Toward Reproducible Baselines: The Open-Source IR Reproducibility Challenge

The Open-Source IR Reproducibility Challenge brought together developers of open-source search engines to provide reproducible baselines of their systems in a common environment on Amazon EC2. The product is a repository that contains all code necessary to generate competitive ad hoc retrieval baselines, such that with a single script, anyone with a copy of the collection can reproduce the submitted runs. Our vision is that these results would serve as widely accessible points of comparison in future IR research. This project represents an ongoing effort, but we describe the first phase of the challenge that was organized as part of a workshop at SIGIR 2015. We have succeeded modestly so far, achieving our main goals on the Gov2 collection with seven opensource search engines. In this paper, we describe our methodology, share experimental results, and discuss lessons learned as well as next steps

Anytime Ranking for Impact-Ordered Indexes

The ability for a ranking function to control its own execution time is useful for managing load, reigning in outliers, and adapting to different types of queries. We propose a simple yet effective anytime algorithm for impact-ordered indexes that builds on a score-at-a-time query evaluation strategy. In our approach, postings segments are processed in decreasing order of their impact scores, and the algorithm early terminates when a specified number of postings have been processed. With a simple linear model and a few training topics, we can determine this threshold given a time budget in milliseconds. Experiments on two web test collections show that our approach can accurately control query evaluation latency and that aggressive limits on execution time lead to minimal decreases in effectiveness

Managing tail latency in large scale information retrieval systems

As both the availability of internet access and the prominence of smart devices continue to increase, data is being generated at a rate faster than ever before. This massive increase in data production comes with many challenges, including efficiency concerns for the storage and retrieval of such large-scale data. However, users have grown to expect the sub-second response times that are common in most modern search engines, creating a problem - how can such large amounts of data continue to be served efficiently enough to satisfy end users? This dissertation investigates several issues regarding tail latency in large-scale information retrieval systems. Tail latency corresponds to the high percentile latency that is observed from a system - in the case of search, this latency typically corresponds to how long it takes for a query to be processed. In particular, keeping tail latency as low as possible translates to a good experience for all users, as tail latency is directly related to the worst-case latency and hence, the worst possible user experience. The key idea in targeting tail latency is to move from questions such as "what is the median latency of our search engine?" to questions which more accurately capture user experience such as "how many queries take more than 200ms to return answers?" or "what is the worst case latency that a user may be subject to, and how often might it occur?" While various strategies exist for efficiently processing queries over large textual corpora, prior research has focused almost entirely on improvements to the average processing time or cost of search systems. As a first contribution, we examine some state-of-the-art retrieval algorithms for two popular index organizations, and discuss the trade-offs between them, paying special attention to the notion of tail latency. This research uncovers a number of observations that are subsequently leveraged for improved search efficiency and effectiveness. We then propose and solve a new problem, which involves processing a number of related queries together, known as multi-queries, to yield higher quality search results. We experiment with a number of algorithmic approaches to efficiently process these multi-queries, and report on the cost, efficiency, and effectiveness trade-offs present with each. Ultimately, we find that some solutions yield a low tail latency, and are hence suitable for use in real-time search environments. Finally, we examine how predictive models can be used to improve the tail latency and end-to-end cost of a commonly used multi-stage retrieval architecture without impacting result effectiveness. By combining ideas from numerous areas of information retrieval, we propose a prediction framework which can be used for training and evaluating several efficiency/effectiveness trade-off parameters, resulting in improved trade-offs between cost, result quality, and tail latency

Deep Clustering and Deep Network Compression

The use of deep learning has grown increasingly in recent years, thereby becoming a much-discussed topic across a diverse range of fields, especially in computer vision, text mining, and speech recognition. Deep learning methods have proven to be robust in representation learning and attained extraordinary achievement. Their success is primarily due to the ability of deep learning to discover and automatically learn feature representations by mapping input data into abstract and composite representations in a latent space. Deep learning’s ability to deal with high-level representations from data has inspired us to make use of learned representations, aiming to enhance unsupervised clustering and evaluate the characteristic strength of internal representations to compress and accelerate deep neural networks.Traditional clustering algorithms attain a limited performance as the dimensionality in-creases. Therefore, the ability to extract high-level representations provides beneficial components that can support such clustering algorithms. In this work, we first present DeepCluster, a clustering approach embedded in a deep convolutional auto-encoder. We introduce two clustering methods, namely DCAE-Kmeans and DCAE-GMM. The DeepCluster allows for data points to be grouped into their identical cluster, in the latent space, in a joint-cost function by simultaneously optimizing the clustering objective and the DCAE objective, producing stable representations, which is appropriate for the clustering process. Both qualitative and quantitative evaluations of proposed methods are reported, showing the efficiency of deep clustering on several public datasets in comparison to the previous state-of-the-art methods.Following this, we propose a new version of the DeepCluster model to include varying degrees of discriminative power. This introduces a mechanism which enables the imposition of regularization techniques and the involvement of a supervision component. The key idea of our approach is to distinguish the discriminatory power of numerous structures when searching for a compact structure to form robust clusters. The effectiveness of injecting various levels of discriminatory powers into the learning process is investigated alongside the exploration and analytical study of the discriminatory power obtained through the use of two discriminative attributes: data-driven discriminative attributes with the support of regularization techniques, and supervision discriminative attributes with the support of the supervision component. An evaluation is provided on four different datasets.The use of neural networks in various applications is accompanied by a dramatic increase in computational costs and memory requirements. Making use of the characteristic strength of learned representations, we propose an iterative pruning method that simultaneously identifies the critical neurons and prunes the model during training without involving any pre-training or fine-tuning procedures. We introduce a majority voting technique to compare the activation values among neurons and assign a voting score to evaluate their importance quantitatively. This mechanism effectively reduces model complexity by eliminating the less influential neurons and aims to determine a subset of the whole model that can represent the reference model with much fewer parameters within the training process. Empirically, we demonstrate that our pruning method is robust across various scenarios, including fully-connected networks (FCNs), sparsely-connected networks (SCNs), and Convolutional neural networks (CNNs), using two public datasets.Moreover, we also propose a novel framework to measure the importance of individual hidden units by computing a measure of relevance to identify the most critical filters and prune them to compress and accelerate CNNs. Unlike existing methods, we introduce the use of the activation of feature maps to detect valuable information and the essential semantic parts, with the aim of evaluating the importance of feature maps, inspired by novel neural network interpretability. A majority voting technique based on the degree of alignment between a se-mantic concept and individual hidden unit representations is utilized to evaluate feature maps’ importance quantitatively. We also propose a simple yet effective method to estimate new convolution kernels based on the remaining crucial channels to accomplish effective CNN compression. Experimental results show the effectiveness of our filter selection criteria, which outperforms the state-of-the-art baselines.To conclude, we present a comprehensive, detailed review of time-series data analysis, with emphasis on deep time-series clustering (DTSC), and a founding contribution to the area of applying deep clustering to time-series data by presenting the first case study in the context of movement behavior clustering utilizing the DeepCluster method. The results are promising, showing that the latent space encodes sufficient patterns to facilitate accurate clustering of movement behaviors. Finally, we identify state-of-the-art and present an outlook on this important field of DTSC from five important perspectives

Biometric Applications Based on Multiresolution Analysis Tools

This dissertation is dedicated to the development of new algorithms for biometric applications based on multiresolution analysis tools. Biometric is a unique, measurable characteristic of a human being that can be used to automatically recognize an individual or verify an individual\u27s identity. Biometrics can measure physiological, behavioral, physical and chemical characteristics of an individual. Physiological characteristics are based on measurements derived from direct measurement of a part of human body, such as, face, fingerprint, iris, retina etc. We focussed our investigations to fingerprint and face recognition since these two biometric modalities are used in conjunction to obtain reliable identification by various border security and law enforcement agencies. We developed an efficient and robust human face recognition algorithm for potential law enforcement applications. A generic fingerprint compression algorithm based on state of the art multiresolution analysis tool to speed up data archiving and recognition was also proposed. Finally, we put forth a new fingerprint matching algorithm by generating an efficient set of fingerprint features to minimize false matches and improve identification accuracy. Face recognition algorithms were proposed based on curvelet transform using kernel based principal component analysis and bidirectional two-dimensional principal component analysis and numerous experiments were performed using popular human face databases. Significant improvements in recognition accuracy were achieved and the proposed methods drastically outperformed conventional face recognition systems that employed linear one-dimensional principal component analysis. Compression schemes based on wave atoms decomposition were proposed and major improvements in peak signal to noise ratio were obtained in comparison to Federal Bureau of Investigation\u27s wavelet scalar quantization scheme. Improved performance was more pronounced and distinct at higher compression ratios. Finally, a fingerprint matching algorithm based on wave atoms decomposition, bidirectional two dimensional principal component analysis and extreme learning machine was proposed and noteworthy improvements in accuracy were realized

SETI science working group report

This report covers the initial activities and deliberations of a continuing working group asked to assist the SETI Program Office at NASA. Seven chapters present the group's consensus on objectives, strategies, and plans for instrumental R&D and for a microwave search for extraterrestrial in intelligence (SETI) projected for the end of this decade. Thirteen appendixes reflect the views of their individual authors. Included are discussions of the 8-million-channel spectrum analyzer architecture and the proof-of-concept device under development; signal detection, recognition, and identification on-line in the presence of noise and radio interference; the 1-10 GHz sky survey and the 1-3 GHz targeted search envisaged; and the mutual interests of SETI and radio astronomy. The report ends with a selective, annotated SETI reading list of pro and contra SETI publications

Novel parallel approaches to efficiently solve spatial problems on heterogeneous CPU-GPU systems

Addressing this task is difficult as (i) it requires analysing large databases in a short time, and (ii) it is commonly addressed by combining different methods with complex data dependencies, making it challenging to exploit parallelism on heterogeneous CPU-GPU systems. Moreover, most efforts in this context focus on improving the accuracy of the approaches and neglect reducing the processing time—the most accurate algorithm was designed to process the fingerprints using a single thread. We developed a new methodology to address the latent fingerprint identification problem called “Asynchronous processing for Latent Fingerprint Identification” (ALFI) that speeds up processing while maintaining high accuracy. ALFI exploits all the resources of CPU-GPU systems using asynchronous processing and fine-coarse parallelism to analyse massive fingerprint databases. We assessed the performance of ALFI on Linux and Windows operating systems using the well-known NIST/FVC databases. Experimental results revealed that ALFI is on average 22x faster than the state-of-the-art identification algorithm, reaching a speed-up of 44.7x for the best-studied case. In terrain analysis, Digital Elevation Models (DEMs) are relevant datasets used as input to those algorithms that typically sweep the terrain to analyse its main topological features such as visibility, elevation, and slope. The most challenging computation related to this topic is the total viewshed problem. It involves computing the viewshed—the visible area of the terrain—for each of the points in the DEM. The algorithms intended to solve this problem require many memory accesses to 2D arrays, which, despite being regular, lead to poor data locality in memory. We proposed a methodology called “skewed Digital Elevation Model” (sDEM) that substantially improves the locality of memory accesses and exploits the inherent parallelism of rotational sweep-based algorithms. Particularly, sDEM applies a data relocation technique before accessing the memory and computing the viewshed, thus significantly reducing the execution time. Different implementations are provided for single-core, multi-core, single-GPU, and multi-GPU platforms. We carried out two experiments to compare sDEM with (i) the most used geographic information systems (GIS) software and (ii) the state-of-the-art algorithm for solving the total viewshed problem. In the first experiment, sDEM results on average 8.8x faster than current GIS software, despite considering only a few points because of the limitations of the GIS software. In the second experiment, sDEM is 827.3x faster than the state-of-the-art algorithm considering the best case. The use of Unmanned Aerial Vehicles (UAVs) with multiple onboard sensors has grown enormously in tasks involving terrain coverage, such as environmental and civil monitoring, disaster management, and forest fire fighting. Many of these tasks require a quick and early response, which makes maximising the land covered from the flight path an essential goal, especially when the area to be monitored is irregular, large, and includes many blind spots. In this regard, state-of-the-art total viewshed algorithms can help analyse large areas and find new paths providing all-round visibility. We designed a new heuristic called “Visibility-based Path Planning” (VPP) to solve the path planning problem in large areas based on a thorough visibility analysis. VPP generates flyable paths that provide high visual coverage to monitor forest regions using the onboard camera of a single UAV. For this purpose, the hidden areas of the target territory are identified and considered when generating the path. Simulation results showed that VPP covers up to 98.7% of the Montes de Malaga Natural Park and 94.5% of the Sierra de las Nieves National Park, both located in the province of Malaga (Spain). In addition, a real flight test confirmed the high visibility achieved using VPP. Our methodology and analysis can be easily applied to enhance monitoring in other large outdoor areas.In recent years, approaches that seek to extract valuable information from large datasets have become particularly relevant in today's society. In this category, we can highlight those problems that comprise data analysis distributed across two-dimensional scenarios called spatial problems. These usually involve processing (i) a series of features distributed across a given plane or (ii) a matrix of values where each cell corresponds to a point on the plane. Therefore, we can see the open-ended and complex nature of spatial problems, but it also leaves room for imagination to be applied in the search for new solutions. One of the main complications we encounter when dealing with spatial problems is that they are very computationally intensive, typically taking a long time to produce the desired result. This drawback is also an opportunity to use heterogeneous systems to address spatial problems more efficiently. Heterogeneous systems give the developer greater freedom to speed up suitable algorithms by increasing the parallel programming options available, making it possible for different parts of a program to run on the dedicated hardware that suits them best. Several of the spatial problems that have not been optimised for heterogeneous systems cover very diverse areas that seem vastly different at first sight. However, they are closely related due to common data processing requirements, making them suitable for using dedicated hardware. In particular, this thesis provides new parallel approaches to tackle the following three crucial spatial problems: latent fingerprint identification, total viewshed computation, and path planning based on maximising visibility in large regions. Latent fingerprint identification is one of the essential identification procedures in criminal investigations. Addressing this task is difficult as (i) it requires analysing large databases in a short time, and (ii) it is commonly addressed by combining different methods with complex data dependencies, making it challenging to exploit parallelism on heterogeneous CPU-GPU systems. Moreover, most efforts in this context focus on improving the accuracy of the approaches and neglect reducing the processing time—the most accurate algorithm was designed to process the fingerprints using a single thread. We developed a new methodology to address the latent fingerprint identification problem called “Asynchronous processing for Latent Fingerprint Identification” (ALFI) that speeds up processing while maintaining high accuracy. ALFI exploits all the resources of CPU-GPU systems using asynchronous processing and fine-coarse parallelism to analyse massive fingerprint databases. We assessed the performance of ALFI on Linux and Windows operating systems using the well-known NIST/FVC databases. Experimental results revealed that ALFI is on average 22x faster than the state-of-the-art identification algorithm, reaching a speed-up of 44.7x for the best-studied case. In terrain analysis, Digital Elevation Models (DEMs) are relevant datasets used as input to those algorithms that typically sweep the terrain to analyse its main topological features such as visibility, elevation, and slope. The most challenging computation related to this topic is the total viewshed problem. It involves computing the viewshed—the visible area of the terrain—for each of the points in the DEM. The algorithms intended to solve this problem require many memory accesses to 2D arrays, which, despite being regular, lead to poor data locality in memory. We proposed a methodology called “skewed Digital Elevation Model” (sDEM) that substantially improves the locality of memory accesses and exploits the inherent parallelism of rotational sweep-based algorithms. Particularly, sDEM applies a data relocation technique before accessing the memory and computing the viewshed, thus significantly reducing the execution time. Different implementations are provided for single-core, multi-core, single-GPU, and multi-GPU platforms. We carried out two experiments to compare sDEM with (i) the most used geographic information systems (GIS) software and (ii) the state-of-the-art algorithm for solving the total viewshed problem. In the first experiment, sDEM results on average 8.8x faster than current GIS software, despite considering only a few points because of the limitations of the GIS software. In the second experiment, sDEM is 827.3x faster than the state-of-the-art algorithm considering the best case. The use of Unmanned Aerial Vehicles (UAVs) with multiple onboard sensors has grown enormously in tasks involving terrain coverage, such as environmental and civil monitoring, disaster management, and forest fire fighting. Many of these tasks require a quick and early response, which makes maximising the land covered from the flight path an essential goal, especially when the area to be monitored is irregular, large, and includes many blind spots. In this regard, state-of-the-art total viewshed algorithms can help analyse large areas and find new paths providing all-round visibility. We designed a new heuristic called “Visibility-based Path Planning” (VPP) to solve the path planning problem in large areas based on a thorough visibility analysis. VPP generates flyable paths that provide high visual coverage to monitor forest regions using the onboard camera of a single UAV. For this purpose, the hidden areas of the target territory are identified and considered when generating the path. Simulation results showed that VPP covers up to 98.7% of the Montes de Malaga Natural Park and 94.5% of the Sierra de las Nieves National Park, both located in the province of Malaga (Spain). In addition, a real flight test confirmed the high visibility achieved using VPP. Our methodology and analysis can be easily applied to enhance monitoring in other large outdoor areas

A non-invasive diagnostic system for early assessment of acute renal transplant rejection.

Early diagnosis of acute renal transplant rejection (ARTR) is of immense importance for appropriate therapeutic treatment administration. Although the current diagnostic technique is based on renal biopsy, it is not preferred due to its invasiveness, recovery time (1-2 weeks), and potential for complications, e.g., bleeding and/or infection. In this thesis, a computer-aided diagnostic (CAD) system for early detection of ARTR from 4D (3D + b-value) diffusion-weighted (DW) MRI data is developed. The CAD process starts from a 3D B-spline-based data alignment (to handle local deviations due to breathing and heart beat) and kidney tissue segmentation with an evolving geometric (level-set-based) deformable model. The latter is guided by a voxel-wise stochastic speed function, which follows from a joint kidney-background Markov-Gibbs random field model accounting for an adaptive kidney shape prior and for on-going visual kidney-background appearances. A cumulative empirical distribution of apparent diffusion coefficient (ADC) at different b-values of the segmented DW-MRI is considered a discriminatory transplant status feature. Finally, a classifier based on deep learning of a non-negative constrained stacked auto-encoder is employed to distinguish between rejected and non-rejected renal transplants. In the “leave-one-subject-out” experiments on 53 subjects, 98% of the subjects were correctly classified (namely, 36 out of 37 rejected transplants and 16 out of 16 nonrejected ones). Additionally, a four-fold cross-validation experiment was performed, and an average accuracy of 96% was obtained. These experimental results hold promise of the proposed CAD system as a reliable non-invasive diagnostic tool