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Merged in update_swift_plugin (pull request #20)

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Update swift plugin
This commit is contained in:
Matthieu Schaller 2021-03-28 17:55:32 +00:00 committed by Oliver Hahn
commit 5aa59719da
1 changed files with 72 additions and 25 deletions
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97
src/plugins/output_swift.cc
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@ -22,9 +22,9 @@
#include "HDF_IO.hh"
template <typename T>
std::vector<T> from_6array(const std::array<T,6>& a)
std::vector<T> from_7array(const std::array<T,7>& a)
{
return std::vector<T>{{a[0], a[1], a[2], a[3], a[4], a[5]}};
return std::vector<T>{{a[0], a[1], a[2], a[3], a[4], a[5], a[6]}};
}
template <typename T>
@ -41,12 +41,12 @@ protected:
int num_files_, num_simultaneous_writers_;
real_t lunit_, vunit_, munit_;
real_t boxsize_, hubble_param_, astart_;
real_t boxsize_, hubble_param_, astart_, zstart_;
bool blongids_, bdobaryons_;
std::string this_fname_;
std::array<uint32_t,6> npart_, npartTotal_, npartTotalHighWord_;
std::array<double,6> mass_;
std::array<uint32_t,7> npart_, npartTotal_, npartTotalHighWord_;
std::array<double,7> mass_;
double time_;
public:
@ -63,7 +63,8 @@ public:
const double rhoc = 27.7519737; // in h^2 1e10 M_sol / Mpc^3
hubble_param_ = pcc->cosmo_param_["h"];
astart_ = 1.0/(1.0+cf_.get_value<double>("setup","zstart"));
zstart_ = cf_.get_value<double>("setup","zstart");
astart_ = 1.0/(1.0 + zstart_);
boxsize_ = cf_.get_value<double>("setup", "BoxLength");
lunit_ = boxsize_ / hubble_param_; // final units will be in Mpc (without h)
@ -73,7 +74,7 @@ public:
blongids_ = cf_.get_value_safe<bool>("output", "UseLongids", false);
bdobaryons_ = cf_.get_value<bool>("setup","DoBaryons");
for (int i = 0; i < 6; ++i)
for (int i = 0; i < 7; ++i)
{
npart_[i] = 0;
npartTotal_[i] = 0;
@ -91,23 +92,63 @@ public:
this_fname_ += "." + std::to_string(thisrank);
#endif
// Now that we modified the filename for MPI support, propagate the change to the super-class
// as it does operations on the file behind our back.
fname_ = this_fname_;
// delete output file if it exists
unlink(this_fname_.c_str());
// create output HDF5 file
HDFCreateFile(this_fname_);
// Write UNITS header
// Write UNITS header using the physical constants assumed internally by SWIFT
HDFCreateGroup(this_fname_, "Units");
HDFWriteGroupAttribute(this_fname_, "Units", "Unit mass in cgs (U_M)", 1.98848e43); // 10^10 Msun in grams
HDFWriteGroupAttribute(this_fname_, "Units", "Unit length in cgs (U_L)", 3.08567758e24); // 1 Mpc in cm
HDFWriteGroupAttribute(this_fname_, "Units", "Unit time in cgs (U_t)", 3.08567758e19); // so that unit vel is 1 km/s
HDFWriteGroupAttribute(this_fname_, "Units", "Unit current in cgs (U_I)", 1.0); // 1 Ampere
HDFWriteGroupAttribute(this_fname_, "Units", "Unit temperature in cgs (U_T)", 1.0); // 1 Kelvin
HDFWriteGroupAttribute(this_fname_, "Units", "Unit mass in cgs (U_M)", 1.98841e43); // 10^10 Msun in grams
HDFWriteGroupAttribute(this_fname_, "Units", "Unit length in cgs (U_L)", 3.08567758149e24); // 1 Mpc in cm
HDFWriteGroupAttribute(this_fname_, "Units", "Unit time in cgs (U_t)", 3.08567758149e19); // so that unit vel is 1 km/s
HDFWriteGroupAttribute(this_fname_, "Units", "Unit current in cgs (U_I)", 1.0); // 1 Ampere
HDFWriteGroupAttribute(this_fname_, "Units", "Unit temperature in cgs (U_T)", 1.0); // 1 Kelvin
// TODO: Write MUSIC configuration header
HDFCreateGroup(fname_, "ICs_parameters");
// ...
// Write MUSIC configuration header
int order = cf_.get_value<int>("setup", "LPTorder");
std::string load = cf_.get_value<std::string>("setup", "ParticleLoad");
std::string tf = cf_.get_value<std::string>("cosmology", "transfer");
std::string cosmo_set = cf_.get_value<std::string>("cosmology", "ParameterSet");
std::string rng = cf_.get_value<std::string>("random", "generator");
int do_fixing = cf_.get_value<bool>("setup", "DoFixing");
int do_invert = cf_.get_value<bool>("setup", "DoInversion");
int do_baryons = cf_.get_value<bool>("setup", "DoBaryons");
int do_baryonsVrel = cf_.get_value<bool>("setup", "DoBaryonVrel");
int L = cf_.get_value<int>("setup", "GridRes");
HDFCreateGroup(this_fname_, "ICs_parameters");
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Code", std::string("MUSIC2 - monofonIC"));
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Git Revision", std::string(GIT_REV));
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Git Tag", std::string(GIT_TAG));
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Git Branch", std::string(GIT_BRANCH));
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Precision", std::string(CMAKE_PRECISION_STR));
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Convolutions", std::string(CMAKE_CONVOLVER_STR));
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "PLT", std::string(CMAKE_PLT_STR));
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "LPT Order", order);
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Particle Load", load);
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Transfer Function", tf);
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Cosmology Parameter Set", cosmo_set);
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Random Generator", rng);
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Mode Fixing", do_fixing);
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Mode inversion", do_invert);
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Baryons", do_baryons);
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Baryons Relative Velocity", do_baryonsVrel);
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Grid Resolution", L);
if (tf == "CLASS") {
double ztarget = cf_.get_value<double>("cosmology", "ztarget");
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Target Redshift", ztarget);
}
if (rng == "PANPHASIA") {
std::string desc = cf_.get_value<std::string>("random", "descriptor");
HDFWriteGroupAttribute(this_fname_, "ICs_parameters", "Descriptor", desc);
}
}
// use destructor to write header post factum
@ -117,19 +158,20 @@ public:
{
HDFCreateGroup(this_fname_, "Header");
HDFWriteGroupAttribute(fname_, "Header", "Dimension", 3);
HDFWriteGroupAttribute(fname_, "Header", "BoxSize", lunit_); // in Mpc, not Mpc/h
HDFWriteGroupAttribute(fname_, "Header", "BoxSize", boxsize_ / hubble_param_); // in Mpc, not Mpc/h
HDFWriteGroupAttribute(this_fname_, "Header", "NumPart_Total", from_6array<unsigned>(npartTotal_));
HDFWriteGroupAttribute(this_fname_, "Header", "NumPart_Total_HighWord", from_6array<unsigned>(npartTotalHighWord_));
HDFWriteGroupAttribute(this_fname_, "Header", "NumPart_ThisFile", from_6array<unsigned>(npart_));
HDFWriteGroupAttribute(this_fname_, "Header", "MassTable", from_6array<double>(mass_));
HDFWriteGroupAttribute(this_fname_, "Header", "NumPart_Total", from_7array<unsigned>(npartTotal_));
HDFWriteGroupAttribute(this_fname_, "Header", "NumPart_Total_HighWord", from_7array<unsigned>(npartTotalHighWord_));
HDFWriteGroupAttribute(this_fname_, "Header", "NumPart_ThisFile", from_7array<unsigned>(npart_));
HDFWriteGroupAttribute(this_fname_, "Header", "MassTable", from_7array<double>(mass_));
HDFWriteGroupAttribute(this_fname_, "Header", "Time", from_value<double>(time_));
HDFWriteGroupAttribute(this_fname_, "Header", "Redshift", from_value<double>(zstart_));
HDFWriteGroupAttribute(this_fname_, "Header", "Flag_Entropy_ICs", from_value<int>(0));
HDFWriteGroupAttribute(this_fname_, "Header", "NumFilesPerSnapshot", from_value<int>(num_files_));
// write GAS internal energy if baryons are enabled
// write GAS internal energy and smoothing length if baryons are enabled
if( bdobaryons_ )
{
const double gamma = cf_.get_value_safe<double>("cosmology", "gamma", 5.0 / 3.0);
@ -147,12 +189,17 @@ public:
const double mu = (Tini > 1.e4) ? 4.0 / (8. - 5. * YHe) : 4.0 / (1. + 3. * (1. - YHe));
const double ceint = 1.3806e-16 / 1.6726e-24 * Tini * npol / mu / unitv / unitv;
music::ilog.Print("Swift : set initial gas temperature to %.2f K/mu", Tini / mu);
music::ilog.Print("Swift : Calculated initial gas temperature: %.2f K/mu", Tini / mu);
music::ilog.Print("Swift : set initial internal energy to %.2e km^2/s^2", ceint);
std::vector<write_real_t> data( npart_[0], ceint );
HDFWriteDataset(this_fname_, "PartType0/InternalEnergy", data);
data.assign( npart_[0], boxsize_ / cf_.get_value<double>("setup","GridRes") );
const double h = boxsize_ / hubble_param_ / cf_.get_value<double>("setup","GridRes");
music::ilog.Print("Swift : set initial smoothing length to mean inter-part separation: %.2f Mpc", h);
data.assign( npart_[0], h);
HDFWriteDataset(this_fname_, "PartType0/SmoothingLength", data);
}
@ -192,7 +239,7 @@ public:
case cosmo_species::baryon:
return 0;
case cosmo_species::neutrino:
return 3;
return 6;
}
return -1;
}