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RELOG is a supply chain optimization package focusing on reverse logistics and reverse manufacturing. For example,the package can be used to determine where to build recycling plants, what sizes should they have and which customers should be served by which plants. The package supports customized reverse logistics pipelines, with multiple types of plants, multiple types of product and multiple time periods.
CatCost™ enables catalyst researchers to develop comprehensive estimates of the cost to produce pre-commercial catalysts early in the catalyst development process. It includes both web browser and Excel-based tools, each with distinct strengths. The web tool includes powerful visualization capabilities, while the Excel tool allows for high degrees of control and customization by power users. The CatCost™ Python Data Tools are designed to facilitate the transfer of data from the Excel tool to the web tool, so that users can take advantage of both the powerful visualization in the web tool and the higher degree of customization available in the excel tool. Rather than painstakingly copying entries from estimates, the materials, equipment, and spent catalyst libraries from Excel to a JSON format for the web tool, the CatCost™ Data Tools provide an intuitive applet which allows them to simply choose which library or estimate they wish to transfer, and then returns files that integrate smoothly with the web version of the tool.
This tool helps utilities evaluate potential time of use price-plans and find effective hours for price plan on peak periods and the potential price-elastic demand response. An optimization model can be used to find tiered prices for the time of use tariffs and analyze the impact on load profiles, energy consumption, utility, and customer savings. The tool is equipped with an optimization model to determine the energy consumption of electric appliances that can leverage survey data containing information on the number of appliances owned by customers. Lastly, a statistical model can be used to predict system-level load based on exogenous parameters such as weather, time of day, month, type of day, and year. The tool is scripted in Python and uses the Pyomo python optimization language.
Floorspace.js is a 2D geometry editor. Users can define an explicit floor plan for each story of a building. A story-by-story interface makes it easy to develop space geometry and assign properties. Referencing satellite imagery or floor plan images, when available, speeds up geometry entry. Conversion of 2D to 3D geometry is currently out of scope for Floorspace.js, a reference implementation is available in the OpenStudio® SDK. Explicit floor plans allow more building-specific information than parameterized shoe-boxes but less information than a full 3D BIM model. Sloped walls, complex roofs, detailed shading structures, and other complex 3D structures are out of FloorspaceJS's scope. In general, if users have a 3D BIM model in a tool that can export a useful BEM representation then it is better to use that export than to recreate a new model using FloorspaceJS. Re-usability and minimal dependencies were key design considerations for software developers. Web technologies can be used in both online and desktop applications. The editor was written in pure JavaScript for maximum portability and re-usability. A custom JavaScript Object Notation (JSON) file format was developed to ease integration with other applications. Custom JSON schema design was a key part of FloorspaceJS development.
This software can be used to tune the HPC operations of a Cray system running Slurm workload manager software. This includes many of the customizations that NERSC has made over the past three years. In particular these customizations allow for complex site-local policies to be implemented and managed in a scalable way, or add unique capabilities to slurm via our plugins, including: * performance software integration and compute node staging * temporary directory/dynamic user content management automation * software defined networking integration
The Gravitation and Mesh Adaptation (GaMA) toolbox consists of a set of Matlab classes for modeling the environment around asteroids and comets. A variety of gravitational models and supporting algorithms from are consolidated alongside a custom meshing utility tailored for the application. This allows the user to work within a single streamlined environment to import and manipulate surface definitions, probe the dynamical environment, integrate trajectories, and post-process results. For other applications, modified surface meshes can be exported. Gravity Models: 1) Werner's analytic polyhedron model 2) Mascon model 3) Gottlieb's spherical harmonic model 4) Approximate polyhedron models 5) Curvilinear surface models 6) Custom composite models Meshing Features: 1) Array-based half-edge data structure 2) Supports curvilinear surface definitions up to degree 4 3) Ray-tracing 4) Coarsening 5) Feature-based refinement 6) Projection 7) Smoothing 8) Mesh quality validity tests 9) Mesh repair Additional Features: 1) Solar radiation pressure model 2) Distant 3rd body model 3) Collision detection 4) Trajectory integration and post-processing 5) Visualization of surface fields
MVP stands for Multi-choice Viromics Pipeline. It is a pipeline that utilizes a suite of state-of-art tools: geNomad to identify viruses, proviruses, and plasmids in sequencing data, CheckV to assess the quality, and completeness of identified viral genomes, including identification of host contamination for integrated proviruses, A custom code for a rapid genome clustering based on pairwise ANI, Bowtie2, Samtools, and CoverM to calculate coverage of individual viral genomes by read mapping, A custom code to create a vOTU table of abundance, MMseqs2 to compare viral proteins to multiple databases. It provides a quick, and intuitive pipeline to get viral sequences and corresponding properties that can be used for downstream analyses.
A Python package for directed evolution on a protein sequence with gradient-based discrete Markov chain monte carlo (MCMC). Users are able to compose custom models that map sequence to function with pretrained models, including protein language models (PLMs), to guide and constrain search. Our package natively integrates with the HuggingFace platform and supports PLMs from transformers. Our MCMC sampler identifies promising amino acids to mutate via model gradients taken with respect to the input (i.e., sensitivity analysis). We allow users to compose their own custom target function for MCMC by leveraging the Product of Experts MCMC paradigm. Each model is an "expert" that contributes its own knowledge about the protein's fitness landscape to the overall target function. The sampler is designed to be more efficient and effective than brute force and random search while maintaining most of the generality and flexibility. Additional information can be found in the related publication: https://iopscience.iop.org/article/10.1088/2632-2153/accacd
T3CO-Go is a web-based dashboard with a user interface to modify input assumptions, run the T3CO tool, and visualize results. The dashboard, built using Python, can be run on a local server when installed from PyPI or hosted on the cloud and embedded in a webpage. T3CO-Go allows even non-Python-proficient users to customize their T3CO experience and gain insights from results customized for their analysis purpose. See also, PyPI Package: https://pypi.org/project/t3co-go/
The purpose of the COMMAND code is to provide a flexible, scalable tool for use in developing, integrating, and testing the technologies necessary for achieving autonomous operations of advanced nuclear reactors. The code enables users to efficiently implement custom simulations and experiments by combining key methods from different software modules. These modules are focused on: modeling and simulation tools, such as nuclear simulation tools used for high-fidelity modeling (e.g., Reactor Excursion and Leak Analysis Program [RELAP5-3D] and Monte Carlo N-Particle [MCNP]); machine learning and optimization tools (e.g., anomaly detection and data-driven modeling techniques); advanced control in its digital, high-performance, and supervisory control forms (e.g., proportional integral derivative (PID) control and model predictive control (MPC); and integration with hardware through industrial communication protocols. To ensure flexibility and scalability, COMMAND was designed to be both modular—the software “pieces” all inherit from generic building blocks and can be combined and connected to create complicated simulations—and high performing—designed for parallel processing, enabling simulations and experiments to take advantage of multi-core computers, servers, and nodes. The code is written in the Python programming language due to the language's popularity, active community, and open-source and cross-platform nature. Maintaining consistency with other simulation tools used within the nuclear energy community, users implement simulations and experiments through text input files, which define components, parameters, connections, etc., through lines of text. Given that COMMAND is written in Python, these input files are native Python scripts, and so use the standard Python structure and formatting. This also enables users to take advantage of Python's extensive package library to develop custom capabilities for their specific use cases.
SAND2025-11464O TInCuP (Tag Invoked Customization Points) is a modern, header-only C++20 library that addresses the boilerplate problem in tag invoke based customization points. It provides comprehensive code generation and verification tools. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525.
General applications for Hamilton Vantage is a flexible liquid handling method used to automate the most widely applicable types of automated liquid transfers. General applications can also be used as a tool to onboard new fully-automated workflows by breaking them down step by step into single transfers. The goal of General Applications is to make using the Hamilton Vantage liquid handler as easy & practical as using a handheld pipette for the end user. The software supports plate-to-plate transfers for a variety of method types including: Stamp: One-to-One, Stamp: One-To-Many, Split, Combine, Hitpick, and Qtray plating. General Applications eliminates the need for automation engineers to customize individual methods for each new workflow that gets onboarded. Steps can be customized within GenApps according to the needs of the researcher. The software utilizes a GUI to prompt the users to input variables – Allowing for flexible control over plate types, transfer volumes, number of replicates, tip types, liquid classes, mixing steps, aspiration/dispense heights and more. General Applications also generates a deck image and setup instructions to guide the researcher on how to load the deck and start the instrument.
Developed at Lawrence Livermore National Laboratory (LLNL), ROSE is an open source compiler infrastructure to build source-to-source program transformation and analysis tools for large-scale C (C89 to C23), C++ (C++98 to C++23), UPC, Fortran (Fortran4, 66, 77, 95, 2003), OpenMP, Java, Python, and Binary applications. ROSE users range from experienced compiler researchers to library and tool developers who may have minimal compiler experience. ROSE is particularly well suited for building custom tools for static analysis, program optimization, arbitrary program transformation, domain-specific optimizations, complex loop optimizations, performance analysis, and cyber-security. ROSE is: A library (and set of associated tools) to quickly and easily apply compiler techniques to one's code in order to improve application performance and developer productivity. A research and development compiler infrastructure for for writing custom source-to-source translators to perform source code transformations, analysis, and optimizations. Is
While magnetism originates at the atomic scale, the existing spectroscopic techniques sensitive to magnetic signals only produce spectra with spatial resolution on a larger scale. However, recently, it has been theoretically argued that atomic size electron probes with customized phase distributions can detect magnetic circular dichroism. Here, we report a direct experimental real-space detection of magnetic circular dichroism in aberration-corrected scanning transmission electron microscopy (STEM). Using an atomic size-aberrated electron probe with a customized phase distribution, we reveal the checkerboard antiferromagnetic ordering of Mn moments in LaMnAsO by observing a dichroic signal in the Mn L-edge. The novel experimental setup presented here, which can easily be implemented in aberration-corrected STEM, opens new paths for probing dichroic signals in materials with unprecedented spatial resolution.
TCAP (Thermal Cycling Absorption Process) is a gas chromatograph in principle using palladium in the column packing, but it is unique in the fact that the carrier gas, hydrogen, is being isotopically separated and the system is operated in a semi-continuous manner. TCAP units are used to purify tritium. The recent TCAP advances at Savannah River Site (SRS) include compressor-free concept for heating/cooling, push and pull separation using an active inverse column, and compact column design. The new developments allow significantly higher throughput and better reliability from 1/10 of the current production system's footprint while consuming 60% less energy. Various versions are derived in the meantime for external customers to be used in fusion energy projects.
High-throughput sequencing continues to produce an immense volume of information that is processed and assembled into mature sequence data. Here, data analysis tools are urgently needed that leverage the embedded DNA sequence polymorphisms and consequent changes to restriction sites or sequence motifs in a high-throughput manner to enable biological experimentation. Cis SERS was developed as a standalone open source tool to analyze sequence datasets and provide biologists with individual or comparative genome organization information in terms of presence and frequency of patterns or motifs such as restriction enzymes. Predicted agarose gel visualization of the custom analyses results was also integrated to enhance the usefulness of the software. Cis SERS offers several novel functionalities, such as handling of large and multiple datasets in parallel, multiple restriction enzyme site detection and custom motif detection features, which are seamlessly integrated with real time agarose gel visualization. Using a simple fasta-formatted file as input, Cis SERS utilizes the REBASE enzyme database. Results from Cis SERSenable the user to make decisions for designing genotyping by sequencing experiments, reduced representation sequencing, 3’UTR sequencing, and cleaved amplified polymorphic sequence (CAPS) molecular markers for large sample sets. Cis SERS is a java based graphical user interface built around a perl backbone. Several of the applications of Cis SERS including CAPS molecular marker development were successfully validated using wet-lab experimentation. Here, we present the tool Cis SERSand results from in-silico and corresponding wet-lab analyses demonstrating that Cis SERS is a technology platform solution that facilitates efficient data utilization in genomics and genetics studies.