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/dgvPlus.c src/hg/lib/dgvPlus.c
index 7379746..e4566f5 100644
--- src/hg/lib/dgvPlus.c
+++ src/hg/lib/dgvPlus.c
@@ -1,255 +1,258 @@
 /* dgvPlus.c was originally generated by the autoSql program, which also 
  * generated dgvPlus.h and dgvPlus.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 "dgvPlus.h"
 
 
 
 char *dgvPlusCommaSepFieldNames = "chrom,chromStart,chromEnd,name,score,strand,thickStart,thickEnd,itemRgb,varType,reference,pubMedId,method,platform,mergedVariants,supportingVariants,sampleSize,observedGains,observedLosses,cohortDescription,genes,samples";
 
 void dgvPlusStaticLoad(char **row, struct dgvPlus *ret)
 /* Load a row from dgvPlus 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->thickStart = sqlUnsigned(row[6]);
 ret->thickEnd = sqlUnsigned(row[7]);
 ret->itemRgb = sqlUnsigned(row[8]);
 ret->varType = row[9];
 ret->reference = row[10];
 ret->pubMedId = sqlUnsigned(row[11]);
 ret->method = row[12];
 ret->platform = row[13];
 ret->mergedVariants = row[14];
 ret->supportingVariants = row[15];
 ret->sampleSize = sqlUnsigned(row[16]);
 ret->observedGains = sqlUnsigned(row[17]);
 ret->observedLosses = sqlUnsigned(row[18]);
 ret->cohortDescription = row[19];
 ret->genes = row[20];
 ret->samples = row[21];
 }
 
 struct dgvPlus *dgvPlusLoad(char **row)
 /* Load a dgvPlus from row fetched with select * from dgvPlus
  * from database.  Dispose of this with dgvPlusFree(). */
 {
 struct dgvPlus *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->thickStart = sqlUnsigned(row[6]);
 ret->thickEnd = sqlUnsigned(row[7]);
 ret->itemRgb = sqlUnsigned(row[8]);
 ret->varType = cloneString(row[9]);
 ret->reference = cloneString(row[10]);
 ret->pubMedId = sqlUnsigned(row[11]);
 ret->method = cloneString(row[12]);
 ret->platform = cloneString(row[13]);
 ret->mergedVariants = cloneString(row[14]);
 ret->supportingVariants = cloneString(row[15]);
 ret->sampleSize = sqlUnsigned(row[16]);
 ret->observedGains = sqlUnsigned(row[17]);
 ret->observedLosses = sqlUnsigned(row[18]);
 ret->cohortDescription = cloneString(row[19]);
 ret->genes = cloneString(row[20]);
 ret->samples = cloneString(row[21]);
 return ret;
 }
 
 struct dgvPlus *dgvPlusLoadAll(char *fileName) 
 /* Load all dgvPlus from a whitespace-separated file.
  * Dispose of this with dgvPlusFreeList(). */
 {
 struct dgvPlus *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[22];
 
 while (lineFileRow(lf, row))
     {
     el = dgvPlusLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct dgvPlus *dgvPlusLoadAllByChar(char *fileName, char chopper) 
 /* Load all dgvPlus from a chopper separated file.
  * Dispose of this with dgvPlusFreeList(). */
 {
 struct dgvPlus *list = NULL, *el;
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *row[22];
 
 while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
     {
     el = dgvPlusLoad(row);
     slAddHead(&list, el);
     }
 lineFileClose(&lf);
 slReverse(&list);
 return list;
 }
 
 struct dgvPlus *dgvPlusCommaIn(char **pS, struct dgvPlus *ret)
 /* Create a dgvPlus out of a comma separated string. 
  * This will fill in ret if non-null, otherwise will
  * return a new dgvPlus */
 {
 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->thickStart = sqlUnsignedComma(&s);
 ret->thickEnd = sqlUnsignedComma(&s);
 ret->itemRgb = sqlUnsignedComma(&s);
 ret->varType = sqlStringComma(&s);
 ret->reference = sqlStringComma(&s);
 ret->pubMedId = sqlUnsignedComma(&s);
 ret->method = sqlStringComma(&s);
 ret->platform = sqlStringComma(&s);
 ret->mergedVariants = sqlStringComma(&s);
 ret->supportingVariants = sqlStringComma(&s);
 ret->sampleSize = sqlUnsignedComma(&s);
 ret->observedGains = sqlUnsignedComma(&s);
 ret->observedLosses = sqlUnsignedComma(&s);
 ret->cohortDescription = sqlStringComma(&s);
 ret->genes = sqlStringComma(&s);
 ret->samples = sqlStringComma(&s);
 *pS = s;
 return ret;
 }
 
 void dgvPlusFree(struct dgvPlus **pEl)
 /* Free a single dynamically allocated dgvPlus such as created
  * with dgvPlusLoad(). */
 {
 struct dgvPlus *el;
 
 if ((el = *pEl) == NULL) return;
 freeMem(el->chrom);
 freeMem(el->name);
 freeMem(el->varType);
 freeMem(el->reference);
 freeMem(el->method);
 freeMem(el->platform);
 freeMem(el->mergedVariants);
 freeMem(el->supportingVariants);
 freeMem(el->cohortDescription);
 freeMem(el->genes);
 freeMem(el->samples);
 freez(pEl);
 }
 
 void dgvPlusFreeList(struct dgvPlus **pList)
 /* Free a list of dynamically allocated dgvPlus's */
 {
 struct dgvPlus *el, *next;
 
 for (el = *pList; el != NULL; el = next)
     {
     next = el->next;
     dgvPlusFree(&el);
     }
 *pList = NULL;
 }
 
 void dgvPlusOutput(struct dgvPlus *el, FILE *f, char sep, char lastSep) 
 /* Print out dgvPlus.  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);
 fprintf(f, "%u", el->thickStart);
 fputc(sep,f);
 fprintf(f, "%u", el->thickEnd);
 fputc(sep,f);
 fprintf(f, "%u", el->itemRgb);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->varType);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->reference);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->pubMedId);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->method);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->platform);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->mergedVariants);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->supportingVariants);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 fprintf(f, "%u", el->sampleSize);
 fputc(sep,f);
 fprintf(f, "%u", el->observedGains);
 fputc(sep,f);
 fprintf(f, "%u", el->observedLosses);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->cohortDescription);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->genes);
 if (sep == ',') fputc('"',f);
 fputc(sep,f);
 if (sep == ',') fputc('"',f);
 fprintf(f, "%s", el->samples);
 if (sep == ',') fputc('"',f);
 fputc(lastSep,f);
 }
 
 /* -------------------------------- End autoSql Generated Code -------------------------------- */