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/snp125CodingCoordless.c src/hg/cgilib/snp125CodingCoordless.c
new file mode 100644
index 0000000..4e92475
--- /dev/null
+++ src/hg/cgilib/snp125CodingCoordless.c
@@ -0,0 +1,258 @@
+/* snp125CodingCoordless.c was originally generated by the autoSql program, which also 
+ * generated snp125CodingCoordless.h and snp125CodingCoordless.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 "snp125CodingCoordless.h"
+
+
+/* definitions for frame column */
+static char *values_frame[] = {"1", "2", "3", "n/a", NULL};
+static struct hash *valhash_frame = NULL;
+
+struct snp125CodingCoordless *snp125CodingCoordlessLoad(char **row)
+/* Load a snp125CodingCoordless from row fetched with select * from snp125CodingCoordless
+ * from database.  Dispose of this with snp125CodingCoordlessFree(). */
+{
+struct snp125CodingCoordless *ret;
+
+AllocVar(ret);
+ret->alleleCount = sqlSigned(row[3]);
+ret->name = cloneString(row[0]);
+ret->transcript = cloneString(row[1]);
+ret->frame = sqlEnumParse(row[2], values_frame, &valhash_frame);
+{
+int sizeOne;
+sqlUshortDynamicArray(row[4], &ret->funcCodes, &sizeOne);
+assert(sizeOne == ret->alleleCount);
+}
+{
+int sizeOne;
+sqlStringDynamicArray(row[5], &ret->alleles, &sizeOne);
+assert(sizeOne == ret->alleleCount);
+}
+{
+int sizeOne;
+sqlStringDynamicArray(row[6], &ret->codons, &sizeOne);
+assert(sizeOne == ret->alleleCount);
+}
+{
+int sizeOne;
+sqlStringDynamicArray(row[7], &ret->peptides, &sizeOne);
+assert(sizeOne == ret->alleleCount);
+}
+return ret;
+}
+
+struct snp125CodingCoordless *snp125CodingCoordlessLoadAll(char *fileName) 
+/* Load all snp125CodingCoordless from a whitespace-separated file.
+ * Dispose of this with snp125CodingCoordlessFreeList(). */
+{
+struct snp125CodingCoordless *list = NULL, *el;
+struct lineFile *lf = lineFileOpen(fileName, TRUE);
+char *row[8];
+
+while (lineFileRow(lf, row))
+    {
+    el = snp125CodingCoordlessLoad(row);
+    slAddHead(&list, el);
+    }
+lineFileClose(&lf);
+slReverse(&list);
+return list;
+}
+
+struct snp125CodingCoordless *snp125CodingCoordlessLoadAllByChar(char *fileName, char chopper) 
+/* Load all snp125CodingCoordless from a chopper separated file.
+ * Dispose of this with snp125CodingCoordlessFreeList(). */
+{
+struct snp125CodingCoordless *list = NULL, *el;
+struct lineFile *lf = lineFileOpen(fileName, TRUE);
+char *row[8];
+
+while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
+    {
+    el = snp125CodingCoordlessLoad(row);
+    slAddHead(&list, el);
+    }
+lineFileClose(&lf);
+slReverse(&list);
+return list;
+}
+
+struct snp125CodingCoordless *snp125CodingCoordlessCommaIn(char **pS, struct snp125CodingCoordless *ret)
+/* Create a snp125CodingCoordless out of a comma separated string. 
+ * This will fill in ret if non-null, otherwise will
+ * return a new snp125CodingCoordless */
+{
+char *s = *pS;
+
+if (ret == NULL)
+    AllocVar(ret);
+ret->name = sqlStringComma(&s);
+ret->transcript = sqlStringComma(&s);
+ret->frame = sqlEnumComma(&s, values_frame, &valhash_frame);
+ret->alleleCount = sqlSignedComma(&s);
+{
+int i;
+s = sqlEatChar(s, '{');
+AllocArray(ret->funcCodes, ret->alleleCount);
+for (i=0; i<ret->alleleCount; ++i)
+    {
+    ret->funcCodes[i] = sqlUnsignedComma(&s);
+    }
+s = sqlEatChar(s, '}');
+s = sqlEatChar(s, ',');
+}
+{
+int i;
+s = sqlEatChar(s, '{');
+AllocArray(ret->alleles, ret->alleleCount);
+for (i=0; i<ret->alleleCount; ++i)
+    {
+    ret->alleles[i] = sqlStringComma(&s);
+    }
+s = sqlEatChar(s, '}');
+s = sqlEatChar(s, ',');
+}
+{
+int i;
+s = sqlEatChar(s, '{');
+AllocArray(ret->codons, ret->alleleCount);
+for (i=0; i<ret->alleleCount; ++i)
+    {
+    ret->codons[i] = sqlStringComma(&s);
+    }
+s = sqlEatChar(s, '}');
+s = sqlEatChar(s, ',');
+}
+{
+int i;
+s = sqlEatChar(s, '{');
+AllocArray(ret->peptides, ret->alleleCount);
+for (i=0; i<ret->alleleCount; ++i)
+    {
+    ret->peptides[i] = sqlStringComma(&s);
+    }
+s = sqlEatChar(s, '}');
+s = sqlEatChar(s, ',');
+}
+*pS = s;
+return ret;
+}
+
+void snp125CodingCoordlessFree(struct snp125CodingCoordless **pEl)
+/* Free a single dynamically allocated snp125CodingCoordless such as created
+ * with snp125CodingCoordlessLoad(). */
+{
+struct snp125CodingCoordless *el;
+
+if ((el = *pEl) == NULL) return;
+freeMem(el->name);
+freeMem(el->transcript);
+freeMem(el->funcCodes);
+/* All strings in alleles are allocated at once, so only need to free first. */
+if (el->alleles != NULL)
+    freeMem(el->alleles[0]);
+freeMem(el->alleles);
+/* All strings in codons are allocated at once, so only need to free first. */
+if (el->codons != NULL)
+    freeMem(el->codons[0]);
+freeMem(el->codons);
+/* All strings in peptides are allocated at once, so only need to free first. */
+if (el->peptides != NULL)
+    freeMem(el->peptides[0]);
+freeMem(el->peptides);
+freez(pEl);
+}
+
+void snp125CodingCoordlessFreeList(struct snp125CodingCoordless **pList)
+/* Free a list of dynamically allocated snp125CodingCoordless's */
+{
+struct snp125CodingCoordless *el, *next;
+
+for (el = *pList; el != NULL; el = next)
+    {
+    next = el->next;
+    snp125CodingCoordlessFree(&el);
+    }
+*pList = NULL;
+}
+
+void snp125CodingCoordlessOutput(struct snp125CodingCoordless *el, FILE *f, char sep, char lastSep) 
+/* Print out snp125CodingCoordless.  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->transcript);
+if (sep == ',') fputc('"',f);
+fputc(sep,f);
+if (sep == ',') fputc('"',f);
+sqlEnumPrint(f, el->frame, values_frame);
+if (sep == ',') fputc('"',f);
+fputc(sep,f);
+fprintf(f, "%d", el->alleleCount);
+fputc(sep,f);
+{
+int i;
+if (sep == ',') fputc('{',f);
+for (i=0; i<el->alleleCount; ++i)
+    {
+    fprintf(f, "%u", el->funcCodes[i]);
+    fputc(',', f);
+    }
+if (sep == ',') fputc('}',f);
+}
+fputc(sep,f);
+{
+int i;
+if (sep == ',') fputc('{',f);
+for (i=0; i<el->alleleCount; ++i)
+    {
+    if (sep == ',') fputc('"',f);
+    fprintf(f, "%s", el->alleles[i]);
+    if (sep == ',') fputc('"',f);
+    fputc(',', f);
+    }
+if (sep == ',') fputc('}',f);
+}
+fputc(sep,f);
+{
+int i;
+if (sep == ',') fputc('{',f);
+for (i=0; i<el->alleleCount; ++i)
+    {
+    if (sep == ',') fputc('"',f);
+    fprintf(f, "%s", el->codons[i]);
+    if (sep == ',') fputc('"',f);
+    fputc(',', f);
+    }
+if (sep == ',') fputc('}',f);
+}
+fputc(sep,f);
+{
+int i;
+if (sep == ',') fputc('{',f);
+for (i=0; i<el->alleleCount; ++i)
+    {
+    if (sep == ',') fputc('"',f);
+    fprintf(f, "%s", el->peptides[i]);
+    if (sep == ',') fputc('"',f);
+    fputc(',', f);
+    }
+if (sep == ',') fputc('}',f);
+}
+fputc(lastSep,f);
+}
+
+/* -------------------------------- End autoSql Generated Code -------------------------------- */
+