struct trackDb *hubCollectTracks( char *database, struct grp **pGroupList)
/* Generate trackDb structures for all the tracks in attached hubs.
* Make grp structures for each hub. Returned group list is reversed. */
{
// return the cached copy if it exists
static struct trackDb *hubTrackDbs;
static struct grp *hubGroups;
if (hubTrackDbs != NULL)
{
if (pGroupList != NULL)
*pGroupList = hubGroups;
return hubTrackDbs;
}
struct hubConnectStatus *hub, *hubList = hubConnectGetHubs();
struct trackDb *tdbList = NULL;
for (hub = hubList; hub != NULL; hub = hub->next)
{
if (isEmpty(hub->errorMessage))
{
/* error catching in so it won't just abort */
struct errCatch *errCatch = errCatchNew();
if (errCatchStart(errCatch))
{
struct trackDb *thisList = hubAddTracks(hub, database);
tdbList = slCat(tdbList, thisList);
}
errCatchEnd(errCatch);
if (errCatch->gotError)
{
warn("%s", errCatch->message->string);
hubUpdateStatus( errCatch->message->string, hub);
}
else
{
if (!trackHubDatabase(database))
{
struct grp *grp = grpFromHub(hub);
slAddHead(&hubGroups, grp);
}
hubUpdateStatus(NULL, hub);
}
errCatchFree(&errCatch);
}
}
hubTrackDbs = tdbList;
if (pGroupList != NULL)
*pGroupList = hubGroups;
return tdbList;
}
/* Given a hub ID return associated status. Returns NULL if no such hub. If hub
* exists but has problems will return with errorMessage field filled in. */
struct hubConnectStatus *hubConnectStatusForId(struct sqlConnection *conn, int id)
{
struct hubConnectStatus *hub = NULL;
char query[1024];
sqlSafef(query, sizeof(query),
"select hubUrl,status, errorMessage,lastNotOkTime, shortLabel from %s where id=%d", getHubStatusTableName(), id);
struct sqlResult *sr = sqlGetResult(conn, query);
char **row = sqlNextRow(sr);
if (row != NULL)
{
AllocVar(hub);
hub->id = id;
hub->hubUrl = cloneString(row[0]);
hub->status = sqlUnsigned(row[1]);
hub->errorMessage = cloneString(row[2]);
char *shortLabel = row[4];
if (isEmpty(row[2]) || hubTimeToCheck(hub, row[3]))
{
char *errorMessage = NULL;
hub->trackHub = fetchHub( hub, &errorMessage);
hub->errorMessage = cloneString(errorMessage);
hubUpdateStatus( hub->errorMessage, hub);
if (!isEmpty(hub->errorMessage))
{
warn("Could not connect to hub \"%s\": %s", shortLabel, hub->errorMessage);
}
}
}
sqlFreeResult(&sr);
return hub;
}
static void tryHubOpen(unsigned id)
/* try to open hub, leaks trackHub structure */
{
/* try opening this again to reset error */
struct sqlConnection *conn = hConnectCentral();
struct errCatch *errCatch = errCatchNew();
struct hubConnectStatus *hub = NULL;
if (errCatchStart(errCatch))
hub = hubConnectStatusForId(conn, id);
errCatchEnd(errCatch);
if (errCatch->gotError)
hubUpdateStatus( errCatch->message->string, NULL);
else
hubUpdateStatus(NULL, hub);
errCatchFree(&errCatch);
hDisconnectCentral(&conn);
}
static void checkTrackDbs(struct hubConnectStatus *hubList)
{
struct hubConnectStatus *hub = hubList;
for(; hub; hub = hub->next)
{
struct errCatch *errCatch = errCatchNew();
if (errCatchStart(errCatch))
{
hubAddTracks(hub, database);
}
errCatchEnd(errCatch);
if (errCatch->gotError)
{
hub->errorMessage = cloneString(errCatch->message->string);
hubUpdateStatus( errCatch->message->string, hub);
}
else
hubUpdateStatus(NULL, hub);
}
}
static struct hubConnectStatus *getAndSetHubStatus( struct cart *cart, char *url,
boolean set)
/* make sure url is in hubStatus table, fetch the hub to get latest
* labels and db information.
* Set the cart variable to turn the hub on if set == TRUE.
*/
{
char *errorMessage = NULL;
unsigned id;
/* first see if url is in hubStatus table */
if ((id = getHubId(url, &errorMessage)) == 0)
{
/* the url is not in the hubStatus table, add it */
insertHubUrlInStatus(url);
if ((id = getHubId(url, &errorMessage)) == 0)
{
errAbort("opened hub, but could not get it out of the hubStatus table");
}
}
/* allocate a hub */
struct hubConnectStatus *hub = NULL;
AllocVar(hub);
hub->id = id;
hub->hubUrl = cloneString(url);
/* new fetch the contents of the hub to fill in the status table */
struct trackHub *tHub = fetchHub( hub, &errorMessage);
if (tHub != NULL)
hub->trackHub = tHub;
/* update the status table with the lastest label and database information */
hubUpdateStatus( errorMessage, hub);
/* if we're turning on the hub, set the cart variable */
if (set)
{
char hubName[32];
safef(hubName, sizeof(hubName), "%s%u", hgHubConnectHubVarPrefix, id);
cartSetString(cart, hubName, "1");
}
return hub;
}