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/affyAllExonProbe.c src/hg/lib/affyAllExonProbe.c
index 536a87f..5ae329c 100644
--- src/hg/lib/affyAllExonProbe.c
+++ src/hg/lib/affyAllExonProbe.c
@@ -1,224 +1,227 @@
 /* affyAllExonProbe.c was originally generated by the autoSql program, which also 
  * generated affyAllExonProbe.h and affyAllExonProbe.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 "affyAllExonProbe.h"
 
 
 void affyAllExonProbeStaticLoad(char **row, struct affyAllExonProbe *ret)
 /* Load a row from affyAllExonProbe table into ret.  The contents of ret will
  * be replaced at the next call to this function. */
 {
 
 ret->name = row[0];
 ret->numIndependentProbes = sqlUnsigned(row[1]);
 ret->exonClusterId = row[2];
 ret->numNonOverlapProbes = sqlUnsigned(row[3]);
 ret->probeCount = sqlUnsigned(row[4]);
 ret->transcriptClustId = row[5];
 ret->probesetType = sqlUnsigned(row[6]);
 ret->numXHybeProbe = sqlUnsigned(row[7]);
 ret->psrId = sqlUnsigned(row[8]);
 ret->level = row[9];
 ret->evidence = row[10];
 ret->bounded = sqlUnsigned(row[11]);
 ret->cds = sqlUnsigned(row[12]);
 }
 
 struct affyAllExonProbe *affyAllExonProbeLoad(char **row)
 /* Load a affyAllExonProbe from row fetched with select * from affyAllExonProbe
  * from database.  Dispose of this with affyAllExonProbeFree(). */
 {
 struct affyAllExonProbe *ret;
 
 AllocVar(ret);
 ret->name = cloneString(row[0]);
 ret->numIndependentProbes = sqlUnsigned(row[1]);
 ret->exonClusterId = cloneString(row[2]);
 ret->numNonOverlapProbes = sqlUnsigned(row[3]);
 ret->probeCount = sqlUnsigned(row[4]);
 ret->transcriptClustId = cloneString(row[5]);
 ret->probesetType = sqlUnsigned(row[6]);
 ret->numXHybeProbe = sqlUnsigned(row[7]);
 ret->psrId = sqlUnsigned(row[8]);
 ret->level = cloneString(row[9]);
 ret->evidence = cloneString(row[10]);
 ret->bounded = sqlUnsigned(row[11]);
 ret->cds = sqlUnsigned(row[12]);
 return ret;
 }
 
 struct affyAllExonProbe *affyAllExonProbeLoadAll(char *fileName) 
 /* Load all affyAllExonProbe from a whitespace-separated file.
  * Dispose of this with affyAllExonProbeFreeList(). */
 {
 struct affyAllExonProbe *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[13];
 
 while (lineFileRow(lf, row))
     {
     el = affyAllExonProbeLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct affyAllExonProbe *affyAllExonProbeLoadAllByChar(char *fileName, char chopper) 
 /* Load all affyAllExonProbe from a chopper separated file.
  * Dispose of this with affyAllExonProbeFreeList(). */
 {
 struct affyAllExonProbe *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[13];
 
 while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
     {
     el = affyAllExonProbeLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct affyAllExonProbe *affyAllExonProbeLoadByQuery(struct sqlConnection *conn, char *query)
 /* Load all affyAllExonProbe from table that satisfy the query given.  
  * Where query is of the form 'select * from example where something=something'
  * or 'select example.* from example, anotherTable where example.something = 
  * anotherTable.something'.
  * Dispose of this with affyAllExonProbeFreeList(). */
 {
 struct affyAllExonProbe *list = NULL, *el;
 struct sqlResult *sr;
 char **row;
 
 sr = sqlGetResult(conn, query);
 while ((row = sqlNextRow(sr)) != NULL)
     {
     el = affyAllExonProbeLoad(row);
     slAddHead(&list, el);
     }
 slReverse(&list);
 sqlFreeResult(&sr);
 return list;
 }
 
 void affyAllExonProbeSaveToDb(struct sqlConnection *conn, struct affyAllExonProbe *el, char *tableName, int updateSize)
 /* Save affyAllExonProbe as a row to the table specified by tableName. 
  * As blob fields may be arbitrary size updateSize specifies the approx size
  * of a string that would contain the entire query. Arrays of native types are
  * converted to comma separated strings and loaded as such, User defined types are
  * inserted as NULL. Strings are automatically escaped to allow insertion into the database. */
 {
 struct dyString *update = newDyString(updateSize);
 sqlDyStringPrintf(update, "insert into %s values ( '%s',%u,'%s',%u,%u,'%s',%u,%u,%u,'%s','%s',%u,%u)", 
 	tableName,  el->name,  el->numIndependentProbes,  el->exonClusterId,  el->numNonOverlapProbes,  el->probeCount,  el->transcriptClustId,  el->probesetType,  el->numXHybeProbe,  el->psrId,  el->level,  el->evidence,  el->bounded,  el->cds);
 sqlUpdate(conn, update->string);
 freeDyString(&update);
 }
 
 
 struct affyAllExonProbe *affyAllExonProbeCommaIn(char **pS, struct affyAllExonProbe *ret)
 /* Create a affyAllExonProbe out of a comma separated string. 
  * This will fill in ret if non-null, otherwise will
  * return a new affyAllExonProbe */
 {
 char *s = *pS;
 
 if (ret == NULL)
     AllocVar(ret);
 ret->name = sqlStringComma(&s);
 ret->numIndependentProbes = sqlUnsignedComma(&s);
 ret->exonClusterId = sqlStringComma(&s);
 ret->numNonOverlapProbes = sqlUnsignedComma(&s);
 ret->probeCount = sqlUnsignedComma(&s);
 ret->transcriptClustId = sqlStringComma(&s);
 ret->probesetType = sqlUnsignedComma(&s);
 ret->numXHybeProbe = sqlUnsignedComma(&s);
 ret->psrId = sqlUnsignedComma(&s);
 ret->level = sqlStringComma(&s);
 ret->evidence = sqlStringComma(&s);
 ret->bounded = sqlUnsignedComma(&s);
 ret->cds = sqlUnsignedComma(&s);
 *pS = s;
 return ret;
 }
 
 void affyAllExonProbeFree(struct affyAllExonProbe **pEl)
 /* Free a single dynamically allocated affyAllExonProbe such as created
  * with affyAllExonProbeLoad(). */
 {
 struct affyAllExonProbe *el;
 
 if ((el = *pEl) == NULL) return;
 freeMem(el->name);
 freeMem(el->exonClusterId);
 freeMem(el->transcriptClustId);
 freeMem(el->level);
 freeMem(el->evidence);
 freez(pEl);
 }
 
 void affyAllExonProbeFreeList(struct affyAllExonProbe **pList)
 /* Free a list of dynamically allocated affyAllExonProbe's */
 {
 struct affyAllExonProbe *el, *next;
 
 for (el = *pList; el != NULL; el = next)
     {
     next = el->next;
     affyAllExonProbeFree(&el);
     }
 *pList = NULL;
 }
 
 void affyAllExonProbeOutput(struct affyAllExonProbe *el, FILE *f, char sep, char lastSep) 
 /* Print out affyAllExonProbe.  Separate fields with sep. Follow last field with lastSep. */
 {
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->name);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->numIndependentProbes);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->exonClusterId);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->numNonOverlapProbes);
 fputc(sep,f);
 fprintf(f, "%u", el->probeCount);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->transcriptClustId);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->probesetType);
 fputc(sep,f);
 fprintf(f, "%u", el->numXHybeProbe);
 fputc(sep,f);
 fprintf(f, "%u", el->psrId);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->level);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->evidence);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->bounded);
 fputc(sep,f);
 fprintf(f, "%u", el->cds);
 fputc(lastSep,f);
 }
 
 /* -------------------------------- End autoSql Generated Code -------------------------------- */