The complexity and cost of managing high-performance computing infrastructures are on the rise. Automating management and repair through predictive models to minimize human interventions is an attempt to increase system availability and contain these costs. Building predictive models that are accurate enough to be useful in automatic management cannot be based on restricted log data from subsystems but requires a holistic approach to data analysis from disparate sources. Here we provide a detailed multi-scale characterization study based on four datasets reporting power consumption, temperature, workload, and hardware software events for an IBM Blue Gene Q installation. We show that the system runs a rich parallel workload, with low correlation among its components in terms of temperature and power, but higher correlation in terms of events. As expected, power and temperature correlate strongly, while events display negative correlations with load and power. Power and workload show moderate correlations, and only at the scale of components. The aim of the study is a systematic, integrated characterization of the computing infrastructure and discovery of correlation sources and levels to serve as basis for future predictive modeling efforts.
RAS logs from IBM Blue Gene systems have been included in several earlier studies. @cite_8 prediction of events in a Blue Gene Q machine is attempted while an earlier study of a Blue Gene L installation is @cite_16 . Both compare several classification tools (SVM, customized KNN, ANN, feature selection, rule-based models). These predictive studies look only at RAS events, while adding further data from other system components could improve prediction accuracy significantly, as noted by the authors themselves. In this paper we provide the first step towards such an analysis, where we perform descriptive analytics mandatory before any prediction can be attempted.
@cite_16 @cite_8
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To facilitate proactive fault management in large-scale systems such as IBM Blue Gene P, online failure prediction is of paramount importance. While many techniques have been presented for online failure prediction, questions arise regarding two commonly used approaches: period-based and event-driven. Which one has better accuracy? What is the best observation window (i.e., the time interval used to collect evidence before making a prediction)? How does the lead time (i.e., the time interval from the prediction to the failure occurrence) impact prediction arruracy? To answer these questions, we analyze and compare period-based and event-driven prediction approaches via a Bayesian prediction model. We evaluate these prediction approaches, under a variety of testing parameters, by means of RAS logs collected from a production supercomputer at Argonne National Laboratory. Experimental results show that the period-based Bayesian model and the event-driven Bayesian model can achieve up to 65.0 and 83.8 prediction accuracy, respectively. Furthermore, our sensitivity study indicates that the event-driven approach seems more suitable for proactive fault management in large-scale systems like Blue Gene P. Analyzing, understanding and predicting failure is of paramount importance to achieve effective fault management. While various fault prediction methods have been studied in the past, many of them are not practical for use in real systems. In particular, they fail to address two crucial issues: one is to provide location information (i.e., the components where the failure is expected to occur on) and the other is to provide sufficient lead time (i.e., the time interval preceding the time of failure occurrence). In this paper, we first refine the widely-used metrics for evaluating prediction accuracy by including location as well as lead time. We, then, present a practical failure prediction mechanism for IBM Blue Gene systems. A Genetic Algorithm based method is exploited, which takes into consideration the location and the lead time for failure prediction. We demonstrate the effectiveness of this mechanism by means of real failure logs and job logs collected from the IBM Blue Gene P system at Argonne National Laboratory. Our experiments show that the presented method can significantly improve fault management (e.g., to reduce service unit loss by up to 52.4 ) by incorporating location and lead time information in the prediction. Although molecular dynamics (MD) simulations of biomolecular systems often run for days to months, many events of great scientific interest and pharmaceutical relevance occur on long time scales that remain beyond reach. We present several new algorithms and implementation techniques that significantly accelerate parallel MD simulations compared with current stateof- the-art codes. These include a novel parallel decomposition method and message-passing techniques that reduce communication requirements, as well as novel communication primitives that further reduce communication time. We have also developed numerical techniques that maintain high accuracy while using single precision computation in order to exploit processor-level vector instructions. These methods are embodied in a newly developed MD code called Desmond that achieves unprecedented simulation throughput and parallel scalability on commodity clusters. Our results suggest that Desmond?s parallel performance substantially surpasses that of any previously described code. For example, on a standard benchmark, Desmond?s performance on a conventional Opteron cluster with 2K processors slightly exceeded the reported performance of IBM?s Blue Gene L machine with 32K processors running its Blue Matter MD code. We describe a system for extracting complex events among genes and proteins from biomedical literature, developed in context of the BioNLP'09 Shared Task on Event Extraction. For each event, its text trigger, class, and arguments are extracted. In contrast to the prevailing approaches in the domain, events can be arguments of other events, resulting in a nested structure that better captures the underlying biological statements. We divide the task into independent steps which we approach as machine learning problems. We define a wide array of features and in particular make extensive use of dependency parse graphs. A rule-based post-processing step is used to refine the output in accordance with the restrictions of the extraction task. In the shared task evaluation, the system achieved an F-score of 51.95 on the primary task, the best performance among the participants.