From eb79e7e3745bbd7a83993520dcfc5aec010a7725 Mon Sep 17 00:00:00 2001 From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com> Date: Wed, 27 May 2026 05:13:52 +0000 Subject: [PATCH 1/2] Bump gitpython from 3.1.46 to 3.1.50 Bumps [gitpython](https://github.com/gitpython-developers/GitPython) from 3.1.46 to 3.1.50. - [Release notes](https://github.com/gitpython-developers/GitPython/releases) - [Changelog](https://github.com/gitpython-developers/GitPython/blob/main/CHANGES) - [Commits](https://github.com/gitpython-developers/GitPython/compare/3.1.46...3.1.50) --- updated-dependencies: - dependency-name: gitpython dependency-version: 3.1.50 dependency-type: indirect ... Signed-off-by: dependabot[bot] --- poetry.lock | 25 +++++++++++-------------- 1 file changed, 11 insertions(+), 14 deletions(-) diff --git a/poetry.lock b/poetry.lock index 7df18e5..a7a455e 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,4 +1,4 @@ -# This file is automatically @generated by Poetry 2.1.2 and should not be changed by hand. +# This file is automatically @generated by Poetry 2.4.1 and should not be changed by hand. [[package]] name = "aiobotocore" @@ -1255,10 +1255,9 @@ tqdm = ["tqdm"] name = "gitdb" version = "4.0.12" description = "Git Object Database" -optional = true +optional = false python-versions = ">=3.7" groups = ["main"] -markers = "extra == \"nextflow\"" files = [ {file = "gitdb-4.0.12-py3-none-any.whl", hash = "sha256:67073e15955400952c6565cc3e707c554a4eea2e428946f7a4c162fab9bd9bcf"}, {file = "gitdb-4.0.12.tar.gz", hash = "sha256:5ef71f855d191a3326fcfbc0d5da835f26b13fbcba60c32c21091c349ffdb571"}, @@ -1269,22 +1268,21 @@ smmap = ">=3.0.1,<6" [[package]] name = "gitpython" -version = "3.1.46" +version = "3.1.50" description = "GitPython is a Python library used to interact with Git repositories" -optional = true +optional = false python-versions = ">=3.7" groups = ["main"] -markers = "extra == \"nextflow\"" files = [ - {file = "gitpython-3.1.46-py3-none-any.whl", hash = "sha256:79812ed143d9d25b6d176a10bb511de0f9c67b1fa641d82097b0ab90398a2058"}, - {file = "gitpython-3.1.46.tar.gz", hash = "sha256:400124c7d0ef4ea03f7310ac2fbf7151e09ff97f2a3288d64a440c584a29c37f"}, + {file = "gitpython-3.1.50-py3-none-any.whl", hash = "sha256:d352abe2908d07355014abdd21ddf798c2a961469239afec4962e9da884858f9"}, + {file = "gitpython-3.1.50.tar.gz", hash = "sha256:80da2d12504d52e1f998772dc5baf6e553f8d2fcfe1fcc226c9d9a2ee3372dcc"}, ] [package.dependencies] gitdb = ">=4.0.1,<5" [package.extras] -doc = ["sphinx (>=7.1.2,<7.2)", "sphinx-autodoc-typehints", "sphinx_rtd_theme"] +doc = ["sphinx (>=7.4.7,<8)", "sphinx-autodoc-typehints", "sphinx_rtd_theme"] test = ["coverage[toml]", "ddt (>=1.1.1,!=1.4.3)", "mock ; python_version < \"3.8\"", "mypy (==1.18.2) ; python_version >= \"3.9\"", "pre-commit", "pytest (>=7.3.1)", "pytest-cov", "pytest-instafail", "pytest-mock", "pytest-sugar", "typing-extensions ; python_version < \"3.11\""] [[package]] @@ -1475,7 +1473,7 @@ files = [ [package.dependencies] attrs = ">=22.2.0" -jsonschema-specifications = ">=2023.03.6" +jsonschema-specifications = ">=2023.3.6" referencing = ">=0.28.4" rpds-py = ">=0.25.0" @@ -3858,10 +3856,10 @@ files = [ ] [package.dependencies] -botocore = ">=1.37.4,<2.0a.0" +botocore = ">=1.37.4,<2.0a0" [package.extras] -crt = ["botocore[crt] (>=1.37.4,<2.0a.0)"] +crt = ["botocore[crt] (>=1.37.4,<2.0a0)"] [[package]] name = "shellingham" @@ -3892,10 +3890,9 @@ files = [ name = "smmap" version = "5.0.3" description = "A pure Python implementation of a sliding window memory map manager" -optional = true +optional = false python-versions = ">=3.7" groups = ["main"] -markers = "extra == \"nextflow\"" files = [ {file = "smmap-5.0.3-py3-none-any.whl", hash = "sha256:c106e05d5a61449cf6ba9a1e650227ecfb141590d2a98412103ff35d89fc7b2f"}, {file = "smmap-5.0.3.tar.gz", hash = "sha256:4d9debb8b99007ae47165abc08670bd74cb74b5227dda7f643eccc4e9eb5642c"}, From cde9b69f22cc057de81bd20e9b6dbd1afcdd5a2e Mon Sep 17 00:00:00 2001 From: Nathan Thorpe Date: Tue, 26 May 2026 22:20:02 -0700 Subject: [PATCH 2/2] Change package optional status to true in poetry.lock --- poetry.lock | 9 ++++++--- 1 file changed, 6 insertions(+), 3 deletions(-) diff --git a/poetry.lock b/poetry.lock index a7a455e..bf2fa9c 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1255,9 +1255,10 @@ tqdm = ["tqdm"] name = "gitdb" version = "4.0.12" description = "Git Object Database" -optional = false +optional = true python-versions = ">=3.7" groups = ["main"] +markers = "extra == \"nextflow\"" files = [ {file = "gitdb-4.0.12-py3-none-any.whl", hash = "sha256:67073e15955400952c6565cc3e707c554a4eea2e428946f7a4c162fab9bd9bcf"}, {file = "gitdb-4.0.12.tar.gz", hash = "sha256:5ef71f855d191a3326fcfbc0d5da835f26b13fbcba60c32c21091c349ffdb571"}, @@ -1270,9 +1271,10 @@ smmap = ">=3.0.1,<6" name = "gitpython" version = "3.1.50" description = "GitPython is a Python library used to interact with Git repositories" -optional = false +optional = true python-versions = ">=3.7" groups = ["main"] +markers = "extra == \"nextflow\"" files = [ {file = "gitpython-3.1.50-py3-none-any.whl", hash = "sha256:d352abe2908d07355014abdd21ddf798c2a961469239afec4962e9da884858f9"}, {file = "gitpython-3.1.50.tar.gz", hash = "sha256:80da2d12504d52e1f998772dc5baf6e553f8d2fcfe1fcc226c9d9a2ee3372dcc"}, @@ -3890,9 +3892,10 @@ files = [ name = "smmap" version = "5.0.3" description = "A pure Python implementation of a sliding window memory map manager" -optional = false +optional = true python-versions = ">=3.7" groups = ["main"] +markers = "extra == \"nextflow\"" files = [ {file = "smmap-5.0.3-py3-none-any.whl", hash = "sha256:c106e05d5a61449cf6ba9a1e650227ecfb141590d2a98412103ff35d89fc7b2f"}, {file = "smmap-5.0.3.tar.gz", hash = "sha256:4d9debb8b99007ae47165abc08670bd74cb74b5227dda7f643eccc4e9eb5642c"},