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J.E. Garay Labra
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test.yaml
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test.yaml
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# Set of default parameters for steady Navier-Stokes
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mesh: '/home/p283370/Desktop/PhD/AORTA/MESH/aorta_coarse/aorta_coarse_marked.h5'
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density: 1.2
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dynamic_viscosity: 0.035
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stokes: False
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io:
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write_hdf5: False
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write_hdf5_timeseries: False
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write_xdmf: False
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write_path: '/home/p283370/Desktop/kalman/results/coarse/dt0.0005'
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restart:
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path: '' # './projects/nse_coa3d/results/test_restart2/'
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time: 0
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write_checkpoints: True
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write_velocity: 'update' # tentative
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log: False
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write_outlets: False
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out_mode : 'u'
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outlets_path: '/home/p283370/Desktop/kalman/outlets/'
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theta_path: '/home/p283370/Desktop/kalman/results/'
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theta_name: 'theta_unique_fine2'
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boundary_conditions:
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- id: 2
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type: 'dirichlet'
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value: ['0','0','U*sin(DOLFIN_PI*t/Th)*(t<=ts) + (ts<t)*(afac*U*sin(Delta*DOLFIN_PI*t/Th)*exp(-t*beta))']
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degree: 3
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parameters:
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U: -60 # 60 original
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Th: 0.37
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t: 0
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afac: 5613.816803204635
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beta: 29.466876946384286
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Delta: 5
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ts: 0.33
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- id: 1
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type: 'dirichlet'
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value: ['0','0','0']
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degree: 2
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- id: 3
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type: 'windkessel'
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value: [100,0.01,1000]
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- id: 4
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type: 'windkessel'
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value: [250,0.0001,8000] # [R,C,R_d]
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- id: 5
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type: 'windkessel'
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value: [250,0.00001,8000] # [R,C,R_d]
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- id: 6
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type: 'windkessel'
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value: [250,0.0001,8000] # [R,C,R_d]
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timemarching:
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velocity_pressure_coupling: 'fractionalstep' # monolithic, fractionalstep
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monolithic:
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timescheme: 'gmp' # generalized midpoint, steady FIXME TODO
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theta: 1 # 1: Euler, 0.5: implicit midpoint rule (one-legged)
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nonlinear:
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method: 'constant_extrapolation' # constant_extrapolation, linear_extrapolation, newton, picard, snes
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maxit: 20
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init_steps: 30
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use_aitken: 1 # 0: False, 1: Picard only, 2: all
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report: 1 # 0: None, 1: residuals, 2: residuals and energy (inflow/driving/forcing via ESSENTIAL Dbcs!)
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atol: 1.e-6 # note: dot required!!
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rtol: 1.e-16
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stol: 0.0
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fractionalstep:
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scheme: 'CT' # CT, IPCS
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coupled_velocity: False # False faster, True needed if robin_bc implicit
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robin_bc_velocity_scheme: 'implicit' # explicit, semi-implicit, implicit
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transpiration_bc_projection: 'robin' # robin, dirichlet
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flux_report_normalize_boundary: 1
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T: 0.9 # end time
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dt: 0.0005
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write_dt: 0.01
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checkpoint_dt: 0.01 # <= 0: only last; else value + last
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report: 1 # 0: print nothing, 1: print time step and writeout, 2: 1 + flux
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estimation:
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boundary_conditions:
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- id: 2
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type: 'dirichlet'
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initial_stddev: [10]
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parameters: [U]
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measurements:
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-
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mesh: '/home/p283370/Desktop/PhD/AORTA/MESH/aorta_coarse/aorta_coarse_marked.h5'
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fe_degree: 1
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xdmf_file: '/home/p283370/Desktop/PhD/AORTA/DATA/ct/aorta_coarse/dt0.0005/measurements/meas.h5'
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file_root: '/home/p283370/Desktop/PhD/AORTA/DATA/ct/aorta_coarse/dt0.0005/measurements/u{i}.h5'
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indices: 0
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noise_stddev: 20 # standard deviation of Gaussian noise
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roukf:
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particles: 'unique' # unique or simplex
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observation_operator: 'state' #state or postprocessing
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reparameterize: False
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#observations:
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# mesh: '/home/yeye/Desktop/PhD/AORTA/MESH/aorta_coarse/aorta_coarse_marked.h5'
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# timeseries: '/home/yeye/Desktop/PhD/AORTA/DATA/ct/aorta_coarse2/measurements'
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# stddev: 10. # noiselevel x VENC
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# solver setup
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fem:
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velocity_space: p1 # p1 p1b/p1+ p2
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pressure_space: p1 # p1 p0/dg0 dg1
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strain_symmetric: 0
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convection_skew_symmetric: 1 # aka Temam term
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stabilization:
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forced_normal:
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boundaries:
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gamma: 10
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backflow_boundaries: [3,4,5,6]
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streamline_diffusion:
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enabled: False
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parameter: 'shakib' # standard, shakib, codina, klr
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length_scale: 'metric' # average, max, metric
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consistent: False # deprecated
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Cinv: ~
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monolithic:
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infsup: False # pspg, pressure-stabilization
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graddiv: False
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consistent: False
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pressure_stab_constant: 1.
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fix_pressure: False
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fix_pressure_point: [0., 0. , 0.]
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linear_solver:
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method: 'lu'
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# inputfile: './projects/nse_coa3d/input/pc/MUMPS_default.yaml'
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# inputfile: './input/pc/fgmres_gamg_rtol1e-6.yaml'
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