The Design Document page provides a description of the algorithms, implementation and planned testing including unit, verification, validation and performance testing. Please read Step 1.3 Performance Expectations that explains feature documentation requirements from the performance group point of view.

Design Document

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The first table in Design Document gives overview of this document, from this info the Design Documents Overview page is automatically created.

In the table below, 4.Equ means Equations and Algorithms, 5.Ver means Verification, 6.Perf - Performance, 7. Val - Validation

Equations: Document the equations that are being solved and describe algorithms
Verification Plans: Define tests that will be run to show that implementation is correct and robust. Involve unit tests to cover range of inputs as well as benchmarks.
Performance expectations: Explain the expected performance impact from this development
Validation Plans: Document what process-based, stand-alone component, and coupled model runs will be performed, and with what metrics will be used to assess validity

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In the table below, 4.Equ means Equations and Algorithms, 5.Ver means Verification, 6.Perf - Performance, 7. Val - Validation, - completed, - in progress, - not done

Overview table for the owner and an approver of this feature

1.Description	Interactions with the surface models (Sea Spray organic matter)
2.Owner	Susannah Burrows
3.Created	16 Sep 2015
4.Equ
5.Ver
6.Perf
7.Val
8.Approver	Phil Rasch (pnl.gov) (Unlicensed)
9.Approved Date
V1.0	Accepted

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Table of Contents

Title: Interactions with the surface models (Sea Spray, DMS)

Requirements and Design

ACME Atmosphere Group

Date: 10 Oct 2015

Summary

The new v1 capability will read in netCDF files containing ocean surface distributions of marine macromolecules (lipids, polysaccharides, and proteins) and produce emissions of a single marine organic aerosol species within MAM4, adding 3 advected tracers to the model.

Requirements

Requirement 1: Calculation of marine organic emissions from offline fields produced from marine biogeochemistry models

Date last modified: 02 Oct 2015

Contributors: Susannah Burrows, Scott Elliott (Unlicensed), Richard Easter (Unlicensed)

Algorithmic Formulations

Design solution 1a: Formulation of relationship between ocean surface organic concentrations and organic mass fraction of emitted sea spray aerosol

Date last modified: Paper published Dec 2014
Contributors: Susannah Burrows, Scott Elliott (Unlicensed), Phil Rasch (pnl.gov) (Unlicensed)

See Burrows et al., 2014, ACP.

Burrows, S. M., Ogunro, O., Frossard, A. A., Russell, L. M., Rasch, P. J., and Elliott, S. M.: A physically based framework for modeling the organic fractionation of sea spray aerosol from bubble film Langmuir equilibria, Atmos. Chem. Phys., 14, 13601-13629, doi:10.5194/acp-14-13601-2014, 2014.

Design solution 1b: Formulation of assumed relationships between marine organic mass fraction and particle size and mixing state

Date last modified: Aug 2015
Contributors: Susannah Burrows

Some initial testing is documented here: /wiki/spaces/ATM/pages/32374899.

For an initial implementation, organic mass fraction calculated according to Burrows et al (2014) will be assumed to apply directly to Aitken mode and accumulation mode aerosol. Emissions within MAM4 will be implemented as a default configuration, with all marine organics combined into a single species, adding 3 advected tracers to the MAM4 scheme. A switch/parameter will be implemented to control mixing state (internal/external) of accumulation mode emissions.

Design and Implementation

Implementation 1a: Implementation of Burrows et al. 2014 marine organic aerosol emissions with MAM9 aerosols

Date last modified: 09/15/2015
Contributors: Susannah Burrows, Richard Easter (Unlicensed), Xiaohong Liu

New emissions formulation will be implemented within seasalt_model.F90. Organic mass fraction of emitted aerosol will be calculated using static netCDF files describing the distribution of organic molecules in surface ocean water, provided as netCDF files. The distributions will be obtained from low-resolution ACME ocean BGC simulations if available; otherwise, older distributions from POP simulations will be used. Emitted aerosol mass and number will be added to modes 1 (accumulation), 2 (Aitken) and 4 (primary organic), and emitted sea salt mass will be reduced if appropriate (depending on mixing state).

Implementation 1b: Implementation of alternate marine organic aerosol emissions parameterizations

Date last modified: 09/15/2015
Contributors: Susannah Burrows

Implement parameterizations by Rinaldi, Gantt, and constant emissions (based on Quinn et al. 2014) for benchmarking / comparison purposes.

PR issued containing implementations 1a and 1b: 30 Oct 2015

PR location: https://github.com/ACME-Climate/ACME/pull/415

Planned Verification and Unit Testing

Verification and Unit Testing: Testing of marine sea spray organic matter code

Date last modified: 02 Oct 2015
Contributors: Susannah Burrows, Richard Easter (Unlicensed)

We will confirm that aerosol budgets are accurate and that emissions (as written to history files) are as expected from offline calculations.

Planned Validation Testing

Validation Testing: short-desciption-of-testing-here

Date last modified: 02 Oct 2015
Contributors: Susannah Burrows, Scott Elliott (Unlicensed)

We will compare atmospheric aerosol concentrations against a small observational dataset that we have assembled (and to which we will add more data if needed).

Planned Performance Testing

Performance Testing: Testing performance

Date last modified: 02 Oct 2015
Contributors: Susannah Burrows

The new implementation will add 3 additional (advected) tracers to MAM4, so it will result in a modest increase in computational time. The history files will be increased by 5 new 3-D fields, and 3 new 2-D (emission flux) fields.

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