| /dports/biology/hyphy/hyphy-2.5.33/src/core/ |
| H A D | likefunc.cpp | 8928 …s (node<long>* startingNode, node<long>* childNode, _SimpleList& co, _SimpleList& so, _SimpleList …
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| /dports/biology/infernal/infernal-1.1.3/easel/ |
| H A D | esl_mem.c | 529 esl_pos_t so, xo, eo; in esl_memtok() local
553 esl_pos_t so; in esl_memspn() local
568 esl_pos_t so; in esl_memcspn() local
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| /dports/biology/iolib/io_lib-io_lib-1-14-10/io_lib/ |
| H A D | sam_header.c | 770 enum sam_sort_order so; in sam_hdr_parse_sort_order() local
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| /dports/biology/iqtree/IQ-TREE-2.0.6/vectorclass/ |
| H A D | vectori128.h | 3938 const uint32_t so = (i1<0?0:0xF) | (i3<0?0:0xF)<<4 | (i5<0?0:0xF)<<8 | (i7<0?0:0xF)<<12 in permute16c() local
4184 const int so = (i1<0?0:0xF) | (i3<0?0:0xF)<<4 | (i5<0?0:0xF)<<8 | (i7<0?0:0xF)<<12 in blend16c() local
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| /dports/biology/jalview/jalview/src/jalview/datamodel/features/ |
| H A D | SequenceFeatures.java | 375 SequenceOntologyI so = SequenceOntologyFactory.getInstance(); in isOntologyTerm() local
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| /dports/biology/jalview/jalview/src/jalview/ext/ensembl/ |
| H A D | EnsemblGene.java | 582 SequenceOntologyI so = SequenceOntologyFactory.getInstance(); in retainFeature() local
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| /dports/biology/jalview/jalview/src/jalview/io/gff/ |
| H A D | Gff3Helper.java | 94 SequenceOntologyI so = SequenceOntologyFactory.getInstance(); in processGff() local
388 SequenceOntologyI so = SequenceOntologyFactory.getInstance(); in getDescription() local
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| H A D | InterProScanHelper.java | 111 SequenceOntologyI so = SequenceOntologyFactory.getInstance(); in recognises() local
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| H A D | SequenceOntologyFactory.java | 44 public static void setInstance(SequenceOntologyI so) in setInstance()
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| /dports/biology/jalview/jalview/test/jalview/ext/so/ |
| H A D | SequenceOntologyTest.java | 42 private SequenceOntologyI so; field in SequenceOntologyTest
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| /dports/biology/jalview/jalview/test/jalview/io/gff/ |
| H A D | SequenceOntologyLiteTest.java | 13 SequenceOntologyI so = new SequenceOntologyLite(); in testIsA_sequenceVariant() local
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| /dports/biology/kallisto/kallisto-0.46.1/ext/htslib/cram/ |
| H A D | sam_header.c | 762 enum sam_sort_order so; in sam_hdr_parse_sort_order() local
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| /dports/biology/lamarc/lamarc-2.1.8/boost/ |
| H A D | multi_array.hpp | 163 const general_storage_order<NumDims>& so) : in multi_array()
172 const general_storage_order<NumDims>& so, in multi_array()
191 const general_storage_order<NumDims>& so) : in multi_array()
200 const general_storage_order<NumDims>& so, in multi_array()
225 const general_storage_order<NumDims>& so = c_storage_order()) in multi_array()
267 const general_storage_order<NumDims>& so) in multi_array()
285 const general_storage_order<NumDims>& so) in multi_array()
303 const general_storage_order<NumDims>& so) in multi_array()
322 const general_storage_order<NumDims>& so) in multi_array()
341 const general_storage_order<NumDims>& so) in multi_array()
[all …]
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| /dports/biology/lamarc/lamarc-2.1.8/boost/multi_array/ |
| H A D | multi_array_ref.hpp | 100 const general_storage_order<NumDims>& so) : in const_multi_array_ref()
120 const general_storage_order<NumDims>& so) : in const_multi_array_ref()
323 const storage_order_type& so, in const_multi_array_ref()
450 const general_storage_order<NumDims>& so) : in multi_array_ref()
467 const general_storage_order<NumDims>& so) : in multi_array_ref()
616 const storage_order_type& so, in multi_array_ref()
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| /dports/biology/libsedml/libSEDML-2.0.26/src/sedml/ |
| H A D | SedDocument.cpp | 1445 SedDocument::addOutput(const SedOutput* so) in addOutput()
3962 SedDocument_addOutput(SedDocument_t* sd, const SedOutput_t* so) in SedDocument_addOutput()
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| H A D | SedListOfOutputs.cpp | 205 SedListOfOutputs::addOutput(const SedOutput* so) in addOutput()
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| H A D | SedObjective.cpp | 445 SedObjective_clone(const SedObjective_t* so) in SedObjective_clone()
463 SedObjective_free(SedObjective_t* so) in SedObjective_free()
478 SedObjective_isSedLeastSquareObjectiveFunction(const SedObjective_t * so) in SedObjective_isSedLeastSquareObjectiveFunction()
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| H A D | SedOutput.cpp | 645 SedOutput_clone(const SedOutput_t* so) in SedOutput_clone()
663 SedOutput_free(SedOutput_t* so) in SedOutput_free()
677 SedOutput_getId(const SedOutput_t * so) in SedOutput_getId()
693 SedOutput_getName(const SedOutput_t * so) in SedOutput_getName()
709 SedOutput_isSetId(const SedOutput_t * so) in SedOutput_isSetId()
721 SedOutput_isSetName(const SedOutput_t * so) in SedOutput_isSetName()
754 SedOutput_unsetId(SedOutput_t * so) in SedOutput_unsetId()
765 SedOutput_unsetName(SedOutput_t * so) in SedOutput_unsetName()
776 SedOutput_isSedReport(const SedOutput_t * so) in SedOutput_isSedReport()
787 SedOutput_isSedPlot2D(const SedOutput_t * so) in SedOutput_isSedPlot2D()
[all …]
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| /dports/biology/migrate/migrate-3.6.11/src/ |
| H A D | gammalike.c | 221 MYREAL so = oparam[nr->numpop2]; in find_gamma_summ() local
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| /dports/biology/mothur/mothur-1.46.1/source/ |
| H A D | venn.cpp | 20 Venn::Venn(string o, bool n, string f, int fs, bool so) : outputDir(o), nseqs(n), inputfile(f), fon… in Venn()
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objtools/format/ |
| H A D | sam_formatter.hpp | 118 void SetSortOrder(ESortOrder so, const string& so_value = kEmptyStr) in SetSortOrder()
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/util/bitset/ |
| H A D | bm.h | 3602 size_type ids_size, bm::sort_order so) in set()
3617 bm::sort_order so) in keep()
3645 size_type ids_size, bm::sort_order so) in clear()
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/util/regexp/ |
| H A D | pcreposix.c | 326 int rc, so, eo; in regexec() local
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/structure/threader/ |
| H A D | thrdatd.h | 300 int *so; /* Sample order for variables */ member
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/format/ |
| H A D | sam_formatter.hpp | 118 void SetSortOrder(ESortOrder so, const string& so_value = kEmptyStr) in SetSortOrder()
|