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/splignAlign.c src/hg/lib/splignAlign.c
index 98c177d..5a59bcd 100644
--- src/hg/lib/splignAlign.c
+++ src/hg/lib/splignAlign.c
@@ -1,169 +1,172 @@
 /* splignAlign.c was originally generated by the autoSql program, which also 
  * generated splignAlign.h and splignAlign.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 "splignAlign.h"
 
 
 void splignAlignStaticLoad(char **row, struct splignAlign *ret)
 /* Load a row from splignAlign table into ret.  The contents of ret will
  * be replaced at the next call to this function. */
 {
 
 ret->query = row[0];
 ret->target = row[1];
 ret->perId = atof(row[2]);
 ret->match = sqlSigned(row[3]);
 ret->qStart = sqlSigned(row[4]);
 ret->qEnd = sqlSigned(row[5]);
 ret->tStart = sqlSigned(row[6]);
 ret->tEnd = sqlSigned(row[7]);
 ret->type = row[8];
 ret->anotation = row[9];
 }
 
 struct splignAlign *splignAlignLoad(char **row)
 /* Load a splignAlign from row fetched with select * from splignAlign
  * from database.  Dispose of this with splignAlignFree(). */
 {
 struct splignAlign *ret;
 
 AllocVar(ret);
 ret->query = cloneString(row[0]);
 ret->target = cloneString(row[1]);
 ret->perId = atof(row[2]);
 ret->match = sqlSigned(row[3]);
 ret->qStart = sqlSigned(row[4]);
 ret->qEnd = sqlSigned(row[5]);
 ret->tStart = sqlSigned(row[6]);
 ret->tEnd = sqlSigned(row[7]);
 ret->type = cloneString(row[8]);
 ret->anotation = cloneString(row[9]);
 return ret;
 }
 
 struct splignAlign *splignAlignLoadAll(char *fileName) 
 /* Load all splignAlign from a whitespace-separated file.
  * Dispose of this with splignAlignFreeList(). */
 {
 struct splignAlign *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[10];
 
 while (lineFileRow(lf, row))
     {
     el = splignAlignLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct splignAlign *splignAlignLoadAllByChar(char *fileName, char chopper) 
 /* Load all splignAlign from a chopper separated file.
  * Dispose of this with splignAlignFreeList(). */
 {
 struct splignAlign *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[10];
 
 while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
     {
     el = splignAlignLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct splignAlign *splignAlignCommaIn(char **pS, struct splignAlign *ret)
 /* Create a splignAlign out of a comma separated string. 
  * This will fill in ret if non-null, otherwise will
  * return a new splignAlign */
 {
 char *s = *pS;
 
 if (ret == NULL)
     AllocVar(ret);
 ret->query = sqlStringComma(&s);
 ret->target = sqlStringComma(&s);
 ret->perId = sqlFloatComma(&s);
 ret->match = sqlSignedComma(&s);
 ret->qStart = sqlSignedComma(&s);
 ret->qEnd = sqlSignedComma(&s);
 ret->tStart = sqlSignedComma(&s);
 ret->tEnd = sqlSignedComma(&s);
 ret->type = sqlStringComma(&s);
 ret->anotation = sqlStringComma(&s);
 *pS = s;
 return ret;
 }
 
 void splignAlignFree(struct splignAlign **pEl)
 /* Free a single dynamically allocated splignAlign such as created
  * with splignAlignLoad(). */
 {
 struct splignAlign *el;
 
 if ((el = *pEl) == NULL) return;
 freeMem(el->query);
 freeMem(el->target);
 freeMem(el->type);
 freeMem(el->anotation);
 freez(pEl);
 }
 
 void splignAlignFreeList(struct splignAlign **pList)
 /* Free a list of dynamically allocated splignAlign's */
 {
 struct splignAlign *el, *next;
 
 for (el = *pList; el != NULL; el = next)
     {
     next = el->next;
     splignAlignFree(&el);
     }
 *pList = NULL;
 }
 
 void splignAlignOutput(struct splignAlign *el, FILE *f, char sep, char lastSep) 
 /* Print out splignAlign.  Separate fields with sep. Follow last field with lastSep. */
 {
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->query);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->target);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%f", el->perId);
 fputc(sep,f);
 fprintf(f, "%d", el->match);
 fputc(sep,f);
 fprintf(f, "%d", el->qStart);
 fputc(sep,f);
 fprintf(f, "%d", el->qEnd);
 fputc(sep,f);
 fprintf(f, "%d", el->tStart);
 fputc(sep,f);
 fprintf(f, "%d", el->tEnd);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->type);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->anotation);
 if (sep == ',') fputc('"',f);
 fputc(lastSep,f);
 }
 
 /* -------------------------------- End autoSql Generated Code -------------------------------- */