have some kind of memory allocation error :(

Samo Penic

2019-10-17 80ebbe388f3e945e62f47b0141c660ee6f05c8fc

have some kind of memory allocation error :(

 src/io.c

@@ -254,17 +254,23 @@
    xml_trisurf_data(fh,vesicle);
    fprintf(fh, " <UnstructuredGrid>\n");
    fprintf(fh, "<Piece NumberOfPoints=\"%u\" NumberOfCells=\"%u\">\n",vlist->n+monono*polyno+fonono*filno, blist->n+monono*polyno+filno*(fonono-1)+vesicle->tlist->n);
    fprintf(fh,"<PointData Scalars=\"vertices_idx\">\n<DataArray type=\"Int64\" Name=\"vertices_idx\" format=\"ascii\">");
    fprintf(fh,"<PointData Scalars=\"vertices_idx\">\n<DataArray type=\"Int64\" Name=\"vertices_idx\" format=\"binary\">");
    int *int_vector=(int *)malloc(vlist->n+monono*polyno+fonono*filno*sizeof(ts_uint));
    int offset=0;
       for(i=0;i<vlist->n;i++){
        fprintf(fh,"%u ",vtx[i]->idx);
    //    fprintf(fh,"%u ",vtx[i]->idx);
        int_vector[i+offset]=vtx[i]->idx;
    }
    //polymeres
    if(poly){
        poly_idx=vlist->n;
        offset=offset+i;
        for(i=0;i<vesicle->poly_list->n;i++){
            for(j=0;j<vesicle->poly_list->poly[i]->vlist->n;j++,poly_idx++){
                fprintf(fh,"%u ", poly_idx);
                //fprintf(fh,"%u ", poly_idx);
                int_vector[j+offset]=poly_idx;
            }
            offset=offset+j;
        }
    }
    //filaments
@@ -273,10 +279,15 @@
        for(i=0;i<vesicle->filament_list->n;i++){
            for(j=0;j<vesicle->filament_list->poly[i]->vlist->n;j++,poly_idx++){
    //    fprintf(stderr,"was here\n");
                fprintf(fh,"%u ", poly_idx);
                //fprintf(fh,"%u ", poly_idx);
                int_vector[j+offset]=poly_idx;
            }
            offset=offset+j;
        }
    }
    char *printout=ts_compress_intlist(int_vector,vlist->n+monono*polyno+fonono*filno*sizeof(ts_uint));
    fprintf(fh,"%s",printout);
    free(printout);

        fprintf(fh,"</DataArray>\n");
    if(cstlist!=NULL){

 src/snapshot.c

@@ -153,16 +153,13 @@
    defstream.opaque = Z_NULL;
    defstream.avail_in = data_len+1;
    defstream.next_in = (unsigned char *)data;    
    char *compr=(char *)malloc(data_len*sizeof(char *));
    fprintf(stderr,"WAS HERE %d\n", data_len);
    *compressed=(char *)malloc(data_len*sizeof(char *));
    defstream.avail_out = data_len+1;
    defstream.next_out = (unsigned char *)compr;
    defstream.next_out = (unsigned char *)*compressed;
    deflateInit(&defstream, Z_BEST_COMPRESSION);
        deflate(&defstream, Z_FINISH);
        deflateEnd(&defstream);
    *compressed=compr;
//    *compressed=base64_encode((unsigned char *)compr,(size_t)defstream.total_out,&nbase);
    //fwrite(base64, sizeof(unsigned char), nbase, fh);
//    free(compr);
    return defstream.total_out;
}