merge validation to main

.coveragerc

@@ -1,7 +1,7 @@
 [run]
 relative_files = True
 branch = True
-omit = 
+omit =
     */tests/*
     */__init__.py
 	docs/

.gitignore

@@ -11,3 +11,5 @@ dist/
 sos_trades_core.egg-info/
 sostrades_core.egg-info/
 /.pytest_cache/
+.vscode
+.ruff.toml

.pre-commit-config.yaml

@@ -1,50 +1,51 @@
-repos:
-  - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.5.0
-    hooks:
-      - id: ruff
-        args: [
-          --fix,
-          --preview,
-          --exit-non-zero-on-fix,
-        ]
-  - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.5.0
-    hooks:
-      - id: trailing-whitespace
-      - id: end-of-file-fixer
-        exclude: LICENSES/headers
-      - id: check-yaml
-        # !reference is specific to gitlab
-        # !! prefix is specific to mkdocs
-        exclude: \.gitlab-ci.yml|mkdocs.yml
-      - id: check-added-large-files
-      - id: check-json
-      - id: pretty-format-json
-        args: [
-          --autofix,
-          --no-sort-keys,
-        ]
-        exclude: \.ipynb
-      - id: check-toml
-      - id: destroyed-symlinks
-      - id: check-symlinks
-  - repo: https://github.com/pre-commit/pygrep-hooks
-    rev: v1.10.0
-    hooks:
-      - id: rst-backticks
-      - id: rst-directive-colons
-      - id: rst-inline-touching-normal
-  - repo: https://github.com/kynan/nbstripout
-    rev: 0.7.1
-    hooks:
-      - id: nbstripout
-  - repo: https://github.com/igorshubovych/markdownlint-cli
-    rev: v0.39.0
-    hooks:
-    - id: markdownlint
-      args: [
-        --fix,
-        --disable,
-        MD024,
-        ]
+repos:
+  - repo: https://github.com/astral-sh/ruff-pre-commit
+    rev: v0.5.0
+    hooks:
+      - id: ruff
+        args: [
+          --fix,
+          --preview,
+          --exit-non-zero-on-fix,
+          --config=ruff.toml,
+        ]
+  - repo: https://github.com/pre-commit/pre-commit-hooks
+    rev: v4.5.0
+    hooks:
+      - id: trailing-whitespace
+      - id: end-of-file-fixer
+        exclude: LICENSES/headers
+      - id: check-yaml
+        # !reference is specific to gitlab
+        # !! prefix is specific to mkdocs
+        exclude: \.gitlab-ci.yml|mkdocs.yml
+      - id: check-added-large-files
+      - id: check-json
+      - id: pretty-format-json
+        args: [
+          --autofix,
+          --no-sort-keys,
+        ]
+        exclude: \.ipynb
+      - id: check-toml
+      - id: destroyed-symlinks
+      - id: check-symlinks
+  - repo: https://github.com/pre-commit/pygrep-hooks
+    rev: v1.10.0
+    hooks:
+      - id: rst-backticks
+      - id: rst-directive-colons
+      - id: rst-inline-touching-normal
+  - repo: https://github.com/kynan/nbstripout
+    rev: 0.7.1
+    hooks:
+      - id: nbstripout
+  - repo: https://github.com/igorshubovych/markdownlint-cli
+    rev: v0.39.0
+    hooks:
+    - id: markdownlint
+      args: [
+        --fix,
+        --disable,
+        MD024,
+        ]

CREDITS.rst

@@ -3,9 +3,6 @@ External Dependencies
 
 sostrades-core depends on software with compatible licenses that are listed below.
 
-`pycryptodome (3.20.0) <https://www.pycryptodome.org>`_
-    BSD, Public Domain
-
 `black (24.4.2) <https://github.com/psf/black>`_
     MIT
 
@@ -18,33 +15,48 @@ sostrades-core depends on software with compatible licenses that are listed belo
 `cvxpy (1.5.2) <https://github.com/cvxpy/cvxpy>`_
     Apache License, Version 2.0
 
+`db-dtypes (1.2.0) <https://github.com/googleapis/python-db-dtypes-pandas>`_
+    Apache License
+
 `gitpython (3.1.43) <https://github.com/gitpython-developers/GitPython>`_
     BSD
 
-`python-arango (8.0.0) <https://github.com/arangodb/python-arango>`_
-    MIT
+`google-cloud-bigquery (3.25.0) <https://github.com/googleapis/python-bigquery>`_
+    Apache License, Version 2.0
 
-`matplotlib (3.9.0) <https://matplotlib.org>`_
+`matplotlib (3.9.1) <https://matplotlib.org>`_
     PSF
 
 `numpy (1.24.4) <https://numpy.org>`_
     BSD License
 
-`openturns (1.18) <http://www.openturns.org>`_
+`openturns (1.23) <http://www.openturns.org>`_
     LGPL
 
-`pandas (1.3.0) <https://pandas.pydata.org>`_
+`pandas (2.2.2) <https://pandas.pydata.org>`_
     BSD License
 
-`petsc (3.19.4) <https://petsc.org/>`_
+`petsc (3.21.3) <https://petsc.org/>`_
     BSD
 
-`petsc4py (3.19.4) <https://gitlab.com/petsc/petsc>`_
+`petsc4py (3.21.3) <https://gitlab.com/petsc/petsc>`_
     BSD-2-Clause
 
+`pyarrow (16.1.0) <https://arrow.apache.org/>`_
+    Apache License, Version 2.0
+
 `plotly (5.3.0) <https://plotly.com/python/>`_
     MIT
 
+`pycel (1.0b30) <https://github.com/stephenrauch/pycel>`_
+    GNU General Public License v2 (GPLv2)
+
+`pycryptodome (3.20.0) <https://www.pycryptodome.org>`_
+    BSD, Public Domain
+
+`python-arango (8.0.0) <https://github.com/arangodb/python-arango>`_
+    MIT
+
 `PyYAML (6.0.1) <https://pyyaml.org/>`_
     MIT
 
@@ -54,10 +66,7 @@ sostrades-core depends on software with compatible licenses that are listed belo
 `six (1.16.0) <https://github.com/benjaminp/six>`_
     MIT
 
-`SQLAlchemy (1.3.13) <https://www.sqlalchemy.org>`_
-    MIT
-
-`sympy (1.9) <https://sympy.org>`_
+`sympy (1.13.0) <https://sympy.org>`_
     BSD
 
 `tqdm (4.66.4) <https://tqdm.github.io>`_
@@ -66,5 +75,5 @@ sostrades-core depends on software with compatible licenses that are listed belo
 `nose2 (0.9.1) <https://docs.nose2.io/>`_
     BSD-2-Clause
 
-`pytest (7.4.0) <https://docs.pytest.org/en/latest/>`_
+`pytest (8.1.2) <https://docs.pytest.org/en/latest/>`_
     MIT

LICENSE

@@ -199,4 +199,4 @@
    distributed under the License is distributed on an "AS IS" BASIS,
    WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
    See the License for the specific language governing permissions and
-   limitations under the License.
+   limitations under the License.

LICENSES/BSD-2-Clause.txt

@@ -6,4 +6,4 @@ Redistribution and use in source and binary forms, with or without modification,
 
 2. Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution.
 
-THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

LICENSES/BSD-3-Clause.txt

@@ -8,4 +8,4 @@ Redistribution and use in source and binary forms, with or without modification,
 
 3. Neither the name of the copyright holder nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission.
 
-THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

LICENSES/EPL-v2.0.txt

@@ -62,7 +62,7 @@ CONSTITUTES RECIPIENT'S ACCEPTANCE OF THIS AGREEMENT.
    reproduce, prepare Derivative Works of, publicly display, publicly perform,
    Distribute and sublicense the Contribution of such Contributor, if any, and
    such Derivative Works.
-    
+
    b) Subject to the terms of this Agreement, each Contributor hereby grants
    Recipient a non-exclusive, worldwide, royalty-free patent license under
    Licensed Patents to make, use, sell, offer to sell, import and otherwise
@@ -241,4 +241,4 @@ this Agreement, whether expressly, by implication, estoppel or otherwise. All
 rights in the Program not expressly granted under this Agreement are reserved.
 Nothing in this Agreement is intended to be enforceable by any entity that is
 not a Contributor or Recipient. No third-party beneficiary rights are created
-under this Agreement.
+under this Agreement.

LICENSES/MIT.txt

@@ -16,4 +16,4 @@ FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
 AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
 LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
 OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
-SOFTWARE.
+SOFTWARE.

MANIFEST.in

@@ -1,3 +1,3 @@
 include LICENSE
 include NOTICE
-include README.md
+include README.md

NOTICE

@@ -4,6 +4,6 @@ Copyright 2022 The Apache Software Foundation.
 This product includes software developed at
 The Apache Software Foundation (http://www.apache.org/).
 
-This software contains code originally developed 
+This software contains code originally developed
 at Airbus SAS. (https://www.airbus.com/)
-Copyright 2020 - 2021 Airbus SAS. All Rights Reserved.
+Copyright 2020 - 2021 Airbus SAS. All Rights Reserved.

README.md

@@ -10,7 +10,7 @@
 SoSTradesCore is the Python package containing the core of the execution engine of System of Systems Trades
 
 ## Packages installation
-pip install -r requirements.in --trusted-host pypi.org --trusted-host files.pythonhosted.org 
+pip install -r requirements.in --trusted-host pypi.org --trusted-host files.pythonhosted.org
 
 A dedicated version of GEMSEO is required, for now:
 https://gitlab.com/sostrades/gemseo branch sos_develop

docs/source/caption/glossary.md

@@ -10,7 +10,7 @@
 > In SoSTrades, a group of SoSDisciplines interacting together.
 
 * Usecase
-> In SosTrades, allows to define a set of input variables for a study and to run this study with thus values. 
+> In SosTrades, allows to define a set of input variables for a study and to run this study with thus values.
 
 * Coupling
 > In SoSTrades and Gemseo, coupling means associating output variables of a model to the input variables of another model.

docs/source/caption/namespace.md

@@ -10,7 +10,7 @@ Namespaces are used to set prefixes in front of the variable names to:
 * Choose a suitable data tree breakdown
 * Organize the data location in the GUI
 
-## Visibility possibilities : 
+## Visibility possibilities :
 ![](../images/namespace_1.png)
 
 **Local** (default visibility) : the variable is stored at the root of the discipline
@@ -45,5 +45,3 @@ You need to define the same shared namespace for the shared variable.
 ### Example : Aero-structure model coupling
 
 ![](../images/aero_structure_model_coupling_2.png)
-
-

docs/source/caption/overview.md

@@ -9,7 +9,7 @@ You can access it by following this [link](https://validation.osc-tsa.com/) :
 
 ## A generic platform adaptable to the simulation needs of specific projects
 
-* Designed to handle long-term trajectories 2030, 2050, 2100 unlike industrial digital twins or classic "System of Systems" approaches 
+* Designed to handle long-term trajectories 2030, 2050, 2100 unlike industrial digital twins or classic "System of Systems" approaches
 * Provides all the state of the art in mathematics for simulation:
 >* Design of experiments
 >* Sensitivity analyses

docs/source/conf.py

@@ -19,8 +19,8 @@
 copyright = '2024, Sostrades Developers'
 author = 'Sostrades Developers'
 
-#release = '0.1'
-#version = '0.1.0'
+# release = '0.1'
+# version = '0.1.0'
 
 # -- General configuration
 

docs/source/how-to/create-postprocessing.md

@@ -45,7 +45,7 @@ def get_post_processing_list(self, chart_filters=None):
         for chart_filter in chart_filters:
             if chart_filter.filter_key == 'charts':
                 chart_list = chart_filter.selected_values
-    
+
     if 'sample chart' in chart_list:
         # Get the values
         x = self.get_sosdisc_inputs('x')

docs/source/how-to/create-process.md

@@ -48,10 +48,7 @@ class ProcessBuilder(BaseProcessBuilder):
             'ns_ac', post_processing_filters, post_processings)
         self.ee.post_processing_manager.add_post_processing_module_to_namespace(
             'ns_ac', 'sostrades_core.sos_processes.test.test_disc1_disc2_coupling.post_processing_libraries')
-    
+
         return builder_list
 
 ```
-
-
-

docs/source/how-to/create-usecase.md

@@ -54,7 +54,7 @@ if '__main__' == __name__:
 
 ## Visualize the post-processings of your usecase
 
-A dedicated factory (PostprocessingFactory) manages post-processing functionalities within the SoSTrades platform. Users have the option to preview all post-processings created for their usecase (in all the wrapp of the associated process but also at a given node, see how to create-postprocessing for mroe details) with these commands : 
+A dedicated factory (PostprocessingFactory) manages post-processing functionalities within the SoSTrades platform. Users have the option to preview all post-processings created for their usecase (in all the wrapp of the associated process but also at a given node, see how to create-postprocessing for mroe details) with these commands :
 
 ```python
 
@@ -67,5 +67,5 @@ if '__main__' == __name__:
        graph.to_plotly().show()
 
 ```
-The "show" method will open a window in your preferred web browser for each post-processing graph associated with the use case. 
-There may be variations in typographies or policies compared to the SoSTrades GUI rendering.
+The "show" method will open a window in your preferred web browser for each post-processing graph associated with the use case.
+There may be variations in typographies or policies compared to the SoSTrades GUI rendering.

docs/source/how-to/plan.md

@@ -6,4 +6,4 @@ So i need to:
 * Create a postprocessing for the model results
 * Test my model to be able to contribute
 * Create a Process using my model
-* Create a Usecase to define input data for my study
+* Create a Usecase to define input data for my study

docs/source/how-to/test-wrap.md

@@ -19,7 +19,7 @@ Usually tested features are :
 * Execution correctness
 * Post-processing beauty
 * ...
-* 
+*
 
 
 ### Example test
@@ -40,7 +40,7 @@ class MyCustomWrapTest(unittest.TestCase):
     def test_01_wrap_execution(self):
         # Get the wrap builder
         wrap_builder = self.ee.factory.get_builder_from_module(self.wrap_name, self.wrap_path )
-        
+
         # Set it to be built directly under the root coupling node
         self.ee.factory.set_builders_to_coupling_builder(wrap_builder)
 
@@ -74,4 +74,4 @@ class MyCustomWrapTest(unittest.TestCase):
         y = self.ee.dm.get_value(self.name + ".y")
         self.assertEqual(y, a * x + b)
 
-```
+```