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/genMapDb.c src/hg/lib/genMapDb.c
index 1446e16..8bbacb0 100644
--- src/hg/lib/genMapDb.c
+++ src/hg/lib/genMapDb.c
@@ -1,218 +1,221 @@
 /* genMapDb.c was originally generated by the autoSql program, which also 
  * generated genMapDb.h and genMapDb.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 "genMapDb.h"
 
 
 void genMapDbStaticLoad(char **row, struct genMapDb *ret)
 /* Load a row from genMapDb table into ret.  The contents of ret will
  * be replaced at the next call to this function. */
 {
 
 ret->chrom = row[0];
 ret->chromStart = sqlSigned(row[1]);
 ret->chromEnd = sqlUnsigned(row[2]);
 ret->name = row[3];
 ret->score = sqlUnsigned(row[4]);
 strcpy(ret->strand, row[5]);
 ret->accT7 = row[6];
 ret->startT7 = sqlUnsigned(row[7]);
 ret->endT7 = sqlUnsigned(row[8]);
 strcpy(ret->strandT7, row[9]);
 ret->accSP6 = row[10];
 ret->startSP6 = sqlUnsigned(row[11]);
 ret->endSP6 = sqlUnsigned(row[12]);
 strcpy(ret->strandSP6, row[13]);
 ret->stsMarker = row[14];
 ret->stsStart = sqlUnsigned(row[15]);
 ret->stsEnd = sqlUnsigned(row[16]);
 }
 
 struct genMapDb *genMapDbLoad(char **row)
 /* Load a genMapDb from row fetched with select * from genMapDb
  * from database.  Dispose of this with genMapDbFree(). */
 {
 struct genMapDb *ret;
 
 AllocVar(ret);
 ret->chrom = cloneString(row[0]);
 ret->chromStart = sqlSigned(row[1]);
 ret->chromEnd = sqlUnsigned(row[2]);
 ret->name = cloneString(row[3]);
 ret->score = sqlUnsigned(row[4]);
 strcpy(ret->strand, row[5]);
 ret->accT7 = cloneString(row[6]);
 ret->startT7 = sqlUnsigned(row[7]);
 ret->endT7 = sqlUnsigned(row[8]);
 strcpy(ret->strandT7, row[9]);
 ret->accSP6 = cloneString(row[10]);
 ret->startSP6 = sqlUnsigned(row[11]);
 ret->endSP6 = sqlUnsigned(row[12]);
 strcpy(ret->strandSP6, row[13]);
 ret->stsMarker = cloneString(row[14]);
 ret->stsStart = sqlUnsigned(row[15]);
 ret->stsEnd = sqlUnsigned(row[16]);
 return ret;
 }
 
 struct genMapDb *genMapDbLoadAll(char *fileName) 
 /* Load all genMapDb from a tab-separated file.
  * Dispose of this with genMapDbFreeList(). */
 {
 struct genMapDb *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[17];
 
 while (lineFileRow(lf, row))
     {
     el = genMapDbLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct genMapDb *genMapDbLoadWhere(struct sqlConnection *conn, char *table, char *where)
 /* Load all genMapDb from table that satisfy where clause. The
  * where clause may be NULL in which case whole table is loaded
  * Dispose of this with genMapDbFreeList(). */
 {
 struct genMapDb *list = NULL, *el;
 struct dyString *query = dyStringNew(256);
 struct sqlResult *sr;
 char **row;
 
 sqlDyStringPrintf(query, "select * from %s", table);
 if (where != NULL)
     dyStringPrintf(query, " where %s", where);
 sr = sqlGetResult(conn, query->string);
 while ((row = sqlNextRow(sr)) != NULL)
     {
     el = genMapDbLoad(row);
     slAddHead(&list, el);
     }
 slReverse(&list);
 sqlFreeResult(&sr);
 dyStringFree(&query);
 return list;
 }
 
 struct genMapDb *genMapDbCommaIn(char **pS, struct genMapDb *ret)
 /* Create a genMapDb out of a comma separated string. 
  * This will fill in ret if non-null, otherwise will
  * return a new genMapDb */
 {
 char *s = *pS;
 
 if (ret == NULL)
     AllocVar(ret);
 ret->chrom = sqlStringComma(&s);
 ret->chromStart = sqlSignedComma(&s);
 ret->chromEnd = sqlUnsignedComma(&s);
 ret->name = sqlStringComma(&s);
 ret->score = sqlUnsignedComma(&s);
 sqlFixedStringComma(&s, ret->strand, sizeof(ret->strand));
 ret->accT7 = sqlStringComma(&s);
 ret->startT7 = sqlUnsignedComma(&s);
 ret->endT7 = sqlUnsignedComma(&s);
 sqlFixedStringComma(&s, ret->strandT7, sizeof(ret->strandT7));
 ret->accSP6 = sqlStringComma(&s);
 ret->startSP6 = sqlUnsignedComma(&s);
 ret->endSP6 = sqlUnsignedComma(&s);
 sqlFixedStringComma(&s, ret->strandSP6, sizeof(ret->strandSP6));
 ret->stsMarker = sqlStringComma(&s);
 ret->stsStart = sqlUnsignedComma(&s);
 ret->stsEnd = sqlUnsignedComma(&s);
 *pS = s;
 return ret;
 }
 
 void genMapDbFree(struct genMapDb **pEl)
 /* Free a single dynamically allocated genMapDb such as created
  * with genMapDbLoad(). */
 {
 struct genMapDb *el;
 
 if ((el = *pEl) == NULL) return;
 freeMem(el->chrom);
 freeMem(el->name);
 freeMem(el->accT7);
 freeMem(el->accSP6);
 freeMem(el->stsMarker);
 freez(pEl);
 }
 
 void genMapDbFreeList(struct genMapDb **pList)
 /* Free a list of dynamically allocated genMapDb's */
 {
 struct genMapDb *el, *next;
 
 for (el = *pList; el != NULL; el = next)
     {
     next = el->next;
     genMapDbFree(&el);
     }
 *pList = NULL;
 }
 
 void genMapDbOutput(struct genMapDb *el, FILE *f, char sep, char lastSep) 
 /* Print out genMapDb.  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, "%d", 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->accT7);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->startT7);
 fputc(sep,f);
 fprintf(f, "%u", el->endT7);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->strandT7);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->accSP6);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->startSP6);
 fputc(sep,f);
 fprintf(f, "%u", el->endSP6);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->strandSP6);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->stsMarker);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->stsStart);
 fputc(sep,f);
 fprintf(f, "%u", el->stsEnd);
 fputc(lastSep,f);
 }