533112afe2a2005e80cdb1f82904ea65032d4302
braney
  Sat Oct 2 11:37:34 2021 -0700
split hg/lib into two separate libaries, one only used by the cgis

diff --git src/hg/cgilib/rnaSecStr.c src/hg/cgilib/rnaSecStr.c
new file mode 100644
index 0000000..f73fc00
--- /dev/null
+++ src/hg/cgilib/rnaSecStr.c
@@ -0,0 +1,192 @@
+/* rnaSecStr.c was originally generated by the autoSql program, which also 
+ * generated rnaSecStr.h and rnaSecStr.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 "rnaSecStr.h"
+
+
+struct rnaSecStr *rnaSecStrLoad(char **row)
+/* Load a rnaSecStr from row fetched with select * from rnaSecStr
+ * from database. Ignores conf column if present.  Dispose of this with rnaSecStrFree(). */
+{
+struct rnaSecStr *ret;
+
+AllocVar(ret);
+ret->size = sqlUnsigned(row[6]);
+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]);
+strcpy(ret->strand, row[5]);
+ret->secStr = cloneString(row[7]);
+return ret;
+}
+
+struct rnaSecStr *rnaSecStrLoadConf(char **row)
+/* Load a rnaSecStr from row fetched with select * from rnaSecStr
+ * from database. Loads conf column.  Dispose of this with rnaSecStrFree(). */
+{
+struct rnaSecStr *ret;
+
+AllocVar(ret);
+ret->size = sqlUnsigned(row[6]);
+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]);
+strcpy(ret->strand, row[5]);
+ret->secStr = cloneString(row[7]);
+{
+int sizeOne;
+sqlDoubleDynamicArray(row[8], &ret->conf, &sizeOne);
+assert(sizeOne == ret->size);
+}
+return ret;
+}
+
+struct rnaSecStr *rnaSecStrLoadAll(char *fileName) 
+/* Load all rnaSecStr from a whitespace-separated file.
+ * Dispose of this with rnaSecStrFreeList(). */
+{
+struct rnaSecStr *list = NULL, *el;
+struct lineFile *lf = lineFileOpen(fileName, TRUE);
+char *row[9];
+
+while (lineFileRow(lf, row))
+    {
+    el = rnaSecStrLoad(row);
+    slAddHead(&list, el);
+    }
+lineFileClose(&lf);
+slReverse(&list);
+return list;
+}
+
+struct rnaSecStr *rnaSecStrLoadAllByChar(char *fileName, char chopper) 
+/* Load all rnaSecStr from a chopper separated file.
+ * Dispose of this with rnaSecStrFreeList(). */
+{
+struct rnaSecStr *list = NULL, *el;
+struct lineFile *lf = lineFileOpen(fileName, TRUE);
+char *row[9];
+
+while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
+    {
+    el = rnaSecStrLoad(row);
+    slAddHead(&list, el);
+    }
+lineFileClose(&lf);
+slReverse(&list);
+return list;
+}
+
+struct rnaSecStr *rnaSecStrCommaIn(char **pS, struct rnaSecStr *ret)
+/* Create a rnaSecStr out of a comma separated string. 
+ * This will fill in ret if non-null, otherwise will
+ * return a new rnaSecStr */
+{
+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->size = sqlUnsignedComma(&s);
+ret->secStr = sqlStringComma(&s);
+{
+int i;
+s = sqlEatChar(s, '{');
+AllocArray(ret->conf, ret->size);
+for (i=0; i<ret->size; ++i)
+    {
+    ret->conf[i] = sqlDoubleComma(&s);
+    }
+s = sqlEatChar(s, '}');
+s = sqlEatChar(s, ',');
+}
+*pS = s;
+return ret;
+}
+
+void rnaSecStrFree(struct rnaSecStr **pEl)
+/* Free a single dynamically allocated rnaSecStr such as created
+ * with rnaSecStrLoad(). */
+{
+struct rnaSecStr *el;
+
+if ((el = *pEl) == NULL) return;
+freeMem(el->chrom);
+freeMem(el->name);
+freeMem(el->secStr);
+freeMem(el->conf);
+freez(pEl);
+}
+
+void rnaSecStrFreeList(struct rnaSecStr **pList)
+/* Free a list of dynamically allocated rnaSecStr's */
+{
+struct rnaSecStr *el, *next;
+
+for (el = *pList; el != NULL; el = next)
+    {
+    next = el->next;
+    rnaSecStrFree(&el);
+    }
+*pList = NULL;
+}
+
+void rnaSecStrOutput(struct rnaSecStr *el, FILE *f, char sep, char lastSep) 
+/* Print out rnaSecStr.  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->size);
+fputc(sep,f);
+if (sep == ',') fputc('"',f);
+fprintf(f, "%s", el->secStr);
+if (sep == ',') fputc('"',f);
+fputc(sep,f);
+{
+int i;
+if (sep == ',') fputc('{',f);
+for (i=0; i<el->size; ++i)
+    {
+    fprintf(f, "%g", el->conf[i]);
+    fputc(',', f);
+    }
+if (sep == ',') fputc('}',f);
+}
+fputc(lastSep,f);
+}
+
+/* -------------------------------- End autoSql Generated Code -------------------------------- */
+