Convolutional Neural Networks for Counting Fish in Fisheries Surveillance Video

We present a computer vision tool that analyses video from a CCTV system installed on fishing trawlers to monitor discarded fish catch. The system aims to support expert observers who review the footage and verify numbers, species and sizes of discarded fish. The operational environment presents a significant challenge for these tasks. Fish are processed below deck under fluorescent lights, they are randomly oriented and there are multiple occlusions. The scene is unstructured and complicated by the presence of fishermen processing the catch. We describe an approach to segmenting the scene and counting fish that exploits the $N^4$-Fields algorithm. We performed extensive tests of the algorithm on a data set comprising 443 frames from 6 belts. Results indicate the relative count error (for individual fish) ranges from 2\% to 16\%. We believe this is the first system that is able to handle footage from operational trawlers

Automatic Software Repair: a Bibliography

This article presents a survey on automatic software repair. Automatic software repair consists of automatically finding a solution to software bugs without human intervention. This article considers all kinds of repairs. First, it discusses behavioral repair where test suites, contracts, models, and crashing inputs are taken as oracle. Second, it discusses state repair, also known as runtime repair or runtime recovery, with techniques such as checkpoint and restart, reconfiguration, and invariant restoration. The uniqueness of this article is that it spans the research communities that contribute to this body of knowledge: software engineering, dependability, operating systems, programming languages, and security. It provides a novel and structured overview of the diversity of bug oracles and repair operators used in the literature

Mining Fix Patterns for FindBugs Violations

In this paper, we first collect and track a large number of fixed and unfixed violations across revisions of software. The empirical analyses reveal that there are discrepancies in the distributions of violations that are detected and those that are fixed, in terms of occurrences, spread and categories, which can provide insights into prioritizing violations. To automatically identify patterns in violations and their fixes, we propose an approach that utilizes convolutional neural networks to learn features and clustering to regroup similar instances. We then evaluate the usefulness of the identified fix patterns by applying them to unfixed violations. The results show that developers will accept and merge a majority (69/116) of fixes generated from the inferred fix patterns. It is also noteworthy that the yielded patterns are applicable to four real bugs in the Defects4J major benchmark for software testing and automated repair.Comment: Accepted for IEEE Transactions on Software Engineerin

Software that Learns from its Own Failures

All non-trivial software systems suffer from unanticipated production failures. However, those systems are passive with respect to failures and do not take advantage of them in order to improve their future behavior: they simply wait for them to happen and trigger hard-coded failure recovery strategies. Instead, I propose a new paradigm in which software systems learn from their own failures. By using an advanced monitoring system they have a constant awareness of their own state and health. They are designed in order to automatically explore alternative recovery strategies inferred from past successful and failed executions. Their recovery capabilities are assessed by self-injection of controlled failures; this process produces knowledge in prevision of future unanticipated failures

Valuing Ecosystem Services with Fishery Rents: A Lumped-Parameter Approach to Hypoxia in the Neuse River Estuary

Valuing ecosystem services with microeconomic underpinnings presents challenges because these services typically constitute nonmarket values and contribute to human welfare indirectly through a series of ecological pathways that are dynamic, nonlinear, and difficult to quantify and link to appropriate economic spatial and temporal scales. This paper develops and demonstrates a method to value a portion of ecosystem services when a commercial fishery is dependent on the quality of estuarine habitat. Using a lumped-parameter, dynamic open access bioeconomic model that is spatially explicit and includes predator-prey interactions, this paper quantifies part of the value of improved ecosystem function in the Neuse River Estuary when nutrient pollution is reduced. Specifically, it traces the effects of nitrogen loading on the North Carolina commercial blue crab fishery by modeling the response of primary production and the subsequent impact on hypoxia (low dissolved oxygen). Hypoxia, in turn, affects blue crabs and their preferred prey. The discounted present value fishery rent increase from a 30% reduction in nitrogen loadings in the Neuse is $2.56 million, though this welfare estimate is fairly sensitive to some parameter values. Surprisingly, this number is not sensitive to initial conditions.Open access, Predator-prey, Hypoxia, Habitat-dependent fisheries

FixMiner: Mining Relevant Fix Patterns for Automated Program Repair

Patching is a common activity in software development. It is generally performed on a source code base to address bugs or add new functionalities. In this context, given the recurrence of bugs across projects, the associated similar patches can be leveraged to extract generic fix actions. While the literature includes various approaches leveraging similarity among patches to guide program repair, these approaches often do not yield fix patterns that are tractable and reusable as actionable input to APR systems. In this paper, we propose a systematic and automated approach to mining relevant and actionable fix patterns based on an iterative clustering strategy applied to atomic changes within patches. The goal of FixMiner is thus to infer separate and reusable fix patterns that can be leveraged in other patch generation systems. Our technique, FixMiner, leverages Rich Edit Script which is a specialized tree structure of the edit scripts that captures the AST-level context of the code changes. FixMiner uses different tree representations of Rich Edit Scripts for each round of clustering to identify similar changes. These are abstract syntax trees, edit actions trees, and code context trees. We have evaluated FixMiner on thousands of software patches collected from open source projects. Preliminary results show that we are able to mine accurate patterns, efficiently exploiting change information in Rich Edit Scripts. We further integrated the mined patterns to an automated program repair prototype, PARFixMiner, with which we are able to correctly fix 26 bugs of the Defects4J benchmark. Beyond this quantitative performance, we show that the mined fix patterns are sufficiently relevant to produce patches with a high probability of correctness: 81% of PARFixMiner's generated plausible patches are correct.Comment: 31 pages, 11 figure