GPU accelerated path tracing of massive scenes

This article presents a solution to path tracing of massive scenes on multiple GPUs. Our approach analyzes the memory access pattern of a path tracer and defines how the scene data should be distributed across up to 16 CPUs with minimal effect on performance. The key concept is that the parts of the scene that have the highest amount of memory accesses are replicated on all GPUs. We propose two methods for maximizing the performance of path tracing when working with partially distributed scene data. Both methods work on the memory management level and therefore path tracer data structures do not have to be redesigned, making our approach applicable to other path tracers with only minor changes in their code. As a proof of concept, we have enhanced the open-source Blender Cycles path tracer. The approach was validated on scenes of sizes up to 169 GB. We show that only 1 5% of the scene data needs to be replicated to all machines for such large scenes. On smaller scenes we have verified that the performance is very close to rendering a fully replicated scene. In terms of scalability we have achieved a parallel efficiency of over 94% using up to 16 GPUs.Web of Science402art. no. 1

Biomass and abundance biases in European standard gillnet sampling

The European Standard EN 14757 recommends gillnet mesh sizes that range from 5 to 55mm (knot-to-knot) for the standard monitoring of fish assemblages and suggests adding gillnets with larger mesh sizes if necessary. Our research showed that the recommended range of mesh sizes did not provide a representative picture of fish sizes for larger species that commonly occur in continental Europe.We developed a novel, large mesh gillnet which consists of mesh sizes 70, 90, 110 and 135mm (knot to knot, 10m panels) and assessed its added value for monitoring purposes. From selectivity curves obtained by sampling with single mesh size gillnets (11 mesh sizes 6 – 55mm) and large mesh gillnets, we identified the threshold length of bream (Abramis brama) above which this widespread large species was underestimated by European standard gillnet catches. We tested the European Standard gillnet by comparing its size composition with that obtained during concurrent pelagic trawling and purse seining in a cyprinid-dominated reservoir and found that the European Standard underestimated fish larger than 292mm by 26 times. The inclusion of large mesh gillnets in the sampling design removed this underestimation. We analysed the length-age relationship of bream in the Římov Reservoir, and concluded that catches of bream larger than 292mm and older than five years were seriously underrepresented in European Standard gillnet catches. The Římov Reservoir is a typical cyprinid-dominated water body where the biomass of bream > 292mm formed 70% of the pelagic trawl and purse seine catch. The species-specific relationships between the large mesh gillnet catch and European Standard catch suggested that the presence of carp (Cyprinus carpio), European catfish (Silurus glanis), tench (Tinca tinca) or bream warrants the use of both gillnet types.We suggest extending the gillnet series in the European Standard to avoid misinterpretation of fish community biomass estimate

A simple fish-based approach to assess the ecological quality of freshwater reservoirs in Central Europe

The assessment of ecological quality in freshwater ecosystems is a key issue in many countries, but conditions for the development of assessment methodologies are often country-specific. This study proposes a simple methodology for the assessment of the ecological potential of reservoirs based on fish communities using a dataset covering major environmental and pressure gradients in reservoirs in the Czech Republic. Fish data obtained by gillnet sampling were correlated with a proxy of eutrophication as a key indicator of anthropogenic pressure for selecting appropriate fish-based indicators, establishing scoring criteria and developing the index of ecological quality. Expert judgement was also used to select potential fish indicators. Nine indicators were selected for the final fish-based index, fulfilling the criteria required by the Water Framework Directive. Two steps were used to validate the fish-based index quantification of its inter annual stability and sensitivity analysis of individual indicators. Finally, the index was compared to a previously developed general index for Central and Western Europe. Our study demonstrates that a combination of expert judgement and strict validation methods can result in an informative assessment of the ecological conditions, which can help identify conservation and restoration priorities. © P. Blabolil

Seasonal habitat use of three predatory fishes in a freshwater ecosystem

To understand the spatiotemporal overlap in the habitat use of sympatric predators, we studied longitudinal activity and reservoir section and depth use of pike (Esox lucius), pikeperch (Sander lucioerca) and catfsh (Silurus glanis) in the Římov Reservoir, using an autonomous telemetry system for 11 months. We found signifcant diferences among these species in studied parameters that varied considerably over tracked period. Pike consistently used the same sections of the reservoir, while pikeperch and catfsh frequently visited a tributary during the warm season (late spring and early autumn), and moved closer to the dam during the cold season (late autumn to early spring). Pike longitudinal activity was highest in the cold season, pikeperch in the warm season, and catfsh activity peaked in both seasons. Overlap in the depth use among species was higher in the warm season, when all species used the upper layer of the water column, and lower in the cold season, when pikeperch and catfsh used deeper areas. These results demonstrated overlay and temporal variation of habitat use among these predators, as well as potential spatiotemporal space for their direct ecological interactions. Acoustic telemetry · Predators · Habitat use · Movement ecology · Winter ecologypublishedVersio

Tracking aquatic animals for fisheries management in European waters

Acoustic telemetry (AT) has emerged as a valuable tool for monitoring aquatic animals in both European inland and marine waters over the past two decades. The European Tracking Network (ETN) initiative has played a pivotal role in promoting collaboration among AT researchers in Europe and has led to a significant increase in the number of tagged and observed aquatic animals in transboundary European waters. While AT benefits decision-making and delivers essential data to management bodies, its potential for management decision-making mechanisms has yet to be fully harnessed. We reviewed existing research, studies, and organisational initiatives related to aquatic animal tracking and their utility in fisheries management in European waters. We found that AT has already contributed to many aspects of fisheries management, such as improved understanding of stock dynamics, identification of critical habitats, assessment of migration routes, and evaluation of the effectiveness of conservation measures. However, broader utilisation of tracking technologies is needed. By leveraging the full potential of AT, managers can make more informed decisions to protect, restore, and sustainably manage European waters and creatures that live therein

Long-term monitoring of fish in a freshwater reservoir: Different ways of weighting complex spatial samples

Anthropogenic activities continue to pose the greatest challenges to freshwater ecosystems. Therefore, long-term monitoring is essential for the management and conservation of these resources. Monitoring programs for freshwater bodies often use a range of indicators, including biological elements such as fish. Existing European standard provides a depth-stratified gillnet sampling approach mainly in benthic habitats and at the deepest part of lakes to account for the uneven distribution of fish. However, the commonly used CEN (European Committee for Standardization) protocol does not weight sufficiently habitat volumes and underrepresent pelagic habitats to calculate whole-lake catch and biomass per unit effort (CPUE and BPUE, respectively). Extended European standard gillnet (4 larger mesh-sizes added in the geometric series) catch data collected over 18 years (2004–2021) in Římov Reservoir (Czech Republic) were used for a method comparison on indices for relative abundance and biomass of fish: CEN protocol without volume-weighting and two volume-weighted approaches. We also evaluated changes in species composition and trends in these fish population over time. Results indicated interannual changes in species composition, relative abundance, and biomass of fish community. The CEN protocol tended to put greater emphasis on benthic habitats which generally have larger CPUE and BPUE. Consequently, the two volume-weighting approaches produced lower estimates of the two parameters, with the exception of the most dominant pelagic bleak Alburnus alburnus (L.). All approaches consistently showed an increasing trend in whole-reservoir fish abundance and a decreasing trend in biomass over the study period. Following our assessment, we put forward the volume-weighting approach that considers the Volume of the depth Stratum (VOST) for weighting as the most realistic approximation of fish populations and therefore recommend its use

Modelling of the LTDE-SD radionuclide diffusion experiment in crystalline rock at the Äspö Hard Rock Laboratory (Sweden)

Acknowledgement. The comments from Dr. Kersti Nilsson, the analytical work by VKTA (Dresden, Germany) for some of the rock samples, and the initial review by Dr. Anna-Maria Jakobsson are gratefully acknowledged. The constructive comments and suggestions by Dr. Jordi Cama and an anonymous reviewer contributed to a significant improvement of the manuscript. Funding was provided through the Task Force partner organisations participating in this modelling exercise (SKB, Sweden; POSIVA OY, Finland; SÚRAO, Czech Republic; BMWi, Germany; KAERI, Republic of Korea; NUMO and JAEA, Japan). IDAEA-CSIC is a Severo Ochoa Centre of Research Excellence (Spanish Ministry of Science and Innovation, Project CEX2018-000794-S). The contributions of TUL, CTU and PROGEO are the result of the SÚRAO project "Research support for Safety Evaluation of Deep Geological Repository". JAEA's modelling was performed as a part of "The project for validating assessment methodology in geological disposal system" funded by the METI of Japan. A.I., P.T., M.V., G.D., and D.B. gratefully acknowledge the computing time granted by the JARA Vergabegremium and provided on the JARA Partition part of the supercomputer JURECA at Forschungszentrum Jülich.This study shows a comparison and analysis of results from a modelling exercise concerning a field experiment involving the transport and retention of different radionuclide tracers in crystalline rock. This exercise was performed within the Swedish Nuclear Fuel and Waste Management Company (SKB) Task Force on Modelling of Groundwater Flow and Transport of Solutes (Task Force GWFTS).Task 9B of the Task Force GWFTS was the second subtask within Task 9 and focused on the modelling of experimental results from the Long Term Sorption Diffusion Experiment in situ tracer test. The test had been performed at a depth of about 410m in the Äspö Hard Rock Laboratory. Synthetic groundwater containing a cocktail of radionuclide tracers was circulated for 198 days on the natural surface of a fracture and in a narrow slim hole drilled in unaltered rock matrix. Overcoring of the rock after the end of the test allowed for the measurement of tracer distribution profiles in the rock from the fracture surface (A cores) and also from the slim hole (D cores). The measured tracer activities in the rock samples showed long profiles (several cm) for non- or weakly-sorbing tracers (Cl-36, Na-22), but also for many of the more strongly-sorbing radionuclides. The understanding of this unexpected feature was one of the main motivations for this modelling exercise. However, re-evaluation and revision of the data during the course of Task 9B provided evidence that the anomalous long tails at low activities for strongly sorbing tracers were artefacts due to cross-contamination during rock sample preparation. A few data points remained for Cs-137, Ba-133, Ni-63 and Cd-109, but most measurements at long distances from the tracer source (>10mm) were now below the reported detection limits.Ten different modelling teams provided results for this exercise, using different concepts and codes. The tracers that were finally considered were Na-22, Cl-36, Co-57, Ni-63, Ba-133, Cs-137, Cd-109, Ra-226 and Np-237. Three main types of models were used: i) analytical solutions to the transport-retention equations, ii) continuum-porous-medium numerical models, and iii) microstructure-based models accounting for small-scale heterogeneity (i.e. mineral grains, porosities and/or microfracture distributions) and potential centimetre-scale fractures. The modelling by the different teams led to some important conclusions, concerning for instance the presence of a disturbed zone (a few mm in thickness) next to the fracture surface and to the wall of the slim hole and the role of micro-fractures and cm-scale fractures in the transport of weakly sorbing tracers. These conclusions could be reached after the re-evaluation and revision of the experimental data (tracer profiles in the rock) and the analysis of the different sets of model results provided by the different team

Modelling of the LTDE-SD radionuclide diffusion experiment in crystalline rock at the Äspö Hard Rock Laboratory (Sweden)

This study shows a comparison and analysis of results from a modelling exercise concerning a field experiment involving the transport and retention of different radionuclide tracers in crystalline rock. This exercise was performed within the Swedish Nuclear Fuel and Waste Management Company (SKB) Task Force on Modelling of Groundwater Flow and Transport of Solutes (Task Force GWFTS). Task 9B of the Task Force GWFTS was the second subtask within Task 9 and focused on the modelling of experimental results from the Long Term Sorption Diffusion Experiment in situ tracer test. The test had been performed at a depth of about 410m in the Äspö Hard Rock Laboratory. Synthetic groundwater containing a cocktail of radionuclide tracers was circulated for 198 days on the natural surface of a fracture and in a narrow slim hole drilled in unaltered rock matrix. Overcoring of the rock after the end of the test allowed for the measurement of tracer distribution profiles in the rock from the fracture surface (A cores) and also from the slim hole (D cores). The measured tracer activities in the rock samples showed long profiles (several cm) for non-or weakly-sorbing tracers (Cl-36, Na-22), but also for many of the more strongly-sorbing radionuclides. The understanding of this unexpected feature was one of the main motivations for this modelling exercise. However, re-evaluation and revision of the data during the course of Task 9B provided evidence that the anomalous long tails at low activities for strongly sorbing tracers were artefacts due to cross-contamination during rock sample preparation. A few data points remained for Cs-137, Ba-133, Ni-63 and Cd-109, but most measurements at long distances from the tracer source (>10mm) were now below the reported detection limits. Ten different modelling teams provided results for this exercise, using different concepts and codes. The tracers that were finally considered were Na-22, Cl-36, Co-57, Ni-63, Ba-133, Cs-137, Cd-109, Ra-226 and Np-237. Three main types of models were used: i) analytical solutions to the transport-retention equations, ii) continuum-porous-medium numerical models, and iii) microstructure-based models accounting for small-scale heterogeneity (i.e. mineral grains, porosities and/or microfracture distributions) and potential centimetre-scale fractures. The modelling by the different teams led to some important conclusions, concerning for instance the presence of a disturbed zone (a few mm in thickness) next to the fracture surface and to the wall of the slim hole and the role of micro-fractures and cm-scale fractures in the transport of weakly sorbing tracers. These conclusions could be reached after the re-evaluation and revision of the experimental data (tracer profiles in the rock) and the analysis of the different sets of model results provided by the different teams.The comments from Dr. Kersti Nilsson, the analytical work by VKTA (Dresden, Germany) for some of the rock samples, and the initial review by Dr. Anna-Maria Jakobsson are gratefully acknowledged. The constructive comments and suggestions by Dr. Jordi Cama and an anonymous reviewer contributed to a significant improvement of the manuscript. Funding was provided through the Task Force partner organisations participating in this modelling exercise (SKB, Sweden; POSIVA OY, Finland; SÚRAO, Czech Republic; BMWi, Germany; KAERI, Republic of Korea; NUMO and JAEA, Japan). IDAEA-CSIC is a Severo Ochoa Centre of Research Excellence (Spanish Ministry of Science and Innovation, Project CEX2018-000794-S). The contributions of TUL, CTU and PROGEO are the result of the SÚRAO project “Research support for Safety Evaluation of Deep Geological Repository”. JAEA’s modelling was performed as a part of “The project for validating assessment methodology in geological disposal system” funded by the METI of Japan. A.I., P.T., M.V., G.D., and D.B. gratefully acknowledge the computing time granted by the JARA Vergabegremium and provided on the JARA Partition part of the supercomputer JURECA at Forschungszentrum Jülich.Peer reviewe

Fish stock assessment of the Petrusplaat Reservoir in 2014

The aim of the complex ichthyological survey of Petrusplaat Reservoir in 2014 was the description of fish community composition and succession with the emphasis put on the abundance and biomass estimates. All important littoral/benthic and pelagic habitats were sampled using the well-established methods (benthic and pelagic gillnets, shore seining and pelagic fry trawling) aiming particularly on the improvement of abundance and biomass estimates of large fish