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/simpleRepeat.c src/hg/lib/simpleRepeat.c
deleted file mode 100644
index 9893599..0000000
--- src/hg/lib/simpleRepeat.c
+++ /dev/null
@@ -1,204 +0,0 @@
-/* simpleRepeat.c was originally generated by the autoSql program, which also 
- * generated simpleRepeat.h and simpleRepeat.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 "simpleRepeat.h"
-
-
-void simpleRepeatStaticLoad(char **row, struct simpleRepeat *ret)
-/* Load a row from simpleRepeat 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->period = sqlUnsigned(row[4]);
-ret->copyNum = atof(row[5]);
-ret->consensusSize = sqlUnsigned(row[6]);
-ret->perMatch = sqlUnsigned(row[7]);
-ret->perIndel = sqlUnsigned(row[8]);
-ret->score = sqlUnsigned(row[9]);
-ret->A = sqlUnsigned(row[10]);
-ret->C = sqlUnsigned(row[11]);
-ret->G = sqlUnsigned(row[12]);
-ret->T = sqlUnsigned(row[13]);
-ret->entropy = atof(row[14]);
-ret->sequence = row[15];
-}
-
-struct simpleRepeat *simpleRepeatLoad(char **row)
-/* Load a simpleRepeat from row fetched with select * from simpleRepeat
- * from database.  Dispose of this with simpleRepeatFree(). */
-{
-struct simpleRepeat *ret;
-
-AllocVar(ret);
-ret->chrom = cloneString(row[0]);
-ret->chromStart = sqlUnsigned(row[1]);
-ret->chromEnd = sqlUnsigned(row[2]);
-ret->name = cloneString(row[3]);
-ret->period = sqlUnsigned(row[4]);
-ret->copyNum = atof(row[5]);
-ret->consensusSize = sqlUnsigned(row[6]);
-ret->perMatch = sqlUnsigned(row[7]);
-ret->perIndel = sqlUnsigned(row[8]);
-ret->score = sqlUnsigned(row[9]);
-ret->A = sqlUnsigned(row[10]);
-ret->C = sqlUnsigned(row[11]);
-ret->G = sqlUnsigned(row[12]);
-ret->T = sqlUnsigned(row[13]);
-ret->entropy = atof(row[14]);
-ret->sequence = cloneString(row[15]);
-return ret;
-}
-
-struct simpleRepeat *simpleRepeatLoadAll(char *fileName) 
-/* Load all simpleRepeat from a tab-separated file.
- * Dispose of this with simpleRepeatFreeList(). */
-{
-struct simpleRepeat *list = NULL, *el;
-struct lineFile *lf = lineFileOpen(fileName, TRUE);
-char *row[16];
-
-while (lineFileRow(lf, row))
-    {
-    el = simpleRepeatLoad(row);
-    slAddHead(&list, el);
-    }
-lineFileClose(&lf);
-slReverse(&list);
-return list;
-}
-
-struct simpleRepeat *simpleRepeatLoadWhere(struct sqlConnection *conn, char *table, char *where)
-/* Load all simpleRepeat from table that satisfy where clause. The
- * where clause may be NULL in which case whole table is loaded
- * Dispose of this with simpleRepeatFreeList(). */
-{
-struct simpleRepeat *list = NULL, *el;
-struct dyString *query = dyStringNew(256);
-struct sqlResult *sr;
-char **row;
-
-sqlDyStringPrintf(query, "select * from %s", table);
-if (where != NULL)
-    dyStringPrintf(query, " where %s", where);
-sr = sqlGetResult(conn, query->string);
-while ((row = sqlNextRow(sr)) != NULL)
-    {
-    el = simpleRepeatLoad(row);
-    slAddHead(&list, el);
-    }
-slReverse(&list);
-sqlFreeResult(&sr);
-dyStringFree(&query);
-return list;
-}
-
-struct simpleRepeat *simpleRepeatCommaIn(char **pS, struct simpleRepeat *ret)
-/* Create a simpleRepeat out of a comma separated string. 
- * This will fill in ret if non-null, otherwise will
- * return a new simpleRepeat */
-{
-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->period = sqlUnsignedComma(&s);
-ret->copyNum = sqlFloatComma(&s);
-ret->consensusSize = sqlUnsignedComma(&s);
-ret->perMatch = sqlUnsignedComma(&s);
-ret->perIndel = sqlUnsignedComma(&s);
-ret->score = sqlUnsignedComma(&s);
-ret->A = sqlUnsignedComma(&s);
-ret->C = sqlUnsignedComma(&s);
-ret->G = sqlUnsignedComma(&s);
-ret->T = sqlUnsignedComma(&s);
-ret->entropy = sqlFloatComma(&s);
-ret->sequence = sqlStringComma(&s);
-*pS = s;
-return ret;
-}
-
-void simpleRepeatFree(struct simpleRepeat **pEl)
-/* Free a single dynamically allocated simpleRepeat such as created
- * with simpleRepeatLoad(). */
-{
-struct simpleRepeat *el;
-
-if ((el = *pEl) == NULL) return;
-freeMem(el->chrom);
-freeMem(el->name);
-freeMem(el->sequence);
-freez(pEl);
-}
-
-void simpleRepeatFreeList(struct simpleRepeat **pList)
-/* Free a list of dynamically allocated simpleRepeat's */
-{
-struct simpleRepeat *el, *next;
-
-for (el = *pList; el != NULL; el = next)
-    {
-    next = el->next;
-    simpleRepeatFree(&el);
-    }
-*pList = NULL;
-}
-
-void simpleRepeatOutput(struct simpleRepeat *el, FILE *f, char sep, char lastSep) 
-/* Print out simpleRepeat.  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->period);
-fputc(sep,f);
-fprintf(f, "%f", el->copyNum);
-fputc(sep,f);
-fprintf(f, "%u", el->consensusSize);
-fputc(sep,f);
-fprintf(f, "%u", el->perMatch);
-fputc(sep,f);
-fprintf(f, "%u", el->perIndel);
-fputc(sep,f);
-fprintf(f, "%u", el->score);
-fputc(sep,f);
-fprintf(f, "%u", el->A);
-fputc(sep,f);
-fprintf(f, "%u", el->C);
-fputc(sep,f);
-fprintf(f, "%u", el->G);
-fputc(sep,f);
-fprintf(f, "%u", el->T);
-fputc(sep,f);
-fprintf(f, "%f", el->entropy);
-fputc(sep,f);
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->sequence);
-if (sep == ',') fputc('"',f);
-fputc(lastSep,f);
-}
-