From 304fedf07a448c721b7099566a679bd20d440ac5 Mon Sep 17 00:00:00 2001 From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com> Date: Thu, 5 Feb 2026 13:58:46 +0000 Subject: [PATCH 1/3] Bump numpy from 2.3.1 to 2.4.2 in /test_package/numpy Bumps [numpy](https://github.com/numpy/numpy) from 2.3.1 to 2.4.2. - [Release notes](https://github.com/numpy/numpy/releases) - [Changelog](https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst) - [Commits](https://github.com/numpy/numpy/compare/v2.3.1...v2.4.2) --- updated-dependencies: - dependency-name: numpy dependency-version: 2.4.2 dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] --- test_package/numpy/requirements.txt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/test_package/numpy/requirements.txt b/test_package/numpy/requirements.txt index 05a4f2a..4fd157d 100644 --- a/test_package/numpy/requirements.txt +++ b/test_package/numpy/requirements.txt @@ -1,5 +1,5 @@ hypothesis==6.136.2 -numpy==2.3.1 +numpy==2.4.2 pytest-xdist==3.8.0 pytest==8.4.1 typing-extensions==4.14.1 From 789092e8d42a1872396acecbcf1b71de855a3d59 Mon Sep 17 00:00:00 2001 From: alessiamarcolini Date: Thu, 5 Feb 2026 15:37:55 +0100 Subject: [PATCH 2/3] ci: Give write permissions to github-bot to push compiled requirements --- .github/workflows/update_env.yml | 2 ++ 1 file changed, 2 insertions(+) diff --git a/.github/workflows/update_env.yml b/.github/workflows/update_env.yml index 40d8027..4ca5ca8 100644 --- a/.github/workflows/update_env.yml +++ b/.github/workflows/update_env.yml @@ -34,6 +34,8 @@ jobs: commit: needs: compile runs-on: ubuntu-latest + permissions: + contents: write steps: - uses: actions/checkout@v4 - uses: actions/download-artifact@v4 From fee7ccb546c672f0a4daffd86b38c032645a1b55 Mon Sep 17 00:00:00 2001 From: update-env Date: Thu, 5 Feb 2026 14:40:32 +0000 Subject: [PATCH 3/3] Compile new test_package environments --- test_package/nbconvert/env/darwin.txt | 38 +++--- test_package/nbconvert/env/linux.txt | 38 +++--- test_package/nbconvert/env/win32.txt | 42 +++--- test_package/numpy/env/darwin.txt | 10 +- test_package/numpy/env/linux.txt | 10 +- test_package/numpy/env/win32.txt | 20 +-- test_package/pylake/env/darwin.txt | 171 ++++++++++++------------- test_package/pylake/env/linux.txt | 171 ++++++++++++------------- test_package/pylake/env/win32.txt | 177 +++++++++++++------------- 9 files changed, 332 insertions(+), 345 deletions(-) diff --git a/test_package/nbconvert/env/darwin.txt b/test_package/nbconvert/env/darwin.txt index a638deb..d8d3550 100644 --- a/test_package/nbconvert/env/darwin.txt +++ b/test_package/nbconvert/env/darwin.txt @@ -1,24 +1,24 @@ -attrs==25.3.0 +attrs==25.4.0 # via # jsonschema # referencing -beautifulsoup4==4.13.4 +beautifulsoup4==4.14.3 # via nbconvert -bleach[css]==6.2.0 +bleach[css]==6.3.0 # via nbconvert defusedxml==0.7.1 # via nbconvert -fastjsonschema==2.21.1 +fastjsonschema==2.21.2 # via nbformat jinja2==3.1.6 # via nbconvert -jsonschema==4.25.0 +jsonschema==4.26.0 # via nbformat -jsonschema-specifications==2025.4.1 +jsonschema-specifications==2025.9.1 # via jsonschema -jupyter-client==8.6.3 +jupyter-client==8.8.0 # via nbclient -jupyter-core==5.8.1 +jupyter-core==5.9.1 # via # jupyter-client # nbclient @@ -26,13 +26,13 @@ jupyter-core==5.8.1 # nbformat jupyterlab-pygments==0.3.0 # via nbconvert -markupsafe==3.0.2 +markupsafe==3.0.3 # via # jinja2 # nbconvert -mistune==3.1.3 +mistune==3.2.0 # via nbconvert -nbclient==0.10.2 +nbclient==0.10.4 # via nbconvert nbconvert==7.16.6 # via -r test_package/nbconvert/requirements.txt @@ -40,33 +40,33 @@ nbformat==5.10.4 # via # nbclient # nbconvert -packaging==25.0 +packaging==26.0 # via nbconvert pandocfilters==1.5.1 # via nbconvert -platformdirs==4.3.8 +platformdirs==4.5.1 # via jupyter-core pygments==2.19.2 # via nbconvert python-dateutil==2.9.0.post0 # via jupyter-client -pyzmq==27.0.0 +pyzmq==27.1.0 # via jupyter-client -referencing==0.36.2 +referencing==0.37.0 # via # jsonschema # jsonschema-specifications -rpds-py==0.26.0 +rpds-py==0.30.0 # via # jsonschema # referencing six==1.17.0 # via python-dateutil -soupsieve==2.7 +soupsieve==2.8.3 # via beautifulsoup4 tinycss2==1.4.0 # via bleach -tornado==6.5.1 +tornado==6.5.4 # via jupyter-client traitlets==5.14.3 # via @@ -75,7 +75,7 @@ traitlets==5.14.3 # nbclient # nbconvert # nbformat -typing-extensions==4.14.1 +typing-extensions==4.15.0 # via # beautifulsoup4 # referencing diff --git a/test_package/nbconvert/env/linux.txt b/test_package/nbconvert/env/linux.txt index a638deb..d8d3550 100644 --- a/test_package/nbconvert/env/linux.txt +++ b/test_package/nbconvert/env/linux.txt @@ -1,24 +1,24 @@ -attrs==25.3.0 +attrs==25.4.0 # via # jsonschema # referencing -beautifulsoup4==4.13.4 +beautifulsoup4==4.14.3 # via nbconvert -bleach[css]==6.2.0 +bleach[css]==6.3.0 # via nbconvert defusedxml==0.7.1 # via nbconvert -fastjsonschema==2.21.1 +fastjsonschema==2.21.2 # via nbformat jinja2==3.1.6 # via nbconvert -jsonschema==4.25.0 +jsonschema==4.26.0 # via nbformat -jsonschema-specifications==2025.4.1 +jsonschema-specifications==2025.9.1 # via jsonschema -jupyter-client==8.6.3 +jupyter-client==8.8.0 # via nbclient -jupyter-core==5.8.1 +jupyter-core==5.9.1 # via # jupyter-client # nbclient @@ -26,13 +26,13 @@ jupyter-core==5.8.1 # nbformat jupyterlab-pygments==0.3.0 # via nbconvert -markupsafe==3.0.2 +markupsafe==3.0.3 # via # jinja2 # nbconvert -mistune==3.1.3 +mistune==3.2.0 # via nbconvert -nbclient==0.10.2 +nbclient==0.10.4 # via nbconvert nbconvert==7.16.6 # via -r test_package/nbconvert/requirements.txt @@ -40,33 +40,33 @@ nbformat==5.10.4 # via # nbclient # nbconvert -packaging==25.0 +packaging==26.0 # via nbconvert pandocfilters==1.5.1 # via nbconvert -platformdirs==4.3.8 +platformdirs==4.5.1 # via jupyter-core pygments==2.19.2 # via nbconvert python-dateutil==2.9.0.post0 # via jupyter-client -pyzmq==27.0.0 +pyzmq==27.1.0 # via jupyter-client -referencing==0.36.2 +referencing==0.37.0 # via # jsonschema # jsonschema-specifications -rpds-py==0.26.0 +rpds-py==0.30.0 # via # jsonschema # referencing six==1.17.0 # via python-dateutil -soupsieve==2.7 +soupsieve==2.8.3 # via beautifulsoup4 tinycss2==1.4.0 # via bleach -tornado==6.5.1 +tornado==6.5.4 # via jupyter-client traitlets==5.14.3 # via @@ -75,7 +75,7 @@ traitlets==5.14.3 # nbclient # nbconvert # nbformat -typing-extensions==4.14.1 +typing-extensions==4.15.0 # via # beautifulsoup4 # referencing diff --git a/test_package/nbconvert/env/win32.txt b/test_package/nbconvert/env/win32.txt index 14abe46..3de8542 100644 --- a/test_package/nbconvert/env/win32.txt +++ b/test_package/nbconvert/env/win32.txt @@ -1,24 +1,24 @@ -attrs==25.3.0 +attrs==25.4.0 # via # jsonschema # referencing -beautifulsoup4==4.13.4 +beautifulsoup4==4.14.3 # via nbconvert -bleach[css]==6.2.0 +bleach[css]==6.3.0 # via nbconvert defusedxml==0.7.1 # via nbconvert -fastjsonschema==2.21.1 +fastjsonschema==2.21.2 # via nbformat jinja2==3.1.6 # via nbconvert -jsonschema==4.25.0 +jsonschema==4.26.0 # via nbformat -jsonschema-specifications==2025.4.1 +jsonschema-specifications==2025.9.1 # via jsonschema -jupyter-client==8.6.3 +jupyter-client==8.8.0 # via nbclient -jupyter-core==5.8.1 +jupyter-core==5.9.1 # via # jupyter-client # nbclient @@ -26,49 +26,47 @@ jupyter-core==5.8.1 # nbformat jupyterlab-pygments==0.3.0 # via nbconvert -markupsafe==3.0.2 +markupsafe==3.0.3 # via # jinja2 # nbconvert -mistune==3.1.3 +mistune==3.2.0 # via nbconvert -nbclient==0.10.2 +nbclient==0.10.4 # via nbconvert nbconvert==7.16.6 - # via -r test_package\nbconvert\requirements.txt + # via -r test_package/nbconvert/requirements.txt nbformat==5.10.4 # via # nbclient # nbconvert -packaging==25.0 +packaging==26.0 # via nbconvert pandocfilters==1.5.1 # via nbconvert -platformdirs==4.3.8 +platformdirs==4.5.1 # via jupyter-core pygments==2.19.2 # via nbconvert python-dateutil==2.9.0.post0 # via jupyter-client -pywin32==311 - # via jupyter-core -pyzmq==27.0.0 +pyzmq==27.1.0 # via jupyter-client -referencing==0.36.2 +referencing==0.37.0 # via # jsonschema # jsonschema-specifications -rpds-py==0.26.0 +rpds-py==0.30.0 # via # jsonschema # referencing six==1.17.0 # via python-dateutil -soupsieve==2.7 +soupsieve==2.8.3 # via beautifulsoup4 tinycss2==1.4.0 # via bleach -tornado==6.5.1 +tornado==6.5.4 # via jupyter-client traitlets==5.14.3 # via @@ -77,7 +75,7 @@ traitlets==5.14.3 # nbclient # nbconvert # nbformat -typing-extensions==4.14.1 +typing-extensions==4.15.0 # via # beautifulsoup4 # referencing diff --git a/test_package/numpy/env/darwin.txt b/test_package/numpy/env/darwin.txt index 94f239b..b81e4fb 100644 --- a/test_package/numpy/env/darwin.txt +++ b/test_package/numpy/env/darwin.txt @@ -1,14 +1,14 @@ -attrs==25.3.0 +attrs==25.4.0 # via hypothesis -execnet==2.1.1 +execnet==2.1.2 # via pytest-xdist hypothesis==6.136.2 # via -r test_package/numpy/requirements.txt -iniconfig==2.1.0 +iniconfig==2.3.0 # via pytest -numpy==2.3.1 +numpy==2.4.2 # via -r test_package/numpy/requirements.txt -packaging==25.0 +packaging==26.0 # via pytest pluggy==1.6.0 # via pytest diff --git a/test_package/numpy/env/linux.txt b/test_package/numpy/env/linux.txt index 94f239b..b81e4fb 100644 --- a/test_package/numpy/env/linux.txt +++ b/test_package/numpy/env/linux.txt @@ -1,14 +1,14 @@ -attrs==25.3.0 +attrs==25.4.0 # via hypothesis -execnet==2.1.1 +execnet==2.1.2 # via pytest-xdist hypothesis==6.136.2 # via -r test_package/numpy/requirements.txt -iniconfig==2.1.0 +iniconfig==2.3.0 # via pytest -numpy==2.3.1 +numpy==2.4.2 # via -r test_package/numpy/requirements.txt -packaging==25.0 +packaging==26.0 # via pytest pluggy==1.6.0 # via pytest diff --git a/test_package/numpy/env/win32.txt b/test_package/numpy/env/win32.txt index a36564e..b7b7abb 100644 --- a/test_package/numpy/env/win32.txt +++ b/test_package/numpy/env/win32.txt @@ -1,16 +1,16 @@ -attrs==25.3.0 +attrs==25.4.0 # via hypothesis colorama==0.4.6 # via pytest -execnet==2.1.1 +execnet==2.1.2 # via pytest-xdist hypothesis==6.136.2 - # via -r test_package\numpy\requirements.txt -iniconfig==2.1.0 + # via -r test_package/numpy/requirements.txt +iniconfig==2.3.0 # via pytest -numpy==2.3.1 - # via -r test_package\numpy\requirements.txt -packaging==25.0 +numpy==2.4.2 + # via -r test_package/numpy/requirements.txt +packaging==26.0 # via pytest pluggy==1.6.0 # via pytest @@ -18,11 +18,11 @@ pygments==2.19.2 # via pytest pytest==8.4.1 # via - # -r test_package\numpy\requirements.txt + # -r test_package/numpy/requirements.txt # pytest-xdist pytest-xdist==3.8.0 - # via -r test_package\numpy\requirements.txt + # via -r test_package/numpy/requirements.txt sortedcontainers==2.4.0 # via hypothesis typing-extensions==4.14.1 - # via -r test_package\numpy\requirements.txt + # via -r test_package/numpy/requirements.txt diff --git a/test_package/pylake/env/darwin.txt b/test_package/pylake/env/darwin.txt index 5d3667f..4697102 100644 --- a/test_package/pylake/env/darwin.txt +++ b/test_package/pylake/env/darwin.txt @@ -1,4 +1,4 @@ -anyio==4.9.0 +anyio==4.12.1 # via # httpx # jupyter-server @@ -6,89 +6,89 @@ appnope==0.1.4 # via ipykernel argon2-cffi==25.1.0 # via jupyter-server -argon2-cffi-bindings==21.2.0 +argon2-cffi-bindings==25.1.0 # via argon2-cffi -arrow==1.3.0 +arrow==1.4.0 # via isoduration -asttokens==3.0.0 +asttokens==3.0.1 # via stack-data -async-lru==2.0.5 +async-lru==2.1.0 # via jupyterlab -attrs==25.3.0 +attrs==25.4.0 # via # jsonschema # referencing -babel==2.17.0 +babel==2.18.0 # via jupyterlab-server -beautifulsoup4==4.13.4 +beautifulsoup4==4.14.3 # via nbconvert -bleach[css]==6.2.0 +bleach[css]==6.3.0 # via nbconvert -cachetools==6.1.0 +cachetools==7.0.0 # via lumicks-pylake -certifi==2025.7.14 +certifi==2026.1.4 # via # httpcore # httpx # requests -cffi==1.17.1 +cffi==2.0.0 # via argon2-cffi-bindings -charset-normalizer==3.4.2 +charset-normalizer==3.4.4 # via requests -comm==0.2.2 +comm==0.2.3 # via # ipykernel # ipywidgets -contourpy==1.3.2 +contourpy==1.3.3 # via matplotlib cycler==0.12.1 # via matplotlib -debugpy==1.8.15 +debugpy==1.8.20 # via ipykernel decorator==5.2.1 # via ipython defusedxml==0.7.1 # via nbconvert -deprecated==1.2.18 +deprecated==1.3.1 # via lumicks-pylake -executing==2.2.0 +executing==2.2.1 # via stack-data -fastjsonschema==2.21.1 +fastjsonschema==2.21.2 # via nbformat -fonttools==4.59.0 +fonttools==4.61.1 # via matplotlib fqdn==1.5.1 # via jsonschema h11==0.16.0 # via httpcore -h5py==3.14.0 +h5py==3.15.1 # via lumicks-pylake httpcore==1.0.9 # via httpx httpx==0.28.1 # via jupyterlab -idna==3.10 +idna==3.11 # via # anyio # httpx # jsonschema # requests -imageio==2.37.0 +imageio==2.37.2 # via scikit-image -iniconfig==2.1.0 +iniconfig==2.3.0 # via pytest -ipykernel==6.30.0 +ipykernel==7.1.0 # via jupyterlab -ipympl==0.9.7 +ipympl==0.10.0 # via lumicks-pylake -ipython==9.4.0 +ipython==9.10.0 # via # ipykernel # ipympl # ipywidgets ipython-pygments-lexers==1.1.1 # via ipython -ipywidgets==8.1.7 +ipywidgets==8.1.8 # via # ipympl # lumicks-pylake @@ -102,26 +102,26 @@ jinja2==3.1.6 # jupyterlab # jupyterlab-server # nbconvert -joblib==1.5.1 +joblib==1.5.3 # via scikit-learn -json5==0.12.0 +json5==0.13.0 # via jupyterlab-server jsonpointer==3.0.0 # via jsonschema -jsonschema[format-nongpl]==4.25.0 +jsonschema[format-nongpl]==4.26.0 # via # jupyter-events # jupyterlab-server # nbformat -jsonschema-specifications==2025.4.1 +jsonschema-specifications==2025.9.1 # via jsonschema -jupyter-client==8.6.3 +jupyter-client==8.8.0 # via # ipykernel # jupyter-server # lumicks-pylake # nbclient -jupyter-core==5.8.1 +jupyter-core==5.9.1 # via # ipykernel # jupyter-client @@ -132,30 +132,30 @@ jupyter-core==5.8.1 # nbformat jupyter-events==0.12.0 # via jupyter-server -jupyter-lsp==2.2.6 +jupyter-lsp==2.3.0 # via jupyterlab -jupyter-server==2.16.0 +jupyter-server==2.17.0 # via # jupyter-lsp # jupyterlab # jupyterlab-server # notebook # notebook-shim -jupyter-server-terminals==0.5.3 +jupyter-server-terminals==0.5.4 # via jupyter-server -jupyterlab==4.4.5 +jupyterlab==4.5.3 # via notebook jupyterlab-pygments==0.3.0 # via nbconvert -jupyterlab-server==2.27.3 +jupyterlab-server==2.28.0 # via # jupyterlab # notebook -jupyterlab-widgets==3.0.15 +jupyterlab-widgets==3.0.16 # via ipywidgets -kiwisolver==1.4.8 +kiwisolver==1.4.9 # via matplotlib -lark==1.2.2 +lark==1.3.1 # via rfc3987-syntax lazy-loader==0.4 # via scikit-image @@ -163,23 +163,23 @@ lumicks-pylake[notebook] @ git+https://github.com/lumicks/pylake@a149f57d6a97ad0 # via # -r test_package/pylake/requirements.txt # lumicks-pylake -markupsafe==3.0.2 +markupsafe==3.0.3 # via # jinja2 # nbconvert -matplotlib==3.10.3 +matplotlib==3.10.8 # via # ipympl # lumicks-pylake -matplotlib-inline==0.1.7 +matplotlib-inline==0.2.1 # via # ipykernel # ipython -mistune==3.1.3 +mistune==3.2.0 # via nbconvert -nbclient==0.10.2 +nbclient==0.10.4 # via nbconvert -nbconvert==7.16.6 +nbconvert==7.17.0 # via jupyter-server nbformat==5.10.4 # via @@ -188,15 +188,15 @@ nbformat==5.10.4 # nbconvert nest-asyncio==1.6.0 # via ipykernel -networkx==3.5 +networkx==3.6.1 # via scikit-image -notebook==7.4.4 +notebook==7.5.3 # via lumicks-pylake notebook-shim==0.2.4 # via # jupyterlab # notebook -numpy==2.3.1 +numpy==2.4.2 # via # contourpy # h5py @@ -210,7 +210,7 @@ numpy==2.3.1 # tifffile overrides==7.7.0 # via jupyter-server -packaging==25.0 +packaging==26.0 # via # ipykernel # jupyter-events @@ -224,25 +224,25 @@ packaging==25.0 # scikit-image pandocfilters==1.5.1 # via nbconvert -parso==0.8.4 +parso==0.8.5 # via jedi pexpect==4.9.0 # via ipython -pillow==11.3.0 +pillow==12.1.0 # via # imageio # ipympl # matplotlib # scikit-image -platformdirs==4.3.8 +platformdirs==4.5.1 # via jupyter-core pluggy==1.6.0 # via pytest -prometheus-client==0.22.1 +prometheus-client==0.24.1 # via jupyter-server -prompt-toolkit==3.0.51 +prompt-toolkit==3.0.52 # via ipython -psutil==7.0.0 +psutil==7.2.2 # via ipykernel ptyprocess==0.7.0 # via @@ -250,7 +250,7 @@ ptyprocess==0.7.0 # terminado pure-eval==0.2.3 # via stack-data -pycparser==2.22 +pycparser==3.0 # via cffi pygments==2.19.2 # via @@ -258,30 +258,30 @@ pygments==2.19.2 # ipython-pygments-lexers # nbconvert # pytest -pyparsing==3.2.3 +pyparsing==3.3.2 # via matplotlib -pytest==8.4.1 +pytest==9.0.2 # via lumicks-pylake python-dateutil==2.9.0.post0 # via # arrow # jupyter-client # matplotlib -python-json-logger==3.3.0 +python-json-logger==4.0.0 # via jupyter-events -pyyaml==6.0.2 +pyyaml==6.0.3 # via jupyter-events -pyzmq==27.0.0 +pyzmq==27.1.0 # via # ipykernel # jupyter-client # jupyter-server -referencing==0.36.2 +referencing==0.37.0 # via # jsonschema # jsonschema-specifications # jupyter-events -requests==2.32.4 +requests==2.32.5 # via jupyterlab-server rfc3339-validator==0.1.4 # via @@ -293,28 +293,26 @@ rfc3986-validator==0.1.1 # jupyter-events rfc3987-syntax==1.1.0 # via jsonschema -rpds-py==0.26.0 +rpds-py==0.30.0 # via # jsonschema # referencing -scikit-image==0.25.2 +scikit-image==0.26.0 # via lumicks-pylake -scikit-learn==1.7.1 +scikit-learn==1.8.0 # via lumicks-pylake -scipy==1.16.0 +scipy==1.17.0 # via # lumicks-pylake # scikit-image # scikit-learn -send2trash==1.8.3 +send2trash==2.1.0 # via jupyter-server six==1.17.0 # via # python-dateutil # rfc3339-validator -sniffio==1.3.1 - # via anyio -soupsieve==2.7 +soupsieve==2.8.3 # via beautifulsoup4 stack-data==0.6.3 # via ipython @@ -326,13 +324,13 @@ terminado==0.18.1 # jupyter-server-terminals threadpoolctl==3.6.0 # via scikit-learn -tifffile==2025.6.11 +tifffile==2026.1.28 # via # lumicks-pylake # scikit-image tinycss2==1.4.0 # via bleach -tornado==6.5.1 +tornado==6.5.4 # via # ipykernel # jupyter-client @@ -340,11 +338,10 @@ tornado==6.5.1 # jupyterlab # notebook # terminado -tqdm==4.67.1 +tqdm==4.67.3 # via lumicks-pylake traitlets==5.14.3 # via - # comm # ipykernel # ipympl # ipython @@ -358,31 +355,31 @@ traitlets==5.14.3 # nbclient # nbconvert # nbformat -types-python-dateutil==2.9.0.20250708 - # via arrow -typing-extensions==4.14.1 +typing-extensions==4.15.0 # via # anyio # beautifulsoup4 # ipython # referencing +tzdata==2025.3 + # via arrow uri-template==1.3.0 # via jsonschema -urllib3==2.5.0 +urllib3==2.6.3 # via requests -wcwidth==0.2.13 +wcwidth==0.5.3 # via prompt-toolkit -webcolors==24.11.1 +webcolors==25.10.0 # via jsonschema webencodings==0.5.1 # via # bleach # tinycss2 -websocket-client==1.8.0 +websocket-client==1.9.0 # via jupyter-server -widgetsnbextension==4.0.14 +widgetsnbextension==4.0.15 # via ipywidgets -wrapt==1.17.2 +wrapt==2.1.1 # via deprecated # The following packages are considered to be unsafe in a requirements file: diff --git a/test_package/pylake/env/linux.txt b/test_package/pylake/env/linux.txt index e679a84..0960666 100644 --- a/test_package/pylake/env/linux.txt +++ b/test_package/pylake/env/linux.txt @@ -1,92 +1,92 @@ -anyio==4.9.0 +anyio==4.12.1 # via # httpx # jupyter-server argon2-cffi==25.1.0 # via jupyter-server -argon2-cffi-bindings==21.2.0 +argon2-cffi-bindings==25.1.0 # via argon2-cffi -arrow==1.3.0 +arrow==1.4.0 # via isoduration -asttokens==3.0.0 +asttokens==3.0.1 # via stack-data -async-lru==2.0.5 +async-lru==2.1.0 # via jupyterlab -attrs==25.3.0 +attrs==25.4.0 # via # jsonschema # referencing -babel==2.17.0 +babel==2.18.0 # via jupyterlab-server -beautifulsoup4==4.13.4 +beautifulsoup4==4.14.3 # via nbconvert -bleach[css]==6.2.0 +bleach[css]==6.3.0 # via nbconvert -cachetools==6.1.0 +cachetools==7.0.0 # via lumicks-pylake -certifi==2025.7.14 +certifi==2026.1.4 # via # httpcore # httpx # requests -cffi==1.17.1 +cffi==2.0.0 # via argon2-cffi-bindings -charset-normalizer==3.4.2 +charset-normalizer==3.4.4 # via requests -comm==0.2.2 +comm==0.2.3 # via # ipykernel # ipywidgets -contourpy==1.3.2 +contourpy==1.3.3 # via matplotlib cycler==0.12.1 # via matplotlib -debugpy==1.8.15 +debugpy==1.8.20 # via ipykernel decorator==5.2.1 # via ipython defusedxml==0.7.1 # via nbconvert -deprecated==1.2.18 +deprecated==1.3.1 # via lumicks-pylake -executing==2.2.0 +executing==2.2.1 # via stack-data -fastjsonschema==2.21.1 +fastjsonschema==2.21.2 # via nbformat -fonttools==4.59.0 +fonttools==4.61.1 # via matplotlib fqdn==1.5.1 # via jsonschema h11==0.16.0 # via httpcore -h5py==3.14.0 +h5py==3.15.1 # via lumicks-pylake httpcore==1.0.9 # via httpx httpx==0.28.1 # via jupyterlab -idna==3.10 +idna==3.11 # via # anyio # httpx # jsonschema # requests -imageio==2.37.0 +imageio==2.37.2 # via scikit-image -iniconfig==2.1.0 +iniconfig==2.3.0 # via pytest -ipykernel==6.30.0 +ipykernel==7.1.0 # via jupyterlab -ipympl==0.9.7 +ipympl==0.10.0 # via lumicks-pylake -ipython==9.4.0 +ipython==9.10.0 # via # ipykernel # ipympl # ipywidgets ipython-pygments-lexers==1.1.1 # via ipython -ipywidgets==8.1.7 +ipywidgets==8.1.8 # via # ipympl # lumicks-pylake @@ -100,26 +100,26 @@ jinja2==3.1.6 # jupyterlab # jupyterlab-server # nbconvert -joblib==1.5.1 +joblib==1.5.3 # via scikit-learn -json5==0.12.0 +json5==0.13.0 # via jupyterlab-server jsonpointer==3.0.0 # via jsonschema -jsonschema[format-nongpl]==4.25.0 +jsonschema[format-nongpl]==4.26.0 # via # jupyter-events # jupyterlab-server # nbformat -jsonschema-specifications==2025.4.1 +jsonschema-specifications==2025.9.1 # via jsonschema -jupyter-client==8.6.3 +jupyter-client==8.8.0 # via # ipykernel # jupyter-server # lumicks-pylake # nbclient -jupyter-core==5.8.1 +jupyter-core==5.9.1 # via # ipykernel # jupyter-client @@ -130,30 +130,30 @@ jupyter-core==5.8.1 # nbformat jupyter-events==0.12.0 # via jupyter-server -jupyter-lsp==2.2.6 +jupyter-lsp==2.3.0 # via jupyterlab -jupyter-server==2.16.0 +jupyter-server==2.17.0 # via # jupyter-lsp # jupyterlab # jupyterlab-server # notebook # notebook-shim -jupyter-server-terminals==0.5.3 +jupyter-server-terminals==0.5.4 # via jupyter-server -jupyterlab==4.4.5 +jupyterlab==4.5.3 # via notebook jupyterlab-pygments==0.3.0 # via nbconvert -jupyterlab-server==2.27.3 +jupyterlab-server==2.28.0 # via # jupyterlab # notebook -jupyterlab-widgets==3.0.15 +jupyterlab-widgets==3.0.16 # via ipywidgets -kiwisolver==1.4.8 +kiwisolver==1.4.9 # via matplotlib -lark==1.2.2 +lark==1.3.1 # via rfc3987-syntax lazy-loader==0.4 # via scikit-image @@ -161,23 +161,23 @@ lumicks-pylake[notebook] @ git+https://github.com/lumicks/pylake@a149f57d6a97ad0 # via # -r test_package/pylake/requirements.txt # lumicks-pylake -markupsafe==3.0.2 +markupsafe==3.0.3 # via # jinja2 # nbconvert -matplotlib==3.10.3 +matplotlib==3.10.8 # via # ipympl # lumicks-pylake -matplotlib-inline==0.1.7 +matplotlib-inline==0.2.1 # via # ipykernel # ipython -mistune==3.1.3 +mistune==3.2.0 # via nbconvert -nbclient==0.10.2 +nbclient==0.10.4 # via nbconvert -nbconvert==7.16.6 +nbconvert==7.17.0 # via jupyter-server nbformat==5.10.4 # via @@ -186,15 +186,15 @@ nbformat==5.10.4 # nbconvert nest-asyncio==1.6.0 # via ipykernel -networkx==3.5 +networkx==3.6.1 # via scikit-image -notebook==7.4.4 +notebook==7.5.3 # via lumicks-pylake notebook-shim==0.2.4 # via # jupyterlab # notebook -numpy==2.3.1 +numpy==2.4.2 # via # contourpy # h5py @@ -208,7 +208,7 @@ numpy==2.3.1 # tifffile overrides==7.7.0 # via jupyter-server -packaging==25.0 +packaging==26.0 # via # ipykernel # jupyter-events @@ -222,25 +222,25 @@ packaging==25.0 # scikit-image pandocfilters==1.5.1 # via nbconvert -parso==0.8.4 +parso==0.8.5 # via jedi pexpect==4.9.0 # via ipython -pillow==11.3.0 +pillow==12.1.0 # via # imageio # ipympl # matplotlib # scikit-image -platformdirs==4.3.8 +platformdirs==4.5.1 # via jupyter-core pluggy==1.6.0 # via pytest -prometheus-client==0.22.1 +prometheus-client==0.24.1 # via jupyter-server -prompt-toolkit==3.0.51 +prompt-toolkit==3.0.52 # via ipython -psutil==7.0.0 +psutil==7.2.2 # via ipykernel ptyprocess==0.7.0 # via @@ -248,7 +248,7 @@ ptyprocess==0.7.0 # terminado pure-eval==0.2.3 # via stack-data -pycparser==2.22 +pycparser==3.0 # via cffi pygments==2.19.2 # via @@ -256,30 +256,30 @@ pygments==2.19.2 # ipython-pygments-lexers # nbconvert # pytest -pyparsing==3.2.3 +pyparsing==3.3.2 # via matplotlib -pytest==8.4.1 +pytest==9.0.2 # via lumicks-pylake python-dateutil==2.9.0.post0 # via # arrow # jupyter-client # matplotlib -python-json-logger==3.3.0 +python-json-logger==4.0.0 # via jupyter-events -pyyaml==6.0.2 +pyyaml==6.0.3 # via jupyter-events -pyzmq==27.0.0 +pyzmq==27.1.0 # via # ipykernel # jupyter-client # jupyter-server -referencing==0.36.2 +referencing==0.37.0 # via # jsonschema # jsonschema-specifications # jupyter-events -requests==2.32.4 +requests==2.32.5 # via jupyterlab-server rfc3339-validator==0.1.4 # via @@ -291,28 +291,26 @@ rfc3986-validator==0.1.1 # jupyter-events rfc3987-syntax==1.1.0 # via jsonschema -rpds-py==0.26.0 +rpds-py==0.30.0 # via # jsonschema # referencing -scikit-image==0.25.2 +scikit-image==0.26.0 # via lumicks-pylake -scikit-learn==1.7.1 +scikit-learn==1.8.0 # via lumicks-pylake -scipy==1.16.0 +scipy==1.17.0 # via # lumicks-pylake # scikit-image # scikit-learn -send2trash==1.8.3 +send2trash==2.1.0 # via jupyter-server six==1.17.0 # via # python-dateutil # rfc3339-validator -sniffio==1.3.1 - # via anyio -soupsieve==2.7 +soupsieve==2.8.3 # via beautifulsoup4 stack-data==0.6.3 # via ipython @@ -324,13 +322,13 @@ terminado==0.18.1 # jupyter-server-terminals threadpoolctl==3.6.0 # via scikit-learn -tifffile==2025.6.11 +tifffile==2026.1.28 # via # lumicks-pylake # scikit-image tinycss2==1.4.0 # via bleach -tornado==6.5.1 +tornado==6.5.4 # via # ipykernel # jupyter-client @@ -338,11 +336,10 @@ tornado==6.5.1 # jupyterlab # notebook # terminado -tqdm==4.67.1 +tqdm==4.67.3 # via lumicks-pylake traitlets==5.14.3 # via - # comm # ipykernel # ipympl # ipython @@ -356,31 +353,31 @@ traitlets==5.14.3 # nbclient # nbconvert # nbformat -types-python-dateutil==2.9.0.20250708 - # via arrow -typing-extensions==4.14.1 +typing-extensions==4.15.0 # via # anyio # beautifulsoup4 # ipython # referencing +tzdata==2025.3 + # via arrow uri-template==1.3.0 # via jsonschema -urllib3==2.5.0 +urllib3==2.6.3 # via requests -wcwidth==0.2.13 +wcwidth==0.5.3 # via prompt-toolkit -webcolors==24.11.1 +webcolors==25.10.0 # via jsonschema webencodings==0.5.1 # via # bleach # tinycss2 -websocket-client==1.8.0 +websocket-client==1.9.0 # via jupyter-server -widgetsnbextension==4.0.14 +widgetsnbextension==4.0.15 # via ipywidgets -wrapt==1.17.2 +wrapt==2.1.1 # via deprecated # The following packages are considered to be unsafe in a requirements file: diff --git a/test_package/pylake/env/win32.txt b/test_package/pylake/env/win32.txt index db73bdf..2ed27f0 100644 --- a/test_package/pylake/env/win32.txt +++ b/test_package/pylake/env/win32.txt @@ -1,97 +1,97 @@ -anyio==4.9.0 +anyio==4.12.1 # via # httpx # jupyter-server argon2-cffi==25.1.0 # via jupyter-server -argon2-cffi-bindings==21.2.0 +argon2-cffi-bindings==25.1.0 # via argon2-cffi -arrow==1.3.0 +arrow==1.4.0 # via isoduration -asttokens==3.0.0 +asttokens==3.0.1 # via stack-data -async-lru==2.0.5 +async-lru==2.1.0 # via jupyterlab -attrs==25.3.0 +attrs==25.4.0 # via # jsonschema # referencing -babel==2.17.0 +babel==2.18.0 # via jupyterlab-server -beautifulsoup4==4.13.4 +beautifulsoup4==4.14.3 # via nbconvert -bleach[css]==6.2.0 +bleach[css]==6.3.0 # via nbconvert -cachetools==6.1.0 +cachetools==7.0.0 # via lumicks-pylake -certifi==2025.7.14 +certifi==2026.1.4 # via # httpcore # httpx # requests -cffi==1.17.1 +cffi==2.0.0 # via argon2-cffi-bindings -charset-normalizer==3.4.2 +charset-normalizer==3.4.4 # via requests colorama==0.4.6 # via # ipython # pytest # tqdm -comm==0.2.2 +comm==0.2.3 # via # ipykernel # ipywidgets -contourpy==1.3.2 +contourpy==1.3.3 # via matplotlib cycler==0.12.1 # via matplotlib -debugpy==1.8.15 +debugpy==1.8.20 # via ipykernel decorator==5.2.1 # via ipython defusedxml==0.7.1 # via nbconvert -deprecated==1.2.18 +deprecated==1.3.1 # via lumicks-pylake -executing==2.2.0 +executing==2.2.1 # via stack-data -fastjsonschema==2.21.1 +fastjsonschema==2.21.2 # via nbformat -fonttools==4.59.0 +fonttools==4.61.1 # via matplotlib fqdn==1.5.1 # via jsonschema h11==0.16.0 # via httpcore -h5py==3.14.0 +h5py==3.15.1 # via lumicks-pylake httpcore==1.0.9 # via httpx httpx==0.28.1 # via jupyterlab -idna==3.10 +idna==3.11 # via # anyio # httpx # jsonschema # requests -imageio==2.37.0 +imageio==2.37.2 # via scikit-image -iniconfig==2.1.0 +iniconfig==2.3.0 # via pytest -ipykernel==6.30.0 +ipykernel==7.1.0 # via jupyterlab -ipympl==0.9.7 +ipympl==0.10.0 # via lumicks-pylake -ipython==9.4.0 +ipython==9.10.0 # via # ipykernel # ipympl # ipywidgets ipython-pygments-lexers==1.1.1 # via ipython -ipywidgets==8.1.7 +ipywidgets==8.1.8 # via # ipympl # lumicks-pylake @@ -105,26 +105,26 @@ jinja2==3.1.6 # jupyterlab # jupyterlab-server # nbconvert -joblib==1.5.1 +joblib==1.5.3 # via scikit-learn -json5==0.12.0 +json5==0.13.0 # via jupyterlab-server jsonpointer==3.0.0 # via jsonschema -jsonschema[format-nongpl]==4.25.0 +jsonschema[format-nongpl]==4.26.0 # via # jupyter-events # jupyterlab-server # nbformat -jsonschema-specifications==2025.4.1 +jsonschema-specifications==2025.9.1 # via jsonschema -jupyter-client==8.6.3 +jupyter-client==8.8.0 # via # ipykernel # jupyter-server # lumicks-pylake # nbclient -jupyter-core==5.8.1 +jupyter-core==5.9.1 # via # ipykernel # jupyter-client @@ -135,54 +135,54 @@ jupyter-core==5.8.1 # nbformat jupyter-events==0.12.0 # via jupyter-server -jupyter-lsp==2.2.6 +jupyter-lsp==2.3.0 # via jupyterlab -jupyter-server==2.16.0 +jupyter-server==2.17.0 # via # jupyter-lsp # jupyterlab # jupyterlab-server # notebook # notebook-shim -jupyter-server-terminals==0.5.3 +jupyter-server-terminals==0.5.4 # via jupyter-server -jupyterlab==4.4.5 +jupyterlab==4.5.3 # via notebook jupyterlab-pygments==0.3.0 # via nbconvert -jupyterlab-server==2.27.3 +jupyterlab-server==2.28.0 # via # jupyterlab # notebook -jupyterlab-widgets==3.0.15 +jupyterlab-widgets==3.0.16 # via ipywidgets -kiwisolver==1.4.8 +kiwisolver==1.4.9 # via matplotlib -lark==1.2.2 +lark==1.3.1 # via rfc3987-syntax lazy-loader==0.4 # via scikit-image lumicks-pylake[notebook] @ git+https://github.com/lumicks/pylake@a149f57d6a97ad0140ad514a71e28aeb9921b857 # via - # -r test_package\pylake\requirements.txt + # -r test_package/pylake/requirements.txt # lumicks-pylake -markupsafe==3.0.2 +markupsafe==3.0.3 # via # jinja2 # nbconvert -matplotlib==3.10.3 +matplotlib==3.10.8 # via # ipympl # lumicks-pylake -matplotlib-inline==0.1.7 +matplotlib-inline==0.2.1 # via # ipykernel # ipython -mistune==3.1.3 +mistune==3.2.0 # via nbconvert -nbclient==0.10.2 +nbclient==0.10.4 # via nbconvert -nbconvert==7.16.6 +nbconvert==7.17.0 # via jupyter-server nbformat==5.10.4 # via @@ -191,15 +191,15 @@ nbformat==5.10.4 # nbconvert nest-asyncio==1.6.0 # via ipykernel -networkx==3.5 +networkx==3.6.1 # via scikit-image -notebook==7.4.4 +notebook==7.5.3 # via lumicks-pylake notebook-shim==0.2.4 # via # jupyterlab # notebook -numpy==2.3.1 +numpy==2.4.2 # via # contourpy # h5py @@ -213,7 +213,7 @@ numpy==2.3.1 # tifffile overrides==7.7.0 # via jupyter-server -packaging==25.0 +packaging==26.0 # via # ipykernel # jupyter-events @@ -227,27 +227,27 @@ packaging==25.0 # scikit-image pandocfilters==1.5.1 # via nbconvert -parso==0.8.4 +parso==0.8.5 # via jedi -pillow==11.3.0 +pillow==12.1.0 # via # imageio # ipympl # matplotlib # scikit-image -platformdirs==4.3.8 +platformdirs==4.5.1 # via jupyter-core pluggy==1.6.0 # via pytest -prometheus-client==0.22.1 +prometheus-client==0.24.1 # via jupyter-server -prompt-toolkit==3.0.51 +prompt-toolkit==3.0.52 # via ipython -psutil==7.0.0 +psutil==7.2.2 # via ipykernel pure-eval==0.2.3 # via stack-data -pycparser==2.22 +pycparser==3.0 # via cffi pygments==2.19.2 # via @@ -255,37 +255,35 @@ pygments==2.19.2 # ipython-pygments-lexers # nbconvert # pytest -pyparsing==3.2.3 +pyparsing==3.3.2 # via matplotlib -pytest==8.4.1 +pytest==9.0.2 # via lumicks-pylake python-dateutil==2.9.0.post0 # via # arrow # jupyter-client # matplotlib -python-json-logger==3.3.0 +python-json-logger==4.0.0 # via jupyter-events -pywin32==311 - # via jupyter-core -pywinpty==2.0.15 +pywinpty==3.0.3 # via # jupyter-server # jupyter-server-terminals # terminado -pyyaml==6.0.2 +pyyaml==6.0.3 # via jupyter-events -pyzmq==27.0.0 +pyzmq==27.1.0 # via # ipykernel # jupyter-client # jupyter-server -referencing==0.36.2 +referencing==0.37.0 # via # jsonschema # jsonschema-specifications # jupyter-events -requests==2.32.4 +requests==2.32.5 # via jupyterlab-server rfc3339-validator==0.1.4 # via @@ -297,28 +295,26 @@ rfc3986-validator==0.1.1 # jupyter-events rfc3987-syntax==1.1.0 # via jsonschema -rpds-py==0.26.0 +rpds-py==0.30.0 # via # jsonschema # referencing -scikit-image==0.25.2 +scikit-image==0.26.0 # via lumicks-pylake -scikit-learn==1.7.1 +scikit-learn==1.8.0 # via lumicks-pylake -scipy==1.16.0 +scipy==1.17.0 # via # lumicks-pylake # scikit-image # scikit-learn -send2trash==1.8.3 +send2trash==2.1.0 # via jupyter-server six==1.17.0 # via # python-dateutil # rfc3339-validator -sniffio==1.3.1 - # via anyio -soupsieve==2.7 +soupsieve==2.8.3 # via beautifulsoup4 stack-data==0.6.3 # via ipython @@ -330,13 +326,13 @@ terminado==0.18.1 # jupyter-server-terminals threadpoolctl==3.6.0 # via scikit-learn -tifffile==2025.6.11 +tifffile==2026.1.28 # via # lumicks-pylake # scikit-image tinycss2==1.4.0 # via bleach -tornado==6.5.1 +tornado==6.5.4 # via # ipykernel # jupyter-client @@ -344,11 +340,10 @@ tornado==6.5.1 # jupyterlab # notebook # terminado -tqdm==4.67.1 +tqdm==4.67.3 # via lumicks-pylake traitlets==5.14.3 # via - # comm # ipykernel # ipympl # ipython @@ -362,31 +357,31 @@ traitlets==5.14.3 # nbclient # nbconvert # nbformat -types-python-dateutil==2.9.0.20250708 - # via arrow -typing-extensions==4.14.1 +typing-extensions==4.15.0 # via # anyio # beautifulsoup4 # ipython # referencing +tzdata==2025.3 + # via arrow uri-template==1.3.0 # via jsonschema -urllib3==2.5.0 +urllib3==2.6.3 # via requests -wcwidth==0.2.13 +wcwidth==0.5.3 # via prompt-toolkit -webcolors==24.11.1 +webcolors==25.10.0 # via jsonschema webencodings==0.5.1 # via # bleach # tinycss2 -websocket-client==1.8.0 +websocket-client==1.9.0 # via jupyter-server -widgetsnbextension==4.0.14 +widgetsnbextension==4.0.15 # via ipywidgets -wrapt==1.17.2 +wrapt==2.1.1 # via deprecated # The following packages are considered to be unsafe in a requirements file: