From b65ebc293eeb5874a50adeee37933d1f92fbea6d Mon Sep 17 00:00:00 2001 From: Chris Markiewicz Date: Mon, 17 Jun 2024 10:55:49 -0400 Subject: [PATCH] MNT: Update PyPI package pins --- requirements.txt | 234 ++++++++++++++++++++--------------------------- 1 file changed, 99 insertions(+), 135 deletions(-) diff --git a/requirements.txt b/requirements.txt index a41ffdd8a..1f94ac073 100644 --- a/requirements.txt +++ b/requirements.txt @@ -1,18 +1,11 @@ -# -# This file is autogenerated by pip-compile with Python 3.10 -# by the following command: -# -# pip-compile --extra=container --strip-extras -# -annexremote==1.6.4 +# This file was autogenerated by uv via the following command: +# uv pip compile --extra=container --strip-extras pyproject.toml -o requirements.txt -P 3.10 +annexremote==1.6.5 # via # datalad # datalad-next # datalad-osf apscheduler==3.10.4 - # via - # fmriprep - # fmriprep (pyproject.toml) arrow==1.3.0 # via codecarbon astor==0.8.1 @@ -21,13 +14,17 @@ attrs==23.2.0 # via # niworkflows # sdcflows -bids-validator==1.14.0 +bids-validator==1.14.6 # via pybids -bokeh==3.3.4 +bokeh==3.4.1 # via tedana -boto==2.49.0 +boto3==1.34.127 # via datalad -certifi==2024.2.2 +botocore==1.34.127 + # via + # boto3 + # s3transfer +certifi==2024.6.2 # via # requests # sentry-sdk @@ -46,27 +43,22 @@ click==8.1.7 # codecarbon # nipype # pybids -codecarbon==2.3.4 - # via - # fmriprep - # fmriprep (pyproject.toml) -contourpy==1.2.0 +codecarbon==2.4.2 +contourpy==1.2.1 # via # bokeh # matplotlib -cryptography==42.0.4 +cryptography==42.0.8 # via secretstorage cycler==0.12.1 # via matplotlib -datalad==0.19.6 +datalad==1.1.0 # via # datalad-next # datalad-osf - # fmriprep (pyproject.toml) -datalad-next==1.2.0 +datalad-next==1.5.0 # via datalad-osf datalad-osf==0.3.0 - # via fmriprep (pyproject.toml) distro==1.9.0 # via datalad docopt==0.6.2 @@ -75,31 +67,24 @@ etelemetry==0.3.1 # via nipype fasteners==0.19 # via datalad -filelock==3.13.1 +filelock==3.15.1 # via nipype -fonttools==4.48.1 +fonttools==4.53.0 # via matplotlib formulaic==0.5.2 # via pybids greenlet==3.0.3 # via sqlalchemy -h5py==3.10.0 +h5py==3.11.0 # via nitransforms humanize==4.9.0 # via # datalad # datalad-next -idna==3.6 +idna==3.7 # via requests -imageio==2.33.1 +imageio==2.34.1 # via scikit-image -importlib-metadata==7.0.1 - # via keyring -importlib-resources==6.1.1 - # via - # nireports - # niworkflows - # templateflow indexed-gzip==1.8.7 # via smriprep interface-meta==1.3.0 @@ -108,50 +93,60 @@ iso8601==2.1.0 # via datalad isodate==0.6.1 # via rdflib -jaraco-classes==3.3.0 +jaraco-classes==3.4.0 # via # keyring # keyrings-alt +jaraco-context==5.3.0 + # via + # keyring + # keyrings-alt +jaraco-functools==4.0.1 + # via keyring jeepney==0.8.0 # via # keyring # secretstorage -jinja2==3.1.3 +jinja2==3.1.4 # via # bokeh # niworkflows -joblib==1.3.2 +jmespath==1.0.1 + # via + # boto3 + # botocore +joblib==1.4.2 # via # nilearn # scikit-learn -keyring==24.3.0 +keyring==25.2.1 # via datalad -keyrings-alt==5.0.0 +keyrings-alt==5.0.1 # via datalad kiwisolver==1.4.5 # via matplotlib -lazy-loader==0.3 +latexcodec==3.0.0 + # via pybtex +lazy-loader==0.4 # via scikit-image lockfile==0.12.2 # via smriprep looseversion==1.3.0 # via # datalad - # fmriprep - # fmriprep (pyproject.toml) # nipype # niworkflows # smriprep -lxml==5.1.0 +lxml==5.2.2 # via # nilearn # prov # svgutils -mapca==0.0.4 +mapca==0.0.5 # via tedana markupsafe==2.1.5 # via jinja2 -matplotlib==3.8.2 +matplotlib==3.8.4 # via # nireports # nitime @@ -160,24 +155,21 @@ matplotlib==3.8.2 # smriprep # tedana migas==0.4.0 - # via - # fmriprep - # sdcflows -more-itertools==10.2.0 + # via sdcflows +more-itertools==10.3.0 # via # datalad-next # jaraco-classes -msgpack==1.0.7 + # jaraco-functools +msgpack==1.0.8 # via datalad -networkx==3.2.1 +networkx==3.3 # via # nipype # prov # scikit-image -nibabel==5.2.0 +nibabel==5.2.1 # via - # fmriprep - # fmriprep (pyproject.toml) # mapca # nilearn # nipype @@ -188,7 +180,7 @@ nibabel==5.2.0 # sdcflows # smriprep # tedana -nilearn==0.10.3 +nilearn==0.10.4 # via # mapca # nireports @@ -196,30 +188,18 @@ nilearn==0.10.3 # tedana nipype==1.8.6 # via - # fmriprep - # fmriprep (pyproject.toml) # nireports # niworkflows # sdcflows # smriprep -nireports==23.2.0 - # via - # fmriprep - # fmriprep (pyproject.toml) +nireports==23.2.1 nitime==0.10.2 - # via - # fmriprep - # fmriprep (pyproject.toml) nitransforms==23.0.1 # via - # fmriprep - # fmriprep (pyproject.toml) # niworkflows # sdcflows -niworkflows==1.10.0 +niworkflows==1.10.2 # via - # fmriprep - # fmriprep (pyproject.toml) # sdcflows # smriprep num2words==0.5.13 @@ -228,8 +208,6 @@ numpy==1.26.4 # via # bokeh # contourpy - # fmriprep - # fmriprep (pyproject.toml) # formulaic # h5py # imageio @@ -252,15 +230,15 @@ numpy==1.26.4 # smriprep # tedana # tifffile + # transforms3d osfclient==0.0.5 # via datalad-osf -packaging==23.2 +packaging==24.1 # via # bokeh # datalad # etelemetry - # fmriprep - # fmriprep (pyproject.toml) + # lazy-loader # matplotlib # nibabel # nilearn @@ -268,12 +246,10 @@ packaging==23.2 # niworkflows # scikit-image # smriprep -pandas==2.2.0 +pandas==2.2.2 # via # bokeh # codecarbon - # fmriprep - # fmriprep (pyproject.toml) # formulaic # nilearn # nireports @@ -281,55 +257,55 @@ pandas==2.2.0 # pybids # seaborn # tedana -patool==2.1.1 +patool==2.2.0 # via datalad -pillow==10.2.0 +pillow==10.3.0 # via # bokeh # imageio # matplotlib # scikit-image -platformdirs==4.2.0 +platformdirs==4.2.2 # via datalad -prometheus-client==0.19.0 +prometheus-client==0.20.0 # via codecarbon -prov==2.0.0 +prov==2.0.1 # via nipype psutil==5.9.8 - # via - # codecarbon - # fmriprep - # fmriprep (pyproject.toml) + # via codecarbon py-cpuinfo==9.0.0 # via codecarbon -pybids==0.16.4 +pybids==0.16.5 # via - # fmriprep - # fmriprep (pyproject.toml) # nireports # niworkflows # sdcflows # smriprep # templateflow -pycparser==2.21 +pybtex==0.24.0 + # via tedana +pybtex-apa-style==1.3 + # via tedana +pycparser==2.22 # via cffi pydot==2.0.0 # via nipype pynvml==11.5.0 # via codecarbon -pyparsing==3.1.1 +pyparsing==3.1.2 # via # matplotlib # pydot # rdflib -python-dateutil==2.8.2 +python-dateutil==2.9.0.post0 # via # arrow + # botocore # matplotlib # nipype # pandas # prov -python-gitlab==4.4.0 +python-gitlab==4.6.0 # via datalad pytz==2024.1 # via @@ -340,20 +316,19 @@ pyyaml==6.0.1 # bokeh # nireports # niworkflows + # pybtex # smriprep -rapidfuzz==3.6.1 +rapidfuzz==3.9.3 # via codecarbon -rdflib==7.0.0 +rdflib==6.3.2 # via # nipype # prov -requests==2.31.0 +requests==2.32.3 # via # codecarbon # datalad # etelemetry - # fmriprep - # fmriprep (pyproject.toml) # nilearn # osfclient # python-gitlab @@ -361,16 +336,18 @@ requests==2.31.0 # templateflow requests-toolbelt==1.0.0 # via python-gitlab -scikit-image==0.22.0 +s3transfer==0.10.1 + # via boto3 +scikit-image==0.23.2 # via # niworkflows # sdcflows -scikit-learn==1.4.0 +scikit-learn==1.4.2 # via # mapca # nilearn # tedana -scipy==1.11.4 +scipy==1.13.0 # via # formulaic # mapca @@ -384,18 +361,14 @@ scipy==1.11.4 # scikit-learn # sdcflows # tedana -sdcflows==2.8.0 - # via - # fmriprep - # fmriprep (pyproject.toml) +sdcflows==2.9.0 seaborn==0.13.2 # via # nireports # niworkflows secretstorage==3.3.3 # via keyring -sentry-sdk==1.40.1 - # via fmriprep +sentry-sdk==2.5.1 simplejson==3.19.2 # via nipype six==1.16.0 @@ -403,70 +376,61 @@ six==1.16.0 # apscheduler # isodate # osfclient + # pybtex # python-dateutil -smriprep==0.13.2 - # via - # fmriprep - # fmriprep (pyproject.toml) -sqlalchemy==2.0.25 +smriprep==0.15.0 +sqlalchemy==2.0.30 # via pybids svgutils==0.3.4 # via # nireports # niworkflows -tedana==23.0.2 - # via - # fmriprep - # fmriprep (pyproject.toml) +tedana==24.0.1 templateflow==24.2.0 # via # nireports # niworkflows # sdcflows # smriprep -threadpoolctl==3.2.0 +threadpoolctl==3.5.0 # via # scikit-learn # tedana -tifffile==2024.1.30 +tifffile==2024.5.22 # via scikit-image toml==0.10.2 - # via - # fmriprep - # fmriprep (pyproject.toml) - # sdcflows -tornado==6.4 + # via sdcflows +tornado==6.4.1 # via bokeh -tqdm==4.66.1 +tqdm==4.66.4 # via # datalad # osfclient + # tedana # templateflow traits==6.3.2 # via # nipype # niworkflows # sdcflows -transforms3d==0.4.1 +transforms3d==0.4.2 # via niworkflows -types-python-dateutil==2.8.19.20240106 +types-python-dateutil==2.9.0.20240316 # via arrow -typing-extensions==4.9.0 +typing-extensions==4.12.2 # via - # datalad # formulaic # sqlalchemy -tzdata==2023.4 +tzdata==2024.1 # via pandas tzlocal==5.2 # via apscheduler -urllib3==2.2.0 +urllib3==2.2.2 # via + # botocore # requests # sentry-sdk wrapt==1.16.0 # via formulaic -xyzservices==2023.10.1 +xyzservices==2024.6.0 # via bokeh -zipp==3.17.0 - # via importlib-metadata