src/hg/lib/alignInfo.c 1.1

Index: src/hg/lib/alignInfo.c
===================================================================
RCS file: src/hg/lib/alignInfo.c
diff -N src/hg/lib/alignInfo.c
--- /dev/null	1 Jan 1970 00:00:00 -0000
+++ src/hg/lib/alignInfo.c	9 Sep 2009 00:28:27 -0000	1.1
@@ -0,0 +1,177 @@
+/* alignInfo.c was originally generated by the autoSql program, which also 
+ * generated alignInfo.h and alignInfo.sql.  This module links the database and
+ * the RAM representation of objects. */
+
+#include "common.h"
+#include "linefile.h"
+#include "dystring.h"
+#include "jksql.h"
+#include "alignInfo.h"
+
+static char const rcsid[] = "$Id$";
+
+void alignInfoStaticLoad(char **row, struct alignInfo *ret)
+/* Load a row from alignInfo 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->hasmatch = sqlUnsigned(row[6]);
+ret->orgn = row[7];
+ret->alignChrom = row[8];
+ret->alignChromStart = sqlUnsigned(row[9]);
+ret->alignChromEnd = sqlUnsigned(row[10]);
+}
+
+struct alignInfo *alignInfoLoad(char **row)
+/* Load a alignInfo from row fetched with select * from alignInfo
+ * from database.  Dispose of this with alignInfoFree(). */
+{
+struct alignInfo *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->hasmatch = sqlUnsigned(row[6]);
+ret->orgn = cloneString(row[7]);
+ret->alignChrom = cloneString(row[8]);
+ret->alignChromStart = sqlUnsigned(row[9]);
+ret->alignChromEnd = sqlUnsigned(row[10]);
+return ret;
+}
+
+struct alignInfo *alignInfoLoadAll(char *fileName) 
+/* Load all alignInfo from a whitespace-separated file.
+ * Dispose of this with alignInfoFreeList(). */
+{
+struct alignInfo *list = NULL, *el;
+struct lineFile *lf = lineFileOpen(fileName, TRUE);
+char *row[11];
+
+while (lineFileRow(lf, row))
+    {
+    el = alignInfoLoad(row);
+    slAddHead(&list, el);
+    }
+lineFileClose(&lf);
+slReverse(&list);
+return list;
+}
+
+struct alignInfo *alignInfoLoadAllByChar(char *fileName, char chopper) 
+/* Load all alignInfo from a chopper separated file.
+ * Dispose of this with alignInfoFreeList(). */
+{
+struct alignInfo *list = NULL, *el;
+struct lineFile *lf = lineFileOpen(fileName, TRUE);
+char *row[11];
+
+while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
+    {
+    el = alignInfoLoad(row);
+    slAddHead(&list, el);
+    }
+lineFileClose(&lf);
+slReverse(&list);
+return list;
+}
+
+struct alignInfo *alignInfoCommaIn(char **pS, struct alignInfo *ret)
+/* Create a alignInfo out of a comma separated string. 
+ * This will fill in ret if non-null, otherwise will
+ * return a new alignInfo */
+{
+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->hasmatch = sqlUnsignedComma(&s);
+ret->orgn = sqlStringComma(&s);
+ret->alignChrom = sqlStringComma(&s);
+ret->alignChromStart = sqlUnsignedComma(&s);
+ret->alignChromEnd = sqlUnsignedComma(&s);
+*pS = s;
+return ret;
+}
+
+void alignInfoFree(struct alignInfo **pEl)
+/* Free a single dynamically allocated alignInfo such as created
+ * with alignInfoLoad(). */
+{
+struct alignInfo *el;
+
+if ((el = *pEl) == NULL) return;
+freeMem(el->chrom);
+freeMem(el->name);
+freeMem(el->orgn);
+freeMem(el->alignChrom);
+freez(pEl);
+}
+
+void alignInfoFreeList(struct alignInfo **pList)
+/* Free a list of dynamically allocated alignInfo's */
+{
+struct alignInfo *el, *next;
+
+for (el = *pList; el != NULL; el = next)
+    {
+    next = el->next;
+    alignInfoFree(&el);
+    }
+*pList = NULL;
+}
+
+void alignInfoOutput(struct alignInfo *el, FILE *f, char sep, char lastSep) 
+/* Print out alignInfo.  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->hasmatch);
+fputc(sep,f);
+if (sep == ',') fputc('"',f);
+fprintf(f, "%s", el->orgn);
+if (sep == ',') fputc('"',f);
+fputc(sep,f);
+if (sep == ',') fputc('"',f);
+fprintf(f, "%s", el->alignChrom);
+if (sep == ',') fputc('"',f);
+fputc(sep,f);
+fprintf(f, "%u", el->alignChromStart);
+fputc(sep,f);
+fprintf(f, "%u", el->alignChromEnd);
+fputc(lastSep,f);
+}
+
+/* -------------------------------- End autoSql Generated Code -------------------------------- */
+