diff --git a/poetry.lock b/poetry.lock
index c3d5bec38..de17d5591 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -1,4 +1,4 @@
-# This file is automatically @generated by Poetry 1.6.1 and should not be changed by hand.
+# This file is automatically @generated by Poetry 1.5.1 and should not be changed by hand.
 
 [[package]]
 name = "absl-py"
@@ -86,20 +86,21 @@ wrapt = [
 
 [[package]]
 name = "asttokens"
-version = "2.4.0"
+version = "2.4.1"
 description = "Annotate AST trees with source code positions"
 optional = false
 python-versions = "*"
 files = [
-    {file = "asttokens-2.4.0-py2.py3-none-any.whl", hash = "sha256:cf8fc9e61a86461aa9fb161a14a0841a03c405fa829ac6b202670b3495d2ce69"},
-    {file = "asttokens-2.4.0.tar.gz", hash = "sha256:2e0171b991b2c959acc6c49318049236844a5da1d65ba2672c4880c1c894834e"},
+    {file = "asttokens-2.4.1-py2.py3-none-any.whl", hash = "sha256:051ed49c3dcae8913ea7cd08e46a606dba30b79993209636c4875bc1d637bc24"},
+    {file = "asttokens-2.4.1.tar.gz", hash = "sha256:b03869718ba9a6eb027e134bfdf69f38a236d681c83c160d510768af11254ba0"},
 ]
 
 [package.dependencies]
 six = ">=1.12.0"
 
 [package.extras]
-test = ["astroid", "pytest"]
+astroid = ["astroid (>=1,<2)", "astroid (>=2,<4)"]
+test = ["astroid (>=1,<2)", "astroid (>=2,<4)", "pytest"]
 
 [[package]]
 name = "astunparse"
@@ -136,29 +137,18 @@ tests-no-zope = ["cloudpickle", "hypothesis", "mypy (>=1.1.1)", "pympler", "pyte
 
 [[package]]
 name = "babel"
-version = "2.13.0"
+version = "2.13.1"
 description = "Internationalization utilities"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "Babel-2.13.0-py3-none-any.whl", hash = "sha256:fbfcae1575ff78e26c7449136f1abbefc3c13ce542eeb13d43d50d8b047216ec"},
-    {file = "Babel-2.13.0.tar.gz", hash = "sha256:04c3e2d28d2b7681644508f836be388ae49e0cfe91465095340395b60d00f210"},
+    {file = "Babel-2.13.1-py3-none-any.whl", hash = "sha256:7077a4984b02b6727ac10f1f7294484f737443d7e2e66c5e4380e41a3ae0b4ed"},
+    {file = "Babel-2.13.1.tar.gz", hash = "sha256:33e0952d7dd6374af8dbf6768cc4ddf3ccfefc244f9986d4074704f2fbd18900"},
 ]
 
 [package.extras]
 dev = ["freezegun (>=1.0,<2.0)", "pytest (>=6.0)", "pytest-cov"]
 
-[[package]]
-name = "backcall"
-version = "0.2.0"
-description = "Specifications for callback functions passed in to an API"
-optional = false
-python-versions = "*"
-files = [
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-    {file = "backcall-0.2.0.tar.gz", hash = "sha256:5cbdbf27be5e7cfadb448baf0aa95508f91f2bbc6c6437cd9cd06e2a4c215e1e"},
-]
-
 [[package]]
 name = "beautifulsoup4"
 version = "4.12.2"
@@ -177,15 +167,26 @@ soupsieve = ">1.2"
 html5lib = ["html5lib"]
 lxml = ["lxml"]
 
+[[package]]
+name = "blinker"
+version = "1.7.0"
+description = "Fast, simple object-to-object and broadcast signaling"
+optional = false
+python-versions = ">=3.8"
+files = [
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+    {file = "blinker-1.7.0.tar.gz", hash = "sha256:e6820ff6fa4e4d1d8e2747c2283749c3f547e4fee112b98555cdcdae32996182"},
+]
+
 [[package]]
 name = "cachetools"
-version = "5.3.1"
+version = "5.3.2"
 description = "Extensible memoizing collections and decorators"
 optional = true
 python-versions = ">=3.7"
 files = [
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+    {file = "cachetools-5.3.2.tar.gz", hash = "sha256:086ee420196f7b2ab9ca2db2520aca326318b68fe5ba8bc4d49cca91add450f2"},
 ]
 
 [[package]]
@@ -201,101 +202,101 @@ files = [
 
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 name = "charset-normalizer"
-version = "3.3.0"
+version = "3.3.2"
 description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet."
 optional = false
 python-versions = ">=3.7.0"
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 ]
 
 [[package]]
@@ -512,13 +513,13 @@ toml = ["tomli"]
 
 [[package]]
 name = "cycler"
-version = "0.12.0"
+version = "0.12.1"
 description = "Composable style cycles"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "cycler-0.12.0-py3-none-any.whl", hash = "sha256:7896994252d006771357777d0251f3e34d266f4fa5f2c572247a80ab01440947"},
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+    {file = "cycler-0.12.1.tar.gz", hash = "sha256:88bb128f02ba341da8ef447245a9e138fae777f6a23943da4540077d3601eb1c"},
 ]
 
 [package.extras]
@@ -527,13 +528,13 @@ tests = ["pytest", "pytest-cov", "pytest-xdist"]
 
 [[package]]
 name = "dash"
-version = "2.13.0"
+version = "2.14.1"
 description = "A Python framework for building reactive web-apps. Developed by Plotly."
 optional = false
 python-versions = ">=3.6"
 files = [
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+    {file = "dash-2.14.1.tar.gz", hash = "sha256:93dc9d665ec5d3720647d4cef4520a1c7cd1bde57e893ffeb7e6cd59781d3294"},
 ]
 
 [package.dependencies]
@@ -541,18 +542,19 @@ ansi2html = "*"
 dash-core-components = "2.0.0"
 dash-html-components = "2.0.0"
 dash-table = "5.0.0"
-Flask = ">=1.0.4,<2.3.0"
+Flask = ">=1.0.4,<3.1"
+importlib-metadata = {version = "*", markers = "python_version >= \"3.7\""}
 nest-asyncio = "*"
 plotly = ">=5.0.0"
 requests = "*"
 retrying = "*"
 setuptools = "*"
 typing-extensions = ">=4.1.1"
-Werkzeug = "<2.3.0"
+Werkzeug = "<3.1"
 
 [package.extras]
 celery = ["celery[redis] (>=5.1.2)", "importlib-metadata (<5)", "redis (>=3.5.3)"]
-ci = ["black (==21.6b0)", "black (==22.3.0)", "dash-dangerously-set-inner-html", "dash-flow-example (==0.0.5)", "flake8 (==3.9.2)", "flaky (==3.7.0)", "flask-talisman (==1.0.0)", "isort (==4.3.21)", "jupyterlab (<4.0.0)", "mimesis", "mock (==4.0.3)", "numpy", "openpyxl", "orjson (==3.5.4)", "orjson (==3.6.7)", "pandas (==1.1.5)", "pandas (>=1.4.0)", "preconditions", "pyarrow", "pyarrow (<3)", "pylint (==2.13.5)", "pytest-mock", "pytest-rerunfailures", "pytest-sugar (==0.9.6)", "xlrd (<2)", "xlrd (>=2.0.1)"]
+ci = ["black (==21.6b0)", "black (==22.3.0)", "dash-dangerously-set-inner-html", "dash-flow-example (==0.0.5)", "flake8 (==3.9.2)", "flaky (==3.7.0)", "flask-talisman (==1.0.0)", "isort (==4.3.21)", "jupyterlab (<4.0.0)", "mimesis", "mock (==4.0.3)", "numpy (<=1.25.2)", "openpyxl", "orjson (==3.5.4)", "orjson (==3.6.7)", "pandas (==1.1.5)", "pandas (>=1.4.0)", "preconditions", "pyarrow", "pyarrow (<3)", "pylint (==2.13.5)", "pytest-mock", "pytest-rerunfailures", "pytest-sugar (==0.9.6)", "xlrd (<2)", "xlrd (>=2.0.1)"]
 compress = ["flask-compress"]
 dev = ["PyYAML (>=5.4.1)", "coloredlogs (>=15.0.1)", "fire (>=0.4.0)"]
 diskcache = ["diskcache (>=5.2.1)", "multiprocess (>=0.70.12)", "psutil (>=5.8.0)"]
@@ -636,13 +638,13 @@ graph = ["objgraph (>=1.7.2)"]
 
 [[package]]
 name = "docutils"
-version = "0.19"
+version = "0.17.1"
 description = "Docutils -- Python Documentation Utilities"
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
 files = [
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+    {file = "docutils-0.17.1.tar.gz", hash = "sha256:686577d2e4c32380bb50cbb22f575ed742d58168cee37e99117a854bcd88f125"},
 ]
 
 [[package]]
@@ -661,13 +663,13 @@ test = ["pytest (>=6)"]
 
 [[package]]
 name = "executing"
-version = "2.0.0"
+version = "2.0.1"
 description = "Get the currently executing AST node of a frame, and other information"
 optional = false
-python-versions = "*"
+python-versions = ">=3.5"
 files = [
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 ]
 
 [package.extras]
@@ -690,37 +692,38 @@ pyrepl = ">=0.8.2"
 
 [[package]]
 name = "filelock"
-version = "3.12.4"
+version = "3.13.1"
 description = "A platform independent file lock."
 optional = false
 python-versions = ">=3.8"
 files = [
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 ]
 
 [package.extras]
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-testing = ["covdefaults (>=2.3)", "coverage (>=7.3)", "diff-cover (>=7.7)", "pytest (>=7.4)", "pytest-cov (>=4.1)", "pytest-mock (>=3.11.1)", "pytest-timeout (>=2.1)"]
-typing = ["typing-extensions (>=4.7.1)"]
+docs = ["furo (>=2023.9.10)", "sphinx (>=7.2.6)", "sphinx-autodoc-typehints (>=1.24)"]
+testing = ["covdefaults (>=2.3)", "coverage (>=7.3.2)", "diff-cover (>=8)", "pytest (>=7.4.3)", "pytest-cov (>=4.1)", "pytest-mock (>=3.12)", "pytest-timeout (>=2.2)"]
+typing = ["typing-extensions (>=4.8)"]
 
 [[package]]
 name = "flask"
-version = "2.2.5"
+version = "3.0.0"
 description = "A simple framework for building complex web applications."
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 files = [
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+    {file = "flask-3.0.0.tar.gz", hash = "sha256:cfadcdb638b609361d29ec22360d6070a77d7463dcb3ab08d2c2f2f168845f58"},
 ]
 
 [package.dependencies]
-click = ">=8.0"
+blinker = ">=1.6.2"
+click = ">=8.1.3"
 importlib-metadata = {version = ">=3.6.0", markers = "python_version < \"3.10\""}
-itsdangerous = ">=2.0"
-Jinja2 = ">=3.0"
-Werkzeug = ">=2.2.2"
+itsdangerous = ">=2.1.2"
+Jinja2 = ">=3.1.2"
+Werkzeug = ">=3.0.0"
 
 [package.extras]
 async = ["asgiref (>=3.2)"]
@@ -739,53 +742,53 @@ files = [
 
 [[package]]
 name = "fonttools"
-version = "4.43.0"
+version = "4.43.1"
 description = "Tools to manipulate font files"
 optional = false
 python-versions = ">=3.8"
 files = [
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 [package.dependencies]
@@ -1032,18 +1039,18 @@ numpy = ">=1.17.3"
 
 [[package]]
 name = "huggingface-hub"
-version = "0.17.3"
+version = "0.18.0"
 description = "Client library to download and publish models, datasets and other repos on the huggingface.co hub"
 optional = false
 python-versions = ">=3.8.0"
 files = [
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 [package.dependencies]
 filelock = "*"
-fsspec = "*"
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 packaging = ">=20.9"
 pyyaml = ">=5.1"
 requests = "*"
@@ -1149,25 +1156,23 @@ files = [
 
 [[package]]
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-version = "8.16.1"
+version = "8.17.2"
 description = "IPython: Productive Interactive Computing"
 optional = false
 python-versions = ">=3.9"
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 [package.dependencies]
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 decorator = "*"
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 jedi = ">=0.16"
 matplotlib-inline = "*"
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 prompt-toolkit = ">=3.0.30,<3.0.37 || >3.0.37,<3.1.0"
 pygments = ">=2.4.0"
 stack-data = "*"
@@ -1175,17 +1180,17 @@ traitlets = ">=5"
 typing-extensions = {version = "*", markers = "python_version < \"3.10\""}
 
 [package.extras]
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 nbconvert = ["nbconvert"]
 nbformat = ["nbformat"]
 notebook = ["ipywidgets", "notebook"]
 parallel = ["ipyparallel"]
 qtconsole = ["qtconsole"]
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 [[package]]
 name = "isort"
@@ -1486,8 +1491,6 @@ description = "Clang Python Bindings, mirrored from the official LLVM repo: http
 optional = true
 python-versions = "*"
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@@ -1557,20 +1560,20 @@ test = ["coverage", "flaky", "pytest", "pytest-cov"]
 
 [[package]]
 name = "markdown"
-version = "3.4.4"
+version = "3.5.1"
 description = "Python implementation of John Gruber's Markdown."
 optional = false
-python-versions = ">=3.7"
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 [package.dependencies]
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 [package.extras]
-docs = ["mdx-gh-links (>=0.2)", "mkdocs (>=1.0)", "mkdocs-nature (>=0.4)"]
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 testing = ["coverage", "pyyaml"]
 
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@@ -1644,39 +1637,39 @@ files = [
 
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+version = "3.8.1"
 description = "Python plotting package"
 optional = false
 python-versions = ">=3.9"
 files = [
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 [package.dependencies]
@@ -1684,13 +1677,12 @@ contourpy = ">=1.0.1"
 cycler = ">=0.10"
 fonttools = ">=4.22.0"
 importlib-resources = {version = ">=3.2.0", markers = "python_version < \"3.10\""}
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 numpy = ">=1.21,<2"
 packaging = ">=20.0"
-pillow = ">=6.2.0"
+pillow = ">=8"
 pyparsing = ">=2.3.1"
 python-dateutil = ">=2.7"
-setuptools_scm = ">=7"
 
 [[package]]
 name = "matplotlib-inline"
@@ -1745,8 +1737,8 @@ files = [
 
 [package.dependencies]
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+    {version = ">=1.21.2", markers = "python_version > \"3.9\""},
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@@ -1794,21 +1786,21 @@ files = [
 
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 [[package]]
 name = "numba"
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 [package.dependencies]
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 protobuf = ">=3.20.2"
-typing-extensions = ">=3.6.2.1"
 
 [package.extras]
-lint = ["lintrunner (>=0.10.0)", "lintrunner-adapters (>=0.3)"]
+reference = ["Pillow", "google-re2"]
 
 [[package]]
 name = "onnxconverter-common"
@@ -1967,35 +1952,35 @@ protobuf = "*"
 
 [[package]]
 name = "onnxruntime"
-version = "1.16.0"
+version = "1.16.1"
 description = "ONNX Runtime is a runtime accelerator for Machine Learning models"
 optional = true
 python-versions = "*"
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 ]
 
 [package.dependencies]
@@ -2074,7 +2059,7 @@ files = [
 [package.dependencies]
 numpy = [
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-    {version = ">=1.21.0", markers = "python_version >= \"3.10\" and python_version < \"3.11\""},
+    {version = ">=1.21.0", markers = "python_version >= \"3.10\""},
     {version = ">=1.23.2", markers = "python_version >= \"3.11\""},
 ]
 python-dateutil = ">=2.8.1"
@@ -2132,78 +2117,67 @@ files = [
 [package.dependencies]
 ptyprocess = ">=0.5"
 
-[[package]]
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-description = "Tiny 'shelve'-like database with concurrency support"
-optional = false
-python-versions = "*"
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-]
-
 [[package]]
 name = "pillow"
-version = "10.0.1"
+version = "10.1.0"
 description = "Python Imaging Library (Fork)"
 optional = false
 python-versions = ">=3.8"
 files = [
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 [package.extras]
@@ -2557,13 +2531,13 @@ files = [
 
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+version = "7.4.3"
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 files = [
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 [package.dependencies]
@@ -2698,13 +2672,13 @@ files = [
 
 [[package]]
 name = "qibo"
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+version = "0.2.2"
 description = "A framework for quantum computing with hardware acceleration."
 optional = false
 python-versions = ">=3.8,<3.12"
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 [package.dependencies]
@@ -2718,20 +2692,21 @@ tabulate = ">=0.9.0,<0.10.0"
 
 [[package]]
 name = "qibolab"
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+version = "0.1.3"
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 python-versions = ">=3.9,<3.12"
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 pyyaml = ">=6.0,<7.0"
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 [package.extras]
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@@ -2824,37 +2799,37 @@ pyasn1 = ">=0.1.3"
 
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 [package.dependencies]
@@ -2948,28 +2923,6 @@ docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "pygments-g
 testing = ["build[virtualenv]", "filelock (>=3.4.0)", "flake8-2020", "ini2toml[lite] (>=0.9)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pip (>=19.1)", "pip-run (>=8.8)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-mypy (>=0.9.1)", "pytest-perf", "pytest-ruff", "pytest-timeout", "pytest-xdist", "tomli-w (>=1.0.0)", "virtualenv (>=13.0.0)", "wheel"]
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-[[package]]
-name = "setuptools-scm"
-version = "8.0.4"
-description = "the blessed package to manage your versions by scm tags"
-optional = false
-python-versions = ">=3.8"
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-[package.dependencies]
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-tomli = {version = ">=1", markers = "python_version < \"3.11\""}
-typing-extensions = "*"
-
-[package.extras]
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-rich = ["rich"]
-test = ["build", "pytest", "rich", "wheel"]
-
 [[package]]
 name = "six"
 version = "1.16.0"
@@ -3145,21 +3098,21 @@ test = ["pytest"]
 
 [[package]]
 name = "sphinxcontrib-bibtex"
-version = "2.5.0"
+version = "2.6.1"
 description = "Sphinx extension for BibTeX style citations."
 optional = false
-python-versions = ">=3.6"
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 [package.dependencies]
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 importlib-metadata = {version = ">=3.6", markers = "python_version < \"3.10\""}
 pybtex = ">=0.24"
 pybtex-docutils = ">=1.0.0"
-Sphinx = ">=2.1"
+Sphinx = ">=3.5"
 
 [[package]]
 name = "sphinxcontrib-devhelp"
@@ -3334,14 +3287,14 @@ werkzeug = ">=1.0.1"
 
 [[package]]
 name = "tensorboard-data-server"
-version = "0.7.1"
+version = "0.7.2"
 description = "Fast data loading for TensorBoard"
 optional = true
 python-versions = ">=3.7"
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 ]
 
 [[package]]
@@ -3478,13 +3431,13 @@ files = [
 
 [[package]]
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-version = "0.12.1"
+version = "0.12.2"
 description = "Style preserving TOML library"
 optional = false
 python-versions = ">=3.7"
 files = [
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 ]
 
 [[package]]
@@ -3509,18 +3462,18 @@ telegram = ["requests"]
 
 [[package]]
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+version = "5.13.0"
 description = "Traitlets Python configuration system"
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 python-versions = ">=3.8"
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 [package.extras]
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+test = ["argcomplete (>=3.0.3)", "mypy (>=1.6.0)", "pre-commit", "pytest (>=7.0,<7.5)", "pytest-mock", "pytest-mypy-testing"]
 
 [[package]]
 name = "typing-extensions"
@@ -3572,41 +3525,41 @@ zstd = ["zstandard (>=0.18.0)"]
 
 [[package]]
 name = "wcwidth"
-version = "0.2.8"
+version = "0.2.9"
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 python-versions = "*"
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 [[package]]
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-version = "2.2.3"
+version = "3.0.1"
 description = "The comprehensive WSGI web application library."
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-python-versions = ">=3.7"
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 [package.dependencies]
 MarkupSafe = ">=2.1.1"
 
 [package.extras]
-watchdog = ["watchdog"]
+watchdog = ["watchdog (>=2.3)"]
 
 [[package]]
 name = "wheel"
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+version = "0.41.3"
 description = "A built-package format for Python"
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 python-versions = ">=3.7"
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 [package.extras]
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-    {file = "wrapt-1.14.1-cp311-cp311-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:a9008dad07d71f68487c91e96579c8567c98ca4c3881b9b113bc7b33e9fd78b8"},
-    {file = "wrapt-1.14.1-cp311-cp311-musllinux_1_1_aarch64.whl", hash = "sha256:6447e9f3ba72f8e2b985a1da758767698efa72723d5b59accefd716e9e8272bf"},
-    {file = "wrapt-1.14.1-cp311-cp311-musllinux_1_1_i686.whl", hash = "sha256:acae32e13a4153809db37405f5eba5bac5fbe2e2ba61ab227926a22901051c0a"},
-    {file = "wrapt-1.14.1-cp311-cp311-musllinux_1_1_x86_64.whl", hash = "sha256:49ef582b7a1152ae2766557f0550a9fcbf7bbd76f43fbdc94dd3bf07cc7168be"},
-    {file = "wrapt-1.14.1-cp311-cp311-win32.whl", hash = "sha256:358fe87cc899c6bb0ddc185bf3dbfa4ba646f05b1b0b9b5a27c2cb92c2cea204"},
-    {file = "wrapt-1.14.1-cp311-cp311-win_amd64.whl", hash = "sha256:26046cd03936ae745a502abf44dac702a5e6880b2b01c29aea8ddf3353b68224"},
     {file = "wrapt-1.14.1-cp35-cp35m-manylinux1_i686.whl", hash = "sha256:43ca3bbbe97af00f49efb06e352eae40434ca9d915906f77def219b88e85d907"},
     {file = "wrapt-1.14.1-cp35-cp35m-manylinux1_x86_64.whl", hash = "sha256:6b1a564e6cb69922c7fe3a678b9f9a3c54e72b469875aa8018f18b4d1dd1adf3"},
     {file = "wrapt-1.14.1-cp35-cp35m-manylinux2010_i686.whl", hash = "sha256:00b6d4ea20a906c0ca56d84f93065b398ab74b927a7a3dbd470f6fc503f95dc3"},
diff --git a/runcards/monitor.yml b/runcards/monitor.yml
new file mode 100644
index 000000000..30c1aafb7
--- /dev/null
+++ b/runcards/monitor.yml
@@ -0,0 +1,38 @@
+
+actions:
+
+  - id: t1
+    priority: 00
+    operation: t1_msr
+    main: t2
+    parameters:
+      delay_before_readout_start: 50
+      delay_before_readout_end: 100000
+      delay_before_readout_step: 2500
+      nshots: 1024
+
+  - id: t2
+    priority: 10
+    operation: t2_msr
+    main: readout characterization
+    parameters:
+      delay_between_pulses_start: 50
+      delay_between_pulses_end: 100000
+      delay_between_pulses_step: 2500
+      nshots: 1024
+
+  - id: readout characterization
+    priority: 20
+    # main: standard rb bootstrap
+    operation: readout_characterization
+    parameters:
+      nshots: 5000
+
+  # - id: standard rb bootstrap
+  #   priority: 40
+  #   operation: standard_rb
+  #   parameters:
+  #     depths: [10, 100, 150, 200, 250, 300]
+  #     niter: 8
+  #     nshots: 256
+  #     n_bootstrap: 10
diff --git a/src/qibocal/auto/runcard.py b/src/qibocal/auto/runcard.py
index dd19ef649..83bf1649b 100644
--- a/src/qibocal/auto/runcard.py
+++ b/src/qibocal/auto/runcard.py
@@ -1,4 +1,5 @@
 """Specify runcard layout, handles (de)serialization."""
+import os
 from functools import cached_property
 from typing import Any, NewType, Optional, Union
 
@@ -47,10 +48,9 @@ class Runcard:
     """Structure of an execution runcard."""
 
     actions: list[Action]
-    qubits: Union[list[QubitId], list[tuple[QubitId, QubitId]]]
+    qubits: Optional[Union[list[QubitId], list[tuple[QubitId, QubitId]]]] = None
     backend: str = "qibolab"
-    platform: str = "dummy"
-    # TODO: pass custom runcard (?)
+    platform: str = os.environ.get("QIBO_PLATFORM", "dummy")
 
     @cached_property
     def backend_obj(self) -> Backend:
diff --git a/src/qibocal/cli/_base.py b/src/qibocal/cli/_base.py
index bad9c2e32..6599f3242 100644
--- a/src/qibocal/cli/_base.py
+++ b/src/qibocal/cli/_base.py
@@ -5,6 +5,7 @@
 import click
 import yaml
 
+from ..auto.runcard import Runcard
 from .acquisition import acquire as acquisition
 from .autocalibration import autocalibrate
 from .fit import fit as fitting
@@ -43,15 +44,31 @@ def command():
     help="Use --no-update option to avoid updating iteratively the platform."
     "With this option the new runcard will not be produced.",
 )
-def auto(runcard, folder, force, update):
+@click.option(
+    "--platform",
+    default=None,
+    help="Name of the Qibolab platform.",
+)
+@click.option(
+    "--backend",
+    default=None,
+    help="Name of the Qibo backend.,",
+)
+def auto(runcard, folder, force, update, platform, backend):
     """Autocalibration
 
     Arguments:
 
      - RUNCARD: runcard with declarative inputs.
     """
-    card = yaml.safe_load(runcard.read_text(encoding="utf-8"))
-    autocalibrate(card, folder, force, update)
+    runcard = Runcard.load(yaml.safe_load(runcard.read_text(encoding="utf-8")))
+
+    if platform is not None:
+        runcard.platform = platform
+    if backend is not None:
+        runcard.backend = backend
+
+    autocalibrate(runcard, folder, force, update)
 
 
 @command.command(context_settings=CONTEXT_SETTINGS)
@@ -59,7 +76,7 @@ def auto(runcard, folder, force, update):
     "runcard", metavar="RUNCARD", type=click.Path(exists=True, path_type=pathlib.Path)
 )
 @click.option(
-    "folder",
+    "--folder",
     "-o",
     type=click.Path(path_type=pathlib.Path),
     help="Output folder. If not provided a standard name will generated.",
@@ -70,15 +87,31 @@ def auto(runcard, folder, force, update):
     is_flag=True,
     help="Use --force option to overwrite the output folder.",
 )
-def acquire(runcard, folder, force):
+@click.option(
+    "--platform",
+    default=None,
+    help="Name of the Qibolab platform.",
+)
+@click.option(
+    "--backend",
+    default=None,
+    help="Name of the Qibo backend.,",
+)
+def acquire(runcard, folder, force, platform, backend):
     """Data acquisition
 
     Arguments:
 
      - RUNCARD: runcard with declarative inputs.
     """
-    card = yaml.safe_load(runcard.read_text(encoding="utf-8"))
-    acquisition(card, folder, force)
+    runcard = Runcard.load(yaml.safe_load(runcard.read_text(encoding="utf-8")))
+
+    if platform is not None:
+        runcard.platform = platform
+    if backend is not None:
+        runcard.backend = backend
+
+    acquisition(runcard, folder, force)
 
 
 @command.command(context_settings=CONTEXT_SETTINGS)
diff --git a/src/qibocal/cli/acquisition.py b/src/qibocal/cli/acquisition.py
index 6d602d036..fdce5cd47 100644
--- a/src/qibocal/cli/acquisition.py
+++ b/src/qibocal/cli/acquisition.py
@@ -8,7 +8,6 @@
 from ..auto.execute import Executor
 from ..auto.history import add_timings_to_meta
 from ..auto.mode import ExecutionMode
-from ..auto.runcard import Runcard
 from .utils import (
     META,
     PLATFORM,
@@ -19,33 +18,34 @@
 )
 
 
-def acquire(card, folder, force):
+def acquire(runcard, folder, force):
     """Data acquisition
 
     Arguments:
 
      - RUNCARD: runcard with declarative inputs.
     """
-    # load and initialize Runcard from file
-    runcard = Runcard.load(card)
 
+    # rename for brevity
+    backend = runcard.backend_obj
+    platform = runcard.platform_obj
     # generate output folder
     path = generate_output_folder(folder, force)
-    # generate meta
-    meta = generate_meta(runcard, path)
 
+    # set backend, platform and qubits
+    qubits = create_qubits_dict(qubits=runcard.qubits, platform=platform)
+
+    # generate meta
+    meta = generate_meta(backend, platform, path)
     # dump platform
-    if runcard.backend == "qibolab":
-        dump_runcard(runcard.platform_obj, path / PLATFORM)
+    if backend.name == "qibolab":
+        dump_runcard(platform, path / PLATFORM)
 
     # dump action runcard
     (path / RUNCARD).write_text(yaml.safe_dump(asdict(runcard)))
     # dump meta
     (path / META).write_text(json.dumps(meta, indent=4))
 
-    # allocate qubits, runcard and executor
-    qubits = create_qubits_dict(runcard)
-    platform = runcard.platform_obj
     executor = Executor.load(runcard, path, platform, qubits)
 
     # connect and initialize platform
@@ -59,6 +59,7 @@ def acquire(card, folder, force):
 
     e = datetime.datetime.now(datetime.timezone.utc)
     meta["end-time"] = e.strftime("%H:%M:%S")
+
     # stop and disconnect platform
     if platform is not None:
         platform.stop()
diff --git a/src/qibocal/cli/autocalibration.py b/src/qibocal/cli/autocalibration.py
index b7ea6d208..520ad2348 100644
--- a/src/qibocal/cli/autocalibration.py
+++ b/src/qibocal/cli/autocalibration.py
@@ -8,7 +8,6 @@
 from ..auto.execute import Executor
 from ..auto.history import add_timings_to_meta
 from ..auto.mode import ExecutionMode
-from ..auto.runcard import Runcard
 from ..cli.report import ReportBuilder
 from .utils import (
     META,
@@ -21,32 +20,35 @@
 )
 
 
-def autocalibrate(card, folder, force, update):
+def autocalibrate(runcard, folder, force, update):
     """Autocalibration
 
     Arguments:
 
      - RUNCARD: runcard with declarative inputs.
     """
-    # load and initialize Runcard from file
-    runcard = Runcard.load(card)
 
+    # rename for brevity
+    backend = runcard.backend_obj
+    platform = runcard.platform_obj
     # generate output folder
     path = generate_output_folder(folder, force)
-    # generate meta
-    meta = generate_meta(runcard, path)
 
+    # allocate qubits
+    qubits = create_qubits_dict(qubits=runcard.qubits, platform=platform)
+
+    # generate meta
+    meta = generate_meta(backend, platform, path)
     # dump platform
-    if runcard.backend == "qibolab":
-        dump_runcard(runcard.platform_obj, path / PLATFORM)
+    if backend.name == "qibolab":
+        dump_runcard(platform, path / PLATFORM)
+
     # dump action runcard
     (path / RUNCARD).write_text(yaml.safe_dump(asdict(runcard)))
     # dump meta
     (path / META).write_text(json.dumps(meta, indent=4))
 
-    # allocate qubits, runcard and executor
-    qubits = create_qubits_dict(runcard)
-    platform = runcard.platform_obj
+    # allocate executor
     executor = Executor.load(runcard, path, platform, qubits, update)
 
     # connect and initialize platform
@@ -55,13 +57,14 @@ def autocalibrate(card, folder, force, update):
         platform.setup()
         platform.start()
 
-    e = datetime.datetime.now(datetime.timezone.utc)
-    meta["end-time"] = e.strftime("%H:%M:%S")
     # run protocols
-    for task_uid in executor.run(mode=ExecutionMode.autocalibration):
-        report = ReportBuilder(path, runcard.qubits, executor, meta, executor.history)
+    for _ in executor.run(mode=ExecutionMode.autocalibration):
+        report = ReportBuilder(path, qubits, executor, meta, executor.history)
         report.run(path)
 
+    e = datetime.datetime.now(datetime.timezone.utc)
+    meta["end-time"] = e.strftime("%H:%M:%S")
+
     # stop and disconnect platform
     if platform is not None:
         platform.stop()
diff --git a/src/qibocal/cli/fit.py b/src/qibocal/cli/fit.py
index 686e7303f..63813d9ba 100644
--- a/src/qibocal/cli/fit.py
+++ b/src/qibocal/cli/fit.py
@@ -2,6 +2,7 @@
 import json
 
 import yaml
+from qibo.backends import GlobalBackend
 from qibolab.serialize import dump_runcard
 
 from ..auto.execute import Executor
@@ -19,23 +20,34 @@ def fit(path, update):
     - FOLDER: input folder.
 
     """
-    # load path, meta, runcard and executor
-    meta = yaml.safe_load((path / META).read_text())
+    # load meta
+    meta = json.loads((path / META).read_text())
+    # load runcard
     runcard = Runcard.load(yaml.safe_load((path / RUNCARD).read_text()))
-    qubits = create_qubits_dict(runcard)
+
+    # set backend, platform and qubits
+    GlobalBackend.set_backend(backend=meta["backend"], platform=meta["platform"])
+    backend = GlobalBackend()
+    platform = backend.platform
+    qubits = create_qubits_dict(qubits=runcard.qubits, platform=platform)
+
+    # load executor
     executor = Executor.load(
-        runcard, path, update=update, platform=runcard.platform_obj, qubits=qubits
+        runcard, path, update=update, platform=platform, qubits=qubits
     )
 
     # perform post-processing
     list(executor.run(mode=ExecutionMode.fit))
 
-    # dump updated runcard
-    if runcard.platform_obj is not None and update:
-        dump_runcard(runcard.platform_obj, path / UPDATED_PLATFORM)
-
-    # update time in meta.yml
+    # update time in meta
     meta = add_timings_to_meta(meta, executor.history)
     e = datetime.datetime.now(datetime.timezone.utc)
     meta["end-time"] = e.strftime("%H:%M:%S")
+
+    # dump updated runcard
+    if platform is not None and update:  # pragma: no cover
+        # cannot test update since dummy may produce wrong values and trigger errors
+        dump_runcard(platform, path / UPDATED_PLATFORM)
+
+    # dump json
     (path / META).write_text(json.dumps(meta, indent=4))
diff --git a/src/qibocal/cli/report.py b/src/qibocal/cli/report.py
index f5dabaae9..88eb217a9 100644
--- a/src/qibocal/cli/report.py
+++ b/src/qibocal/cli/report.py
@@ -1,8 +1,10 @@
+import json
 import tempfile
 from functools import cached_property
 from pathlib import Path
 
 import yaml
+from qibo.backends import GlobalBackend
 from qibolab.qubits import QubitId
 
 from qibocal.auto.execute import Executor
@@ -26,15 +28,22 @@ def report(path):
     - FOLDER: input folder.
 
     """
-    # load path, meta and runcard
-    meta = yaml.safe_load((path / META).read_text())
+    # load meta
+    meta = json.loads((path / META).read_text())
+    # load runcard
     runcard = Runcard.load(yaml.safe_load((path / RUNCARD).read_text()))
-    qubits = create_qubits_dict(runcard)
+
+    # set backend, platform and qubits
+    GlobalBackend.set_backend(backend=meta["backend"], platform=meta["platform"])
+    backend = GlobalBackend()
+    platform = backend.platform
+    qubits = create_qubits_dict(qubits=runcard.qubits, platform=platform)
+
     # load executor
     executor = Executor.load(runcard, path, qubits=qubits)
 
     # produce html
-    builder = ReportBuilder(path, runcard.qubits, executor, meta)
+    builder = ReportBuilder(path, qubits, executor, meta)
     builder.run(path)
 
 
diff --git a/src/qibocal/cli/utils.py b/src/qibocal/cli/utils.py
index 3d5d2cc36..7ed9ac83a 100644
--- a/src/qibocal/cli/utils.py
+++ b/src/qibocal/cli/utils.py
@@ -21,19 +21,17 @@ def dump_report(meta, path):
     (path / META).write_text(json.dumps(meta, indent=4))
 
 
-def create_qubits_dict(runcard):
-    """Qubits dictionary."""
-    platform = runcard.platform_obj
+def create_qubits_dict(qubits, platform):
     if platform is not None:
-        if any(isinstance(i, list) for i in runcard.qubits):
-            return allocate_qubits_pairs(platform, runcard.qubits)
+        if qubits is not None:
+            if any(isinstance(i, list) for i in qubits):
+                return allocate_qubits_pairs(platform, qubits)
+            return allocate_single_qubits(platform, qubits)
+        return allocate_single_qubits(platform, list(platform.qubits))
+    return qubits
 
-        return allocate_single_qubits(platform, runcard.qubits)
 
-    return runcard.qubits
-
-
-def generate_meta(runcard, path):
+def generate_meta(backend, platform, path):
     """Methods that takes care of:
     - dumping original platform
     - storing qq runcard
@@ -45,12 +43,12 @@ def generate_meta(runcard, path):
     e = datetime.datetime.now(datetime.timezone.utc)
     meta = {}
     meta["title"] = path.name
-    meta["backend"] = str(runcard.backend_obj)
-    meta["platform"] = str(runcard.platform_obj)
+    meta["backend"] = backend.name
+    meta["platform"] = str(platform)
     meta["date"] = e.strftime("%Y-%m-%d")
     meta["start-time"] = e.strftime("%H:%M:%S")
     meta["end-time"] = e.strftime("%H:%M:%S")
-    meta["versions"] = runcard.backend_obj.versions  # pylint: disable=E1101
+    meta["versions"] = backend.versions  # pylint: disable=E1101
     meta["versions"]["qibocal"] = qibocal.__version__
 
     return meta
diff --git a/src/qibocal/protocols/characterization/readout_characterization.py b/src/qibocal/protocols/characterization/readout_characterization.py
index dec131aca..c478323b7 100644
--- a/src/qibocal/protocols/characterization/readout_characterization.py
+++ b/src/qibocal/protocols/characterization/readout_characterization.py
@@ -8,6 +8,7 @@
 from qibolab.pulses import PulseSequence
 from qibolab.qubits import QubitId
 
+from qibocal import update
 from qibocal.auto.operation import Data, Parameters, Qubits, Results, Routine
 from qibocal.protocols.characterization.utils import table_dict, table_html
 
@@ -23,6 +24,8 @@ class ReadoutCharacterizationResults(Results):
 
     fidelity: dict[QubitId, float]
     "Fidelity of the measurement"
+    assignment_fidelity: dict[QubitId, float]
+    """Assignment fidelity."""
     qnd: dict[QubitId, float]
     "QND-ness of the measurement"
     Lambda_M: dict[QubitId, float]
@@ -104,6 +107,7 @@ def _fit(data: ReadoutCharacterizationData) -> ReadoutCharacterizationResults:
     """Post-processing function for ReadoutCharacterization."""
 
     qubits = data.qubits
+    assignment_fidelity = {}
     fidelity = {}
     qnd = {}
     Lambda_M = {}
@@ -137,10 +141,12 @@ def _fit(data: ReadoutCharacterizationData) -> ReadoutCharacterizationResults:
             [state1_count_0_m1 / nshots, state1_count_1_m1 / nshots],
         ]
 
-        fidelity[qubit] = (
+        assignment_fidelity[qubit] = (
             1 - (state1_count_0_m1 / nshots + state0_count_1_m1 / nshots) / 2
         )
 
+        fidelity[qubit] = 2 * assignment_fidelity[qubit] - 1
+
         # QND FIXME: Careful revision
         P_0o_m0_1i = state0_count_1_m1 * state0_count_0_m2 / nshots**2
         P_0o_m1_1i = state1_count_1_m1 * state0_count_1_m2 / nshots**2
@@ -152,7 +158,7 @@ def _fit(data: ReadoutCharacterizationData) -> ReadoutCharacterizationResults:
 
         qnd[qubit] = 1 - (P_0o_1i + P_1o_0i) / 2
 
-    return ReadoutCharacterizationResults(fidelity, qnd, Lambda_M)
+    return ReadoutCharacterizationResults(fidelity, assignment_fidelity, qnd, Lambda_M)
 
 
 def _plot(
@@ -174,8 +180,12 @@ def _plot(
         fitting_report = table_html(
             table_dict(
                 qubit,
-                ["Fidelity", "QND"],
-                [np.round(fit.fidelity[qubit], 6), np.round(fit.qnd[qubit], 6)],
+                ["Assignment Fidelity", "Fidelity", "QND"],
+                [
+                    np.round(fit.assignment_fidelity[qubit], 6),
+                    np.round(fit.fidelity[qubit], 6),
+                    np.round(fit.qnd[qubit], 6),
+                ],
             )
         )
 
@@ -196,5 +206,12 @@ def _plot(
     return figures, fitting_report
 
 
-readout_characterization = Routine(_acquisition, _fit, _plot)
+def _update(
+    results: ReadoutCharacterizationResults, platform: Platform, qubit: QubitId
+):
+    update.readout_fidelity(results.fidelity[qubit], platform, qubit)
+    update.assignment_fidelity(results.assignment_fidelity[qubit], platform, qubit)
+
+
+readout_characterization = Routine(_acquisition, _fit, _plot, _update)
 """ReadoutCharacterization Routine object."""
diff --git a/tests/runcards/protocols.yml b/tests/runcards/protocols.yml
index 460e1d1a4..f100f6c4a 100644
--- a/tests/runcards/protocols.yml
+++ b/tests/runcards/protocols.yml
@@ -206,6 +206,7 @@ actions:
   - id: rabi
     priority: 0
     operation: rabi_amplitude
+    update: false
     parameters:
       min_amp_factor: 0.0
       max_amp_factor: 4.0
@@ -216,6 +217,7 @@ actions:
   - id: rabi msr
     priority: 0
     operation: rabi_amplitude_msr
+    update: false
     parameters:
       min_amp_factor: 0.0
       max_amp_factor: 4.0
@@ -451,6 +453,7 @@ actions:
   - id: flipping
     priority: 0
     operation: flipping
+    update: false
     parameters:
       nflips_max: 5
       nflips_step: 1
diff --git a/tests/test_cli_utils.py b/tests/test_cli_utils.py
new file mode 100644
index 000000000..38bc14203
--- /dev/null
+++ b/tests/test_cli_utils.py
@@ -0,0 +1,19 @@
+"""Testing cli utils."""
+from qibolab import create_platform
+
+from qibocal.cli.utils import create_qubits_dict
+
+PLATFORM = create_platform("dummy")
+
+
+def test_create_qubits_dict():
+    """Testing create_qubits_dict."""
+    qubits = list(PLATFORM.qubits)
+
+    target_qubits = create_qubits_dict(qubits, PLATFORM)
+    assert target_qubits == PLATFORM.qubits
+
+    pairs = [list(pair) for pair in list(PLATFORM.pairs)]
+    target_pairs = create_qubits_dict(pairs, PLATFORM)
+    assert target_pairs == {pair: PLATFORM.pairs[pair] for pair in PLATFORM.pairs}
+    assert [0, 1, 2] == create_qubits_dict([0, 1, 2], None)
diff --git a/tests/test_protocols.py b/tests/test_protocols.py
index beb73fe76..9d9155880 100644
--- a/tests/test_protocols.py
+++ b/tests/test_protocols.py
@@ -3,22 +3,22 @@
 
 import pytest
 import yaml
+from click.testing import CliRunner
 from qibolab import create_platform
 
-from qibocal.cli.acquisition import acquire
-from qibocal.cli.autocalibration import autocalibrate
-from qibocal.cli.fit import fit
-from qibocal.cli.report import report
+from qibocal.cli._base import command
 
 PATH_TO_RUNCARD = pathlib.Path(__file__).parent / "runcards/protocols.yml"
 PLATFORM = create_platform("dummy")
+SINGLE_ACTION_RUNCARD = "action.yml"
 
 
 def generate_runcard_single_protocol():
     with open(PATH_TO_RUNCARD) as file:
         actions = yaml.safe_load(file)
     for action in actions["actions"]:
-        yield {"actions": [action], "qubits": list(PLATFORM.qubits)}
+        card = {"actions": [action], "qubits": list(PLATFORM.qubits)}
+        yield card
 
 
 def idfn(val):
@@ -26,27 +26,96 @@ def idfn(val):
     return val["actions"][0]["id"]
 
 
-@pytest.mark.parametrize("update", [True, False])
+@pytest.mark.parametrize("platform", ["dummy"])
+@pytest.mark.parametrize("backend", ["qibolab"])
+@pytest.mark.parametrize("update", ["--update", "--no-update"])
 @pytest.mark.parametrize("runcard", generate_runcard_single_protocol(), ids=idfn)
-def test_action_builder(runcard, update, tmp_path):
-    """Test ActionBuilder for all protocols."""
-    autocalibrate(runcard, tmp_path, force=True, update=update)
-    report(tmp_path)
+def test_auto_command(runcard, update, platform, backend, tmp_path):
+    """Test auto command pipeline."""
 
+    (tmp_path / SINGLE_ACTION_RUNCARD).write_text(yaml.safe_dump(runcard))
+    runner = CliRunner()
+    results = runner.invoke(
+        command,
+        [
+            "auto",
+            str(tmp_path / SINGLE_ACTION_RUNCARD),
+            "-o",
+            f"{str(tmp_path)}",
+            "-f",
+            "--backend",
+            backend,
+            "--platform",
+            platform,
+            update,
+        ],
+    )
+    assert not results.exception
+    assert results.exit_code == 0
 
+
+@pytest.mark.parametrize("platform", ["dummy"])
+@pytest.mark.parametrize("backend", ["qibolab"])
 @pytest.mark.parametrize("runcard", generate_runcard_single_protocol(), ids=idfn)
-def test_acquisition_builder(runcard, tmp_path):
-    """Test AcquisitionBuilder for all protocols."""
-    acquire(runcard, tmp_path, force=True)
-    report(tmp_path)
+def test_acquire_command(runcard, backend, platform, tmp_path):
+    """Test acquire command pipeline and report generated."""
+    (tmp_path / SINGLE_ACTION_RUNCARD).write_text(yaml.safe_dump(runcard))
+    runner = CliRunner()
+
+    # test acquisition
+    results = runner.invoke(
+        command,
+        [
+            "acquire",
+            str(tmp_path / SINGLE_ACTION_RUNCARD),
+            "-o",
+            f"{str(tmp_path)}",
+            "-f",
+            "--backend",
+            backend,
+            "--platform",
+            platform,
+        ],
+    )
+    assert not results.exception
+    assert results.exit_code == 0
+
+    # generate report from acquired data
+    results_report = runner.invoke(command, ["report", str(tmp_path)])
+    assert not results_report.exception
+    assert results_report.exit_code == 0
 
 
 @pytest.mark.parametrize("runcard", generate_runcard_single_protocol(), ids=idfn)
-def test_fit_builder(runcard, tmp_path):
-    """Test FitBuilder."""
-    acquire(runcard, tmp_path, force=True)
-    fit(tmp_path, update=False)
-    report(tmp_path)
+def test_fit_command(runcard, tmp_path):
+    """Test fit builder and report generated."""
+    (tmp_path / SINGLE_ACTION_RUNCARD).write_text(yaml.safe_dump(runcard))
+    runner = CliRunner()
+
+    # test acquisition
+    results = runner.invoke(
+        command,
+        [
+            "acquire",
+            str(tmp_path / SINGLE_ACTION_RUNCARD),
+            "-o",
+            f"{str(tmp_path)}",
+            "-f",
+        ],
+    )
+    assert not results.exception
+    assert results.exit_code == 0
+
+    # perform fit
+    results_fit = runner.invoke(command, ["fit", str(tmp_path), "--no-update"])
+
+    assert not results_fit.exception
+    assert results_fit.exit_code == 0
+
+    # generate report with fit and plot
+    results_plot = runner.invoke(command, ["report", str(tmp_path)])
+    assert not results_plot.exception
+    assert results_plot.exit_code == 0
 
 
 # TODO: compare report by calling qq report