Caso aplicado de modelamiento de aguas subterráneas en el área de influencia de un reservorio de agua. Este tutorial brinda las condiciones de flujo regional que sirven de condición de borde para un modelo recortado de la interacción del reservorio con el agua subterránea.
Tutorial
Código
#!pip install -U mf6Voronoifrom mf6Voronoi.utils import listTemplates, copyTemplatelistTemplates()/-------- List of available mf6Voronoi templates --------/
Nr 1: generateVoronoi
File: p1_generateVoronoi.ipynb
Description: Template for Voronoi mesh generation
Nr 2: modelCreation
File: p2_modelCreation.ipynb
Description: Template for regional model creation on steady state
Nr 3: obsCalculated
File: p3_obsCalculated.ipynb
Description: Template for comparison between observed and calculated
Nr 4: vtkGeneration
File: p4_vtkGeneration.ipynb
Description: Template for 3d geometry generation on Vtk format
Nr 5: multilayeredTransient
File: p5_multilayeredTransient.ipynb
Description: Template for multilayer (15 layers) and transient (6 stress periods) regional model
Nr 6: basicTransport
File: p6_basicTransport.ipynb
Description: Template with basic lines for transport modeling based on a flow modelcopyTemplate('generateVoronoi','regWk')copyTemplate('modelCreation','regWk')copyTemplate('vtkGeneration','regWk')Mesh generation
Part 1 : Voronoi mesh generation
import warnings ## Org
warnings.filterwarnings('ignore') ## Org
import os, sys ## Org
import geopandas as gpd ## Org
from mf6Voronoi.geoVoronoi import createVoronoi ## Org
from mf6Voronoi.meshProperties import meshShape ## Org
from mf6Voronoi.utils import initiateOutputFolder, getVoronoiAsShp ## Org#Create mesh object specifying the coarse mesh and the multiplier
vorMesh = createVoronoi(meshName='regionalModel',maxRef = 800, multiplier=1.5) ## Org
#Open limit layers and refinement definition layers
vorMesh.addLimit('basin','../../hatariUtils/catchment.shp') ## Org
vorMesh.addLayer('river','../../hatariUtils/river_basin.shp',80) ## Org#Generate point pair array
vorMesh.generateOrgDistVertices() ## Org
#Generate the point cloud and voronoi
vorMesh.createPointCloud() ## Org
vorMesh.generateVoronoi() ## Org
mf6Voronoi will have a web version in 2028
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/--------Layer river discretization-------/
Progressive cell size list: [80, 200.0, 380.0, 650.0] m.
/----Sumary of points for voronoi meshing----/
Distributed points from layers: 1
Points from layer buffers: 10469
Points from max refinement areas: 1028
Points from min refinement areas: 0
Total points inside the limit: 13890
/--------------------------------------------/
Time required for point generation: 14.28 seconds
/----Generation of the voronoi mesh----/
Something went wrong
Time required for voronoi generation: 11.51 seconds#Uncomment the next two cells if you have strong differences on discretization or you have encounter an FORTRAN error while running MODFLOW6vorMesh.checkVoronoiQuality(threshold=0.01)/----Performing quality verification of voronoi mesh----/
Short side on polygon: 13890 with length = 0.00218
Short side on polygon: 13890 with length = 0.00218vorMesh.fixVoronoiShortSides()
vorMesh.generateVoronoi()
vorMesh.checkVoronoiQuality(threshold=0.01)/----Generation of the voronoi mesh----/
Something went wrong
Time required for voronoi generation: 12.56 seconds
/----Performing quality verification of voronoi mesh----/
Your mesh has no edges shorter than your threshold#Export generated voronoi mesh
initiateOutputFolder('../../regionalFiles') #<==== updated
initiateOutputFolder('../../regionalFiles/output') ## Org
getVoronoiAsShp(vorMesh.modelDis, shapePath='../../regionalFiles/output/'+vorMesh.modelDis['meshName']+'.shp') ## OrgThe output folder ../../regionalFiles exists and has been cleared
The output folder ../../regionalFiles/output has been generated.
/----Generation of the voronoi shapefile----/
Time required for voronoi shapefile: 1.47 seconds# Show the resulting voronoi mesh
#open the mesh file
mesh=gpd.read_file('../../regionalFiles/output/'+vorMesh.modelDis['meshName']+'.shp') ## Org
#plot the mesh
mesh.plot(figsize=(35,25), fc='crimson', alpha=0.3, ec='teal') ## Org
Part 2 generate disv properties
# open the mesh file
mesh=meshShape('../../regionalFiles/output/'+vorMesh.modelDis['meshName']+'.shp') ## Org# get the list of vertices and cell2d data
gridprops=mesh.get_gridprops_disv() ## OrgCreating a unique list of vertices [[x1,y1],[x2,y2],...]
100%|██████████| 13892/13892 [00:00<00:00, 44092.10it/s]
Extracting cell2d data and grid index
100%|██████████| 13892/13892 [00:01<00:00, 8038.46it/s]#create folder
initiateOutputFolder('../../regionalFiles/json') ## Org
#export disv
mesh.save_properties('../../regionalFiles/json/disvDict.json') ## OrgThe output folder ../../regionalFiles/json has been generated.Model creation on steady state
Part 2a: generate disv properties
import sys, json, os ## Org
import rasterio, flopy ## Org
import numpy as np ## Org
import matplotlib.pyplot as plt ## Org
import geopandas as gpd ##Org
from mf6Voronoi.meshProperties import meshShape ## Org
from shapely.geometry import MultiLineString ## Org
from mf6Voronoi.tools.graphs2d import generateRasterFromArray, generateContoursFromRaster# open the json file
with open('../../regionalFiles/json/disvDict.json') as file: ## Org
gridProps = json.load(file) ## Orgcell2d = gridProps['cell2d'] #cellid, cell centroid xy, vertex number and vertex id list
vertices = gridProps['vertices'] #vertex id and xy coordinates
ncpl = gridProps['ncpl'] #number of cells per layer
nvert = gridProps['nvert'] #number of verts
centroids=gridProps['centroids'] #cell centroids xyPart 2b: Model construction and simulation
#Extract dem values for each centroid of the voronois
src = rasterio.open('../../rst/n33w111_wgs84_int32_50m.tif') ## Org
elevation=[x for x in src.sample(centroids)] ## Orgnlay = 10 ## Org
mtop=np.array([elev[0] for i,elev in enumerate(elevation)]) ## Org
zbot=np.zeros((nlay,ncpl)) ## Org
AcuifInf_Bottom = 700 ## Org
zbot[0,] = AcuifInf_Bottom + (0.95 * (mtop - AcuifInf_Bottom)) ## <==== updated
zbot[1,] = AcuifInf_Bottom + (0.90 * (mtop - AcuifInf_Bottom)) ## <==== updated
zbot[2,] = AcuifInf_Bottom + (0.85 * (mtop - AcuifInf_Bottom)) ## <==== updated 85%
zbot[3,] = AcuifInf_Bottom + (0.78 * (mtop - AcuifInf_Bottom)) ## <==== updated
zbot[4,] = AcuifInf_Bottom + (0.71 * (mtop - AcuifInf_Bottom)) ## <==== updated
zbot[5,] = AcuifInf_Bottom + (0.64 * (mtop - AcuifInf_Bottom)) ## <==== updated
zbot[6,] = AcuifInf_Bottom + (0.57 * (mtop - AcuifInf_Bottom)) ## <==== updated
zbot[7,] = AcuifInf_Bottom + (0.50 * (mtop - AcuifInf_Bottom)) ## <==== updated 50%
zbot[8,] = AcuifInf_Bottom + (0.25 * (mtop - AcuifInf_Bottom)) ## <==== updated
zbot[9,] = AcuifInf_Bottom ## <==== updatedCreate simulation and model
# create simulation
simName = 'mf6Sim' ## Org
modelName = 'mf6Model' ## Org
modelWs = '../../regionalFiles/modelFiles' ## Org
sim = flopy.mf6.MFSimulation(sim_name=modelName, version='mf6', ## Org
exe_name='../../bin/mf6.exe', ## Org
sim_ws=modelWs) ## Org# create tdis package
tdis_rc = [(1000.0, 1, 1.0)] ## Org
tdis = flopy.mf6.ModflowTdis(sim, pname='tdis', time_units='SECONDS', ## Org
perioddata=tdis_rc) ## Org# create gwf model
gwf = flopy.mf6.ModflowGwf(sim, ## Org
modelname=modelName, ## Org
save_flows=True, ## Org
newtonoptions="NEWTON UNDER_RELAXATION") ## Org# create iterative model solution and register the gwf model with it
ims = flopy.mf6.ModflowIms(sim, ## Org
complexity='COMPLEX', ## Org
outer_maximum=50, ## Org
inner_maximum=30, ## Org
linear_acceleration='BICGSTAB') ## Org
sim.register_ims_package(ims,[modelName]) ## Org# disv
disv = flopy.mf6.ModflowGwfdisv(gwf, nlay=nlay, ncpl=ncpl, ## Org
top=mtop, botm=zbot, ## Org
nvert=nvert, vertices=vertices, ## Org
cell2d=cell2d) ## Orgdisv.top.plot(figsize=(12,8), alpha=0.8) ## Org
crossSection = gpd.read_file('../../shp/crossSectionRegional.shp') ## Org
sectionLine =list(crossSection.iloc[0].geometry.coords) ## Org
fig, ax = plt.subplots(figsize=(12,8)) ## Org
modelxsect = flopy.plot.PlotCrossSection(model=gwf, line={'Line': sectionLine}) ## Org
linecollection = modelxsect.plot_grid(lw=0.5) ## Org
ax.grid() ## Org
# initial conditions
ic = flopy.mf6.ModflowGwfic(gwf, strt=np.stack([mtop for i in range(nlay)])) ## OrgKx =[4E-4, 5E-5, 3E-6, 3E-6, 2.5E-6, 2.5E-6, 2.5E-6, 1E-6, 9E-7, 5E-7] ## Org
icelltype = [1,1,1,1,1,1,0,0,0,0] ## Org
# node property flow
npf = flopy.mf6.ModflowGwfnpf(gwf, ## Org
save_specific_discharge=True, ## Org
icelltype=icelltype, ## Org
k=Kx) ## Org# define storage and transient stress periods
sto = flopy.mf6.ModflowGwfsto(gwf, ## Org
iconvert=1, ## Org
steady_state={ ## Org
0:True, ## Org
} ## Org
) ## OrgWorking with rechage, evapotranspiration
rchr = 0.15/365/86400 ## Org
rch = flopy.mf6.ModflowGwfrcha(gwf, recharge=rchr) ## Org
evtr = 1.2/365/86400 ## Org
evt = flopy.mf6.ModflowGwfevta(gwf,ievt=1,surface=mtop,rate=evtr,depth=1.0) ## OrgDefinition of the intersect object
For the manipulation of spatial data to determine hydraulic parameters or boundary conditions
# Define intersection object
interIx = flopy.utils.gridintersect.GridIntersect(gwf.modelgrid) ## Org#open the river shapefile
rivers =gpd.read_file('../../hatariUtils/river_basin.shp') ## Org
list_rivers=[] ## Org
for i in range(rivers.shape[0]): ## Org
list_rivers.append(rivers['geometry'].loc[i]) ## Org
riverMls = MultiLineString(lines=list_rivers) ## Org
#intersec rivers with our grid
riverCells=interIx.intersect(riverMls).cellids ## Org
riverCells[:10] ## Orgarray([110, 131, 139, 151, 155, 158, 166, 170, 185, 186], dtype=object)#river package
riverSpd = {} ## Org
riverSpd[0] = [] ## Org
for cell in riverCells: ## Org
riverSpd[0].append([(0,cell),mtop[cell],0.01]) ## Org
riv = flopy.mf6.ModflowGwfdrn(gwf, stress_period_data=riverSpd) ## Org#river plot
riv.plot(mflay=0) ## Org
Set the Output Control and run simulation
#oc
head_filerecord = f"{gwf.name}.hds" ## Org
budget_filerecord = f"{gwf.name}.cbc" ## Org
oc = flopy.mf6.ModflowGwfoc(gwf, ## Org
head_filerecord=head_filerecord, ## Org
budget_filerecord = budget_filerecord, ## Org
saverecord=[("HEAD", "LAST"),("BUDGET","LAST")]) ## Org# Run the simulation
sim.write_simulation() ## Org
success, buff = sim.run_simulation() ## Orgwriting simulation...
writing simulation name file...
writing simulation tdis package...
writing solution package ims_-1...
writing model mf6Model...
writing model name file...
writing package disv...
writing package ic...
writing package npf...
writing package sto...
writing package rcha_0...
writing package evta_0...
writing package drn_0...
INFORMATION: maxbound in ('gwf6', 'drn', 'dimensions') changed to 2413 based on size of stress_period_data
writing package oc...
FloPy is using the following executable to run the model: ..\..\bin\mf6.exe
MODFLOW 6
U.S. GEOLOGICAL SURVEY MODULAR HYDROLOGIC MODEL
VERSION 6.6.0 12/20/2024
MODFLOW 6 compiled Dec 31 2024 17:10:16 with Intel(R) Fortran Intel(R) 64
Compiler Classic for applications running on Intel(R) 64, Version 2021.7.0
Build 20220726_000000
This software has been approved for release by the U.S. Geological
Survey (USGS). Although the software has been subjected to rigorous
review, the USGS reserves the right to update the software as needed
pursuant to further analysis and review. No warranty, expressed or
implied, is made by the USGS or the U.S. Government as to the
functionality of the software and related material nor shall the
fact of release constitute any such warranty. Furthermore, the
software is released on condition that neither the USGS nor the U.S.
Government shall be held liable for any damages resulting from its
authorized or unauthorized use. Also refer to the USGS Water
Resources Software User Rights Notice for complete use, copyright,
and distribution information.
MODFLOW runs in SEQUENTIAL mode
Run start date and time (yyyy/mm/dd hh:mm:ss): 2025/09/18 16:07:33
Writing simulation list file: mfsim.lst
Using Simulation name file: mfsim.nam
Solving: Stress period: 1 Time step: 1
Run end date and time (yyyy/mm/dd hh:mm:ss): 2025/09/18 16:07:41
Elapsed run time: 8.320 Seconds
Normal termination of simulation.Model output visualization
headObj = gwf.output.head() ## Org
headObj.get_kstpkper() ## Org[(0, 0)]heads = headObj.get_data() ## Org
heads[2,0,:5] ## Orgarray([1327.73127261, 1313.44523133, 1325.54397454, 1134.81998389,
1284.78111455])# Plot the heads for a defined layer and boundary conditions
fig = plt.figure(figsize=(12,8)) ## Org
ax = fig.add_subplot(1, 1, 1, aspect='equal') ## Org
modelmap = flopy.plot.PlotMapView(model=gwf) ## Org
####
levels = np.linspace(heads[heads>-1e+30].min(),heads[heads>-1e+30].max(),num=50) ## Org
contour = modelmap.contour_array(heads[3],ax=ax,levels=levels,cmap='PuBu') ## Org
ax.clabel(contour) ## Org
quadmesh = modelmap.plot_bc('DRN') ## Org
cellhead = modelmap.plot_array(heads[3],ax=ax, cmap='Blues', alpha=0.8) ## Org
linecollection = modelmap.plot_grid(linewidth=0.3, alpha=0.5, color='cyan', ax=ax) ## Org
plt.colorbar(cellhead, shrink=0.75) ## Org
plt.show() ## Org
waterTable = flopy.utils.postprocessing.get_water_table(heads)
generateRasterFromArray(gwf,
waterTable,
meshLayer='../../regionalFiles/output/regionalModel.shp',
rasterRes=10,
epsg=32612,
outputPath='../../regionalFiles/output/waterTable.tif',
limitLayer='../../hatariUtils/catchment.shp')WARNING: No head on vextex was found, or something went wrong with your mesh
WARNING: No head on vextex was found, or something went wrong with your mesh
Raster X Dim: 40700.00, Raster Y Dim: 37850.00
Number of cols: 4071, Number of rows: 37863d geometry generation on Vtk format
#Vtk generation
import flopy ## Org
from mf6Voronoi.tools.vtkGen import Mf6VtkGenerator ## Org
from mf6Voronoi.utils import initiateOutputFolder ## Orgc:\Users\saulm\anaconda3\Lib\site-packages\pyvista\examples\downloads.py:93: DeprecationWarning: support for supplying keyword arguments to pathlib.PurePath is deprecated and scheduled for removal in Python 3.14
Path(USER_DATA_PATH, exist_ok=True).mkdir()
c:\Users\saulm\anaconda3\Lib\site-packages\pyvista\examples\downloads.py:98: UserWarning: Unable to access C:\Users\saulm\AppData\Local\pyvista_3\pyvista_3\Cache. Manually specify the PyVistaexamples cache with the PYVISTA_USERDATA_PATH environment variable.
warnings.warn(# load simulation
simName = 'mf6Sim' ## Org
modelName = 'mf6Model' ## Org
modelWs = '../../regionalFiles/modelFiles' ## Org
sim = flopy.mf6.MFSimulation.load(sim_name=modelName, version='mf6', ## Org
exe_name='bin/mf6.exe', ## Org
sim_ws=modelWs) ## Orgloading simulation...
loading simulation name file...
loading tdis package...
loading model gwf6...
loading package disv...
loading package ic...
loading package npf...
loading package sto...
loading package rch...
loading package evt...
loading package drn...
loading package oc...
loading solution package mf6model...vtkDir = '../../regionalFiles/vtk' ## Org
initiateOutputFolder(vtkDir) ## Org
mf6Vtk = Mf6VtkGenerator(sim, vtkDir) ## OrgThe output folder ../../regionalFiles/vtk has been generated.mf6Voronoi will have a web version in 2028
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/---------------------------------------/
The Vtk generator engine has been started
/---------------------------------------/#list models on the simulation
mf6Vtk.listModels() ## OrgModels in simulation: ['mf6model']mf6Vtk.loadModel(modelName) ## OrgPackage list: ['DISV', 'IC', 'NPF', 'STO', 'RCHA_0', 'EVTA_0', 'DRN_0', 'OC']#show output data
headObj = mf6Vtk.gwf.output.head() ## Org
headObj.get_kstpkper() ## Org[(0, 0)]#generate model geometry as vtk and parameter array
mf6Vtk.generateGeometryArrays() ## Org#generate parameter vtk
mf6Vtk.generateParamVtk() ## OrgParameter Vtk Generated#generate bc and obs vtk
mf6Vtk.generateBcObsVtk(nper=0) ## Org/--------RCHA_0 vtk generation-------/
Working for RCHA_0 package, creating the datasets: dict_keys(['irch', 'recharge', 'aux'])
Vtk file took 0.1010 seconds to be generated.
/--------RCHA_0 vtk generated-------/
/--------EVTA_0 vtk generation-------/
Working for EVTA_0 package, creating the datasets: dict_keys(['ievt', 'surface', 'rate', 'depth', 'aux'])
Vtk file took 0.0789 seconds to be generated.
/--------EVTA_0 vtk generated-------/
/--------DRN_0 vtk generation-------/
Working for DRN_0 package, creating the datasets: ('elev', 'cond')
Vtk file took 8.0849 seconds to be generated.
/--------DRN_0 vtk generated-------/mf6Vtk.generateHeadVtk(nper=0, crop=True) ## Orgmf6Vtk.generateWaterTableVtk(nper=0) ## OrgDatos de ingreso
Puede descargar los datos desde este enlace:
owncloud.hatarilabs.com/s/KPOgDALbD3LCLib
Password: Hatarilabs
