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/dnaProbe.c src/hg/cgilib/dnaProbe.c
new file mode 100644
index 0000000..8629643
--- /dev/null
+++ src/hg/cgilib/dnaProbe.c
@@ -0,0 +1,209 @@
+/* dnaProbe.c was originally generated by the autoSql program, which also 
+ * generated dnaProbe.h and dnaProbe.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 "dnaProbe.h"
+
+
+void dnaProbeStaticLoad(char **row, struct dnaProbe *ret)
+/* Load a row from dnaProbe table into ret.  The contents of ret will
+ * be replaced at the next call to this function. */
+{
+
+ret->name = row[0];
+ret->dna = row[1];
+ret->size = sqlSigned(row[2]);
+ret->chrom = row[3];
+ret->start = sqlSigned(row[4]);
+ret->end = sqlSigned(row[5]);
+strcpy(ret->strand, row[6]);
+ret->tpDist = sqlSigned(row[7]);
+ret->tm = atof(row[8]);
+ret->pGC = atof(row[9]);
+ret->affyHeur = sqlSigned(row[10]);
+ret->secStruct = atof(row[11]);
+ret->blatScore = sqlSigned(row[12]);
+ret->comparison = atof(row[13]);
+}
+
+struct dnaProbe *dnaProbeLoad(char **row)
+/* Load a dnaProbe from row fetched with select * from dnaProbe
+ * from database.  Dispose of this with dnaProbeFree(). */
+{
+struct dnaProbe *ret;
+
+AllocVar(ret);
+ret->name = cloneString(row[0]);
+ret->dna = cloneString(row[1]);
+ret->size = sqlSigned(row[2]);
+ret->chrom = cloneString(row[3]);
+ret->start = sqlSigned(row[4]);
+ret->end = sqlSigned(row[5]);
+strcpy(ret->strand, row[6]);
+ret->tpDist = sqlSigned(row[7]);
+ret->tm = atof(row[8]);
+ret->pGC = atof(row[9]);
+ret->affyHeur = sqlSigned(row[10]);
+ret->secStruct = atof(row[11]);
+ret->blatScore = sqlSigned(row[12]);
+ret->comparison = atof(row[13]);
+return ret;
+}
+
+struct dnaProbe *dnaProbeLoadAll(char *fileName) 
+/* Load all dnaProbe from a tab-separated file.
+ * Dispose of this with dnaProbeFreeList(). */
+{
+struct dnaProbe *list = NULL, *el;
+struct lineFile *lf = lineFileOpen(fileName, TRUE);
+char *row[14];
+
+while (lineFileRow(lf, row))
+    {
+    el = dnaProbeLoad(row);
+    slAddHead(&list, el);
+    }
+lineFileClose(&lf);
+slReverse(&list);
+return list;
+}
+
+struct dnaProbe *dnaProbeLoadByQuery(struct sqlConnection *conn, char *query)
+/* Load all dnaProbe 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 dnaProbeFreeList(). */
+{
+struct dnaProbe *list = NULL, *el;
+struct sqlResult *sr;
+char **row;
+
+sr = sqlGetResult(conn, query);
+while ((row = sqlNextRow(sr)) != NULL)
+    {
+    el = dnaProbeLoad(row);
+    slAddHead(&list, el);
+    }
+slReverse(&list);
+sqlFreeResult(&sr);
+return list;
+}
+
+void dnaProbeSaveToDb(struct sqlConnection *conn, struct dnaProbe *el, char *tableName, int updateSize)
+/* Save dnaProbe 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','%s',%d,'%s',%d,%d,'%s',%d,%f,%f,%d,%f,%d,%f)", 
+	tableName,  el->name,  el->dna,  el->size,  el->chrom,  el->start,  el->end,  el->strand,  el->tpDist,  el->tm,  el->pGC,  el->affyHeur,  el->secStruct,  el->blatScore,  el->comparison);
+sqlUpdate(conn, update->string);
+freeDyString(&update);
+}
+
+struct dnaProbe *dnaProbeCommaIn(char **pS, struct dnaProbe *ret)
+/* Create a dnaProbe out of a comma separated string. 
+ * This will fill in ret if non-null, otherwise will
+ * return a new dnaProbe */
+{
+char *s = *pS;
+
+if (ret == NULL)
+    AllocVar(ret);
+ret->name = sqlStringComma(&s);
+ret->dna = sqlStringComma(&s);
+ret->size = sqlSignedComma(&s);
+ret->chrom = sqlStringComma(&s);
+ret->start = sqlSignedComma(&s);
+ret->end = sqlSignedComma(&s);
+sqlFixedStringComma(&s, ret->strand, sizeof(ret->strand));
+ret->tpDist = sqlSignedComma(&s);
+ret->tm = sqlFloatComma(&s);
+ret->pGC = sqlFloatComma(&s);
+ret->affyHeur = sqlSignedComma(&s);
+ret->secStruct = sqlFloatComma(&s);
+ret->blatScore = sqlSignedComma(&s);
+ret->comparison = sqlFloatComma(&s);
+*pS = s;
+return ret;
+}
+
+void dnaProbeFree(struct dnaProbe **pEl)
+/* Free a single dynamically allocated dnaProbe such as created
+ * with dnaProbeLoad(). */
+{
+struct dnaProbe *el;
+
+if ((el = *pEl) == NULL) return;
+freeMem(el->name);
+freeMem(el->dna);
+freeMem(el->chrom);
+freez(pEl);
+}
+
+void dnaProbeFreeList(struct dnaProbe **pList)
+/* Free a list of dynamically allocated dnaProbe's */
+{
+struct dnaProbe *el, *next;
+
+for (el = *pList; el != NULL; el = next)
+    {
+    next = el->next;
+    dnaProbeFree(&el);
+    }
+*pList = NULL;
+}
+
+void dnaProbeOutput(struct dnaProbe *el, FILE *f, char sep, char lastSep) 
+/* Print out dnaProbe.  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);
+if (sep == ',') fputc('"',f);
+fprintf(f, "%s", el->dna);
+if (sep == ',') fputc('"',f);
+fputc(sep,f);
+fprintf(f, "%d", el->size);
+fputc(sep,f);
+if (sep == ',') fputc('"',f);
+fprintf(f, "%s", el->chrom);
+if (sep == ',') fputc('"',f);
+fputc(sep,f);
+fprintf(f, "%d", el->start);
+fputc(sep,f);
+fprintf(f, "%d", el->end);
+fputc(sep,f);
+if (sep == ',') fputc('"',f);
+fprintf(f, "%s", el->strand);
+if (sep == ',') fputc('"',f);
+fputc(sep,f);
+fprintf(f, "%d", el->tpDist);
+fputc(sep,f);
+fprintf(f, "%f", el->tm);
+fputc(sep,f);
+fprintf(f, "%f", el->pGC);
+fputc(sep,f);
+fprintf(f, "%d", el->affyHeur);
+fputc(sep,f);
+fprintf(f, "%f", el->secStruct);
+fputc(sep,f);
+fprintf(f, "%d", el->blatScore);
+fputc(sep,f);
+fprintf(f, "%f", el->comparison);
+fputc(lastSep,f);
+}
+
+/* -------------------------------- End autoSql Generated Code -------------------------------- */
+