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At least 289 records · Page 16

Integration of end-user Cloud storage for CMS analysis

End-user Cloud storage is increasing rapidly in popularity in research communities thanks to the collaboration capabilities it offers, namely synchronisation and sharing. CERN IT has implemented a model of such storage named, CERNBox, integrated with the CERN AuthN and AuthZ services. To exploit the use of the end-user Cloud storage for the distributed data analysis activity, the CMS experiment has started the integration of CERNBox as a Grid resource. This will allow CMS users to make use of their own storage in the Cloud for their analysis activities as well as to benefit from synchronisation and sharing capabilities to achieve results faster and more effectively. It will provide an integration model of Cloud storages in the Grid, which is implemented and commissioned over the world’s largest computing Grid infrastructure, Worldwide LHC Computing Grid (WLCG). In this paper, we present the integration strategy and infrastructure changes needed in order to transparently integrate end-user Cloud storage with the CMS distributed computing model. We describe the new challenges faced in data management between Grid and Cloud and how they were addressed, along with details of the support for Cloud storage recently introduced into the WLCG data movement middleware, FTS3. Finally, the commissioning experience of CERNBox for the distributed data analysis activity is also presented.

97 MATHEMATICS AND COMPUTING↗

OPEN leaf : an open‐source cloud‐based phenotyping system for tracking dynamic changes at leaf‐specific resolution in Arabidopsis

SUMMARY The first draft of the Arabidopsis genome was released more than 20 years ago and despite intensive molecular research, more than 30% of Arabidopsis genes remained uncharacterized or without an assigned function. This is in part due to gene redundancy within gene families or the essential nature of genes, where their deletion results in lethality (i.e., thedark genome). High‐throughput plant phenotyping (HTPP) offers an automated and unbiased approach to characterize subtle or transient phenotypes resulting from gene redundancy or inducible gene silencing; however, access to commercial HTPP platforms remains limited. Here we describe the design and implementation ofOPEN leaf, an open‐source phenotyping system with cloud connectivity and remote bilateral communication to facilitate data collection, sharing and processing.OPEN leaf, coupled with our SMART imaging processing pipeline was able to consistently document and quantify dynamic changes at the whole rosette level and leaf‐specific resolution when plants experienced changes in nutrient availability. Our data also demonstrate that VIS sensors remain underutilized and can be used in high‐throughput screens to identify and characterize previously unidentified phenotypes in a leaf‐specific time‐dependent manner. Moreover, the modular and open‐source design ofOPEN leafallows seamless integration of additional sensors based on users and experimental needs.

Plant Sciences↗

Enabling Chemistry of Gases and Aerosols for Assessment of Short-Lived Climate Forcers: Improving Solar Radiation Modeling in the DOE-ACME and CESM models

This proposal seeks to maintain the DOE-ACME (offshoot of CESM) as one of the leading CCMs to evaluate near-term climate mitigation. It will implement, test, and optimize the new UCI photolysis codes within CESM CAM5 and new CAM versions in ACME. Fast-J is a high-order-accuracy (8 stream) code for calculating solar scattering and absorption in a single column atmosphere containing clouds, aerosols, and gases that was developed at UCI and implemented in CAM5 under the previous BER/SciDAC grant.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

An overview of cloud–radiation denial experiments for the Energy Exascale Earth System Model version 1

Abstract. The interaction between clouds and radiation is a key process within the climate system, and assessing the impacts of that interaction provides valuable insights into both the present-day climate and future projections. Many modeling experiments have been designed over the years to probe the impact of the cloud radiative effect (CRE) on the climate, including those that seek to disrupt the mean CRE effect and those that only disrupt the covariance of the CRE with the circulation. Seven such experimental designs have been added to the Energy Exascale Earth System Model version 1 (E3SMv1) of the US Department of Energy. These experiments include both the first and second iterations of the Clouds On/Off Klimate Intercomparison Experiment (COOKIE) experimental design, as well as the cloud-locking method. This paper documents the code changes necessary to implement such experiments and also provides detailed instructions for how to run them. Analyses across experiment types provide valuable insights and confirm the findings of prior studies, including the role of cloud radiative heating toward intensifying the monsoon, intensifying rain rates, and poleward expansion of the general circulation owing to cloud feedbacks.

Harrop, Bryce E. (ORCID:0000000339524525)↗

AP-Cloud: Adaptive Particle-in-Cloud method for optimal solutions to Vlasov–Poisson equation

We propose a new adaptive Particle-in-Cloud (AP-Cloud) method for obtaining optimal numerical solutions to the Vlasov–Poisson equation. Unlike the traditional particle-in-cell (PIC) method, which is commonly used for solving this problem, the AP-Cloud adaptively selects computational nodes or particles to deliver higher accuracy and efficiency when the particle distribution is highly non-uniform. Unlike other adaptive techniques for PIC, our method balances the errors in PDE discretization and Monte Carlo integration, and discretizes the differential operators using a generalized finite difference (GFD) method based on a weighted least square formulation. As a result, AP-Cloud is independent of the geometric shapes of computational domains and is free of artificial parameters. Efficient and robust implementation is achieved through an octree data structure with 2:1 balance. We analyze the accuracy and convergence order of AP-Cloud theoretically, and verify the method using an electrostatic problem of a particle beam with halo. Simulation results show that the AP-Cloud method is substantially more accurate and faster than the traditional PIC, and it is free of artificial forces that are typical for some adaptive PIC techniques.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Aerosol Effects on Cirrus through Ice Nucleation in the Community Atmosphere Model CAM5 with a Statistical Cirrus Scheme

A statistical cirrus cloud scheme that tracks ice saturation ratio in the clear-sky and cloudy portion of a grid box separately has been implemented into NCAR CAM5 to provide a consistent treatment of ice nucleation and cloud formation. Simulated ice supersaturation and ice crystal number concentrations strongly depend on the number concentrations of heterogeneous ice nuclei (IN), subgrid temperature formulas and the number concentration of sulfate particles participating in homogeneous freezing, while simulated ice water content is insensitive to these perturbations. 1% to 10% dust particles serving as heterogeneous IN is 20 found to produce ice supersaturaiton in better agreement with observations. Introducing a subgrid temperature perturbation based on long-term aircraft observations of meso-scale motion produces a better hemispheric contrast in ice supersaturation compared to observations. Heterogeneous IN from dust particles significantly alter the net radiative fluxes at the top of atmosphere (TOA) (-0.24 to -1.59 W m-2) with a significant clear-sky longwave component (0.01 to -0.55 W m-2). Different cirrus treatments significantly perturb the net TOA anthropogenic aerosol forcing from -1.21 W m-2 to -1.54 W m-2, with a standard deviation of 0.10 W m-2. Aerosol effects on cirrus clouds exert an even larger impact on the atmospheric component of the radiative fluxes (two or three times the changes in the TOA radiative fluxes) and therefore on the hydrology cycle through the fast atmosphere response. This points to the urgent need to quantify aerosol effects on cirrus clouds through ice nucleation and how these further affect the hydrological cycle.

Wang, Minghuai↗

The temperatures of ejecta transporting in vacuum and gases

In this work, we measure continuous thermal radiance from evolving clouds of liquid metal fragments ejected into vacuum, nonreactive, and reactive gas. We implement a model for the thermalization of the ejecta and gas and use this to constrain the absolute temperature of the ejecta cloud. This model enables further analyses of ejecta thermal behavior under a variety of conditions.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Implementation of a Bayesian Engine for Uncertainty Analysis

In probabilistic risk assessment, it is important to have an environment where analysts have access to a shared and secured high performance computing and a statistical analysis tool package. As part of the advanced small modular reactor probabilistic risk analysis framework implementation, we have identified the need for advanced Bayesian computations. However, in order to make this technology available to non-specialists, there is also a need of a simplified tool that allows users to author models and evaluate them within this framework. As a proof-of-concept, we have implemented an advanced open source Bayesian inference tool, OpenBUGS, within the browser-based cloud risk analysis framework that is under development at the Idaho National Laboratory. This development, the “OpenBUGS Scripter” has been implemented as a client side, visual web-based and integrated development environment for creating OpenBUGS language scripts. It depends on the shared server environment to execute the generated scripts and to transmit results back to the user. The visual models are in the form of linked diagrams, from which we automatically create the applicable OpenBUGS script that matches the diagram. These diagrams can be saved locally or stored on the server environment to be shared with other users.

99 GENERAL AND MISCELLANEOUS↗

Multiscale Methods for Accurate, Efficient, and Scale-Aware Models

The goal of UWM’s portion of the Multiscale project was to develop a unified cloud parameterization that could simulate all cloud types --- including stratocumulus, shallow cumulus, and deep cumulus --- using the single equation set implemented in CLUBB. An advantage of a unified parameterization methodology is that it avoids the difficult task of interfacing different cloud parameterizations for different cloud types. To interface CLUBB’s clouds to the microphysics, a Monte Carlo interface, SILHS, was further developed.

54 ENVIRONMENTAL SCIENCES↗

Remote Sensing of Tropical Ecosystems: Atmospheric Correction and Cloud Masking Matter

Tropical rainforests are significant contributors to the global cycles of energy, water and carbon. As a result, monitoring of the vegetation status over regions such as Amazonia has been a long standing interest of Earth scientists trying to determine the effect of climate change and anthropogenic disturbance on the tropical ecosystems and its feedback on the Earth's climate. Satellite-based remote sensing is the only practical approach for observing the vegetation dynamics of regions like the Amazon over useful spatial and temporal scales, but recent years have seen much controversy over satellite-derived vegetation states in Amazônia, with studies predicting opposite feedbacks depending on data processing technique and interpretation. Recent results suggest that some of this uncertainty could stem from a lack of quality in atmospheric correction and cloud screening. In this paper, we assess these uncertainties by comparing the current standard surface reflectance products (MYD09, MYD09GA) and derived composites (MYD09A1, MCD43A4 and MYD13A2 - Vegetation Index) from the Moderate Resolution Imaging Spectroradiometer (MODIS) onboard the Aqua satellite to results obtained from the Multi-Angle Implementation of Atmospheric Correction (MAIAC) algorithm. MAIAC uses a new cloud screening technique, and novel aerosol retrieval and atmospheric correction procedures which are based on time-series and spatial analyses. Our results show considerable improvements of MAIAC processed surface reflectance compared to MYD09/MYD13 with noise levels reduced by a factor of up to 10. Uncertainties in the current MODIS surface reflectance product were mainly due to residual cloud and aerosol contamination which affected the Normalized Difference Vegetation Index (NDVI): During the wet season, with cloud cover ranging between 90 percent and 99 percent, conventionally processed NDVI was significantly depressed due to undetected clouds. A smaller reduction in NDVI due to increased aerosol levels was observed during the dry season, with an inverse dependence of NDVI on aerosol optical thickness (AOT). NDVI observations processed with MAIAC showed highly reproducible and stable inter-annual patterns with little or no dependence on cloud cover, and no significant dependence on AOT (p less than 0.05). In addition to a better detection of cloudy pixels, MAIAC obtained about 20-80 percent more cloud free pixels, depending on season, a considerable amount for land analysis given the very high cloud cover (75-99 percent) observed at any given time in the area. We conclude that a new generation of atmospheric correction algorithms, such as MAIAC, can help to dramatically improve vegetation estimates over tropical rain forest, ultimately leading to reduced uncertainties in satellite-derived vegetation products globally.

tropical ecosystems↗

An Improved Convection Parameterization with Detailed Aerosol–Cloud Microphysics for a Global Model

Abstract A new microphysical treatment that includes aerosol–cloud interactions and secondary ice production (SIP) mechanisms is implemented in the convection scheme of the Community Atmosphere Model, version 6 (CAM6). The approach is to embed a 1D Lagrangian parcel model in the bulk convective plume of the existing deep convection parameterization. Aerosol activation, growth processes including collision/coalescence, and three processes of SIP mechanisms, two of which are normally overlooked in atmospheric models, are represented in this embedded parcel model. These microphysical processes are treated with a hybrid bin/bulk scheme and a high spatial and temporal resolution for the integration of the embedded parcel in 1D, allowing vertical velocity to determine the microphysical evolution following the in-cloud motion during ascent. Simulations of an observed case (Midlatitude Continental Convective Clouds Experiment) of a mesoscale convective system in Oklahoma, United States, with a single-column model (SCAM) version of CAM, are compared with aircraft in situ and ground-based observations of microphysical properties from the convection and precipitation. Results from the validation show the new microphysical scheme has a good representation of the ice initiation in the bulk convective plume, including the known and empirically quantified pathways of primary and secondary initiation, with benefits for the accuracy of properties of its supercooled cloud liquid. The sensitivity simulations and use of tagging tracers for the validated simulation confirm that the newly included SIP mechanisms are of paramount importance for convective microphysics and can be successfully treated in the global model.

54 ENVIRONMENTAL SCIENCES↗

Validation of Ozone Profile Retrievals Derived from the OMPS LP Version 2.5 Algorithm Against Correlative Satellite Measurements

The Limb Profiler (LP) is a part of the Ozone Mapping and Profiler Suite launched on board of the Suomi NPP satellite in October 2011. The LP measures solar radiation scattered from the atmospheric limb in ultraviolet and visible spectral ranges between the surface and 80 km. These measurements of scattered solar radiances allow for the retrieval of ozone profiles from cloud tops up to 55 km. The LP started operational observations in April 2012. In this study we evaluate more than 5.5 years of ozone profile measurements from the OMPS LP processed with the new NASA GSFC version 2.5 retrieval algorithm. We provide a brief description of the key changes that had been implemented in this new algorithm, including a pointing correction, new cloud height detection, explicit aerosol correction and a reduction of the number of wavelengths used in the retrievals. The OMPS LP ozone retrievals have been compared with independent satellite profile measurements obtained from the Aura Microwave Limb Sounder (MLS), Atmospheric Chemistry Experiment Fourier Transform Spectrometer (ACE-FTS) and Odin Optical Spectrograph and InfraRed Imaging System (OSIRIS). We document observed biases and seasonal differences and evaluate the stability of the version 2.5 ozone record over 5.5 years. Our analysis indicates that the mean differences between LP and correlative measurements are well within required +/- 10% between 18 and 42 km. In the upper stratosphere and lower mesosphere (>43 km) LP tends to have a negative bias. We find larger biases in the lower stratosphere and upper troposphere, but LP ozone retrievals have significantly improved in version 2.5 compared to version 2 due to the implemented aerosol correction. In the northern high latitudes we observe larger biases between 20 and 32 km due to the remaining thermal sensitivity issue. Our analysis shows that LP ozone retrievals agree well with the correlative satellite observations in characterizing vertical, spatial and temporal ozone distribution associated with natural processes, like the seasonal cycle and quasi-biennial oscillations. We found a small positive drift approx. 0.5%/yr in the LP ozone record against MLS and OSIRIS that is more pronounced at altitudes above 35 km. This pattern in the relative drift is consistent with a possible 100m drift in the LP sensor pointing detected by one of our altitude-resolving methods.

Ozone Mapping↗

Stability of the Early Mars Atmosphere to Collapse into Permanent Polarcaps

The presence of a permanent CO2 polar ice cap on Mars has important consequences for the planet's climate system. The heat balance of such a cap, which is determined mainly by atmospheric heat transport, and the downward solar in infrared radiative fluxes, determines its surface temperature, which through the vapor pressure relation sets the mean annual surface pressure. On Mars today, for example, the south residual CO2 cap is present year-round with a mean annual temperature of approximately 145 K which corresponds to a mean annual CO2 vapor pressure of approximately 600 Pa. On early Mars, permanent polar caps are also possible especially since the sun was less luminous 3.5-4.0 Gya. Thus, the existence of permanent polar caps on early Mars is central to understanding the nature of the planets climate system in those ancient times and whether or not the atmosphere might have been capable of sustaining conditions suitable for liquid water flowing over the surface as is indicated in the geological record. Forget et al [1] showed that for present orbital properties atmospheric collapse into permanent polar caps could only be prevented for surface pressures roughly between 500 - 3000 hPa. Though follow-on studies confirm and extend the Forget et al. results [2], the full sensitivity of this "window" of stability has not been explored. There are many factors to consider such the albedo of the caps, dust content of the atmosphere, and the presence of water ice clouds. However, we begin our exploration of the stability of the early Martian atmosphere by focusing on the role of CO2 ice clouds. In some preliminary simulations with the Ames Mars General Circulation Model (GCM) we found that atmospheric collapse depends on assumptions regarding the fate of CO2 ice clouds. If, for example, we assume the clouds immediately fall to the surface, then in some cases collapse is favored. On the other hand if the clouds are allowed to fall and evaporate, collapse can be averted. This implies that CO2 ice cloud microphysics is important to the overall stability of the atmosphere. Though the Ames GCM has a sophisticated CO2 cloud microphysics package that includes nucleation, growth, and sedimentation (see accompanying poster by Kahre et al. [3]), we have implemented a simpler scheme based on the Forget et al. [1] approach to CO2 ice clouds. Our goal is to reproduce and expand their study. The key parameter in this approach is the concentration and vertical distribution of cloud condensation nuclei (CCN), i.e., dust particles. Fewer CCN lead to larger particles which fall faster, while higher CCN concentrations lead to smaller particles and thicker clouds that remain suspended for longer periods of time. We plan to explore the stability of the atmosphere to CCN concentrations and distributions and then assess the capability of thick early atmospheres to loft and distribute dust particles (CCN) around the planet. Thus, our work will shed light on the nature of the coupling between the dust and CO2 cycles and the implications it has for the early Mars climate system.

ice cap↗

Status of the phenomena representation, 3D modeling, and cloud-based software architecture development

Early in 2013, researchers at the Idaho National Laboratory outlined a technical framework to support the implementation of state-of-the-art probabilistic risk assessment to predict the safety performance of advanced small modular reactors. From that vision of the advanced framework for risk analysis, specific tasks have been underway in order to implement the framework. This report discusses the current development of a several tasks related to the framework implementation, including a discussion of a 3D physics engine that represents the motion of objects (including collision and debris modeling), cloud-based analysis tools such as a Bayesian-inference engine, and scenario simulations. These tasks were performed during 2015 as part of the technical work associated with the Advanced Reactor Technologies Program.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

An Improved Bulk Microphysical Scheme for Studying Precipitation Processes: Comparisons with Other Schemes

Cloud microphysical processes play an important role in non-hydrostatic high-resolution simulations. Over the past decade both research and operational numerical weather prediction models have started using more complex cloud microphysical schemes that were originally developed for high-resolution cloud-resolving models. An improved bulk microphysical parameterization (adopted from the Goddard microphysics schemes) has recently implemented into the Weather Research and Forecasting (WRF) model. This bulk microphysical scheme has three different options --- 2ICE (cloud ice & snow), 3ICE-graupel (cloud ice, snow & graupel) and 3ICE-hail (cloud ice, snow & hail). High-resolution model simulations are conducted to examine the impact of microphysical schemes on two different weather events (a midlatitude linear convective system and an Atlantic hurricane). In addition, this bulk microphysical parameterization is compared with WIRF's three other bulk microphysical schemes.

Tao, W. K.↗

A unified parameterization of clouds and turbulence using CLUBB and subcolumns in the Community Atmosphere Model

Most global climate models parameterize separate cloud types using separate parameterizations. This approach has several disadvantages, including obscure interactions between parameterizations and inaccurate triggering of cumulus parameterizations. Alternatively, a unified cloud parameterization uses one equation set to represent all cloud types. Such cloud types include stratiform liquid and ice cloud, shallow convective cloud, and deep convective cloud. Vital to the success of a unified parameterization is a general interface between clouds and microphysics. One such interface involves drawing Monte Carlo samples of subgrid variability of temperature, water vapor, cloud liquid, and cloud ice, and feeding the sample points into a microphysics scheme.This study evaluates a unified cloud parameterization and a Monte Carlo microphysics interface that has been implemented in the Community Atmosphere Model (CAM) version 5.3. Results describing the mean climate and tropical variability from global simulations are presented. The new model shows a degradation in precipitation skill but improvements in short-wave cloud forcing, liquid water path, long-wave cloud forcing, precipitable water, and tropical wave simulation. Also presented are estimations of computational expense and investigation of sensitivity to number of subcolumns.

58 GEOSCIENCES↗

2014-2018 Summary of NCAR activities in the Earth Energy Exascale System Model (E3SM) project

NCAR participation in E3SM activities as part of this funded collaborative project has been successful in leveraging the existing atmosphere model development experience from CESM scientists and applying it to initial v1 atmosphere model (EAM) development and analysis. NCAR partners collectively had many decades of experience in parameterization development, running and tuning coupled models and building the required software infrastructure to support ongoing model developments. Furthermore, collaboration between E3SM and CESM developers was of mutual benefit to both modeling endeavors. In the earlier periods of the project, participation in E3SM both complemented core critical path DOE activities and advanced individual parameterization development; including orographic drag, convection parameterization, convective gustiness and cloud and microphysical processes. Significant progress has been made implementing model capabilities for separating out the physics and dynamics grids, and providing the infrastructure for including orographic elevation class communication between the land and atmosphere models. Our activities working with the E3SM workflow and software engineering teams have established efficient protocols and infrastructure for the sharing of CESM and E3SM model codes of interest to both modeling groups, a large component of which is the mutual communication of common code bugs. As well as these specific project tasks all NCAR project members have been regular participants in atmosphere and coupled group telecons, as well as PI meetings. We have been fully engaged with and contributed to decisions regarding v1 atmosphere model developments, coupled model simulations, model tunings, and software engineering infrastructure. NCAR’s contribution to more recent E3SM development activities has centered on analysis of v1 release and pre-release simulations in order to address outstanding systematic biases and communicate climate improvements. Of particularly note is the work in understanding clouds and cloud feedbacks, shortcomings in ENSO and sub-seasonal variability; in particular the Madden Julian Oscillation (MJO). Contributions have been made to a number of papers that are currently published or in preparation detailing model performance in CMIP6-protocal experiments. They outline the simulations of mean climate, clouds and convection processes, convective gustiness, atmospheric blocking coupled climates. The contributions of NCAR’s funded activities to the E3SM atmosphere in the initial years of the project have had a positive impact on many aspects of the model simulations described in these papers.

58 GEOSCIENCES↗

Sensitivity study of cloud parameterizations with relative dispersion in CAM5.1: impacts on aerosol indirect effects

Aerosol-induced increase of relative dispersion of cloud droplet size distribution ε exerts a warming effect and partly offsets the cooling of aerosol indirect radiative forcing (AIF) associated with increased droplet concentration by increasing the cloud droplet effective radius ( R e ) and enhancing the cloud-to-rain autoconversion rate (Au) (labeled aBut, the total dispersion effects on both R e and Au are not fully considered in most GCMs, especially in different versions of the Community Atmospheric Model (CAM). Furthermore, in order to accurately evaluate the dispersion effect on AIF, the new complete cloud parameterizations of R e and Au explicitly accounting for ε are implemented into the CAM version 5.1 (CAM5.1), and a suite of sensitivity experiments is conducted with different representations of ε reported in the literature. It is shown that the shortwave cloud radiative forcing is much better simulated with the new cloud parameterizations as compared to the standard scheme in CAM5.1, whereas the influences on longwave cloud radiative forcing and surface precipitation are minimal. In addition, consideration of the dispersion effect can significantly reduce the changes induced by anthropogenic aerosols in the cloud-top effective radius and the liquid water path, especially in the Northern Hemisphere. The corresponding AIF with the dispersion effect considered can also be reduced substantially by a range of 0.10 to 0.21 W m -2 at the global scale and by a much bigger margin of 0.25 to 0.39 W m -2 for the Northern Hemisphere in comparison with that of fixed relative dispersion, mainly dependent on the change of relative dispersion and droplet concentrations (Δε/ΔN ).

54 ENVIRONMENTAL SCIENCES↗