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Changes to parduino usecase (#104)
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* Adding changes to Pedro Arduino

* Cleaning files in Arduino use_case

* Small change to matlab case - Arduino useCase

* small changes to P Arduino use case

* small change to figures

* small change to figure

* small change to figure

* small change to figure

* Remove all equations in text, and remove notebook

* small changes

* fix: horizontal rule markup invalid

* adding files referenced in text

* Making changes to jupyter notebooks

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Co-authored-by: Wesley B <[email protected]>
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@parduino @wesleyboar
parduino and wesleyboar authored Dec 17, 2024
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8 changes: 4 additions & 4 deletions user-guide/docs/usecases/arduino/usecase.md
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Expand Up @@ -21,15 +21,15 @@ The following Jupyter notebooks are made available to facilitate the analysis of

| Site Response | Notebook |
| :-------: | :---------: |
| FreeField Response | freeFieldJupyterPM4Sand_Community.ipynb <br> [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/freeFieldJupyterPM4Sand/freeFieldJupyterPM4Sand_Community.ipynb) |
| FreeField Response | freeFieldJupyterPM4Sand_Community.ipynb <br> [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/freeFieldJupyterPM4Sand/freeFieldJupyterPM4Sand_Community-TAPISV3.ipynb) |

---

| quoFEM | Notebook |
| :-------: | :---------: |
| Sensitivity analysis | quoFEM-Sensitivity.ipynb <br> [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM_Example1/GlobalSensitivity/quoFEM-Sensitivity.ipynb)|
| Bayessian calibration | quoFEM-Bayesian.ipynb <br> [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM_Example1/BayesianCalibration/quoFEM-Bayesian.ipynb)|
| Forward propagation | quoFEM-Propagation.ipynb <br> [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM_Example1/ForwardPropagation/quoFEM-Propagation.ipynb)|
| Sensitivity analysis | quoFEM-Sensitivity.ipynb <br> [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM-Example1-TAPISV3/GlobalSensitivity/quoFEM-Sensitivity-TAPISV3.ipynb)|
| Bayessian calibration | quoFEM-Bayesian.ipynb <br> [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM-Example1-TAPISV3/BayesianCalibration/quoFEM-Bayesian-TAPISV3.ipynb)|
| Forward propagation | quoFEM-Propagation.ipynb <br> [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM-Example1-TAPISV3/ForwardPropagation/quoFEM-Propagation-TAPISV3.ipynb)|


#### DesignSafe Resources
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8 changes: 4 additions & 4 deletions user-guide/docs/usecases/arduino/usecase_quoFEM.md
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Expand Up @@ -16,9 +16,9 @@ This example makes use of the following DesignSafe resources:

| Step | Notebook |
| :-------: | :---------: |
| Sensitivity analysis | [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM_Example1/GlobalSensitivity/quoFEM-Sensitivity.ipynb)|
| Bayessian calibration | [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM_Example1/BayesianCalibration/quoFEM-Bayesian.ipynb)|
| Forward propagation | [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM_Example1/ForwardPropagation/quoFEM-Propagation.ipynb)|
| Sensitivity analysis | [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM-Example1-TAPISV3/GlobalSensitivity/quoFEM-Sensitivity-TAPISV3.ipynb)|
| Bayessian calibration | [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM-Example1-TAPISV3/BayesianCalibration/quoFEM-Bayesian-TAPISV3.ipynb)|
| Forward propagation | [![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/quoFEM-Example1-TAPISV3/ForwardPropagation/quoFEM-Propagation-TAPISV3.ipynb)|

The notebooks, and required scripts, are available in the Community Data folder and can be executed without any modification. Users are invited to try this notebook and use any parts of it.

Expand Down Expand Up @@ -62,7 +62,7 @@ In order to facilitate the discussion of each notebook, it is helpful to first i
3. Run Tapis job
4. Post-process results

Instructions for (1) setting up and (2) running Tapis jobs can be found [here](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/freeFieldJupyterPM4Sand/freeFieldJupyterPM4Sand_Community.ipynb). These steps are generally applicable for launching any Tapis app from a Jupyter notebook in DesignSafe. The most significant step in this process is determining the appropriate Tapis app to utilize. To perform uncertainty quantification within SimCenter backend applications, the following Tapis app is used:
Instructions for (1) setting up and (2) running Tapis jobs can be found [here](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/freeFieldJupyterPM4Sand/freeFieldJupyterPM4Sand_Community-TAPISV3.ipynb). These steps are generally applicable for launching any Tapis app from a Jupyter notebook in DesignSafe. The most significant step in this process is determining the appropriate Tapis app to utilize. To perform uncertainty quantification within SimCenter backend applications, the following Tapis app is used:

``` python
#Select tapis-app
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2 changes: 1 addition & 1 deletion user-guide/docs/usecases/arduino/usecase_siteResponse.md
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Expand Up @@ -8,7 +8,7 @@

This example makes use of the following DesignSafe resources:

[![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/freeFieldJupyterPM4Sand/freeFieldJupyterPM4Sand_Community.ipynb)
[![Open In DesignSafe](https://raw.githubusercontent.com/geoelements/LearnMPM/main/DesignSafe-Badge.svg)](https://jupyter.designsafe-ci.org/hub/user-redirect/lab/tree/CommunityData/Jupyter%20Notebooks%20for%20Civil%20Engineering%20Courses/University_of_Washington/freeFieldJupyterPM4Sand/freeFieldJupyterPM4Sand_Community-TAPISV3.ipynb)

The notebook, and required scripts, are available in the Community Data folder and can be executed without any modification. Users are invited to try this notebook and use any parts of it.

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