Collaboration tools and techniques for large model datasets

R. P. Signell; S. Carniel; J. Chiggiato; I. Janekovic; J. Pullen; C. R. Sherwood

doi:10.1016/j.jmarsys.2007.02.013

Home/Archive/USGS

USGS · 70033587

Collaboration tools and techniques for large model datasets

R. P. Signell·S. Carniel·J. Chiggiato·I. Janekovic·J. Pullen·C. R. Sherwood

View original source ↗Export metadata ↓

Abstract

In MREA and many other marine applications, it is common to have multiple models running with different grids, run by different institutions. Techniques and tools are described for low-bandwidth delivery of data from large multidimensional datasets, such as those from meteorological and oceanographic models, directly into generic analysis and visualization tools. Output is stored using the NetCDF CF Metadata Conventions, and then delivered to collaborators over the web via OPeNDAP. OPeNDAP datasets served by different institutions are then organized via THREDDS catalogs. Tools and procedures are then used which enable scientists to explore data on the original model grids using tools they are familiar with. It is also low-bandwidth, enabling users to extract just the data they require, an important feature for access from ship or remote areas. The entire implementation is simple enough to be handled by modelers working with their webmasters - no advanced programming support is necessary. ?? 2007 Elsevier B.V. All rights reserved.

Explore related subjects

Journal of Marine Systems Article

Keep this discovery

Explore connections, maps & timelines

BibTeX RIS

R. P. Signell, S. Carniel, J. Chiggiato, I. Janekovic, J. Pullen, C. R. Sherwood. 2008. Collaboration tools and techniques for large model datasets. https://doi.org/10.1016/j.jmarsys.2007.02.013

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related USGS reports

USGS2017

Environmental conditions and prey-switching by a seabird predator impact juvenile salmon survival

Due to spatio-temporal variability of lower trophic-level productivity along the California Current Ecosystem (CCE), predators must be capable of switching prey or foraging areas in response to changes in environmental conditions and available forage. The Gulf of the Farallones in central California represents a biodiversity hotspot and contains the largest common murre ( Uria aalge ) colonies along the CCE. During spring, one of the West Coast's most important Chinook salmon ( Oncorhynchus tshawytscha ) populations out-migrates into the Gulf of the Farallones. We quantify the effect of predation on juvenile Chinook salmon associated with ecosystem-level variability by integrating long-term time series of environmental conditions (upwelling, river discharge), forage species abundance within central CCE, and population size, at-sea distribution, and diet of the common murre. Our results demonstrate common murres typically forage in the vicinity of their offshore breeding sites, but in years in which their primary prey, pelagic young-of-year rockfish ( Sebastes spp.), are less available they forage for adult northern anchovies ( Engraulis mordax ) nearshore . Incidentally, while foraging inshore, common murre consumption of out-migrating juvenile Chinook salmon, which are collocated with northern anchovy, increases and population survival of the salmon is significantly reduced. Results support earlier findings that show timing and strength of upwelling , and the resultant forage fish assemblage, is related to Chinook salmon recruitment variability in the CCE, but we extend those results by demonstrating the significance of top-down impacts associated with these bottom-up dynamics. Our results demonstrate the complexity of ecosystem interactions and impacts between higher trophic-level predators and their prey, complexities necessary to quantify in order to parameterize ecosystem models and evaluate likely outcomes of ecosystem management options.

California↗

USGS2016

What a drag: Quantifying the global impact of chronic bottom trawling on continental shelf sediment

Continental shelves worldwide are subject to intense bottom trawling that causes sediment to be resuspended. The widely used traditional concepts of modern sedimentary transport systems on the shelf rely only on estimates for naturally driven sediment resuspension such as through storm waves, bottom currents, and gravity-driven flows but they overlook a critical anthropogenic factor. The strong influence of bottom trawling on a source-to-sink sediment budget is explored on the NW Iberian shelf. Use of Automated Information System vessel tracking data provides for a high-resolution vessel track reconstruction and the accurate calculation of the spatial distribution of bottom trawling intensity and associated resuspended sediment load. The mean bottom trawling-induced resuspended sediment mass for the NW Iberian shelf is 13.50 Mt yr − 1 , which leads to a six-fold increase in off-shelf sediment transport when compared to natural resuspension mechanisms. The source-to-sink budget analysis provides evidence that bottom trawling causes a rapid erosion of the fine sediment on human time scales. Combining global soft sediment distribution data of the shelves with worldwide bottom trawling intensity estimates we show that the bottom trawling-induced resuspended sediment mass amounts to approximately the same mass of all sediment entering the shelves through rivers. Spatial delineations between natural and anthropogenic sediment resuspension areas are presented to aid in marine management questions.

Journal of Marine Systems↗

USGS2014

Comparative biogeochemistry-ecosystem-human interactions on dynamic continental margins

The ocean’s continental margins face strong and rapid change, forced by a combination of direct human activity, anthropogenic CO 2 -induced climate change, and natural variability. Stimulated by discussions in Goa, India at the IMBER IMBIZO III, we (1) provide an overview of the drivers of biogeochemical variation and change on margins, (2) compare temporal trends in hydrographic and biogeochemical data across different margins (3) review ecosystem responses to these changes, (4) highlight the importance of margin time series for detecting and attributing change and (5) examine societal responses to changing margin biogeochemistry and ecosystems. We synthesize information over a wide range of margin settings in order to identify the commonalities and distinctions among continental margin ecosystems. Key drivers of biogeochemical variation include long-term climate cycles, CO 2 -induced warming, acidification, and deoxygenation, as well as sea level rise, eutrophication, hydrologic and water cycle alteration, changing land use, fishing, and species invasion. Ecosystem responses are complex and impact major margin services including primary production, fisheries production, nutrient cycling, shoreline protection, chemical buffering, and biodiversity. Despite regional differences, the societal consequences of these changes are unarguably large and mandate coherent actions to reduce, mitigate and adapt to multiple stressors on continental margins.

Journal of Marine Systems↗