char *hubPublicTableName()
/* Get the name of the table that lists public hubs. Don't free the result. */
{
if (_hubPublicTableName == NULL)
_hubPublicTableName = cfgOptionEnvDefault("HGDB_HUB_PUBLIC_TABLE", hubPublicTableConfVariable,
defaultHubPublicTableName);
return _hubPublicTableName;
}
char *sessionDbTable()
/* Return the name of the sessionDb table. */
{
static char *sessionDbTable = NULL;
if (sessionDbTable == NULL)
sessionDbTable = cfgOptionEnvDefault("HGDB_SESSIONDBTABLE",
sessionDbTableConfVariable, defaultSessionDbTableName);
return sessionDbTable;
}
char *userDbTable()
/* Return the name of the userDb table. */
{
static char *userDbTable = NULL;
if (userDbTable == NULL)
userDbTable = cfgOptionEnvDefault("HGDB_USERDBTABLE",
userDbTableConfVariable, defaultUserDbTableName);
return userDbTable;
}
static char *getHubStatusTableName()
/* return the hubStatus table name from the environment,
* or hg.conf, or use the default. Cache the result */
{
if (hubStatusTableName == NULL)
hubStatusTableName = cfgOptionEnvDefault("HGDB_HUB_STATUS_TABLE",
hubStatusTableConfVariable, defaultHubStatusTableName);
return hubStatusTableName;
}
struct hash *hgHubConnectPublic()
/* Put up the list of public hubs and other controls for the page. */
{
struct hash *retHash = NULL;
struct sqlConnection *conn = hConnectCentral();
char *publicTable = cfgOptionEnvDefault("HGDB_HUB_PUBLIC_TABLE",
hubPublicTableConfVariable, defaultHubPublicTableName);
if (!(sqlTableExists(conn, publicTable) &&
(retHash = outputPublicTable(conn, publicTable)) != NULL ))
{
printf("<div id=\"publicHubs\" class=\"hubList\"> \n");
printf("No Public Track Hubs for this genome assembly<BR>");
printf("</div>");
}
hDisconnectCentral(&conn);
return retHash;
}
static struct aHubMatch *searchPublicHubs(struct dbDb *dbDbList, char *term)
/* Search for term in public hub trix files -- return a list of matches to assembly hubs
* (i.e. hubs that host an assembly with 2bit etc as opposed to only providing tracks.) */
{
struct aHubMatch *aHubMatchList = NULL;
char *trixFile = cfgOptionEnvDefault("HUBSEARCHTRIXFILE", "hubSearchTrixFile",
hReplaceGbdb("/gbdb/hubs/public.ix"));
if (fileExists(trixFile))
{
struct trix *trix = trixOpen(trixFile);
char termCopy[strlen(term)+1];
safecpy(termCopy, sizeof(termCopy), term);
tolowers(termCopy);
char *words[512];
int wordCount = chopByWhite(termCopy, words, ArraySize(words));
struct trixSearchResult *tsrList = trixSearch(trix, wordCount, words, tsmFirstFive);
aHubMatchList = filterTrixSearchMatches(dbDbList, tsrList);
trixClose(&trix);
}
return aHubMatchList;
}
