/// Initializes the data structure and function pointers in a SeqDb based
/// BlastSeqSrc.
/// @param retval Structure to populate [in] [out]
/// @param seqdb Reference to a CSeqDB object [in]
static void
s_InitNewSeqDbSrc(BlastSeqSrc* retval, TSeqDBData * datap)
{
_ASSERT(retval);
_ASSERT(datap);
/* Initialize the BlastSeqSrc structure fields with user-defined function
* pointers and seqdb */
_BlastSeqSrcImpl_SetDeleteFnPtr (retval, & s_SeqDbSrcFree);
_BlastSeqSrcImpl_SetCopyFnPtr (retval, & s_SeqDbSrcCopy);
_BlastSeqSrcImpl_SetDataStructure (retval, (void*) datap);
_BlastSeqSrcImpl_SetGetNumSeqs (retval, & s_SeqDbGetNumSeqs);
_BlastSeqSrcImpl_SetGetNumSeqsStats(retval, & s_SeqDbGetNumSeqsStats);
_BlastSeqSrcImpl_SetGetMaxSeqLen (retval, & s_SeqDbGetMaxLength);
_BlastSeqSrcImpl_SetGetMinSeqLen (retval, & s_SeqDbGetMinLength);
_BlastSeqSrcImpl_SetGetAvgSeqLen (retval, & s_SeqDbGetAvgLength);
_BlastSeqSrcImpl_SetGetTotLen (retval, & s_SeqDbGetTotLen);
_BlastSeqSrcImpl_SetGetTotLenStats(retval, & s_SeqDbGetTotLenStats);
_BlastSeqSrcImpl_SetGetName (retval, & s_SeqDbGetName);
_BlastSeqSrcImpl_SetGetIsProt (retval, & s_SeqDbGetIsProt);
_BlastSeqSrcImpl_SetGetSupportsPartialFetching (retval, & s_SeqDbGetSupportsPartialFetching);
_BlastSeqSrcImpl_SetSetSeqRange (retval, & s_SeqDbSetRanges);
_BlastSeqSrcImpl_SetGetSequence (retval, & s_SeqDbGetSequence);
_BlastSeqSrcImpl_SetGetSeqLen (retval, & s_SeqDbGetSeqLen);
_BlastSeqSrcImpl_SetIterNext (retval, & s_SeqDbIteratorNext);
_BlastSeqSrcImpl_SetResetChunkIterator(retval, & s_SeqDbResetChunkIterator);
_BlastSeqSrcImpl_SetReleaseSequence (retval, & s_SeqDbReleaseSequence);
_BlastSeqSrcImpl_SetSetNumberOfThreads (retval, & s_SeqDbSetNumberOfThreads);
#ifdef KAPPA_PRINT_DIAGNOSTICS
_BlastSeqSrcImpl_SetGetGis (retval, & s_SeqDbGetGiList);
#endif /* KAPPA_PRINT_DIAGNOSTICS */
}
/** Multi-sequence source constructor
* @param retval BlastSeqSrc structure (already allocated) to populate [in]
* @param args Pointer to MultiSeqSrcNewArgs structure above [in]
* @return Updated bssp structure (with all function pointers initialized)
*/
static BlastSeqSrc*
s_MultiSeqSrcNew(BlastSeqSrc* retval, void* args)
{
MultiSeqSrcNewArgs* seqsrc_args = (MultiSeqSrcNewArgs*) args;
MultiSeqInfo* seq_info = NULL;
ASSERT(retval);
ASSERT(seqsrc_args);
seq_info =
s_MultiSeqInfoNew(seqsrc_args->seqloc_list, seqsrc_args->program);
/* Initialize the BlastSeqSrc structure fields with user-defined function
* pointers and seq_info */
_BlastSeqSrcImpl_SetDeleteFnPtr(retval, &s_MultiSeqSrcFree);
_BlastSeqSrcImpl_SetCopyFnPtr(retval, &s_MultiSeqSrcCopy);
_BlastSeqSrcImpl_SetDataStructure(retval, (void*) seq_info);
_BlastSeqSrcImpl_SetGetNumSeqs(retval, &s_MultiSeqGetNumSeqs);
_BlastSeqSrcImpl_SetGetNumSeqsStats(retval, &s_MultiSeqGetNumSeqsStats);
_BlastSeqSrcImpl_SetGetMaxSeqLen(retval, &s_MultiSeqGetMaxLength);
_BlastSeqSrcImpl_SetGetAvgSeqLen(retval, &s_MultiSeqGetAvgLength);
_BlastSeqSrcImpl_SetGetTotLen(retval, &s_MultiSeqGetTotLen);
_BlastSeqSrcImpl_SetGetTotLenStats(retval, &s_MultiSeqGetTotLenStats);
_BlastSeqSrcImpl_SetGetName(retval, &s_MultiSeqGetName);
_BlastSeqSrcImpl_SetGetIsProt(retval, &s_MultiSeqGetIsProt);
_BlastSeqSrcImpl_SetGetSequence(retval, &s_MultiSeqGetSequence);
_BlastSeqSrcImpl_SetGetSeqLen(retval, &s_MultiSeqGetSeqLen);
_BlastSeqSrcImpl_SetIterNext(retval, &s_MultiSeqIteratorNext);
_BlastSeqSrcImpl_SetResetChunkIterator(retval, &s_MultiSeqResetChunkIter);
_BlastSeqSrcImpl_SetReleaseSequence(retval, &s_MultiSeqReleaseSequence);
return retval;
}
