OSSFE · RemDelaporteMathurin · Mar 14, 2025 · Mar 14, 2025
diff --git a/book/README.md b/book/README.md
@@ -102,12 +102,11 @@ A series of tutorials will be available to attend for the following packages:
 | T3   | [Improving Reproducibility Through Better Software Practices](abstracts/david-improving.md)                                                    | David Bernholdt    | Oak Ridge National Laboratory                                     |
 | T4   | [Fusion Neutronics Workshop](abstracts/j.-fusion.md)                                                                                           | Jonathan Shimwell  | Proxima Fusion                                                    |
 | T5   | [RadModeling](abstracts/alvaro-radmodeling.md)                                                                                                 | Alvaro Cubi        | Fusion for Energy                                                 |
-| T6   | [Thermavip: an open source framework for multi-sensor data acquisition, processing and visualization](abstracts/victor-thermavip.md)           | Victor Moncada     | CEA                                                               |
-| T7   | [Using WarpX, a general purpose particle-in-cell code  ](abstracts/arianna-using.md)                                                           | Arianna Formenti   | Lawrence Berkeley National Laboratory                             |
-| T8   | [Accelerating Plasma Physics Simulations with Pyccel: A PyGyro Case Study.](abstracts/jalal-accelerating.md)                                   | Jalal Maaouni      | The UM6P Vanguard Center, Morocco                                 |
-| T9   | [OFELIA: Openmc-FEnicsx for muLtiphysics tutorIAl](abstracts/lorenzo-ofelia.md)                                                                | Stefano Riva       | Politecnico di Milano                                             |
-| T10  | [How Software Quality Assurance Standards Can Drive Industry Adoption of Open-Source Codes in Fusion Energy](abstracts/casey-how.md)           | Casey Icenhour     | Idaho National Laboratory                                         |
-| T11  | [FAIR data management for physics and engineering simulation with open-source and commercial codes relevant to Fusion](abstracts/mark-fair.md) | Mark Norris        | openSPDM Ltd                                                      |
+| T6   | [Using WarpX, a general purpose particle-in-cell code  ](abstracts/arianna-using.md)                                                           | Arianna Formenti   | Lawrence Berkeley National Laboratory                             |
+| T7   | [Accelerating Plasma Physics Simulations with Pyccel: A PyGyro Case Study.](abstracts/jalal-accelerating.md)                                   | Jalal Maaouni      | The UM6P Vanguard Center, Morocco                                 |
+| T8   | [How Software Quality Assurance Standards Can Drive Industry Adoption of Open-Source Codes in Fusion Energy](abstracts/casey-how.md)           | Casey Icenhour     | Idaho National Laboratory                                         |
+| T9   | [FAIR data management for physics and engineering simulation with open-source and commercial codes relevant to Fusion](abstracts/mark-fair.md) | Mark Norris        | openSPDM Ltd                                                      |
+| T10  | [OFELIA: Openmc-FEnicsx for muLtiphysics tutorIAl](abstracts/lorenzo-ofelia.md)                                                                | Stefano Riva       | Politecnico di Milano                                             |
 
 
 ## 🗣️ Panel Session: 10:40 - 11:20 (EDT)

diff --git a/book/abstracts/adam-quantifying.md b/book/abstracts/adam-quantifying.md
@@ -19,7 +19,6 @@ exports:
 
 [hpcflow](https://github.com/hpcflow/hpcflow-new) is an open-source, cross-platform Python package for designing, running, and sharing large-scale reproducible computational workflows on HPC systems and locally. [MatFlow](https://github.com/hpcflow/matflow-new) is an extension of hpcflow that focuses on building cohesive materials science workflows, and is particularly useful as a framework to link uncertainty quantification (UQ) algorithms with high-fidelity simulations in fusion materials applications. We discuss some recent work that uses MatFlow to predict rare-event failure probabilities via the subset simulation UQ method https://doi.org/b7z8hq, which conceptually partitions an extremely unlikely failure event into a series of conditional failure events that are more computationally accessible. In particular, we apply the workflow to a materials failure problem using full-field crystal plasticity simulations with DAMASK @10.1016/j.commatsci.2018.04.030, where the input microstructure is uncertain. After running an initial set of simulations, MatFlow then runs sets of Markov chains to iteratively direct the input space towards the failure domain. We discuss the features of MatFlow that enable reusable workflows such as these to be developed, and we further discuss how we have used MatFlow to explore and compare the efficiency of selecting different variations of the Markov Chain Monte Carlo algorithm, such as the multi-level approach, which uses simulations at multiple fidelities to improve efficiency.
 
-
 # Repository
 https://github.com/hpcflow
 
diff --git a/book/abstracts/aidan-nesst.md b/book/abstracts/aidan-nesst.md
@@ -14,7 +14,6 @@ exports:
 [Neutron Scattered Spectra Tool (NeSST)](https://github.com/aidancrilly/NeSST) is a python library for producing synthetic neutron spectra relevant to nuclear fusion. The tool is primarily focused on inertial fusion, but also has capabilities which are useful for magnetic fusion. NeSST implements literature models for the primary neutron-producing fusion reactions in DT plasmas (DT, DD and TT). It also uses evaluated nuclear data files to calculate scattered spectra, under the single scatter approximation. This is essential in inertial fusion to model the downscatter of neutrons in the target. Scattering is computed using relativistic corrections and the effects of finite temperature and velocity of the scattering medium. Finally, NeSST includes standard diagnostic models for time-of-flight neutron spectral analysis. The code has been used to model experimental data from the OMEGA facility at the Laboratory for Laser Energetics. NeSST makes use of a few other open-source fusion energy projects: [python-ENDF](https://github.com/paulromano/endf-python) and [pydress](https://github.com/jacob-eri/pydress
 ).
 
-
 # Repository
 https://github.com/aidancrilly/NeSST
 
diff --git a/book/abstracts/alberto-f4enix.md b/book/abstracts/alberto-f4enix.md
@@ -34,7 +34,6 @@ To address these kinds of challenges, a great number of scripts was produced dur
 
 F4Enix also provides a comprehensive and up-to-date documentation that describes the installation, usage, and API of the package. The documentation is hosted online using Read the Docs, a service that builds and serves the documentation whenever the code is updated. Finally, F4Enix is automatically built and uploaded to the PyPi index every time a new version is tagged, making it available through a simple pip install.
 
-
 # Repository
 https://github.com/Fusion4Energy/F4Enix
 
diff --git a/book/abstracts/alex-collaborative.md b/book/abstracts/alex-collaborative.md
@@ -22,7 +22,6 @@ exports:
 
 Accurate cost estimation for fusion power plants is essential for guiding research, optimizing designs, and advancing commercialization. To address the lack of standardized cost frameworks, Woodruff Scientific LTD developed an open-source Python-based cost estimation tool with support from ARPA-E. The tool is now available in a collaborative Google Colab environment, providing a cloud-based, interactive platform for real-time collaboration, rapid prototyping, and integration into design workflows. This Colab implementation enables users to explore diverse fusion device designs and performance scenarios while leveraging a modular and customizable architecture. The ongoing development of this code is supported by the Clean Air Task Force (CATF) through its International Working Group on Fusion Cost Analysis, led by Woodruff Scientific. Applications of this tool include collaborative design-to-cost exercises, automation of standardized cost documentation, and broader accessibility for the global fusion community. This presentation will demonstrate the Colab platform’s capabilities and showcase how it facilitates collaboration and innovation in fusion cost modeling.
 
-
 # Repository
 https://github.com/Woodruff-Scientific-Ltd/PyFECONs-GoogleColab
 
diff --git a/book/abstracts/alvaro-radmodeling.md b/book/abstracts/alvaro-radmodeling.md
@@ -22,7 +22,6 @@ Among the functionalities present in RadModeling there is:
 - Generation of CAD plots identical to those obtained with the MCNP plotter to have a 1:1 pixel comparison.
 - Automatic conversion of toroidal elbows in pipes to a set of cylinders.
 
-
 # Repository
 https://github.com/Fusion4Energy/RadModeling
 
diff --git a/book/abstracts/dom-workflow.md b/book/abstracts/dom-workflow.md
@@ -39,3 +39,4 @@ exports:
 ---
 
 This work presents a system modelling framework for fusion power plant design and costing, with a focus on the development and implementation of automated workflows in the Galaxy platform. The Galaxy workflows are designed to integrate parametric geometry generation with high-fidelity simulations, ensuring a streamlined, reproducible process for evaluating power plant performance, using the ARPA-E open-source fusion cost model (see Higginbottom and Ward in this meeting). Each workflow is developed to take user-defined inputs, such as design parameters and simulation settings, and execute a series of interconnected tasks, including neutronics, thermal, and electromagnetic analyses, in a fully automated manner. These workflows are built to ensure modularity, allowing engineers to customize outputs while preserving input consistency and tracking provenance. In fusion systems, where every input depends intricately on interconnected outputs, traditional methods often fail to establish consistent links across all subsystems. This framework overcomes such challenges by automating these connections, ensuring seamless interaction between components. This work benefits fusion energy researchers, system designers, and policymakers by providing a flexible, efficient, and user-friendly platform for power plant design. By simplifying the evaluation and iteration process, it accelerates the pathway toward developing cost-effective, high-performance fusion power plants
+
diff --git a/book/abstracts/george-atomc.md b/book/abstracts/george-atomc.md
@@ -19,7 +19,6 @@ exports:
 
 Modern tooling is demanded for predicting the transport and reaction characteristics of atoms and molecules, especially in the context of magnetic confinement fusion. DEGAS2 and EIRENE are the most common and capable tools currently in use, and share many fundamental similarities with the OpenMC framework. OpenMC is an open source Monte Carlo transport solver that was primarily developed for neutron and photon transport. We have demonstrated that OpenMC is suitable for atomic transport calculations and have developed a version with the appropriate reactions https://doi.org/10.48550/arXiv.2411.12937. The relative error between the models is small, and the performance of OpenMC is at least comparable to DEGAS2. This is the case even without taking advantage of heterogeneous computing architectures, which is only one of several remarkable new capabilities that this demonstration heralds.
 
-
 # Repository
 github.com/gjwilkie/openmc
 
diff --git a/book/abstracts/jake-a.md b/book/abstracts/jake-a.md
@@ -15,3 +15,4 @@ Neutronics analysis is an important tool within the fusion industry, providing i
 
 # Repository
 https://github.com/jakemarathon/neutronics_workflow
+
diff --git a/book/abstracts/m.-open.md b/book/abstracts/m.-open.md
@@ -14,7 +14,8 @@ authors:
     affiliations:
       - Research & Technological Innovation Department, Eni S.p.A., 20097 San Donato Milanese (MI), Italy
   - name: R. Zanino
-    affiliations: NEMO group, Dipartimento Energia, Politecnico di Torino, 10129 Torino, Italy
+    affiliations:
+      - NEMO group, Dipartimento Energia, Politecnico di Torino, 10129 Torino, Italy
 license: CC-BY-4.0
 exports:
   - format: pdf

diff --git a/book/abstracts/mark-fair.md b/book/abstracts/mark-fair.md
@@ -23,4 +23,3 @@ This tutorial explains:
 - Information Resources available
 This tutorial is also an introduction to a two day course on Digital Physics and Engineering for Modelling & Simulation
 
-
diff --git a/book/abstracts/mark-openspdm.md b/book/abstracts/mark-openspdm.md
@@ -36,3 +36,5 @@ As research into fusion power moves towards prototype commercial reactors, the n
 The number and size of files produced by numerical simulations is increasing faster than ever with the use of exascale computers. Data storage requirements are now expressed in zettabytes. It is long overdue to manage simulation data-sets effectively to assure FAIRness and eliminate Digital Landfills of data of unknown provenance. 
 
 
+
+
diff --git a/book/abstracts/peter-plasmafair.md b/book/abstracts/peter-plasmafair.md
@@ -22,7 +22,6 @@ We provide longer-term support for some projects, such as [Pyrokinetics](https:/
 
 We're also continually involved in the wider open-source community, contributing bugfixes, performance improvements, and new features to projects such as netCDF, [FAIRDataPipeline](https://www.fairdatapipeline.org), and [fortranformat](https://github.com/brendanarnold/py-fortranformat). Our latest community tool is [fortitude](https://github.com/PlasmaFAIR/fortitude), a very fast Fortran linter.
 
-
 # Repository
 https://plasmafair.github.io
 
diff --git a/book/list_of_posters.md b/book/list_of_posters.md
@@ -46,7 +46,7 @@ In Poster room 2 (Abstract ID's POS-32-62):
 | POS-32 | [An Updated Framework For Synthetic Diagnostics Using Energetic-particle Orbits in Tokamaks](abstracts/henrik-an.md)                                                                             | Henrik Järleblad            | Department of Applied Mathematics and Computer Science, Technical University of Denmark, DK-2800 Kgs. Lyngby, Denmark |
 | POS-33 | [JADE v4, a more robust and expandable architecture for neutronics V&V](abstracts/davide-jade.md)                                                                                                | Davide Laghi                | Fusion For Energy                                                                                                     |
 | POS-34 | [MGKDB: an open-source MongoDB for nuclear fusion simulations](abstracts/venkitesh-mgkdb.md)                                                                                                     | Venkitesh Ayyar             | Sapientai LLC                                                                                                         |
-| POS-35 | [TMExtractor： A software toolkit to extract Tearing Modes features](abstracts/luo-tmextractor：.md)                                                                                             | Luo Runyu                   | Huazhong University of Science and Technology                                                                         |
+| POS-35 | [TMExtractor： A software toolkit to extract Tearing Modes features](abstracts/luo-tmextractor：.md)                                                                                               | Luo Runyu                   | Huazhong University of Science and Technology                                                                         |
 | POS-36 | [Automated Testing and Continuous Integration for the KORC Codebase](abstracts/ian-automated.md)                                                                                                 | Ian Gibbs                   | ORNL                                                                                                                  |
 | POS-37 | [magnetoHDFoam:  a novel open-source OpenFOAM library for magnetohydrodynamics](abstracts/matteo-magnetohdfoam.md)                                                                               | Matteo Lo Verso             | Politecnico di Milano                                                                                                 |
 | POS-38 | [A fast electromagnetics library with Rust and Python](abstracts/james-a.md)                                                                                                                     | James Logan                 | CFS                                                                                                                   |
@@ -63,7 +63,7 @@ In Poster room 2 (Abstract ID's POS-32-62):
 | POS-49 | [Multi-Objective Design Optimization for Fusion Energy Systems](abstracts/omer-multi.md)                                                                                                         | Omer Muhammad               | nTtau Digital Ltd                                                                                                     |
 | POS-50 | [Developing an Open-Source Framework for Fusion Power Plant Cost Estimation](abstracts/sam-developing.md)                                                                                        | Samuel Ward                 | Woodruff Scientific Ltd                                                                                               |
 | POS-51 | [Collaborative Cost Modeling for Fusion Power Plants Using Open-Source Tools ](abstracts/alex-collaborative.md)                                                                                  | Alex Higginbottom           | Woodruff Scientific Ltd                                                                                               |
-| POS-52 | [IPS: an open-source framework for (loosely) coupled multiphsyics simulations](abstracts/david-ips.md)                                                                                           | David Bernholdt             | Oak Ridge National Laboratory                                                                                         |
+| POS-52 | [IPS: an open-source framework for (loosely) coupled multiphysics simulations](abstracts/david-ips.md)                                                                                           | David Bernholdt             | Oak Ridge National Laboratory                                                                                         |
 | POS-53 | [FyTok: An Integrated Modeling Simulator for Tokamak](abstracts/zhi-fytok.md)                                                                                                                    | Zhi YU                      | Xiaojuan Liu,  Institute of Plasma Physics, Chinese Academy of Sciences, Hefei 230031, China                          |
 | POS-54 | [An Open-Source Workflow for Multi-Physics Analysis of Tritium Breeder Blankets](abstracts/alexandre-an.md)                                                                                      | Juan Diego Iberico Leonardo | IDOM                                                                                                                  |
 | POS-55 | [Open-source MHD modelling of turbulent flow in a molten salt breeding blanket](abstracts/m.-open.md)                                                                                            | Marco Caravello             | NEMO group, Dipartimento Energia, Politecnico di Torino, 10129 Torino, Italy                                          |
@@ -74,4 +74,5 @@ In Poster room 2 (Abstract ID's POS-32-62):
 | POS-60 | [TRIOMA: an open source application for fast outer fuel cycle tritium transport analysis](abstracts/gabriele-trioma.md)                                                                          | Gabriele Ferrero            | Politecnico di Torino                                                                                                 |
 | POS-61 | [ITER Fusion Reactor Blanket Optimization for Tritium Breeding using OpenMC](abstracts/husni-iter.md)                                                                                            | Husni Naufal Zuhdi          | Universitas Gadjah Mada                                                                                               |
 | POS-62 | [Building a new multiphysics workflow in MOOSE: application to tritium migration, trapping and advection in TMAP8](abstracts/guillaume-building.md)                                              | Guillaume Giudicelli        | Idaho National Laboratory                                                                                             |
+| POS-63 | [Thermavip: an open source framework for multi-sensor data acquisition, processing and visualization](abstracts/victor-thermavip.md)                                                             | Victor Moncada              | CEA                                                                                                                   |
Original file line number	Diff line number	Diff line change
Expand Up		@@ -19,7 +19,6 @@ exports:

		[hpcflow](https://github.com/hpcflow/hpcflow-new) is an open-source, cross-platform Python package for designing, running, and sharing large-scale reproducible computational workflows on HPC systems and locally. [MatFlow](https://github.com/hpcflow/matflow-new) is an extension of hpcflow that focuses on building cohesive materials science workflows, and is particularly useful as a framework to link uncertainty quantification (UQ) algorithms with high-fidelity simulations in fusion materials applications. We discuss some recent work that uses MatFlow to predict rare-event failure probabilities via the subset simulation UQ method https://doi.org/b7z8hq, which conceptually partitions an extremely unlikely failure event into a series of conditional failure events that are more computationally accessible. In particular, we apply the workflow to a materials failure problem using full-field crystal plasticity simulations with DAMASK @10.1016/j.commatsci.2018.04.030, where the input microstructure is uncertain. After running an initial set of simulations, MatFlow then runs sets of Markov chains to iteratively direct the input space towards the failure domain. We discuss the features of MatFlow that enable reusable workflows such as these to be developed, and we further discuss how we have used MatFlow to explore and compare the efficiency of selecting different variations of the Markov Chain Monte Carlo algorithm, such as the multi-level approach, which uses simulations at multiple fidelities to improve efficiency.


		# Repository
		https://github.com/hpcflow
Original file line number	Diff line number	Diff line change
Expand Up		@@ -34,7 +34,6 @@ To address these kinds of challenges, a great number of scripts was produced dur

		F4Enix also provides a comprehensive and up-to-date documentation that describes the installation, usage, and API of the package. The documentation is hosted online using Read the Docs, a service that builds and serves the documentation whenever the code is updated. Finally, F4Enix is automatically built and uploaded to the PyPi index every time a new version is tagged, making it available through a simple pip install.


		# Repository
		https://github.com/Fusion4Energy/F4Enix
Original file line number	Diff line number	Diff line change
Expand Up		@@ -22,7 +22,6 @@ exports:

		Accurate cost estimation for fusion power plants is essential for guiding research, optimizing designs, and advancing commercialization. To address the lack of standardized cost frameworks, Woodruff Scientific LTD developed an open-source Python-based cost estimation tool with support from ARPA-E. The tool is now available in a collaborative Google Colab environment, providing a cloud-based, interactive platform for real-time collaboration, rapid prototyping, and integration into design workflows. This Colab implementation enables users to explore diverse fusion device designs and performance scenarios while leveraging a modular and customizable architecture. The ongoing development of this code is supported by the Clean Air Task Force (CATF) through its International Working Group on Fusion Cost Analysis, led by Woodruff Scientific. Applications of this tool include collaborative design-to-cost exercises, automation of standardized cost documentation, and broader accessibility for the global fusion community. This presentation will demonstrate the Colab platform’s capabilities and showcase how it facilitates collaboration and innovation in fusion cost modeling.


		# Repository
		https://github.com/Woodruff-Scientific-Ltd/PyFECONs-GoogleColab
Original file line number	Diff line number	Diff line change
Expand Up		@@ -39,3 +39,4 @@ exports:
		---

		This work presents a system modelling framework for fusion power plant design and costing, with a focus on the development and implementation of automated workflows in the Galaxy platform. The Galaxy workflows are designed to integrate parametric geometry generation with high-fidelity simulations, ensuring a streamlined, reproducible process for evaluating power plant performance, using the ARPA-E open-source fusion cost model (see Higginbottom and Ward in this meeting). Each workflow is developed to take user-defined inputs, such as design parameters and simulation settings, and execute a series of interconnected tasks, including neutronics, thermal, and electromagnetic analyses, in a fully automated manner. These workflows are built to ensure modularity, allowing engineers to customize outputs while preserving input consistency and tracking provenance. In fusion systems, where every input depends intricately on interconnected outputs, traditional methods often fail to establish consistent links across all subsystems. This framework overcomes such challenges by automating these connections, ensuring seamless interaction between components. This work benefits fusion energy researchers, system designers, and policymakers by providing a flexible, efficient, and user-friendly platform for power plant design. By simplifying the evaluation and iteration process, it accelerates the pathway toward developing cost-effective, high-performance fusion power plants
Original file line number	Diff line number	Diff line change
Expand Up		@@ -19,7 +19,6 @@ exports:

		Modern tooling is demanded for predicting the transport and reaction characteristics of atoms and molecules, especially in the context of magnetic confinement fusion. DEGAS2 and EIRENE are the most common and capable tools currently in use, and share many fundamental similarities with the OpenMC framework. OpenMC is an open source Monte Carlo transport solver that was primarily developed for neutron and photon transport. We have demonstrated that OpenMC is suitable for atomic transport calculations and have developed a version with the appropriate reactions https://doi.org/10.48550/arXiv.2411.12937. The relative error between the models is small, and the performance of OpenMC is at least comparable to DEGAS2. This is the case even without taking advantage of heterogeneous computing architectures, which is only one of several remarkable new capabilities that this demonstration heralds.


		# Repository
		github.com/gjwilkie/openmc
Original file line number	Diff line number	Diff line change
Expand Up		@@ -15,3 +15,4 @@ Neutronics analysis is an important tool within the fusion industry, providing i

		# Repository
		https://github.com/jakemarathon/neutronics_workflow
Original file line number	Diff line number	Diff line change
Expand Up		@@ -23,4 +23,3 @@ This tutorial explains:
		- Information Resources available
		This tutorial is also an introduction to a two day course on Digital Physics and Engineering for Modelling & Simulation
Original file line number	Diff line number	Diff line change
Expand Up		@@ -36,3 +36,5 @@ As research into fusion power moves towards prototype commercial reactors, the n
		The number and size of files produced by numerical simulations is increasing faster than ever with the use of exascale computers. Data storage requirements are now expressed in zettabytes. It is long overdue to manage simulation data-sets effectively to assure FAIRness and eliminate Digital Landfills of data of unknown provenance.
Original file line number	Diff line number	Diff line change
Expand Up		@@ -22,7 +22,6 @@ We provide longer-term support for some projects, such as [Pyrokinetics](https:/

		We're also continually involved in the wider open-source community, contributing bugfixes, performance improvements, and new features to projects such as netCDF, [FAIRDataPipeline](https://www.fairdatapipeline.org), and [fortranformat](https://github.com/brendanarnold/py-fortranformat). Our latest community tool is [fortitude](https://github.com/PlasmaFAIR/fortitude), a very fast Fortran linter.


		# Repository
		https://plasmafair.github.io