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/jgiGene.c src/hg/lib/jgiGene.c
index 4b6be1f..792c3c5 100644
--- src/hg/lib/jgiGene.c
+++ src/hg/lib/jgiGene.c
@@ -1,174 +1,177 @@
 /* jgiGene.c was originally generated by the autoSql program, which also 
  * generated jgiGene.h and jgiGene.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 "jgiGene.h"
 
 
 void jgiGeneStaticLoad(char **row, struct jgiGene *ret)
 /* Load a row from jgiGene 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->score = sqlUnsigned(row[4]);
 safecpy(ret->strand, sizeof(ret->strand), row[5]);
 ret->jgiGeneId = row[6];
 ret->jgiSymbol = row[7];
 ret->jgiGc = sqlFloat(row[8]);
 ret->jgiDescription = row[9];
 }
 
 struct jgiGene *jgiGeneLoad(char **row)
 /* Load a jgiGene from row fetched with select * from jgiGene
  * from database.  Dispose of this with jgiGeneFree(). */
 {
 struct jgiGene *ret;
 
 AllocVar(ret);
 ret->chrom = cloneString(row[0]);
 ret->chromStart = sqlUnsigned(row[1]);
 ret->chromEnd = sqlUnsigned(row[2]);
 ret->name = cloneString(row[3]);
 ret->score = sqlUnsigned(row[4]);
 safecpy(ret->strand, sizeof(ret->strand), row[5]);
 ret->jgiGeneId = cloneString(row[6]);
 ret->jgiSymbol = cloneString(row[7]);
 ret->jgiGc = sqlFloat(row[8]);
 ret->jgiDescription = cloneString(row[9]);
 return ret;
 }
 
 struct jgiGene *jgiGeneLoadAll(char *fileName) 
 /* Load all jgiGene from a whitespace-separated file.
  * Dispose of this with jgiGeneFreeList(). */
 {
 struct jgiGene *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[10];
 
 while (lineFileRow(lf, row))
     {
     el = jgiGeneLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct jgiGene *jgiGeneLoadAllByChar(char *fileName, char chopper) 
 /* Load all jgiGene from a chopper separated file.
  * Dispose of this with jgiGeneFreeList(). */
 {
 struct jgiGene *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[10];
 
 while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
     {
     el = jgiGeneLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct jgiGene *jgiGeneCommaIn(char **pS, struct jgiGene *ret)
 /* Create a jgiGene out of a comma separated string. 
  * This will fill in ret if non-null, otherwise will
  * return a new jgiGene */
 {
 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->score = sqlUnsignedComma(&s);
 sqlFixedStringComma(&s, ret->strand, sizeof(ret->strand));
 ret->jgiGeneId = sqlStringComma(&s);
 ret->jgiSymbol = sqlStringComma(&s);
 ret->jgiGc = sqlFloatComma(&s);
 ret->jgiDescription = sqlStringComma(&s);
 *pS = s;
 return ret;
 }
 
 void jgiGeneFree(struct jgiGene **pEl)
 /* Free a single dynamically allocated jgiGene such as created
  * with jgiGeneLoad(). */
 {
 struct jgiGene *el;
 
 if ((el = *pEl) == NULL) return;
 freeMem(el->chrom);
 freeMem(el->name);
 freeMem(el->jgiGeneId);
 freeMem(el->jgiSymbol);
 freeMem(el->jgiDescription);
 freez(pEl);
 }
 
 void jgiGeneFreeList(struct jgiGene **pList)
 /* Free a list of dynamically allocated jgiGene's */
 {
 struct jgiGene *el, *next;
 
 for (el = *pList; el != NULL; el = next)
     {
     next = el->next;
     jgiGeneFree(&el);
     }
 *pList = NULL;
 }
 
 void jgiGeneOutput(struct jgiGene *el, FILE *f, char sep, char lastSep) 
 /* Print out jgiGene.  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->score);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->strand);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->jgiGeneId);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->jgiSymbol);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%g", el->jgiGc);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->jgiDescription);
 if (sep == ',') fputc('"',f);
 fputc(lastSep,f);
 }
 
 /* -------------------------------- End autoSql Generated Code -------------------------------- */