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Searched refs:GetFileDataPtr (Results 1 – 22 of 22) sorted by relevance

/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/blast/seqdb_reader/impl/
H A Dseqdbfile.hpp123 const char * GetFileDataPtr(CSeqDBFileMemMap & lease, // commented in GetFileDataPtr() function in CSeqDBRawFile
131 const char *p = (const char *)lease.GetFileDataPtr(m_FileName,start); in GetFileDataPtr()
650 return (Uint4*) m_HdrLease.GetFileDataPtr(m_FileName, m_OffHdr); in x_GetHdr()
657 return (Uint4*) m_SeqLease.GetFileDataPtr(m_FileName, m_OffSeq); in x_GetSeq()
665 return (Uint4*) m_AmbLease.GetFileDataPtr(m_FileName, m_OffAmb); in x_GetAmb()
822 … const char * GetFileDataPtr(TIndx start) const // commented in GetFileDataPtr() function in CSeqDBSeqFile
824 const char *p = (const char *)m_Lease.GetFileDataPtr(start); in GetFileDataPtr()
907 … const char * GetFileDataPtr(TIndx start) const // commented in GetFileDataPtr() function in CSeqDBHdrFile
912 const char *p = (const char *)m_Lease.GetFileDataPtr(start); in GetFileDataPtr()
927 memcpy(buf, lease.GetFileDataPtr(m_FileName,start), end-start); in ReadBytes()
H A Dseqdbisam.hpp504 const char * keydatap = lease.GetFileDataPtr(m_KeySampleOffset); in x_LoadIndex()
526 const char * keydatap = lease.GetFileDataPtr(begin); in x_LoadData()
1296 keydatap = index_lease.GetFileDataPtr(offset_begin); in x_TestNumericSample()
1325 keydatap = index_lease.GetFileDataPtr(offset_begin); in x_GetNumericSample()
1340 const char * keydatap = lease.GetFileDataPtr(m_KeySampleOffset); in x_LoadIndex()
1362 const char * keydatap = lease.GetFileDataPtr(begin); in x_LoadData()
1380 const Uint4 * offset = (const Uint4 *) lease.GetFileDataPtr(offset_begin); in x_LoadIndex()
1387 offset = (const Uint4 *) lease.GetFileDataPtr(sample_begin); in x_LoadIndex()
1393 const char * keydatap = (const char *) lease.GetFileDataPtr(offset_begin) - 1; in x_LoadIndex()
1413 const char * keydatap = (const char *) lease.GetFileDataPtr(begin) - 1; in x_LoadData()
[all …]
H A Dseqdbatlas.hpp754 const char *GetFileDataPtr(const string & fname,TIndx offset) in GetFileDataPtr() function in CSeqDBFileMemMap
763 const char *GetFileDataPtr(TIndx offset) in GetFileDataPtr() function in CSeqDBFileMemMap
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objtools/blast/seqdb_reader/impl/
H A Dseqdbfile.hpp123 const char * GetFileDataPtr(CSeqDBFileMemMap & lease, // commented in GetFileDataPtr() function in CSeqDBRawFile
131 const char *p = (const char *)lease.GetFileDataPtr(m_FileName,start); in GetFileDataPtr()
650 return (Uint4*) m_HdrLease.GetFileDataPtr(m_FileName, m_OffHdr); in x_GetHdr()
657 return (Uint4*) m_SeqLease.GetFileDataPtr(m_FileName, m_OffSeq); in x_GetSeq()
665 return (Uint4*) m_AmbLease.GetFileDataPtr(m_FileName, m_OffAmb); in x_GetAmb()
822 … const char * GetFileDataPtr(TIndx start) const // commented in GetFileDataPtr() function in CSeqDBSeqFile
824 const char *p = (const char *)m_Lease.GetFileDataPtr(start); in GetFileDataPtr()
907 … const char * GetFileDataPtr(TIndx start) const // commented in GetFileDataPtr() function in CSeqDBHdrFile
912 const char *p = (const char *)m_Lease.GetFileDataPtr(start); in GetFileDataPtr()
927 memcpy(buf, lease.GetFileDataPtr(m_FileName,start), end-start); in ReadBytes()
H A Dseqdbisam.hpp504 const char * keydatap = lease.GetFileDataPtr(m_KeySampleOffset); in x_LoadIndex()
526 const char * keydatap = lease.GetFileDataPtr(begin); in x_LoadData()
1296 keydatap = index_lease.GetFileDataPtr(offset_begin); in x_TestNumericSample()
1325 keydatap = index_lease.GetFileDataPtr(offset_begin); in x_GetNumericSample()
1340 const char * keydatap = lease.GetFileDataPtr(m_KeySampleOffset); in x_LoadIndex()
1362 const char * keydatap = lease.GetFileDataPtr(begin); in x_LoadData()
1380 const Uint4 * offset = (const Uint4 *) lease.GetFileDataPtr(offset_begin); in x_LoadIndex()
1387 offset = (const Uint4 *) lease.GetFileDataPtr(sample_begin); in x_LoadIndex()
1393 const char * keydatap = (const char *) lease.GetFileDataPtr(offset_begin) - 1; in x_LoadIndex()
1413 const char * keydatap = (const char *) lease.GetFileDataPtr(begin) - 1; in x_LoadData()
[all …]
H A Dseqdbatlas.hpp754 const char *GetFileDataPtr(const string & fname,TIndx offset) in GetFileDataPtr() function in CSeqDBFileMemMap
763 const char *GetFileDataPtr(TIndx offset) in GetFileDataPtr() function in CSeqDBFileMemMap
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/blast/seqdb_reader/
H A Dseqdbgimask.cpp91 m_OffsetFile.GetFileDataPtr(m_OffsetLease, begin, end); in GetMaskData()
104 m_DataFile[vol]->GetFileDataPtr(*m_DataLease[vol], off, off+4); in GetMaskData()
109 m_DataFile[vol]->GetFileDataPtr(*m_DataLease[vol], off+4, off + 8*n + 4); in GetMaskData()
195 const char * ptr = file.GetFileDataPtr(lease, begin, end); in s_GetFileRange()
250 m_IndexFile.GetFileDataPtr(m_IndexLease, begin, end); in x_ReadFields()
H A Dseqdbfile.cpp76 *value = SeqDB_GetStdOrd((Uint4 *) lease.GetFileDataPtr(m_FileName,offset)); in ReadSwapped()
86 *value = SeqDB_GetBroken((Int8 *) lease.GetFileDataPtr(m_FileName,offset)); in ReadSwapped()
97 len = SeqDB_GetStdOrd((Int4 *) lease.GetFileDataPtr(m_FileName,offset)); in ReadSwapped()
101 value->assign(lease.GetFileDataPtr(offset), (int) len); in ReadSwapped()
H A Dseqdbisam.cpp74 Int4 * FileInfo = (Int4*)m_IndexLease.GetFileDataPtr(m_IndexFname,0); in x_InitSearch()
175 keydatap = m_IndexLease.GetFileDataPtr(m_IndexFname,offset_begin); in x_SearchIndexNumeric()
442 KeyDataPageStart = m_DataLease.GetFileDataPtr(m_DataFname,offset_begin); in x_SearchDataNumeric()
545 const char * file_data = (const char *)lease.GetFileDataPtr(file_name,offset_begin); in x_DiffCharLease()
831 Int4 * key_offset_addr = (Int4 *)m_IndexLease.GetFileDataPtr(offset_begin); in x_GetIndexKeyOffset()
845 (const char *)m_IndexLease.GetFileDataPtr(key_offset); in x_GetIndexString()
885 KeyOffset = SeqDB_GetStdOrd((Int4*)m_IndexLease.GetFileDataPtr(offset_begin)); in x_DiffSample()
912 Uint4 * key_offsets((Uint4*)m_IndexLease.GetFileDataPtr(begin_offset)); in x_LoadPage()
918 *beginp = (const char *) m_DataLease.GetFileDataPtr(m_DataFname,key_off1); in x_LoadPage()
919 *endp = (const char *) m_DataLease.GetFileDataPtr(key_off2); in x_LoadPage()
[all …]
H A Dseqdbvol.cpp58 data = m_Lease.GetFileDataPtr(0); in GetSeqGI()
68 data = m_Lease.GetFileDataPtr(offset); in GetSeqGI()
1777 *buffer = m_Seq->GetFileDataPtr(start_offset-1) + 1; in x_GetSequence()
1792 *buffer = m_Seq->GetFileDataPtr(start_offset); in x_GetSequence()
2266 const char * asn_region = m_Hdr->GetFileDataPtr(hdr_start); in x_GetHdrAsn1Binary()
2326 (Int4*) m_Seq->GetFileDataPtr(start_offset); in x_GetAmbChar()
3011 *buffer = m_Seq->GetFileDataPtr(map_begin); in GetRawSeqAndAmbig()
H A Dseqdbcol.cpp194 const char * ptr = file.GetFileDataPtr(lease, begin, end); in x_GetFileRange()
H A Dseqdboidlist.cpp472 volmask.GetFileDataPtr(lease, sizeof(Int4), file_length); in x_GetOidMask()
474 bitmap = (TCUC*) lease.GetFileDataPtr(sizeof(Int4)); in x_GetOidMask()
H A Dseqdbgilistset.cpp97 const char * fbeginp = memlease.GetFileDataPtr(0); in CSeqDBNodeFileIdList()
H A Dseqdbalias.cpp555 const char * bp = lease.GetFileDataPtr(0); in x_ReadAliasSetFile()
663 *bp = lease.GetFileDataPtr(0); in x_ReadAliasFile()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/blast/seqdb_reader/
H A Dseqdbgimask.cpp91 m_OffsetFile.GetFileDataPtr(m_OffsetLease, begin, end); in GetMaskData()
104 m_DataFile[vol]->GetFileDataPtr(*m_DataLease[vol], off, off+4); in GetMaskData()
109 m_DataFile[vol]->GetFileDataPtr(*m_DataLease[vol], off+4, off + 8*n + 4); in GetMaskData()
195 const char * ptr = file.GetFileDataPtr(lease, begin, end); in s_GetFileRange()
250 m_IndexFile.GetFileDataPtr(m_IndexLease, begin, end); in x_ReadFields()
H A Dseqdbfile.cpp76 *value = SeqDB_GetStdOrd((Uint4 *) lease.GetFileDataPtr(m_FileName,offset)); in ReadSwapped()
86 *value = SeqDB_GetBroken((Int8 *) lease.GetFileDataPtr(m_FileName,offset)); in ReadSwapped()
97 len = SeqDB_GetStdOrd((Int4 *) lease.GetFileDataPtr(m_FileName,offset)); in ReadSwapped()
101 value->assign(lease.GetFileDataPtr(offset), (int) len); in ReadSwapped()
H A Dseqdbisam.cpp74 Int4 * FileInfo = (Int4*)m_IndexLease.GetFileDataPtr(m_IndexFname,0); in x_InitSearch()
175 keydatap = m_IndexLease.GetFileDataPtr(m_IndexFname,offset_begin); in x_SearchIndexNumeric()
442 KeyDataPageStart = m_DataLease.GetFileDataPtr(m_DataFname,offset_begin); in x_SearchDataNumeric()
545 const char * file_data = (const char *)lease.GetFileDataPtr(file_name,offset_begin); in x_DiffCharLease()
831 Int4 * key_offset_addr = (Int4 *)m_IndexLease.GetFileDataPtr(offset_begin); in x_GetIndexKeyOffset()
845 (const char *)m_IndexLease.GetFileDataPtr(key_offset); in x_GetIndexString()
885 KeyOffset = SeqDB_GetStdOrd((Int4*)m_IndexLease.GetFileDataPtr(offset_begin)); in x_DiffSample()
912 Uint4 * key_offsets((Uint4*)m_IndexLease.GetFileDataPtr(begin_offset)); in x_LoadPage()
918 *beginp = (const char *) m_DataLease.GetFileDataPtr(m_DataFname,key_off1); in x_LoadPage()
919 *endp = (const char *) m_DataLease.GetFileDataPtr(key_off2); in x_LoadPage()
[all …]
H A Dseqdbvol.cpp58 data = m_Lease.GetFileDataPtr(0); in GetSeqGI()
68 data = m_Lease.GetFileDataPtr(offset); in GetSeqGI()
1777 *buffer = m_Seq->GetFileDataPtr(start_offset-1) + 1; in x_GetSequence()
1792 *buffer = m_Seq->GetFileDataPtr(start_offset); in x_GetSequence()
2266 const char * asn_region = m_Hdr->GetFileDataPtr(hdr_start); in x_GetHdrAsn1Binary()
2326 (Int4*) m_Seq->GetFileDataPtr(start_offset); in x_GetAmbChar()
3011 *buffer = m_Seq->GetFileDataPtr(map_begin); in GetRawSeqAndAmbig()
H A Dseqdbcol.cpp194 const char * ptr = file.GetFileDataPtr(lease, begin, end); in x_GetFileRange()
H A Dseqdboidlist.cpp472 volmask.GetFileDataPtr(lease, sizeof(Int4), file_length); in x_GetOidMask()
474 bitmap = (TCUC*) lease.GetFileDataPtr(sizeof(Int4)); in x_GetOidMask()
H A Dseqdbgilistset.cpp97 const char * fbeginp = memlease.GetFileDataPtr(0); in CSeqDBNodeFileIdList()
H A Dseqdbalias.cpp555 const char * bp = lease.GetFileDataPtr(0); in x_ReadAliasSetFile()
663 *bp = lease.GetFileDataPtr(0); in x_ReadAliasFile()