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Validate genotype-likelihood error-matrix input #666

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Validate genotype-likelihood error-matrix input #666

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20 changes: 16 additions & 4 deletions abcGL.cpp
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Original file line number Diff line number Diff line change
Expand Up @@ -38,7 +38,7 @@ void readError(double **errors,const char *fname){
FILE *fp=NULL;
if(NULL==(fp=fopen(fname,"r"))){
fprintf(stderr,"Error opening file: %s\n",fname);
exit(0);
exit(EXIT_FAILURE);
}

char buf[LENS];
Expand All @@ -47,11 +47,23 @@ void readError(double **errors,const char *fname){

int nLines =0;
while(fgets(buf,LENS,fp)){
res[0] += atof(strtok(buf," \t\n"));
for(int i=1;i<16;i++)
res[i] += atof(strtok(NULL," \t\n"));
char *token = strtok(buf," \t\n");
for(int i=0;i<16;i++) {
if(token == NULL) {
fprintf(stderr,"Error parsing error matrix %s on line %d: expected 16 numeric fields.\n", fname, nLines + 1);
fclose(fp);
exit(EXIT_FAILURE);
}
res[i] += atof(token);
token = strtok(NULL," \t\n");
}
nLines ++;
}
if(nLines == 0) {
fprintf(stderr,"Error parsing error matrix %s: file is empty.\n", fname);
fclose(fp);
exit(EXIT_FAILURE);
}
for(int j=0;j<16;j++)
fprintf(stderr,"%f\t",res[j]);
fprintf(stderr,"\nEstimating errors using nChunks:%d\n",nLines);
Expand Down