text: /* snpFasta.c was originally generated by the autoSql program, which also 
   * generated snpFasta.h and snpFasta.sql.  This module links the database and
   * the RAM representation of objects. */
  
  #include "common.h"
  #include "linefile.h"
  #include "dystring.h"
  #include "jksql.h"
  #include "snpFasta.h"
  
  
  void snpFastaStaticLoad(char **row, struct snpFasta *ret)
  /* Load a row from snpFasta table into ret.  The contents of ret will
   * be replaced at the next call to this function. */
  {
  
  ret->rsId = row[0];
  ret->chrom = row[1];
  ret->molType = row[2];
  ret->class = row[3];
  ret->observed = row[4];
  ret->leftFlank = row[5];
  ret->rightFlank = row[6];
  }
  
  struct snpFasta *snpFastaLoad(char **row)
  /* Load a snpFasta from row fetched with select * from snpFasta
   * from database.  Dispose of this with snpFastaFree(). */
  {
  struct snpFasta *ret;
  
  AllocVar(ret);
  ret->rsId = cloneString(row[0]);
  ret->chrom = cloneString(row[1]);
  ret->molType = cloneString(row[2]);
  ret->class = cloneString(row[3]);
  ret->observed = cloneString(row[4]);
  ret->leftFlank = cloneString(row[5]);
  ret->rightFlank = cloneString(row[6]);
  return ret;
  }
  
  struct snpFasta *snpFastaLoadAll(char *fileName) 
  /* Load all snpFasta from a whitespace-separated file.
   * Dispose of this with snpFastaFreeList(). */
  {
  struct snpFasta *list = NULL, *el;
  struct lineFile *lf = lineFileOpen(fileName, TRUE);
  char *row[7];
  
  while (lineFileRow(lf, row))
      {
      el = snpFastaLoad(row);
      slAddHead(&list, el);
      }
  lineFileClose(&lf);
  slReverse(&list);
  return list;
  }
  
  struct snpFasta *snpFastaLoadAllByChar(char *fileName, char chopper) 
  /* Load all snpFasta from a chopper separated file.
   * Dispose of this with snpFastaFreeList(). */
  {
  struct snpFasta *list = NULL, *el;
  struct lineFile *lf = lineFileOpen(fileName, TRUE);
  char *row[7];
  
  while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
      {
      el = snpFastaLoad(row);
      slAddHead(&list, el);
      }
  lineFileClose(&lf);
  slReverse(&list);
  return list;
  }
  
  struct snpFasta *snpFastaCommaIn(char **pS, struct snpFasta *ret)
  /* Create a snpFasta out of a comma separated string. 
   * This will fill in ret if non-null, otherwise will
   * return a new snpFasta */
  {
  char *s = *pS;
  
  if (ret == NULL)
      AllocVar(ret);
  ret->rsId = sqlStringComma(&s);
  ret->chrom = sqlStringComma(&s);
  ret->molType = sqlStringComma(&s);
  ret->class = sqlStringComma(&s);
  ret->observed = sqlStringComma(&s);
  ret->leftFlank = sqlStringComma(&s);
  ret->rightFlank = sqlStringComma(&s);
  *pS = s;
  return ret;
  }
  
  void snpFastaFree(struct snpFasta **pEl)
  /* Free a single dynamically allocated snpFasta such as created
   * with snpFastaLoad(). */
  {
  struct snpFasta *el;
  
  if ((el = *pEl) == NULL) return;
  freeMem(el->rsId);
  freeMem(el->chrom);
  freeMem(el->molType);
  freeMem(el->class);
  freeMem(el->observed);
  freeMem(el->leftFlank);
  freeMem(el->rightFlank);
  freez(pEl);
  }
  
  void snpFastaFreeList(struct snpFasta **pList)
  /* Free a list of dynamically allocated snpFasta's */
  {
  struct snpFasta *el, *next;
  
  for (el = *pList; el != NULL; el = next)
      {
      next = el->next;
      snpFastaFree(&el);
      }
  *pList = NULL;
  }
  
  void snpFastaOutput(struct snpFasta *el, FILE *f, char sep, char lastSep) 
  /* Print out snpFasta.  Separate fields with sep. Follow last field with lastSep. */
  {
  if (sep == ',') fputc('"',f);
  fprintf(f, "%s", el->rsId);
  if (sep == ',') fputc('"',f);
  fputc(sep,f);
  if (sep == ',') fputc('"',f);
  fprintf(f, "%s", el->chrom);
  if (sep == ',') fputc('"',f);
  fputc(sep,f);
  if (sep == ',') fputc('"',f);
  fprintf(f, "%s", el->molType);
  if (sep == ',') fputc('"',f);
  fputc(sep,f);
  if (sep == ',') fputc('"',f);
  fprintf(f, "%s", el->class);
  if (sep == ',') fputc('"',f);
  fputc(sep,f);
  if (sep == ',') fputc('"',f);
  fprintf(f, "%s", el->observed);
  if (sep == ',') fputc('"',f);
  fputc(sep,f);
  if (sep == ',') fputc('"',f);
  fprintf(f, "%s", el->leftFlank);
  if (sep == ',') fputc('"',f);
  fputc(sep,f);
  if (sep == ',') fputc('"',f);
  fprintf(f, "%s", el->rightFlank);
  if (sep == ',') fputc('"',f);
  fputc(lastSep,f);
  }
  
  /* -------------------------------- End autoSql Generated Code -------------------------------- */
  
  void snpFastaTableCreate(struct sqlConnection *conn)
  /* create a snpFasta table */
  {
  char *createString =
  "NOSQLINJ CREATE TABLE snpFasta (\n"
  "    rsId varchar(255) not null,       \n"
  "    chrom varchar(255) not null,       \n"
  "    molType varchar(255) not null, \n"
  "    class varchar(255) not null, \n"
  "    observed longblob not null, \n"
  "    leftFlank longblob not null, \n"
  "    rightFlank longblob not null, \n"
  "    INDEX rsId(rsId(12))\n"
  ");\n";
  
  sqlRemakeTable(conn, "snpFasta", createString);
  }
  
  