08814a37eb2f439d5cf6"},
-    {file = "cryptography-41.0.4-pp39-pypy39_pp73-win_amd64.whl", hash = "sha256:047c4603aeb4bbd8db2756e38f5b8bd7e94318c047cfe4efeb5d715e08b49311"},
-    {file = "cryptography-41.0.4.tar.gz", hash = "sha256:7febc3094125fc126a7f6fb1f420d0da639f3f32cb15c8ff0dc3997c4549f51a"},
+    {file = "cryptography-39.0.2-cp36-abi3-macosx_10_12_universal2.whl", hash = "sha256:2725672bb53bb92dc7b4150d233cd4b8c59615cd8288d495eaa86db00d4e5c06"},
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+    {file = "cryptography-39.0.2-cp36-abi3-manylinux_2_17_aarch64.manylinux2014_aarch64.manylinux_2_24_aarch64.whl", hash = "sha256:eb40fe69cfc6f5cdab9a5ebd022131ba21453cf7b8a7fd3631f45bbf52bed612"},
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+    {file = "cryptography-39.0.2-cp36-abi3-musllinux_1_1_aarch64.whl", hash = "sha256:5f8c682e736513db7d04349b4f6693690170f95aac449c56f97415c6980edef5"},
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+    {file = "cryptography-39.0.2-cp36-abi3-win32.whl", hash = "sha256:c43ac224aabcbf83a947eeb8b17eaf1547bce3767ee2d70093b461f31729a480"},
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+    {file = "cryptography-39.0.2-pp38-pypy38_pp73-macosx_10_12_x86_64.whl", hash = "sha256:d15809e0dbdad486f4ad0979753518f47980020b7a34e9fc56e8be4f60702fac"},
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+    {file = "cryptography-39.0.2-pp38-pypy38_pp73-win_amd64.whl", hash = "sha256:6236a9610c912b129610eb1a274bdc1350b5df834d124fa84729ebeaf7da42c3"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-macosx_10_12_x86_64.whl", hash = "sha256:e944fe07b6f229f4c1a06a7ef906a19652bdd9fd54c761b0ff87e83ae7a30354"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-manylinux_2_17_aarch64.manylinux2014_aarch64.manylinux_2_24_aarch64.whl", hash = "sha256:35d658536b0a4117c885728d1a7032bdc9a5974722ae298d6c533755a6ee3915"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-manylinux_2_24_x86_64.whl", hash = "sha256:30b1d1bfd00f6fc80d11300a29f1d8ab2b8d9febb6ed4a38a76880ec564fae84"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-manylinux_2_28_aarch64.whl", hash = "sha256:e029b844c21116564b8b61216befabca4b500e6816fa9f0ba49527653cae2108"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-manylinux_2_28_x86_64.whl", hash = "sha256:fa507318e427169ade4e9eccef39e9011cdc19534f55ca2f36ec3f388c1f70f3"},
+    {file = "cryptography-39.0.2-pp39-pypy39_pp73-win_amd64.whl", hash = "sha256:8bc0008ef798231fac03fe7d26e82d601d15bd16f3afaad1c6113771566570f3"},
+    {file = "cryptography-39.0.2.tar.gz", hash = "sha256:bc5b871e977c8ee5a1bbc42fa8d19bcc08baf0c51cbf1586b0e87a2694dde42f"},
 ]
 
 [package.dependencies]
@@ -418,12 +418,12 @@ cffi = ">=1.12"
 [package.extras]
 docs = ["sphinx (>=5.3.0)", "sphinx-rtd-theme (>=1.1.1)"]
 docstest = ["pyenchant (>=1.6.11)", "sphinxcontrib-spelling (>=4.0.1)", "twine (>=1.12.0)"]
-nox = ["nox"]
-pep8test = ["black", "check-sdist", "mypy", "ruff"]
-sdist = ["build"]
+pep8test = ["black", "check-manifest", "mypy", "ruff", "types-pytz", "types-requests"]
+sdist = ["setuptools-rust (>=0.11.4)"]
 ssh = ["bcrypt (>=3.1.5)"]
-test = ["pretend", "pytest (>=6.2.0)", "pytest-benchmark", "pytest-cov", "pytest-xdist"]
+test = ["hypothesis (>=1.11.4,!=3.79.2)", "iso8601", "pretend", "pytest (>=6.2.0)", "pytest-benchmark", "pytest-cov", "pytest-shard (>=0.1.2)", "pytest-subtests", "pytest-xdist", "pytz"]
 test-randomorder = ["pytest-randomly"]
+tox = ["tox"]
 
 [[package]]
 name = "dcicutils"
@@ -572,13 +572,34 @@ name = "foursight-core"
 version = "5.0.0"
 description = "Serverless Chalice Application for Monitoring"
 optional = false
-python-versions = "*"
-files = []
-develop = true
+python-versions = ">=3.8,<3.12"
+files = [
+    {file = "foursight_core-5.0.0-py3-none-any.whl", hash = "sha256:c298ec7778fc3765a7181e1984ca271a7cdcaa3641bf8935d3349cfd42c9818e"},
+    {file = "foursight_core-5.0.0.tar.gz", hash = "sha256:efc10c815e91ad439884f5e1dd1f294ca813c34e2ad479ca9303b9bb65341ecf"},
+]
 
-[package.source]
-type = "directory"
-url = "../foursight-core"
+[package.dependencies]
+boto3 = ">=1.28.62,<2.0.0"
+botocore = ">=1.31.62,<2.0.0"
+click = ">=7.1.2,<8.0.0"
+cron-descriptor = ">=1.2.31,<2.0.0"
+cryptography = "39.0.2"
+dcicutils = ">=8.0.0,<9.0.0"
+elasticsearch = "7.13.4"
+elasticsearch-dsl = ">=7.0.0,<8.0.0"
+geocoder = "1.38.1"
+gitpython = ">=3.1.2,<4.0.0"
+google = ">=3.0.0,<4.0.0"
+google-api-python-client = ">=1.12.5,<2.0.0"
+google-auth-oauthlib = ">=0.7.0,<0.8.0"
+Jinja2 = ">=3.1.2,<4.0.0"
+MarkupSafe = ">=2.1.3,<3.0.0"
+pyDes = ">=2.0.1,<3.0.0"
+PyJWT = ">=2.5.0,<3.0.0"
+pytz = ">=2020.1"
+redis = ">=4.5.1,<5.0.0"
+toml = ">=0.10.2,<1"
+tzlocal = ">=5.0.1,<6.0.0"
 
 [[package]]
 name = "future"
@@ -639,6 +660,20 @@ gitdb = ">=4.0.1,<5"
 [package.extras]
 test = ["black", "coverage[toml]", "ddt (>=1.1.1,!=1.4.3)", "mypy", "pre-commit", "pytest", "pytest-cov", "pytest-sugar"]
 
+[[package]]
+name = "google"
+version = "3.0.0"
+description = "Python bindings to the Google search engine."
+optional = false
+python-versions = "*"
+files = [
+    {file = "google-3.0.0-py2.py3-none-any.whl", hash = "sha256:889cf695f84e4ae2c55fbc0cfdaf4c1e729417fa52ab1db0485202ba173e4935"},
+    {file = "google-3.0.0.tar.gz", hash = "sha256:143530122ee5130509ad5e989f0512f7cb218b2d4eddbafbad40fd10e8d8ccbe"},
+]
+
+[package.dependencies]
+beautifulsoup4 = "*"
+
 [[package]]
 name = "google-api-core"
 version = "2.12.0"
@@ -718,6 +753,24 @@ files = [
 google-auth = "*"
 httplib2 = ">=0.19.0"
 
+[[package]]
+name = "google-auth-oauthlib"
+version = "0.7.1"
+description = "Google Authentication Library"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "google-auth-oauthlib-0.7.1.tar.gz", hash = "sha256:9940f543f77d1447432a93781d7c931fb53e418023351ad4bf9e92837a1154ec"},
+    {file = "google_auth_oauthlib-0.7.1-py2.py3-none-any.whl", hash = "sha256:860e54c4b58b2664116c9cb44325bc0ec92bcd93e8211698ceea911b1b873b86"},
+]
+
+[package.dependencies]
+google-auth = ">=2.14.0"
+requests-oauthlib = ">=0.7.0"
+
+[package.extras]
+tool = ["click (>=6.0.0)"]
+
 [[package]]
 name = "googleapis-common-protos"
 version = "1.60.0"
@@ -928,6 +981,22 @@ files = [
 [package.dependencies]
 psutil = {version = ">=4.0.0", markers = "sys_platform != \"cygwin\""}
 
+[[package]]
+name = "oauthlib"
+version = "3.2.2"
+description = "A generic, spec-compliant, thorough implementation of the OAuth request-signing logic"
+optional = false
+python-versions = ">=3.6"
+files = [
+    {file = "oauthlib-3.2.2-py3-none-any.whl", hash = "sha256:8139f29aac13e25d502680e9e19963e83f16838d48a0d71c287fe40e7067fbca"},
+    {file = "oauthlib-3.2.2.tar.gz", hash = "sha256:9859c40929662bec5d64f34d01c99e093149682a3f38915dc0655d5a633dd918"},
+]
+
+[package.extras]
+rsa = ["cryptography (>=3.0.0)"]
+signals = ["blinker (>=1.4.0)"]
+signedtoken = ["cryptography (>=3.0.0)", "pyjwt (>=2.0.0,<3)"]
+
 [[package]]
 name = "opensearch-py"
 version = "2.3.2"
@@ -1084,6 +1153,16 @@ files = [
     {file = "pycparser-2.21.tar.gz", hash = "sha256:e644fdec12f7872f86c58ff790da456218b10f863970249516d60a5eaca77206"},
 ]
 
+[[package]]
+name = "pydes"
+version = "2.0.1"
+description = "Pure python implementation of DES and TRIPLE DES encryption algorithm"
+optional = false
+python-versions = "*"
+files = [
+    {file = "pyDes-2.0.1.tar.gz", hash = "sha256:e2ab8e21d2b83e90d90dbfdcb6fb8ac0000b813238b7ecaede04f8435c389012"},
+]
+
 [[package]]
 name = "pyjwt"
 version = "2.8.0"
@@ -1380,6 +1459,24 @@ urllib3 = ">=1.21.1,<1.27"
 socks = ["PySocks (>=1.5.6,!=1.5.7)", "win-inet-pton"]
 use-chardet-on-py3 = ["chardet (>=3.0.2,<5)"]
 
+[[package]]
+name = "requests-oauthlib"
+version = "1.3.1"
+description = "OAuthlib authentication support for Requests."
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+files = [
+    {file = "requests-oauthlib-1.3.1.tar.gz", hash = "sha256:75beac4a47881eeb94d5ea5d6ad31ef88856affe2332b9aafb52c6452ccf0d7a"},
+    {file = "requests_oauthlib-1.3.1-py2.py3-none-any.whl", hash = "sha256:2577c501a2fb8d05a304c09d090d6e47c306fef15809d102b327cf8364bddab5"},
+]
+
+[package.dependencies]
+oauthlib = ">=3.0.0"
+requests = ">=2.0.0"
+
+[package.extras]
+rsa = ["oauthlib[signedtoken] (>=3.0.0)"]
+
 [[package]]
 name = "rfc3986"
 version = "1.5.0"
diff --git a/pyproject.toml b/pyproject.toml
index 84842b95..d2e473a7 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -42,6 +42,7 @@ pytest-cov = "^4.1.0"
 flaky = "3.6.1"
 
 [tool.poetry.scripts]
+local-check-execution = "chalicelib_cgap.scripts.local_check_execution:main"
 publish-to-pypi = "dcicutils.scripts.publish_to_pypi:main"
 
 [build-system]

From 846d5dff9a26cd71c94970c733846e671203810a Mon Sep 17 00:00:00 2001
From: David Michaels <david_michaels@hms.harvard.edu>
Date: Wed, 11 Oct 2023 08:09:47 -0400
Subject: [PATCH 30/30] readying for merge to master

---
 .github/workflows/main-publish.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/main-publish.yml b/.github/workflows/main-publish.yml
index cb524906..eb60bcc9 100644
--- a/.github/workflows/main-publish.yml
+++ b/.github/workflows/main-publish.yml
@@ -26,7 +26,7 @@ jobs:
       - uses: actions/checkout@v2
       - uses: actions/setup-python@v2
         with:
-          python-version: 3.6
+          python-version: 3.11
       - name: Install Python dependencies for publish
         run: python -m pip install dcicutils
       - name: Publish