Extracted data from the python

Samo Penic

2016-02-16 588bbbdde6117f74a3abc317e478fe144a1d0c31

Extracted data from the python

 python/.parse_vtu.py.swp

Binary files differ

 python/parse_vtu.py

@@ -1,10 +1,12 @@
#!/usr/bin/python3
import xml.etree.ElementTree as ET

import base64
import zlib

tree = ET.parse('../src/timestep_000000.vtu')
root = tree.getroot()
trisurf=root.find('trisurf')
print(trisurf.items())
xml=zlib.decompress(base64.b64decode(trisurf.text))


tree2=ET.ElementTree(ET.fromstring("<root>"+str(xml)[0:-1]+"</root>"))

 src/snapshot.c

@@ -29,7 +29,7 @@
    xml_trisurf_vtx_tristar(data,vesicle->vlist);
#ifdef COMPRESSION
    char *compressed;
    ts_uint nbytes=ts_compress_string64(data->string, data->beg, &compressed);
    ts_uint nbytes=ts_compress_string64(data->string, data->beg-1, &compressed); //suppress null character at the end with by substracting 1
    fwrite(compressed, sizeof(unsigned char), nbytes, fh);
    free (compressed);
#else
@@ -59,11 +59,11 @@

ts_bool xml_trisurf_tria(ts_string *data, ts_triangle_list *tlist){
    ts_uint i;
    ts_sprintf(data,"<tria>\n");
    ts_sprintf(data,"<tria>");
    for(i=0; i<tlist->n;i++){
        ts_sprintf(data,"%u %u %u\n",tlist->tria[i]->vertex[0]->idx, tlist->tria[i]->vertex[1]->idx, tlist->tria[i]->vertex[2]->idx);
        ts_sprintf(data,"%u %u %u",tlist->tria[i]->vertex[0]->idx, tlist->tria[i]->vertex[1]->idx, tlist->tria[i]->vertex[2]->idx);
    }
    ts_sprintf(data,"</tria>\n");
    ts_sprintf(data,"</tria>");
    return TS_SUCCESS;
}

@@ -71,7 +71,7 @@
    ts_uint i;
    ts_sprintf(data,"<trianeigh>\n");
    for(i=0; i<tlist->n;i++){
        ts_sprintf(data,"%u %u %u\n",tlist->tria[i]->neigh[0]->idx, tlist->tria[i]->neigh[1]->idx, tlist->tria[i]->neigh[2]->idx);
        ts_sprintf(data,"%u %u %u",tlist->tria[i]->neigh[0]->idx, tlist->tria[i]->neigh[1]->idx, tlist->tria[i]->neigh[2]->idx);
    }
    ts_sprintf(data,"</trianeigh>\n");
    return TS_SUCCESS;
@@ -84,7 +84,7 @@
        for(j=0;j<vlist->vtx[i]->neigh_no;j++){
            ts_sprintf(data,"%u ",vlist->vtx[i]->neigh[j]->idx);
        }
        ts_sprintf(data, "</vtxn>\n");
        ts_sprintf(data, "</vtxn>");
    }
    return TS_SUCCESS;
}
@@ -96,7 +96,7 @@
        for(j=0;j<vlist->vtx[i]->tristar_no;j++){
            ts_sprintf(data,"%u ",vlist->vtx[i]->tristar[j]->idx);
        }
        ts_sprintf(data, "</tristar>\n");
        ts_sprintf(data, "</tristar>");
    }
    return TS_SUCCESS;
}