3 changed files with 422 additions and 4 deletions
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|
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mesh: './meshes/coaortaH1.h5' |
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# Physical parameters of the fluid |
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fluid: |
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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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implicit_windkessel: False |
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|
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io: |
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write_path: 'results/exp_0.1ms' |
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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_xdmf: True |
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write_checkpoints: True |
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write_hdf5_timeseries: False |
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write_velocity: 'update' # update or tentative |
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|
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boundary_conditions: |
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- |
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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<=Th) + (t<0.8)*(Th<t)*(U*DOLFIN_PI/Th*(t-Th)*exp(-(t-Th)*beta)) + |
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# -U*sin(DOLFIN_PI*(t-0.8)/Th)*(t<= 0.8+Th )*(t>0.8) + (t<1.6)*(0.8+Th<t)*(U*DOLFIN_PI/Th*(t-0.8-Th)*exp(-(t-0.8-Th)*beta)) + |
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# -U*sin(DOLFIN_PI*(t-1.6)/Th)*(t<= 1.6+Th )*(t>1.6) + (t<2.4)*(1.6+Th<t)*(U*DOLFIN_PI/Th*(t-1.6-Th)*exp(-(t-1.6-Th)*beta))' ] |
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value: ['0','0','-U*sin(DOLFIN_PI*t/Th)*(t<=Th) + (Th<t)*(U*DOLFIN_PI/Th*(t-Th)*exp(-(t-Th)*beta))'] |
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parameters: |
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#U: 75 #REFERENCE 120 |
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U: 100 |
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#U: 150 #Pa/Pb |
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#U: 40 #Pc |
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Th: 0.36 |
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beta: 70 |
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t: 0 |
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- |
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id: 1 |
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type: 'dirichlet' |
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value: ['0','0','0'] |
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- |
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id: 3 |
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type: 'windkessel' |
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parameters: |
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R_p: 200 |
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C: 0.0004 |
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R_d: 4800 |
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p0: 85 |
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conv: 1333.223874 |
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- |
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id: 4 |
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type: 'windkessel' |
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parameters: |
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#R_p: 480 |
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R_p: 480 |
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#C: 0.0004 # REFERENCE |
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C: 0.001 # REFERENCE |
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#C: 0.0005 # Pa |
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#C: 0.0010 # Pb |
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#C: 0.0001 # Pc |
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#C: 0.0008 # Pg |
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#R_d: 7200 # REFERENCE |
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R_d: 15000 # REFERENCE |
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#R_d: 8760 #Pa |
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#R_d: 17520 #Pb x2 |
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#R_d: 4000 #Pc |
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p0: 85 |
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conv: 1333.223874 |
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- |
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id: 5 |
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type: 'windkessel' |
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parameters: |
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R_p: 520 |
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C: 0.0003 # REFERENCE |
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#C: 0.0005 # Pa |
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#C: 0.0010 # Pb |
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#C: 0.0001 # Pc |
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#C: 0.0008 # Pg |
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#R_d: 11520 # REFERENCE |
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R_d: 40000 |
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#R_d: 8760 #Pa |
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#R_d: 17520 #Pb x2 |
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#R_d: 4000 #Pc |
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p0: 85 |
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conv: 1333.223874 |
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- |
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id: 6 |
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type: 'windkessel' |
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parameters: |
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R_p: 520 |
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C: 0.0003 # REFERENCE |
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#C: 0.0005 #Pa |
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#C: 0.0010 #Pb |
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#C: 0.0001 #Pc |
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R_d: 11520 # REFERENCE |
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#R_d: 35000 |
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#R_d: 8760 #Pa |
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#R_d: 17520 #Pb x2 |
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#R_d: 4000 #Pc |
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p0: 85 |
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conv: 1333.223874 |
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|
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timemarching: |
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velocity_pressure_coupling: 'fractionalstep' # monolithic, fractionalstep |
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|
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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: 0.8 # end time |
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dt: 0.0001 |
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write_dt: 0.001 |
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checkpoint_dt: 0.001 # <= 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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|
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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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|
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strain_symmetric: False |
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convection_skew_symmetric: True # aka Temam term |
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stabilization: |
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forced_normal: |
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enabled: False |
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boundaries: [3,4,5,6] |
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gamma: 20 |
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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: 'standard' # standard, shakib, codina, klr |
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length_scale: 'metric' # average, max, metric |
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parameter_element_constant: True |
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Cinv: ~ |
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monolithic: |
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infsup: 'pspg' # 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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|
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fix_pressure: False |
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fix_pressure_point: [0., 0. , 0.] |
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|
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linear_solver: |
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method: 'lu' |
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|
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estimation: |
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boundary_conditions: |
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#- |
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# id: 3 |
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# type: 'windkessel' |
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# initial_stddev: 1 |
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- |
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id: 4 |
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type: 'windkessel' |
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mode: 'RdC' |
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initial_stddev: 1 |
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- |
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id: 5 |
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type: 'windkessel' |
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mode: 'RdC' |
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initial_stddev: 1 |
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- |
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id: 6 |
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type: 'windkessel' |
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mode: 'RdC' |
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initial_stddev: 1 |
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- |
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id: 2 |
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type: 'dirichlet' |
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parameters: 'U' |
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initial_stddev: 1 |
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|
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|
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measurements: |
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- |
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mesh: '/home/yeye/NuMRI/kalman/meshes/coaortaH3_leo2.0.h5' |
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#mesh: './meshes/coaortaH1.h5' |
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fe_degree: 1 |
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#xdmf_file: 'measurements/aorta_dt1ms/Perturbation/Mg15V70/u_all.xdmf' |
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#file_root: 'measurements/aorta_dt1ms/Perturbation/Mg15V70/u{i}.h5' |
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xdmf_file: 'measurements/aorta_exp_dt1ms/u_all.xdmf' |
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file_root: 'measurements/aorta_exp_dt1ms/u{i}.h5' |
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indices: 0 # indices of checkpoints to be processed. 0 == all |
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velocity_direction: [0,0,1] |
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noise_stddev: 45 # standard deviation of Gaussian noise |
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|
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roukf: |
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particles: 'simplex' # unique or simplex |
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observation_operator: 'postprocessing' #state or postprocessing |
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reparameterize: True |
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ODV_functional: |
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enable: False |
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VENC: 138 |
@ -0,0 +1,209 @@
@@ -0,0 +1,209 @@
|
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|
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mesh: './meshes/coaortaH1.h5' |
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# Physical parameters of the fluid |
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fluid: |
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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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implicit_windkessel: True |
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|
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io: |
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write_path: 'results/impl_0.1ms' |
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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_xdmf: True |
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write_checkpoints: True |
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write_hdf5_timeseries: False |
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write_velocity: 'update' # update or tentative |
||||
|
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boundary_conditions: |
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- |
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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<=Th) + (t<0.8)*(Th<t)*(U*DOLFIN_PI/Th*(t-Th)*exp(-(t-Th)*beta)) + |
||||
# -U*sin(DOLFIN_PI*(t-0.8)/Th)*(t<= 0.8+Th )*(t>0.8) + (t<1.6)*(0.8+Th<t)*(U*DOLFIN_PI/Th*(t-0.8-Th)*exp(-(t-0.8-Th)*beta)) + |
||||
# -U*sin(DOLFIN_PI*(t-1.6)/Th)*(t<= 1.6+Th )*(t>1.6) + (t<2.4)*(1.6+Th<t)*(U*DOLFIN_PI/Th*(t-1.6-Th)*exp(-(t-1.6-Th)*beta))' ] |
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value: ['0','0','-U*sin(DOLFIN_PI*t/Th)*(t<=Th) + (Th<t)*(U*DOLFIN_PI/Th*(t-Th)*exp(-(t-Th)*beta))'] |
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parameters: |
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#U: 75 #REFERENCE 120 |
||||
U: 100 |
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#U: 150 #Pa/Pb |
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#U: 40 #Pc |
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Th: 0.36 |
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beta: 70 |
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t: 0 |
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- |
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id: 1 |
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type: 'dirichlet' |
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value: ['0','0','0'] |
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- |
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id: 3 |
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type: 'windkessel' |
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parameters: |
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R_p: 200 |
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C: 0.0004 |
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R_d: 4800 |
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p0: 85 |
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conv: 1333.223874 |
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- |
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id: 4 |
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type: 'windkessel' |
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parameters: |
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#R_p: 480 |
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R_p: 480 |
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#C: 0.0004 # REFERENCE |
||||
C: 0.001 # REFERENCE |
||||
#C: 0.0005 # Pa |
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#C: 0.0010 # Pb |
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#C: 0.0001 # Pc |
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#C: 0.0008 # Pg |
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#R_d: 7200 # REFERENCE |
||||
R_d: 15000 # REFERENCE |
||||
#R_d: 8760 #Pa |
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#R_d: 17520 #Pb x2 |
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#R_d: 4000 #Pc |
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p0: 85 |
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conv: 1333.223874 |
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- |
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id: 5 |
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type: 'windkessel' |
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parameters: |
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R_p: 520 |
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C: 0.0003 # REFERENCE |
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#C: 0.0005 # Pa |
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#C: 0.0010 # Pb |
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#C: 0.0001 # Pc |
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#C: 0.0008 # Pg |
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#R_d: 11520 # REFERENCE |
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R_d: 40000 |
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#R_d: 8760 #Pa |
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#R_d: 17520 #Pb x2 |
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#R_d: 4000 #Pc |
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p0: 85 |
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conv: 1333.223874 |
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- |
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id: 6 |
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type: 'windkessel' |
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parameters: |
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R_p: 520 |
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C: 0.0003 # REFERENCE |
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#C: 0.0005 #Pa |
||||
#C: 0.0010 #Pb |
||||
#C: 0.0001 #Pc |
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R_d: 11520 # REFERENCE |
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#R_d: 35000 |
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#R_d: 8760 #Pa |
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#R_d: 17520 #Pb x2 |
||||
#R_d: 4000 #Pc |
||||
p0: 85 |
||||
conv: 1333.223874 |
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|
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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 |
||||
theta: 1 # 1: Euler, 0.5: implicit midpoint rule (one-legged) |
||||
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 |
||||
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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|
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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: 0.8 # end time |
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dt: 0.0001 |
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write_dt: 0.001 |
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checkpoint_dt: 0.001 # <= 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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# 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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|
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strain_symmetric: False |
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convection_skew_symmetric: True # aka Temam term |
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stabilization: |
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forced_normal: |
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enabled: False |
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boundaries: [3,4,5,6] |
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gamma: 20 |
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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: 'standard' # standard, shakib, codina, klr |
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length_scale: 'metric' # average, max, metric |
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parameter_element_constant: True |
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Cinv: ~ |
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monolithic: |
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infsup: 'pspg' # 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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|
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fix_pressure: False |
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fix_pressure_point: [0., 0. , 0.] |
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|
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linear_solver: |
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method: 'lu' |
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|
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estimation: |
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boundary_conditions: |
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#- |
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# id: 3 |
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# type: 'windkessel' |
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# initial_stddev: 1 |
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- |
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id: 4 |
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type: 'windkessel' |
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mode: 'RdC' |
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initial_stddev: 1 |
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- |
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id: 5 |
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type: 'windkessel' |
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mode: 'RdC' |
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initial_stddev: 1 |
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- |
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id: 6 |
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type: 'windkessel' |
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mode: 'RdC' |
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initial_stddev: 1 |
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- |
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id: 2 |
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type: 'dirichlet' |
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parameters: 'U' |
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initial_stddev: 1 |
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|
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|
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measurements: |
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- |
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mesh: '/home/yeye/NuMRI/kalman/meshes/coaortaH3_leo2.0.h5' |
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#mesh: './meshes/coaortaH1.h5' |
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fe_degree: 1 |
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#xdmf_file: 'measurements/aorta_dt1ms/Perturbation/Mg15V70/u_all.xdmf' |
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#file_root: 'measurements/aorta_dt1ms/Perturbation/Mg15V70/u{i}.h5' |
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xdmf_file: 'measurements/aorta_exp_dt1ms/u_all.xdmf' |
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file_root: 'measurements/aorta_exp_dt1ms/u{i}.h5' |
||||
indices: 0 # indices of checkpoints to be processed. 0 == all |
||||
velocity_direction: [0,0,1] |
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noise_stddev: 45 # standard deviation of Gaussian noise |
||||
|
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roukf: |
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particles: 'simplex' # unique or simplex |
||||
observation_operator: 'postprocessing' #state or postprocessing |
||||
reparameterize: True |
||||
ODV_functional: |
||||
enable: False |
||||
VENC: 138 |
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Reference in new issue