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/chr18deletions.c src/hg/lib/chr18deletions.c
deleted file mode 100644
index b6ba86d..0000000
--- src/hg/lib/chr18deletions.c
+++ /dev/null
@@ -1,235 +0,0 @@
-/* chr18deletions.c was originally generated by the autoSql program, which also 
- * generated chr18deletions.h and chr18deletions.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 "chr18deletions.h"
-
-
-struct chr18deletions *chr18deletionsLoad(char **row)
-/* Load a chr18deletions from row fetched with select * from chr18deletions
- * from database.  Dispose of this with chr18deletionsFree(). */
-{
-struct chr18deletions *ret;
-int sizeOne;
-
-AllocVar(ret);
-ret->ssCount = sqlUnsigned(row[6]);
-ret->seCount = sqlUnsigned(row[8]);
-ret->lsCount = sqlUnsigned(row[10]);
-ret->leCount = sqlUnsigned(row[12]);
-ret->chrom = cloneString(row[0]);
-ret->chromStart = sqlSigned(row[1]);
-ret->chromEnd = sqlUnsigned(row[2]);
-ret->name = cloneString(row[3]);
-ret->score = sqlUnsigned(row[4]);
-strcpy(ret->strand, row[5]);
-sqlUnsignedDynamicArray(row[7], &ret->smallStarts, &sizeOne);
-assert(sizeOne == ret->ssCount);
-sqlUnsignedDynamicArray(row[9], &ret->smallEnds, &sizeOne);
-assert(sizeOne == ret->seCount);
-sqlUnsignedDynamicArray(row[11], &ret->largeStarts, &sizeOne);
-assert(sizeOne == ret->lsCount);
-sqlUnsignedDynamicArray(row[13], &ret->largeEnds, &sizeOne);
-assert(sizeOne == ret->leCount);
-return ret;
-}
-
-struct chr18deletions *chr18deletionsLoadAll(char *fileName) 
-/* Load all chr18deletions from a tab-separated file.
- * Dispose of this with chr18deletionsFreeList(). */
-{
-struct chr18deletions *list = NULL, *el;
-struct lineFile *lf = lineFileOpen(fileName, TRUE);
-char *row[14];
-
-while (lineFileRow(lf, row))
-    {
-    el = chr18deletionsLoad(row);
-    slAddHead(&list, el);
-    }
-lineFileClose(&lf);
-slReverse(&list);
-return list;
-}
-
-struct chr18deletions *chr18deletionsLoadWhere(struct sqlConnection *conn, char *table, char *where)
-/* Load all chr18deletions from table that satisfy where clause. The
- * where clause may be NULL in which case whole table is loaded
- * Dispose of this with chr18deletionsFreeList(). */
-{
-struct chr18deletions *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 = chr18deletionsLoad(row);
-    slAddHead(&list, el);
-    }
-slReverse(&list);
-sqlFreeResult(&sr);
-dyStringFree(&query);
-return list;
-}
-
-struct chr18deletions *chr18deletionsCommaIn(char **pS, struct chr18deletions *ret)
-/* Create a chr18deletions out of a comma separated string. 
- * This will fill in ret if non-null, otherwise will
- * return a new chr18deletions */
-{
-char *s = *pS;
-int i;
-
-if (ret == NULL)
-    AllocVar(ret);
-ret->chrom = sqlStringComma(&s);
-ret->chromStart = sqlSignedComma(&s);
-ret->chromEnd = sqlUnsignedComma(&s);
-ret->name = sqlStringComma(&s);
-ret->score = sqlUnsignedComma(&s);
-sqlFixedStringComma(&s, ret->strand, sizeof(ret->strand));
-ret->ssCount = sqlUnsignedComma(&s);
-s = sqlEatChar(s, '{');
-AllocArray(ret->smallStarts, ret->ssCount);
-for (i=0; i<ret->ssCount; ++i)
-    {
-    ret->smallStarts[i] = sqlUnsignedComma(&s);
-    }
-s = sqlEatChar(s, '}');
-s = sqlEatChar(s, ',');
-ret->seCount = sqlUnsignedComma(&s);
-s = sqlEatChar(s, '{');
-AllocArray(ret->smallEnds, ret->seCount);
-for (i=0; i<ret->seCount; ++i)
-    {
-    ret->smallEnds[i] = sqlUnsignedComma(&s);
-    }
-s = sqlEatChar(s, '}');
-s = sqlEatChar(s, ',');
-ret->lsCount = sqlUnsignedComma(&s);
-s = sqlEatChar(s, '{');
-AllocArray(ret->largeStarts, ret->lsCount);
-for (i=0; i<ret->lsCount; ++i)
-    {
-    ret->largeStarts[i] = sqlUnsignedComma(&s);
-    }
-s = sqlEatChar(s, '}');
-s = sqlEatChar(s, ',');
-ret->leCount = sqlUnsignedComma(&s);
-s = sqlEatChar(s, '{');
-AllocArray(ret->largeEnds, ret->leCount);
-for (i=0; i<ret->leCount; ++i)
-    {
-    ret->largeEnds[i] = sqlUnsignedComma(&s);
-    }
-s = sqlEatChar(s, '}');
-s = sqlEatChar(s, ',');
-*pS = s;
-return ret;
-}
-
-void chr18deletionsFree(struct chr18deletions **pEl)
-/* Free a single dynamically allocated chr18deletions such as created
- * with chr18deletionsLoad(). */
-{
-struct chr18deletions *el;
-
-if ((el = *pEl) == NULL) return;
-freeMem(el->chrom);
-freeMem(el->name);
-freeMem(el->smallStarts);
-freeMem(el->smallEnds);
-freeMem(el->largeStarts);
-freeMem(el->largeEnds);
-freez(pEl);
-}
-
-void chr18deletionsFreeList(struct chr18deletions **pList)
-/* Free a list of dynamically allocated chr18deletions's */
-{
-struct chr18deletions *el, *next;
-
-for (el = *pList; el != NULL; el = next)
-    {
-    next = el->next;
-    chr18deletionsFree(&el);
-    }
-*pList = NULL;
-}
-
-void chr18deletionsOutput(struct chr18deletions *el, FILE *f, char sep, char lastSep) 
-/* Print out chr18deletions.  Separate fields with sep. Follow last field with lastSep. */
-{
-int i;
-if (sep == ',') fputc('"',f);
-fprintf(f, "%s", el->chrom);
-if (sep == ',') fputc('"',f);
-fputc(sep,f);
-fprintf(f, "%d", 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->ssCount);
-fputc(sep,f);
-if (sep == ',') fputc('{',f);
-for (i=0; i<el->ssCount; ++i)
-    {
-    fprintf(f, "%u", el->smallStarts[i]);
-    fputc(',', f);
-    }
-if (sep == ',') fputc('}',f);
-fputc(sep,f);
-fprintf(f, "%u", el->seCount);
-fputc(sep,f);
-if (sep == ',') fputc('{',f);
-for (i=0; i<el->seCount; ++i)
-    {
-    fprintf(f, "%u", el->smallEnds[i]);
-    fputc(',', f);
-    }
-if (sep == ',') fputc('}',f);
-fputc(sep,f);
-fprintf(f, "%u", el->lsCount);
-fputc(sep,f);
-if (sep == ',') fputc('{',f);
-for (i=0; i<el->lsCount; ++i)
-    {
-    fprintf(f, "%u", el->largeStarts[i]);
-    fputc(',', f);
-    }
-if (sep == ',') fputc('}',f);
-fputc(sep,f);
-fprintf(f, "%u", el->leCount);
-fputc(sep,f);
-if (sep == ',') fputc('{',f);
-for (i=0; i<el->leCount; ++i)
-    {
-    fprintf(f, "%u", el->largeEnds[i]);
-    fputc(',', f);
-    }
-if (sep == ',') fputc('}',f);
-fputc(lastSep,f);
-}
-