Add supernovae feedback example

examples/SupernovaeFeedback/SN_feedback.yml

+# Define the system of units to use internally. 
+InternalUnitSystem:
+  UnitMass_in_cgs:     1   # Grams
+  UnitLength_in_cgs:   1   # Centimeters
+  UnitVelocity_in_cgs: 1   # Centimeters per second
+  UnitCurrent_in_cgs:  1   # Amperes
+  UnitTemp_in_cgs:     1   # Kelvin
+
+# Values of some physical constants
+PhysicalConstants:
+  G:            0 # (Optional) Overwrite the value of Newton's constant used internally by the code.
+
+# Parameters governing the time integration
+TimeIntegration:
+  time_begin: 0.    # The starting time of the simulation (in internal units).
+  time_end:   5e-2  # The end time of the simulation (in internal units).
+  dt_min:     1e-7  # The minimal time-step size of the simulation (in internal units).
+  dt_max:     1e-4  # The maximal time-step size of the simulation (in internal units).
+
+# Parameters governing the snapshots
+Snapshots:
+  basename:            SN_feedback # Common part of the name of output files
+  time_first:          0.    # Time of the first output (in internal units)
+  delta_time:          1e-2  # Time difference between consecutive outputs (in internal units)
+  compression:         1
+ 
+# Parameters governing the conserved quantities statistics
+Statistics:
+  delta_time:          1e-3 # Time between statistics output
+
+# Parameters for the hydrodynamics scheme
+SPH:
+  resolution_eta:        1.2348   # Target smoothing length in units of the mean inter-particle separation (1.2348 == 48Ngbs with the cubic spline kernel).
+  CFL_condition:         0.1      # Courant-Friedrich-Levy condition for time integration.
+
+# Parameters related to the initial conditions
+InitialConditions:
+  file_name:                    ./SN_feedback.hdf5          
+  smoothing_length_scaling:     1.
+  periodic:                    1    # Are we running with periodic ICs?
+ 
+# Parameters for the stellar models
+Stars:
+  resolution_eta:        1.2348   # Target smoothing length in units of the mean inter-particle separation (1.2348 == 48Ngbs with the cubic spline kernel).

examples/SupernovaeFeedback/getGlass.sh

+#!/bin/bash
+wget http://virgodb.cosma.dur.ac.uk/swift-webstorage/ICs/glassCube_64.hdf5

examples/SupernovaeFeedback/makeIC.py

+###############################################################################
+ # This file is part of SWIFT.
+ # Copyright (c) 2016 Matthieu Schaller (matthieu.schaller@durham.ac.uk)
+ # 
+ # This program is free software: you can redistribute it and/or modify
+ # it under the terms of the GNU Lesser General Public License as published
+ # by the Free Software Foundation, either version 3 of the License, or
+ # (at your option) any later version.
+ # 
+ # This program is distributed in the hope that it will be useful,
+ # but WITHOUT ANY WARRANTY; without even the implied warranty of
+ # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ # GNU General Public License for more details.
+ # 
+ # You should have received a copy of the GNU Lesser General Public License
+ # along with this program.  If not, see <http://www.gnu.org/licenses/>.
+ # 
+ ##############################################################################
+
+import h5py
+from numpy import *
+
+# Generates a swift IC file for the Sedov blast test in a periodic cubic box
+
+# Parameters
+gamma = 5./3.      # Gas adiabatic index
+rho0 = 1.          # Background density
+P0 = 1.e-6         # Background pressure
+E0= 1.             # Energy of the explosion
+N_inject = 15      # Number of particles in which to inject energy
+fileName = "SN_feedback.hdf5" 
+
+#---------------------------------------------------
+glass = h5py.File("glassCube_64.hdf5", "r")
+
+# Read particle positions and h from the glass
+pos = glass["/PartType0/Coordinates"][:,:]
+eps = 1e-6
+pos = (pos - pos.min()) / (pos.max() - pos.min() + eps)
+h = glass["/PartType0/SmoothingLength"][:] * 0.3 * 3.3
+
+numPart = size(h)
+vol = 1.
+Boxsize = 1.
+
+# Generate extra arrays
+v = zeros((numPart, 3))
+ids = linspace(1, numPart, numPart)
+m = zeros(numPart)
+u = zeros(numPart)
+r = zeros(numPart)
+
+r = sqrt((pos[:,0] - 0.5)**2 + (pos[:,1] - 0.5)**2 + (pos[:,2] - 0.5)**2)
+m[:] = rho0 * vol / numPart    
+u[:] = P0 / (rho0 * (gamma - 1))
+
+#--------------------------------------------------
+
+star_pos = zeros((1, 3))
+star_pos[:,:] = 0.5 * Boxsize
+
+star_v = zeros((1, 3))
+star_v[:,:] = 0.
+
+# increase mass to keep it at center
+star_m = 1e3 * array([rho0 * vol / numPart])
+star_ids = array([numPart + 1])
+star_h = array([h.max()])
+
+#--------------------------------------------------
+
+#File
+file = h5py.File(fileName, 'w')
+
+# Header
+grp = file.create_group("/Header")
+grp.attrs["BoxSize"] = [Boxsize]*3
+grp.attrs["NumPart_Total"] =  [numPart, 0, 0, 0, 1, 0]
+grp.attrs["NumPart_Total_HighWord"] = [0, 0, 0, 0, 0, 0]
+grp.attrs["NumPart_ThisFile"] = [numPart, 0, 0, 0, 1, 0]
+grp.attrs["Time"] = 0.0
+grp.attrs["NumFilesPerSnapshot"] = 1
+grp.attrs["MassTable"] = [0.0, 0.0, 0.0, 0.0, 0.0, 0.0]
+grp.attrs["Flag_Entropy_ICs"] = 0
+grp.attrs["Dimension"] = 3
+
+#Runtime parameters
+grp = file.create_group("/RuntimePars")
+grp.attrs["PeriodicBoundariesOn"] = 0
+
+#Units
+grp = file.create_group("/Units")
+grp.attrs["Unit length in cgs (U_L)"] = 1.
+grp.attrs["Unit mass in cgs (U_M)"] = 1.
+grp.attrs["Unit time in cgs (U_t)"] = 1.
+grp.attrs["Unit current in cgs (U_I)"] = 1.
+grp.attrs["Unit temperature in cgs (U_T)"] = 1.
+
+#Particle group
+grp = file.create_group("/PartType0")
+grp.create_dataset('Coordinates', data=pos, dtype='d')
+grp.create_dataset('Velocities', data=v, dtype='f')
+grp.create_dataset('Masses', data=m, dtype='f')
+grp.create_dataset('SmoothingLength', data=h, dtype='f')
+grp.create_dataset('InternalEnergy', data=u, dtype='f')
+grp.create_dataset('ParticleIDs', data=ids, dtype='L')
+
+# stellar group
+grp = file.create_group("/PartType4")
+grp.create_dataset("Coordinates", data=star_pos, dtype="d")
+grp.create_dataset('Velocities', data=star_v, dtype='f')
+grp.create_dataset('Masses', data=star_m, dtype='f')
+grp.create_dataset('SmoothingLength', data=star_h, dtype='f')
+grp.create_dataset('ParticleIDs', data=star_ids, dtype='L')
+
+
+file.close()

examples/SupernovaeFeedback/run.sh

+#!/bin/bash
+
+ # Generate the initial conditions if they are not present.
+if [ ! -e glassCube_64.hdf5 ]
+then
+    echo "Fetching initial glass file for the Supernovae feedback example..."
+    ./getGlass.sh
+fi
+if [ ! -e SN_feedback.hdf5 ]
+then
+    echo "Generating initial conditions for the Supernovae feedback example..."
+    python makeIC.py
+fi
+
+# Run SWIFT
+../swift -g -b -s -S -t 4 SN_feedback.yml 2>&1 | tee output.log
+
+# Plot the solution
+# TODO