fmk - updating to latest

docs/_sources/common/front-matter/cite.rst.txt

@@ -6,7 +6,7 @@ How To Cite
 
 .. only:: R2D_app
 
-   1. Frank McKenna, Stevan Gavrilovic, Jinyan Zhao, Kuanshi Zhong, Adam Zsarnoczay, Barbaros Cetiner, Sang-ri Yi, Aakash Bangalore Satish, Sina Naeimi, & Pedro Arduino. (2024). NHERI-SimCenter/R2DTool: Version 4.2.0 (v4.2.0). Zenodo. `<https://doi.org/10.5281/zenodo.11175489>`_
+   1. Frank McKenna, Stevan Gavrilovic, Jinyan Zhao, Kuanshi Zhong, Adam Zsarnoczay, Barbaros Cetiner, Sina Naeimi, Sang-ri Yi, Aakash Bangalore Satish, & Pedro Arduino. (2024). NHERI-SimCenter/R2DTool: Version 5.1.0 (v5.1.0). Zenodo. `DOI: <https://doi.org/10.5281/zenodo.13865393>`_
 
 .. only:: PBE_app
 
@@ -18,9 +18,9 @@ How To Cite
 
 .. only:: WEUQ_app
 
-   1. Frank McKenna, Abiy F. Melaku, Fei Ding, Jiawei Wan, Peter Mackenzie-Helnwein, Wael Elhaddad,
-      Michael Gardner, & Sang-ri Yi. (2024). NHERI-SimCenter/WE-UQ: Version 3.2.0 (v3.2.0). 
-      Zenodo. `DOI: 10.5281/zenodo.10806694 <https://doi.org/10.5281/zenodo.10806694>`_
+   1. Frank McKenna, Abiy F. Melaku, Fei Ding, Jiawei Wan, Peter Mackenzie-Helnwein, Michael Gardner, Sang-ri Yi,
+      Aakash Bangalore Satish & Wael Elhaddad (2024). NHERI-SimCenter/WE-UQ: Version 4.1.0 (v4.1.0). 
+      Zenodo. `10.5281/zenodo.13865388 <https://doi.org/10.5281/zenodo.13865388>`_
 
 .. only:: quoFEM_app
 

docs/_sources/common/user_manual/installation/desktop/setupTACC.rst.txt

@@ -21,7 +21,7 @@ Due to cybersecurity issues, DesignSafe is requiring that all users obtain crede
 
 .. only:: PBE_app
 
-     1. `Frontera Credentials <https://www.designsafe-ci.org/rw/workspace/frontera-credential>`_
+    1. `Stampede3 Credentials <https://www.designsafe-ci.org/rw/workspace/stampede3-credential>`_
 
 .. only:: HydroUQ_app
 
@@ -30,7 +30,7 @@ Due to cybersecurity issues, DesignSafe is requiring that all users obtain crede
 
 .. only:: EEUQ_app
 
-     1. `Frontera Credentials <https://www.designsafe-ci.org/rw/workspace/frontera-credential>`_	  
+     1. `Stampede3 Credentials <https://www.designsafe-ci.org/rw/workspace/stampede3-credential>`_	  
 
 .. only:: WEUQ_app
 

docs/_sources/common/user_manual/releases/r2dCapabilities.rst.txt

@@ -5,7 +5,7 @@
 Capabilities
 ************
 
-**Version** |tool version| of |app| was released in **April 2024**, introducing significant updates and enhancements. This document outlines the functionalities available in the current version, highlighting new features and improvements in :blue:`blue`.
+**Version** |tool version| of |app| was released in **Sep 30, 2024**, introducing significant updates and enhancements. This document outlines the functionalities available in the current version, highlighting new features and improvements in :blue:`blue`.
 
 Major updates from Version 4.0 are adding liquefaction-induced ground deformation estimation in the :blue:`regional earthquake event generation tool`, refactored :blue:`regional inventory generation tool BRAILS`, and upgraded :blue:`damage and loss engine Pelicun`. 
 
@@ -38,7 +38,7 @@ Major updates from Version 4.0 are adding liquefaction-induced ground deformatio
     * :ref:`Buildings <lbl-MODBuildings>`:
 		a. MDOF-LU (MDOF shear building model).
 		b. OpenSeesPy building generator.
-		c. None (Used for the IMasEDP option in Asset Analysis).
+		c. None (Used for the IMasEDP and Capacity Spectrum Method options in Asset Analysis).
 		d. CustomPy.
     * :ref:`Transportation infrastructure <lbl-MODTransport>`:
 	    a. None (Used for the IMasEDP option in Asset Analysis).
@@ -48,8 +48,9 @@ Major updates from Version 4.0 are adding liquefaction-induced ground deformatio
 		a. OpenSees.
 		b. OpenSeesPy. 
 		c. IMasEDP (simplified analysis using Intensity Measures (IMs) as Engineering Demand Parameters (EDPs)).
-		d. CustomPy for CustomPy Asset Modeling.
-		e. Pre-trained surrogate models.
+		d. Capacity Spectrum Method.
+		e. CustomPy for CustomPy Asset Modeling.
+		f. Pre-trained surrogate models.
     * :ref:`Transportation infrastructure <lbl-ANATransport>`:
 	    a. IMasEDP (simplified analysis using Intensity Measures (IMs) as Engineering Demand Parameters (EDPs)).
 

docs/_sources/common/user_manual/releases/r2dPlans.rst.txt

@@ -9,38 +9,29 @@ Release Plans
 The following features are planned to be developed for upcoming releases of |app|. Development priorities may change depending on feedback from the community and our users. For suggestions or to contribute, we encourage you to reach out via the |messageBoard|.
 
 
-June 2024
-----------
-#. **Landslide-induced ground deformation** (1.3.4.4): Add modeling capabilities for buried water pipelines and other water distribution infrastructure.
-
-#. **Efficient Forward Propagation using Multi-Fidelity Monte-Carlo** (1.2.3.1): This feature leverages a small number of high-fidelity model outputs to improve the accuracy of efficient, approximate models, such as surrogates, enhancing performance with minimal computational overhead.
-
-#. **Add Datasets to Simulate Subassembly Damage and Losses Under Wind Demands** (1.3.5.1): Incorporation of damage and loss data published in recent Performance-Based Wind Engineering research to facilitate high-resolution wind hazard performance assessments. The data is added to the `SimCenter Damage and Loss Model Library <https://github.com/NHERI-SimCenter/DamageAndLossModelLibrary>`_. 
-
-#. **Probabilistic Asset Inventories** (1.3.6.2): Calibrate, store, and propagate uncertainties in building features at the regional scale. Probabilistically fill in missing building features using the known information.
-
-Sep 2024
-----------
-#. **Access to Physics-Based Ground Motion Simulation Results** (1.1.1.3): Integration of physics-based ground motion simulation data into hazard assessments.
-
-#. **Add Datasets to Simulate Subassembly Damage and Losses Under Water Hazard Demands** (1.3.5.2): Expansion of the `SimCenter Damage and Loss Model Library <https://github.com/NHERI-SimCenter/DamageAndLossModelLibrary>`_ to include water hazard-specific damage and loss models.
-
-#. **Add Datasets to Simulate High-Resolution Damages and Losses in Buried Pipeline Networks** (1.3.5.4): Expansion of the `SimCenter Damage and Loss Model Library <https://github.com/NHERI-SimCenter/DamageAndLossModelLibrary>`_ to include detailed water pipeline damage and loss models.
-
 Dec 2024
 ---------
+#. **Add Datasets to Simulate Subassembly Damage and Losses Under Wind Demands** (1.3.5.1): Incorporation of damage and loss data published in recent Performance-Based Wind Engineering research to facilitate high-resolution wind hazard performance assessments. The data is added to the `SimCenter Damage and Loss Model Library <https://github.com/NHERI-SimCenter/DamageAndLossModelLibrary>`_. 
+
 #. **Model Interdependencies Between Physical Components, Housing, Socio-economic Functions, and Lifelines** (1.3.4.6): Incorporation models and simulation programs to capture the interdependencies between physical and socio-economical components.
 
 #. **Add Datasets to Simulate High-Resolution Damages and losses in Transportation Networks** (1.3.5.3): Expansion of the `SimCenter Damage and Loss Model Library <https://github.com/NHERI-SimCenter/DamageAndLossModelLibrary>`_ to detailed transportation infrastructure damage and loss models.
 
 #. **Develop and implement metrics and their visualization to inform recovery and community resilience** (1.4.3.2): Development of new metrics and visualization tools to support recovery planning and community resilience assessment.
 
+#. **Probabilistic Asset Inventories** (1.3.6.2): Calibrate, store, and propagate uncertainties in building features at the regional scale. Probabilistically fill in missing building features using the known information.
+
+#. **Access to Physics-Based Ground Motion Simulation Results** (1.1.1.3): Integration of physics-based ground motion simulation data into hazard assessments.
+
+#. **Add Datasets to Simulate Subassembly Damage and Losses Under Water Hazard Demands** (1.3.5.2): Expansion of the `SimCenter Damage and Loss Model Library <https://github.com/NHERI-SimCenter/DamageAndLossModelLibrary>`_ to include water hazard-specific damage and loss models.s
+
 Sept 2025
 ---------
 #. **Multi-Fidelity Models in Regional Simulations** (1.3.3.1): Introduction of multi-fidelity modeling approaches for enhanced regional simulation capability.
 
 #. **Multi-Scale Models for Wind and Water** (1.3.3.2): Development of multi-scale modeling capabilities for wind and water hazard assessment.
 
+#. **Efficient Forward Propagation using Multi-Fidelity Monte-Carlo** (1.2.3.1): This feature leverages a small number of high-fidelity model outputs to improve the accuracy of efficient, approximate models, such as surrogates, enhancing performance with minimal computational overhead.
 .. note::
 
     The numbers in parentheses are internal tracking identifiers.

docs/_sources/common/user_manual/releases/r2dReleaseNotes.rst.txt

@@ -6,9 +6,23 @@
 Release Notes
 ***************************
 
-Version 5.0.0 (Current)
+Version 5.1.0 (Current)
 -----------------------
 
+**Release date:** September 2024
+
+**Highlights**
+
+#. **Inclusion of REWET for recovery of water networks after event** (WBS 1.1.4.2.4, 1.1.3.4.1, 1.1.3.4.3, and 1.1.3.4.7)
+#. **Add Datasets to Simulate High-Resolution Damages and Losses in Buried Pipeline Networks** (WBS 1.3.5.4): Expansion of the `SimCenter Damage and Loss Model Library <https://github.com/NHERI-SimCenter/pelicun/tree/master/pelicun/resources/SimCenterDBDL>`_ to include detailed water pipeline damage and loss models.
+#. **Revise interface to review uncertainty in recovery response** (WBS 1.1.3.6.4)
+#. **Add the capacity spectrum method to for building seismic performance estimation** (`R2D.3.2 <https://nheri-simcenter.github.io/R2D-Documentation/common/reqments/R2D.html>`_)
+#. **Develop Multi-Fidelity Models in Regional Simulations** (WBS 1.3.3.1): Allowing multiple fidelities of models in a single regional analysis by allowing user-defined OpenSees models for a subset of buildings in the region to run in workflows.
+
+
+Version 5.0.0
+-------------
+
 **Release date:** August 2024
 
 **Highlights**
@@ -18,7 +32,7 @@ Version 5.0.0 (Current)
 #. A procedure for estimating shear-induced seismic slope displacement for shallow crustal earthquakes is added to the earthquake event generation tool.
 
 Version 4.1.0
------------------------
+-------------
 
 **Release date:** April 2024
 
@@ -34,7 +48,7 @@ Version 4.1.0
 #. Updated the damage and loss engine Pelicun to version 3.3. 
 
 Version 4.0.1
------------------------
+-------------
 
 **Release date:** January 2024
 
@@ -46,7 +60,7 @@ Version 4.0.1
 #. Integration of PreTrained Surrogate Models from EE-UQ for structural analysis.
 
 Version 3.0.0
------------------------
+-------------
 
 **Release date:** May 2023
 

docs/_sources/common/user_manual/usage/desktop/wind/windTunnelExp.rst.txt

@@ -13,7 +13,7 @@ This application will take the wind tunnel data provided and scale it based on t
 
 #. The user to select the shape of the building, currently only Cuboid shapes are permitted.
 
-#. The Wind speed.
+#. Mean wind speed at the building roof-height.
 
 #. The file containing the experimental data. The file contains information about the dimensions of the building model in the wind tunnel, the wind speed (the meaning of wind speed is dependent on what wind speed measurement was used in the test), time-varying data for the pressure coefficients, information on the frequency of these data points, and information on the locations of pressure taps for which pressure coefficients are provided. An abbreviated example is shown below.
 

docs/_sources/index.rst.txt

@@ -128,6 +128,7 @@
    :R2D:common/user_manual/usage/desktop/R2DTool/tools
    :WEUQ:common/user_manual/usage/desktop/wind/tools
    :Hydro:common/user_manual/usage/desktop/hydro/tools
+   :EEUQ:common/user_manual/usage/desktop/earthquake/tools
 
    :EEUQ:common/user_manual/examples/desktop/examples
    :WEUQ:common/user_manual/examples/desktop/examples

docs/common/front-matter/cite.html

@@ -212,9 +212,9 @@
   <div class="section" id="how-to-cite">
 <span id="lblcite"></span><h1><span class="section-number">4. </span>How To Cite<a class="headerlink" href="#how-to-cite" title="Permalink to this heading">¶</a></h1>
 <ol class="arabic simple">
-<li><p>Frank McKenna, Abiy F. Melaku, Fei Ding, Jiawei Wan, Peter Mackenzie-Helnwein, Wael Elhaddad,
-Michael Gardner, &amp; Sang-ri Yi. (2024). NHERI-SimCenter/WE-UQ: Version 3.2.0 (v3.2.0).
-Zenodo. <a class="reference external" href="https://doi.org/10.5281/zenodo.10806694">DOI: 10.5281/zenodo.10806694</a></p></li>
+<li><p>Frank McKenna, Abiy F. Melaku, Fei Ding, Jiawei Wan, Peter Mackenzie-Helnwein, Michael Gardner, Sang-ri Yi,
+Aakash Bangalore Satish &amp; Wael Elhaddad (2024). NHERI-SimCenter/WE-UQ: Version 4.1.0 (v4.1.0).
+Zenodo. <a class="reference external" href="https://doi.org/10.5281/zenodo.13865388">10.5281/zenodo.13865388</a></p></li>
 </ol>
 <ol class="arabic simple" start="2">
 <li><p>Gregory G. Deierlein, Frank McKenna, Adam Zsarnóczay, Tracy Kijewski-Correa, Ahsan Kareem,