diff --git a/matlab/setup.m b/matlab/setup.m index 517c921..dd614b7 100644 --- a/matlab/setup.m +++ b/matlab/setup.m @@ -1,144 +1,144 @@ %% ________________________________________________________________________ SIMDIR = ['../results/',SIMID,'/']; % Grid parameters GRID.pmaxe = PMAXE; % Electron Hermite moments GRID.jmaxe = JMAXE; % Electron Laguerre moments GRID.pmaxi = PMAXI; % Ion Hermite moments GRID.jmaxi = JMAXI; % Ion Laguerre moments GRID.Nx = N; % x grid resolution GRID.Lx = L; % x length GRID.Ny = N * (1-KXEQ0) + KXEQ0; % y '' GRID.Ly = L * (1-KXEQ0); % y '' GRID.Nz = Nz; % z resolution GRID.q0 = q0; % q factor % Model parameters MODEL.CO = CO; % Collision operator (0 : L.Bernstein, -1 : Full Coulomb, -2 : Dougherty) MODEL.CLOS = CLOS; MODEL.NL_CLOS = NL_CLOS; if NON_LIN; MODEL.NON_LIN = '.true.'; else; MODEL.NON_LIN = '.false.';end; MODEL.mu = MU; MODEL.mu_p = MU_P; MODEL.mu_j = MU_J; MODEL.nu = NU; % hyper diffusive coefficient nu for HW % temperature ratio T_a/T_e MODEL.tau_e = TAU; MODEL.tau_i = TAU; % mass ratio sqrt(m_a/m_i) MODEL.sigma_e = 0.0233380; MODEL.sigma_i = 1.0; % charge q_a/e MODEL.q_e =-1.0; MODEL.q_i = 1.0; if MODEL.q_e == 0; SIMID = [SIMID,'_i']; end; % gradients L_perp/L_x MODEL.eta_n = ETAN; % source term kappa for HW MODEL.eta_T = ETAT; % Temperature MODEL.eta_B = ETAB; % Magnetic MODEL.lambdaD = LAMBDAD; % if A0KH ~= 0; SIMID = [SIMID,'_Nz_',num2str(L/2/pi*KX0KH),'_A_',num2str(A0KH)]; end; % Time integration and intialization parameters TIME_INTEGRATION.numerical_scheme = '''RK4'''; if (INIT_PHI); INITIAL.init_noisy_phi = '.true.'; else; INITIAL.init_noisy_phi = '.false.';end; INITIAL.INIT_ZF = INIT_ZF; if (WIPE_TURB); INITIAL.wipe_turb = '.true.'; else; INITIAL.wipe_turb = '.false.';end; if (INIT_BLOB); INITIAL.init_blob = '.true.'; else; INITIAL.init_blob = '.false.';end; INITIAL.init_background = (INIT_ZF>0)*ZF_AMP; INITIAL.init_noiselvl = NOISE0; INITIAL.iseed = 42; INITIAL.mat_file = '''null'''; if (abs(CO) == 2) %Sugama operator INITIAL.mat_file = ['''../../../iCa/gk_sugama_P_20_J_10_N_150_kpm_8.0.h5''']; elseif (abs(CO) == 3) %pitch angle operator INITIAL.mat_file = ['''../../../iCa/gk_pitchangle_8_P_20_J_10_N_150_kpm_8.0.h5''']; elseif (CO == 4) % Full Coulomb GK disp('Warning, FCGK not implemented yet') elseif (CO == -1) % DGDK disp('Warning, DGDK not debugged') end % Naming and creating input file if (CO == -3); CONAME = 'PADK'; elseif(CO == -2); CONAME = 'SGDK'; elseif(CO == -1); CONAME = 'DGDK'; elseif(CO == 0); CONAME = 'LBDK'; elseif(CO == 1); CONAME = 'DGGK'; elseif(CO == 2); CONAME = 'SGGK'; elseif(CO == 3); CONAME = 'PAGK'; end if (CLOS == 0); CLOSNAME = 'Trunc.'; elseif(CLOS == 1); CLOSNAME = 'Clos. 1'; elseif(CLOS == 2); CLOSNAME = 'Clos. 2'; end if (PMAXE == PMAXI) && (JMAXE == JMAXI) degngrad = ['P_',num2str(PMAXE),'_J_',num2str(JMAXE)]; else degngrad = ['Pe_',num2str(PMAXE),'_Je_',num2str(JMAXE),... '_Pi_',num2str(PMAXI),'_Ji_',num2str(JMAXI)]; end degngrad = [degngrad,'_eta_',num2str(ETAB/ETAN),'_nu_%0.0e_',... CONAME,'_mu_%0.0e']; degngrad = sprintf(degngrad,[NU,MU]); if ~NON_LIN; degngrad = ['lin_',degngrad]; end if (Nz == 1) resolution = [num2str(GRID.Nx),'x',num2str(GRID.Ny/2),'_']; gridname = ['L_',num2str(L),'_']; else resolution = [num2str(GRID.Nx),'x',num2str(GRID.Ny/2),'x',num2str(GRID.Nz),'_']; - gridname = ['L_',num2str(L),'_q_',num2str(q),'_']; + gridname = ['L_',num2str(L),'_q0_',num2str(q0),'_']; end if (exist('PREFIX','var') == 0); PREFIX = []; end; if (exist('SUFFIX','var') == 0); SUFFIX = []; end; PARAMS = [PREFIX,resolution,gridname,degngrad,SUFFIX]; BASIC.RESDIR = [SIMDIR,PARAMS,'/']; BASIC.MISCDIR = ['/misc/HeLaZ_outputs/',SIMDIR(4:end),PARAMS,'/']; BASIC.PARAMS = PARAMS; BASIC.SIMID = SIMID; BASIC.nrun = 1e8; BASIC.dt = DT; BASIC.tmax = TMAX; %time normalized to 1/omega_pe BASIC.maxruntime = str2num(CLUSTER.TIME(1:2))*3600 ... + str2num(CLUSTER.TIME(4:5))*60 ... + str2num(CLUSTER.TIME(7:8)); % Outputs parameters if RESTART; BASIC.RESTART = '.true.'; else; BASIC.RESTART = '.false.';end; OUTPUTS.nsave_0d = floor(1.0/SPS0D/DT); OUTPUTS.nsave_1d = -1; OUTPUTS.nsave_2d = floor(1.0/SPS2D/DT); OUTPUTS.nsave_3d = floor(1.0/SPS3D/DT); OUTPUTS.nsave_5d = floor(1.0/SPS5D/DT); OUTPUTS.nsave_cp = floor(1.0/SPSCP/DT); if W_DOUBLE; OUTPUTS.write_doubleprecision = '.true.'; else; OUTPUTS.write_doubleprecision = '.false.';end; if W_GAMMA; OUTPUTS.write_gamma = '.true.'; else; OUTPUTS.write_gamma = '.false.';end; if W_PHI; OUTPUTS.write_phi = '.true.'; else; OUTPUTS.write_phi = '.false.';end; if W_NA00; OUTPUTS.write_Na00 = '.true.'; else; OUTPUTS.write_Na00 = '.false.';end; if W_NAPJ; OUTPUTS.write_Napj = '.true.'; else; OUTPUTS.write_Napj = '.false.';end; if W_SAPJ; OUTPUTS.write_Sapj = '.true.'; else; OUTPUTS.write_Sapj = '.false.';end; if W_DENS; OUTPUTS.write_dens = '.true.'; else; OUTPUTS.write_dens = '.false.';end; if W_TEMP; OUTPUTS.write_temp = '.true.'; else; OUTPUTS.write_temp = '.false.';end; OUTPUTS.resfile0 = '''outputs'''; OUTPUTS.rstfile0 = '''checkpoint'''; OUTPUTS.job2load = JOB2LOAD; %% Create directories if ~exist(SIMDIR, 'dir') mkdir(SIMDIR) end if ~exist(BASIC.RESDIR, 'dir') mkdir(BASIC.RESDIR) end if ~exist(BASIC.MISCDIR, 'dir') mkdir(BASIC.MISCDIR) end %% Compile and WRITE input file INPUT = write_fort90(OUTPUTS,GRID,MODEL,INITIAL,TIME_INTEGRATION,BASIC); nproc = 1; MAKE = 'cd ..; make; cd wk'; system(MAKE); %% disp(['Set up ',SIMID]); disp([resolution,gridname,degngrad]); if RESTART disp(['- restarting from JOBNUM = ',num2str(JOB2LOAD)]); else disp(['- starting from T = 0']); end