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galsio.c
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galsio.c
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#include <stdlib.h>
#include <stdio.h>
#include <math.h>
#include <assert.h>
#include <string.h>
#include <fftw3.h>
#include <mpi.h>
#include <hdf5.h>
#include <gsl/gsl_math.h>
#include <fitsio.h>
#include "raytrace.h"
static const char *ttype[] = { "index", "ra", "dec", "A00", "A01", "A10", "A11"};
static const char *tform[] = { "K", "D", "D", "D", "D", "D", "D"};
static void file_write_gals2fits(long fileNum, long firstTask, long lastTask, MPI_Comm fileComm);
static void get_gal_iodecomp(long *firstTaskFiles, long *lastTaskFiles, long *fileNum);
static int read_posindex_galcat(char finname[MAX_FILENAME], long *NumBuffGals, SourceGal **buffGals);
static void distribute_gals_to_tasks(SourceGal *buffGals, int *sendCounts, int *displs);
void write_gals2fits(void)
{
long group,NumGroups,i;
long *firstTaskFiles,*lastTaskFiles,fileNum=-1;
MPI_Comm fileComm;
MPI_Group worldGroup,fileGroup;
int *ranks,Nranks;
double t;
t = -MPI_Wtime();
firstTaskFiles = (long*)malloc(sizeof(long)*rayTraceData.NumGalOutputFiles);
assert(firstTaskFiles != NULL);
lastTaskFiles = (long*)malloc(sizeof(long)*rayTraceData.NumGalOutputFiles);
assert(lastTaskFiles != NULL);
get_gal_iodecomp(firstTaskFiles,lastTaskFiles,&fileNum);
/*make communicators for each file*/
MPI_Comm_group(MPI_COMM_WORLD,&worldGroup);
Nranks = lastTaskFiles[fileNum]-firstTaskFiles[fileNum]+1;
ranks = (int*)malloc(sizeof(int)*Nranks);
assert(ranks != NULL);
for(i=0;i<Nranks;++i)
ranks[i] = firstTaskFiles[fileNum] + i;
MPI_Group_incl(worldGroup,Nranks,ranks,&fileGroup);
MPI_Comm_create(MPI_COMM_WORLD,fileGroup,&fileComm);
NumGroups = rayTraceData.NumGalOutputFiles/rayTraceData.NumFilesIOInParallel;
if(rayTraceData.NumGalOutputFiles - NumGroups*rayTraceData.NumFilesIOInParallel > 0)
++NumGroups;
for(group=0;group<NumGroups;++group)
{
if(fileNum/rayTraceData.NumFilesIOInParallel == group)
file_write_gals2fits(fileNum,firstTaskFiles[fileNum],lastTaskFiles[fileNum],fileComm);
/*\\\\\\\\\\\\\\\\\\\\\\\\\\*/
MPI_Barrier(MPI_COMM_WORLD);
/*\\\\\\\\\\\\\\\\\\\\\\\\\\*/
}
free(firstTaskFiles);
free(lastTaskFiles);
free(ranks);
MPI_Comm_free(&fileComm);
MPI_Group_free(&fileGroup);
MPI_Group_free(&worldGroup);
t += MPI_Wtime();
if(ThisTask == 0)
fprintf(stderr,"writing image gals to disk took %lf seconds.\n",t);
}
static void file_write_gals2fits(long fileNum, long firstTask, long lastTask, MPI_Comm fileComm)
{
char name[MAX_FILENAME];
char bangname[MAX_FILENAME];
fitsfile *fptr;
int tfields,status;
long i,j;
LONGLONG nrows,firstrow,firstelem,nelements;
long chunkInd,firstInd,lastInd,NumGalsInChunkBase,NumGalsInChunk,NumChunks;
char *buff;
double *darr;
long *larr;
int colnum;
double t0 = 0.0;
long NumTotToRecv,NumWritten=0,NumToWrite;
MPI_Status mpistatus;
sprintf(name,"%s/%s%04ld.%04ld.fit",rayTraceData.OutputPath,rayTraceData.GalOutputName,rayTraceData.CurrentPlaneNum,fileNum);
sprintf(bangname,"!%s",name);
status = 0;
firstrow = 1;
firstelem = 1;
if(ThisTask == firstTask) //make the file on disk
{
t0 = -MPI_Wtime();
remove(name);
sprintf(bangname,"!%s",name);
fits_create_file(&fptr,bangname,&status);
if(status)
fits_report_error(stderr,status);
nrows = 0;
tfields = 7;
fits_create_tbl(fptr,BINARY_TBL,nrows,tfields,ttype,tform,NULL,NULL,&status);
if(status)
fits_report_error(stderr,status);
fits_get_rowsize(fptr,&NumGalsInChunkBase,&status);
if(status)
fits_report_error(stderr,status);
}
MPI_Bcast(&NumGalsInChunkBase,1,MPI_LONG,0,fileComm);
if(sizeof(long) > sizeof(double))
buff = (char*)malloc(sizeof(long)*NumGalsInChunkBase);
else
buff = (char*)malloc(sizeof(double)*NumGalsInChunkBase);
assert(buff != NULL);
darr = (double*) buff;
larr = (long*) buff;
for(i=firstTask;i<=lastTask;++i)
{
if(ThisTask == i)
{
#ifdef DEBUG
#if DEBUG_LEVEL > 0
fprintf(stderr,"%d: fileNum = %ld, first,last = %ld|%ld\n",ThisTask,fileNum,firstTask,lastTask);
#endif
#endif
if(ThisTask != firstTask)
MPI_Send(&NumImageGalsGlobal,1,MPI_LONG,(int) firstTask,TAG_GALSIO_TOTNUM,MPI_COMM_WORLD);
//now write gals to file in chunks
if(NumImageGalsGlobal > 0)
{
NumChunks = NumImageGalsGlobal/NumGalsInChunkBase;
if(NumChunks*NumGalsInChunkBase < NumImageGalsGlobal)
NumChunks += 1;
#ifdef DEBUG
#if DEBUG_LEVEL > 0
fprintf(stderr,"%d: NumImageGalsGlobal = %ld, NumGalsInChunkBase = %ld, NumChunks = %ld\n",ThisTask,
NumImageGalsGlobal,NumGalsInChunkBase,NumChunks);
#endif
#endif
for(chunkInd=0;chunkInd<NumChunks;++chunkInd)
{
firstInd = chunkInd*NumGalsInChunkBase;
lastInd = (chunkInd+1)*NumGalsInChunkBase-1;
if(lastInd >= NumImageGalsGlobal-1)
lastInd = NumImageGalsGlobal-1;
NumGalsInChunk = lastInd - firstInd + 1;
if(ThisTask != firstTask)
{
MPI_Send(&NumGalsInChunk,1,MPI_LONG,(int) firstTask,TAG_GALSIO_NUMCHUNK,MPI_COMM_WORLD);
colnum = TAG_GALSIO_CHUNKDATA;
for(j=firstInd;j<=lastInd;++j)
larr[j-firstInd] = ImageGalsGlobal[j].index;
MPI_Ssend(larr,(int) NumGalsInChunk,MPI_LONG,(int) firstTask,colnum,MPI_COMM_WORLD);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].ra;
MPI_Ssend(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) firstTask,colnum,MPI_COMM_WORLD);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].dec;
MPI_Ssend(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) firstTask,colnum,MPI_COMM_WORLD);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].A00;
MPI_Ssend(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) firstTask,colnum,MPI_COMM_WORLD);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].A01;
MPI_Ssend(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) firstTask,colnum,MPI_COMM_WORLD);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].A10;
MPI_Ssend(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) firstTask,colnum,MPI_COMM_WORLD);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].A11;
MPI_Ssend(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) firstTask,colnum,MPI_COMM_WORLD);
}
else
{
nelements = (LONGLONG) NumGalsInChunk;
firstelem = 1;
colnum = 1;
for(j=firstInd;j<=lastInd;++j)
larr[j-firstInd] = ImageGalsGlobal[j].index;
fits_write_col(fptr,TLONG,colnum,firstrow,firstelem,nelements,larr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].ra;
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].dec;
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].A00;
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].A01;
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].A10;
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
for(j=firstInd;j<=lastInd;++j)
darr[j-firstInd] = ImageGalsGlobal[j].A11;
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
firstrow += nelements;
NumWritten += NumGalsInChunk;
}// else of if(ThisTask != firstTask)
}// for(chunkInd=0;chunkInd<NumChunks;++chunkInd)
} // if NumImageGalsGlobal > 0
} //if ThisTask == i
if(i != firstTask && ThisTask == firstTask)
{
MPI_Recv(&NumTotToRecv,1,MPI_LONG,(int) i,TAG_GALSIO_TOTNUM,MPI_COMM_WORLD,&mpistatus);
while(NumTotToRecv > 0)
{
MPI_Recv(&NumGalsInChunk,1,MPI_LONG,(int) i,TAG_GALSIO_NUMCHUNK,MPI_COMM_WORLD,&mpistatus);
nelements = (LONGLONG) NumGalsInChunk;
firstelem = 1;
colnum = 1;
MPI_Recv(larr,(int) NumGalsInChunk,MPI_LONG,(int) i,colnum+TAG_GALSIO_CHUNKDATA-1,MPI_COMM_WORLD,&mpistatus);
fits_write_col(fptr,TLONG,colnum,firstrow,firstelem,nelements,larr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
MPI_Recv(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) i,colnum+TAG_GALSIO_CHUNKDATA-1,MPI_COMM_WORLD,&mpistatus);
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
MPI_Recv(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) i,colnum+TAG_GALSIO_CHUNKDATA-1,MPI_COMM_WORLD,&mpistatus);
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
MPI_Recv(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) i,colnum+TAG_GALSIO_CHUNKDATA-1,MPI_COMM_WORLD,&mpistatus);
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
MPI_Recv(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) i,colnum+TAG_GALSIO_CHUNKDATA-1,MPI_COMM_WORLD,&mpistatus);
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
MPI_Recv(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) i,colnum+TAG_GALSIO_CHUNKDATA-1,MPI_COMM_WORLD,&mpistatus);
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
MPI_Recv(darr,(int) NumGalsInChunk,MPI_DOUBLE,(int) i,colnum+TAG_GALSIO_CHUNKDATA-1,MPI_COMM_WORLD,&mpistatus);
fits_write_col(fptr,TDOUBLE,colnum,firstrow,firstelem,nelements,darr,&status);
if(status)
fits_report_error(stderr,status);
++colnum;
firstrow += nelements;
NumWritten += NumGalsInChunk;
NumTotToRecv -= NumGalsInChunk;
}
}
//////////////////////////////
MPI_Barrier(fileComm);
//////////////////////////////
} // loop through tasks
if(ThisTask == firstTask) //make the file on disk
{
fits_close_file(fptr,&status);
if(status)
fits_report_error(stderr,status);
t0 += MPI_Wtime();
#ifdef DEBUG
fprintf(stderr,"writing %ld gals to file '%s' took %g seconds.\n",NumWritten,name,t0);
#endif
}
//error check
MPI_Allreduce(&NumImageGalsGlobal,&NumToWrite,1,MPI_LONG,MPI_SUM,fileComm);
if(ThisTask == firstTask)
assert(NumWritten == NumToWrite);
//clean it all up
free(buff);
}
/* gets I/O decomp given number of Tasks, and the number of output files wanted
inspired by Gadget-2
*/
static void get_gal_iodecomp(long *firstTaskFiles, long *lastTaskFiles, long *fileNum)
{
long i,j;
long numTasksPerFile,numExtraTasks;
numTasksPerFile = NTasks/rayTraceData.NumGalOutputFiles;
numExtraTasks = NTasks - numTasksPerFile*rayTraceData.NumGalOutputFiles;
j = 0;
for(i=0;i<rayTraceData.NumGalOutputFiles;++i)
{
firstTaskFiles[i] = j;
if(i < numExtraTasks)
lastTaskFiles[i] = numTasksPerFile + j;
else
lastTaskFiles[i] = numTasksPerFile + j - 1;
j = lastTaskFiles[i] + 1;
}
for(i=0;i<rayTraceData.NumGalOutputFiles;++i)
if(firstTaskFiles[i] <= ThisTask && ThisTask <= lastTaskFiles[i])
*fileNum = i;
#ifdef DEBUG
#if DEBUG_LEVEL > 0
if(ThisTask == 0)
{
fprintf(stderr,"gal I/O: file decomp info - # of files = %ld, NTasks = %d, numTasksPerFile = %ld, numExtraTasks = %ld\n"
,rayTraceData.NumGalOutputFiles,NTasks,numTasksPerFile,numExtraTasks);
for(i=0;i<rayTraceData.NumGalOutputFiles;++i)
{
fprintf(stderr,"%ld: firstTaskFiles,lastTaskFiles = %ld|%ld|%ld\n",
i,firstTaskFiles[i],lastTaskFiles[i],lastTaskFiles[i]-firstTaskFiles[i]+1);
}
fprintf(stderr,"\n");
}
#endif
#endif
}
void read_fits2gals(void)
{
FILE *fp;
long NumGalFiles;
long NumIORounds,round,NumTasksPerIORound;
long fileNumToRead;
int GalFileDone,AllGalFilesDone;
char fname[MAX_FILENAME];
SourceGal *buffGals;
long NumBuffGals,i;
int *sendCounts,*displs;
int numNotInDomain;
long totNumGalaxiesOutsideDomain;
long GlobalNumGalaxiesOutsideDomain;
long totNumGalaxiesInsideDomain;
long GlobalNumGalaxiesInsideDomain;
/*
reads in all gals and sorts them according to task
only read NumTasksPerIORound files at a time out of NumGalFiles
do this in NumIORounds rounds
during each round, a file is read in chunks and GalFileDone = 1 when file on a given task is done
when AllGalFilesDone is 1 for all nodes, then round is finished
the function distribute_gals_to_tasks sends correct gals to each task
*/
totNumGalaxiesOutsideDomain = 0;
totNumGalaxiesInsideDomain = 0;
sendCounts = (int*)malloc(sizeof(int)*NTasks);
assert(sendCounts != NULL);
displs = (int*)malloc(sizeof(int)*NTasks);
assert(displs != NULL);
if(ThisTask == 0)
{
fp = fopen(rayTraceData.GalsFileList,"r");
assert(fp != NULL);
NumGalFiles = fnumlines(fp);
fprintf(stderr,"found %ld galaxy files to read.\n",NumGalFiles);
fclose(fp);
}
MPI_Bcast(&NumGalFiles,1,MPI_LONG,0,MPI_COMM_WORLD);
NumTasksPerIORound = rayTraceData.NumFilesIOInParallel;
NumIORounds = NumGalFiles/NumTasksPerIORound;
if(NumTasksPerIORound*NumIORounds != NumGalFiles)
++NumIORounds;
for(round=0;round<NumIORounds;++round)
{
if(ThisTask == 0)
fprintf(stderr,"doing gals I/O round %ld of %ld.\n",round+1,NumIORounds);
GalFileDone = 0;
do {
//get file num to read
fileNumToRead = round*NumTasksPerIORound+ThisTask;
if(ThisTask < NumTasksPerIORound && fileNumToRead < NumGalFiles)
{
//get file name to read from
fp = fopen(rayTraceData.GalsFileList,"r");
assert(fp != NULL);
for(i=0;i<fileNumToRead+1;++i)
{
fgets(fname,MAX_FILENAME,fp);
}
fclose(fp);
if(fname[strlen(fname)-1] == '\n')
fname[strlen(fname)-1] = '\0';
//fprintf(stderr,"%d: before fileNumToRed = %ld, name = '%s'\n",ThisTask,fileNumToRead,fname);
//read from file
if(!GalFileDone)
GalFileDone = read_posindex_galcat(fname,&NumBuffGals,&buffGals);
//fprintf(stderr,"%d: after # of gals = %ld, done = %d\n",ThisTask,NumBuffGals,GalFileDone);
//this index is nice because given any gal index and the number of files
//you can get back the position of the galaxy in the file and the file that has it
for(i=0;i<NumBuffGals;++i)
buffGals[i].index = fileNumToRead + NumGalFiles*buffGals[i].index;
//sort gals accroding to task
numNotInDomain = reorder_gals_for_tasks(NumBuffGals,buffGals,sendCounts);
totNumGalaxiesOutsideDomain += numNotInDomain;
totNumGalaxiesInsideDomain += (NumBuffGals - numNotInDomain);
//fill in displs and sendCounts
displs[0] = numNotInDomain;
for(i=1;i<NTasks;++i)
displs[i] = displs[i-1] + sendCounts[i-1];
}
else
{
fileNumToRead = -1;
GalFileDone = 1;
NumBuffGals = 0;
buffGals = NULL;
for(i=0;i<NTasks;++i)
{
displs[i] = 0;
sendCounts[i] = 0;
}
}
distribute_gals_to_tasks(buffGals,sendCounts,displs);
if(NumBuffGals > 0)
{
free(buffGals);
NumBuffGals = 0;
buffGals = NULL;
}
MPI_Allreduce(&GalFileDone,&AllGalFilesDone,1,MPI_INT,MPI_LAND,MPI_COMM_WORLD);
} while(!AllGalFilesDone);
}
//fprintf(stderr,"%d: befor final realloc! NumSourceGalsGlobal = %ld\n",ThisTask);
//realloc mem
if(NumSourceGalsGlobal > 0)
{
SourceGal *tmpSourceGals = (SourceGal*)realloc(SourceGalsGlobal,sizeof(SourceGal)*NumSourceGalsGlobal);
assert(tmpSourceGals != NULL);
SourceGalsGlobal = tmpSourceGals;
}
else if(SourceGalsGlobal != NULL)
{
free(SourceGalsGlobal);
SourceGalsGlobal = NULL;
NumSourceGalsGlobal = 0;
}
//fprintf(stderr,"%d: after final realloc!\n",ThisTask);
if(NumSourceGalsGlobal > 0)
reorder_gals_for_planes();
MPI_Allreduce(&totNumGalaxiesOutsideDomain,&GlobalNumGalaxiesOutsideDomain,1,MPI_LONG,MPI_SUM,MPI_COMM_WORLD);
MPI_Allreduce(&totNumGalaxiesInsideDomain,&GlobalNumGalaxiesInsideDomain,1,MPI_LONG,MPI_SUM,MPI_COMM_WORLD);
MPI_Allreduce(&NumSourceGalsGlobal,&i,1,MPI_LONG,MPI_SUM,MPI_COMM_WORLD);
assert(i == GlobalNumGalaxiesInsideDomain);
if(ThisTask == 0)
fprintf(stderr,"found %ld galaxies inside domain and %ld galaxies outside of domain.\n\n",GlobalNumGalaxiesInsideDomain,GlobalNumGalaxiesOutsideDomain);
//clean up
free(sendCounts);
free(displs);
}
static void distribute_gals_to_tasks(SourceGal *buffGals, int *sendCounts, int *displs)
{
int log2NTasks;
int level,sendTask,recvTask;
long Nsend,Nrecv,i;
MPI_Status Stat;
SourceGal *tmpSourceGals;
static long initFlag = 1,MaxNumSourceGalsGlobal;
if(initFlag)
{
initFlag = 0;
MaxNumSourceGalsGlobal = (long) (100.0*1024.0*1024.0/sizeof(SourceGal));
SourceGalsGlobal = (SourceGal*)malloc(sizeof(SourceGal)*MaxNumSourceGalsGlobal);
assert(SourceGalsGlobal != NULL);
}
log2NTasks = 0;
while(NTasks > (1 << log2NTasks))
++log2NTasks;
/*algorithm to loop through pairs of tasks linearly
-lifted from Gadget-2 under GPL (http://www.gnu.org/copyleft/gpl.html)
-see pm_periodic.c from Gadget-2 at http://www.mpa-garching.mpg.de/gadget/
*/
for(level = 0; level < (1 << log2NTasks); level++) /* note: for level=0, target is the same task */
{
#ifdef DEBUG
#if DEBUG_LEVEL > 1
if(ThisTask == 0)
fprintf(stderr,"level = %d of %d\n",level,(1 << log2NTasks));
#endif
#endif
sendTask = ThisTask;
recvTask = ThisTask ^ level;
if(recvTask < NTasks)
{
//get send and recv counts
Nsend = (long) (sendCounts[recvTask]);
MPI_Sendrecv(&Nsend,1,MPI_LONG,recvTask,TAG_NUMBUFF_SOURCEGAL,
&Nrecv,1,MPI_LONG,recvTask,TAG_NUMBUFF_SOURCEGAL,
MPI_COMM_WORLD,&Stat);
//now do send or recv if needed
if(Nsend > 0 || Nrecv > 0)
{
//make sure have enough mem
if(Nrecv + NumSourceGalsGlobal >= MaxNumSourceGalsGlobal)
{
//fprintf(stderr,"%d: realloc - curr = %ld, max = %ld, recv = %ld\n",ThisTask,
//NumSourceGalsGlobal,MaxNumSourceGalsGlobal,Nrecv);
tmpSourceGals = (SourceGal*)realloc(SourceGalsGlobal,sizeof(SourceGal)*(MaxNumSourceGalsGlobal + 5*Nrecv));
assert(tmpSourceGals != NULL);
SourceGalsGlobal = tmpSourceGals;
MaxNumSourceGalsGlobal += 5*Nrecv;
}
if(sendTask != recvTask)
{
MPI_Sendrecv(buffGals+displs[recvTask],(int) (Nsend*sizeof(SourceGal)),MPI_BYTE,recvTask,TAG_BUFF_SOURCEGAL,
SourceGalsGlobal+NumSourceGalsGlobal,(int) (Nrecv*sizeof(SourceGal)),MPI_BYTE,recvTask,TAG_BUFF_SOURCEGAL,
MPI_COMM_WORLD,&Stat);
}
else
{
//if sendTask == recvTask then just copy over parts
for(i=0;i<Nsend;++i)
SourceGalsGlobal[i+NumSourceGalsGlobal] = buffGals[i+displs[recvTask]];
}
NumSourceGalsGlobal += Nrecv;
}
}
}
}
static int read_posindex_galcat(char finname[MAX_FILENAME], long *NumBuffGals, SourceGal **buffGals)
{
static long currGalChunk = -1;
static long NumGalChunks,BaseNumGalsInChunk,currNumGals,TotNumGals;
static float *fbuff;
static fitsfile *fptr;
static int status;
long NumGalsRead;
long MaxNumGalsToRead = (long) (100.0*1024.0*1024.0/sizeof(SourceGal));
int ext=1,colnum,anynul;
long i;
char fname[MAX_FILENAME];
char pxstr[] = {"px"};
char pystr[] = {"py"};
char pzstr[] = {"pz"};
float nulval=0;
LONGLONG firstrow,firstelem,nelements;
firstelem = 1;
if(currGalChunk == -1)
{
sprintf(fname,"%s[%d]",finname,ext);
fits_open_file(&fptr,fname,READONLY,&status);
if(status)
fits_report_error(stderr,status);
fits_get_num_rows(fptr,&TotNumGals,&status);
if(status)
fits_report_error(stderr,status);
if(TotNumGals == 0)
{
fits_close_file(fptr,&status);
if(status)
fits_report_error(stderr,status);
currGalChunk = -1;
return 1;
}
fits_get_rowsize(fptr,&BaseNumGalsInChunk,&status);
if(status)
fits_report_error(stderr,status);
fbuff = (float*)malloc(sizeof(float)*BaseNumGalsInChunk);
assert(fbuff != NULL);
NumGalChunks = TotNumGals/BaseNumGalsInChunk;
if(NumGalChunks*BaseNumGalsInChunk != TotNumGals)
NumGalChunks += 1;
//fprintf(stderr,"%d: init total # of gals = %ld, # of gals in chunk = %ld, # of chunks = %ld\n",
//ThisTask,TotNumGals,BaseNumGalsInChunk,NumGalChunks);
status = 0;
currGalChunk = 0;
currNumGals = 0;
}
//alloc buffer mem
if(MaxNumGalsToRead < BaseNumGalsInChunk)
MaxNumGalsToRead = BaseNumGalsInChunk;
*buffGals = (SourceGal*)malloc(sizeof(SourceGal)*MaxNumGalsToRead);
assert((*buffGals) != NULL);
//read the chunk
NumGalsRead = 0;
while(NumGalsRead + BaseNumGalsInChunk <= MaxNumGalsToRead && currGalChunk < NumGalChunks)
{
if(NumGalsRead + currNumGals + BaseNumGalsInChunk > TotNumGals)
nelements = TotNumGals - currNumGals - NumGalsRead;
else
nelements = BaseNumGalsInChunk;
firstrow = currNumGals + NumGalsRead + 1;
//fprintf(stderr,"%d: chunk total # of gals = %ld, # of gals read so far = %ld, # of gals in this chunk = %lld, chunk %ld of %ld\n",
//ThisTask,TotNumGals,currNumGals,nelements,currGalChunk,NumGalChunks);
// read px
fits_get_colnum(fptr,CASEINSEN,pxstr,&colnum,&status);
if(status)
fits_report_error(stderr,status);
fits_read_col(fptr,TFLOAT,colnum,firstrow,firstelem,nelements,&nulval,fbuff,&anynul,&status);
if(status)
fits_report_error(stderr,status);
#ifdef DEBUG
#if DEBUG_LEVEL > 1
fprintf(stderr,"%d: px column # = %d, anynul = %d\n",ThisTask,colnum,anynul);
#endif
#endif
for(i=0;i<nelements;++i)
(*buffGals)[NumGalsRead + i].pos[0] = fbuff[i];
// read py
fits_get_colnum(fptr,CASEINSEN,pystr,&colnum,&status);
if(status)
fits_report_error(stderr,status);
fits_read_col(fptr,TFLOAT,colnum,firstrow,firstelem,nelements,&nulval,fbuff,&anynul,&status);
if(status)
fits_report_error(stderr,status);
#ifdef DEBUG
#if DEBUG_LEVEL > 1
fprintf(stderr,"%d: py column # = %d, anynul = %d\n",ThisTask,colnum,anynul);
#endif
#endif
for(i=0;i<nelements;++i)
(*buffGals)[NumGalsRead + i].pos[1] = fbuff[i];
// read pz
fits_get_colnum(fptr,CASEINSEN,pzstr,&colnum,&status);
if(status)
fits_report_error(stderr,status);
fits_read_col(fptr,TFLOAT,colnum,firstrow,firstelem,nelements,&nulval,fbuff,&anynul,&status);
if(status)
fits_report_error(stderr,status);
#ifdef DEBUG
#if DEBUG_LEVEL > 1
fprintf(stderr,"%d: pz column # = %d, anynul = %d\n",ThisTask,colnum,anynul);
#endif
#endif
for(i=0;i<nelements;++i)
(*buffGals)[NumGalsRead + i].pos[2] = fbuff[i];
NumGalsRead += nelements;
++currGalChunk;
}
//set inds
*NumBuffGals = NumGalsRead;
for(i=0;i<NumGalsRead;++i)
(*buffGals)[i].index = currNumGals + i;
currNumGals += NumGalsRead;
if(currGalChunk == NumGalChunks)
{
assert(currNumGals == TotNumGals);
fits_close_file(fptr,&status);
if(status)
fits_report_error(stderr,status);
free(fbuff);
currGalChunk = -1;
return 1;
}
else
return 0;
}
typedef struct {
int task;
int index;
} SortGalTask;
static int compSortGalTask(const void *a, const void *b)
{
if(((const SortGalTask*)a)->task > ((const SortGalTask*)b)->task)
return 1;
else if(((const SortGalTask*)a)->task < ((const SortGalTask*)b)->task)
return -1;
else
return 0;
}
//reorder code a la Gadget-2
int reorder_gals_for_tasks(long NumBuffGals, SourceGal *buffGals, int *sendCounts)
{
int i,j;
SourceGal sourceGal,saveGal;
int rankSource,rankSave,dest;
SortGalTask *sg;
long bundleNest,restrictedPeanoInd;
double vec[3];
int numNotInDomain;
sg = (SortGalTask*)malloc(sizeof(SortGalTask)*NumBuffGals);
assert(sg != NULL);
numNotInDomain = 0;
for(i=0;i<NTasks;++i)
sendCounts[i] = 0;
for(i=0;i<NumBuffGals;++i)
{
sg[i].index = i;
vec[0] = buffGals[i].pos[0];
vec[1] = buffGals[i].pos[1];
vec[2] = buffGals[i].pos[2];
bundleNest = vec2nest(vec,rayTraceData.bundleOrder);
restrictedPeanoInd = bundleCellsNest2RestrictedPeanoInd[bundleNest];
if(restrictedPeanoInd == -1)
{
#ifdef DEBUG
#if DEBUG_LEVEL > 2
fprintf(stderr,"%d: found galaxie(s) outside of area!, index = %ld, bundleNest = %ld, restrictedPeanoInd = %ld, pos = %lf|%lf|%lf\n",
ThisTask,buffGals[i].index,bundleNest,restrictedPeanoInd,vec[0],vec[1],vec[2]);
#endif
#endif
sg[i].task = -1;
++numNotInDomain;
}
else
{
for(j=0;j<NTasks;++j)
if(firstRestrictedPeanoIndTasks[j] <= restrictedPeanoInd && restrictedPeanoInd <= lastRestrictedPeanoIndTasks[j])
{
sg[i].task = j;
break;
}
sendCounts[sg[i].task] += 1;
}
}
//sort them and make rank in sg.task field
qsort(sg,(size_t) NumBuffGals,sizeof(SortGalTask),compSortGalTask);
for(i=0;i<NumBuffGals;++i)
sg[sg[i].index].task = i;
for(i=0;i<NumBuffGals;++i) /* reoder with an in-place algorithm - see Gadget-2 for details - destroys rank */
{
if(i != sg[i].task)
{
sourceGal = buffGals[i];
rankSource = sg[i].task;
dest = sg[i].task;
do
{
saveGal = buffGals[dest];
rankSave = sg[dest].task;
buffGals[dest] = sourceGal;
sg[dest].task = rankSource;
if(dest == i)
break;
sourceGal = saveGal;
rankSource = rankSave;
dest = rankSource;
}
while(1);
}
}
free(sg);
return numNotInDomain;
}
typedef struct {
union usgr {
float rad;
long rank;
} u;
long index;
} SortGalRad;
//this function sorts gals in REVERSE order - notice sign flips in first two if statements
static int compSortGalRad(const void *a, const void *b)
{
if(((const SortGalRad*)a)->u.rad > ((const SortGalRad*)b)->u.rad)
return -1;
else if(((const SortGalRad*)a)->u.rad < ((const SortGalRad*)b)->u.rad)
return 1;
else
return 0;
}
void reorder_gals_for_planes(void)
{
long i;
SourceGal sourceGal,saveGal;
long rankSource,rankSave,dest;
SortGalRad *sg;
sg = (SortGalRad*)malloc(sizeof(SortGalRad)*NumSourceGalsGlobal);
assert(sg != NULL);
for(i=0;i<NumSourceGalsGlobal;++i)
{
sg[i].index = i;
sg[i].u.rad =
SourceGalsGlobal[i].pos[0]*SourceGalsGlobal[i].pos[0] +
SourceGalsGlobal[i].pos[1]*SourceGalsGlobal[i].pos[1] +
SourceGalsGlobal[i].pos[2]*SourceGalsGlobal[i].pos[2];
}
//sort them and make rank in sg.task field
qsort(sg,(size_t) NumSourceGalsGlobal,sizeof(SortGalRad),compSortGalRad);
for(i=0;i<NumSourceGalsGlobal;++i)
sg[sg[i].index].u.rank = i;
for(i=0;i<NumSourceGalsGlobal;++i) /* reoder with an in-place algorithm - see Gadget-2 for details - destroys rank */
{
if(i != sg[i].u.rank)
{
sourceGal = SourceGalsGlobal[i];
rankSource = sg[i].u.rank;
dest = sg[i].u.rank;
do
{
saveGal = SourceGalsGlobal[dest];
rankSave = sg[dest].u.rank;
SourceGalsGlobal[dest] = sourceGal;
sg[dest].u.rank = rankSource;
if(dest == i)
break;
sourceGal = saveGal;
rankSource = rankSave;
dest = rankSource;
}
while(1);
}
}
free(sg);
}
typedef struct {
long nest;
long index;
} SortGalNest;
static int compSortGalNest(const void *a, const void *b)
{
if(((const SortGalNest*)a)->nest > ((const SortGalNest*)b)->nest)
return 1;
else if(((const SortGalNest*)a)->nest < ((const SortGalNest*)b)->nest)
return -1;
else
return 0;
}
void reorder_gals_nest(SourceGal *buffSgs, long NumBuffSgs)
{
long i;
SourceGal sourceGal,saveGal;
long rankSource,rankSave,dest;
SortGalNest *sg;
double vec[3];
long buffGalSortOrder = HEALPIX_UTILS_MAXORDER;
sg = (SortGalNest*)malloc(sizeof(SortGalNest)*NumBuffSgs);
assert(sg != NULL);
for(i=0;i<NumBuffSgs;++i)
{
sg[i].index = i;
vec[0] = buffSgs[i].pos[0];
vec[1] = buffSgs[i].pos[1];
vec[2] = buffSgs[i].pos[2];
sg[i].nest = vec2nest(vec,buffGalSortOrder);
}