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/********************************************************************************************
*
* Concate in block order all "block tracks" <DB>.<track>.# into a single track
* <DB>.<track>
*
* Author: Gene Myers
* Date : June 2014
*
********************************************************************************************/
#include <stdlib.h>
#include <stdio.h>
#include <string.h>
#include <unistd.h>
#include "DB.h"
#ifdef HIDE_FILES
#define PATHSEP "/."
#else
#define PATHSEP "/"
#endif
static char *Usage = "[-v] <path:db|dam> <track:name>";
int main(int argc, char *argv[])
{ char *prefix;
FILE *aout, *dout;
int VERBOSE;
// Process arguments
{ int i, j, k;
int flags[128];
ARG_INIT("Catrack")
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 != 3)
{ fprintf(stderr,"Usage: %s %s\n",Prog_Name,Usage);
exit (1);
}
}
{ char *pwd, *root;
int plen;
plen = strlen(argv[1]);
if (strcmp(argv[1]+(plen-3),".dam") == 0)
root = Root(argv[1],".dam");
else
root = Root(argv[1],".db");
pwd = PathTo(argv[1]);
prefix = Strdup(Catenate(pwd,PATHSEP,root,"."),"Allocating track name");
free(pwd);
free(root);
aout = fopen(Catenate(prefix,argv[2],".","anno"),"r");
if (aout != NULL)
{ fprintf(stderr,"%s: Track file %s%s.anno already exists!\n",Prog_Name,prefix,argv[2]);
fclose(aout);
exit (1);
}
dout = fopen(Catenate(prefix,argv[2],".","data"),"r");
if (dout != NULL)
{ fprintf(stderr,"%s: Track file %s%s.data already exists!\n",Prog_Name,prefix,argv[2]);
fclose(dout);
exit (1);
}
aout = Fopen(Catenate(prefix,argv[2],".","anno"),"w");
if (aout == NULL)
exit (1);
dout = NULL;
}
{ int tracktot, tracksiz;
int64 trackoff;
int nfiles;
char data[1024];
void *anno;
FILE *lfile = NULL;
anno = NULL;
trackoff = 0;
tracktot = tracksiz = 0;
fwrite(&tracktot,sizeof(int),1,aout);
fwrite(&tracksiz,sizeof(int),1,aout);
nfiles = 0;
while (1)
{ FILE *dfile, *afile;
int i, size, tracklen;
afile = fopen(Numbered_Suffix(prefix,nfiles+1,Catenate(".",argv[2],".","anno")),"r");
if (afile == NULL)
break;
dfile = fopen(Numbered_Suffix(prefix,nfiles+1,Catenate(".",argv[2],".","data")),"r");
if (nfiles > 0)
fclose(lfile);
lfile = afile;
if (VERBOSE)
{ fprintf(stderr,"Concatenating %s%d.%s ...\n",prefix,nfiles+1,argv[2]);
fflush(stderr);
}
if (fread(&tracklen,sizeof(int),1,afile) != 1)
SYSTEM_ERROR
if (fread(&size,sizeof(int),1,afile) != 1)
SYSTEM_ERROR
if (nfiles == 0)
{ tracksiz = size;
if (dfile != NULL)
{ dout = Fopen(Catenate(prefix,argv[2],".","data"),"w");
if (dout == NULL)
{ fclose(afile);
fclose(dfile);
goto error;
}
}
else
{ anno = Malloc(size,"Allocating annotation record");
if (anno == NULL)
{ fclose(afile);
goto error;
}
}
}
else
{ int escape = 1;
if (tracksiz != size)
{ fprintf(stderr,"%s: Track block %d does not have the same annotation size (%d)",
Prog_Name,nfiles+1,size);
fprintf(stderr," as previous blocks (%d)\n",tracksiz);
}
else if (dfile == NULL && dout != NULL)
fprintf(stderr,"%s: Track block %d does not have data but previous blocks do\n",
Prog_Name,nfiles+1);
else if (dfile != NULL && dout == NULL)
fprintf(stderr,"%s: Track block %d has data but previous blocks do not\n",
Prog_Name,nfiles+1);
else
escape = 0;
if (escape)
{ fclose(afile);
if (dfile != NULL) fclose(dfile);
if (anno != NULL) free(anno);
goto error;
}
}
if (dfile != NULL)
{ int64 dlen;
if (size == 4)
{ int anno4;
for (i = 0; i < tracklen; i++)
{ if (fread(&anno4,sizeof(int),1,afile) != 1)
SYSTEM_ERROR
anno4 += trackoff;
fwrite(&anno4,sizeof(int),1,aout);
}
if (fread(&anno4,sizeof(int),1,afile) != 1)
SYSTEM_ERROR
dlen = anno4;
}
else
{ int64 anno8;
for (i = 0; i < tracklen; i++)
{ if (fread(&anno8,sizeof(int64),1,afile) != 1)
SYSTEM_ERROR
anno8 += trackoff;
fwrite(&anno8,sizeof(int64),1,aout);
}
if (fread(&anno8,sizeof(int64),1,afile) != 1)
SYSTEM_ERROR
dlen = anno8;
}
trackoff += dlen;
for (i = 1024; i < dlen; i += 1024)
{ if (fread(data,1024,1,dfile) != 1)
SYSTEM_ERROR
fwrite(data,1024,1,dout);
}
i -= 1024;
if (i < dlen)
{ if (fread(data,dlen-i,1,dfile) != 1)
SYSTEM_ERROR
fwrite(data,dlen-i,1,dout);
}
}
else
{ for (i = 0; i < tracklen; i++)
{ if (fread(anno,size,1,afile) != 1)
SYSTEM_ERROR
fwrite(anno,size,1,aout);
}
}
tracktot += tracklen;
nfiles += 1;
if (dfile != NULL) fclose(dfile);
}
if (nfiles == 0)
{ fprintf(stderr,"%s: Couldn't find first track block %s1.%s.anno\n",
Prog_Name,prefix,argv[2]);
goto error;
}
else
{ char *byte;
if (dout != NULL)
{ if (tracksiz == 4)
{ int anno4 = trackoff;
fwrite(&anno4,sizeof(int),1,aout);
}
else
{ int64 anno8 = trackoff;
fwrite(&anno8,sizeof(int64),1,aout);
}
}
while (fread(&byte,1,1,lfile) == 1)
fwrite(&byte,1,1,aout);
fclose(lfile);
rewind(aout);
fwrite(&tracktot,sizeof(int),1,aout);
fwrite(&tracksiz,sizeof(int),1,aout);
}
}
fclose(aout);
if (dout != NULL)
fclose(dout);
free(prefix);
exit (0);
error:
fclose(aout);
unlink(Catenate(prefix,argv[2],".","anno"));
if (dout != NULL)
{ fclose(dout);
unlink(Catenate(prefix,argv[2],".","data"));
}
free(prefix);
exit (1);
}
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