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Searched refs:BlastCompo_Alignment (Results 1 – 10 of 10) sorted by relevance

/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/algo/blast/composition_adjustment/
H A Dredo_alignment.h57 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,
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/dports/biology/ncbi-toolkit/ncbi/algo/blast/composition_adjustment/
H A Dredo_alignment.h57 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,
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H A Dredo_alignment.c102 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()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/blast/composition_adjustment/
H A Dredo_alignment.h57 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,
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/composition_adjustment/
H A Dredo_alignment.c102 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()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/composition_adjustment/
H A Dredo_alignment.c102 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()
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/dports/biology/ncbi-toolkit/ncbi/tools/
H A Dkappa.c717 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()
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/dports/biology/ncbi-toolkit/ncbi/algo/blast/core/
H A Dblast_kappa.c1733 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()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/core/
H A Dblast_kappa.c1745 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()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/core/
H A Dblast_kappa.c1745 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()
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