unsigned shouldHaveDesc(struct gbSelect* select)
/* determine orgcats that should be descriptions */
{
struct dbLoadAttr* attr;
unsigned descOrgCats = 0;
attr = dbLoadOptionsGetAttr(&gOptions, select->release->srcDb,
select->type, GB_NATIVE);
if (attr->load && attr->loadDesc)
descOrgCats |= GB_NATIVE;
attr = dbLoadOptionsGetAttr(&gOptions, select->release->srcDb,
select->type, GB_XENO);
if (attr->load && attr->loadDesc)
descOrgCats |= GB_XENO;
return descOrgCats;
}
static void chkRefSeqAlignTables(struct gbSelect* select,
struct sqlConnection* conn,
struct metaDataTbls* metaDataTbls,
struct dbLoadOptions *options)
/* Verify all of the refseq alignment tables, including checking the count of
* genePred. */
{
if ((select->orgCats & GB_NATIVE)
&& dbLoadOptionsGetAttr(options, GB_REFSEQ, select->type, GB_NATIVE)->load)
{
chkNativeRefSeqAlignTables(select, conn, metaDataTbls, options);
}
if ((select->orgCats & GB_XENO)
&& dbLoadOptionsGetAttr(options, GB_REFSEQ, select->type, GB_XENO)->load)
{
chkXenoRefSeqAlignTables(select, conn, metaDataTbls, options);
}
}
static void chkGenBankAlignTables(struct gbSelect* select,
struct sqlConnection* conn,
struct metaDataTbls* metaDataTbls,
struct dbLoadOptions *options)
/* Verify all of the PSL tables, including checking the count of
* alignments for either mRNA or ESTs. */
{
if ((select->orgCats & GB_NATIVE)
&& dbLoadOptionsGetAttr(options, GB_GENBANK, select->type, GB_NATIVE)->load)
{
chkNativeGenBankAlignTables(select, conn, metaDataTbls, options);
}
if ((select->orgCats & GB_XENO)
&& dbLoadOptionsGetAttr(options, GB_GENBANK, select->type, GB_XENO)->load)
{
chkXenoGenBankAlignTables(select, conn, metaDataTbls, options);
}
}
static boolean loadEnabled(unsigned srcDb, unsigned type,
unsigned orgCat)
/* is load enabled for (srcDb, type, orgCat) */
{
struct dbLoadAttr* attr
= dbLoadOptionsGetAttr(&gOptions, srcDb, type, orgCat);
verbose(1, "%s %s %s: %s\n", gbSrcDbName(srcDb), gbTypeName(type),
gbOrgCatName(orgCat), (attr->load ? "enabled" : "disabled"));
return attr->load;
}
static boolean keepDesc(struct gbStatus* status)
/* Check if description should be stored. */
{
return dbLoadOptionsGetAttr(gOptions, status->srcDb, status->type, status->orgCat)->loadDesc;
}