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cox_Rcallback.c

/*
**  SCCS  @(#)cox_Rcallback.c 1.1 06/06/97
** callback routines for the coxph frailty interface
*** This is completely  rewritten for R (TSL April 99)
*/
#include "S.h"
#include "Rinternals.h"

/*
** This part is called by the coxfit4 function, to get the penalty terms
*/

/**
*** We need to call fexpr in environment rho in R
*** These return lists, which need to be processed to get at the elements
*** They are passed in to coxfit4_a as void * and cast to  SEXPs there. 
***
*** Also, we pass in the length of coef rather than messing about in
*** the calling environment to find it.
**/

void cox_callback (which, coef, first, second, penalty, flag, p, fexpr,rho)
int which;
double *coef, *first, *second;
double *penalty;
int *flag,p; 
SEXP fexpr,rho;
{
    SEXP coxlist, temp,data,index;
    int i;

    /** copy coef into R vector */

    PROTECT(data=allocVector(REALSXP,p));
    for (i=0;i<p;i++){
      REAL(data)[i]=coef[i];
      }

    /** eval function */
    PROTECT(coxlist=eval(lang2(fexpr,data),rho));
    UNPROTECT(2);
    PROTECT(coxlist);
    /* stick it back in the calling frame */
    if (which==1)
      setVar(install("coxlist1"),coxlist,rho);
    else
      setVar(install("coxlist2"),coxlist,rho);
   /* Grab the updated values from the list */
    PROTECT(index=mkString("coef"));
    PROTECT(temp=lang3(install("[["),coxlist,index));
    PROTECT(data=eval(temp,rho));
    if (!isNumeric(data))
                error("coef:invalid type\n");
    for (i=0;i<length(data);i++){
      coef[i]=REAL(data)[i];
    }
    UNPROTECT(3);
    PROTECT(index=mkString("first"));
    PROTECT(temp=lang3(install("[["),coxlist,index));
    PROTECT(data=eval(temp,rho));
    if (!isNumeric(data))
                error("first: invalid type\n");
    for (i=0;i<length(data);i++){
      first[i]=REAL(data)[i];
      /* printf("%g,",first[i]);*/
    }
    UNPROTECT(3);
    PROTECT(index=mkString("second"));
    PROTECT(temp=lang3(install("[["),coxlist,index));
    PROTECT(data=eval(temp,rho));
    if (!isNumeric(data))
                error("second: invalid type\n");
    for (i=0;i<length(data);i++){
      second[i]=REAL(data)[i];
    }
    UNPROTECT(3);
    PROTECT(index=mkString("flag"));
    PROTECT(temp=lang3(install("[["),coxlist,index));
    PROTECT(data=eval(temp,rho));
    if (!(isInteger(data) | isLogical(data)))
                error("flag:invalid type\n");
    for (i=0;i<length(data);i++){
      flag[i]=LOGICAL(data)[i];
    }
    UNPROTECT(3);
    PROTECT(index=mkString("penalty"));
    PROTECT(temp=lang3(install("[["),coxlist,index));
    PROTECT(data=eval(temp,rho));
    if (!isNumeric(data))
                error("penalty: invalid type\n");
    for (i=0;i<length(data);i++){
      penalty[i]=REAL(data)[i];
    }
    UNPROTECT(3);
    /* clean up */
    UNPROTECT(1); /*coxlist*/

}











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