diff --git a/requirements-dev.txt b/requirements-dev.txt
index 61cb74cb1673e8772668b96f01f16462f4435b1d..85f8ebddd1af9a287f01a3d8ddd316c5024f8ba7 100644
--- a/requirements-dev.txt
+++ b/requirements-dev.txt
@@ -2,7 +2,7 @@
 # This file is autogenerated by pip-compile with Python 3.9
 # by the following command:
 #
-#    pip-compile --annotation-style=line --extra=dev --extra=infrastructure --extra=parsing --output-file=requirements-dev.txt --resolver=backtracking dependencies/matid/pyproject.toml dependencies/nomad-dos-fingerprints/pyproject.toml dependencies/parsers/atomistic/pyproject.toml dependencies/parsers/database/pyproject.toml dependencies/parsers/eelsdb/pyproject.toml dependencies/parsers/electronic/pyproject.toml dependencies/parsers/nexus/pyproject.toml dependencies/parsers/workflow/pyproject.toml pyproject.toml requirements.txt
+#    pip-compile --annotation-style=line --extra=dev --extra=infrastructure --extra=parsing --output-file=requirements-dev.txt --resolver=backtracking pyproject.toml requirements.txt
 #
 aiosmtpd==1.4.4.post2     # via nomad-lab (pyproject.toml)
 alabaster==0.7.12         # via -r requirements.txt, sphinx
@@ -84,7 +84,7 @@ fastapi==0.92.0           # via -r requirements.txt, h5grove, nomad-lab (pyproje
 fasteners==0.18           # via -r requirements.txt, mdanalysis, zarr
 filelock==3.3.1           # via -r requirements.txt, nomad-lab (pyproject.toml)
 flask==2.2.2              # via -r requirements.txt, asr
-flatdict==4.0.1           # via -r requirements.txt, pynxtools (dependencies/parsers/nexus/pyproject.toml)
+flatdict==4.0.1           # via -r requirements.txt
 fonttools==4.38.0         # via -r requirements.txt, matplotlib
 fqdn==1.5.1               # via -r requirements.txt, jsonschema
 fsspec==2022.11.0         # via -r requirements.txt, dask, hyperspy
@@ -104,9 +104,9 @@ html5lib==1.1             # via -r requirements.txt, nomad-lab (pyproject.toml)
 httpcore==0.16.3          # via -r requirements.txt, httpx
 httptools==0.5.0          # via -r requirements.txt, uvicorn
 httpx==0.23.3             # via -r requirements.txt, nomad-lab (pyproject.toml)
-hyperspy==1.7.5           # via -r requirements.txt, kikuchipy, pynxtools (dependencies/parsers/nexus/pyproject.toml), pyxem
+hyperspy==1.7.5           # via -r requirements.txt, kikuchipy, pyxem
 idna==3.4                 # via -r requirements.txt, anyio, email-validator, jsonschema, requests, rfc3986
-ifes-apt-tc-data-modeling==0.0.9  # via -r requirements.txt, pynxtools (dependencies/parsers/nexus/pyproject.toml)
+ifes-apt-tc-data-modeling==0.0.9  # via -r requirements.txt
 imageio==2.24.0           # via -r requirements.txt, hyperspy, kikuchipy, nionswift, nionswift-io, nionui, scikit-image
 imagesize==1.4.1          # via -r requirements.txt, sphinx
 importlib-metadata==4.13.0  # via -r requirements.txt, flask, hyperspy, keyring, markdown, mkdocs, nomad-lab (pyproject.toml), sphinx, twine
@@ -133,10 +133,10 @@ jupyter-telemetry==0.1.0  # via -r requirements.txt, jupyterhub
 jupyterhub==1.4.2         # via -r requirements.txt, dockerspawner, nomad-lab (pyproject.toml), oauthenticator
 jupyterlab-widgets==3.0.9  # via -r requirements.txt, ipywidgets
 keyring==23.11.0          # via twine
-kikuchipy==0.8.7          # via -r requirements.txt, pynxtools (dependencies/parsers/nexus/pyproject.toml)
+kikuchipy==0.8.7          # via -r requirements.txt
 kiwisolver==1.4.4         # via -r requirements.txt, matplotlib
 kombu==5.2.4              # via -r requirements.txt, celery
-lark==1.1.5               # via -r requirements.txt, optimade, pynxtools (dependencies/parsers/nexus/pyproject.toml)
+lark==1.1.5               # via -r requirements.txt, optimade
 latexcodec==2.0.1         # via -r requirements.txt, pybtex
 lazy-object-proxy==1.9.0  # via astroid
 llvmlite==0.39.1          # via -r requirements.txt, numba
@@ -171,16 +171,16 @@ mp-api==0.30.10           # via -r requirements.txt, pymatgen
 mpmath==1.2.1             # via -r requirements.txt, sympy
 mrcfile==1.4.3            # via -r requirements.txt, griddataformats
 msgpack==1.0.4            # via -r requirements.txt, mmtf-python, mp-api, nomad-lab (pyproject.toml)
-mypy==1.0.1               # via nomad-lab (pyproject.toml), pynxtools (dependencies/parsers/nexus/pyproject.toml)
+mypy==1.0.1               # via nomad-lab (pyproject.toml)
 mypy-extensions==0.4.3    # via mypy
 names==0.3.0              # via nomad-lab (pyproject.toml)
-nanonispy @ git+https://github.com/ramav87/nanonispy.git@a0da87c58482d29624a2bf5deecb763dd1274212  # via -r requirements.txt, pynxtools (dependencies/parsers/nexus/pyproject.toml)
+nanonispy @ git+https://github.com/ramav87/nanonispy.git@a0da87c58482d29624a2bf5deecb763dd1274212  # via -r requirements.txt
 natsort==8.2.0            # via -r requirements.txt, hyperspy
 nest-asyncio==1.5.6       # via -r requirements.txt, ipykernel, jupyter-client
 netcdf4==1.5.4            # via -r requirements.txt, nomad-lab (pyproject.toml)
-networkx==2.6.3           # via -r requirements.txt, matid (dependencies/matid/pyproject.toml), mdanalysis, pymatgen, radioactivedecay, scikit-image
+networkx==2.6.3           # via -r requirements.txt, mdanalysis, nomad-lab (pyproject.toml), pymatgen, radioactivedecay, scikit-image
 niondata==0.15.5          # via -r requirements.txt, nionswift, nionswift-io
-nionswift==0.16.8         # via -r requirements.txt, pynxtools (dependencies/parsers/nexus/pyproject.toml)
+nionswift==0.16.8         # via -r requirements.txt
 nionswift-io==0.15.1      # via -r requirements.txt, nionswift
 nionui==0.6.11            # via -r requirements.txt, nionswift
 nionutils==0.4.8          # via -r requirements.txt, niondata, nionswift, nionswift-io, nionui
@@ -211,7 +211,7 @@ phonopy==2.11.0           # via -r requirements.txt, asr, nomad-lab (pyproject.t
 pickleshare==0.7.5        # via -r requirements.txt, ipython
 pillow==9.4.0             # via -r requirements.txt, imageio, matplotlib, nionswift, scikit-image
 pint==0.17                # via -r requirements.txt, hyperspy, nomad-lab (pyproject.toml)
-pip-tools==6.13.0         # via nomad-lab (pyproject.toml), pynxtools (dependencies/parsers/nexus/pyproject.toml)
+pip-tools==6.13.0         # via nomad-lab (pyproject.toml)
 pkginfo==1.8.3            # via twine
 platformdirs==3.1.1       # via -r requirements.txt, pooch, pylint, requests-cache
 plotly==5.11.0            # via -r requirements.txt, asr, pymatgen
@@ -227,13 +227,13 @@ pyasn1==0.4.8             # via -r requirements.txt, pyasn1-modules, python-jose
 pyasn1-modules==0.2.8     # via -r requirements.txt, rfc3161ng
 pybtex==0.24.0            # via -r requirements.txt, emmet-core, pymatgen
 pycifrw==4.4.5            # via -r requirements.txt, diffpy-structure
-pycodestyle==2.8.0        # via nomad-lab (pyproject.toml), pynxtools (dependencies/parsers/nexus/pyproject.toml)
+pycodestyle==2.8.0        # via nomad-lab (pyproject.toml)
 pycparser==2.21           # via -r requirements.txt, cffi
 pydantic==1.10.9          # via -r requirements.txt, emmet-core, fastapi, nomad-lab (pyproject.toml), optimade
 pyfai==2023.9.0           # via -r requirements.txt, pyxem
 pygments==2.14.0          # via -r requirements.txt, ipython, mkdocs-material, readme-renderer, sphinx
 pyjwt[crypto]==2.6.0      # via -r requirements.txt, nomad-lab (pyproject.toml)
-pylint==2.13.9            # via nomad-lab (pyproject.toml), pylint-mongoengine, pylint-plugin-utils, pynxtools (dependencies/parsers/nexus/pyproject.toml)
+pylint==2.13.9            # via nomad-lab (pyproject.toml), pylint-mongoengine, pylint-plugin-utils
 pylint-mongoengine==0.4.0  # via nomad-lab (pyproject.toml)
 pylint-plugin-utils==0.7  # via nomad-lab (pyproject.toml), pylint-mongoengine
 pymatgen==2023.2.28       # via -r requirements.txt, asr, emmet-core, mp-api, nomad-lab (pyproject.toml)
@@ -242,10 +242,10 @@ pymongo==4.3.3            # via -r requirements.txt, mongoengine, nomad-lab (pyp
 pyopenssl==23.0.0         # via -r requirements.txt, certipy
 pyparsing==3.0.9          # via -r requirements.txt, matplotlib, mdtraj, rdflib
 pyrsistent==0.19.3        # via -r requirements.txt, jsonschema
-pytest==5.4.3             # via nomad-lab (pyproject.toml), pynxtools (dependencies/parsers/nexus/pyproject.toml), pytest-cov, pytest-forked, pytest-timeout, pytest-xdist
-pytest-cov==2.7.1         # via nomad-lab (pyproject.toml), pynxtools (dependencies/parsers/nexus/pyproject.toml)
+pytest==5.4.3             # via nomad-lab (pyproject.toml), pytest-cov, pytest-forked, pytest-timeout, pytest-xdist
+pytest-cov==2.7.1         # via nomad-lab (pyproject.toml)
 pytest-forked==1.6.0      # via pytest-xdist
-pytest-timeout==1.4.2     # via nomad-lab (pyproject.toml), pynxtools (dependencies/parsers/nexus/pyproject.toml)
+pytest-timeout==1.4.2     # via nomad-lab (pyproject.toml)
 pytest-xdist==1.34.0      # via nomad-lab (pyproject.toml)
 python-dateutil==2.8.2    # via -r requirements.txt, arrow, elasticsearch-dsl, ghp-import, hyperspy, ipyparallel, jupyter-client, jupyterhub, matplotlib, mkdocs-macros-plugin, pandas, rfc3161ng
 python-dotenv==0.21.0     # via -r requirements.txt, uvicorn
@@ -259,7 +259,7 @@ python-multipart==0.0.5   # via -r requirements.txt, nomad-lab (pyproject.toml)
 pytz==2022.7.1            # via -r requirements.txt, babel, celery, nionswift, nomad-lab (pyproject.toml), pandas
 pytz-deprecation-shim==0.1.0.post0  # via -r requirements.txt, tzlocal
 pywavelets==1.3.0         # via -r requirements.txt, scikit-image
-pyxem==0.15.1             # via -r requirements.txt, pynxtools (dependencies/parsers/nexus/pyproject.toml)
+pyxem==0.15.1             # via -r requirements.txt
 pyyaml==6.0               # via -r requirements.txt, dask, hyperspy, kikuchipy, mkdocs, mkdocs-macros-plugin, nomad-lab (pyproject.toml), phonopy, pybtex, pyyaml-env-tag, uvicorn
 pyyaml-env-tag==0.1       # via mkdocs
 pyzeo==0.1.4              # via -r requirements.txt, nomad-lab (pyproject.toml)
@@ -271,7 +271,7 @@ readme-renderer==37.3     # via twine
 recommonmark==0.7.1       # via -r requirements.txt, nomad-lab (pyproject.toml)
 redis==4.4.2              # via -r requirements.txt, celery
 requests==2.28.2          # via -r requirements.txt, docker, hyperspy, jupyterhub, mp-api, nomad-lab (pyproject.toml), oauthenticator, optimade, pooch, pymatgen, python-gitlab, python-keycloak, requests-cache, requests-toolbelt, rfc3161ng, sphinx, twine
-requests-cache==1.0.1     # via -r requirements.txt, pynxtools (dependencies/parsers/nexus/pyproject.toml)
+requests-cache==1.0.1     # via -r requirements.txt
 requests-toolbelt==0.10.1  # via python-gitlab, twine
 rfc3161ng==2.1.3          # via -r requirements.txt, nomad-lab (pyproject.toml)
 rfc3339-validator==0.1.4  # via -r requirements.txt, jsonschema
@@ -295,7 +295,7 @@ sniffio==1.3.0            # via -r requirements.txt, anyio, httpcore, httpx
 snowballstemmer==2.2.0    # via -r requirements.txt, sphinx
 soupsieve==2.3.2.post1    # via -r requirements.txt, beautifulsoup4
 sparse==0.13.0            # via -r requirements.txt, hyperspy
-spglib==2.0.2             # via -r requirements.txt, asr, emmet-core, matid (dependencies/matid/pyproject.toml), phonopy, pymatgen
+spglib==2.0.2             # via -r requirements.txt, asr, emmet-core, phonopy, pymatgen
 sphinx==5.3.0             # via -r requirements.txt, recommonmark
 sphinxcontrib-applehelp==1.0.2  # via -r requirements.txt, sphinx
 sphinxcontrib-devhelp==1.0.2  # via -r requirements.txt, sphinx
@@ -322,14 +322,10 @@ traits==6.4.1             # via -r requirements.txt, hyperspy
 transforms3d==0.4.1       # via -r requirements.txt, diffsims, pyxem
 twine==3.4.2              # via nomad-lab (pyproject.toml)
 typed-ast==1.4.2          # via nomad-lab (pyproject.toml)
-types-pytz==2022.7.0.0    # via pynxtools (dependencies/parsers/nexus/pyproject.toml)
-types-pyyaml==6.0.12.1    # via pynxtools (dependencies/parsers/nexus/pyproject.toml)
-types-requests==2.28.11.16  # via pynxtools (dependencies/parsers/nexus/pyproject.toml)
-types-urllib3==1.26.25.8  # via types-requests
 typing-extensions==4.4.0  # via -r requirements.txt, astroid, emmet-core, gitpython, mp-api, mypy, numcodecs, pydantic, pylint, starlette
 typish==1.9.3             # via -r requirements.txt, nptyping
 tzdata==2023.3            # via -r requirements.txt, pytz-deprecation-shim
-tzlocal==4.3              # via -r requirements.txt, nionswift, pynxtools (dependencies/parsers/nexus/pyproject.toml)
+tzlocal==4.3              # via -r requirements.txt, nionswift
 uncertainties==3.1.7      # via -r requirements.txt, lmfit, pymatgen
 unidecode==1.3.2          # via -r requirements.txt, nomad-lab (pyproject.toml)
 uri-template==1.2.0       # via -r requirements.txt, jsonschema
@@ -352,7 +348,7 @@ widgetsnbextension==4.0.9  # via -r requirements.txt, ipywidgets
 wrapt==1.12.1             # via -r requirements.txt, astroid, nomad-lab (pyproject.toml)
 xarray==0.20.2            # via -r requirements.txt, nomad-lab (pyproject.toml)
 zarr==2.12.0              # via -r requirements.txt, hyperspy
-zipfile37==0.1.3          # via -r requirements.txt, pynxtools (dependencies/parsers/nexus/pyproject.toml)
+zipfile37==0.1.3          # via -r requirements.txt
 zipp==3.11.0              # via -r requirements.txt, importlib-metadata
 zipstream-new==1.1.5      # via -r requirements.txt, nomad-lab (pyproject.toml)
 
diff --git a/requirements.txt b/requirements.txt
index 2dfeb83d62a03485cdf97ba2136bb77e5d2db2f8..834a967b443941031e945eb7c1738dc3cdfc8299 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -147,7 +147,7 @@ nanonispy @ git+https://github.com/ramav87/nanonispy.git@a0da87c58482d29624a2bf5
 natsort==8.2.0            # via hyperspy
 nest-asyncio==1.5.6       # via ipykernel, jupyter-client
 netcdf4==1.5.4            # via electronicparsers (dependencies/parsers/electronic/pyproject.toml), nomad-lab (pyproject.toml)
-networkx==2.6.3           # via matid (dependencies/matid/pyproject.toml), mdanalysis, pymatgen, radioactivedecay, scikit-image
+networkx==2.6.3           # via matid (dependencies/matid/pyproject.toml), mdanalysis, nomad-lab (pyproject.toml), pymatgen, radioactivedecay, scikit-image
 niondata==0.15.5          # via nionswift, nionswift-io
 nionswift==0.16.8         # via pynxtools (dependencies/parsers/nexus/pyproject.toml)
 nionswift-io==0.15.1      # via nionswift