Revision db34189a4cc8afa725438397e42cb391338a2f06 authored by Leif Strand on 27 July 2005, 09:06 UTC, committed by Leif Strand on 27 July 2005, 09:06 UTC
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Tip revision: db34189a4cc8afa725438397e42cb391338a2f06 authored by Leif Strand on 27 July 2005, 09:06 UTC
Merged changes fron trunk: "[...] uniprocessor examples work again [...]".
Tip revision: db34189
 *                              CitcomS
 *                 ---------------------------------
 *                              Authors:
 *           Louis Moresi, Shijie Zhong, Lijie Han, Eh Tan,
 *           Clint Conrad, Michael Gurnis, and Eun-seo Choi
 *          (c) California Institute of Technology 1994-2005
 *        By downloading and/or installing this software you have
 *       agreed to the bundled with this software.
 *             Free for non-commercial academic research ONLY.
 *      This program is distributed WITHOUT ANY WARRANTY whatsoever.
 *  Copyright June 2005, by the California Institute of Technology.
 *  ALL RIGHTS RESERVED. United States Government Sponsorship Acknowledged.
 *  Any commercial use must be negotiated with the Office of Technology
 *  Transfer at the California Institute of Technology. This software
 *  may be subject to U.S. export control laws and regulations. By
 *  accepting this software, the user agrees to comply with all
 *  applicable U.S. export laws and regulations, including the
 *  International Traffic and Arms Regulations, 22 C.F.R. 120-130 and
 *  the Export Administration Regulations, 15 C.F.R. 730-744. User has
 *  the responsibility to obtain export licenses, or other export
 *  authority as may be required before exporting such information to
 *  foreign countries or providing access to foreign nationals.  In no
 *  event shall the California Institute of Technology be liable to any
 *  party for direct, indirect, special, incidental or consequential
 *  damages, including lost profits, arising out of the use of this
 *  software and its documentation, even if the California Institute of
 *  Technology has been advised of the possibility of such damage.
 *  The California Institute of Technology specifically disclaims any
 *  warranties, including the implied warranties or merchantability and
 *  fitness for a particular purpose. The software and documentation
 *  provided hereunder is on an "as is" basis, and the California
 *  Institute of Technology has no obligations to provide maintenance,
 *  support, updates, enhancements or modifications.

#include "element_definitions.h"
#include "global_defs.h"

#include <stdio.h>

#include <math.h>
#include <malloc.h>
#include <sys/types.h>
#include <unistd.h>
#include <string.h>

#if defined(__sgi) || defined(__osf__)
#include <sys/types.h>

#include "phase_change.h"
#include "parallel_related.h"

int get_process_identifier()
    int pid;

    pid = (int) getpid();

void unique_copy_file(E,name,comment)
    struct All_variables *E;
    char *name, *comment;
    char unique_name[500];
    char command[600];

   if (E-> {
    sprintf(command,"cp -f %s %s\n",name,unique_name);


void apply_side_sbc(struct All_variables *E)
  /* This function is called only when E->control.side_sbcs is true.
     Purpose: convert the original b.c. data structure, which only supports
              SBC on top/bottom surfaces, to new data structure, which supports
	      SBC on all (6) sides
  int i, j, d, m, side, n;
  const unsigned sbc_flags = SBX | SBY | SBZ;
  const unsigned sbc_flag[4] = {0,SBX,SBY,SBZ};

  if(E->parallel.total_surf_proc==12) {
    fprintf(stderr, "side_sbc is applicable only in Regional version\n");

  for(m=1; m<=E->sphere.caps_per_proc; m++) {
    E->sbc.node[m] = (int* ) malloc((E->lmesh.nno+1)*sizeof(int));

    n = 1;
    for(i=1; i<=E->lmesh.nno; i++) {
      if(E->node[m][i] & sbc_flags) {
	E->sbc.node[m][i] = n;
	E->sbc.node[m][i] = 0;


    for(side=SIDE_BEGIN; side<=SIDE_END; side++)
      for(d=1; d<=E->mesh.nsd; d++) {
	E->sbc.SB[m][side][d] = (double *) malloc(n*sizeof(double));

	for(i=0; i<n; i++)
	  E->sbc.SB[m][side][d][i] = 0;

    for(d=1; d<=E->mesh.nsd; d++)
      for(i=1; i<=E->lmesh.nno; i++)
	if(E->node[m][i] & sbc_flag[d] && E->sphere.cap[m].VB[d][i] != 0) {
	  j = E->sbc.node[m][i];
	  for(side=SIDE_BOTTOM; side<=SIDE_TOP; side++)
	    E->sbc.SB[m][side][d][j] = E->sphere.cap[m].VB[d][i];

void thermal_buoyancy(struct All_variables *E, double **buoy)
    int i,m;
    double temp,*H;
    void remove_horiz_ave();

    H = (double *)malloc( (E->lmesh.noz+1)*sizeof(double));

    temp = E->control.Atemp;

        buoy[m][i] =  temp * E->T[m][i];

    phase_change_apply_410(E, buoy);
    phase_change_apply_670(E, buoy);
    phase_change_apply_cmb(E, buoy);

    free ((void *) H);


double SIN_D(x)
     double x;
#if defined(__osf__)
  return sind(x);
  return sin((x/180.0) * M_PI);


double COT_D(x)
     double x;
#if defined(__osf__)
  return cotd(x);
  return tan(((90.0-x)/180.0) * M_PI);


/* non-runaway malloc */

void * Malloc1(bytes,file,line)
    int bytes;
    char *file;
    int line;
    void *ptr;

    ptr = malloc((size_t)bytes);
    if (ptr == (void *)NULL) {
	fprintf(stderr,"Memory: cannot allocate another %d bytes \n(line %d of file %s)\n",bytes,line,file);


/* Read in a file containing previous values of a field. The input in the parameter
   file for this should look like: `previous_name_file=string' and `previous_name_column=int'
   where `name' is substituted by the argument of the function.

   The file should have the standard CITCOM output format:
     # HEADER LINES etc
     index X Z Y ... field_value1 ...
     index X Z Y ... field_value2 ...
   where index is the node number, X Z Y are the coordinates and
   the field value is in the column specified by the abbr term in the function argument

   If the number of nodes OR the XZY coordinates for the node number (to within a small tolerance)
   are not in agreement with the existing mesh, the data is interpolated.


int read_previous_field(E,field,name,abbr)
    struct All_variables *E;
    float **field;
    char *name, *abbr;
    int input_string();

    float cross2d();

    char discard[5001];
    char *token;
    char *filename;
    char *input_token;
    FILE *fp;
    int fnodesx,fnodesz,fnodesy;
    int i,j,column,found,m;

    float *X,*Z,*Y;

    filename=(char *)malloc(500*sizeof(char));
    input_token=(char *)malloc(1000*sizeof(char));

    /* Define field name, read parameter file to determine file name and column number */

    if(!input_string(input_token,filename,"initialize",E-> {
	fprintf(E->fp,"No previous %s information found in input file\n",name);fflush(E->fp);
	return(0);   /* if not found, take no further action, return zero */

    fprintf(E->fp,"Previous %s information is in file %s\n",name,filename);fflush(E->fp);

    /* Try opening the file, fatal if this fails too */

    if((fp=fopen(filename,"r")) == NULL) {
	fprintf(E->fp,"Unable to open the required file `%s' (this is fatal)",filename);


     /* Read header, get nodes xzy */

    i=sscanf(discard,"# NODESX=%d NODESZ=%d NODESY=%d",&fnodesx,&fnodesz,&fnodesy);
    if(i<3) {
	fprintf(E->fp,"File %s is not in the correct format\n",filename);fflush(E->fp);

    fgets(discard,4999,fp); /* largely irrelevant line */

    /* this last line is the column headers, we need to search for the occurence of abbr to
       find out the column to be read in */

    if(strtok(discard,"|")==NULL) {
	fprintf(E->fp,"Unable to deciphre the columns in the input file");fflush(E->fp);


    while(found==0 && (token=strtok(NULL,"|")) != NULL) {

    if(found) {
	fprintf(E->fp,"\t%s (%s) found in column %d\n",name,abbr,column);fflush(E->fp);
    else {
	fprintf(E->fp,"\t%s (%s) not found in file: %s\n",name,abbr,filename);fflush(E->fp);

    /* Another fatal condition (not suitable for interpolation: */
    if(((3!= E->mesh.nsd) && (fnodesy !=1)) || ((3==E->mesh.nsd) && (1==fnodesy))) {
	fprintf(E->fp,"Input data for file `%s'  is of inappropriate dimension (not %dD)\n",filename,E->mesh.nsd);fflush(E->fp);

    if(fnodesx != E->lmesh.nox || fnodesz != E->lmesh.noz || fnodesy != E->lmesh.noy) {
       fprintf(stderr,"wrong dimension in the input temperature file!!!!\n");

    X=(float *)malloc((2+fnodesx*fnodesz*fnodesy)*sizeof(float));
    Z=(float *)malloc((2+fnodesx*fnodesz*fnodesy)*sizeof(float));
    Y=(float *)malloc((2+fnodesx*fnodesz*fnodesy)*sizeof(float));

   /* Format for reading the input file (including coordinates) */

    sprintf(input_token," %%d %%e %%e %%e");
	strcat(input_token," %*f");
    strcat(input_token," %f");

      for(i=1;i<=fnodesx*fnodesz*fnodesy;i++) {
    /* check consistency & need for interpolation */


    free((void *)X);
    free((void *)Z);
    free((void *)Y);
    free((void *)filename);
    free((void *)input_token);


/* returns the out of plane component of the cross product of
   the two vectors assuming that one is looking AGAINST the
   direction of the axis of D, anti-clockwise angles
   are positive (are you sure ?), and the axes are ordered 2,3 or 1,3 or 1,2 */

float cross2d(x11,x12,x21,x22,D)
    float x11,x12,x21,x22;
    int D;
  float temp;
       temp = ( x11*x22-x12*x21);
       temp = (-x11*x22+x12*x21);
       temp = ( x11*x22-x12*x21);


/* =================================================
  my version of arc tan

double myatan(y,x)
 double y,x;
 double fi;

 fi = atan2(y,x);

 if (fi<0.0)
    fi += 2*M_PI;


double return1_test()
 return 1.0;
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