diff --git a/requirements-dev.txt b/requirements-dev.txt index 58be104eabc724c1c1a00f467835b6238591f3de..ca2e15b30d371a76c87460f8d779fd8faf1c4115 100644 --- a/requirements-dev.txt +++ b/requirements-dev.txt @@ -19,6 +19,7 @@ astroid==3.2.2 # via nomad-lab (pyproject.toml) asttokens==2.4.1 # via devtools, stack-data, -r requirements.txt async-generator==1.10 # via jupyterhub, -r requirements.txt async-lru==2.0.4 # via jupyterlab, -r requirements.txt +async-property==0.2.2 # via python-keycloak, -r requirements.txt atpublic==4.1.0 # via aiosmtpd attrs==23.2.0 # via aiosmtpd, jsonschema, -r requirements.txt babel==2.15.0 # via jupyterlab-server, mkdocs-git-revision-date-localized-plugin, mkdocs-material, sphinx, -r requirements.txt @@ -38,7 +39,7 @@ celery==5.4.0 # via -r requirements.txt, nomad-lab (pyproject.toml) certifi==2024.6.2 # via elasticsearch, httpcore, httpx, netcdf4, requests, -r requirements.txt certipy==0.1.3 # via jupyterhub, -r requirements.txt cffi==1.16.0 # via argon2-cffi-bindings, cryptography, -r requirements.txt -cftime==1.6.3 # via netcdf4, -r requirements.txt +cftime==1.6.4 # via netcdf4, -r requirements.txt charset-normalizer==3.3.2 # via requests, -r requirements.txt click==8.1.7 # via asr, celery, click-default-group, click-didyoumean, click-plugins, click-repl, dask, flask, mkdocs, mkdocs-click, pynxtools, uvicorn, -r requirements.txt, nomad-lab (pyproject.toml) click-default-group==1.2.4 # via pynxtools, -r requirements.txt @@ -53,14 +54,14 @@ contourpy==1.2.1 # via matplotlib, -r requirements.txt coverage==7.5.3 # via pytest-cov cryptography==42.0.8 # via jwcrypto, pyjwt, pyopenssl, rfc3161ng, secretstorage, -r requirements.txt cycler==0.12.1 # via matplotlib, -r requirements.txt -dask==2024.5.2 # via hyperspy, kikuchipy, orix, pyxem, rosettasciio, -r requirements.txt +dask==2024.6.0 # via hyperspy, kikuchipy, orix, pyxem, rosettasciio, -r requirements.txt debugpy==1.8.1 # via ipykernel, -r requirements.txt decorator==5.1.1 # via ipyparallel, ipython, validators, -r requirements.txt defusedxml==0.7.1 # via nbconvert, -r requirements.txt deprecation==2.1.0 # via python-keycloak, -r requirements.txt devtools==0.12.2 # via nomad-lab (pyproject.toml) diffpy-structure==3.1.0 # via diffsims, kikuchipy, orix, -r requirements.txt -diffsims==0.5.2 # via kikuchipy, pyxem, -r requirements.txt +diffsims==0.6.0 # via kikuchipy, pyxem, -r requirements.txt dill==0.3.8 # via hyperspy, lmfit, -r requirements.txt dnspython==2.6.1 # via email-validator, pymongo, -r requirements.txt docker==7.1.0 # via dockerspawner, -r requirements.txt @@ -81,7 +82,7 @@ f90wrap==0.2.14 # via quippy-ase, -r requirements.txt fabio==2024.4.0 # via pyfai, silx, -r requirements.txt fastapi==0.99.1 # via h5grove, -r requirements.txt, nomad-lab (pyproject.toml) fasteners==0.19 # via mdanalysis, zarr, -r requirements.txt -fastjsonschema==2.19.1 # via nbformat, -r requirements.txt +fastjsonschema==2.20.0 # via nbformat, -r requirements.txt filelock==3.3.1 # via -r requirements.txt, nomad-lab (pyproject.toml) findiff==0.10.0 # via pynxtools-stm, -r requirements.txt flask==3.0.3 # via asr, -r requirements.txt @@ -104,11 +105,11 @@ hjson==3.1.0 # via -r requirements.txt, nomad-lab (pyproject.toml) html5lib==1.1 # via -r requirements.txt, nomad-lab (pyproject.toml) httpcore==1.0.5 # via httpx, -r requirements.txt httptools==0.6.1 # via uvicorn, -r requirements.txt -httpx==0.27.0 # via jupyterlab, -r requirements.txt, nomad-lab (pyproject.toml) +httpx==0.27.0 # via jupyterlab, python-keycloak, -r requirements.txt, nomad-lab (pyproject.toml) hyperspy==1.7.5 # via kikuchipy, pyxem, -r requirements.txt idna==3.7 # via anyio, email-validator, httpx, jsonschema, requests, -r requirements.txt ifes-apt-tc-data-modeling==0.2.2 # via pynxtools-apm, -r requirements.txt -igor2==0.5.6 # via pynxtools-xps, -r requirements.txt +igor2==0.5.8 # via pynxtools-xps, -r requirements.txt imageio==2.27.0 # via hyperspy, kikuchipy, nionswift, nionswift-io, nionui, scikit-image, -r requirements.txt imagesize==1.4.1 # via sphinx, -r requirements.txt importlib-metadata==7.1.0 # via build, dask, flask, hyperspy, jupyter-client, jupyter-lsp, jupyterhub, jupyterlab, jupyterlab-server, keyring, markdown, mkdocs, mkdocs-get-deps, nbconvert, pynxtools, sphinx, twine, -r requirements.txt, nomad-lab (pyproject.toml) @@ -131,7 +132,7 @@ jinja2==3.1.4 # via flask, hyperspy, jupyter-server, jupyterhub, jup jmespath==1.0.1 # via -r requirements.txt, nomad-lab (pyproject.toml) joblib==1.4.2 # via mdanalysis, pymatgen, scikit-learn, -r requirements.txt json5==0.9.25 # via jupyterlab-server, -r requirements.txt -jsonpointer==2.4 # via jsonschema, -r requirements.txt +jsonpointer==3.0.0 # via jsonschema, -r requirements.txt jsonschema==4.17.3 # via jupyter-events, jupyter-telemetry, jupyterlab-server, nbformat, oauthenticator, -r requirements.txt, nomad-lab (pyproject.toml) jupyter==1.0.0 # via ifes-apt-tc-data-modeling, -r requirements.txt jupyter-client==8.6.2 # via ipykernel, ipyparallel, jupyter-console, jupyter-server, nbclient, qtconsole, -r requirements.txt @@ -155,7 +156,7 @@ kiwisolver==1.4.5 # via matplotlib, -r requirements.txt kombu==5.3.7 # via celery, -r requirements.txt lark==1.1.9 # via optimade, -r requirements.txt latexcodec==3.0.0 # via pybtex, -r requirements.txt -llvmlite==0.42.0 # via numba, -r requirements.txt +llvmlite==0.43.0 # via numba, -r requirements.txt lmfit==1.3.1 # via pyxem, -r requirements.txt locket==1.0.0 # via partd, -r requirements.txt lxml==5.2.2 # via fabio, lxml-html-clean, pynxtools, -r requirements.txt, nomad-lab (pyproject.toml) @@ -178,14 +179,14 @@ mkdocs-get-deps==0.2.0 # via mkdocs mkdocs-git-revision-date-localized-plugin==1.2.6 # via nomad-lab (pyproject.toml) mkdocs-glightbox==0.4.0 # via nomad-lab (pyproject.toml) mkdocs-macros-plugin==1.0.5 # via nomad-lab (pyproject.toml) -mkdocs-material==9.5.25 # via nomad-lab (pyproject.toml) +mkdocs-material==9.5.27 # via nomad-lab (pyproject.toml) mkdocs-material-extensions==1.3.1 # via mkdocs-material, nomad-lab (pyproject.toml) mkdocs-redirects==1.2.1 # via nomad-lab (pyproject.toml) mmtf-python==1.1.3 # via mdanalysis, -r requirements.txt mongoengine==0.28.2 # via -r requirements.txt, nomad-lab (pyproject.toml) mongomock==4.1.2 # via optimade, -r requirements.txt monty==2024.5.24 # via pymatgen, -r requirements.txt -more-itertools==10.2.0 # via jaraco-classes, jaraco-functools +more-itertools==10.3.0 # via jaraco-classes, jaraco-functools mpmath==1.3.0 # via sympy, -r requirements.txt mrcfile==1.5.0 # via griddataformats, -r requirements.txt msgpack==1.0.8 # via blosc2, mmtf-python, -r requirements.txt, nomad-lab (pyproject.toml) @@ -201,26 +202,26 @@ nest-asyncio==1.6.0 # via ipykernel, -r requirements.txt netcdf4==1.6.5 # via -r requirements.txt, nomad-lab (pyproject.toml) networkx==2.6.3 # via matid, mdanalysis, pymatgen, radioactivedecay, scikit-image, -r requirements.txt, nomad-lab (pyproject.toml) nh3==0.2.17 # via readme-renderer -niondata==15.6.2 # via nionswift, nionswift-io, -r requirements.txt -nionswift==16.10.0 # via pynxtools-em, -r requirements.txt +niondata==15.6.3 # via nionswift, nionswift-io, -r requirements.txt +nionswift==16.11.0 # via pynxtools-em, -r requirements.txt nionswift-io==15.2.1 # via nionswift, -r requirements.txt -nionui==7.0.3 # via nionswift, -r requirements.txt -nionutils==0.4.10 # via niondata, nionswift, nionswift-io, nionui, -r requirements.txt +nionui==7.1.1 # via nionswift, -r requirements.txt +nionutils==4.11.0 # via niondata, nionswift, nionswift-io, nionui, -r requirements.txt notebook==7.1.3 # via jupyter, -r requirements.txt notebook-shim==0.2.4 # via jupyterlab, notebook, -r requirements.txt nptyping==1.4.4 # via -r requirements.txt, nomad-lab (pyproject.toml) -numba==0.59.1 # via diffsims, hyperspy, kikuchipy, orix, pyxem, sparse, -r requirements.txt +numba==0.60.0 # via diffsims, hyperspy, kikuchipy, orix, pyxem, sparse, -r requirements.txt numcodecs==0.12.1 # via zarr, -r requirements.txt numexpr==2.10.0 # via hyperspy, pyfai, pyxem, tables, -r requirements.txt -numpy==1.26.4 # via ase, biopython, blosc2, cftime, contourpy, dask, diffsims, f90wrap, fabio, findiff, griddataformats, gsd, h5grove, h5py, hyperspy, ifes-apt-tc-data-modeling, igor2, imageio, kikuchipy, lmfit, matid, matplotlib, mdanalysis, mrcfile, netcdf4, niondata, nionswift, nionswift-io, nionui, nptyping, numba, numcodecs, numexpr, numpy-quaternion, orix, pandas, phonopy, pycifrw, pyedr, pyfai, pymatgen, pynxtools, pywavelets, pyxem, quippy-ase, radioactivedecay, rdkit, rosettasciio, scikit-image, scikit-learn, scipy, silx, sparse, spglib, tables, tifffile, xarray, xraydb, zarr, -r requirements.txt, nomad-lab (pyproject.toml) +numpy==1.26.4 # via ase, biopython, blosc2, cftime, contourpy, dask, diffsims, f90wrap, fabio, findiff, griddataformats, gsd, h5grove, h5py, hyperspy, ifes-apt-tc-data-modeling, igor2, imageio, kikuchipy, lmfit, matid, matplotlib, mdanalysis, mrcfile, netcdf4, niondata, nionswift, nionswift-io, nionui, nptyping, numba, numcodecs, numexpr, numpy-quaternion, orix, pandas, phonopy, pycifrw, pyedr, pyfai, pymatgen, pynxtools, pywavelets, pyxem, quippy-ase, radioactivedecay, rdkit, rosettasciio, scikit-image, scikit-learn, scipy, silx, sparse, spglib, tables, tifffile, transforms3d, xarray, xraydb, zarr, -r requirements.txt, nomad-lab (pyproject.toml) numpy-quaternion==2023.0.3 # via orix, -r requirements.txt oauthenticator==15.1.0 # via -r requirements.txt, nomad-lab (pyproject.toml) oauthlib==3.2.2 # via jupyterhub, -r requirements.txt -openpyxl==3.1.3 # via -r requirements.txt, nomad-lab (pyproject.toml) +openpyxl==3.1.4 # via -r requirements.txt, nomad-lab (pyproject.toml) optimade==0.22.1 # via -r requirements.txt, nomad-lab (pyproject.toml) orix==0.12.1.post0 # via diffsims, kikuchipy, pyxem, -r requirements.txt -orjson==3.10.3 # via h5grove, -r requirements.txt, nomad-lab (pyproject.toml) -packaging==24.0 # via build, dask, deprecation, f90wrap, gunicorn, hyperspy, ipykernel, jupyter-server, jupyterhub, jupyterlab, jupyterlab-server, matplotlib, mdanalysis, mkdocs, mongomock, nbconvert, pint, plotly, pooch, pytest, qtconsole, qtpy, scikit-image, silx, sphinx, tables, xarray, xraydb, -r requirements.txt +orjson==3.10.5 # via h5grove, -r requirements.txt, nomad-lab (pyproject.toml) +packaging==24.1 # via build, dask, deprecation, f90wrap, gunicorn, hyperspy, ipykernel, jupyter-server, jupyterhub, jupyterlab, jupyterlab-server, matplotlib, mdanalysis, mkdocs, mongomock, nbconvert, pint, plotly, pooch, pytest, qtconsole, qtpy, scikit-image, silx, sphinx, tables, xarray, xraydb, -r requirements.txt paginate==0.5.6 # via mkdocs-material palettable==3.3.3 # via pymatgen, -r requirements.txt pamela==1.1.0 # via jupyterhub, -r requirements.txt @@ -232,18 +233,18 @@ parso==0.8.4 # via jedi, -r requirements.txt partd==1.4.2 # via dask, -r requirements.txt pathspec==0.12.1 # via mkdocs pexpect==4.9.0 # via ipython, -r requirements.txt -phonopy==2.23.1 # via asr, -r requirements.txt +phonopy==2.24.2.post1 # via asr, -r requirements.txt pillow==10.3.0 # via fabio, imageio, matplotlib, nionswift, rdkit, scikit-image, -r requirements.txt pint==0.17 # via hyperspy, pynxtools-xps, rosettasciio, -r requirements.txt, nomad-lab (pyproject.toml) -pkginfo==1.11.0 # via twine +pkginfo==1.11.1 # via twine platformdirs==4.2.2 # via jupyter-core, mkdocs-get-deps, pooch, xraydb, -r requirements.txt plotly==5.22.0 # via asr, pymatgen, -r requirements.txt pluggy==1.5.0 # via pytest ply==3.11 # via pycifrw, -r requirements.txt -pooch==1.8.1 # via kikuchipy, orix, -r requirements.txt +pooch==1.8.2 # via kikuchipy, orix, -r requirements.txt prettytable==3.10.0 # via hyperspy, -r requirements.txt prometheus-client==0.20.0 # via jupyter-server, jupyterhub, -r requirements.txt -prompt-toolkit==3.0.46 # via click-repl, ipython, jupyter-console, -r requirements.txt +prompt-toolkit==3.0.47 # via click-repl, ipython, jupyter-console, -r requirements.txt psutil==5.9.8 # via diffsims, ipykernel, ipyparallel, pyxem, -r requirements.txt ptyprocess==0.7.0 # via pexpect, terminado, -r requirements.txt pure-eval==0.2.2 # via stack-data, -r requirements.txt @@ -253,14 +254,14 @@ pyasn1-modules==0.4.0 # via rfc3161ng, -r requirements.txt pybis @ git+https://github.com/FAIRmat-NFDI/fairmat-pybis.git@91039c2a1df364c88ab7e284b59c43ec42f18370 # via -r requirements.txt, nomad-lab (pyproject.toml) pybtex==0.24.0 # via pymatgen, -r requirements.txt pycifrw==4.4.6 # via diffpy-structure, -r requirements.txt -pycodestyle==2.11.1 # via nomad-lab (pyproject.toml) +pycodestyle==2.12.0 # via nomad-lab (pyproject.toml) pycparser==2.22 # via cffi, -r requirements.txt -pydantic==1.10.15 # via fastapi, optimade, -r requirements.txt, nomad-lab (pyproject.toml) +pydantic==1.10.16 # via fastapi, optimade, -r requirements.txt, nomad-lab (pyproject.toml) pyedr==0.8.0 # via panedr, -r requirements.txt pyfai==2024.5.0 # via pyxem, -r requirements.txt pygments==2.18.0 # via devtools, ipython, jupyter-console, mkdocs-material, nbconvert, qtconsole, readme-renderer, sphinx, -r requirements.txt pyjwt==2.6.0 # via -r requirements.txt, nomad-lab (pyproject.toml) -pymatgen==2024.5.31 # via asr, -r requirements.txt, nomad-lab (pyproject.toml) +pymatgen==2024.5.1 # via asr, -r requirements.txt, nomad-lab (pyproject.toml) pymdown-extensions==10.8.1 # via mkdocs-material pymongo==4.6.3 # via mongoengine, optimade, -r requirements.txt, nomad-lab (pyproject.toml) pynxtools==0.3.1 # via pynxtools-apm, pynxtools-ellips, pynxtools-em, pynxtools-mpes, pynxtools-stm, pynxtools-xps, pynxtools-xrd, -r requirements.txt, nomad-lab (pyproject.toml) @@ -285,7 +286,7 @@ python-dateutil==2.9.0.post0 # via arrow, celery, elasticsearch-dsl, ghp-import python-dotenv==1.0.1 # via uvicorn, -r requirements.txt python-gitlab==2.10.1 # via nomad-lab (pyproject.toml) python-json-logger==2.0.2 # via jupyter-events, jupyter-telemetry, -r requirements.txt, nomad-lab (pyproject.toml) -python-keycloak==4.0.1 # via -r requirements.txt, nomad-lab (pyproject.toml) +python-keycloak==4.1.0 # via -r requirements.txt, nomad-lab (pyproject.toml) python-logstash==0.4.6 # via -r requirements.txt, nomad-lab (pyproject.toml) python-magic==0.4.24 # via -r requirements.txt, nomad-lab (pyproject.toml) python-multipart==0.0.9 # via -r requirements.txt, nomad-lab (pyproject.toml) @@ -299,7 +300,7 @@ pyzmq==26.0.3 # via ipykernel, ipyparallel, jupyter-client, jupyter- qtconsole==5.5.2 # via jupyter, -r requirements.txt qtpy==2.4.1 # via qtconsole, -r requirements.txt quippy-ase==0.9.14 # via -r requirements.txt, nomad-lab (pyproject.toml) -radioactivedecay==0.5.0 # via ifes-apt-tc-data-modeling, -r requirements.txt +radioactivedecay==0.5.1 # via ifes-apt-tc-data-modeling, -r requirements.txt rdflib==5.0.0 # via -r requirements.txt, nomad-lab (pyproject.toml) rdkit==2023.9.5 # via -r requirements.txt, nomad-lab (pyproject.toml) readme-renderer==43.0 # via twine @@ -316,7 +317,7 @@ rope==0.21.0 # via nomad-lab (pyproject.toml) rosettasciio==0.4 # via pynxtools-em, -r requirements.txt ruamel-yaml==0.18.6 # via jupyter-telemetry, oauthenticator, pymatgen, -r requirements.txt, nomad-lab (pyproject.toml) ruamel-yaml-clib==0.2.8 # via ruamel-yaml, -r requirements.txt -ruff==0.4.7 # via nomad-lab (pyproject.toml) +ruff==0.4.9 # via nomad-lab (pyproject.toml) runstats==2.0.0 # via -r requirements.txt, nomad-lab (pyproject.toml) scikit-image==0.19.3 # via hyperspy, kikuchipy, pyxem, -r requirements.txt scikit-learn==1.5.0 # via kikuchipy, matid, pyxem, -r requirements.txt, nomad-lab (pyproject.toml) @@ -347,7 +348,7 @@ structlog==24.2.0 # via -r requirements.txt, nomad-lab (pyproject.toml) sympy==1.12.1 # via findiff, hyperspy, pymatgen, radioactivedecay, -r requirements.txt tables==3.9.2 # via ifes-apt-tc-data-modeling, -r requirements.txt tabulate==0.8.9 # via pybis, pymatgen, -r requirements.txt, nomad-lab (pyproject.toml) -tenacity==8.3.0 # via plotly, -r requirements.txt +tenacity==8.4.1 # via plotly, -r requirements.txt termcolor==2.4.0 # via mkdocs-macros-plugin terminado==0.18.1 # via jupyter-server, jupyter-server-terminals, -r requirements.txt texttable==1.7.0 # via pybis, -r requirements.txt @@ -357,23 +358,23 @@ tinycss2==1.3.0 # via nbconvert, -r requirements.txt tomli==2.0.1 # via build, coverage, jupyterlab, mypy, pytest, sphinx, -r requirements.txt toolz==0.12.1 # via dask, hyperspy, partd, -r requirements.txt toposort==1.10 # via -r requirements.txt, nomad-lab (pyproject.toml) -tornado==6.4 # via ipykernel, ipyparallel, jupyter-client, jupyter-server, jupyterhub, jupyterlab, notebook, terminado, -r requirements.txt +tornado==6.4.1 # via ipykernel, ipyparallel, jupyter-client, jupyter-server, jupyterhub, jupyterlab, notebook, terminado, -r requirements.txt tqdm==4.66.4 # via diffsims, hyperspy, ipyparallel, kikuchipy, mdanalysis, orix, pyedr, pymatgen, pyxem, twine, -r requirements.txt traitlets==5.14.3 # via comm, ipykernel, ipyparallel, ipython, ipywidgets, jupyter-client, jupyter-console, jupyter-core, jupyter-events, jupyter-server, jupyter-telemetry, jupyterhub, jupyterlab, matplotlib-inline, nbclient, nbconvert, nbformat, qtconsole, -r requirements.txt traits==6.4.3 # via hyperspy, pyxem, -r requirements.txt -transforms3d==0.4.1 # via diffsims, pyxem, -r requirements.txt +transforms3d==0.4.2 # via diffsims, pyxem, -r requirements.txt twine==3.4.2 # via nomad-lab (pyproject.toml) typed-ast==1.5.5 # via nomad-lab (pyproject.toml) types-python-dateutil==2.9.0.20240316 # via arrow, -r requirements.txt -typing-extensions==4.12.1 # via alembic, anyio, asgiref, astroid, async-lru, fastapi, ipython, jwcrypto, kombu, mypy, pydantic, sqlalchemy, starlette, uvicorn, -r requirements.txt +typing-extensions==4.12.2 # via alembic, anyio, asgiref, astroid, async-lru, fastapi, ipython, jwcrypto, kombu, mypy, pydantic, sqlalchemy, starlette, uvicorn, -r requirements.txt typish==1.9.3 # via nptyping, -r requirements.txt tzdata==2024.1 # via celery, -r requirements.txt tzlocal==5.2 # via nionswift, pynxtools-em, -r requirements.txt -uncertainties==3.2.0 # via lmfit, pymatgen, -r requirements.txt +uncertainties==3.2.1 # via lmfit, pymatgen, -r requirements.txt unidecode==1.3.2 # via -r requirements.txt, nomad-lab (pyproject.toml) uri-template==1.3.0 # via jsonschema, -r requirements.txt -urllib3==1.26.18 # via docker, elasticsearch, pybis, requests, -r requirements.txt -uv==0.2.6 # via nomad-lab (pyproject.toml) +urllib3==1.26.19 # via docker, elasticsearch, pybis, requests, -r requirements.txt +uv==0.2.12 # via nomad-lab (pyproject.toml) uvicorn==0.30.1 # via h5grove, -r requirements.txt, nomad-lab (pyproject.toml) uvloop==0.19.0 # via uvicorn, -r requirements.txt validators==0.18.2 # via -r requirements.txt, nomad-lab (pyproject.toml) @@ -381,7 +382,7 @@ vine==5.1.0 # via amqp, celery, kombu, -r requirements.txt watchdog==4.0.1 # via mkdocs watchfiles==0.22.0 # via uvicorn, -r requirements.txt wcwidth==0.2.13 # via prettytable, prompt-toolkit, -r requirements.txt -webcolors==1.13 # via jsonschema, -r requirements.txt +webcolors==24.6.0 # via jsonschema, -r requirements.txt webencodings==0.5.1 # via bleach, html5lib, tinycss2, -r requirements.txt websocket-client==1.8.0 # via jupyter-server, -r requirements.txt websockets==12.0 # via uvicorn, -r requirements.txt diff --git a/requirements.txt b/requirements.txt index e051c2ab63732f755811e2edd362757e8610a5f2..14cdebecf4671ad68d800f1d96bbbd9022366994 100644 --- a/requirements.txt +++ b/requirements.txt @@ -17,6 +17,7 @@ asteval==0.9.33 # via lmfit asttokens==2.4.1 # via stack-data async-generator==1.10 # via jupyterhub async-lru==2.0.4 # via jupyterlab +async-property==0.2.2 # via python-keycloak attrs==23.2.0 # via jsonschema babel==2.15.0 # via jupyterlab-server, sphinx bagit==1.8.1 # via nomad-lab (pyproject.toml) @@ -33,7 +34,7 @@ celery==5.4.0 # via nomad-lab (pyproject.toml) certifi==2024.6.2 # via elasticsearch, httpcore, httpx, netcdf4, requests certipy==0.1.3 # via jupyterhub cffi==1.16.0 # via argon2-cffi-bindings, cryptography -cftime==1.6.3 # via netcdf4 +cftime==1.6.4 # via netcdf4 charset-normalizer==3.3.2 # via requests click==8.1.7 # via asr, celery, click-default-group, click-didyoumean, click-plugins, click-repl, dask, flask, pynxtools, uvicorn, nomad-lab (pyproject.toml) click-default-group==1.2.4 # via pynxtools @@ -46,13 +47,13 @@ commonmark==0.9.1 # via recommonmark contourpy==1.2.1 # via matplotlib cryptography==42.0.8 # via jwcrypto, pyjwt, pyopenssl, rfc3161ng cycler==0.12.1 # via matplotlib -dask==2024.5.2 # via hyperspy, kikuchipy, orix, pyxem, rosettasciio +dask==2024.6.0 # via hyperspy, kikuchipy, orix, pyxem, rosettasciio debugpy==1.8.1 # via ipykernel decorator==5.1.1 # via ipyparallel, ipython, validators defusedxml==0.7.1 # via nbconvert deprecation==2.1.0 # via python-keycloak diffpy-structure==3.1.0 # via diffsims, kikuchipy, orix -diffsims==0.5.2 # via kikuchipy, pyxem +diffsims==0.6.0 # via kikuchipy, pyxem dill==0.3.8 # via hyperspy, lmfit dnspython==2.6.1 # via email-validator, pymongo docker==7.1.0 # via dockerspawner @@ -71,7 +72,7 @@ f90wrap==0.2.14 # via quippy-ase fabio==2024.4.0 # via pyfai, silx fastapi==0.99.1 # via h5grove, nomad-lab (pyproject.toml) fasteners==0.19 # via mdanalysis, zarr -fastjsonschema==2.19.1 # via nbformat +fastjsonschema==2.20.0 # via nbformat filelock==3.3.1 # via nomad-lab (pyproject.toml) findiff==0.10.0 # via pynxtools-stm flask==3.0.3 # via asr @@ -93,11 +94,11 @@ hjson==3.1.0 # via nomad-lab (pyproject.toml) html5lib==1.1 # via nomad-lab (pyproject.toml) httpcore==1.0.5 # via httpx httptools==0.6.1 # via uvicorn -httpx==0.27.0 # via jupyterlab, nomad-lab (pyproject.toml) +httpx==0.27.0 # via jupyterlab, python-keycloak, nomad-lab (pyproject.toml) hyperspy==1.7.5 # via kikuchipy, pyxem idna==3.7 # via anyio, email-validator, httpx, jsonschema, requests ifes-apt-tc-data-modeling==0.2.2 # via pynxtools-apm -igor2==0.5.6 # via pynxtools-xps +igor2==0.5.8 # via pynxtools-xps imageio==2.27.0 # via hyperspy, kikuchipy, nionswift, nionswift-io, nionui, scikit-image imagesize==1.4.1 # via sphinx importlib-metadata==7.1.0 # via dask, flask, hyperspy, jupyter-client, jupyter-lsp, jupyterhub, jupyterlab, jupyterlab-server, nbconvert, pynxtools, sphinx, nomad-lab (pyproject.toml) @@ -115,7 +116,7 @@ jinja2==3.1.4 # via flask, hyperspy, jupyter-server, jupyterhub, jup jmespath==1.0.1 # via nomad-lab (pyproject.toml) joblib==1.4.2 # via mdanalysis, pymatgen, scikit-learn json5==0.9.25 # via jupyterlab-server -jsonpointer==2.4 # via jsonschema +jsonpointer==3.0.0 # via jsonschema jsonschema==4.17.3 # via jupyter-events, jupyter-telemetry, jupyterlab-server, nbformat, oauthenticator, nomad-lab (pyproject.toml) jupyter==1.0.0 # via ifes-apt-tc-data-modeling jupyter-client==8.6.2 # via ipykernel, ipyparallel, jupyter-console, jupyter-server, nbclient, qtconsole @@ -138,7 +139,7 @@ kiwisolver==1.4.5 # via matplotlib kombu==5.3.7 # via celery lark==1.1.9 # via optimade latexcodec==3.0.0 # via pybtex -llvmlite==0.42.0 # via numba +llvmlite==0.43.0 # via numba lmfit==1.3.1 # via pyxem locket==1.0.0 # via partd lxml==5.2.2 # via fabio, lxml-html-clean, pynxtools, nomad-lab (pyproject.toml) @@ -169,26 +170,26 @@ ndindex==1.8 # via blosc2 nest-asyncio==1.6.0 # via ipykernel netcdf4==1.6.5 # via nomad-lab (pyproject.toml) networkx==2.6.3 # via matid, mdanalysis, pymatgen, radioactivedecay, scikit-image, nomad-lab (pyproject.toml) -niondata==15.6.2 # via nionswift, nionswift-io -nionswift==16.10.0 # via pynxtools-em +niondata==15.6.3 # via nionswift, nionswift-io +nionswift==16.11.0 # via pynxtools-em nionswift-io==15.2.1 # via nionswift -nionui==7.0.3 # via nionswift -nionutils==0.4.10 # via niondata, nionswift, nionswift-io, nionui +nionui==7.1.1 # via nionswift +nionutils==4.11.0 # via niondata, nionswift, nionswift-io, nionui notebook==7.1.3 # via jupyter notebook-shim==0.2.4 # via jupyterlab, notebook nptyping==1.4.4 # via nomad-lab (pyproject.toml) -numba==0.59.1 # via diffsims, hyperspy, kikuchipy, orix, pyxem, sparse +numba==0.60.0 # via diffsims, hyperspy, kikuchipy, orix, pyxem, sparse numcodecs==0.12.1 # via zarr numexpr==2.10.0 # via hyperspy, pyfai, pyxem, tables -numpy==1.26.4 # via ase, biopython, blosc2, cftime, contourpy, dask, diffsims, f90wrap, fabio, findiff, griddataformats, gsd, h5grove, h5py, hyperspy, ifes-apt-tc-data-modeling, igor2, imageio, kikuchipy, lmfit, matid, matplotlib, mdanalysis, mrcfile, netcdf4, niondata, nionswift, nionswift-io, nionui, nptyping, numba, numcodecs, numexpr, numpy-quaternion, orix, pandas, phonopy, pycifrw, pyedr, pyfai, pymatgen, pynxtools, pywavelets, pyxem, quippy-ase, radioactivedecay, rdkit, rosettasciio, scikit-image, scikit-learn, scipy, silx, sparse, spglib, tables, tifffile, xarray, xraydb, zarr, nomad-dos-fingerprints (dependencies/nomad-dos-fingerprints/pyproject.toml), nomad-lab (pyproject.toml) +numpy==1.26.4 # via ase, biopython, blosc2, cftime, contourpy, dask, diffsims, f90wrap, fabio, findiff, griddataformats, gsd, h5grove, h5py, hyperspy, ifes-apt-tc-data-modeling, igor2, imageio, kikuchipy, lmfit, matid, matplotlib, mdanalysis, mrcfile, netcdf4, niondata, nionswift, nionswift-io, nionui, nptyping, numba, numcodecs, numexpr, numpy-quaternion, orix, pandas, phonopy, pycifrw, pyedr, pyfai, pymatgen, pynxtools, pywavelets, pyxem, quippy-ase, radioactivedecay, rdkit, rosettasciio, scikit-image, scikit-learn, scipy, silx, sparse, spglib, tables, tifffile, transforms3d, xarray, xraydb, zarr, nomad-dos-fingerprints (dependencies/nomad-dos-fingerprints/pyproject.toml), nomad-lab (pyproject.toml) numpy-quaternion==2023.0.3 # via orix oauthenticator==15.1.0 # via nomad-lab (pyproject.toml) oauthlib==3.2.2 # via jupyterhub -openpyxl==3.1.3 # via nomad-lab (pyproject.toml) +openpyxl==3.1.4 # via nomad-lab (pyproject.toml) optimade==0.22.1 # via nomad-lab (pyproject.toml) orix==0.12.1.post0 # via diffsims, kikuchipy, pyxem -orjson==3.10.3 # via h5grove, nomad-lab (pyproject.toml) -packaging==24.0 # via dask, deprecation, f90wrap, gunicorn, hyperspy, ipykernel, jupyter-server, jupyterhub, jupyterlab, jupyterlab-server, matplotlib, mdanalysis, mongomock, nbconvert, pint, plotly, pooch, qtconsole, qtpy, scikit-image, silx, sphinx, tables, xarray, xraydb +orjson==3.10.5 # via h5grove, nomad-lab (pyproject.toml) +packaging==24.1 # via dask, deprecation, f90wrap, gunicorn, hyperspy, ipykernel, jupyter-server, jupyterhub, jupyterlab, jupyterlab-server, matplotlib, mdanalysis, mongomock, nbconvert, pint, plotly, pooch, qtconsole, qtpy, scikit-image, silx, sphinx, tables, xarray, xraydb palettable==3.3.3 # via pymatgen pamela==1.1.0 # via jupyterhub pandas==1.5.3 # via ifes-apt-tc-data-modeling, panedr, pybis, pymatgen, pynxtools, radioactivedecay, xarray, eelsdbconverter (dependencies/parsers/eelsdb/pyproject.toml), nomad-lab (pyproject.toml) @@ -198,16 +199,16 @@ parmed==4.2.2 # via nomad-lab (pyproject.toml) parso==0.8.4 # via jedi partd==1.4.2 # via dask pexpect==4.9.0 # via ipython -phonopy==2.23.1 # via asr +phonopy==2.24.2.post1 # via asr pillow==10.3.0 # via fabio, imageio, matplotlib, nionswift, rdkit, scikit-image pint==0.17 # via hyperspy, pynxtools-xps, rosettasciio, nomad-lab (pyproject.toml) platformdirs==4.2.2 # via jupyter-core, pooch, xraydb plotly==5.22.0 # via asr, pymatgen ply==3.11 # via pycifrw -pooch==1.8.1 # via kikuchipy, orix +pooch==1.8.2 # via kikuchipy, orix prettytable==3.10.0 # via hyperspy prometheus-client==0.20.0 # via jupyter-server, jupyterhub -prompt-toolkit==3.0.46 # via click-repl, ipython, jupyter-console +prompt-toolkit==3.0.47 # via click-repl, ipython, jupyter-console psutil==5.9.8 # via diffsims, ipykernel, ipyparallel, pyxem ptyprocess==0.7.0 # via pexpect, terminado pure-eval==0.2.2 # via stack-data @@ -218,12 +219,12 @@ pybis @ git+https://github.com/FAIRmat-NFDI/fairmat-pybis.git@91039c2a1df364c88a pybtex==0.24.0 # via pymatgen pycifrw==4.4.6 # via diffpy-structure pycparser==2.22 # via cffi -pydantic==1.10.15 # via fastapi, optimade, nomad-lab (pyproject.toml) +pydantic==1.10.16 # via fastapi, optimade, nomad-lab (pyproject.toml) pyedr==0.8.0 # via panedr pyfai==2024.5.0 # via pyxem pygments==2.18.0 # via ipython, jupyter-console, nbconvert, qtconsole, sphinx pyjwt==2.6.0 # via nomad-lab (pyproject.toml) -pymatgen==2024.5.31 # via asr, nomad-lab (pyproject.toml) +pymatgen==2024.5.1 # via asr, nomad-lab (pyproject.toml) pymongo==4.6.3 # via mongoengine, optimade, nomad-lab (pyproject.toml) pynxtools==0.3.1 # via pynxtools-apm, pynxtools-ellips, pynxtools-em, pynxtools-mpes, pynxtools-stm, pynxtools-xps, pynxtools-xrd, nomad-lab (pyproject.toml) pynxtools-apm==0.2 # via pynxtools @@ -240,7 +241,7 @@ python-box==6.1.0 # via rosettasciio python-dateutil==2.9.0.post0 # via arrow, celery, elasticsearch-dsl, hyperspy, ipyparallel, jupyter-client, jupyterhub, matplotlib, pandas, pybis, rfc3161ng, rosettasciio python-dotenv==1.0.1 # via uvicorn python-json-logger==2.0.2 # via jupyter-events, jupyter-telemetry, nomad-lab (pyproject.toml) -python-keycloak==4.0.1 # via nomad-lab (pyproject.toml) +python-keycloak==4.1.0 # via nomad-lab (pyproject.toml) python-logstash==0.4.6 # via nomad-lab (pyproject.toml) python-magic==0.4.24 # via nomad-lab (pyproject.toml) python-multipart==0.0.9 # via nomad-lab (pyproject.toml) @@ -253,7 +254,7 @@ pyzmq==26.0.3 # via ipykernel, ipyparallel, jupyter-client, jupyter- qtconsole==5.5.2 # via jupyter qtpy==2.4.1 # via qtconsole quippy-ase==0.9.14 # via nomad-lab (pyproject.toml) -radioactivedecay==0.5.0 # via ifes-apt-tc-data-modeling +radioactivedecay==0.5.1 # via ifes-apt-tc-data-modeling rdflib==5.0.0 # via nomad-lab (pyproject.toml) rdkit==2023.9.5 # via nomad-lab (pyproject.toml) recommonmark==0.7.1 # via nomad-lab (pyproject.toml) @@ -295,7 +296,7 @@ structlog==24.2.0 # via nomad-lab (pyproject.toml) sympy==1.12.1 # via findiff, hyperspy, pymatgen, radioactivedecay tables==3.9.2 # via ifes-apt-tc-data-modeling tabulate==0.8.9 # via pybis, pymatgen, nomad-lab (pyproject.toml) -tenacity==8.3.0 # via plotly +tenacity==8.4.1 # via plotly terminado==0.18.1 # via jupyter-server, jupyter-server-terminals texttable==1.7.0 # via pybis threadpoolctl==3.5.0 # via mdanalysis, scikit-learn @@ -304,27 +305,27 @@ tinycss2==1.3.0 # via nbconvert tomli==2.0.1 # via jupyterlab, sphinx toolz==0.12.1 # via dask, hyperspy, partd toposort==1.10 # via nomad-lab (pyproject.toml) -tornado==6.4 # via ipykernel, ipyparallel, jupyter-client, jupyter-server, jupyterhub, jupyterlab, notebook, terminado +tornado==6.4.1 # via ipykernel, ipyparallel, jupyter-client, jupyter-server, jupyterhub, jupyterlab, notebook, terminado tqdm==4.66.4 # via diffsims, hyperspy, ipyparallel, kikuchipy, mdanalysis, orix, pyedr, pymatgen, pyxem traitlets==5.14.3 # via comm, ipykernel, ipyparallel, ipython, ipywidgets, jupyter-client, jupyter-console, jupyter-core, jupyter-events, jupyter-server, jupyter-telemetry, jupyterhub, jupyterlab, matplotlib-inline, nbclient, nbconvert, nbformat, qtconsole traits==6.4.3 # via hyperspy, pyxem -transforms3d==0.4.1 # via diffsims, pyxem +transforms3d==0.4.2 # via diffsims, pyxem types-python-dateutil==2.9.0.20240316 # via arrow -typing-extensions==4.12.1 # via alembic, anyio, asgiref, async-lru, fastapi, ipython, jwcrypto, kombu, pydantic, sqlalchemy, starlette, uvicorn +typing-extensions==4.12.2 # via alembic, anyio, asgiref, async-lru, fastapi, ipython, jwcrypto, kombu, pydantic, sqlalchemy, starlette, uvicorn typish==1.9.3 # via nptyping tzdata==2024.1 # via celery tzlocal==5.2 # via nionswift, pynxtools-em -uncertainties==3.2.0 # via lmfit, pymatgen +uncertainties==3.2.1 # via lmfit, pymatgen unidecode==1.3.2 # via nomad-lab (pyproject.toml) uri-template==1.3.0 # via jsonschema -urllib3==1.26.18 # via docker, elasticsearch, pybis, requests +urllib3==1.26.19 # via docker, elasticsearch, pybis, requests uvicorn==0.30.1 # via h5grove, nomad-lab (pyproject.toml) uvloop==0.19.0 # via uvicorn validators==0.18.2 # via nomad-lab (pyproject.toml) vine==5.1.0 # via amqp, celery, kombu watchfiles==0.22.0 # via uvicorn wcwidth==0.2.13 # via prettytable, prompt-toolkit -webcolors==1.13 # via jsonschema +webcolors==24.6.0 # via jsonschema webencodings==0.5.1 # via bleach, html5lib, tinycss2 websocket-client==1.8.0 # via jupyter-server websockets==12.0 # via uvicorn