OilfieldToolsNet/LBPM
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fix zlib download path

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This commit is contained in:
James McClure
2022-07-13 07:55:37 -04:00
parent 5204f48d45
commit c148f907eb
3 changed files with 27 additions and 26 deletions
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3
.github/workflows/c-cpp.yml vendored
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@@ -29,7 +29,8 @@ jobs:
sudo apt-get update -y sudo apt-get update -y
wget https://bitbucket.org/AdvancedMultiPhysics/tpl-builder/downloads/silo-4.10.2.tar.gz wget https://bitbucket.org/AdvancedMultiPhysics/tpl-builder/downloads/silo-4.10.2.tar.gz
wget https://www.zlib.net/zlib-1.2.11.tar.gz #wget https://www.zlib.net/zlib-1.2.11.tar.gz
wget https://zlib.net/fossils/zlib-1.2.11.tar.gz
wget https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.8/hdf5-1.8.12/src/hdf5-1.8.12.tar.gz wget https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.8/hdf5-1.8.12/src/hdf5-1.8.12.tar.gz
#wget https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.8/hdf5-1.8.10/src/hdf5-1.8.10.tar.gz #wget https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.8/hdf5-1.8.10/src/hdf5-1.8.10.tar.gz

36
example/SingleCell/Bacterium.db
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@@ -1,9 +1,9 @@
MultiphysController { MultiphysController {
timestepMax = 1000 timestepMax = 25000
num_iter_Ion_List = 2 num_iter_Ion_List = 4
analysis_interval = 100 analysis_interval = 100
tolerance = 1.0e-9 tolerance = 1.0e-9
visualization_interval = 100 // Frequency to write visualization data visualization_interval = 1000 // Frequency to write visualization data
} }
Stokes { Stokes {
tau = 1.0 tau = 1.0
@@ -12,19 +12,19 @@ Stokes {
nu_phys = 0.889e-6 //fluid kinematic viscosity; user-input unit: [m^2/sec] nu_phys = 0.889e-6 //fluid kinematic viscosity; user-input unit: [m^2/sec]
} }
Ions { Ions {
MembraneIonConcentrationList = 25.0e-3, 25.0e-3 //user-input unit: [mol/m^3] MembraneIonConcentrationList = 150.0e-3, 10.0e-3, 15.0e-3, 155.0e-3 //user-input unit: [mol/m^3]
temperature = 293.15 //unit [K] temperature = 293.15 //unit [K]
number_ion_species = 2 //number of ions number_ion_species = 4 //number of ions
tauList = 1.0, 1.0 tauList = 1.0, 1.0, 1.0, 1.0
IonDiffusivityList = 1.0e-9, 1.0e-9 //user-input unit: [m^2/sec] IonDiffusivityList = 1.0e-9, 1.0e-9, 1.0e-9, 1.0e-9 //user-input unit: [m^2/sec]
IonValenceList = 1, -1 //valence charge of ions; dimensionless; positive/negative integer IonValenceList = 1, -1, 1, -1 //valence charge of ions; dimensionless; positive/negative integer
IonConcentrationList = 100.0e-3, 100.0e-3 //user-input unit: [mol/m^3] IonConcentrationList = 4.0e-3, 20.0e-3, 16.0e-3, 0.0e-3 //user-input unit: [mol/m^3]
BC_Solid = 0 //solid boundary condition; 0=non-flux BC; 1=surface ion concentration BC_Solid = 0 //solid boundary condition; 0=non-flux BC; 1=surface ion concentration
//SolidLabels = 0 //solid labels for assigning solid boundary condition; ONLY for BC_Solid=1 //SolidLabels = 0 //solid labels for assigning solid boundary condition; ONLY for BC_Solid=1
//SolidValues = 1.0e-5 // user-input surface ion concentration unit: [mol/m^2]; ONLY for BC_Solid=1 //SolidValues = 1.0e-5 // user-input surface ion concentration unit: [mol/m^2]; ONLY for BC_Solid=1
FluidVelDummy = 0.0, 0.0, 0.0 // dummy fluid velocity for debugging FluidVelDummy = 0.0, 0.0, 0.0 // dummy fluid velocity for debugging
BC_InletList = 0, 0 BC_InletList = 0, 0, 0, 0
BC_OutletList = 0, 0 BC_OutletList = 0, 0, 0, 0
} }
Poisson { Poisson {
@@ -55,8 +55,8 @@ Poisson {
Domain { Domain {
Filename = "Bacterium.swc" Filename = "Bacterium.swc"
nproc = 2, 1, 1 // Number of processors (Npx,Npy,Npz) nproc = 2, 1, 1 // Number of processors (Npx,Npy,Npz)
n = 50, 64, 64 // Size of local domain (Nx,Ny,Nz) n = 64, 64, 64 // Size of local domain (Nx,Ny,Nz)
N = 100, 64, 64 // size of the input image N = 128, 64, 64 // size of the input image
voxel_length = 0.01 //resolution; user-input unit: [um] voxel_length = 0.01 //resolution; user-input unit: [um]
BC = 0 // Boundary condition type BC = 0 // Boundary condition type
ReadType = "swc" ReadType = "swc"
@@ -78,9 +78,9 @@ Visualization {
} }
Membrane { Membrane {
MembraneLabels = 2 MembraneLabels = 2
VoltageThreshold = 0.0, 0.0 VoltageThreshold = 0.0, 0.0, 0.0, 0.0
MassFractionIn = 0e-2, 5e-2 MassFractionIn = 1e-1, 1.0, 5e-3, 0.0
MassFractionOut = 0e-2, 5e-2 MassFractionOut = 1e-1, 1.0, 5e-3, 0.0
ThresholdMassFractionIn = 0e-2, 5e-2 ThresholdMassFractionIn = 1e-1, 1.0, 5e-3, 0.0
ThresholdMassFractionOut = 0e-2, 5e-2 ThresholdMassFractionOut = 1e-1, 1.0, 5e-3, 0.0
} }

14
example/SingleCell/Bacterium.swc
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@@ -1,8 +1,8 @@
# id,type,x,y,z,r,pid # id,type,x,y,z,r,pid
1 1 0.20 0.32 0.32 0.15 -1 1 1 0.30 0.32 0.32 0.15 -1
2 1 0.25 0.32 0.32 0.16 1 2 1 0.35 0.32 0.32 0.16 1
3 1 0.33 0.32 0.32 0.17 2 3 1 0.43 0.32 0.32 0.17 2
4 1 0.50 0.32 0.32 0.18 3 4 1 0.60 0.32 0.32 0.18 3
5 1 0.67 0.32 0.32 0.17 4 5 1 0.77 0.32 0.32 0.17 4
6 1 0.75 0.32 0.32 0.16 5 6 1 0.85 0.32 0.32 0.16 5
7 1 0.80 0.32 0.32 0.15 6 7 1 0.90 0.32 0.32 0.15 6