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At least 73 records · Page 4

Community-driven development for computational biology at Sprints, Hackathons and Codefests

Background: Computational biology comprises a wide range of technologies and approaches. Multiple technologies can be combined to create more powerful workflows if the individuals contributing the data or providing tools for its interpretation can find mutual understanding and consensus. Much conversation and joint investigation are required in order to identify and implement the best approaches. Traditionally, scientific conferences feature talks presenting novel technologies or insights, followed up by informal discussions during coffee breaks. In multi-institution collaborations, in order to reach agreement on implementation details or to transfer deeper insights in a technology and practical skills, a representative of one group typically visits the other. However, this does not scale well when the number of technologies or research groups is large. Conferences have responded to this issue by introducing Birds-of-a-Feather (BoF) sessions, which offer an opportunity for individuals with common interests to intensify their interaction. However, parallel BoF sessions often make it hard for participants to join multiple BoFs and find common ground between the different technologies, and BoFs are generally too short to allow time for participants to program together. Results: This report summarises our experience with computational biology Codefests, Hackathons and Sprints, which are interactive developer meetings. They are structured to reduce the limitations of traditional scientific meetings described above by strengthening the interaction among peers and letting the participants determine the schedule and topics. These meetings are commonly run as loosely scheduled “unconferences” (self-organized identification of participants and topics for meetings) over at least two days, with early introductory talks to welcome and organize contributors, followed by intensive collaborative coding sessions. We summarise some prominent achievements of those meetings and describe differences in how these are organised, how their audience is addressed, and their outreach to their respective communities. Conclusions: Hackathons, Codefests and Sprints share a stimulating atmosphere that encourages participants to jointly brainstorm and tackle problems of shared interest in a self-driven proactive environment, as well as providing an opportunity for new participants to get involved in collaborative projects.

59 BASIC BIOLOGICAL SCIENCES↗

Performance bounds on parallel self-initiating discrete-event

The use is considered of massively parallel architectures to execute discrete-event simulations of what is termed self-initiating models. A logical process in a self-initiating model schedules its own state re-evaluation times, independently of any other logical process, and sends its new state to other logical processes following the re-evaluation. The interest is in the effects of that communication on synchronization. The performance is considered of various synchronization protocols by deriving upper and lower bounds on optimal performance, upper bounds on Time Warp's performance, and lower bounds on the performance of a new conservative protocol. The analysis of Time Warp includes the overhead costs of state-saving and rollback. The analysis points out sufficient conditions for the conservative protocol to outperform Time Warp. The analysis also quantifies the sensitivity of performance to message fan-out, lookahead ability, and the probability distributions underlying the simulation.

Nicol, David M.↗

An Induced Environment Contamination Monitor for the Space Shuttle

The Induced Environment Contamination Monitor (IECM), a set of ten instruments integrated into a self-contained unit and scheduled to fly on shuttle Orbital Flight Tests 1 through 6 and on Spacelabs 1 and 2, is described. The IECM is designed to measure the actual environment to determine whether the strict controls placed on the shuttle system have solved the contamination problem. Measurements are taken during prelaunch, ascent, on-orbit, descent, and postlanding. The on-orbit measurements are molecular return flux, background spectral intensity, molecular deposition, and optical surface effects. During the other mission phases dew point, humidity, aerosol content, and trace gas are measured as well as optical surface effects and molecular deposition. The IECM systems and thermal design are discussed. Preflight and ground operations are presented together with associated ground support equipment. Flight operations and data reduction plans are given.

Miller, E. R.↗

Parallel plan execution with self-processing networks

A critical issue for space operations is how to develop and apply advanced automation techniques to reduce the cost and complexity of working in space. In this context, it is important to examine how recent advances in self-processing networks can be applied for planning and scheduling tasks. For this reason, the feasibility of applying self-processing network models to a variety of planning and control problems relevant to spacecraft activities is being explored. Goals are to demonstrate that self-processing methods are applicable to these problems, and that MIRRORS/II, a general purpose software environment for implementing self-processing models, is sufficiently robust to support development of a wide range of application prototypes. Using MIRRORS/II and marker passing modelling techniques, a model of the execution of a Spaceworld plan was implemented. This is a simplified model of the Voyager spacecraft which photographed Jupiter, Saturn, and their satellites. It is shown that plan execution, a task usually solved using traditional artificial intelligence (AI) techniques, can be accomplished using a self-processing network. The fact that self-processing networks were applied to other space-related tasks, in addition to the one discussed here, demonstrates the general applicability of this approach to planning and control problems relevant to spacecraft activities. It is also demonstrated that MIRRORS/II is a powerful environment for the development and evaluation of self-processing systems.

Dautrechy, C. Lynne↗

Parallel plan execution with self-processing networks

A critical issue for space operations is how to develop and apply advanced automation techniques to reduce the cost and complexity of working in space. In this context, it is important to examine how recent advances in self-processing networks can be applied for planning and scheduling tasks. For this reason, the feasibility of applying self-processing network models to a variety of planning and control problems relevant to spacecraft activities is being explored. Goals are to demonstrate that self-processing methods are applicable to these problems, and that MIRRORS/II, a general purpose software environment for implementing self-processing models, is sufficiently robust to support development of a wide range of application prototypes. Using MIRRORS/II and marker passing modelling techniques, a model of the execution of a Spaceworld plan was implemented. This is a simplified model of the Voyager spacecraft which photographed Jupiter, Saturn, and their satellites. It is shown that plan execution, a task usually solved using traditional artificial intelligence (AI) techniques, can be accomplished using a self-processing network. The fact that self-processing networks were applied to other space-related tasks, in addition to the one discussed here, demonstrates the general applicability of this approach to planning and control problems relevant to spacecraft activities. It is also demonstrated that MIRRORS/II is a powerful environment for the development and evaluation of self-processing systems.

D'Autrechy, C. Lynne↗

Dynamical logical qubits in the Bacon-Shor code

The Bacon-Shor code is a quantum error correcting subsystem code composed of weight-2 check operators that admits a single logical qubit, and has distance 𝑑 on a 𝑑×𝑑 square lattice. We show that when viewed as a Floquet code, by choosing an appropriate measurement schedule of the check operators, it can additionally host several dynamical logical qubits. Specifically, we identify a period-4 measurement schedule of the check operators that preserves logical information between the instantaneous stabilizer groups. Such a schedule not only measures the usual stabilizers of the Bacon-Shor code, but also measures and promotes gauge operators of the parent subsystem code to additional temporary stabilizers that protect the dynamical logical qubits against errors. We show that the code distance of these Floquet-Bacon-Shor codes scales as Θ⁢(𝑑/√𝑘) on an 𝑛=𝑑×𝑑 lattice with 𝑘 dynamical logical qubits, along with the logical qubit of the parent subsystem code. Unlike the usual Bacon-Shor code, the Floquet-Bacon-Shor code family introduced here can therefore saturate the subsystem bound 𝑘⁢𝑑=𝑂⁡(𝑛). Moreover, several errors are shown to be self-corrected purely by the measurement schedule itself. This work provides insights into the design space for dynamical codes and expands the known approaches for constructing Floquet codes.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

MARS: Malleable Actor-Critic Reinforcement Learning Scheduler

In this paper, we introduce MARS, a new scheduling system for HPC-cloud infrastructures based on a cost-aware, flexible reinforcement learning approach, which serves as an intermediate layer for next generation HPC-cloud resource manager. MARS ensembles the pre-trained models from heuristic workloads and decides on the most cost-effective strategy for optimization. A whole workflow application would be split into several optimizable dependent sub-tasks, then based on the pre- defined resource management plan, a reward will be generated after executing a scheduled task. Lastly, MARS updates the Deep Neural Network (DNN) model based on the reward. MARS is designed to optimize the existing models through reinforcement mechanisms. MARS adapts to the dynamics of workflow applications, selects the most cost-effective scheduling solution among pre-built scheduling strategies (backfilling, SJF, etc.) and self- learning deep neural network model at run-time. We evaluate MARS with different real-world workflow traces. MARS can achieve 5%-60% increased performance compare to state-of-the- art approaches.

Baheri, Betis↗

S-band and Ku-band return service interference between TDRSS users

The Tracking Data Relay Satellite System (TDRSS) return service performance can be degraded by interference from another user when two or more spacecraft communicate with the same Tracking Data Relay Satellite (TDRS) at the same time. This paper describes the S-band and Ku-band return service self interference environment expected in the 1996 - 2010 timeframe and shows the self-interference expected for selected TDRSS users based on Communications Link Analysis and Simulation System (CLASS) Automated Conflict Resolution System (ACRS) and Interference Monitor (IM) tools. The results show: which user links are susceptible to interference from other users, the interference statistics, and whether or not interference can be avoided with appropriate interference mitigation techniques such as scheduling, cross-polarization, or Pseudo random Noise (PN) spreading. The analysis results enable Space Network (SN) managers to determine the impacts of self-interference on the TDRSS service availability. They also enable project offices to determine whether they should select return service communications parameters, such as polarization and PN spreading, to minimize the probability of being impacted by self-interference; try to schedule TDRSS support around other user spacecraft communications schedules; or accept communication outages due to self-interference.

Harrell, Linda↗

Curb Allocation and Pick-Up Drop-Off Aggregation for a Shared Autonomous Vehicle Fleet

Advances in information technologies and vehicle automation have birthed new transportation services, including shared autonomous vehicles (SAVs). Shared autonomous vehicles are on-demand self-driving taxis, with flexible routes and schedules, able to replace personal vehicles for many trips in the near future. The siting and density of pick-up and drop-off (PUDO) points for SAVs, much like bus stops, can be key in planning SAV fleet operations, since PUDOs impact SAV demand, route choices, passenger wait times, and network congestion. Unlike traditional human-driven taxis and ride-hailing vehicles like Lyft and Uber, SAVs are unlikely to engage in quasi-legal procedures, like double parking or fire hydrant pick-ups. In congested settings, like central business districts (CBD) or airport curbs, SAVs and others will not be allowed to pick up and drop off passengers wherever they like. This paper uses an agent-based simulation to model the impact of different PUDO locations and densities in the Austin, Texas CBD, where land values are highest and curb spaces are coveted. In this paper 18 scenarios were tested, varying PUDO density, fleet size and fare price. The results show that for a given fare price and fleet size, PUDO spacing (e.g., one block vs. three blocks) has significant impact on ridership, vehicle-miles travelled, vehicle occupancy, and revenue. A good fleet size to serve the region’s 80 core square miles is 4000 SAVs, charging a $1 fare per mile of travel distance, and with PUDOs spaced three blocks of distance apart from each other in the CBD.

Hunter, Christian B.↗

The Relationship of Self-Efficacy and Complacency in Pilot-Automation Interaction

Pilot 'complacency' has been implicated as a contributing factor in numerous aviation accidents and incidents. The term has become more prominent with the increase in automation technology in modern cockpits and, therefore, research has been focused on understanding the factors that may mitigate its effect on pilot-automation interaction. The study examined self-efficacy of supervisory monitoring and the relationship between complacency on strategy of pilot use of automation for workload management under automation schedules that produce the potential for complacency. The results showed that self-efficacy can be a 'double-edged' sword in reducing potential for automation-induced complacency but limiting workload management strategies and increasing other hazardous states of awareness.

Prinzel, Lawrence J., III↗

Run-time parallelization and scheduling of loops

The class of problems that can be effectively compiled by parallelizing compilers is discussed. This is accomplished with the doconsider construct which would allow these compilers to parallelize many problems in which substantial loop-level parallelism is available but cannot be detected by standard compile-time analysis. We describe and experimentally analyze mechanisms used to parallelize the work required for these types of loops. In each of these methods, a new loop structure is produced by modifying the loop to be parallelized. We also present the rules by which these loop transformations may be automated in order that they be included in language compilers. The main application area of the research involves problems in scientific computations and engineering. The workload used in our experiment includes a mixture of real problems as well as synthetically generated inputs. From our extensive tests on the Encore Multimax/320, we have reached the conclusion that for the types of workloads we have investigated, self-execution almost always performs better than pre-scheduling. Further, the improvement in performance that accrues as a result of global topological sorting of indices as opposed to the less expensive local sorting, is not very significant in the case of self-execution.

Saltz, Joel H.↗

Optimal economic dispatch policy for prosumer with energy storage considering self-consumption demand

This paper analyzed the effects of self-consumption demand on the joint economic dispatch of prosumers (energy consumers who are also producers), particularly for prosumers with both energy storage and distributed energy sources (DERs). Studies in the existing literature on the economic dispatch scheduling policy of energy storage, mostly from the perspective of electricity merchants, do not address the impacts of self-consumption demand. However, due to the intermittent and high levels of uncertainty regarding DERs generation and the dynamic demand of the prosumer, production and consumption are not always simultaneous; there are two possible scenarios in each period depending on whether DERs generation can meet prosumers' self-consumption or not. Incorporating the self-consumption demand will pose modeling challenges since these two scenarios cannot occur simultaneously in each period, and different scenarios require different decisions for prosumers. Further, this paper analyzed the two scenarios separately to find the optimal storage scheduling strategy, and the results were combined to get the optimal global solution. We focused on prosumers' economic decision-making while considering self-consumption demand and the physical constraints of a battery based on dynamic programming. Our study showed that the feasible state of charge (SOC) range of storage can be segmented into several sub-ranges by SOC reference points under the above two scenarios. As a result, a prosumer's optimal scheduling can be uniquely and conveniently selected based on the sub-ranges within which the current SOC falls. The results, therefore, provided multistage decision-making guidance for prosumers with energy storage.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

Constructing an Efficient Self-Tuning Aircraft Engine Model for Control and Health Management Applications

Self-tuning aircraft engine models can be applied for control and health management applications. The self-tuning feature of these models minimizes the mismatch between any given engine and the underlying engineering model describing an engine family. This paper provides details of the construction of a self-tuning engine model centered on a piecewise linear Kalman filter design. Starting from a nonlinear transient aerothermal model, a piecewise linear representation is first extracted. The linearization procedure creates a database of trim vectors and state-space matrices that are subsequently scheduled for interpolation based on engine operating point. A series of steady-state Kalman gains can next be constructed from a reduced-order form of the piecewise linear model. Reduction of the piecewise linear model to an observable dimension with respect to available sensed engine measurements can be achieved using either a subset or an optimal linear combination of "health" parameters, which describe engine performance. The resulting piecewise linear Kalman filter is then implemented for faster-than-real-time processing of sensed engine measurements, generating outputs appropriate for trending engine performance, estimating both measured and unmeasured parameters for control purposes, and performing on-board gas-path fault diagnostics. Computational efficiency is achieved by designing multidimensional interpolation algorithms that exploit the shared scheduling of multiple trim vectors and system matrices. An example application illustrates the accuracy of a self-tuning piecewise linear Kalman filter model when applied to a nonlinear turbofan engine simulation. Additional discussions focus on the issue of transient response accuracy and the advantages of a piecewise linear Kalman filter in the context of validation and verification. The techniques described provide a framework for constructing efficient self-tuning aircraft engine models from complex nonlinear simulations.Self-tuning aircraft engine models can be applied for control and health management applications. The self-tuning feature of these models minimizes the mismatch between any given engine and the underlying engineering model describing an engine family. This paper provides details of the construction of a self-tuning engine model centered on a piecewise linear Kalman filter design. Starting from a nonlinear transient aerothermal model, a piecewise linear representation is first extracted. The linearization procedure creates a database of trim vectors and state-space matrices that are subsequently scheduled for interpolation based on engine operating point. A series of steady-state Kalman gains can next be constructed from a reduced-order form of the piecewise linear model. Reduction of the piecewise linear model to an observable dimension with respect to available sensed engine measurements can be achieved using either a subset or an optimal linear combination of "health" parameters, which describe engine performance. The resulting piecewise linear Kalman filter is then implemented for faster-than-real-time processing of sensed engine measurements, generating outputs appropriate for trending engine performance, estimating both measured and unmeasured parameters for control purposes, and performing on-board gas-path fault diagnostics. Computational efficiency is achieved by designing multidimensional interpolation algorithms that exploit the shared scheduling of multiple trim vectors and system matrices. An example application illustrates the accuracy of a self-tuning piecewise linear Kalman filter model when applied to a nonlinear turbofan engine simulation. Additional discussions focus on the issue of transient response accuracy and the advantages of a piecewise linear Kalman filter in the context of validation and verification. The techniques described provide a framework for constructing efficient self-tuning aircraft engine models from complex nonlinear simulatns.

Armstrong, Jeffrey B.↗

50-Year Window to Establish a Space Faring Civilization

Humankind may only have a short window of 50 years to become a space-faring civilization, after which time the opportunity to do so may become too difficult or impractical to pursue. Current policies for space exploration and infrastructure development implicitly assume a gradualistic approach to technology, budgets, and mission execution -- the common thought has been that there will be plenty of time in humankind's future to become a space-based species, and whatever we are unable to accomplish will be borne by the generations that follow. However, considering natural events, available energy, and human tendencies, the timing to make the most effective effort to achieve multi-planet status might be now, before momentum is lost and we become distracted by Peak Oil and changing energy economies -- restarting a space program after such turmoil may be more difficult than would be practical without cheap, storable, high-energy density petroleum. "Space-faring civilization" is defined as an economically profitable space-based economy that demands the presence of humans off-world in order to sustain a high level of prosperity. An initial foothold for a space-based economy that would fit within the 50-year window might include Earth dependence on rare-earth elements or other hard-to-obtain minerals mined from moons or asteroids, or a permanent settlement on another planet. Using published sources, notional mass and energy requirements for a minimal self-sustaining Mars settlement is calculated, and the number of launch vehicles discussed. Setting the launch schedule to match that of current NASA projections, it could take more than 26 years of semi-annual launches to build up such a self-sustaining human settlement -- a cost and commitment that has not been acknowledged nor planned for. Considering the time required to establish a multi-planet species, this paper frames the required window of decision that, if not taken, could condemn the species to Earth subject to whatever natural or human-made calamities that endanger single-planet civilizations.

human exploration↗

Unlocking Autonomous Telescopes through Reinforcement Learning: An Offline Framework and Insights from a Case Study

Optimizing observational astronomy campaigns is becoming a complex and expensive task for next-generation telescopes, where manual planning of observations may tend to reach suboptimal results in terms of optimization.Reinforcement Learning (RL) has been well-demonstrated as a valuable approach for training autonomous systems, and it may provide the basis for self-driving telescopes capable of scanning the sky and optimizing the scheduling for astronomy campaigns.We have developed a framework for the optimization of telescope scheduling using RL techniques, based on a dataset containing data on a discrete set of sky locations that the telescope should visit, and a reward metric. We compared several RL algorithms applied to an offline simulation dataset based at the Stone Edge Observatory, considering a discrete set of sky locations to visit and using “t-effective” as a reward metric, a measure of the quality of the data.Deep Q-Networks (DQNs), belonging to the class of value-based methods, have shown remarkable success in the optimization of astronomical observations in our dataset. In the full environment, the average reward value in each state was found to be 92%±5% of the maximum possible reward, while on the test set it resulted in 87%±9% of the maximum possible reward.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

An Adaptable and Comprehensive Project Assessment Tool

Most companies, agencies, and other real property owners require capital asset projects to pass some type of scrutiny before budgets and authority to expend funds for the design, construction and eventual operations are approved. This process typically involves management approval of key/critical decision(s) or a project’s passage through gates (or critical decisions). Cost, functionality, safety, and risk are just some of the factors typically considered during project assessment processes. This paper describes a tool that was developed and is used by the Department of Energy to facilitate this project assessment process. There are three versions of this tool for construction, decontamination and decommissioning (D&D), and environmental restoration/cleanup project types. The tool’s elements and associated criteria are tailored for each project type; although some elements, such as cost estimating and scheduling, are used in common. The tool is easy to use, requiring little or no training. It provides a common assessment tool for project self-appraisals and independent project reviews. It promotes efficiency and reduces disagreements and unnecessary effort. A comprehensive array of elements covers the gamut of cost, schedule, scope/technical, and safety/security ensuring that no important project attributes are overlooked. The tool is adaptable for use by any organization.

97 MATHEMATICS AND COMPUTING↗

Is "Sleepy Supervision" the New "Drowsy Driving"?

Human error has been implicated as a causal factor in a large proportion of road accidents. Automated driving systems purport to mitigate this risk, but self-driving systems that allow a driver to entirely disengage from the driving task also require the driver to monitor the environment and take control when necessary. Given that sleep loss impairs monitoring performance and there is a high prevalence of sleep deficiency in modern society, we hypothesized that supervising a self-driving vehicle would unmask latent sleepiness compared to manually controlled driving among individuals following their typical sleep schedules. We found that participants felt sleepier, had more involuntary transitions to sleep, had slower reaction times and more attentional failures, and showed substantial modifications in brain synchronization during and following an autonomous drive compared to a manually controlled drive. Our findings suggest that the introduction of partial self-driving capabilities in vehicles has the potential to paradoxically increase accident risk.

sleepiness↗