The Buffered \pi-Calculus: A Model for Concurrent Languages

Message-passing based concurrent languages are widely used in developing large distributed and coordination systems. This paper presents the buffered $\pi$-calculus --- a variant of the $\pi$-calculus where channel names are classified into buffered and unbuffered: communication along buffered channels is asynchronous, and remains synchronous along unbuffered channels. We show that the buffered $\pi$-calculus can be fully simulated in the polyadic $\pi$-calculus with respect to strong bisimulation. In contrast to the $\pi$-calculus which is hard to use in practice, the new language enables easy and clear modeling of practical concurrent languages. We encode two real-world concurrent languages in the buffered $\pi$-calculus: the (core) Go language and the (Core) Erlang. Both encodings are fully abstract with respect to weak bisimulations

Depth-First Event Ordering in BDD-Based Fault Tree Analysis

In BDD-based fault tree analysis, the size of BDD encoding fault trees heavily depends on the chosen ordering. From a theoretical point of view, finding the best ordering is an intractable task. So, heuristics are used to get good orderings. The most simple, and often one of the best heuristics is depth first left most (DFLM) heuristic. Although having been used widely, the performance of DFLM heuristic is still only vaguely understood, and not much formal work has been done. This paper starts from two different research objects: fault tree without repeated events (NRFT) and fault tree with repeated events (RFT). For NRFT, the BDD generated according to DFLM ordering is proved to be the smallest BDD with the size equal to the total number of events. For RFT, a randomized algorithm is firstly proposed to create reliable benchmarks including large number of random fault trees with different specificities. Then, these benchmarks are used to perform two types of experiments to study the performance of DFLM heuristic. For RFT with small number of repeated events, it is found that the sizes of the BDD built over DFLM orderings are only slightly larger than the sizes of the RFT with different specificities. However, with the increase of the number of repeated events, we encounter the size explosion problem, and the change of repeated event distribution patterns will have a significant impact on the sizes of the BDD built over DFLM orderings. We also find that the number of repeated events is the more important measure than some other specificities (shape, logical type of top gate and OR/AND gate distribution) to estimate the level of the difficulty in BDD-based fault tree analysis

Genomic Scaffold Filling Revisited

The genomic scaffold filling problem has attracted a lot of attention recently. The problem is on filling an incomplete sequence (scaffold) I into I\u27, with respect to a complete reference genome G, such that the number of adjacencies between G and I\u27 is maximized. The problem is NP-complete and APX-hard, and admits a 1.2-approximation. However, the sequence input I is not quite practical and does not fit most of the real datasets (where a scaffold is more often given as a list of contigs). In this paper, we revisit the genomic scaffold filling problem by considering this important case when, (1) a scaffold S is given, the missing genes X = c(G) - c(S) can only be inserted in between the contigs, and the objective is to maximize the number of adjacencies between G and the filled S\u27 and (2) a scaffold S is given, a subset of the missing genes X\u27 subset X = c(G) - c(S) can only be inserted in between the contigs, and the objective is still to maximize the number of adjacencies between G and the filled S\u27\u27. For problem (1), we present a simple NP-completeness proof, we then present a factor-2 greedy approximation algorithm, and finally we show that the problem is FPT when each gene appears at most d times in G. For problem (2), we prove that the problem is W[1]-hard and then we present a factor-2 FPT-approximation for the case when each gene appears at most d times in G