e70152e44cc66cc599ff6b699eb8adc07f3e656a
kent
  Sat May 24 21:09:34 2014 -0700
Adding Copyright NNNN Regents of the University of California to all files I believe with reasonable certainty were developed under UCSC employ or as part of Genome Browser copyright assignment.
diff --git src/hg/lib/cpgIslandExt.c src/hg/lib/cpgIslandExt.c
index 3d0bd3a..68a4f87 100644
--- src/hg/lib/cpgIslandExt.c
+++ src/hg/lib/cpgIslandExt.c
@@ -1,163 +1,166 @@
 /* cpgIslandExt.c was originally generated by the autoSql program, which also 
  * generated cpgIslandExt.h and cpgIslandExt.sql.  This module links the database and
  * the RAM representation of objects. */
 
+/* Copyright (C) 2014 The Regents of the University of California 
+ * See README in this or parent directory for licensing information. */
+
 #include "common.h"
 #include "linefile.h"
 #include "dystring.h"
 #include "jksql.h"
 #include "cpgIslandExt.h"
 
 
 void cpgIslandExtStaticLoad(char **row, struct cpgIslandExt *ret)
 /* Load a row from cpgIslandExt table into ret.  The contents of ret will
  * be replaced at the next call to this function. */
 {
 
 ret->chrom = row[0];
 ret->chromStart = sqlUnsigned(row[1]);
 ret->chromEnd = sqlUnsigned(row[2]);
 ret->name = row[3];
 ret->length = sqlUnsigned(row[4]);
 ret->cpgNum = sqlUnsigned(row[5]);
 ret->gcNum = sqlUnsigned(row[6]);
 ret->perCpg = atof(row[7]);
 ret->perGc = atof(row[8]);
 ret->obsExp = atof(row[9]);
 }
 
 struct cpgIslandExt *cpgIslandExtLoad(char **row)
 /* Load a cpgIslandExt from row fetched with select * from cpgIslandExt
  * from database.  Dispose of this with cpgIslandExtFree(). */
 {
 struct cpgIslandExt *ret;
 
 AllocVar(ret);
 ret->chrom = cloneString(row[0]);
 ret->chromStart = sqlUnsigned(row[1]);
 ret->chromEnd = sqlUnsigned(row[2]);
 ret->name = cloneString(row[3]);
 ret->length = sqlUnsigned(row[4]);
 ret->cpgNum = sqlUnsigned(row[5]);
 ret->gcNum = sqlUnsigned(row[6]);
 ret->perCpg = atof(row[7]);
 ret->perGc = atof(row[8]);
 ret->obsExp = atof(row[9]);
 return ret;
 }
 
 struct cpgIslandExt *cpgIslandExtLoadAll(char *fileName) 
 /* Load all cpgIslandExt from a whitespace-separated file.
  * Dispose of this with cpgIslandExtFreeList(). */
 {
 struct cpgIslandExt *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[10];
 
 while (lineFileRow(lf, row))
     {
     el = cpgIslandExtLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct cpgIslandExt *cpgIslandExtLoadAllByChar(char *fileName, char chopper) 
 /* Load all cpgIslandExt from a chopper separated file.
  * Dispose of this with cpgIslandExtFreeList(). */
 {
 struct cpgIslandExt *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[10];
 
 while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
     {
     el = cpgIslandExtLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct cpgIslandExt *cpgIslandExtCommaIn(char **pS, struct cpgIslandExt *ret)
 /* Create a cpgIslandExt out of a comma separated string. 
  * This will fill in ret if non-null, otherwise will
  * return a new cpgIslandExt */
 {
 char *s = *pS;
 
 if (ret == NULL)
     AllocVar(ret);
 ret->chrom = sqlStringComma(&s);
 ret->chromStart = sqlUnsignedComma(&s);
 ret->chromEnd = sqlUnsignedComma(&s);
 ret->name = sqlStringComma(&s);
 ret->length = sqlUnsignedComma(&s);
 ret->cpgNum = sqlUnsignedComma(&s);
 ret->gcNum = sqlUnsignedComma(&s);
 ret->perCpg = sqlFloatComma(&s);
 ret->perGc = sqlFloatComma(&s);
 ret->obsExp = sqlFloatComma(&s);
 *pS = s;
 return ret;
 }
 
 void cpgIslandExtFree(struct cpgIslandExt **pEl)
 /* Free a single dynamically allocated cpgIslandExt such as created
  * with cpgIslandExtLoad(). */
 {
 struct cpgIslandExt *el;
 
 if ((el = *pEl) == NULL) return;
 freeMem(el->chrom);
 freeMem(el->name);
 freez(pEl);
 }
 
 void cpgIslandExtFreeList(struct cpgIslandExt **pList)
 /* Free a list of dynamically allocated cpgIslandExt's */
 {
 struct cpgIslandExt *el, *next;
 
 for (el = *pList; el != NULL; el = next)
     {
     next = el->next;
     cpgIslandExtFree(&el);
     }
 *pList = NULL;
 }
 
 void cpgIslandExtOutput(struct cpgIslandExt *el, FILE *f, char sep, char lastSep) 
 /* Print out cpgIslandExt.  Separate fields with sep. Follow last field with lastSep. */
 {
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->chrom);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->chromStart);
 fputc(sep,f);
 fprintf(f, "%u", el->chromEnd);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->name);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->length);
 fputc(sep,f);
 fprintf(f, "%u", el->cpgNum);
 fputc(sep,f);
 fprintf(f, "%u", el->gcNum);
 fputc(sep,f);
 fprintf(f, "%f", el->perCpg);
 fputc(sep,f);
 fprintf(f, "%f", el->perGc);
 fputc(sep,f);
 fprintf(f, "%f", el->obsExp);
 fputc(lastSep,f);
 }
 
 /* -------------------------------- End autoSql Generated Code -------------------------------- */