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/lib/atomDb.c src/hg/lib/atomDb.c
deleted file mode 100644
index b390a0e..0000000
--- src/hg/lib/atomDb.c
+++ /dev/null
@@ -1,172 +0,0 @@
-/* atomDb.c was originally generated by the autoSql program, which also 
- * generated atomDb.h and atomDb.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 "atomDb.h"
-
-
-void atomStaticLoad(char **row, struct atom *ret)
-/* Load a row from atom table into ret.  The contents of ret will
- * be replaced at the next call to this function. */
-{
-
-ret->name = row[0];
-ret->instance = sqlUnsigned(row[1]);
-ret->species = row[2];
-ret->chrom = row[3];
-ret->start = sqlUnsigned(row[4]);
-ret->end = sqlUnsigned(row[5]);
-safecpy(ret->strand, sizeof(ret->strand), row[6]);
-ret->fivePrime = row[7];
-ret->threePrime = row[8];
-}
-
-struct atom *atomLoad(char **row)
-/* Load a atom from row fetched with select * from atom
- * from database.  Dispose of this with atomFree(). */
-{
-struct atom *ret;
-
-AllocVar(ret);
-ret->name = cloneString(row[0]);
-ret->instance = sqlUnsigned(row[1]);
-ret->species = cloneString(row[2]);
-ret->chrom = cloneString(row[3]);
-ret->start = sqlUnsigned(row[4]);
-ret->end = sqlUnsigned(row[5]);
-safecpy(ret->strand, sizeof(ret->strand), row[6]);
-ret->fivePrime = cloneString(row[7]);
-ret->threePrime = cloneString(row[8]);
-return ret;
-}
-
-struct atom *atomLoadAll(char *fileName) 
-/* Load all atom from a whitespace-separated file.
- * Dispose of this with atomFreeList(). */
-{
-struct atom *list = NULL, *el;
-struct lineFile *lf = lineFileOpen(fileName, TRUE);
-char *row[9];
-
-while (lineFileRow(lf, row))
-    {
-    el = atomLoad(row);
-    slAddHead(&list, el);
-    }
-lineFileClose(&lf);
-slReverse(&list);
-return list;
-}
-
-struct atom *atomLoadAllByChar(char *fileName, char chopper) 
-/* Load all atom from a chopper separated file.
- * Dispose of this with atomFreeList(). */
-{
-struct atom *list = NULL, *el;
-struct lineFile *lf = lineFileOpen(fileName, TRUE);
-char *row[9];
-
-while (lineFileNextCharRow(lf, chopper, row, ArraySize(row)))
-    {
-    el = atomLoad(row);
-    slAddHead(&list, el);
-    }
-lineFileClose(&lf);
-slReverse(&list);
-return list;
-}
-
-struct atom *atomCommaIn(char **pS, struct atom *ret)
-/* Create a atom out of a comma separated string. 
- * This will fill in ret if non-null, otherwise will
- * return a new atom */
-{
-char *s = *pS;
-
-if (ret == NULL)
-    AllocVar(ret);
-ret->name = sqlStringComma(&s);
-ret->instance = sqlUnsignedComma(&s);
-ret->species = sqlStringComma(&s);
-ret->chrom = sqlStringComma(&s);
-ret->start = sqlUnsignedComma(&s);
-ret->end = sqlUnsignedComma(&s);
-sqlFixedStringComma(&s, ret->strand, sizeof(ret->strand));
-ret->fivePrime = sqlStringComma(&s);
-ret->threePrime = sqlStringComma(&s);
-*pS = s;
-return ret;
-}
-
-void atomFree(struct atom **pEl)
-/* Free a single dynamically allocated atom such as created
- * with atomLoad(). */
-{
-struct atom *el;
-
-if ((el = *pEl) == NULL) return;
-freeMem(el->name);
-freeMem(el->species);
-freeMem(el->chrom);
-freeMem(el->fivePrime);
-freeMem(el->threePrime);
-freez(pEl);
-}
-
-void atomFreeList(struct atom **pList)
-/* Free a list of dynamically allocated atom's */
-{
-struct atom *el, *next;
-
-for (el = *pList; el != NULL; el = next)
-    {
-    next = el->next;
-    atomFree(&el);
-    }
-*pList = NULL;
-}
-
-void atomOutput(struct atom *el, FILE *f, char sep, char lastSep) 
-/* Print out atom.  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);
-fprintf(f, "%u", el->instance);
-fputc(sep,f);
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->species);
-if (sep == ',') fputc('"',f);
-fputc(sep,f);
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->chrom);
-if (sep == ',') fputc('"',f);
-fputc(sep,f);
-fprintf(f, "%u", el->start);
-fputc(sep,f);
-fprintf(f, "%u", el->end);
-fputc(sep,f);
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->strand);
-if (sep == ',') fputc('"',f);
-fputc(sep,f);
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->fivePrime);
-if (sep == ',') fputc('"',f);
-fputc(sep,f);
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->threePrime);
-if (sep == ',') fputc('"',f);
-fputc(lastSep,f);
-}
-
-/* -------------------------------- End autoSql Generated Code -------------------------------- */
-