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Effect of Surface Water Stage Fluctuation on Mixing-Dependent Hyporheic Denitrification in Riverbed Dunes
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|Created:||Jan 13, 2019 at 9:24 p.m.|
|Last updated:|| Apr 25, 2019 at 2:30 p.m.
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This is the data repository for the journal article entitled "Effect of Surface Water Stage Fluctuation on Mixing-Dependent Hyporheic Denitrification in Riverbed Dunes" published in Water Resources Research in 2019 by Erich T. Hester, Lauren A. Eastes, and Mark A. Widdowson. The data themselves, as well as information about the data, can be found in several locations:
1) Many data are in the journal article or the associated supplementary information, which are available at the journal website or can be requested by emailing Erich Hester at firstname.lastname@example.org
2) Many data are available in the files associated with this Hydroshare resource, which are described in the readme.txt file
3) Any questions that are not answered by the above methods can be directed to Erich Hester at email@example.com
This document describes the organization and naming conventions of the files in this dataset and the process we used to produce and utilize the files in this dataset. Please contact Erich Hester at firstname.lastname@example.org with questions. 1.0 File Names All model runs were completed in Groundwater Modeling System (GMS). GMS software produces 2 folders and 1 .gpr file for each run. The general file format of a single run is Folder: Name_Here_MODFLOW Folder: Name_Here_SEAM3D GPR File: Name_Here.gpr To run GMS software, licensing is required, though the mass output files may still be viewed without it. There are two specific files found in the SEAM3D folder can be viewed as text files and are labelled Name_Here.OUT smeamass.DAT The OUT file contains the amount of each solute that entered the system, biodegraded within the system, or left the system at timesteps of 0.1 day. The DAT file contains the time series of DOC biodegraded at each timestep used by SEAM3D during its transport calculations, by both aerobic (O2HC1) and anaerobic (NO3HC1) reactions. If any tracer particles were run, each particle set produces an additional folder with the file name format of Name_Here_MODPATH_Particle_Set_Name Excel files containing mass analyses were converted to .csv and are labelled as Parameter_tested_mass_analysis.csv Excel files containing DOC consumption over time were converted to .csv and are labelled as Parameter_tested_DOC.csv Excel files containing the surface water pressure distribution boundary condition were converted to .csv and are labelled as Parameter_tested_input.csv In the input.xlsx files, each tab contained the pressure distributions for each node in the model over time. All of these are from the input.txt file generated by the pressure_dist_input.R code with the appropriate transient inputs (amplitude, period, etc.). The general layout of the input is this Node --> Timestep | | v So essentially Node 1 Node 2 Node 3 Node 4 Node 5 Node 6 Node 7 Node 8..... Node 20 0 d 0.1 d 0.2 d 0.3 d 0.4 d 0.5 d 0.6 d 0.7 d ... 2.0 d GMS accepts the surface water inputs as a time series at separate nodes, so to input these, the appropriate column may be copied and pasted into the specified transient head boundary condition at each node. 2.0 Folder Structure There are 2 file folders that separate the runs into steady-state and transient runs and results. Each folder within one of the folders represents a specific test, except those labelled as a basecase. The files for the runs used in each analysis are located within the appropriate folder for that test. Basecase scenarios were used in multiple analyses and are located in the designated basecase folder. The contents of each folder can be outlined as Steady-State Benchmark Heterogeneous_basecase Heterogeneous_VaryCL Heterogeneous_VaryVariance Homogeneous_VaryHK Homogeneous_HK25 Transient Heterogeneous_test Homogeneous_Amplitude Homogeneous_Period Homogeneous_Rate_of_change Homogeneous_Transient_basecase The R_code folder contains the R code used for calculating the pressure distribution across the dune surface for a sinusoidal surface water fluctuation and for determining the travel time of tracer particles from MODPATH. 3.0 Model Naming Conventions Given the complexity of the labelling system, the naming convention is broken down by folder for the sake of clarity. 3.1 Steady-State folder 3.1.1 Heterogeneous_basecase A sample label from this folder is SS_0.145 where SS refers to the run being steady-state and 0.145 refers to the average surface water depth. 3.1.2 Heterogeneous_VaryCL A sample label from this folder is SS_0.145_0.91CL where SS refers to the run being steady-state, 0.145 refers to the average surface water depth, and 0.91CL refers to the horizontal correlation length of the hydraulic conductibity field. All runs used a 2 day model run time, and runs from the 9CL field include anadditional "_2d" descriptor on the label to indicate this. 3.1.3 Heterogeneous_VaryVariance A sample label from this folder is SS_0.145_0.25StDev where SS refers to the run being steady-state, 0.145 refers to the average surface water depth, and 0.25CL refers to the variance of the hydraulic conductivity field. 3.1.4 Homogeneous_VaryHK A sample label from this folder is SS_0.145_hom_84.4K where SS refers to the run being steady-state, 0.145 refers to the average surface water depth, hom refers to the hydraulic conductivity field being homogeneous, and 84.4K refers to the hydraulic conductivity (84.4 m/d). 3.1.5 Homogeneous_HK25 A sample label from this folder is SS_0.145 where SS refers to the run being steady-state and 0.145 refers to the average surface water depth. 3.2 Transient zip file 3.2.1 Heterogeneous_test The only run in this folder is sine_0.145_het_12hr_CorrL9.0 where sine refers to the shape of the surface water fluctuation over time, 0.145 refers to the lowest surface water depth reached by the fluctuation, het refers to this being a heterogeneous hydraulic conductivity field, 12hr refers to the period of the fluctuation, and CorrL9.0 refers to the correlation length of the hydraulic conductivity field. 3.2.2 Homogeneous_Amplitude A sample label from this folder is amp_0.1 where amp refers to this being a test of the amplitude of a surface water fluctuation and 0.1 refers to the amplitude of the fluctuation in meters. 3.2.3 Homogeneous_Period A sample label from this folder is sine_0.145_1.0_48hr where sine refers to the shape of the surface water fluctuation over time, 0.145 refers to the lowest depth reached by the surface water, 1.0 refers to the maximum depth reached by the surface water, and 48hr refers to the period of the fluctuation. 3.2.4 Homogeneous_Rate_of_change The only run in this folder is instant_0.145_1.0_24hr where instant refers to this being an instantaneous change in surface water depth, 0.145 is the lowest depth reached by the surface water, 1.0 refers to the maximum depth reached by the surface water, and 24hr refers to the period of the fluctuation. 3.2.5 Homogeneous_Transient_basecase The only run in this folder is sine_0.145_1.0_24hr where sine refers to the shape of the surface water fluctuation over time, 0.145 is the lowest depth reached by the surface water, 1.0 refers to the maximum depth reached by the surface water, and 24hr refers to the period of the fluctuation.
This resource was created using funding from the following sources:
|Agency Name||Award Title||Award Number|
|National Science Foundation||Natural Attenuation of Groundwater Contaminant Plumes in Riverbeds: Control of Hyporheic Zone Mixing||1437021|