/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/algo/blast/composition_adjustment/ |
H A D | redo_alignment.h | 57 typedef struct BlastCompo_Alignment { struct 69 struct BlastCompo_Alignment * next; /**< the next alignment in the argument 71 } BlastCompo_Alignment; typedef 78 BlastCompo_Alignment * 97 void BlastCompo_AlignmentsFree(BlastCompo_Alignment ** palign, 221 const BlastCompo_Alignment *align, 246 typedef BlastCompo_Alignment * 247 redo_one_alignment_type(BlastCompo_Alignment * in_align, 291 new_xdrop_align_type(BlastCompo_Alignment **palign, 466 int Blast_RedoOneMatch(BlastCompo_Alignment ** alignments, [all …]
|
/dports/biology/ncbi-toolkit/ncbi/algo/blast/composition_adjustment/ |
H A D | redo_alignment.h | 57 typedef struct BlastCompo_Alignment { struct 69 struct BlastCompo_Alignment * next; /**< the next alignment in the argument 71 } BlastCompo_Alignment; typedef 78 BlastCompo_Alignment * 97 void BlastCompo_AlignmentsFree(BlastCompo_Alignment ** palign, 221 const BlastCompo_Alignment *align, 246 typedef BlastCompo_Alignment * 247 redo_one_alignment_type(BlastCompo_Alignment * in_align, 291 new_xdrop_align_type(BlastCompo_Alignment **palign, 466 int Blast_RedoOneMatch(BlastCompo_Alignment ** alignments, [all …]
|
H A D | redo_alignment.c | 102 BlastCompo_Alignment * 109 BlastCompo_Alignment * align = malloc(sizeof(BlastCompo_Alignment)); in BlastCompo_AlignmentNew() 187 BlastCompo_Alignment * align; in s_AlignmentsAreSorted() 224 BlastCompo_Alignment * list = *plist; in s_DistinctAlignmentsSort() 264 BlastCompo_Alignment * elt; in s_DistinctAlignmentsSort() 288 static BlastCompo_Alignment * 423 BlastCompo_Alignment **tail; in s_WithDistinctEnds() 542 BlastCompo_Alignment *align, **tail; in s_WindowInfoJoin() 674 BlastCompo_Alignment * align_copy; in s_WindowsFromTranslatedAligns() 782 BlastCompo_Alignment * align; in s_WindowsFromProteinAligns() [all …]
|
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/blast/composition_adjustment/ |
H A D | redo_alignment.h | 57 typedef struct BlastCompo_Alignment { struct 69 struct BlastCompo_Alignment * next; /**< the next alignment in the argument 71 } BlastCompo_Alignment; typedef 78 BlastCompo_Alignment * 97 void BlastCompo_AlignmentsFree(BlastCompo_Alignment ** palign, 221 const BlastCompo_Alignment *align, 246 typedef BlastCompo_Alignment * 247 redo_one_alignment_type(BlastCompo_Alignment * in_align, 291 new_xdrop_align_type(BlastCompo_Alignment **palign, 466 int Blast_RedoOneMatch(BlastCompo_Alignment ** alignments, [all …]
|
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/composition_adjustment/ |
H A D | redo_alignment.c | 102 BlastCompo_Alignment * 109 BlastCompo_Alignment * align = malloc(sizeof(BlastCompo_Alignment)); in BlastCompo_AlignmentNew() 187 BlastCompo_Alignment * align; in s_AlignmentsAreSorted() 224 BlastCompo_Alignment * list = *plist; in s_DistinctAlignmentsSort() 264 BlastCompo_Alignment * elt; in s_DistinctAlignmentsSort() 288 static BlastCompo_Alignment * 423 BlastCompo_Alignment **tail; in s_WithDistinctEnds() 542 BlastCompo_Alignment *align, **tail; in s_WindowInfoJoin() 674 BlastCompo_Alignment * align_copy; in s_WindowsFromTranslatedAligns() 782 BlastCompo_Alignment * align; in s_WindowsFromProteinAligns() [all …]
|
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/composition_adjustment/ |
H A D | redo_alignment.c | 102 BlastCompo_Alignment * 109 BlastCompo_Alignment * align = malloc(sizeof(BlastCompo_Alignment)); in BlastCompo_AlignmentNew() 187 BlastCompo_Alignment * align; in s_AlignmentsAreSorted() 224 BlastCompo_Alignment * list = *plist; in s_DistinctAlignmentsSort() 264 BlastCompo_Alignment * elt; in s_DistinctAlignmentsSort() 288 static BlastCompo_Alignment * 423 BlastCompo_Alignment **tail; in s_WithDistinctEnds() 542 BlastCompo_Alignment *align, **tail; in s_WindowInfoJoin() 674 BlastCompo_Alignment * align_copy; in s_WindowsFromTranslatedAligns() 782 BlastCompo_Alignment * align; in s_WindowsFromProteinAligns() [all …]
|
/dports/biology/ncbi-toolkit/ncbi/tools/ |
H A D | kappa.c | 717 BlastCompo_Alignment ** alignments) in Kappa_SortedHitlistFromAligns() 1032 static BlastCompo_Alignment * 1243 const BlastCompo_Alignment *align, in testNearIdentical() 1296 const BlastCompo_Alignment *align, in Kappa_SequenceGetTranslatedRange() 1396 const BlastCompo_Alignment *align, in Kappa_SequenceGetProteinRange() 1513 const BlastCompo_Alignment *align, in Kappa_SequenceGetRange() 1618 static BlastCompo_Alignment * 1628 BlastCompo_Alignment * obj; /* the new alignment */ in Kappa_NewAlignFromGapAlign() 1749 static BlastCompo_Alignment * 1750 Kappa_RedoOneAlignment(BlastCompo_Alignment * in_align, in Kappa_RedoOneAlignment() [all …]
|
/dports/biology/ncbi-toolkit/ncbi/algo/blast/core/ |
H A D | blast_kappa.c | 1733 static BlastCompo_Alignment * 1884 static BlastCompo_Alignment * 1885 s_RedoOneAlignment(BlastCompo_Alignment * in_align, in s_RedoOneAlignment() 3137 BlastCompo_Alignment*** alignments_tld = in Blast_RedoAlignmentCore_MT() 3138 (BlastCompo_Alignment***) calloc( in Blast_RedoAlignmentCore_MT() 3140 sizeof(BlastCompo_Alignment**) in Blast_RedoAlignmentCore_MT() 3142 BlastCompo_Alignment*** incoming_align_set_tld = in Blast_RedoAlignmentCore_MT() 3143 (BlastCompo_Alignment***) calloc( in Blast_RedoAlignmentCore_MT() 3145 sizeof(BlastCompo_Alignment**) in Blast_RedoAlignmentCore_MT() 3278 sizeof(BlastCompo_Alignment*) in Blast_RedoAlignmentCore_MT() [all …]
|
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/core/ |
H A D | blast_kappa.c | 1745 static BlastCompo_Alignment * 1896 static BlastCompo_Alignment * 1897 s_RedoOneAlignment(BlastCompo_Alignment * in_align, in s_RedoOneAlignment() 3143 BlastCompo_Alignment*** alignments_tld = in Blast_RedoAlignmentCore_MT() 3144 (BlastCompo_Alignment***) calloc( in Blast_RedoAlignmentCore_MT() 3146 sizeof(BlastCompo_Alignment**) in Blast_RedoAlignmentCore_MT() 3148 BlastCompo_Alignment*** incoming_align_set_tld = in Blast_RedoAlignmentCore_MT() 3149 (BlastCompo_Alignment***) calloc( in Blast_RedoAlignmentCore_MT() 3151 sizeof(BlastCompo_Alignment**) in Blast_RedoAlignmentCore_MT() 3284 sizeof(BlastCompo_Alignment*) in Blast_RedoAlignmentCore_MT() [all …]
|
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/core/ |
H A D | blast_kappa.c | 1745 static BlastCompo_Alignment * 1896 static BlastCompo_Alignment * 1897 s_RedoOneAlignment(BlastCompo_Alignment * in_align, in s_RedoOneAlignment() 3143 BlastCompo_Alignment*** alignments_tld = in Blast_RedoAlignmentCore_MT() 3144 (BlastCompo_Alignment***) calloc( in Blast_RedoAlignmentCore_MT() 3146 sizeof(BlastCompo_Alignment**) in Blast_RedoAlignmentCore_MT() 3148 BlastCompo_Alignment*** incoming_align_set_tld = in Blast_RedoAlignmentCore_MT() 3149 (BlastCompo_Alignment***) calloc( in Blast_RedoAlignmentCore_MT() 3151 sizeof(BlastCompo_Alignment**) in Blast_RedoAlignmentCore_MT() 3284 sizeof(BlastCompo_Alignment*) in Blast_RedoAlignmentCore_MT() [all …]
|