void joinerCheckTableCoverage(struct joiner *joiner, char *specificDb)
/* Check that all tables either are part of an identifier or
* are in the tablesIgnored statements. */
{
struct slName *miss, *missList = NULL;
struct hashEl *dbList, *db;
dbList = hashElListHash(joiner->databasesChecked);
for (db = dbList; db != NULL; db = db->next)
{
if (specificDb == NULL || sameString(db->name, specificDb))
{
struct sqlConnection *conn = sqlMayConnect(db->name);
if (conn == NULL)
warn("Error: database %s doesn't exist", db->name);
else
{
struct slName *table;
struct slName *tableList = sqlListTables(conn);
struct hash *hash = getCoveredTables(joiner, db->name, conn);
for (table = tableList; table != NULL; table = table->next)
{
if (!hashLookup(hash, table->name))
{
char fullName[256];
safef(fullName, sizeof(fullName), "%s.%s",
db->name, table->name);
miss = slNameNew(fullName);
slAddHead(&missList, miss);
}
else
verbose(2,"tableCovered: '%s'\n", table->name);
}
slFreeList(&tableList);
freeHash(&hash);
reportErrorList(&missList, "tables not in .joiner file");
}
sqlDisconnect(&conn);
}
}
slFreeList(&dbList);
}
struct slName *tablesForDb(char *db)
/* Find tables associated with database. */
{
boolean isGenomeDb = sameString(db, database);
struct sqlConnection *conn = hAllocConn(db);
struct slName *raw, *rawList = sqlListTables(conn);
struct slName *cooked, *cookedList = NULL;
struct hash *uniqHash = newHash(0);
hFreeConn(&conn);
for (raw = rawList; raw != NULL; raw = raw->next)
{
if (cartTrackDbIsAccessDenied(db, raw->name))
continue;
if (isGenomeDb)
{
/* Deal with tables split across chromosomes. */
char *root = unsplitTableName(raw->name);
if (cartTrackDbIsAccessDenied(db, root))
continue;
if (!hashLookup(uniqHash, root))
{
hashAdd(uniqHash, root, NULL);
cooked = slNameNew(root);
slAddHead(&cookedList, cooked);
}
}
else
{
char dbTable[256];
safef(dbTable, sizeof(dbTable), "%s.%s", db, raw->name);
cooked = slNameNew(dbTable);
slAddHead(&cookedList, cooked);
}
}
hashFree(&uniqHash);
slFreeList(&rawList);
slSort(&cookedList, slNameCmp);
return cookedList;
}