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/*******************************************************************************************
*
* Create an index with extension .las.idx for a .las file.
* Utility expects the .las file to be sorted.
* Header contains total # of trace points, max # of trace points for
* a given overlap, max # of trace points in all the overlaps for a given aread, and
* max # of overlaps for a given aread. The remainder are the offsets into each pile.
*
* Author: Gene Myers
* Date : Sept 2015
*
*******************************************************************************************/
#include <stdio.h>
#include <stdlib.h>
#include <string.h>
#include <ctype.h>
#include <unistd.h>
#include <sys/types.h>
#include <sys/stat.h>
#include "DB.h"
#include "align.h"
static char *Usage = "[-v] <source:las> ...";
#define MEMORY 1000 // How many megabytes for output buffer
int main(int argc, char *argv[])
{ char *iblock;
FILE *input, *output;
int64 novl, bsize, ovlsize, ptrsize;
int tspace, tbytes;
char *pwd, *root;
int64 tmax, ttot;
int64 omax, smax;
int64 odeg, sdeg;
int i;
int VERBOSE;
// Process options
{ int j, k;
int flags[128];
ARG_INIT("LAindex")
j = 1;
for (i = 1; i < argc; i++)
if (argv[i][0] == '-')
{ ARG_FLAGS("v") }
else
argv[j++] = argv[i];
argc = j;
VERBOSE = flags['v'];
if (argc <= 1)
{ fprintf(stderr,"Usage: %s %s\n",Prog_Name,Usage);
exit (1);
}
}
// For each file do
ptrsize = sizeof(void *);
ovlsize = sizeof(Overlap) - ptrsize;
bsize = MEMORY * 1000000ll;
iblock = (char *) Malloc(bsize + ptrsize,"Allocating input block");
if (iblock == NULL)
exit (1);
iblock += ptrsize;
for (i = 1; i < argc; i++)
{ pwd = PathTo(argv[i]);
root = Root(argv[i],".las");
input = Fopen(Catenate(pwd,"/",root,".las"),"r");
if (input == NULL)
exit (1);
if (fread(&novl,sizeof(int64),1,input) != 1)
SYSTEM_ERROR
if (fread(&tspace,sizeof(int),1,input) != 1)
SYSTEM_ERROR
if (tspace <= TRACE_XOVR)
tbytes = sizeof(uint8);
else
tbytes = sizeof(uint16);
output = Fopen(Catenate(pwd,"/.",root,".las.idx"),"w");
if (output == NULL)
exit (1);
free(pwd);
free(root);
if (VERBOSE)
{ printf(" Indexing %s: ",root);
Print_Number(novl,0,stdout);
printf(" records ... ");
fflush(stdout);
}
fwrite(&novl,sizeof(int64),1,output);
fwrite(&novl,sizeof(int64),1,output);
fwrite(&novl,sizeof(int64),1,output);
fwrite(&novl,sizeof(int64),1,output);
{ int j, alst;
Overlap *w;
int64 tsize;
int64 optr;
char *iptr, *itop;
int64 tlen;
optr = sizeof(int64) + sizeof(int32);
iptr = iblock;
itop = iblock + fread(iblock,1,bsize,input);
alst = -1;
odeg = sdeg = 0;
omax = smax = 0;
tmax = ttot = 0;
for (j = 0; j < novl; j++)
{ if (iptr + ovlsize > itop)
{ int64 remains = itop-iptr;
if (remains > 0)
memcpy(iblock,iptr,remains);
iptr = iblock;
itop = iblock + remains;
itop += fread(itop,1,bsize-remains,input);
}
w = (Overlap *) (iptr - ptrsize);
tlen = w->path.tlen;
if (alst < 0)
{ fwrite(&optr,sizeof(int64),1,output);
alst = w->aread;
}
else
while (alst < w->aread)
{ if (sdeg > smax)
smax = sdeg;
if (odeg > omax)
omax = odeg;
fwrite(&optr,sizeof(int64),1,output);
odeg = sdeg = 0;
alst += 1;
}
if (tlen > tmax)
tmax = tlen;
ttot += tlen;
odeg += 1;
sdeg += tlen;
iptr += ovlsize;
tsize = tlen*tbytes;
if (iptr + tsize > itop)
{ int64 remains = itop-iptr;
if (remains > 0)
memcpy(iblock,iptr,remains);
iptr = iblock;
itop = iblock + remains;
itop += fread(itop,1,bsize-remains,input);
}
optr += ovlsize + tsize;
iptr += tsize;
}
fwrite(&optr,sizeof(int64),1,output);
}
if (sdeg > smax)
smax = sdeg;
if (odeg > omax)
omax = odeg;
rewind(output);
fwrite(&omax,sizeof(int64),1,output);
fwrite(&ttot,sizeof(int64),1,output);
fwrite(&smax,sizeof(int64),1,output);
fwrite(&tmax,sizeof(int64),1,output);
if (VERBOSE)
{ Print_Number(ttot,0,stdout);
printf(" trace points\n");
fflush(stdout);
}
fclose(input);
fclose(output);
}
free(iblock-ptrsize);
exit (0);
}
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