Home
last modified time | relevance | path

Searched refs:compressed_alphabet_size (Results 1 – 16 of 16) sorted by relevance

/dports/biology/ncbi-toolkit/ncbi/algo/blast/core/
H A Dblast_aalookup.c982 qsort(sortTable, info->compressed_alphabet_size, in s_loadSortedMatrix()
985 for (i = 0; i < info->compressed_alphabet_size; i++) { in s_loadSortedMatrix()
1002 Int4 compressed_alphabet_size = info->compressed_alphabet_size; in s_CompressedAddWordHitsCore() local
1032 for (i = 0; i < compressed_alphabet_size && in s_CompressedAddWordHitsCore()
1048 for (i = 0; i < compressed_alphabet_size && in s_CompressedAddWordHitsCore()
1151 for (j = 1; j < lookup->compressed_alphabet_size; j++) in s_CompressedAddNeighboringWords()
1157 info.compressed_alphabet_size = lookup->compressed_alphabet_size; in s_CompressedAddNeighboringWords()
1295 lookup->compressed_alphabet_size = 15; in BlastCompressedAaLookupTableNew()
1299 lookup->compressed_alphabet_size = 10; in BlastCompressedAaLookupTableNew()
1309 lookup->compressed_alphabet_size, in BlastCompressedAaLookupTableNew()
[all …]
H A Dblast_aalookup.h240 Int4 compressed_alphabet_size; /**< letters in the compressed alphabet */ member
305 Int4 compressed_alphabet_size, in s_ComputeCompressedIndex() argument
321 index = index / compressed_alphabet_size + ch; in s_ComputeCompressedIndex()
H A Dblast_aascan.c258 Int4 compressed_alphabet_size; in s_BlastCompressedAaScanSubject() local
268 compressed_alphabet_size = lookup->compressed_alphabet_size; in s_BlastCompressedAaScanSubject()
277 compressed_alphabet_size, in s_BlastCompressedAaScanSubject()
H A Dblast_stat.c4764 Int4 compressed_alphabet_size, in s_BuildCompressedTranslation() argument
4771 table[i] = compressed_alphabet_size; in s_BuildCompressedTranslation()
4866 Int4 compressed_alphabet_size = in s_BuildCompressedScoreMatrix() local
4867 new_alphabet->compressed_alphabet_size; in s_BuildCompressedScoreMatrix()
4886 compressed_alphabet_size, in s_BuildCompressedScoreMatrix()
4900 for (s = 0; s < compressed_alphabet_size; s++) { in s_BuildCompressedScoreMatrix()
4939 Int4 compressed_alphabet_size, in SCompressedAlphabetNew() argument
4947 ASSERT(compressed_alphabet_size == 10 || in SCompressedAlphabetNew()
4948 compressed_alphabet_size == 15); in SCompressedAlphabetNew()
4955 new_alphabet->compressed_alphabet_size = compressed_alphabet_size; in SCompressedAlphabetNew()
[all …]
H A Dblast_stat.h226 Int4 compressed_alphabet_size; /**< letters in the compressed alphabet */ member
259 Int4 compressed_alphabet_size,
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/core/
H A Dblast_aalookup.c982 qsort(sortTable, info->compressed_alphabet_size, in s_loadSortedMatrix()
985 for (i = 0; i < info->compressed_alphabet_size; i++) { in s_loadSortedMatrix()
1002 Int4 compressed_alphabet_size = info->compressed_alphabet_size; in s_CompressedAddWordHitsCore() local
1032 for (i = 0; i < compressed_alphabet_size && in s_CompressedAddWordHitsCore()
1048 for (i = 0; i < compressed_alphabet_size && in s_CompressedAddWordHitsCore()
1151 for (j = 1; j < lookup->compressed_alphabet_size; j++) in s_CompressedAddNeighboringWords()
1157 info.compressed_alphabet_size = lookup->compressed_alphabet_size; in s_CompressedAddNeighboringWords()
1295 lookup->compressed_alphabet_size = 15; in BlastCompressedAaLookupTableNew()
1299 lookup->compressed_alphabet_size = 10; in BlastCompressedAaLookupTableNew()
1309 lookup->compressed_alphabet_size, in BlastCompressedAaLookupTableNew()
[all …]
H A Dblast_aascan.c258 Int4 compressed_alphabet_size; in s_BlastCompressedAaScanSubject() local
268 compressed_alphabet_size = lookup->compressed_alphabet_size; in s_BlastCompressedAaScanSubject()
277 compressed_alphabet_size, in s_BlastCompressedAaScanSubject()
H A Dblast_stat.c4764 Int4 compressed_alphabet_size, in s_BuildCompressedTranslation() argument
4771 table[i] = compressed_alphabet_size; in s_BuildCompressedTranslation()
4866 Int4 compressed_alphabet_size = in s_BuildCompressedScoreMatrix() local
4867 new_alphabet->compressed_alphabet_size; in s_BuildCompressedScoreMatrix()
4886 compressed_alphabet_size, in s_BuildCompressedScoreMatrix()
4900 for (s = 0; s < compressed_alphabet_size; s++) { in s_BuildCompressedScoreMatrix()
4939 Int4 compressed_alphabet_size, in SCompressedAlphabetNew() argument
4947 ASSERT(compressed_alphabet_size == 10 || in SCompressedAlphabetNew()
4948 compressed_alphabet_size == 15); in SCompressedAlphabetNew()
4955 new_alphabet->compressed_alphabet_size = compressed_alphabet_size; in SCompressedAlphabetNew()
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/core/
H A Dblast_aalookup.c982 qsort(sortTable, info->compressed_alphabet_size, in s_loadSortedMatrix()
985 for (i = 0; i < info->compressed_alphabet_size; i++) { in s_loadSortedMatrix()
1002 Int4 compressed_alphabet_size = info->compressed_alphabet_size; in s_CompressedAddWordHitsCore() local
1032 for (i = 0; i < compressed_alphabet_size && in s_CompressedAddWordHitsCore()
1048 for (i = 0; i < compressed_alphabet_size && in s_CompressedAddWordHitsCore()
1151 for (j = 1; j < lookup->compressed_alphabet_size; j++) in s_CompressedAddNeighboringWords()
1157 info.compressed_alphabet_size = lookup->compressed_alphabet_size; in s_CompressedAddNeighboringWords()
1295 lookup->compressed_alphabet_size = 15; in BlastCompressedAaLookupTableNew()
1299 lookup->compressed_alphabet_size = 10; in BlastCompressedAaLookupTableNew()
1309 lookup->compressed_alphabet_size, in BlastCompressedAaLookupTableNew()
[all …]
H A Dblast_aascan.c258 Int4 compressed_alphabet_size; in s_BlastCompressedAaScanSubject() local
268 compressed_alphabet_size = lookup->compressed_alphabet_size; in s_BlastCompressedAaScanSubject()
277 compressed_alphabet_size, in s_BlastCompressedAaScanSubject()
H A Dblast_stat.c4764 Int4 compressed_alphabet_size, in s_BuildCompressedTranslation() argument
4771 table[i] = compressed_alphabet_size; in s_BuildCompressedTranslation()
4866 Int4 compressed_alphabet_size = in s_BuildCompressedScoreMatrix() local
4867 new_alphabet->compressed_alphabet_size; in s_BuildCompressedScoreMatrix()
4886 compressed_alphabet_size, in s_BuildCompressedScoreMatrix()
4900 for (s = 0; s < compressed_alphabet_size; s++) { in s_BuildCompressedScoreMatrix()
4939 Int4 compressed_alphabet_size, in SCompressedAlphabetNew() argument
4947 ASSERT(compressed_alphabet_size == 10 || in SCompressedAlphabetNew()
4948 compressed_alphabet_size == 15); in SCompressedAlphabetNew()
4955 new_alphabet->compressed_alphabet_size = compressed_alphabet_size; in SCompressedAlphabetNew()
[all …]
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/algo/blast/core/
H A Dblast_aalookup.h240 Int4 compressed_alphabet_size; /**< letters in the compressed alphabet */ member
305 Int4 compressed_alphabet_size, in s_ComputeCompressedIndex() argument
321 index = index / compressed_alphabet_size + ch; in s_ComputeCompressedIndex()
H A Dblast_stat.h226 Int4 compressed_alphabet_size; /**< letters in the compressed alphabet */ member
259 Int4 compressed_alphabet_size,
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/blast/core/
H A Dblast_aalookup.h240 Int4 compressed_alphabet_size; /**< letters in the compressed alphabet */ member
305 Int4 compressed_alphabet_size, in s_ComputeCompressedIndex() argument
321 index = index / compressed_alphabet_size + ch; in s_ComputeCompressedIndex()
H A Dblast_stat.h226 Int4 compressed_alphabet_size; /**< letters in the compressed alphabet */ member
259 Int4 compressed_alphabet_size,
/dports/biology/diamond/diamond-2.0.13/src/lib/blast/
H A Dblast_stat.h224 Int4 compressed_alphabet_size; /**< letters in the compressed alphabet */ member
239 Int4 compressed_alphabet_size,