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fence_test_tmp" From f71333c801f39d364000fdf52f637cc6cb43047c Mon Sep 17 00:00:00 2001 From: George Thomas Date: Tue, 6 Feb 2024 15:01:09 -0800 Subject: [PATCH 04/18] (PPS-697) disable poetry cache --- .travis.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.travis.yml b/.travis.yml index 9dfb763ba..346909876 100644 --- a/.travis.yml +++ b/.travis.yml @@ -31,7 +31,7 @@ before_install: install: - pip install --upgrade pip - pip install poetry - - poetry install --all-extras -vv --no-interaction + - poetry install --all-extras -vv --no-interaction --no-cache - poetry show -vv - psql -c 'SELECT version();' -U postgres - psql -U postgres -c "create database fence_test_tmp" From 6e5e60ccb92acfd9ce7140092587b0b22719a3c3 Mon Sep 17 00:00:00 2001 From: George Thomas Date: Tue, 6 Feb 2024 15:11:32 -0800 Subject: [PATCH 05/18] (PPS-697) re-enable poetry cache --- .travis.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.travis.yml b/.travis.yml index 346909876..9dfb763ba 100644 --- a/.travis.yml +++ b/.travis.yml @@ -31,7 +31,7 @@ before_install: install: - pip install --upgrade pip - pip install poetry - - poetry install --all-extras -vv --no-interaction --no-cache + - poetry install --all-extras -vv --no-interaction - poetry show -vv - psql -c 'SELECT version();' -U postgres - psql -U postgres -c "create database fence_test_tmp" From ae9ae793335f8b292f4cb5cbc2b0b79df6c300ac Mon Sep 17 00:00:00 2001 From: George Thomas Date: Wed, 7 Feb 2024 09:57:02 -0800 Subject: [PATCH 06/18] (PPS-697) use '-vvv' option for poetry --- .travis.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.travis.yml b/.travis.yml index 9dfb763ba..1b0f0b0e6 100644 --- a/.travis.yml +++ b/.travis.yml @@ -31,7 +31,7 @@ before_install: install: - pip install --upgrade pip - pip install poetry - - poetry install --all-extras -vv --no-interaction + - poetry install --all-extras -vvv --no-interaction --no-cache - poetry show -vv - psql -c 'SELECT version();' -U postgres - psql -U postgres -c "create database fence_test_tmp" From 79e46757903c5c59a11812da2891b663982ddb84 Mon Sep 17 00:00:00 2001 From: George Thomas Date: Wed, 7 Feb 2024 10:14:43 -0800 Subject: [PATCH 07/18] (PPS-697) re-enable poetry cache --- .travis.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.travis.yml b/.travis.yml index 1b0f0b0e6..9dfb763ba 100644 --- a/.travis.yml +++ b/.travis.yml @@ -31,7 +31,7 @@ before_install: install: - pip install --upgrade pip - pip install poetry - - poetry install --all-extras -vvv --no-interaction --no-cache + - poetry install --all-extras -vv --no-interaction - poetry show -vv - psql -c 'SELECT version();' -U postgres - psql -U postgres -c "create database fence_test_tmp" From 2ec78a530edf8065732f65f742b9a0d531000006 Mon Sep 17 00:00:00 2001 From: George Thomas Date: Wed, 7 Feb 2024 10:57:52 -0800 Subject: [PATCH 08/18] (PPS-697) allow any version of boto3 --- poetry.lock | 2 +- pyproject.toml | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/poetry.lock b/poetry.lock index 04bac8366..f6d70d1a8 100644 --- a/poetry.lock +++ b/poetry.lock @@ -2557,4 +2557,4 @@ testing = ["big-O", "jaraco.functools", "jaraco.itertools", "more-itertools", "p [metadata] lock-version = "2.0" python-versions = ">=3.9,<4.0.0" -content-hash = "b690c9d1c075dd3e6ee97c6469712aeed0d3754af7df0755f8b9c94e01080dff" +content-hash = "301e6264d61bdf46fe70ffcccbf4a198de2b4b81aa02f2339463ea2af8b7fcca" diff --git a/pyproject.toml b/pyproject.toml index d7f131bb1..20dcdd8e1 100755 --- a/pyproject.toml +++ b/pyproject.toml @@ -24,7 +24,7 @@ authlib = {git = "https://github.com/uc-cdis/authlib", rev = "v0.11_CVE_patch_v1 authutils = "^6.2.2" bcrypt = "^3.1.4" -boto3 = "^1.9.91" +boto3 = "*" botocore = "*" cached_property = "^1.5.1" cdiserrors = "<2.0.0" From b6724a7a32f82694bc709a5f7f50c47311c94381 Mon Sep 17 00:00:00 2001 From: George Thomas Date: Wed, 7 Feb 2024 14:35:23 -0800 Subject: [PATCH 09/18] (PPS-697) specify cryptography >=42.0.2 in pyproject.toml --- poetry.lock | 29 ++++++++--------------------- pyproject.toml | 2 +- 2 files changed, 9 insertions(+), 22 deletions(-) diff --git a/poetry.lock b/poetry.lock index f6d70d1a8..4907dbc4f 100644 --- a/poetry.lock +++ b/poetry.lock @@ -254,17 +254,17 @@ files = [ [[package]] name = "boto3" -version = "1.34.36" +version = "1.34.37" description = "The AWS SDK for Python" optional = false python-versions = ">= 3.8" files = [ - {file = "boto3-1.34.36-py3-none-any.whl", hash = "sha256:1e38a4ea4bb8bc66fbb858abb411820709fda5d6c5604c2da0f696653d49c684"}, - {file = "boto3-1.34.36.tar.gz", hash = "sha256:7ec36deb7ccc9c4943510692303cf93883ef61dc2c79f8bd4d75ee42209559d3"}, + {file = "boto3-1.34.37-py3-none-any.whl", hash = "sha256:65acfe7f1cf2a9b7df3d4edb87c8022e02685825bd1957e7bb678cc0d09f5e5f"}, + {file = "boto3-1.34.37.tar.gz", hash = "sha256:73f5ec89cb3ddb3ed577317889fd2f2df783f66b6502a9a4239979607e33bf74"}, ] 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"more-itertools", "p [metadata] lock-version = "2.0" python-versions = ">=3.9,<4.0.0" -content-hash = "301e6264d61bdf46fe70ffcccbf4a198de2b4b81aa02f2339463ea2af8b7fcca" +content-hash = "ae1b5d658611afb4e00feda93db4fa53a3e29b067e860d3877cf7f3e67382aee" diff --git a/pyproject.toml b/pyproject.toml index 20dcdd8e1..0f2e0cc4c 100755 --- a/pyproject.toml +++ b/pyproject.toml @@ -30,7 +30,7 @@ cached_property = "^1.5.1" cdiserrors = "<2.0.0" cdislogging = "^1.0.0" cdispyutils = "^2.0.1" -cryptography = ">=41.0.6" +cryptography = ">=42.0.2" # this will be updated when authlib is updated flask = "==2.3.2" From 9935f46dcb143d6fa6a6e5df1423b5071dc4e923 Mon Sep 17 00:00:00 2001 From: George Thomas Date: Thu, 8 Feb 2024 08:27:23 -0800 Subject: [PATCH 10/18] (PPS-697) disable poetry cache --- .travis.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.travis.yml b/.travis.yml index 9dfb763ba..346909876 100644 --- a/.travis.yml +++ b/.travis.yml @@ -31,7 +31,7 @@ before_install: install: - pip install --upgrade pip - pip install poetry - - poetry install --all-extras -vv --no-interaction + - poetry install --all-extras -vv --no-interaction --no-cache - poetry show -vv - psql -c 'SELECT version();' -U postgres - psql -U postgres -c "create database fence_test_tmp" From 3cd212a2958cfa6d55ab24b4ab035097d87d7852 Mon Sep 17 00:00:00 2001 From: George Thomas Date: Thu, 8 Feb 2024 08:40:16 -0800 Subject: [PATCH 11/18] (PPS-697) use '-vvv' option for poetry --- .travis.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.travis.yml b/.travis.yml index 346909876..1b0f0b0e6 100644 --- a/.travis.yml +++ b/.travis.yml @@ -31,7 +31,7 @@ before_install: install: - pip install --upgrade pip - pip install poetry - - poetry install --all-extras -vv --no-interaction --no-cache + - poetry install --all-extras -vvv --no-interaction --no-cache - poetry show -vv - psql -c 'SELECT version();' -U postgres - psql -U postgres -c "create database fence_test_tmp" From a13fc6ed6ad09d48f62200a3d090af7936b4a92a Mon Sep 17 00:00:00 2001 From: George Thomas Date: Thu, 8 Feb 2024 09:24:22 -0800 Subject: [PATCH 12/18] (PPS-697) pin setuptools --- poetry.lock | 35 ++++++++++++++++++++++++----------- pyproject.toml | 2 ++ 2 files changed, 26 insertions(+), 11 deletions(-) diff --git a/poetry.lock b/poetry.lock index 4907dbc4f..cdd732db9 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1006,13 +1006,13 @@ pyyaml = ">=6,<7" [[package]] name = "google-api-core" -version = "2.16.2" +version = "2.17.0" description = "Google API client core library" optional = false python-versions = ">=3.7" files = [ - {file = "google-api-core-2.16.2.tar.gz", hash = "sha256:032d37b45d1d6bdaf68fb11ff621e2593263a239fa9246e2e94325f9c47876d2"}, - {file = "google_api_core-2.16.2-py3-none-any.whl", hash = "sha256:449ca0e3f14c179b4165b664256066c7861610f70b6ffe54bb01a04e9b466929"}, + {file = "google-api-core-2.17.0.tar.gz", hash = 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(PPS-697) re-enable poetry cache --- .travis.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.travis.yml b/.travis.yml index 1b0f0b0e6..9dfb763ba 100644 --- a/.travis.yml +++ b/.travis.yml @@ -31,7 +31,7 @@ before_install: install: - pip install --upgrade pip - pip install poetry - - poetry install --all-extras -vvv --no-interaction --no-cache + - poetry install --all-extras -vv --no-interaction - poetry show -vv - psql -c 'SELECT version();' -U postgres - psql -U postgres -c "create database fence_test_tmp" From 51adac6ee0cab9f6458adb43f9abcb5a1d14b8e3 Mon Sep 17 00:00:00 2001 From: George Thomas Date: Fri, 9 Feb 2024 09:38:11 -0800 Subject: [PATCH 14/18] (PPS-697) install setuptools via pip --- .travis.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.travis.yml b/.travis.yml index 9dfb763ba..0a78d18da 100644 --- a/.travis.yml +++ b/.travis.yml @@ -29,7 +29,7 @@ before_install: - sudo pg_ctlcluster 13 main restart install: - - pip install --upgrade pip + - pip install --upgrade pip setuptools - pip install poetry - poetry install --all-extras -vv --no-interaction - poetry show -vv From 0f81b015799f00c5796e607b60fbeac731a408f6 Mon Sep 17 00:00:00 2001 From: George Thomas Date: Fri, 9 Feb 2024 09:50:59 -0800 Subject: [PATCH 15/18] (PPS-697) revert pinning of setuptools --- poetry.lock | 49 ++++++++++++++++++------------------------------- pyproject.toml | 3 --- 2 files changed, 18 insertions(+), 34 deletions(-) diff --git a/poetry.lock b/poetry.lock index cdd732db9..104b10098 100644 --- a/poetry.lock +++ b/poetry.lock @@ -254,17 +254,17 @@ files = [ [[package]] name = "boto3" -version = "1.34.37" +version = "1.34.38" description = "The AWS SDK for Python" optional = false python-versions = ">= 3.8" files = [ - {file = "boto3-1.34.37-py3-none-any.whl", hash = "sha256:65acfe7f1cf2a9b7df3d4edb87c8022e02685825bd1957e7bb678cc0d09f5e5f"}, - {file = "boto3-1.34.37.tar.gz", hash = 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"199427f111e0a6f5456ef3fd9e3531b94720b3123d68135f6f1156ca319901d3" +content-hash = "ae1b5d658611afb4e00feda93db4fa53a3e29b067e860d3877cf7f3e67382aee" diff --git a/pyproject.toml b/pyproject.toml index 5c15c080e..036e4a338 100755 --- a/pyproject.toml +++ b/pyproject.toml @@ -64,9 +64,6 @@ azure-storage-blob = "^12.6.0" Flask-WTF = "^1.0.0" boto = "*" -# pin setuptools to fix errors in travis builds -setuptools = "==68.0.0" - [tool.poetry.dev-dependencies] addict = "^2.2.1" cdisutilstest = {git = "https://github.com/uc-cdis/cdisutils-test", tag = "2.0.0"} From a2e83688f8910cf99d8b9927dd15f3f5414804f3 Mon Sep 17 00:00:00 2001 From: George Thomas Date: Sun, 11 Feb 2024 08:54:27 -0800 Subject: [PATCH 16/18] (PPS-697) use poetry installer --- .travis.yml | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/.travis.yml b/.travis.yml index 0a78d18da..597d23fc4 100644 --- a/.travis.yml +++ b/.travis.yml @@ -29,8 +29,10 @@ before_install: - sudo pg_ctlcluster 13 main restart install: - - pip install --upgrade pip setuptools - - pip install poetry + - pip install --upgrade pip + - curl -sSL https://install.python-poetry.org | python - + - which poetry + - poetry --version - poetry install --all-extras -vv --no-interaction - poetry show -vv - psql -c 'SELECT version();' -U postgres From f20d3eb127258500bdcffbc0b24386f34c96435a Mon Sep 17 00:00:00 2001 From: Alex VanTol Date: Mon, 12 Feb 2024 12:15:36 -0600 Subject: [PATCH 17/18] chore(deps): upgrade paramiko --- poetry.lock | 304 +++++++++++++++++++++++++------------------------ pyproject.toml | 2 +- 2 files changed, 157 insertions(+), 149 deletions(-) diff --git a/poetry.lock b/poetry.lock index ad1dd03ba..18ba57ce9 100644 --- a/poetry.lock +++ b/poetry.lock @@ -155,13 +155,13 @@ wrapt = "*" [[package]] name = "azure-core" -version = "1.29.7" +version = "1.30.0" description = "Microsoft Azure Core Library for Python" optional = false python-versions = ">=3.7" files = [ - {file = "azure-core-1.29.7.tar.gz", 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