void gbAlignDataInit(char *tmpDir, struct dbLoadOptions* options,
struct sqlConnection *conn)
/* initialize. called once per genbank type. tmpDirPath can be null to setup
* just for deletion.*/
{
if (alignTblSet == NULL)
{
assert(geneTblSet == NULL);
alignTblSet = gbAlignTblSetNew(((options->flags & DBLOAD_PER_CHROM_ALIGN) != 0),
((options->flags & DBLOAD_ADD_VERSION) != 0), tmpDir);
geneTblSet = gbGeneTblSetNew(tmpDir);
}
setDerivedTblFlags(conn, options);
}
void gbMetaDataUpdateChgGenes(struct sqlConnection *conn,
struct gbSelect *select,
struct gbStatusTbl* statusTbl,
char *tmpDir)
/* update gene tables where annotations have changed but sequence
* has not changes and is not being reloaded */
{
if (partitionMayHaveGeneTbls(select))
{
struct gbGeneTblSet *ggts = gbGeneTblSetNew(tmpDir);
struct gbStatus* status;
for (status = statusTbl->metaChgList; status != NULL; status = status->next)
{
if (inGeneTbls(status) && !(status->stateChg & GB_SEQ_CHG))
updateGeneEntries(conn, ggts, status, select->hasVersion); // ext chg or rebuild derived
}
gbGeneTblSetCommit(ggts, conn);
gbGeneTblSetFree(&ggts);
}
}
