[visualase]
visualase_file = mlat.dat
override = False
visualase_dir = /tmp
override_power = 0.0

[perfusion]
w_0_probe = 48.35e0
w_n = 0.000000
w_i = 0.000000
w_d = 0.000000
w_0_healthy = 3.000000
w_ni = 305.000000
w_id = 315.000000
w_2 = 0.000000

[kalman]
roi = [0,255,0,255]
method = 2
magiy = 80
magix = 80

[thermal_conductivity]
k_1 = 0.000000
k_3 = 0.0e0
k_2 = 0.0e0
k_0_probe = .5e0
k_0_healthy = 0.527000

[timestep]
isteps_per_ideal = 6
ideal_dt = 6.0e0

[probe]
z_0 = -0.021500
domain = 10
x_0 = 0.206000
y_0 = 0.289000

[mrti]
img_sizefile = mrtiimg.size
ixlo = 105
dictionary = $ITK_SOURCE/Utilities/gdcm/Dicts/GEMS.dic
iyhi = 161
ixhi = 125
exampath = /FUS4/data2/BioTex/Brain_PhaseII/060626_BrainDog1_Treat/e227125
filein = /work/00131/fuentes/data/mdacc/canine_feb07/980brainStat/dog1_980/dog1_98000/mrivis/temperature.%04d.vtk
uncertaintyin = /work/00131/fuentes/data/mdacc/canine_feb07/980brainStat/dog1_980/dog1_98000/mrivis/tmapstd.%04d.vtk
dirid = 227777
ntime = 119
iylo = 137

[qoi_0]
init_time_window = [0,119]
noptsteps = 1
plotoptsolve = true
noffset = 0
numideal = 0
ideal_ntime_init = 119
ideal_nzero_init = 0

[bc]
newton_coeff = 0.000000
u_dirichletid = 1
u_flux = 0.000000

[avs]
femvis_sizefile = ucdvis.size
mrtivis_sizefile = mrtivis.size

[field]

[optical]
mu_a_healthy = 500.000000
mu_a_tumor = 2.38e2
mu_a_probe = 0.0195e0
mu_s_probe = 100.0e0
mu_s_healthy = 14000.000000
anfact = 0.880000
mu_s_tumor = 3.5e2

[compexec]
a21 = 1.0
executable = dddas
comphost = login3
a11 = 0.0
a12 = -1.0
execcode = cd /work/00131/fuentes/data/mdacc/canine_feb07/980brainStat/dog1fem9800/dog1fem980055 ; qsub dog1fem980055.qsub  
solver = superlu_dist
a22 = 0.0
jobid = dog1fem9800
workdir = /work/00131/fuentes/data/mdacc/canine_feb07/980brainStat
b0 = .206
b1 = .289
b2 = -.0215
profileid = dog1fem980055
numproc = 48
runtime_options = -snes_ls basic -info  -info_exclude null,vec,mat,pc,ksp,snes -ksp_rtol 1.e-9 -pc_type bjacobi  -snes_monitor -snes_rtol 1.e-6 -snes_converged_reason -tao_max_funcs 0
method = opt
meshdata = /work/00131/fuentes/data/mdacc/canine_feb07/generic-mesh/meshTemplateHiRes.e

[registration]
createbackupmesh = createboxmesh.py
transform_script = LBIE_2_hp3d.py 1 1
subsamplefactorx = 2
subsamplefactorz = 1
registration_exe = RigidRegistration
dicomconvert = DicomSeriesConvert
subsamplevolume = SubsampleNoFilter
registration = False
interop_dicom_dir = 
subsamplefactory = 2

[output]
femgmv = False
compwritefem = femvis/
mrtiavs = False
fem_filename = fem
computefinalobjective = false
mriavs = False
femraw = False
femavs = False
compwritemri = mrivis/
mrirawiv = False
mrtirawiv = False

[method]
pde = 1
qoi = 1

[initial_condition]
u_init = 34.3
z_init = 7.431e4
probe_init = 34.3