/dports/biology/ncbi-toolkit/ncbi/algo/blast/core/ |
H A D | blast_aalookup.c | 982 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 …]
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H A D | blast_aalookup.h | 240 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()
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H A D | blast_aascan.c | 258 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()
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H A D | blast_stat.c | 4764 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 …]
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H A D | blast_stat.h | 226 Int4 compressed_alphabet_size; /**< letters in the compressed alphabet */ member 259 Int4 compressed_alphabet_size,
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/core/ |
H A D | blast_aalookup.c | 982 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 …]
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H A D | blast_aascan.c | 258 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()
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H A D | blast_stat.c | 4764 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 …]
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/core/ |
H A D | blast_aalookup.c | 982 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 …]
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H A D | blast_aascan.c | 258 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()
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H A D | blast_stat.c | 4764 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 …]
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/algo/blast/core/ |
H A D | blast_aalookup.h | 240 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()
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H A D | blast_stat.h | 226 Int4 compressed_alphabet_size; /**< letters in the compressed alphabet */ member 259 Int4 compressed_alphabet_size,
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/blast/core/ |
H A D | blast_aalookup.h | 240 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()
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H A D | blast_stat.h | 226 Int4 compressed_alphabet_size; /**< letters in the compressed alphabet */ member 259 Int4 compressed_alphabet_size,
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/dports/biology/diamond/diamond-2.0.13/src/lib/blast/ |
H A D | blast_stat.h | 224 Int4 compressed_alphabet_size; /**< letters in the compressed alphabet */ member 239 Int4 compressed_alphabet_size,
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