diff --git a/.codespellrc b/.codespellrc
deleted file mode 100644
index f898a0f3..00000000
--- a/.codespellrc
+++ /dev/null
@@ -1,4 +0,0 @@
-[codespell]
-skip = .git,*.pdf,*.svg,analysis_pipelines_full_descriptions.tsv
-# softwares - key in data structures etc
-ignore-words-list = te,fpr,fwe,softwares
diff --git a/setup.cfg b/.flake8
similarity index 100%
rename from setup.cfg
rename to .flake8
diff --git a/.github/workflows/pipeline_status.yml b/.github/workflows/pipeline_status.yml
index 195dac35..e8c4ad60 100644
--- a/.github/workflows/pipeline_status.yml
+++ b/.github/workflows/pipeline_status.yml
@@ -56,7 +56,7 @@ jobs:
         git config user.name github-actions
         git config user.email github-actions@github.com
 
-        # Test if there are changes in the repository before commiting
+        # Test if there are changes in the repository before committing
         if [[ $(git diff --name-only) ]]; then
           git add .
           git commit -m "Pipeline status updated"
diff --git a/MANIFEST.in b/MANIFEST.in
new file mode 100644
index 00000000..c4fd6230
--- /dev/null
+++ b/MANIFEST.in
@@ -0,0 +1,2 @@
+include narps_open/utils/configuration/*.toml
+include narps_open/data/description/*.tsv
\ No newline at end of file
diff --git a/environment.yml b/environment.yml
index e2fa4b95..2a9393fa 100644
--- a/environment.yml
+++ b/environment.yml
@@ -4,12 +4,7 @@ channels:
   - defaults
 dependencies:
   - python=3.8.0
-  - pip
-  - traits 
-  - jupyter 
-  - nilearn 
-  - graphviz 
-  - nipype 
-  - scikit-image
+  - pip==23.2.1
   - pip:
-    - matplotlib
+    - .
+
diff --git a/pyproject.toml b/pyproject.toml
new file mode 100644
index 00000000..641c2dbf
--- /dev/null
+++ b/pyproject.toml
@@ -0,0 +1,59 @@
+[build-system]
+build-backend = "hatchling.build"
+requires = ["hatchling"]
+
+
+[project]
+name = 'narps_open'
+version = '0.1.0'
+description = 'The NARPS open pipelines project: a codebase reproducing the 70 pipelines of the NARPS study (Botvinik-Nezer et al., 2020).'
+readme = "README.md"
+classifiers = [
+    'Programming Language :: Python',
+    'Programming Language :: Python :: 3',
+    'Programming Language :: Python :: 3.8'
+]
+requires-python = '>=3.8,<3.12'
+dependencies = [
+    'importlib_resources>=5.10.2,<5.11',
+    'tomli>=2.0.1,<2.1',
+    'nilearn==0.10.1',
+    'jupyterlab',
+    'graphviz',
+    'traits==6.3.0',
+    'nipype==1.8.6',
+    'scikit-image==0.21.0',
+    'matplotlib==3.7.3',
+]
+
+
+[project.urls]
+Homepage = 'https://github.com/Inria-Empenn/narps_open_pipelines'
+"Bug trakcer" = 'https://github.com/Inria-Empenn/narps_open_pipelines/issues'
+Source = 'https://github.com/Inria-Empenn/narps_open_pipelines'
+
+
+[project.optional-dependencies]
+tests= [
+        'pylint',
+        'pytest',
+        'pytest-cov',
+        'pytest-helpers-namespace',
+        'pytest-mock',
+        'checksumdir'
+]
+
+
+[tool.pytest.ini_options]
+addopts = "--strict-markers"
+testpaths =["tests"]
+markers = [
+    "pipeline_test: marks tests that execute complete pipelines",
+    "unit_test: marks unit tests"
+]
+
+
+[tool.codespell]
+skip = ".git,*.pdf,*.svg,analysis_pipelines_full_descriptions.tsv,data,env,run"
+# softwares - key in data structures etc
+ignore-words-list = "te,fpr,fwe,softwares"
\ No newline at end of file
diff --git a/pytest.ini b/pytest.ini
deleted file mode 100644
index 14522dc7..00000000
--- a/pytest.ini
+++ /dev/null
@@ -1,7 +0,0 @@
-[pytest]
-addopts = --strict-markers
-testpaths =
-    tests
-markers =
-    pipeline_test: marks tests that execute complete pipelines
-    unit_test: marks unit tests
diff --git a/setup.py b/setup.py
deleted file mode 100644
index 7d961c60..00000000
--- a/setup.py
+++ /dev/null
@@ -1,66 +0,0 @@
-#!/usr/bin/python
-# coding: utf-8
-
-"""
-Allow the project to be installed as a local package, using :
-    python -m pip install .
-    or
-    python -m pip install -e .
-The -e option stands for editable, which allows to change the
-source code of the package without having to reinstall it. Using this option
-will add the current directory (.) to the system path.
-"""
-
-from setuptools import setup, find_packages
-
-requires = [
-    'importlib_resources>=5.10.2,<5.11',
-    'tomli>=2.0.1,<2.1',
-    'networkx>=2.0,<3.0', # a workaround to nipype's bug (issue 3530)
-    'nilearn>=0.10.0,<0.11',
-    'nipype',
-    'pandas'
-]
-extras_require = {
-    'tests': [
-        'pylint',
-        'pytest',
-        'pytest-cov',
-        'pytest-helpers-namespace',
-        'pytest-mock',
-        'checksumdir'
-        ]
-}
-
-setup(
-    name = 'narps_open',
-    version = '0.1.0',
-    description = 'The NARPS open pipelines project :\
-    a codebase reproducing the 70 pipelines of the NARPS study (Botvinik-Nezer et al., 2020).',
-    long_description = 'file: README.md',
-    long_description_content_type = 'text/markdown',
-    author = '',
-    author_email = '',
-    url = 'https://github.com/Inria-Empenn/narps_open_pipelines',
-
-    include_package_data = True,
-    python_requires = '>=3.8,<3.12',
-    install_requires = requires,
-    extras_require = extras_require,
-    classifiers = [
-        'Programming Language :: Python',
-        'Programming Language :: Python :: 3',
-        'Programming Language :: Python :: 3.8'
-    ],
-    project_urls = {
-        'Bug Tracker': 'https://github.com/Inria-Empenn/narps_open_pipelines/issues',
-        'Source': 'https://github.com/Inria-Empenn/narps_open_pipelines',
-    },
-    packages = find_packages(exclude=('tests', 'examples')),
-    data_files = [
-        ('narps_open/utils/configuration', ['narps_open/utils/configuration/default_config.toml']),
-        ('narps_open/utils/configuration', ['narps_open/utils/configuration/testing_config.toml']),
-        ('narps_open/data/description', ['narps_open/data/description/analysis_pipelines_derived_descriptions.tsv']),
-        ('narps_open/data/description', ['narps_open/data/description/analysis_pipelines_full_descriptions.tsv'])
-    ]
-)
diff --git a/tests/__init__.py b/tests/__init__.py
new file mode 100644
index 00000000..e69de29b