trisurf-ng.git - Gitblit

Merge branch 'master' of ssh://git.penic.eu:29418/trisurf-ng

Samo Penic

2019-02-08 19c1fd84d1fd75e9bfd55feb670fda87a2e02086

commit \| author \| age
7f6076	1	/* vim: set ts=4 sts=4 sw=4 noet : */
8c1bb1	2	#include <stdio.h>
SP	3	#include <string.h>
	4	#include <stdlib.h>
	5	#include <libxml/xmlmemory.h>
	6	#include <libxml/parser.h>
	7	#include <general.h>
	8	#include <restore.h>
	9	#include <snapshot.h>
	10	#include <zlib.h>
	11	#include "vesicle.h"
487968	12	#include "vertex.h"
a011d2	13	#include "triangle.h"
a3dbf0	14	#include "bond.h"
SP	15	#include "energy.h"
bb4033	16	#include "poly.h"
a3dbf0	17	#include "initial_distribution.h"
698ae1	18	#include "io.h"
002513	19	#include <math.h>
a011d2	20
ab798b	21	ts_vesicle parseDump(char dumpfname) {
8c1bb1	22	xmlDocPtr doc;
8fa1c0	23	xmlNodePtr cur, cur1,cur2;
SP	24	ts_vesicle *vesicle=NULL;
8c1bb1	25	doc = xmlParseFile(dumpfname);
002513	26	int i;
8c1bb1	27	if (doc == NULL ) {
SP	28	fatal("Dump file could not be found or parsed. It is correct file?",1);
	29	}
	30
	31	cur = xmlDocGetRootElement(doc);
	32
	33	if (cur == NULL) {
	34	fatal("Dump file is empty.",1);
	35	}
	36
	37	if (xmlStrcmp(cur->name, (const xmlChar *) "VTKFile")) {
	38	fatal("document of the wrong type, root node != story",1);
	39	}
	40
	41	cur = cur->xmlChildrenNode;
	42	while (cur != NULL) {
698ae1	43
SP	44	if ((!xmlStrcmp(cur->name, (const xmlChar *)"tape"))){
	45	setGlobalTapeTXTfromTapeTag(doc, cur);
	46	}
	47
8c1bb1	48	if ((!xmlStrcmp(cur->name, (const xmlChar *)"trisurf"))){
3c772b	49	vesicle=parseTrisurfTag(doc, cur);
8c1bb1	50	}
8fa1c0	51	// START Point Position data & Bonds
SP	52	if ((!xmlStrcmp(cur->name, (const xmlChar *)"UnstructuredGrid"))){
	53	cur1 = cur->xmlChildrenNode;
	54	while(cur1!=NULL){
	55	if ((!xmlStrcmp(cur1->name, (const xmlChar *)"Piece"))){
	56	cur2=cur1->xmlChildrenNode;
	57	while(cur2!=NULL){
def8b5	58	if ((!xmlStrcmp(cur2->name, (const xmlChar *)"PointData"))){
SP	59	if(vesicle!=NULL)
	60	parseXMLPointData(vesicle,doc,cur2);
	61	}
8fa1c0	62	if ((!xmlStrcmp(cur2->name, (const xmlChar *)"Points"))){
720bd4	63	//fprintf(stderr,"Found point data\n");
8fa1c0	64	if(vesicle!=NULL)
f62178	65	//fprintf(stderr,"Fils: %ld, Nfono: %ld\n", vesicle->tape->nfil, vesicle->tape->nfono);
28efdb	66	parseXMLVertexPosition(vesicle, doc, cur2);
8fa1c0	67	}
SP	68	if ((!xmlStrcmp(cur2->name, (const xmlChar *)"Cells"))){
720bd4	69	//fprintf(stderr,"Found cell(Bonds) data\n");
a3dbf0	70	if(vesicle!=NULL)
28efdb	71	parseXMLBonds(vesicle, doc, cur2);
8fa1c0	72	}
SP	73	cur2=cur2->next;
	74	}
	75	}
	76	cur1 = cur1->next;
	77	}
	78	}
	79	// END Point Position data & Bonds
8c1bb1	80	cur = cur->next;
SP	81	}
	82
	83	xmlFreeDoc(doc);
bb4033	84
86b69b	85	// vesicle->poly_list=init_poly_list(0, 0, vesicle->vlist, vesicle);
bb4033	86
a3dbf0	87	init_normal_vectors(vesicle->tlist);
SP	88	mean_curvature_and_energy(vesicle);
89434d	89	sweep_attraction_bond_energy(vesicle);
002513	90	if(vesicle->tape->stretchswitch==1){
699ac4	91	vesicle->tlist->a0=sqrt(3)/4.0*pow((vesicle->tape->dmax+1.0)/2.0,2);
002513	92	for(i=0;i<vesicle->tlist->n;i++){
SP	93	stretchenergy(vesicle, vesicle->tlist->tria[i]);
	94	}
	95	}
ab798b	96	/* TODO: filaments */
a3dbf0	97
f4d6ca	98	// ts_fprintf(stdout,"Restoration completed\n");
ab798b	99	// write_vertex_xml_file(vesicle,999);
SP	100	// vesicle_free(vesicle);
	101	// exit(0);
	102	return vesicle;
8c1bb1	103	}
SP	104
698ae1	105	ts_bool setGlobalTapeTXTfromTapeTag(xmlDocPtr doc, xmlNodePtr cur){
SP	106	xmlChar *tape = xmlNodeListGetString(doc, cur->xmlChildrenNode, 1);
	107	strcpy(tapetxt,(char *)tape);
	108	xmlFree(tape);
	109	return TS_SUCCESS;
	110	}
8fa1c0	111
SP	112
	113	/* this is a parser of additional data in xml */
8c1bb1	114	ts_vesicle *parseTrisurfTag(xmlDocPtr doc, xmlNodePtr cur){
720bd4	115	//fprintf(stderr,"Parsing trisurf tag\n");
487968	116	xmlNodePtr child;
SP	117
	118	#ifdef COMPRESS
8c1bb1	119	/* base64decode */
SP	120	size_t cLen;
	121	/*size_t tLen;
	122	const unsigned char test[]="Test";
	123	char *cTest=base64_encode(test, 4,&tLen);
	124	unsigned char cuTest=base64_decode((char )cTest,tLen,&tLen);
	125	cuTest[tLen]=0;
	126	fprintf(stderr,"%s\n",cuTest);
	127	*/
	128	xmlChar *b64=xmlNodeListGetString(doc, cur->xmlChildrenNode, 1);
	129	unsigned char compressed=base64_decode((char )b64,strlen((char *)b64)-1,&cLen);
	130	/* uncompress */
	131	unsigned char subtree=(unsigned char )malloc(512000sizeof(unsigned char)); / TODO: again, the uncompressed string must not exceed this */
	132	z_stream infstream;
	133	infstream.zalloc = Z_NULL;
	134	infstream.zfree = Z_NULL;
	135	infstream.opaque = Z_NULL;
	136	infstream.avail_in = (ts_uint)cLen; // size of input
	137	infstream.next_in = compressed; // input char array
	138	infstream.avail_out = (ts_uint)512000; // size of output
	139	infstream.next_out = subtree; // output char array
	140
	141	// the actual DE-compression work.
	142	inflateInit(&infstream);
	143	inflate(&infstream, Z_NO_FLUSH);
	144	inflateEnd(&infstream);
720bd4	145	//fprintf(stderr,"%lu\n",cLen);
8c1bb1	146	subtree[infstream.total_out]='\0'; //zero terminate string
720bd4	147	//fprintf(stderr,"%s\n",subtree);
8c1bb1	148
SP	149	free(subtree);
487968	150	#endif
8c1bb1	151	/parse xml subtree /
86b69b	152	xmlChar nvtx, npoly, *nmono;
8c1bb1	153	nvtx = xmlGetProp(cur, (xmlChar *)"nvtx");
SP	154	npoly=xmlGetProp(cur, (xmlChar *)"npoly");
86b69b	155	nmono=xmlGetProp(cur, (xmlChar *)"nmono");
698ae1	156	ts_tape *tape=parsetapebuffer(tapetxt);
SP	157	//fprintf(stderr,"nvtx=%u\n",atoi((char *)nvtx));
	158	//TODO: check if nvtx is in agreement with nshell from tape
	159	ts_vesicle vesicle=init_vesicle(atoi((char )nvtx),tape->ncxmax,tape->ncymax,tape->nczmax,tape->stepsize);
8c1bb1	160	//vesicle->poly_list=init_poly_list(atoi((char )npoly),atoi((char )nmono), vesicle->vlist, vesicle);
SP	161	xmlFree(nvtx);
	162	xmlFree(npoly);
86b69b	163	xmlFree(nmono);
487968	164
SP	165	child = cur->xmlChildrenNode;
	166	while (child != NULL) {
	167	if ((!xmlStrcmp(child->name, (const xmlChar *)"vtxn"))){
	168	parseTrisurfVtxn(vesicle->vlist, doc, child);
	169	}
a011d2	170	if ((!xmlStrcmp(child->name, (const xmlChar *)"tria"))){
SP	171	parseTrisurfTria(vesicle, doc, child);
	172	}
e9ac7b	173	if ((!xmlStrcmp(child->name, (const xmlChar *)"trianeigh"))){
SP	174	parseTrisurfTriaNeigh(vesicle, doc, child);
	175	}
a011d2	176	if ((!xmlStrcmp(child->name, (const xmlChar *)"tristar"))){
SP	177	parseTrisurfTristar(vesicle, doc, child);
	178	}
4891eb	179	if ((!xmlStrcmp(child->name, (const xmlChar *)"nucleus"))){
SP	180	parseTrisurfNucleus(vesicle, doc, child);
	181	}
49981c	182	if ((!xmlStrcmp(child->name, (const xmlChar *)"constant_volume"))){
SP	183	parseTrisurfConstantVolume(doc, child);
	184	}
	185	if ((!xmlStrcmp(child->name, (const xmlChar *)"constant_area"))){
	186	parseTrisurfConstantArea(doc, child);
	187	}
	188
a011d2	189
487968	190	child = child->next;
SP	191	}
	192
	193
698ae1	194	vesicle->tape=tape;
SP	195	set_vesicle_values_from_tape(vesicle);
8c1bb1	196	return vesicle;
SP	197	}
487968	198
a011d2	199
SP	200
	201	/* Low level tags parsers */
49981c	202	ts_bool parseTrisurfConstantVolume(xmlDocPtr doc, xmlNodePtr cur){
SP	203	xmlChar *cvol = xmlNodeListGetString(doc, cur->xmlChildrenNode, 1);
	204	char n=(char )cvol;
	205	V0=atof(n);
	206	xmlFree(cvol);
	207	return TS_SUCCESS;
	208	}
	209	ts_bool parseTrisurfConstantArea(xmlDocPtr doc, xmlNodePtr cur){
	210	xmlChar *carea = xmlNodeListGetString(doc, cur->xmlChildrenNode, 1);
	211	char n=(char )carea;
	212	A0=atof(n);
	213	xmlFree(carea);
	214	return TS_SUCCESS;
	215	}
	216
4891eb	217	ts_bool parseTrisurfNucleus(ts_vesicle *vesicle, xmlDocPtr doc, xmlNodePtr cur){
SP	218	xmlChar *coords = xmlNodeListGetString(doc, cur->xmlChildrenNode, 1);
	219	char n=(char )coords;
	220	char *token=strtok(n," ");
	221	ts_uint i;
	222	for(i=0;i<3;i++){
	223	vesicle->nucleus_center[i]=atof(token);
	224	token=strtok(NULL," ");
	225	}
	226	xmlFree(coords);
	227	return TS_SUCCESS;
	228	}
a011d2	229
SP	230	ts_bool parseTrisurfVtxn(ts_vertex_list *vlist, xmlDocPtr doc, xmlNodePtr cur){
487968	231
SP	232	xmlChar *chari;
	233	xmlChar *neighs;
	234	char *n;
	235	char *token;
	236	ts_uint neighi;
	237	ts_uint i;
	238	chari = xmlGetProp(cur, (xmlChar *)"idx");
	239	i=atoi((char *)chari);
	240	xmlFree(chari);
	241	ts_vertex *vtx=vlist->vtx[i];
	242	neighs = xmlNodeListGetString(doc, cur->xmlChildrenNode, 1);
	243	//fprintf(stderr,"Found neigh for vtx %u that seems to have index %u with neighs=%s\n",i,vtx->idx,neighs);
	244
	245	n=(char *)neighs;
	246	token=strtok(n," ");
	247	while(token!=NULL){
	248	neighi=atoi(token);
	249	//fprintf(stderr,"%u", neighi);
	250	vtx_add_neighbour(vtx,vlist->vtx[neighi]);
	251	token=strtok(NULL," ");
	252	}
	253	xmlFree(neighs);
	254	return TS_SUCCESS;
	255	}
	256
a011d2	257	ts_bool parseTrisurfTria(ts_vesicle *vesicle, xmlDocPtr doc, xmlNodePtr cur){
SP	258	xmlChar *triangles;
	259	char *tria;
	260	char *vtx[3];
	261
e87e4e	262	ts_uint i,j;
a011d2	263	triangles = xmlNodeListGetString(doc, cur->xmlChildrenNode, 1);
SP	264	tria=(char *)triangles;
e87e4e	265	vtx[0]=strtok(tria," ");
SP	266	for(i=1;i<3;i++) vtx[i]=strtok(NULL," ");
	267	j=0;
a011d2	268	while(vtx[2]!=NULL){
SP	269	triangle_add(vesicle->tlist, vesicle->vlist->vtx[atoi(vtx[0])],vesicle->vlist->vtx[atoi(vtx[1])],vesicle->vlist->vtx[atoi(vtx[2])]);
	270	for(i=0;i<3;i++) vtx[i]=strtok(NULL," ");
e87e4e	271	j++;
a011d2	272	}
720bd4	273	//fprintf(stderr,"Parsing triangles %s j=%d\n",triangles,j);
a011d2	274
SP	275	xmlFree(triangles);
	276	return TS_SUCCESS;
	277	}
	278
	279
e9ac7b	280	ts_bool parseTrisurfTriaNeigh(ts_vesicle *vesicle, xmlDocPtr doc, xmlNodePtr cur){
SP	281	xmlChar *triangles;
	282	char *tria;
	283	char *ntria[3];
	284	ts_uint i,j;
	285	triangles = xmlNodeListGetString(doc, cur->xmlChildrenNode, 1);
	286	tria=(char *)triangles;
e87e4e	287	ntria[0]=strtok(tria," ");
SP	288	for(i=1;i<3;i++) ntria[i]=strtok(NULL," ");
e9ac7b	289	j=0;
SP	290	while(ntria[2]!=NULL){
	291	triangle_add_neighbour(vesicle->tlist->tria[j],vesicle->tlist->tria[atoi(ntria[0])]);
	292	triangle_add_neighbour(vesicle->tlist->tria[j],vesicle->tlist->tria[atoi(ntria[1])]);
	293	triangle_add_neighbour(vesicle->tlist->tria[j],vesicle->tlist->tria[atoi(ntria[2])]);
	294	j++;
	295	for(i=0;i<3;i++) ntria[i]=strtok(NULL," ");
	296	}
720bd4	297	//fprintf(stderr,"Parsing triangle neighbors j=%d\n",j);
e9ac7b	298
SP	299	xmlFree(triangles);
	300	return TS_SUCCESS;
	301	}
	302
	303
a011d2	304	ts_bool parseTrisurfTristar(ts_vesicle *vesicle, xmlDocPtr doc, xmlNodePtr cur){
SP	305
	306	xmlChar *chari;
	307	xmlChar *tristar;
	308	char *t;
	309	char *token;
	310	ts_uint neighi;
	311	ts_uint i;
	312	chari = xmlGetProp(cur, (xmlChar *)"idx");
	313	i=atoi((char *)chari);
	314	xmlFree(chari);
	315	ts_vertex *vtx=vesicle->vlist->vtx[i];
	316	tristar = xmlNodeListGetString(doc, cur->xmlChildrenNode, 1);
	317	// fprintf(stderr,"Found tristar for vtx %u that seems to have index %u with tristar=%s\n",i,vtx->idx,tristar);
	318
	319	t=(char *)tristar;
	320	token=strtok(t," ");
	321	while(token!=NULL){
	322	neighi=atoi(token);
	323	//fprintf(stderr,"%u", neighi);
	324	vertex_add_tristar(vtx,vesicle->tlist->tria[neighi]);
	325	token=strtok(NULL," ");
	326	}
	327	xmlFree(tristar);
	328	return TS_SUCCESS;
	329	}
	330
def8b5	331	/* this parses the data for vertices (like spontaneous curvature, etc.) */
SP	332	ts_bool parseXMLPointData(ts_vesicle *vesicle,xmlDocPtr doc, xmlNodePtr cur){
	333	xmlNodePtr child = cur->xmlChildrenNode;
	334	xmlChar *property_name;
	335	xmlChar *values;
	336	char *vals;
	337	char *token;
	338	int idx, polyidx, monoidx, filidx, fonoidx;
	339	while (child != NULL) {
	340	if ((!xmlStrcmp(child->name, (const xmlChar *)"DataArray"))){
	341	property_name=xmlGetProp(child, (xmlChar *)"Name");
	342	// fprintf(stderr,"Name: %s\n", property_name);
	343	if(!xmlStrcmp(property_name,(const xmlChar *)"spontaneous_curvature")){
	344	values=xmlNodeListGetString(doc,child->xmlChildrenNode,1);
	345	vals=(char *)values;
	346	token=strtok(vals," ");
	347	idx=0;
	348	while(token!=NULL){
	349	if(idx<vesicle->vlist->n){
	350	vesicle->vlist->vtx[idx]->c=atof(token);
	351	} else if(vesicle->tape->nmono && vesicle->tape->npoly && idx<vesicle->vlist->n+vesicle->tape->nmono*vesicle->tape->npoly) {
	352	polyidx=(idx-vesicle->vlist->n)/vesicle->tape->nmono;
	353	monoidx=(idx-vesicle->vlist->n)%vesicle->tape->nmono;
	354	vesicle->poly_list->poly[polyidx]->vlist->vtx[monoidx]->c=atof(token);
	355	} else {
	356	filidx=(idx-vesicle->vlist->n-vesicle->tape->nmono*vesicle->tape->npoly)/vesicle->tape->nfono;
	357	fonoidx=(idx-vesicle->vlist->n-vesicle->tape->nmono*vesicle->tape->npoly)%vesicle->tape->nfono;
	358	//fprintf(stderr,"filidx=%d, fonoidx=%d, coord=%s,%s,%s\n",filidx,fonoidx,token[0],token[1],token[2]);
	359	vesicle->filament_list->poly[filidx]->vlist->vtx[fonoidx]->c=atof(token);
	360	}
	361	idx++;
	362	token=strtok(NULL," ");
	363	}
	364	xmlFree(values);
	365	}
	366	xmlFree(property_name);
	367	}
	368
	369	child=child->next;
	370	}
	371	return TS_SUCCESS;
	372	}
8fa1c0	373	/* this is a parser of vertex positions and bonds from main xml data */
SP	374	ts_bool parseXMLVertexPosition(ts_vesicle *vesicle,xmlDocPtr doc, xmlNodePtr cur){
	375	xmlNodePtr child = cur->xmlChildrenNode;
	376	xmlChar *points;
	377	char *pts;
301c87	378	int i, idx, polyidx, monoidx, filidx, fonoidx;
8fa1c0	379	char *token[3];
SP	380	while (child != NULL) {
	381	if ((!xmlStrcmp(child->name, (const xmlChar *)"DataArray"))){
	382	points = xmlNodeListGetString(doc, child->xmlChildrenNode, 1);
	383	pts=(char *)points;
e87e4e	384	token[0]=strtok(pts," ");
ecdd71	385	token[1]=strtok(NULL," ");
SP	386	token[2]=strtok(NULL,"\n");
8fa1c0	387	idx=0;
SP	388	while(token[0]!=NULL){
86b69b	389	if(idx<vesicle->vlist->n){
SP	390	vesicle->vlist->vtx[idx]->x=atof(token[0]);
	391	vesicle->vlist->vtx[idx]->y=atof(token[1]);
	392	vesicle->vlist->vtx[idx]->z=atof(token[2]);
301c87	393	} else if(vesicle->tape->nmono && vesicle->tape->npoly && idx<vesicle->vlist->n+vesicle->tape->nmono*vesicle->tape->npoly) {
86b69b	394	polyidx=(idx-vesicle->vlist->n)/vesicle->tape->nmono;
SP	395	monoidx=(idx-vesicle->vlist->n)%vesicle->tape->nmono;
	396	vesicle->poly_list->poly[polyidx]->vlist->vtx[monoidx]->x=atof(token[0]);
	397	vesicle->poly_list->poly[polyidx]->vlist->vtx[monoidx]->y=atof(token[1]);
	398	vesicle->poly_list->poly[polyidx]->vlist->vtx[monoidx]->z=atof(token[2]);
301c87	399	} else {
SP	400	filidx=(idx-vesicle->vlist->n-vesicle->tape->nmono*vesicle->tape->npoly)/vesicle->tape->nfono;
	401	fonoidx=(idx-vesicle->vlist->n-vesicle->tape->nmono*vesicle->tape->npoly)%vesicle->tape->nfono;
f62178	402	//fprintf(stderr,"filidx=%d, fonoidx=%d, coord=%s,%s,%s\n",filidx,fonoidx,token[0],token[1],token[2]);
301c87	403	vesicle->filament_list->poly[filidx]->vlist->vtx[fonoidx]->x=atof(token[0]);
SP	404	vesicle->filament_list->poly[filidx]->vlist->vtx[fonoidx]->y=atof(token[1]);
	405	vesicle->filament_list->poly[filidx]->vlist->vtx[fonoidx]->z=atof(token[2]);
86b69b	406	}
ecdd71	407	for(i=0;i<2;i++) token[i]=strtok(NULL," ");
SP	408	token[2]=strtok(NULL,"\n");
8fa1c0	409	idx++;
SP	410	}
	411	xmlFree(points);
	412	}
	413	child=child->next;
	414	}
f62178	415	//fprintf(stderr,"Came here\n");
720bd4	416	//fprintf(stderr,"Vertices position j=%d\n",idx);
28efdb	417
8fa1c0	418	return TS_SUCCESS;
SP	419	}
a3dbf0	420	ts_bool parseXMLBonds(ts_vesicle *vesicle,xmlDocPtr doc, xmlNodePtr cur){
SP	421	xmlNodePtr child = cur->xmlChildrenNode;
bb4033	422	xmlChar bonds, conname;
a3dbf0	423	char *b;
86b69b	424	int idx, polyidx;
a3dbf0	425	char *token[2];
3cd5f4	426	int temp_cnt=0;
a3dbf0	427	while (child != NULL) {
bb4033	428	conname=xmlGetProp(child, (xmlChar *)"Name");
SP	429	if ((!xmlStrcmp(child->name, (const xmlChar )"DataArray")) && !xmlStrcmp(conname, (const xmlChar )"connectivity") ){
a3dbf0	430	bonds = xmlNodeListGetString(doc, child->xmlChildrenNode, 1);
SP	431	b=(char *)bonds;
e87e4e	432	token[0]=strtok(b," ");
ecdd71	433	token[1]=strtok(NULL,"\n");
a3dbf0	434	idx=0;
SP	435	while(token[0]!=NULL){
86b69b	436	if(idx<3*(vesicle->vlist->n-2)){
SP	437	bond_add(vesicle->blist, vesicle->vlist->vtx[atoi(token[0])], vesicle->vlist->vtx[atoi(token[1])]);
3cd5f4	438	//fprintf(stderr,"Bonds in vesicle count idx=%d\n",idx);
86b69b	439	}
SP	440	else {
	441	//find grafted vtx
301c87	442	if(vesicle->tape->npoly && vesicle->tape->nmono && (vesicle->tape->nmono-1)==(idx-3*(vesicle->vlist->n-2))%(vesicle->tape->nmono)
3cd5f4	443	&& idx<(3vesicle->vlist->n-2+vesicle->tape->nmonovesicle->tape->npoly)){
SP	444	temp_cnt++;
	445	//fprintf(stderr,"%d: Bonds in poly count idx=%d, t1=%s t2=%s\n",temp_cnt,idx, token[0], token[1]);
	446
86b69b	447	polyidx=(idx-3*(vesicle->vlist->n-2))/(vesicle->tape->nmono);
720bd4	448	//fprintf(stderr,"poly=%d, vertex=%d\n",polyidx,atoi(token[0]));
86b69b	449	vesicle->poly_list->poly[polyidx]->grafted_vtx=vesicle->vlist->vtx[atoi(token[0])];
SP	450	vesicle->vlist->vtx[atoi(token[0])]->grafted_poly=vesicle->poly_list->poly[polyidx];
	451	}
	452	}
ecdd71	453	token[0]=strtok(NULL," ");
SP	454	token[1]=strtok(NULL,"\n");
a3dbf0	455	idx++;
SP	456	}
	457	xmlFree(bonds);
	458	}
bb4033	459	xmlFree(conname);
a3dbf0	460	child=child->next;
SP	461	}
720bd4	462	//fprintf(stderr,"Bond data j=%d\n",idx);
a3dbf0	463	return TS_SUCCESS;
SP	464	}
	465
8fa1c0	466
SP	467