| /dports/devel/libgit2/libgit2-1.3.0/tests/refs/branches/ |
| H A D | move.c | 21 git_reference *original_ref, *new_ref; in test_refs_branches_move__can_move_a_local_branch() local
34 git_reference *original_ref, *new_ref, *newer_ref; in test_refs_branches_move__can_move_a_local_branch_to_a_different_namespace() local
51 git_reference *original_ref, *new_ref, *newer_ref; in test_refs_branches_move__can_move_a_local_branch_to_a_partially_colliding_namespace() local
68 git_reference *original_ref, *new_ref; in test_refs_branches_move__can_not_move_a_branch_if_its_destination_name_collide_with_an_existing_one() local
129 git_reference *original_ref, *new_ref; in test_refs_branches_move__moving_a_branch_with_an_invalid_name_returns_EINVALIDSPEC() local
140 git_reference *tag, *new_ref; in test_refs_branches_move__can_not_move_a_non_branch() local
150 git_reference *original_ref, *new_ref; in test_refs_branches_move__can_force_move_over_an_existing_branch() local
200 git_reference *original_ref, *new_ref; in test_refs_branches_move__can_move_with_unicode() local
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| /dports/biology/sra-tools/sra-tools-2.11.0/ngs/ngs-sdk/language/java/ |
| H A D | jni_AlignmentItf.cpp | 58 StringItf * new_ref = Self ( jself ) -> getFragmentId (); in Java_ngs_itf_AlignmentItf_GetFragmentId() local
194 StringItf * new_ref = Self ( jself ) -> getAlignmentId (); in Java_ngs_itf_AlignmentItf_GetAlignmentId() local
223 StringItf * new_ref = Self ( jself ) -> getReferenceSpec (); in Java_ngs_itf_AlignmentItf_GetReferenceSpec() local
280 StringItf * new_ref = Self ( jself ) -> getReferenceBases (); in Java_ngs_itf_AlignmentItf_GetReferenceBases() local
309 StringItf * new_ref = Self ( jself ) -> getReadGroup (); in Java_ngs_itf_AlignmentItf_GetReadGroup() local
338 StringItf * new_ref = Self ( jself ) -> getReadId (); in Java_ngs_itf_AlignmentItf_GetReadId() local
367 StringItf * new_ref = Self ( jself ) -> getClippedFragmentBases (); in Java_ngs_itf_AlignmentItf_GetClippedFragmentBases() local
425 StringItf * new_ref = Self ( jself ) -> getAlignedFragmentBases (); in Java_ngs_itf_AlignmentItf_GetAlignedFragmentBases() local
727 StringItf * new_ref = Self ( jself ) -> getMateAlignmentId (); in Java_ngs_itf_AlignmentItf_GetMateAlignmentId() local
756 AlignmentItf * new_ref = Self ( jself ) -> getMateAlignment (); in Java_ngs_itf_AlignmentItf_GetMateAlignment() local
[all …]
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| H A D | jni_ReferenceItf.cpp | 69 StringItf * new_ref = Self ( jself ) -> getCommonName (); in Java_ngs_itf_ReferenceItf_GetCommonName() local
98 StringItf * new_ref = Self ( jself ) -> getCanonicalName (); in Java_ngs_itf_ReferenceItf_GetCanonicalName() local
212 StringItf * new_ref = Self ( jself ) -> getReferenceBases ( offset, length ); in Java_ngs_itf_ReferenceItf_GetReferenceBases() local
242 StringItf * new_ref = Self ( jself ) -> getReferenceChunk ( offset, length ); in Java_ngs_itf_ReferenceItf_GetReferenceChunk() local
302 AlignmentItf * new_ref = Self ( jself ) -> getAlignment ( id ); in Java_ngs_itf_ReferenceItf_GetAlignment() local
338 AlignmentItf * new_ref = Self ( jself ) -> getAlignments ( categories ); in Java_ngs_itf_ReferenceItf_GetAlignments() local
367 AlignmentItf * new_ref = Self ( jself ) -> getAlignmentSlice ( offset, length, categories ); in Java_ngs_itf_ReferenceItf_GetAlignmentSlice() local
425 PileupItf * new_ref = Self ( jself ) -> getPileups ( categories ); in Java_ngs_itf_ReferenceItf_GetPileups() local
454 … PileupItf * new_ref = Self ( jself ) -> getFilteredPileups ( categories, filters, map_qual ); in Java_ngs_itf_ReferenceItf_GetFilteredPileups() local
483 PileupItf * new_ref = Self ( jself ) -> getPileupSlice ( offset, length, categories ); in Java_ngs_itf_ReferenceItf_GetPileupSlice() local
[all …]
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| H A D | jni_ReadCollectionItf.cpp | 83 StringItf * new_ref = Self ( jself ) -> getName (); in Java_ngs_itf_ReadCollectionItf_GetName() local
112 ReadGroupItf * new_ref = Self ( jself ) -> getReadGroups (); in Java_ngs_itf_ReadCollectionItf_GetReadGroups() local
166 ReadGroupItf * new_ref = Self ( jself ) -> getReadGroup ( spec ); in Java_ngs_itf_ReadCollectionItf_GetReadGroup() local
202 ReferenceItf * new_ref = Self ( jself ) -> getReferences (); in Java_ngs_itf_ReadCollectionItf_GetReferences() local
256 ReferenceItf * new_ref = Self ( jself ) -> getReference ( spec ); in Java_ngs_itf_ReadCollectionItf_GetReference() local
295 AlignmentItf * new_ref = Self ( jself ) -> getAlignment ( spec ); in Java_ngs_itf_ReadCollectionItf_GetAlignment() local
331 AlignmentItf * new_ref = Self ( jself ) -> getAlignments ( categories ); in Java_ngs_itf_ReadCollectionItf_GetAlignments() local
391 AlignmentItf * new_ref = Self ( jself ) -> getAlignmentRange ( first, count, categories ); in Java_ngs_itf_ReadCollectionItf_GetAlignmentRange() local
423 ReadItf * new_ref = Self ( jself ) -> getRead ( spec ); in Java_ngs_itf_ReadCollectionItf_GetRead() local
459 ReadItf * new_ref = Self ( jself ) -> getReads ( categories ); in Java_ngs_itf_ReadCollectionItf_GetReads() local
[all …]
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| H A D | jni_ReadGroupItf.cpp | 71 StringItf * new_ref = Self ( jself ) -> getName (); in Java_ngs_itf_ReadGroupItf_GetName() local
100 StatisticsItf * new_ref = Self ( jself ) -> getStatistics (); in Java_ngs_itf_ReadGroupItf_GetStatistics() local
134 ReadItf * new_ref = Self ( jself ) -> getRead ( readId ); in Java_ngs_itf_ReadGroupItf_GetRead() local
170 ReadItf * new_ref = Self ( jself ) -> getReads ( categories ); in Java_ngs_itf_ReadGroupItf_GetReads() local
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| H A D | jni_ReadItf.cpp | 58 StringItf * new_ref = Self ( jself ) -> getFragmentId (); in Java_ngs_itf_ReadItf_GetFragmentId() local
88 StringItf * new_ref = Self ( jself ) -> getFragmentBases ( offset, length ); in Java_ngs_itf_ReadItf_GetFragmentBases() local
118 StringItf * new_ref = Self ( jself ) -> getFragmentQualities ( offset, length ); in Java_ngs_itf_ReadItf_GetFragmentQualities() local
244 StringItf * new_ref = Self ( jself ) -> getReadId (); in Java_ngs_itf_ReadItf_GetReadId() local
358 StringItf * new_ref = Self ( jself ) -> getReadGroup (); in Java_ngs_itf_ReadItf_GetReadGroup() local
387 StringItf * new_ref = Self ( jself ) -> getReadName (); in Java_ngs_itf_ReadItf_GetReadName() local
417 StringItf * new_ref = Self ( jself ) -> getReadBases ( offset, length ); in Java_ngs_itf_ReadItf_GetReadBases() local
447 StringItf * new_ref = Self ( jself ) -> getReadQualities ( offset, length ); in Java_ngs_itf_ReadItf_GetReadQualities() local
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| /dports/biology/ncbi-vdb/ngs-2.11.0/ngs-sdk/language/java/ |
| H A D | jni_AlignmentItf.cpp | 58 StringItf * new_ref = Self ( jself ) -> getFragmentId (); in Java_ngs_itf_AlignmentItf_GetFragmentId() local
194 StringItf * new_ref = Self ( jself ) -> getAlignmentId (); in Java_ngs_itf_AlignmentItf_GetAlignmentId() local
223 StringItf * new_ref = Self ( jself ) -> getReferenceSpec (); in Java_ngs_itf_AlignmentItf_GetReferenceSpec() local
280 StringItf * new_ref = Self ( jself ) -> getReferenceBases (); in Java_ngs_itf_AlignmentItf_GetReferenceBases() local
309 StringItf * new_ref = Self ( jself ) -> getReadGroup (); in Java_ngs_itf_AlignmentItf_GetReadGroup() local
338 StringItf * new_ref = Self ( jself ) -> getReadId (); in Java_ngs_itf_AlignmentItf_GetReadId() local
367 StringItf * new_ref = Self ( jself ) -> getClippedFragmentBases (); in Java_ngs_itf_AlignmentItf_GetClippedFragmentBases() local
425 StringItf * new_ref = Self ( jself ) -> getAlignedFragmentBases (); in Java_ngs_itf_AlignmentItf_GetAlignedFragmentBases() local
727 StringItf * new_ref = Self ( jself ) -> getMateAlignmentId (); in Java_ngs_itf_AlignmentItf_GetMateAlignmentId() local
756 AlignmentItf * new_ref = Self ( jself ) -> getMateAlignment (); in Java_ngs_itf_AlignmentItf_GetMateAlignment() local
[all …]
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| H A D | jni_ReferenceItf.cpp | 69 StringItf * new_ref = Self ( jself ) -> getCommonName (); in Java_ngs_itf_ReferenceItf_GetCommonName() local
98 StringItf * new_ref = Self ( jself ) -> getCanonicalName (); in Java_ngs_itf_ReferenceItf_GetCanonicalName() local
212 StringItf * new_ref = Self ( jself ) -> getReferenceBases ( offset, length ); in Java_ngs_itf_ReferenceItf_GetReferenceBases() local
242 StringItf * new_ref = Self ( jself ) -> getReferenceChunk ( offset, length ); in Java_ngs_itf_ReferenceItf_GetReferenceChunk() local
302 AlignmentItf * new_ref = Self ( jself ) -> getAlignment ( id ); in Java_ngs_itf_ReferenceItf_GetAlignment() local
338 AlignmentItf * new_ref = Self ( jself ) -> getAlignments ( categories ); in Java_ngs_itf_ReferenceItf_GetAlignments() local
367 AlignmentItf * new_ref = Self ( jself ) -> getAlignmentSlice ( offset, length, categories ); in Java_ngs_itf_ReferenceItf_GetAlignmentSlice() local
425 PileupItf * new_ref = Self ( jself ) -> getPileups ( categories ); in Java_ngs_itf_ReferenceItf_GetPileups() local
454 … PileupItf * new_ref = Self ( jself ) -> getFilteredPileups ( categories, filters, map_qual ); in Java_ngs_itf_ReferenceItf_GetFilteredPileups() local
483 PileupItf * new_ref = Self ( jself ) -> getPileupSlice ( offset, length, categories ); in Java_ngs_itf_ReferenceItf_GetPileupSlice() local
[all …]
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| H A D | jni_ReadCollectionItf.cpp | 83 StringItf * new_ref = Self ( jself ) -> getName (); in Java_ngs_itf_ReadCollectionItf_GetName() local
112 ReadGroupItf * new_ref = Self ( jself ) -> getReadGroups (); in Java_ngs_itf_ReadCollectionItf_GetReadGroups() local
166 ReadGroupItf * new_ref = Self ( jself ) -> getReadGroup ( spec ); in Java_ngs_itf_ReadCollectionItf_GetReadGroup() local
202 ReferenceItf * new_ref = Self ( jself ) -> getReferences (); in Java_ngs_itf_ReadCollectionItf_GetReferences() local
256 ReferenceItf * new_ref = Self ( jself ) -> getReference ( spec ); in Java_ngs_itf_ReadCollectionItf_GetReference() local
295 AlignmentItf * new_ref = Self ( jself ) -> getAlignment ( spec ); in Java_ngs_itf_ReadCollectionItf_GetAlignment() local
331 AlignmentItf * new_ref = Self ( jself ) -> getAlignments ( categories ); in Java_ngs_itf_ReadCollectionItf_GetAlignments() local
391 AlignmentItf * new_ref = Self ( jself ) -> getAlignmentRange ( first, count, categories ); in Java_ngs_itf_ReadCollectionItf_GetAlignmentRange() local
423 ReadItf * new_ref = Self ( jself ) -> getRead ( spec ); in Java_ngs_itf_ReadCollectionItf_GetRead() local
459 ReadItf * new_ref = Self ( jself ) -> getReads ( categories ); in Java_ngs_itf_ReadCollectionItf_GetReads() local
[all …]
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| H A D | jni_ReadGroupItf.cpp | 71 StringItf * new_ref = Self ( jself ) -> getName (); in Java_ngs_itf_ReadGroupItf_GetName() local
100 StatisticsItf * new_ref = Self ( jself ) -> getStatistics (); in Java_ngs_itf_ReadGroupItf_GetStatistics() local
134 ReadItf * new_ref = Self ( jself ) -> getRead ( readId ); in Java_ngs_itf_ReadGroupItf_GetRead() local
170 ReadItf * new_ref = Self ( jself ) -> getReads ( categories ); in Java_ngs_itf_ReadGroupItf_GetReads() local
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| H A D | jni_ReadItf.cpp | 58 StringItf * new_ref = Self ( jself ) -> getFragmentId (); in Java_ngs_itf_ReadItf_GetFragmentId() local
88 StringItf * new_ref = Self ( jself ) -> getFragmentBases ( offset, length ); in Java_ngs_itf_ReadItf_GetFragmentBases() local
118 StringItf * new_ref = Self ( jself ) -> getFragmentQualities ( offset, length ); in Java_ngs_itf_ReadItf_GetFragmentQualities() local
244 StringItf * new_ref = Self ( jself ) -> getReadId (); in Java_ngs_itf_ReadItf_GetReadId() local
358 StringItf * new_ref = Self ( jself ) -> getReadGroup (); in Java_ngs_itf_ReadItf_GetReadGroup() local
387 StringItf * new_ref = Self ( jself ) -> getReadName (); in Java_ngs_itf_ReadItf_GetReadName() local
417 StringItf * new_ref = Self ( jself ) -> getReadBases ( offset, length ); in Java_ngs_itf_ReadItf_GetReadBases() local
447 StringItf * new_ref = Self ( jself ) -> getReadQualities ( offset, length ); in Java_ngs_itf_ReadItf_GetReadQualities() local
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| /dports/biology/ngs-sdk/ngs-2.11.1/ngs-sdk/language/java/ |
| H A D | jni_AlignmentItf.cpp | 58 StringItf * new_ref = Self ( jself ) -> getFragmentId (); in Java_ngs_itf_AlignmentItf_GetFragmentId() local
194 StringItf * new_ref = Self ( jself ) -> getAlignmentId (); in Java_ngs_itf_AlignmentItf_GetAlignmentId() local
223 StringItf * new_ref = Self ( jself ) -> getReferenceSpec (); in Java_ngs_itf_AlignmentItf_GetReferenceSpec() local
280 StringItf * new_ref = Self ( jself ) -> getReferenceBases (); in Java_ngs_itf_AlignmentItf_GetReferenceBases() local
309 StringItf * new_ref = Self ( jself ) -> getReadGroup (); in Java_ngs_itf_AlignmentItf_GetReadGroup() local
338 StringItf * new_ref = Self ( jself ) -> getReadId (); in Java_ngs_itf_AlignmentItf_GetReadId() local
367 StringItf * new_ref = Self ( jself ) -> getClippedFragmentBases (); in Java_ngs_itf_AlignmentItf_GetClippedFragmentBases() local
425 StringItf * new_ref = Self ( jself ) -> getAlignedFragmentBases (); in Java_ngs_itf_AlignmentItf_GetAlignedFragmentBases() local
727 StringItf * new_ref = Self ( jself ) -> getMateAlignmentId (); in Java_ngs_itf_AlignmentItf_GetMateAlignmentId() local
756 AlignmentItf * new_ref = Self ( jself ) -> getMateAlignment (); in Java_ngs_itf_AlignmentItf_GetMateAlignment() local
[all …]
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| H A D | jni_ReferenceItf.cpp | 69 StringItf * new_ref = Self ( jself ) -> getCommonName (); in Java_ngs_itf_ReferenceItf_GetCommonName() local
98 StringItf * new_ref = Self ( jself ) -> getCanonicalName (); in Java_ngs_itf_ReferenceItf_GetCanonicalName() local
212 StringItf * new_ref = Self ( jself ) -> getReferenceBases ( offset, length ); in Java_ngs_itf_ReferenceItf_GetReferenceBases() local
242 StringItf * new_ref = Self ( jself ) -> getReferenceChunk ( offset, length ); in Java_ngs_itf_ReferenceItf_GetReferenceChunk() local
302 AlignmentItf * new_ref = Self ( jself ) -> getAlignment ( id ); in Java_ngs_itf_ReferenceItf_GetAlignment() local
338 AlignmentItf * new_ref = Self ( jself ) -> getAlignments ( categories ); in Java_ngs_itf_ReferenceItf_GetAlignments() local
367 AlignmentItf * new_ref = Self ( jself ) -> getAlignmentSlice ( offset, length, categories ); in Java_ngs_itf_ReferenceItf_GetAlignmentSlice() local
425 PileupItf * new_ref = Self ( jself ) -> getPileups ( categories ); in Java_ngs_itf_ReferenceItf_GetPileups() local
454 … PileupItf * new_ref = Self ( jself ) -> getFilteredPileups ( categories, filters, map_qual ); in Java_ngs_itf_ReferenceItf_GetFilteredPileups() local
483 PileupItf * new_ref = Self ( jself ) -> getPileupSlice ( offset, length, categories ); in Java_ngs_itf_ReferenceItf_GetPileupSlice() local
[all …]
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| H A D | jni_ReadCollectionItf.cpp | 83 StringItf * new_ref = Self ( jself ) -> getName (); in Java_ngs_itf_ReadCollectionItf_GetName() local
112 ReadGroupItf * new_ref = Self ( jself ) -> getReadGroups (); in Java_ngs_itf_ReadCollectionItf_GetReadGroups() local
166 ReadGroupItf * new_ref = Self ( jself ) -> getReadGroup ( spec ); in Java_ngs_itf_ReadCollectionItf_GetReadGroup() local
202 ReferenceItf * new_ref = Self ( jself ) -> getReferences (); in Java_ngs_itf_ReadCollectionItf_GetReferences() local
256 ReferenceItf * new_ref = Self ( jself ) -> getReference ( spec ); in Java_ngs_itf_ReadCollectionItf_GetReference() local
295 AlignmentItf * new_ref = Self ( jself ) -> getAlignment ( spec ); in Java_ngs_itf_ReadCollectionItf_GetAlignment() local
331 AlignmentItf * new_ref = Self ( jself ) -> getAlignments ( categories ); in Java_ngs_itf_ReadCollectionItf_GetAlignments() local
391 AlignmentItf * new_ref = Self ( jself ) -> getAlignmentRange ( first, count, categories ); in Java_ngs_itf_ReadCollectionItf_GetAlignmentRange() local
423 ReadItf * new_ref = Self ( jself ) -> getRead ( spec ); in Java_ngs_itf_ReadCollectionItf_GetRead() local
459 ReadItf * new_ref = Self ( jself ) -> getReads ( categories ); in Java_ngs_itf_ReadCollectionItf_GetReads() local
[all …]
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| H A D | jni_ReadGroupItf.cpp | 71 StringItf * new_ref = Self ( jself ) -> getName (); in Java_ngs_itf_ReadGroupItf_GetName() local
100 StatisticsItf * new_ref = Self ( jself ) -> getStatistics (); in Java_ngs_itf_ReadGroupItf_GetStatistics() local
134 ReadItf * new_ref = Self ( jself ) -> getRead ( readId ); in Java_ngs_itf_ReadGroupItf_GetRead() local
170 ReadItf * new_ref = Self ( jself ) -> getReads ( categories ); in Java_ngs_itf_ReadGroupItf_GetReads() local
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| H A D | jni_ReadItf.cpp | 58 StringItf * new_ref = Self ( jself ) -> getFragmentId (); in Java_ngs_itf_ReadItf_GetFragmentId() local
88 StringItf * new_ref = Self ( jself ) -> getFragmentBases ( offset, length ); in Java_ngs_itf_ReadItf_GetFragmentBases() local
118 StringItf * new_ref = Self ( jself ) -> getFragmentQualities ( offset, length ); in Java_ngs_itf_ReadItf_GetFragmentQualities() local
244 StringItf * new_ref = Self ( jself ) -> getReadId (); in Java_ngs_itf_ReadItf_GetReadId() local
358 StringItf * new_ref = Self ( jself ) -> getReadGroup (); in Java_ngs_itf_ReadItf_GetReadGroup() local
387 StringItf * new_ref = Self ( jself ) -> getReadName (); in Java_ngs_itf_ReadItf_GetReadName() local
417 StringItf * new_ref = Self ( jself ) -> getReadBases ( offset, length ); in Java_ngs_itf_ReadItf_GetReadBases() local
447 StringItf * new_ref = Self ( jself ) -> getReadQualities ( offset, length ); in Java_ngs_itf_ReadItf_GetReadQualities() local
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| /dports/textproc/refdb/refdb-0.9.9-1/src/ |
| H A D | backend-citationlistx.c | 57 char* new_ref; in prepare_render_citationlistx() local
99 char* new_ref; in finish_render_citationlistx() local
160 char* new_ref; in print_citation() local
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| H A D | backendn-html.c | 50 char* new_ref; in prepare_render_note_html() local
81 char* new_ref; in finish_render_note_html() local
110 char* new_ref; in render_note_html() local
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| H A D | backend-ris.c | 72 char* new_ref; in finish_render_ris() local
115 char* new_ref; in render_ris() local
904 char* new_ref; in print_field_ris() local
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| H A D | backendn-notex.c | 56 char* new_ref; in prepare_render_note_xnote() local
106 char* new_ref; in finish_render_note_xnote() local
147 char* new_ref; in render_note_xnote() local
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| H A D | xmlhelper.c | 65 char* new_ref; in print_element_x() local
155 char* new_ref; in print_elstart_x() local
312 char* new_ref; in print_attribute_x() local
378 char* new_ref; in print_elend_x() local
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| H A D | backend-teix.c | 88 char* new_ref; in finish_render_teix() local
116 char *new_ref; /* used for reallocating buffer ref */ in render_teix() local
297 char* new_ref; in finish_render_teix5() local
325 char *new_ref; /* used for reallocating buffer ref */ in render_teix5() local
492 char *new_ref; in add_analytic_teix() local
602 char *new_ref; in add_monogr_teix() local
947 char *new_ref; in add_series_teix() local
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| /dports/biology/sra-tools/sra-tools-2.11.0/ngs/ngs-sdk/language/c++/ |
| H A D | ReferenceSequence.cpp | 43 ReferenceSequenceRef new_ref = ref -> Duplicate (); in operator =() local
53 ReferenceSequenceRef new_ref = obj . self -> Duplicate (); in operator =() local
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| /dports/biology/ncbi-vdb/ngs-2.11.0/ngs-sdk/language/c++/ |
| H A D | ReferenceSequence.cpp | 43 ReferenceSequenceRef new_ref = ref -> Duplicate (); in operator =() local
53 ReferenceSequenceRef new_ref = obj . self -> Duplicate (); in operator =() local
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| /dports/biology/ngs-sdk/ngs-2.11.1/ngs-sdk/language/c++/ |
| H A D | ReferenceSequence.cpp | 43 ReferenceSequenceRef new_ref = ref -> Duplicate (); in operator =() local
53 ReferenceSequenceRef new_ref = obj . self -> Duplicate (); in operator =() local
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