mirror of
https://github.com/glatterf42/music-panphasia.git
synced 2024-09-19 16:13:46 +02:00
1691 lines
51 KiB
C++
1691 lines
51 KiB
C++
/*
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output_gadget2.cc - This file is part of MUSIC -
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a code to generate multi-scale initial conditions
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for cosmological simulations
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Copyright (C) 2010 Oliver Hahn
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*/
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#include <fstream>
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#include "log.hh"
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#include "output.hh"
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#include "mg_interp.hh"
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#include "mesh.hh"
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template< typename T_store=float >
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class gadget2_2comp_output_plugin : public output_plugin
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{
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protected:
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std::ofstream ofs_;
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bool bmultimass_;
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typedef struct io_header
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{
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unsigned int npart[6];
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double mass[6];
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double time;
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double redshift;
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int flag_sfr;
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int flag_feedback;
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unsigned int npartTotal[6];
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int flag_cooling;
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int num_files;
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double BoxSize;
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double Omega0;
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double OmegaLambda;
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double HubbleParam;
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int flag_stellarage;
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int flag_metals;
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unsigned int npartTotalHighWord[6];
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int flag_entropy_instead_u;
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int flag_doubleprecision;
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int flag_ic_info;
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char fill[52];
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}header;
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header header_;
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std::string fname;
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bool do_glass_;
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std::string fname_glass_baryon_, fname_glass_cdm_;
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enum iofields {
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id_dm_mass, id_dm_vel, id_dm_pos, id_gas_vel, id_gas_rho, id_gas_temp, id_gas_pos
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};
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size_t np_fine_gas_, np_fine_dm_, np_coarse_dm_;
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size_t block_buf_size_;
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unsigned long long npartmax_;
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unsigned nfiles_;
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//bool bbndparticles_;
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bool bmorethan2bnd_;
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bool kpcunits_;
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double YHe_;
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void distribute_particles( unsigned nfiles, size_t nfine_dm, size_t nfine_gas, size_t ncoarse,
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std::vector<unsigned>& nfdm_pf, std::vector<unsigned>& nfgas_pf, std::vector<unsigned>& nc_pf )
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{
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nfdm_pf.assign( nfiles, 0 );
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nfgas_pf.assign( nfiles, 0 );
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nc_pf.assign( nfiles, 0 );
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size_t ntotal = nfine_dm + nfine_gas + ncoarse;
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size_t nnominal = (size_t)((double)ntotal/(double)nfiles);
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size_t nf_dm_assigned = 0, nf_gas_assigned = 0, nc_assigned = 0;
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for( unsigned i=0; i<nfiles; ++i )
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{
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if( nfine_gas > 0 )
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{
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nfdm_pf[i] = std::min( nnominal/2ul, nfine_dm-nf_dm_assigned );
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nf_dm_assigned += nfdm_pf[i];
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nfgas_pf[i] = std::min( nnominal/2ul, nfine_gas-nf_gas_assigned );
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nf_gas_assigned += nfgas_pf[i];
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}else{
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nfdm_pf[i] = std::min( nnominal, nfine_dm-nf_dm_assigned );
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nf_dm_assigned += nfdm_pf[i];
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}
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// once all fine particles are assigned, start with the coarse
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if( nf_dm_assigned+nf_gas_assigned == nfine_dm+nfine_gas )
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{
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nc_pf[i] = std::min( nnominal-(size_t)(nfdm_pf[i]+nfgas_pf[i]), ncoarse-nc_assigned );
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nc_assigned += nc_pf[i];
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}
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}
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// make sure all particles are assigned
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nfdm_pf[ nfiles-1 ] += nfine_dm-nf_dm_assigned;
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nfgas_pf[ nfiles-1 ] += nfine_gas-nf_gas_assigned;
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nc_pf[ nfiles-1 ] += ncoarse-nc_assigned;
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}
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std::ifstream& open_and_check( std::string ffname, size_t npart )
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{
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std::ifstream ifs( ffname.c_str(), std::ios::binary );
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unsigned long long blk, expected;
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ifs.read( (char*)&blk, sizeof(unsigned long long) );
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expected = ((unsigned long long) npart*(unsigned long long)sizeof(T_store));
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if( blk != expected )
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{
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LOGERR("Internal consistency error in gadget2 output plug-in, open_and_check");
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LOGERR("Expected %d particles (%lld bytes) in temp file %s but found %lld",npart, expected ,ffname.c_str(), blk);
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//throw std::runtime_error("Internal consistency error in gadget2 output plug-in");
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}
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return ifs;
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}
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class pistream : public std::ifstream
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{
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public:
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pistream (std::string fname, size_t npart, size_t offset=0 )
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: std::ifstream( fname.c_str(), std::ios::binary )
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{
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size_t blk;
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if( !this->good() )
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{
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LOGERR("Could not open buffer file in gadget2 output plug-in");
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throw std::runtime_error("Could not open buffer file in gadget2 output plug-in");
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}
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this->read( (char*)&blk, sizeof(size_t) );
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if( blk != npart*sizeof(T_store) )
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{
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LOGERR("Internal consistency error in gadget2 output plug-in");
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LOGERR("Expected %ld bytes in temp file but found %ld",npart*sizeof(T_store),blk);
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throw std::runtime_error("Internal consistency error in gadget2 output plug-in");
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}
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this->seekg( offset+sizeof(size_t), std::ios::beg );
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}
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pistream ()
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{
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}
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void open(std::string fname, size_t npart, size_t offset=0 )
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{
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std::ifstream::open( fname.c_str(), std::ios::binary );
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size_t blk;
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if( !this->good() )
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{
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LOGERR("Could not open buffer file \'%s\' in gadget2 output plug-in",fname.c_str());
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throw std::runtime_error("Could not open buffer file in gadget2 output plug-in");
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}
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this->read( (char*)&blk, sizeof(size_t) );
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if( blk != npart*sizeof(T_store) )
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{
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LOGERR("Internal consistency error in gadget2 output plug-in");
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LOGERR("Expected %ld bytes in temp file but found %ld",npart*sizeof(T_store),blk);
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throw std::runtime_error("Internal consistency error in gadget2 output plug-in");
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}
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this->seekg( offset+sizeof(size_t), std::ios::beg );
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}
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};
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class postream : public std::fstream
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{
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public:
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postream (std::string fname, size_t npart, size_t offset=0 )
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: std::fstream( fname.c_str(), std::ios::binary|std::ios::in|std::ios::out )
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{
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size_t blk;
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if( !this->good() )
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{
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LOGERR("Could not open buffer file in gadget2 output plug-in");
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throw std::runtime_error("Could not open buffer file in gadget2 output plug-in");
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}
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this->read( (char*)&blk, sizeof(size_t) );
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if( blk != npart*sizeof(T_store) )
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{
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LOGERR("Internal consistency error in gadget2 output plug-in");
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LOGERR("Expected %ld bytes in temp file but found %ld",npart*sizeof(T_store),blk);
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throw std::runtime_error("Internal consistency error in gadget2 output plug-in");
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}
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this->seekg( offset, std::ios::cur );
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this->seekp( offset+sizeof(size_t), std::ios::beg );
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}
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postream ()
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{
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}
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void open(std::string fname, size_t npart, size_t offset=0 )
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{
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if( is_open() )
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this->close();
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std::fstream::open( fname.c_str(), std::ios::binary|std::ios::in|std::ios::out );
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size_t blk;
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if( !this->good() )
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{
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LOGERR("Could not open buffer file \'%s\' in gadget2 output plug-in",fname.c_str());
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throw std::runtime_error("Could not open buffer file in gadget2 output plug-in");
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}
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this->read( (char*)&blk, sizeof(size_t) );
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if( blk != npart*sizeof(T_store) )
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{
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LOGERR("Internal consistency error in gadget2 output plug-in");
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LOGERR("Expected %ld bytes in temp file but found %ld",npart*sizeof(T_store),blk);
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throw std::runtime_error("Internal consistency error in gadget2 output plug-in");
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}
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this->seekg( offset, std::ios::cur );
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this->seekp( offset+sizeof(size_t), std::ios::beg );
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}
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};
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void assemble_gadget_file( void )
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{
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//............................................................................
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//... copy from the temporary files, interleave the data and save ............
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char fnx[256],fny[256],fnz[256],fnvx[256],fnvy[256],fnvz[256],fnm[256];
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char fnbx[256], fnby[256], fnbz[256], fnbvx[256], fnbvy[256], fnbvz[256];
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sprintf( fnx, "___ic_temp_%05d.bin", 100*id_dm_pos+0 );
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sprintf( fny, "___ic_temp_%05d.bin", 100*id_dm_pos+1 );
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sprintf( fnz, "___ic_temp_%05d.bin", 100*id_dm_pos+2 );
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sprintf( fnvx, "___ic_temp_%05d.bin", 100*id_dm_vel+0 );
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sprintf( fnvy, "___ic_temp_%05d.bin", 100*id_dm_vel+1 );
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sprintf( fnvz, "___ic_temp_%05d.bin", 100*id_dm_vel+2 );
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sprintf( fnm, "___ic_temp_%05d.bin", 100*id_dm_mass );
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sprintf( fnbx, "___ic_temp_%05d.bin", 100*id_gas_pos+0 );
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sprintf( fnby, "___ic_temp_%05d.bin", 100*id_gas_pos+1 );
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sprintf( fnbz, "___ic_temp_%05d.bin", 100*id_gas_pos+2 );
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sprintf( fnbvx, "___ic_temp_%05d.bin", 100*id_gas_vel+0 );
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sprintf( fnbvy, "___ic_temp_%05d.bin", 100*id_gas_vel+1 );
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sprintf( fnbvz, "___ic_temp_%05d.bin", 100*id_gas_vel+2 );
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pistream iffs1, iffs2, iffs3;
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/*const size_t
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nptot = header_.npart[1]+header_.npart[2]+header_.npart[5],
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npgas = header_.npart[2],
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npcdm = nptot-npgas;*/
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const size_t
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nptot = np_fine_gas_+np_fine_dm_+np_coarse_dm_,
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//npgas = np_fine_gas_,
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npcdm = np_fine_dm_+np_coarse_dm_;
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size_t
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wrote_coarse = 0,
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wrote_gas = 0,
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wrote_dm = 0;
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size_t
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npleft = nptot,
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n2read = std::min(block_buf_size_,npleft);
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if( header_.npart[5] > 0 )
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LOGERR("Multi-resolution setup not supported for 2comp hack");
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std::cout << " - Writing " << nptot << " particles to Gadget file...\n"
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<< " type 1 : " << header_.npart[1] << "\n"
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<< " type 2 : " << header_.npart[2] << "\n"
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<< " type 5 : " << header_.npart[5] << "\n";
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bool bbaryons = np_fine_gas_ > 0;
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std::vector<T_store> adata3;
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adata3.reserve( 3*block_buf_size_ );
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T_store *tmp1, *tmp2, *tmp3;
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tmp1 = new T_store[block_buf_size_];
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tmp2 = new T_store[block_buf_size_];
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tmp3 = new T_store[block_buf_size_];
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std::vector<unsigned> nfdm_per_file, nfgas_per_file, nc_per_file;
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distribute_particles( nfiles_, np_fine_dm_, np_fine_gas_, np_coarse_dm_,
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nfdm_per_file, nfgas_per_file, nc_per_file );
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if( nfiles_ > 1 )
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{
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std::cout << " - Gadget2 : distributing particles to " << nfiles_ << " files\n"
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<< " " << std::setw(12) << "type 1" << "," << std::setw(12) << "type 2" << "," << std::setw(12) << "type 5" << std::endl;
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for( unsigned i=0; i<nfiles_; ++i )
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{
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std::cout << " file " << std::setw(3) << i << " : "
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<< std::setw(12) << nfdm_per_file[i] << ","
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<< std::setw(12) << nfgas_per_file[i] << ","
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<< std::setw(12) << nc_per_file[i] << std::endl;
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}
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}
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size_t curr_block_buf_size = block_buf_size_;
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size_t idcount = 0;
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bool bneed_long_ids = false;
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if( nptot >= 1ul<<32 )
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{
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bneed_long_ids = true;
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LOGWARN("Need long particle IDs, make sure to enable in Gadget!");
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}
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for( unsigned ifile=0; ifile<nfiles_; ++ifile )
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{
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if( nfiles_ > 1 )
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{
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char ffname[256];
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sprintf(ffname,"%s.%d",fname_.c_str(), ifile);
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ofs_.open(ffname, std::ios::binary|std::ios::trunc );
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}else{
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ofs_.open(fname_.c_str(), std::ios::binary|std::ios::trunc );
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}
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size_t np_this_file = nfgas_per_file[ifile] + nfdm_per_file[ifile] + nc_per_file[ifile];
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int blksize = sizeof(header);
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//... write the header .......................................................
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header this_header( header_ );
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this_header.npart[1] = nfdm_per_file[ifile];
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this_header.npart[2] = nfgas_per_file[ifile];
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this_header.npart[5] = nc_per_file[ifile];
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ofs_.write( (char *)&blksize, sizeof(int) );
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ofs_.write( (char *)&this_header, sizeof(header) );
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ofs_.write( (char *)&blksize, sizeof(int) );
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//... particle positions ..................................................
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blksize = 3ul*np_this_file*sizeof(T_store);
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ofs_.write( (char *)&blksize, sizeof(int) );
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npleft = nfdm_per_file[ifile];//+nc_per_file[ifile];
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n2read = std::min(curr_block_buf_size,npleft);
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iffs1.open( fnx, npcdm, wrote_dm*sizeof(T_store) );
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iffs2.open( fny, npcdm, wrote_dm*sizeof(T_store) );
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iffs3.open( fnz, npcdm, wrote_dm*sizeof(T_store) );
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while( n2read > 0ul )
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{
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iffs1.read( reinterpret_cast<char*>(&tmp1[0]), n2read*sizeof(T_store) );
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iffs2.read( reinterpret_cast<char*>(&tmp2[0]), n2read*sizeof(T_store) );
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iffs3.read( reinterpret_cast<char*>(&tmp3[0]), n2read*sizeof(T_store) );
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for( size_t i=0; i<n2read; ++i )
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{
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adata3.push_back( fmod(tmp1[i]+header_.BoxSize,header_.BoxSize) );
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adata3.push_back( fmod(tmp2[i]+header_.BoxSize,header_.BoxSize) );
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adata3.push_back( fmod(tmp3[i]+header_.BoxSize,header_.BoxSize) );
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}
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ofs_.write( reinterpret_cast<char*>(&adata3[0]), 3*n2read*sizeof(T_store) );
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adata3.clear();
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npleft -= n2read;
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n2read = std::min( curr_block_buf_size,npleft );
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}
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iffs1.close();
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iffs2.close();
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iffs3.close();
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if( bbaryons && nfgas_per_file[ifile] > 0ul )
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{
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iffs1.open( fnbx, npcdm, wrote_gas*sizeof(T_store) );
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iffs2.open( fnby, npcdm, wrote_gas*sizeof(T_store) );
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iffs3.open( fnbz, npcdm, wrote_gas*sizeof(T_store) );
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npleft = nfgas_per_file[ifile];
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n2read = std::min(curr_block_buf_size,npleft);
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while( n2read > 0ul )
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{
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iffs1.read( reinterpret_cast<char*>(&tmp1[0]), n2read*sizeof(T_store) );
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iffs2.read( reinterpret_cast<char*>(&tmp2[0]), n2read*sizeof(T_store) );
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iffs3.read( reinterpret_cast<char*>(&tmp3[0]), n2read*sizeof(T_store) );
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for( size_t i=0; i<n2read; ++i )
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{
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adata3.push_back( fmod(tmp1[i]+header_.BoxSize,header_.BoxSize) );
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adata3.push_back( fmod(tmp2[i]+header_.BoxSize,header_.BoxSize) );
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adata3.push_back( fmod(tmp3[i]+header_.BoxSize,header_.BoxSize) );
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}
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ofs_.write( reinterpret_cast<char*>(&adata3[0]), 3*n2read*sizeof(T_store) );
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adata3.clear();
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npleft -= n2read;
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n2read = std::min( curr_block_buf_size,npleft );
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}
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iffs1.close();
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iffs2.close();
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iffs3.close();
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}
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ofs_.write( reinterpret_cast<char*>(&blksize), sizeof(int) );
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//... particle velocities ..................................................
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blksize = 3ul*np_this_file*sizeof(T_store);
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ofs_.write( reinterpret_cast<char*>(&blksize), sizeof(int) );
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iffs1.open( fnvx, npcdm, wrote_dm*sizeof(T_store) );
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iffs2.open( fnvy, npcdm, wrote_dm*sizeof(T_store) );
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iffs3.open( fnvz, npcdm, wrote_dm*sizeof(T_store) );
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npleft = nfdm_per_file[ifile];//+nc_per_file[ifile];
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n2read = std::min(curr_block_buf_size,npleft);
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while( n2read > 0ul )
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{
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iffs1.read( reinterpret_cast<char*>(&tmp1[0]), n2read*sizeof(T_store) );
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iffs2.read( reinterpret_cast<char*>(&tmp2[0]), n2read*sizeof(T_store) );
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iffs3.read( reinterpret_cast<char*>(&tmp3[0]), n2read*sizeof(T_store) );
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|
|
for( size_t i=0; i<n2read; ++i )
|
|
{
|
|
adata3.push_back( tmp1[i] );
|
|
adata3.push_back( tmp2[i] );
|
|
adata3.push_back( tmp3[i] );
|
|
}
|
|
|
|
ofs_.write( reinterpret_cast<char*>(&adata3[0]), 3*n2read*sizeof(T_store) );
|
|
|
|
adata3.clear();
|
|
npleft -= n2read;
|
|
n2read = std::min( curr_block_buf_size,npleft );
|
|
}
|
|
|
|
iffs1.close();
|
|
iffs2.close();
|
|
iffs3.close();
|
|
|
|
if( bbaryons && nfgas_per_file[ifile] > 0ul )
|
|
{
|
|
iffs1.open( fnbvx, npcdm, wrote_gas*sizeof(T_store) );
|
|
iffs2.open( fnbvy, npcdm, wrote_gas*sizeof(T_store) );
|
|
iffs3.open( fnbvz, npcdm, wrote_gas*sizeof(T_store) );
|
|
|
|
npleft = nfgas_per_file[ifile];
|
|
n2read = std::min(curr_block_buf_size,npleft);
|
|
while( n2read > 0ul )
|
|
{
|
|
iffs1.read( reinterpret_cast<char*>(&tmp1[0]), n2read*sizeof(T_store) );
|
|
iffs2.read( reinterpret_cast<char*>(&tmp2[0]), n2read*sizeof(T_store) );
|
|
iffs3.read( reinterpret_cast<char*>(&tmp3[0]), n2read*sizeof(T_store) );
|
|
|
|
for( size_t i=0; i<n2read; ++i )
|
|
{
|
|
adata3.push_back( tmp1[i] );
|
|
adata3.push_back( tmp2[i] );
|
|
adata3.push_back( tmp3[i] );
|
|
}
|
|
|
|
ofs_.write( reinterpret_cast<char*>(&adata3[0]), 3*n2read*sizeof(T_store) );
|
|
|
|
adata3.clear();
|
|
npleft -= n2read;
|
|
n2read = std::min( curr_block_buf_size,npleft );
|
|
}
|
|
|
|
iffs1.close();
|
|
iffs2.close();
|
|
iffs3.close();
|
|
|
|
|
|
}
|
|
|
|
ofs_.write( reinterpret_cast<char*>(&blksize), sizeof(int) );
|
|
|
|
//... particle IDs ..........................................................
|
|
std::vector<unsigned> short_ids;
|
|
std::vector<size_t> long_ids;
|
|
|
|
if( bneed_long_ids )
|
|
long_ids.assign(curr_block_buf_size,0);
|
|
else
|
|
short_ids.assign(curr_block_buf_size,0);
|
|
|
|
npleft = np_this_file;
|
|
n2read = std::min(curr_block_buf_size,npleft);
|
|
blksize = sizeof(unsigned)*np_this_file;
|
|
|
|
if( bneed_long_ids )
|
|
blksize = sizeof(size_t)*np_this_file;
|
|
|
|
|
|
//... generate contiguous IDs and store in file ..
|
|
ofs_.write( reinterpret_cast<char*>(&blksize), sizeof(int) );
|
|
while( n2read > 0ul )
|
|
{
|
|
if( bneed_long_ids )
|
|
{
|
|
for( size_t i=0; i<n2read; ++i )
|
|
long_ids[i] = idcount++;
|
|
ofs_.write( reinterpret_cast<char*>(&long_ids[0]), n2read*sizeof(size_t) );
|
|
}else{
|
|
for( size_t i=0; i<n2read; ++i )
|
|
short_ids[i] = idcount++;
|
|
ofs_.write( reinterpret_cast<char*>(&short_ids[0]), n2read*sizeof(unsigned) );
|
|
}
|
|
npleft -= n2read;
|
|
n2read = std::min( curr_block_buf_size,npleft );
|
|
}
|
|
ofs_.write( reinterpret_cast<char*>(&blksize), sizeof(int) );
|
|
|
|
std::vector<unsigned>().swap( short_ids );
|
|
std::vector<size_t>().swap( long_ids );
|
|
|
|
|
|
//... particle masses .......................................................
|
|
// multi-mass not supported here
|
|
|
|
|
|
ofs_.flush();
|
|
ofs_.close();
|
|
|
|
wrote_gas += nfgas_per_file[ifile];
|
|
wrote_dm += nfdm_per_file[ifile] + nc_per_file[ifile];
|
|
wrote_coarse += nc_per_file[ifile];
|
|
|
|
|
|
}
|
|
|
|
delete[] tmp1;
|
|
delete[] tmp2;
|
|
delete[] tmp3;
|
|
|
|
remove( fnbx );
|
|
remove( fnby );
|
|
remove( fnbz );
|
|
remove( fnx );
|
|
remove( fny );
|
|
remove( fnz );
|
|
remove( fnbvx );
|
|
remove( fnbvy );
|
|
remove( fnbvz );
|
|
remove( fnvx );
|
|
remove( fnvy );
|
|
remove( fnvz );
|
|
remove( fnm );
|
|
}
|
|
|
|
void get_cic_displacement( size_t icoord, const float* ppos, size_t np, float l, const grid_hierarchy& gh, T_store* valp )
|
|
{
|
|
size_t N = gh.size(gh.levelmax(), 0);
|
|
|
|
float facconv = 1.f / l * (float)N/(float)(1ul<<levelmax_);
|
|
float suboffset = (float)(gh.offset_abs(levelmax_, icoord))/((float)(1ul<<levelmax_));
|
|
|
|
for( size_t ip=0; ip < np; ++ip )
|
|
{
|
|
float u,v,w;
|
|
|
|
u = ppos[3*ip+0] / l * (float)N;
|
|
v = ppos[3*ip+1] / l * (float)N;
|
|
w = ppos[3*ip+2] / l * (float)N;
|
|
|
|
int i,j,k;
|
|
|
|
i = (((int)u)+N)%N;
|
|
j = (((int)v)+N)%N;
|
|
k = (((int)w)+N)%N;
|
|
|
|
u -= (float)i;
|
|
v -= (float)j;
|
|
w -= (float)k;
|
|
|
|
int i1,j1,k1;
|
|
i1 = (i+1+N)%N;
|
|
j1 = (j+1+N)%N;
|
|
k1 = (k+1+N)%N;
|
|
|
|
double f1,f2,f3,f4,f5,f6,f7,f8;
|
|
|
|
f1 = (1.f - u) * (1.f - v) * (1.f - w);
|
|
f2 = (1.f - u) * (1.f - v) * (w);
|
|
f3 = (1.f - u) * (v) * (1.f - w);
|
|
f4 = (1.f - u) * (v) * (w);
|
|
f5 = (u) * (1.f - v) * (1.f - w);
|
|
f6 = (u) * (1.f - v) * (w);
|
|
f7 = (u) * (v) * (1.f - w);
|
|
f8 = (u) * (v) * (w);
|
|
|
|
float disp = 0.0f;
|
|
|
|
//disp += add_term;
|
|
disp += suboffset;
|
|
disp += ppos[3*ip+icoord] * facconv;
|
|
|
|
disp += f1*(*gh.get_grid(levelmax_))(i,j,k);
|
|
disp += f2*(*gh.get_grid(levelmax_))(i,j,k1);
|
|
disp += f3*(*gh.get_grid(levelmax_))(i,j1,k);
|
|
disp += f4*(*gh.get_grid(levelmax_))(i,j1,k1);
|
|
disp += f5*(*gh.get_grid(levelmax_))(i1,j,k);
|
|
disp += f6*(*gh.get_grid(levelmax_))(i1,j,k1);
|
|
disp += f7*(*gh.get_grid(levelmax_))(i1,j1,k);
|
|
disp += f8*(*gh.get_grid(levelmax_))(i1,j1,k1);
|
|
|
|
|
|
|
|
disp = fmodf( (1.0f+disp)*header_.BoxSize, header_.BoxSize );
|
|
|
|
valp[ip] = disp;
|
|
|
|
}
|
|
}
|
|
|
|
void get_cic_velocity( const float* ppos, size_t np, float l, const grid_hierarchy& gh, T_store* valp )
|
|
{
|
|
float isqrta = 1.0f/sqrt(header_.time);
|
|
float vfac = isqrta*header_.BoxSize;
|
|
|
|
if( kpcunits_ )
|
|
vfac /= 1000.0;
|
|
|
|
size_t N = gh.size(gh.levelmax(), 0);
|
|
//float facconv = 1.f / l * (float)N/(float)(1ul<<levelmax_);
|
|
|
|
for( size_t ip=0; ip < np; ++ip )
|
|
{
|
|
float u,v,w;
|
|
|
|
u = ppos[3*ip+0] / l * (float)N;
|
|
v = ppos[3*ip+1] / l * (float)N;
|
|
w = ppos[3*ip+2] / l * (float)N;
|
|
|
|
int i,j,k;
|
|
|
|
i = (((int)u)+N)%N;
|
|
j = (((int)v)+N)%N;
|
|
k = (((int)w)+N)%N;
|
|
|
|
u -= (float)i;
|
|
v -= (float)j;
|
|
w -= (float)k;
|
|
|
|
int i1,j1,k1;
|
|
i1 = (i+1+N)%N;
|
|
j1 = (j+1+N)%N;
|
|
k1 = (k+1+N)%N;
|
|
|
|
double f1,f2,f3,f4,f5,f6,f7,f8;
|
|
|
|
f1 = (1.f - u) * (1.f - v) * (1.f - w);
|
|
f2 = (1.f - u) * (1.f - v) * (w);
|
|
f3 = (1.f - u) * (v) * (1.f - w);
|
|
f4 = (1.f - u) * (v) * (w);
|
|
f5 = (u) * (1.f - v) * (1.f - w);
|
|
f6 = (u) * (1.f - v) * (w);
|
|
f7 = (u) * (v) * (1.f - w);
|
|
f8 = (u) * (v) * (w);
|
|
|
|
float vel = 0.0f;
|
|
|
|
vel += f1*(*gh.get_grid(levelmax_))(i,j,k);
|
|
vel += f2*(*gh.get_grid(levelmax_))(i,j,k1);
|
|
vel += f3*(*gh.get_grid(levelmax_))(i,j1,k);
|
|
vel += f4*(*gh.get_grid(levelmax_))(i,j1,k1);
|
|
vel += f5*(*gh.get_grid(levelmax_))(i1,j,k);
|
|
vel += f6*(*gh.get_grid(levelmax_))(i1,j,k1);
|
|
vel += f7*(*gh.get_grid(levelmax_))(i1,j1,k);
|
|
vel += f8*(*gh.get_grid(levelmax_))(i1,j1,k1);
|
|
|
|
vel *= vfac;
|
|
|
|
valp[ip] = vel;
|
|
|
|
}
|
|
}
|
|
|
|
|
|
public:
|
|
|
|
bool do_baryons_;
|
|
double omegab_, omegac_, omegam_;
|
|
double gamma_;
|
|
|
|
gadget2_2comp_output_plugin( config_file& cf )
|
|
: output_plugin( cf )//, ofs_( fname_.c_str(), std::ios::binary|std::ios::trunc )
|
|
{
|
|
block_buf_size_ = cf_.getValueSafe<unsigned>("output","gadget_blksize",2*1048576);
|
|
|
|
//... ensure that everyone knows we want to do SPH
|
|
cf.insertValue("setup","do_SPH","yes");
|
|
|
|
//bbndparticles_ = !cf_.getValueSafe<bool>("output","gadget_nobndpart",false);
|
|
npartmax_ = 1<<30;
|
|
|
|
nfiles_ = cf.getValueSafe<unsigned>("output","gadget_num_files",1);
|
|
|
|
|
|
|
|
/****************************************/
|
|
if (nfiles_ > 1 )
|
|
{
|
|
for( unsigned ifile=0; ifile<nfiles_; ++ifile )
|
|
{
|
|
char ffname[256];
|
|
sprintf(ffname,"%s.%d",fname_.c_str(), ifile);
|
|
ofs_.open(ffname, std::ios::binary|std::ios::trunc );
|
|
if(!ofs_.good())
|
|
{
|
|
LOGERR("gadget-2 output plug-in could not open output file \'%s\' for writing!",ffname);
|
|
throw std::runtime_error(std::string("gadget-2 output plug-in could not open output file \'")+std::string(ffname)+"\' for writing!\n");
|
|
}
|
|
ofs_.close();
|
|
}
|
|
}else{
|
|
ofs_.open(fname_.c_str(), std::ios::binary|std::ios::trunc );
|
|
if(!ofs_.good())
|
|
{
|
|
LOGERR("gadget-2 output plug-in could not open output file \'%s\' for writing!",fname_.c_str());
|
|
throw std::runtime_error(std::string("gadget-2 output plug-in could not open output file \'")+fname_+"\' for writing!\n");
|
|
}
|
|
ofs_.close();
|
|
}
|
|
|
|
bmorethan2bnd_ = false;
|
|
if( levelmax_ > levelmin_ +1)
|
|
bmorethan2bnd_ = true;
|
|
|
|
bmultimass_ = true;
|
|
if( levelmax_ == levelmin_ )
|
|
bmultimass_ = false;
|
|
|
|
|
|
for( int i=0; i<6; ++i )
|
|
{
|
|
header_.npart[i] = 0;
|
|
header_.npartTotal[i] = 0;
|
|
header_.npartTotalHighWord[i] = 0;
|
|
header_.mass[i] = 0.0;
|
|
}
|
|
|
|
YHe_ = cf.getValueSafe<double>("cosmology","YHe",0.248);
|
|
gamma_ = cf.getValueSafe<double>("cosmology","gamma",5.0/3.0);
|
|
|
|
do_baryons_ = cf.getValueSafe<bool>("setup","baryons",false);
|
|
omegab_ = cf.getValueSafe<double>("cosmology","Omega_b",0.045);
|
|
|
|
//... write displacements in kpc/h rather than Mpc/h?
|
|
kpcunits_ = cf.getValueSafe<bool>("output","gadget_usekpc",false);
|
|
|
|
do_glass_ = cf.getValueSafe<bool>("output","glass", false);
|
|
if( do_glass_ )
|
|
{
|
|
LOGINFO("Will use provided glass rather than Cartesian mesh for particle placement.");
|
|
|
|
fname_glass_cdm_ = cf.getValue<std::string>("output","glass_file_cdm");
|
|
|
|
if( do_baryons_ )
|
|
fname_glass_baryon_ = fname_glass_cdm_;//cf.getValue<std::string>("output","glass_file_baryon");
|
|
}
|
|
|
|
|
|
//... set time ......................................................
|
|
header_.redshift = cf.getValue<double>("setup","zstart");
|
|
header_.time = 1.0/(1.0+header_.redshift);
|
|
|
|
//... SF flags
|
|
header_.flag_sfr = 0;
|
|
header_.flag_feedback = 0;
|
|
header_.flag_cooling = 0;
|
|
|
|
//...
|
|
header_.num_files = nfiles_;
|
|
header_.BoxSize = cf.getValue<double>("setup","boxlength");
|
|
header_.Omega0 = cf.getValue<double>("cosmology","Omega_m");
|
|
omegam_ = header_.Omega0;
|
|
omegac_ = omegam_ - omegab_;
|
|
|
|
header_.OmegaLambda = cf.getValue<double>("cosmology","Omega_L");
|
|
header_.HubbleParam = cf.getValue<double>("cosmology","H0");
|
|
|
|
header_.flag_stellarage = 0;
|
|
header_.flag_metals = 0;
|
|
|
|
|
|
header_.flag_entropy_instead_u = 0;
|
|
#ifdef SINGLE_PRECISION
|
|
header_.flag_doubleprecision = 0;
|
|
#else
|
|
header_.flag_doubleprecision = 1;
|
|
#endif
|
|
std::cout << "header_.flag_doubleprecision " << header_.flag_doubleprecision << "\n";
|
|
header_.flag_ic_info = 0;
|
|
|
|
if( kpcunits_ )
|
|
header_.BoxSize *= 1000.0;
|
|
}
|
|
|
|
|
|
void write_dm_mass( const grid_hierarchy& gh )
|
|
{
|
|
double rhoc = 27.7519737; // in h^2 1e10 M_sol / Mpc^3
|
|
|
|
if( kpcunits_ )
|
|
rhoc *= 10.0; // in h^2 M_sol / kpc^3
|
|
|
|
if(! do_glass_ )
|
|
{
|
|
if( !do_baryons_ )
|
|
header_.mass[1] = header_.Omega0 * rhoc * pow(header_.BoxSize,3.)/pow(2,3*levelmax_);
|
|
else
|
|
header_.mass[1] = (header_.Omega0-omegab_) * rhoc * pow(header_.BoxSize,3.)/pow(2,3*levelmax_);
|
|
}
|
|
|
|
if( bmorethan2bnd_ )
|
|
{
|
|
unsigned long long npcoarse = gh.count_leaf_cells(gh.levelmin(), gh.levelmax()-1);
|
|
unsigned long long nwritten = 0;
|
|
|
|
std::vector<T_store> temp_dat;
|
|
temp_dat.reserve(block_buf_size_);
|
|
|
|
char temp_fname[256];
|
|
sprintf( temp_fname, "___ic_temp_%05d.bin", 100*id_dm_mass );
|
|
std::ofstream ofs_temp( temp_fname, std::ios::binary|std::ios::trunc );
|
|
|
|
unsigned long long blksize = sizeof(T_store)*npcoarse;
|
|
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
for( int ilevel=gh.levelmax()-1; ilevel>=(int)gh.levelmin(); --ilevel )
|
|
{
|
|
double pmass = 0.0;
|
|
|
|
if( !do_baryons_ )
|
|
pmass = header_.Omega0 * rhoc * pow(header_.BoxSize,3.)/pow(2,3*ilevel);
|
|
else
|
|
pmass = (header_.Omega0-omegab_) * rhoc * pow(header_.BoxSize,3.)/pow(2,3*ilevel);
|
|
|
|
for( unsigned i=0; i<gh.get_grid(ilevel)->size(0); ++i )
|
|
for( unsigned j=0; j<gh.get_grid(ilevel)->size(1); ++j )
|
|
for( unsigned k=0; k<gh.get_grid(ilevel)->size(2); ++k )
|
|
if( ! gh.is_refined(ilevel,i,j,k) )
|
|
{
|
|
if( temp_dat.size() < block_buf_size_ )
|
|
temp_dat.push_back( pmass );
|
|
else
|
|
{
|
|
ofs_temp.write( (char*)&temp_dat[0], sizeof(T_store)*block_buf_size_ );
|
|
nwritten += block_buf_size_;
|
|
temp_dat.clear();
|
|
temp_dat.push_back( pmass );
|
|
}
|
|
}
|
|
}
|
|
|
|
if( temp_dat.size() > 0 )
|
|
{
|
|
ofs_temp.write( (char*)&temp_dat[0], sizeof(T_store)*temp_dat.size() );
|
|
nwritten+=temp_dat.size();
|
|
}
|
|
|
|
if( nwritten != npcoarse )
|
|
throw std::runtime_error("Internal consistency error while writing temporary file for masses");
|
|
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
if( ofs_temp.bad() )
|
|
throw std::runtime_error("I/O error while writing temporary file for masses");
|
|
|
|
}
|
|
else if( gh.levelmax() != gh.levelmin() )
|
|
{
|
|
header_.mass[5] = header_.Omega0 * rhoc * pow(header_.BoxSize,3.)/pow(2,3*levelmin_);
|
|
}
|
|
}
|
|
|
|
|
|
void write_dm_position( int coord, const grid_hierarchy& gh )
|
|
{
|
|
//... count number of leaf cells ...//
|
|
unsigned long long npcoarse = 0, npfine = 0;
|
|
|
|
npfine = gh.count_leaf_cells(gh.levelmax(), gh.levelmax());
|
|
if( bmultimass_ )
|
|
npcoarse = gh.count_leaf_cells(gh.levelmin(), gh.levelmax()-1);
|
|
|
|
|
|
np_fine_dm_ = npfine;
|
|
np_fine_gas_ = do_baryons_? npfine : 0ul;
|
|
np_coarse_dm_ = npcoarse;
|
|
|
|
//... determine if we need to shift the coordinates back
|
|
double *shift = NULL;
|
|
|
|
if( cf_.getValueSafe<bool>("output","shift_back",false ) )
|
|
{
|
|
if( coord == 0 )
|
|
std::cout << " - gadget2 output plug-in will shift particle positions back...\n";
|
|
|
|
double h = 1.0/(1<<levelmin_);
|
|
shift = new double[3];
|
|
shift[0] = -(double)cf_.getValue<int>( "setup", "shift_x" )*h;
|
|
shift[1] = -(double)cf_.getValue<int>( "setup", "shift_y" )*h;
|
|
shift[2] = -(double)cf_.getValue<int>( "setup", "shift_z" )*h;
|
|
}
|
|
|
|
size_t npart = npfine+npcoarse;
|
|
size_t nwritten = 0;
|
|
size_t blksize;
|
|
|
|
//...
|
|
header_.npart[1] = npfine;
|
|
header_.npart[5] = npcoarse;
|
|
header_.npartTotal[1] = (unsigned)npfine;
|
|
header_.npartTotal[5] = (unsigned)npcoarse;
|
|
header_.npartTotalHighWord[1] = (unsigned)(npfine>>32);
|
|
header_.npartTotalHighWord[5] = (unsigned)(npfine>>32);
|
|
|
|
//header_.num_files = (int)ceil((double)npart/(double)npartmax_);
|
|
|
|
//... collect displacements and convert to absolute coordinates with correct
|
|
//... units
|
|
std::vector<T_store> temp_data;
|
|
temp_data.reserve( block_buf_size_ );
|
|
|
|
double xfac = header_.BoxSize;
|
|
|
|
char temp_fname[256];
|
|
sprintf( temp_fname, "___ic_temp_%05d.bin", 100*id_dm_pos+coord );
|
|
std::ofstream ofs_temp( temp_fname, std::ios::binary|std::ios::trunc );
|
|
|
|
//... if baryons are present, then stagger the two fields
|
|
if( do_baryons_ && !do_glass_ )
|
|
{
|
|
|
|
|
|
double h = 1. / (1<<gh.levelmax());
|
|
|
|
if( shift == NULL )
|
|
{
|
|
shift = new double[3];
|
|
shift[0] = 0.0;
|
|
shift[1] = 0.0;
|
|
shift[2] = 0.0;
|
|
|
|
}
|
|
shift[0] -= 0.5 * h * omegab_/omegam_;
|
|
shift[1] -= 0.5 * h * omegab_/omegam_;
|
|
shift[2] -= 0.5 * h * omegab_/omegam_;
|
|
}
|
|
|
|
if(! do_glass_ )
|
|
{
|
|
|
|
blksize = sizeof(T_store)*npart;
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
for( int ilevel=gh.levelmax(); ilevel>=(int)gh.levelmin(); --ilevel )
|
|
for( unsigned i=0; i<gh.get_grid(ilevel)->size(0); ++i )
|
|
for( unsigned j=0; j<gh.get_grid(ilevel)->size(1); ++j )
|
|
for( unsigned k=0; k<gh.get_grid(ilevel)->size(2); ++k )
|
|
if( ! gh.is_refined(ilevel,i,j,k) )
|
|
{
|
|
double xx[3];
|
|
gh.cell_pos(ilevel, i, j, k, xx);
|
|
if( shift != NULL )
|
|
xx[coord] += shift[coord];
|
|
|
|
xx[coord] = fmod( (xx[coord]+(*gh.get_grid(ilevel))(i,j,k))*xfac + header_.BoxSize, header_.BoxSize );
|
|
|
|
if( temp_data.size() < block_buf_size_ )
|
|
temp_data.push_back( xx[coord] );
|
|
else
|
|
{
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*block_buf_size_ );
|
|
nwritten += block_buf_size_;
|
|
temp_data.clear();
|
|
temp_data.push_back( xx[coord] );
|
|
}
|
|
}
|
|
}
|
|
else
|
|
{
|
|
|
|
std::ifstream ofg( fname_glass_cdm_.c_str(), std::ios::binary );
|
|
|
|
if( !ofg.good() )
|
|
LOGERR("could not open glass input file \'%s\'",fname_glass_cdm_.c_str());
|
|
|
|
io_header glasshead;
|
|
unsigned blksz;
|
|
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
assert( blksz == sizeof(io_header) );
|
|
|
|
ofg.read( reinterpret_cast<char*>(&glasshead), sizeof( io_header ) );
|
|
|
|
//size_t nreq = gh.size(gh.levelmax(), 0)*gh.size(gh.levelmax(), 1)*gh.size(gh.levelmax(), 2);
|
|
/*if( nreq != (size_t)glasshead.npart[1] )
|
|
{
|
|
LOGERR("glass file contains %d particles, but should contain %ld",glasshead.npart[1],nreq);
|
|
throw std::runtime_error("glass file does not contain the right amount of particles");
|
|
}*/
|
|
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
//assert( blksz == glasshead.npart[1]*sizeof(float)*3 );
|
|
|
|
|
|
float lglass = glasshead.BoxSize;
|
|
|
|
|
|
blksize = sizeof(T_store)*glasshead.npart[1];
|
|
//ofs_temp.write( (char *)&blksize, sizeof(int) );
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
header_.npart[1] = glasshead.npart[1];
|
|
header_.npartTotal[1] = glasshead.npartTotal[1];
|
|
header_.npartTotalHighWord[1] = 0;
|
|
|
|
double rhoc = 27.7519737;
|
|
if( kpcunits_ )
|
|
rhoc *= 10.0; // in h^2 M_sol / kpc^3
|
|
|
|
if( do_baryons_ )
|
|
header_.mass[1] = omegac_ * rhoc * pow(header_.BoxSize,3.)/(glasshead.npart[1]);
|
|
else
|
|
header_.mass[1] = omegam_ * rhoc * pow(header_.BoxSize,3.)/(glasshead.npart[1]);
|
|
|
|
// read glass, do interpolation and write
|
|
size_t npartdone=0;
|
|
size_t npinter = glasshead.npart[1];
|
|
|
|
blksize = sizeof(T_store)*npinter;
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
float *pos_tmp = new float[3*block_buf_size_];
|
|
temp_data.assign( block_buf_size_, 0.0 );
|
|
|
|
while( npartdone < npinter )
|
|
{
|
|
size_t npart2read = std::min(npinter-npartdone,block_buf_size_);
|
|
|
|
ofg.read( reinterpret_cast<char*>(&pos_tmp[0]), npart2read*sizeof(float)*3 );
|
|
get_cic_displacement( coord, pos_tmp, npart2read, lglass, gh, &temp_data[0] );
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*npart2read );
|
|
|
|
// std::cout << "npart2read " << npart2read << "\n";
|
|
// std::cout << "pos temp " << temp_data[0] << " " << temp_data[1] << " " << temp_data[2] << "\n";
|
|
// std::cout << "pos temp " << temp_data[npart2read-1] << " " << temp_data[npart2read-2] << " " << temp_data[npart2read-3] <<"\n";
|
|
|
|
npartdone += npart2read;
|
|
nwritten += npart2read;
|
|
|
|
}
|
|
|
|
delete[] pos_tmp;
|
|
temp_data.clear();
|
|
|
|
// do all lower levels with standard cartesian grid
|
|
for( int ilevel=gh.levelmax()-1; ilevel>=(int)gh.levelmin(); --ilevel )
|
|
for( unsigned i=0; i<gh.get_grid(ilevel)->size(0); ++i )
|
|
for( unsigned j=0; j<gh.get_grid(ilevel)->size(1); ++j )
|
|
for( unsigned k=0; k<gh.get_grid(ilevel)->size(2); ++k )
|
|
if( ! gh.is_refined(ilevel,i,j,k) )
|
|
{
|
|
double xx[3];
|
|
gh.cell_pos(ilevel, i, j, k, xx);
|
|
if( shift != NULL )
|
|
xx[coord] += shift[coord];
|
|
|
|
xx[coord] = fmod( (xx[coord]+(*gh.get_grid(ilevel))(i,j,k))*xfac + header_.BoxSize, header_.BoxSize );
|
|
|
|
if( temp_data.size() < block_buf_size_ )
|
|
temp_data.push_back( xx[coord] );
|
|
else
|
|
{
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*block_buf_size_ );
|
|
nwritten += block_buf_size_;
|
|
temp_data.clear();
|
|
temp_data.push_back( xx[coord] );
|
|
}
|
|
}
|
|
|
|
}
|
|
|
|
|
|
|
|
if( temp_data.size() > 0 )
|
|
{
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*temp_data.size() );
|
|
nwritten += temp_data.size();
|
|
}
|
|
|
|
if( nwritten != npart )
|
|
throw std::runtime_error("Internal consistency error while writing temporary file for positions");
|
|
|
|
//... dump to temporary file
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
if( ofs_temp.bad() )
|
|
throw std::runtime_error("I/O error while writing temporary file for positions");
|
|
|
|
ofs_temp.close();
|
|
|
|
if( shift != NULL )
|
|
delete[] shift;
|
|
|
|
}
|
|
|
|
void write_dm_velocity( int coord, const grid_hierarchy& gh )
|
|
{
|
|
//... count number of leaf cells ...//
|
|
size_t npcoarse = 0, npfine = 0;
|
|
|
|
npfine = gh.count_leaf_cells(gh.levelmax(), gh.levelmax());
|
|
if( bmultimass_ )
|
|
npcoarse = gh.count_leaf_cells(gh.levelmin(), gh.levelmax()-1);
|
|
|
|
header_.npart[1] = npfine;
|
|
header_.npart[5] = npcoarse;
|
|
header_.npartTotal[1] = npfine;
|
|
header_.npartTotal[5] = npcoarse;
|
|
header_.npartTotalHighWord[1] = 0;
|
|
header_.npartTotalHighWord[5] = 0;
|
|
|
|
//... collect displacements and convert to absolute coordinates with correct
|
|
//... units
|
|
std::vector<T_store> temp_data;
|
|
temp_data.reserve( block_buf_size_ );
|
|
|
|
float isqrta = 1.0f/sqrt(header_.time);
|
|
float vfac = isqrta*header_.BoxSize;
|
|
|
|
if( kpcunits_ )
|
|
vfac /= 1000.0;
|
|
|
|
unsigned npart = npfine+npcoarse;
|
|
unsigned nwritten = 0;
|
|
unsigned long long blksize;
|
|
|
|
char temp_fname[256];
|
|
sprintf( temp_fname, "___ic_temp_%05d.bin", 100*id_dm_vel+coord );
|
|
std::ofstream ofs_temp( temp_fname, std::ios::binary|std::ios::trunc );
|
|
|
|
|
|
if( !do_glass_ )
|
|
{
|
|
|
|
blksize = sizeof(T_store)*npart;
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
for( int ilevel=levelmax_; ilevel>=(int)levelmin_; --ilevel )
|
|
for( unsigned i=0; i<gh.get_grid(ilevel)->size(0); ++i )
|
|
for( unsigned j=0; j<gh.get_grid(ilevel)->size(1); ++j )
|
|
for( unsigned k=0; k<gh.get_grid(ilevel)->size(2); ++k )
|
|
if( ! gh.is_refined(ilevel,i,j,k) )
|
|
{
|
|
if( temp_data.size() < block_buf_size_ )
|
|
temp_data.push_back( (*gh.get_grid(ilevel))(i,j,k) * vfac );
|
|
else
|
|
{
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*block_buf_size_ );
|
|
nwritten += block_buf_size_;
|
|
temp_data.clear();
|
|
temp_data.push_back( (*gh.get_grid(ilevel))(i,j,k) * vfac );
|
|
}
|
|
|
|
}
|
|
}
|
|
else
|
|
{
|
|
|
|
std::ifstream ofg( fname_glass_cdm_.c_str(), std::ios::binary );
|
|
|
|
if( !ofg.good() )
|
|
LOGERR("could not open glass input file \'%s\'",fname_glass_cdm_.c_str());
|
|
|
|
io_header glasshead;
|
|
unsigned blksz;
|
|
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
assert( blksz == sizeof(io_header) );
|
|
|
|
ofg.read( reinterpret_cast<char*>(&glasshead), sizeof( io_header ) );
|
|
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
//assert( blksz == glasshead.npart[1]*sizeof(float)*3 );
|
|
|
|
header_.npart[1] = glasshead.npart[1];
|
|
header_.npartTotal[1] = glasshead.npartTotal[1];
|
|
header_.npartTotalHighWord[1] = glasshead.npartTotalHighWord[1];
|
|
float lglass = glasshead.BoxSize;
|
|
|
|
// read glass, do interpolation and write
|
|
size_t npartdone=0;
|
|
size_t npinter = glasshead.npart[1];
|
|
|
|
blksize = sizeof(T_store)*npinter;
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
float *pos_tmp = new float[3*block_buf_size_];
|
|
temp_data.assign( block_buf_size_, 0.0 );
|
|
|
|
while( npartdone < npinter )
|
|
{
|
|
size_t npart2read = std::min(npinter-npartdone,block_buf_size_);
|
|
|
|
ofg.read( reinterpret_cast<char*>(&pos_tmp[0]), npart2read*sizeof(float)*3 );
|
|
get_cic_velocity( pos_tmp, npart2read, lglass, gh, &temp_data[0] );
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*npart2read );
|
|
|
|
npartdone += npart2read;
|
|
nwritten += npart2read;
|
|
|
|
}
|
|
|
|
delete[] pos_tmp;
|
|
temp_data.clear();
|
|
|
|
for( int ilevel=levelmax_-1; ilevel>=(int)levelmin_; --ilevel )
|
|
for( unsigned i=0; i<gh.get_grid(ilevel)->size(0); ++i )
|
|
for( unsigned j=0; j<gh.get_grid(ilevel)->size(1); ++j )
|
|
for( unsigned k=0; k<gh.get_grid(ilevel)->size(2); ++k )
|
|
if( ! gh.is_refined(ilevel,i,j,k) )
|
|
{
|
|
if( temp_data.size() < block_buf_size_ )
|
|
temp_data.push_back( (*gh.get_grid(ilevel))(i,j,k) * vfac );
|
|
else
|
|
{
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*block_buf_size_ );
|
|
nwritten += block_buf_size_;
|
|
temp_data.clear();
|
|
temp_data.push_back( (*gh.get_grid(ilevel))(i,j,k) * vfac );
|
|
}
|
|
|
|
}
|
|
|
|
|
|
}
|
|
|
|
if( temp_data.size() > 0 )
|
|
{
|
|
ofs_temp.write( (char*)&temp_data[0], temp_data.size()*sizeof(T_store) );
|
|
nwritten += temp_data.size();
|
|
}
|
|
|
|
if( nwritten != npart )
|
|
throw std::runtime_error("Internal consistency error while writing temporary file for velocities");
|
|
|
|
ofs_temp.write( (char *)&blksize, sizeof(int) );
|
|
|
|
if( ofs_temp.bad() )
|
|
throw std::runtime_error("I/O error while writing temporary file for velocities");
|
|
|
|
ofs_temp.close();
|
|
}
|
|
|
|
void write_dm_density( const grid_hierarchy& gh )
|
|
{
|
|
//... we don't care about DM density for Gadget
|
|
}
|
|
|
|
void write_dm_potential( const grid_hierarchy& gh )
|
|
{ }
|
|
|
|
void write_gas_potential( const grid_hierarchy& gh )
|
|
{ }
|
|
|
|
void write_gas_properties( const grid_hierarchy& gh )
|
|
{ }
|
|
|
|
|
|
//... write data for gas -- don't do this
|
|
void write_gas_velocity( int coord, const grid_hierarchy& gh )
|
|
{
|
|
//... count number of leaf cells ...//
|
|
size_t npcoarse = 0, npfine = 0;
|
|
|
|
npfine = gh.count_leaf_cells(gh.levelmax(), gh.levelmax());
|
|
|
|
header_.npart[2] = npfine;
|
|
header_.npartTotal[2] = (unsigned)npfine;
|
|
header_.npartTotalHighWord[2] = (unsigned)(npfine>>32);
|
|
|
|
//... collect displacements and convert to absolute coordinates with correct
|
|
//... units
|
|
std::vector<T_store> temp_data;
|
|
temp_data.reserve( block_buf_size_ );
|
|
|
|
float isqrta = 1.0f/sqrt(header_.time);
|
|
float vfac = isqrta*header_.BoxSize;
|
|
|
|
if( kpcunits_ )
|
|
vfac /= 1000.0;
|
|
|
|
unsigned npart = npfine+npcoarse;
|
|
unsigned nwritten = 0;
|
|
|
|
char temp_fname[256];
|
|
sprintf( temp_fname, "___ic_temp_%05d.bin", 100*id_gas_vel+coord );
|
|
std::ofstream ofs_temp( temp_fname, std::ios::binary|std::ios::trunc );
|
|
|
|
unsigned long long blksize;
|
|
|
|
|
|
if(!do_glass_)
|
|
{
|
|
blksize = sizeof(T_store)*npart;
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
|
|
const unsigned ilevel = gh.levelmax();
|
|
const unsigned
|
|
nx = gh.get_grid(ilevel)->size(0),
|
|
ny = gh.get_grid(ilevel)->size(1),
|
|
nz = gh.get_grid(ilevel)->size(2);
|
|
|
|
for( unsigned i=0; i<nx; ++i )
|
|
for( unsigned j=0; j<ny; ++j )
|
|
for( unsigned k=0; k<nz; ++k )
|
|
{
|
|
double v = (*gh.get_grid(ilevel))(i,j,k);
|
|
|
|
if( temp_data.size() < block_buf_size_ )
|
|
temp_data.push_back( v * vfac );
|
|
else
|
|
{
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*block_buf_size_ );
|
|
nwritten += block_buf_size_;
|
|
temp_data.clear();
|
|
temp_data.push_back( v * vfac );
|
|
}
|
|
|
|
}
|
|
}else{
|
|
|
|
std::ifstream ofg( fname_glass_baryon_.c_str(), std::ios::binary );
|
|
|
|
if( !ofg.good() )
|
|
LOGERR("could not open glass input file \'%s\'",fname_glass_cdm_.c_str());
|
|
|
|
io_header glasshead;
|
|
unsigned blksz;
|
|
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
assert( blksz == sizeof(io_header) );
|
|
|
|
ofg.read( reinterpret_cast<char*>(&glasshead), sizeof( io_header ) );
|
|
|
|
//size_t nreq = gh.size(gh.levelmax(), 0)*gh.size(gh.levelmax(), 1)*gh.size(gh.levelmax(), 2);
|
|
/*if( nreq != (size_t)glasshead.npart[1] )
|
|
{
|
|
LOGERR("glass file contains %d particles, but should contain %ld",glasshead.npart[1],nreq);
|
|
throw std::runtime_error("glass file does not contain the right amount of particles");
|
|
}*/
|
|
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
//assert( blksz == (glasshead.npart[1]+glasshead.npart[2])*sizeof(float)*3 );
|
|
//ofg.seekg( sizeof(float)*3*glasshead.npart[1], std::ios_base::cur );
|
|
|
|
// do the highest level with the glass
|
|
float lglass = glasshead.BoxSize;
|
|
|
|
header_.npart[2] = glasshead.npart[2];
|
|
header_.npartTotal[2] = glasshead.npartTotal[2];
|
|
header_.npartTotalHighWord[2] = glasshead.npartTotalHighWord[2];
|
|
|
|
// read glass, do interpolation and write
|
|
size_t npartdone=0;
|
|
size_t npinter = (size_t)glasshead.npart[2];
|
|
|
|
|
|
blksize = sizeof(T_store)*npinter;
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
float *pos_tmp = new float[3*block_buf_size_];
|
|
temp_data.assign( block_buf_size_, 0.0 );
|
|
|
|
while( npartdone < npinter )
|
|
{
|
|
size_t npart2read = std::min(npinter-npartdone,block_buf_size_);
|
|
|
|
ofg.read( reinterpret_cast<char*>(&pos_tmp[0]), npart2read*sizeof(float)*3 );
|
|
get_cic_velocity( pos_tmp, npart2read, lglass, gh, &temp_data[0] );
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*npart2read );
|
|
|
|
npartdone += npart2read;
|
|
nwritten += npart2read;
|
|
}
|
|
|
|
delete[] pos_tmp;
|
|
temp_data.clear();
|
|
|
|
for( int ilevel=levelmax_-1; ilevel>=(int)levelmin_; --ilevel )
|
|
for( unsigned i=0; i<gh.get_grid(ilevel)->size(0); ++i )
|
|
for( unsigned j=0; j<gh.get_grid(ilevel)->size(1); ++j )
|
|
for( unsigned k=0; k<gh.get_grid(ilevel)->size(2); ++k )
|
|
if( ! gh.is_refined(ilevel,i,j,k) )
|
|
{
|
|
if( temp_data.size() < block_buf_size_ )
|
|
temp_data.push_back( (*gh.get_grid(ilevel))(i,j,k) * vfac );
|
|
else
|
|
{
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*block_buf_size_ );
|
|
nwritten += block_buf_size_;
|
|
temp_data.clear();
|
|
temp_data.push_back( (*gh.get_grid(ilevel))(i,j,k) * vfac );
|
|
}
|
|
|
|
}
|
|
}
|
|
|
|
if( temp_data.size() > 0 )
|
|
{
|
|
ofs_temp.write( (char*)&temp_data[0], temp_data.size()*sizeof(T_store) );
|
|
nwritten += temp_data.size();
|
|
}
|
|
|
|
if( nwritten != npart )
|
|
throw std::runtime_error("Internal consistency error while writing temporary file for gas velocities");
|
|
|
|
ofs_temp.write( (char *)&blksize, sizeof(int) );
|
|
|
|
if( ofs_temp.bad() )
|
|
throw std::runtime_error("I/O error while writing temporary file for gas velocities");
|
|
|
|
ofs_temp.close();
|
|
}
|
|
|
|
|
|
//... write only for fine level
|
|
void write_gas_position( int coord, const grid_hierarchy& gh )
|
|
{
|
|
//... count number of leaf cells ...//
|
|
unsigned long long npfine = 0;
|
|
|
|
npfine = gh.count_leaf_cells(gh.levelmax(), gh.levelmax());
|
|
|
|
//... determine if we need to shift the coordinates back
|
|
double *shift = NULL;
|
|
|
|
if( cf_.getValueSafe<bool>("output","shift_back",false ) )
|
|
{
|
|
if( coord == 0 )
|
|
std::cout << " - gadget2 output plug-in will shift particle positions back...\n";
|
|
|
|
double h = 1.0/(1<<levelmin_);
|
|
shift = new double[3];
|
|
shift[0] = -(double)cf_.getValue<int>( "setup", "shift_x" )*h;
|
|
shift[1] = -(double)cf_.getValue<int>( "setup", "shift_y" )*h;
|
|
shift[2] = -(double)cf_.getValue<int>( "setup", "shift_z" )*h;
|
|
}
|
|
|
|
unsigned long long npart = npfine;
|
|
unsigned long long nwritten = 0;
|
|
|
|
//...
|
|
header_.npart[2] = npfine;
|
|
header_.npartTotal[2] = (unsigned)npfine;
|
|
header_.npartTotalHighWord[2] = (unsigned)(npfine>>32);
|
|
|
|
//header_.num_files = (int)ceil((double)npart/(double)npartmax_);
|
|
|
|
//... collect displacements and convert to absolute coordinates with correct
|
|
//... units
|
|
std::vector<T_store> temp_data;
|
|
temp_data.reserve( block_buf_size_ );
|
|
|
|
|
|
char temp_fname[256];
|
|
sprintf( temp_fname, "___ic_temp_%05d.bin", 100*id_gas_pos+coord );
|
|
std::ofstream ofs_temp( temp_fname, std::ios::binary|std::ios::trunc );
|
|
|
|
unsigned long long blksize;
|
|
|
|
double xfac = header_.BoxSize;
|
|
|
|
//... shift particle positions (this has to be done as the same shift
|
|
//... is used when computing the convolution kernel for SPH baryons)
|
|
if( do_baryons_ )
|
|
{
|
|
double h = 1. / (1<<gh.levelmax());
|
|
|
|
if( shift == NULL )
|
|
{
|
|
shift = new double[3];
|
|
shift[0] = 0.0;
|
|
shift[1] = 0.0;
|
|
shift[2] = 0.0;
|
|
|
|
}
|
|
shift[0] += 0.5 * h * omegac_/omegam_;
|
|
shift[1] += 0.5 * h * omegac_/omegam_;
|
|
shift[2] += 0.5 * h * omegac_/omegam_;
|
|
}
|
|
|
|
//... only do finest grid
|
|
if( !do_glass_ )
|
|
{
|
|
|
|
blksize = sizeof(T_store)*npart;
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
const unsigned ilevel = gh.levelmax();
|
|
const unsigned
|
|
nx = gh.get_grid(ilevel)->size(0),
|
|
ny = gh.get_grid(ilevel)->size(1),
|
|
nz = gh.get_grid(ilevel)->size(2);
|
|
|
|
for( unsigned i=0; i<nx; ++i )
|
|
for( unsigned j=0; j<ny; ++j )
|
|
for( unsigned k=0; k<nz; ++k )
|
|
{
|
|
double xx[3];
|
|
gh.cell_pos(ilevel, i, j, k, xx);
|
|
if( shift != NULL )
|
|
xx[coord] += shift[coord];
|
|
|
|
double v = (*gh.get_grid(ilevel))(i,j,k);
|
|
|
|
xx[coord] = fmod( (xx[coord]+v)*xfac + header_.BoxSize, header_.BoxSize );
|
|
|
|
if( temp_data.size() < block_buf_size_ )
|
|
temp_data.push_back( xx[coord] );
|
|
else
|
|
{
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*block_buf_size_ );
|
|
nwritten += block_buf_size_;
|
|
temp_data.clear();
|
|
temp_data.push_back( xx[coord] );
|
|
}
|
|
|
|
}
|
|
}else{
|
|
|
|
std::ifstream ofg( fname_glass_baryon_.c_str(), std::ios::binary );
|
|
|
|
if( !ofg.good() )
|
|
LOGERR("could not open glass input file \'%s\'",fname_glass_cdm_.c_str());
|
|
|
|
io_header glasshead;
|
|
unsigned blksz;
|
|
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
assert( blksz == sizeof(io_header) );
|
|
|
|
ofg.read( reinterpret_cast<char*>(&glasshead), sizeof( io_header ) );
|
|
|
|
//size_t nreq = gh.size(gh.levelmax(), 0)*gh.size(gh.levelmax(), 1)*gh.size(gh.levelmax(), 2);
|
|
/*if( nreq != (size_t)glasshead.npart[1] )
|
|
{
|
|
LOGERR("glass file contains %d particles, but should contain %ld",glasshead.npart[1],nreq);
|
|
throw std::runtime_error("glass file does not contain the right amount of particles");
|
|
}*/
|
|
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
ofg.read( reinterpret_cast<char*>(&blksz), sizeof(unsigned) );
|
|
//assert( blksz == (glasshead.npart[1]+glasshead.npart[2])*sizeof(float)*3 );
|
|
//ofg.seekg( sizeof(float)*3*glasshead.npart[1], std::ios_base::cur );
|
|
|
|
float lglass = glasshead.BoxSize;
|
|
|
|
|
|
blksize = sizeof(T_store)*glasshead.npart[1];
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
header_.npart[2] = glasshead.npart[2];
|
|
header_.npartTotal[2] = glasshead.npartTotal[2];
|
|
header_.npartTotalHighWord[2] = glasshead.npartTotalHighWord[2];
|
|
|
|
double rhoc = 27.7519737;
|
|
if( kpcunits_ )
|
|
rhoc *= 10.0; // in h^2 M_sol / kpc^3
|
|
|
|
header_.mass[2] = omegab_ * rhoc * pow(header_.BoxSize,3.)/(glasshead.npart[2]);
|
|
|
|
// read glass, do interpolation and write
|
|
size_t npartdone=0;
|
|
size_t npinter = glasshead.npart[2];
|
|
|
|
blksize = sizeof(T_store)*npinter;
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
float *pos_tmp = new float[3*block_buf_size_];
|
|
temp_data.assign( block_buf_size_, 0.0 );
|
|
|
|
while( npartdone < npinter )
|
|
{
|
|
size_t npart2read = std::min(npinter-npartdone,block_buf_size_);
|
|
|
|
ofg.read( reinterpret_cast<char*>(&pos_tmp[0]), npart2read*sizeof(float)*3 );
|
|
get_cic_displacement( coord, pos_tmp, npart2read, lglass, gh, &temp_data[0] );
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*npart2read );
|
|
|
|
npartdone += npart2read;
|
|
nwritten += npart2read;
|
|
|
|
}
|
|
|
|
delete[] pos_tmp;
|
|
temp_data.clear();
|
|
}
|
|
|
|
if( temp_data.size() > 0 )
|
|
{
|
|
ofs_temp.write( (char*)&temp_data[0], sizeof(T_store)*temp_data.size() );
|
|
nwritten += temp_data.size();
|
|
}
|
|
|
|
if( nwritten != npart )
|
|
throw std::runtime_error("Internal consistency error while writing temporary file for gas positions");
|
|
|
|
//... dump to temporary file
|
|
ofs_temp.write( (char *)&blksize, sizeof(unsigned long long) );
|
|
|
|
if( ofs_temp.bad() )
|
|
throw std::runtime_error("I/O error while writing temporary file for gas positions");
|
|
|
|
ofs_temp.close();
|
|
|
|
if( shift != NULL )
|
|
delete[] shift;
|
|
}
|
|
|
|
void write_gas_density( const grid_hierarchy& gh )
|
|
{
|
|
double rhoc = 27.7519737; // h^2 1e10 M_sol / Mpc^3
|
|
|
|
if( kpcunits_ )
|
|
rhoc *= 10.0; // in h^2 M_sol / kpc^3
|
|
|
|
if( do_baryons_ && !do_glass_ )
|
|
header_.mass[2] = omegab_ * rhoc * pow(header_.BoxSize,3.)/pow(2,3*levelmax_);
|
|
}
|
|
|
|
void finalize( void )
|
|
{
|
|
this->assemble_gadget_file();
|
|
}
|
|
};
|
|
|
|
|
|
|
|
namespace{
|
|
output_plugin_creator_concrete< gadget2_2comp_output_plugin<float> > creator1("gadget2_2c");
|
|
#ifndef SINGLE_PRECISION
|
|
output_plugin_creator_concrete< gadget2_2comp_output_plugin<double> > creator2("gadget2_2c_double");
|
|
#endif
|
|
}
|
|
|