tsimulation.h: remove unneeded vars - granular - granular dynamics simulation
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       ---
 (DIR) commit 8f579780a9ac18da8a43ef60385fdd81da125103
 (DIR) parent ad2bc6049831e53de63e8d2d20402a9cdb8e99a9
 (HTM) Author: Anders Damsgaard <anders@adamsgaard.dk>
       Date:   Thu, 18 Mar 2021 08:16:13 +0100
       
       simulation.h: remove unneeded vars
       
       Diffstat:
         M simulation.h                        |     115 ++-----------------------------
       
       1 file changed, 6 insertions(+), 109 deletions(-)
       ---
 (DIR) diff --git a/simulation.h b/simulation.h
       t@@ -1,6 +1,7 @@
       -#ifndef SIMULATION_
       -#define SIMULATION_
       +#ifndef GRANULAR_SIMULATION_
       +#define GRANULAR_SIMULATION_
        
       +#include "granular.h"
        #include "arrays.h"
        
        #define DEFAULT_SIMULATION_NAME "unnamed_simulation"
       t@@ -11,43 +12,10 @@ extern struct simulation sim;
        struct simulation {
        
                /* simulation name to use for output files */
       -        char name[100];
       +        char name[255];
        
       -        /* gravitational acceleration magnitude [m/s^2] */
       -        double G;
       -
       -        /* normal stress from the top wall [Pa] */
       -        double P_wall;
       -
       -        /* optionally fix top shear velocity to this value [m/s] */
       -        double v_x_fix;
       -
       -        /* optionally fix top shear velocity to this value [m/s] */
       -        double v_x_limit;
       -
       -        /* bottom velocity along x [m/s] */
       -        double v_x_bot;
       -
       -        /* stress ratio at top wall */
       -        double mu_wall;
       -
       -        /* nonlocal amplitude [-] */
       -        double A;
       -
       -        /* rate dependence beyond yield [-] */
       -        double b;
       -
       -        /* bulk and critical state static yield friction coefficient [-] */
       -        double mu_s;
       -
       -        /* material cohesion [Pa] */
       -        double C;
       -
       -        /* representative grain size [m] */
       -        double d;
       -
       -        /* grain material density [kg/m^3] */
       -        double rho_s;
       +        /* gravitational acceleration [m/s^2] */
       +        double gravacc[ND];
        
                /* nodes along z */
                int nz;
       t@@ -79,82 +47,11 @@ struct simulation {
                /* output file number */
                int n_file;
        
       -        double transient;
       -        double phi_min;
       -        double phi_max;
       -        double dilatancy_constant;
       -
       -        /* Fluid parameters */
       -        int fluid;            /* flag to switch fluid on (1) or off (0) */
       -        double p_f_top;       /* fluid pressure at the top [Pa] */
       -        double p_f_mod_ampl;  /* amplitude of fluid pressure variations [Pa] */
       -        double p_f_mod_freq;  /* frequency of fluid pressure variations [s^-1] */
       -        double p_f_mod_phase; /* phase of fluid pressure variations [s^-1] */
       -        double p_f_mod_pulse_time; /* single pressure pulse at this time [s] */
       -        int p_f_mod_pulse_shape;   /* waveform for fluid-pressure pulse */
       -        double beta_f;        /* adiabatic fluid compressibility [Pa^-1] */
       -        double alpha;         /* adiabatic grain compressibility [Pa^-1] */
       -        double mu_f;          /* fluid dynamic viscosity [Pa*s] */
       -        double rho_f;         /* fluid density [kg/m^3] */
       -        double D;             /* diffusivity [m^2/s], overrides k, beta_f, alpha, mu_f */
       -
       -        /* arrays */
       -        double *mu;           /* static yield friction [-] */
       -        double *mu_c;         /* critical-state static yield friction [-] */
       -        double *sigma_n_eff;  /* effective normal pressure [Pa] */
       -        double *sigma_n;      /* normal stress [Pa] */
       -        double *p_f_ghost;    /* fluid pressure [Pa] */
       -        double *p_f_dot;      /* fluid pressure change [Pa/s] */
       -        double *p_f_dot_expl; /* fluid pressure change (explicit solution) [Pa/s] */
       -        double *p_f_dot_impl; /* fluid pressure change (implicit solution) [Pa/s] */
       -        double *p_f_dot_impl_r_norm; /* normalized residual fluid pressure change [-] */
       -        double *k;            /* hydraulic permeability [m^2] */
       -        double *phi;          /* porosity [-] */
       -        double *phi_c;        /* critical-state porosity [-] */
       -        double *phi_dot;      /* porosity change [s^-1] */
       -        double *xi;           /* cooperativity length */
       -        double *gamma_dot_p;  /* plastic shear strain rate [s^-1] */
       -        double *v_x;          /* shear velocity [m/s] */
       -        double *g_local;      /* local fluidity */
       -        double *g_ghost;      /* fluidity with ghost nodes */
       -        double *g_r_norm;     /* normalized residual of fluidity field */
       -        double *I;            /* inertia number [-] */
       -        double *tan_psi;      /* tan(dilatancy_angle) [-] */
       -        double *old_val;      /* temporary storage for iterative solvers */
       -        double *fluid_old_val;/* temporary storage for fluid iterative solver */
       -        double *tmp_ghost;    /* temporary storage for iterative solvers */
       -        double *p_f_dot_old;  /* temporary storage for old p_f_dot */
        };
        
        void init_sim(struct simulation *sim);
       -void prepare_arrays(struct simulation *sim);
       -void free_arrays(struct simulation *sim);
       -void check_simulation_parameters(struct simulation *sim);
       -void lithostatic_pressure_distribution(struct simulation *sim);
       -void compute_effective_stress(struct simulation *sim);
       -
       -void set_bc_neumann(double *a,
       -                    const int nz,
       -                    const int boundary,
       -                    const double df,
       -                    const double dx);
       -
       -void set_bc_dirichlet(double *a,
       -                      const int nz,
       -                      const int boundary,
       -                      const double value);
       -
       -double residual(double new_val, double old_val);
        
        void write_output_file(struct simulation *sim, const int normalize);
        void print_output(struct simulation *sim, FILE *fp, const int normalize);
        
       -int coupled_shear_solver(struct simulation *sim,
       -                         const int max_iter,
       -                         const double rel_tol);
       -                         
       -void set_coupled_fluid_transient_timestep(struct simulation *sim, const double safety);
       -
       -double find_flux(const struct simulation *sim);
       -
        #endif