63     uint32_t *ndiff,*ncnt,ncmp, npairs;  member
128 …uint32_t ndiff,rid,pos,rand; // rand is to shuffle sites with the same ndiff from across all chrom…  member
137     fprintf(stderr,"%s:%d\t%d\t",bcf_hdr_id2name(args->qry_hdr,ds->rid),ds->pos+1,ds->ndiff);  in diff_sites_debug_print()
146     if ( a->ndiff < b->ndiff ) return 1;        // descending order  in diff_sites_cmp()
147     if ( a->ndiff > b->ndiff ) return -1;  in diff_sites_cmp()
184 static inline void diff_sites_push(args_t *args, int ndiff, int rid, int pos)  in diff_sites_push()  argument
188     dat->ndiff = ndiff;  in diff_sites_push()
195 static inline int diff_sites_shift(args_t *args, int *ndiff, int *rid, int *pos)  in diff_sites_shift()  argument
199     *ndiff = dat->ndiff;  in diff_sites_shift()
399 …args->ndiff = (uint32_t*) calloc(args->npairs,sizeof(*args->ndiff));    // number of differing gen…  in init_data()
429     free(args->ndiff);  in destroy_data()
598             int ndiff = 0;  in process_line()  local
618                     args->ndiff[i]++;  in process_line()
619                     if ( args->kbs_diff ) { ndiff++; kbs_insert(args->kbs_diff, i); }  in process_line()
625             if ( ndiff ) diff_sites_push(args, ndiff, qry_rec->rid, qry_rec->pos);  in process_line()
689                 if ( !match ) args->ndiff[idx]++;  in process_line()
767     int i,ndiff,rid,pos,ndiff_tot = 0, iblock = 0;  in report_distinctive_sites()  local
769     while ( diff_sites_shift(args,&ndiff,&rid,&pos) )  in report_distinctive_sites()
780         if ( ndiff_dbg!=ndiff ) error("Corrupted data, fixme: %d vs %d\n",ndiff_dbg,ndiff);  in report_distinctive_sites()
822             if ( args->ndiff )  in report()
827                         args->ndiff[i],  in report()
852                 if ( args->ndiff )  in report()
857                             args->ndiff[idx],  in report()
885                 else if ( args->ndiff )  in report()
886                     arr[j].val = args->ncnt[idx] ? (double)args->ndiff[idx]/args->ncnt[idx] : 0;  in report()
899                 if ( args->ndiff )  in report()
904                             args->ndiff[idx],  in report()
933                 else if ( args->ndiff )  in report()
934                     arr[k].val = args->ncnt[idx] ? (double)args->ndiff[idx]/args->ncnt[idx] : 0;  in report()
947                 else if ( args->ndiff )  in report()
948                     arr[k].val = args->ncnt[idx] ? (double)args->ndiff[idx]/args->ncnt[idx] : 0;  in report()
962                 if ( args->ndiff )  in report()
967                             args->ndiff[idx],  in report()