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POET (v0.1): speedup of many-core parallel reactive transport simulations with fast DHT lookups
(2021)
Coupled reactive transport simulations are extremely demanding in terms of required computational power, which hampers their application and leads to coarsened and oversimplified domains. The chemical sub-process represents the major bottleneck: its acceleration is an urgent challenge which gathers increasing interdisciplinary interest along with pressing requirements for subsurface utilization such as spent nuclear fuel storage, geothermal energy and CO2 storage. In this context we developed POET (POtsdam rEactive Transport), a research parallel reactive transport simulator integrating algorithmic improvements which decisively speed up coupled simulations. In particular, POET is designed with a master/worker architecture, which ensures computational efficiency in both multicore and cluster compute environments. POET does not rely on contiguous grid partitions for the parallelization of chemistry but forms work packages composed of grid cells distant from each other. Such scattering prevents particularly expensive geochemical simulations, usually concentrated in the vicinity of a reactive front, from generating load imbalance between the available CPUs (central processing units), as is often the case with classical partitions. Furthermore, POET leverages an original implementation of the distributed hash table (DHT) mechanism to cache the results of geochemical simulations for further reuse in subsequent time steps during the coupled simulation. The caching is hence particularly advantageous for initially chemically homogeneous simulations and for smooth reaction fronts. We tune the rounding employed in the DHT on a 2D benchmark to validate the caching approach, and we evaluate the performance gain of POET's master/worker architecture and the DHT speedup on a 3D benchmark comprising around 650 000 grid elements. The runtime for 200 coupling iterations, corresponding to 960 simulation days, reduced from about 24 h on 11 workers to 29 min on 719 workers. Activating the DHT reduces the runtime further to 2 h and 8 min respectively. Only with these kinds of reduced hardware requirements and computational costs is it possible to realistically perform the longterm complex reactive transport simulations, as well as perform the uncertainty analyses required by pressing societal challenges connected with subsurface utilization.
MUP
(2020)
Message Queuing Telemetry Transport (MQTT) is one of the dominating protocols for edge- and cloud-based Internet of Things (IoT) solutions. When a security vulnerability of an IoT device is known, it has to be fixed as soon as possible. This requires a firmware update procedure. In this paper, we propose a secure update protocol for MQTT-connected devices which ensures the freshness of the firmware, authenticates the new firmware and considers constrained devices. We show that the update protocol is easy to integrate in an MQTT-based IoT network using a semantic approach. The feasibility of our approach is demonstrated by a detailed performance analysis of our prototype implementation on a IoT device with 32 kB RAM. Thereby, we identify design issues in MQTT 5 which can help to improve the support of constrained devices.