├── .github ├── ISSUE_TEMPLATE.md └── workflows │ └── userguide.yml ├── CMakeLists.txt ├── Dockerfile ├── LICENSE ├── README.md ├── azure-pipelines.yml ├── cmake ├── CheckSSEFeatures.cmake ├── FindASan.cmake ├── FindMSan.cmake ├── FindTSan.cmake ├── FindUBSan.cmake ├── ResourceCompiler.cmake └── xxdi.pl ├── data ├── CMakeLists.txt ├── context_data.crf ├── context_data.lib ├── cs219.lib ├── do_not_delete ├── do_not_delete.phr ├── do_not_delete.pin ├── do_not_delete.psq ├── query.a3m ├── query.hhm ├── query.hhr ├── query.seq └── test.sh ├── lib ├── ffindex │ ├── CMakeLists.txt │ ├── LICENSE │ ├── README.md │ └── src │ │ ├── CMakeLists.txt │ │ ├── ext │ │ ├── CMakeLists.txt │ │ ├── fmemopen.c │ │ └── fmemopen.h │ │ ├── ffindex.c │ │ ├── ffindex.h │ │ ├── ffindex_apply_mpi.c │ │ ├── ffindex_build.c │ │ ├── ffindex_from_fasta.c │ │ ├── ffindex_from_fasta_with_split.c │ │ ├── ffindex_get.c │ │ ├── ffindex_modify.c │ │ ├── ffindex_order.c │ │ ├── ffindex_reduce.c │ │ ├── ffindex_unpack.c │ │ ├── ffutil.c │ │ ├── ffutil.h │ │ └── mpq │ │ ├── CMakeLists.txt │ │ ├── mpq.c │ │ └── mpq.h ├── simd │ └── simd.h └── simde │ └── simde │ ├── COPYING │ ├── README.md │ ├── arm │ ├── neon.h │ ├── neon │ │ ├── aba.h │ │ ├── abd.h │ │ ├── abdl.h │ │ ├── abs.h │ │ ├── add.h │ │ ├── addl.h │ │ ├── addl_high.h │ │ ├── addlv.h │ │ ├── addv.h │ │ ├── addw.h │ │ ├── addw_high.h │ │ ├── and.h │ │ ├── bcax.h │ │ ├── bic.h │ │ ├── bsl.h │ │ ├── cage.h │ │ ├── cagt.h │ │ ├── ceq.h │ │ ├── ceqz.h │ │ ├── cge.h │ │ ├── cgez.h │ │ ├── cgt.h │ │ ├── cgtz.h │ │ ├── cle.h │ │ ├── clez.h │ │ ├── cls.h │ │ ├── clt.h │ │ ├── cltz.h │ │ ├── clz.h │ │ ├── cmla.h │ │ ├── cmla_rot180.h │ │ ├── cmla_rot270.h │ │ ├── cmla_rot90.h │ │ ├── cnt.h │ │ ├── combine.h │ │ ├── create.h │ │ ├── cvt.h │ │ ├── dot.h │ │ ├── dot_lane.h │ │ ├── dup_lane.h │ │ ├── dup_n.h │ │ ├── eor.h │ │ ├── ext.h │ │ ├── fma.h │ │ ├── fma_n.h │ │ ├── get_high.h │ │ ├── get_lane.h │ │ ├── get_low.h │ │ ├── hadd.h │ │ ├── hsub.h │ │ ├── ld1.h │ │ ├── ld1_dup.h │ │ ├── ld2.h │ │ ├── ld3.h │ │ ├── ld4.h │ │ ├── max.h │ │ ├── maxnm.h │ │ ├── maxv.h │ │ ├── min.h │ │ ├── minnm.h │ │ ├── minv.h │ │ ├── mla.h │ │ ├── mla_n.h │ │ ├── mlal.h │ │ ├── mlal_high.h │ │ ├── mlal_n.h │ │ ├── mls.h │ │ ├── mls_n.h │ │ ├── mlsl.h │ │ ├── mlsl_high.h │ │ ├── mlsl_n.h │ │ ├── movl.h │ │ ├── movl_high.h │ │ ├── movn.h │ │ ├── movn_high.h │ │ ├── mul.h │ │ ├── mul_lane.h │ │ ├── mul_n.h │ │ ├── mull.h │ │ ├── mull_high.h │ │ ├── mull_n.h │ │ ├── mvn.h │ │ ├── neg.h │ │ ├── orn.h │ │ ├── orr.h │ │ ├── padal.h │ │ ├── padd.h │ │ ├── paddl.h │ │ ├── pmax.h │ │ ├── pmin.h │ │ ├── qabs.h │ │ ├── qadd.h │ │ ├── qdmulh.h │ │ ├── qdmull.h │ │ ├── qmovn.h │ │ ├── qmovn_high.h │ │ ├── qmovun.h │ │ ├── qneg.h │ │ ├── qrdmulh.h │ │ ├── qrdmulh_n.h │ │ ├── qrshrun_n.h │ │ ├── qshl.h │ │ ├── qsub.h │ │ ├── qtbl.h │ │ ├── qtbx.h │ │ ├── rbit.h │ │ ├── recpe.h │ │ ├── recps.h │ │ ├── reinterpret.h │ │ ├── rev16.h │ │ ├── rev32.h │ │ ├── rev64.h │ │ ├── rhadd.h │ │ ├── rnd.h │ │ ├── rndi.h │ │ ├── rndm.h │ │ ├── rndn.h │ │ ├── rndp.h │ │ ├── rshl.h │ │ ├── rshr_n.h │ │ ├── rshrn_n.h │ │ ├── rsqrte.h │ │ ├── rsqrts.h │ │ ├── rsra_n.h │ │ ├── set_lane.h │ │ ├── shl.h │ │ ├── shl_n.h │ │ ├── shr_n.h │ │ ├── shrn_n.h │ │ ├── sqadd.h │ │ ├── sra_n.h │ │ ├── st1.h │ │ ├── st1_lane.h │ │ ├── st2.h │ │ ├── st3.h │ │ ├── st4.h │ │ ├── sub.h │ │ ├── subl.h │ │ ├── subw.h │ │ ├── subw_high.h │ │ ├── tbl.h │ │ ├── tbx.h │ │ ├── trn.h │ │ ├── trn1.h │ │ ├── trn2.h │ │ ├── tst.h │ │ ├── types.h │ │ ├── uqadd.h │ │ ├── uzp.h │ │ ├── uzp1.h │ │ ├── uzp2.h │ │ ├── xar.h │ │ ├── zip.h │ │ ├── zip1.h │ │ └── zip2.h │ ├── sve.h │ └── sve │ │ ├── add.h │ │ ├── and.h │ │ ├── cmplt.h │ │ ├── cnt.h │ │ ├── dup.h │ │ ├── ld1.h │ │ ├── ptest.h │ │ ├── ptrue.h │ │ ├── qadd.h │ │ ├── reinterpret.h │ │ ├── sel.h │ │ ├── st1.h │ │ ├── sub.h │ │ ├── types.h │ │ └── whilelt.h │ ├── check.h │ ├── debug-trap.h │ ├── hedley.h │ ├── simde-align.h │ ├── simde-arch.h │ ├── simde-common.h │ ├── simde-complex.h │ ├── simde-constify.h │ ├── simde-detect-clang.h │ ├── simde-diagnostic.h │ ├── simde-f16.h │ ├── simde-features.h │ ├── simde-math.h │ ├── wasm │ └── simd128.h │ └── x86 │ ├── avx.h │ ├── avx2.h │ ├── avx512.h │ ├── avx512 │ ├── 2intersect.h │ ├── abs.h │ ├── add.h │ ├── adds.h │ ├── and.h │ ├── andnot.h │ ├── avg.h │ ├── blend.h │ ├── broadcast.h │ ├── cast.h │ ├── cmp.h │ ├── cmpeq.h │ ├── cmpge.h │ ├── cmpgt.h │ ├── cmple.h │ ├── cmplt.h │ ├── cmpneq.h │ ├── compress.h │ ├── copysign.h │ ├── cvt.h │ ├── cvts.h │ ├── cvtt.h │ ├── div.h │ ├── expand.h │ ├── extract.h │ ├── fmadd.h │ ├── fmsub.h │ ├── fnmadd.h │ ├── fnmsub.h │ ├── insert.h │ ├── kshift.h │ ├── load.h │ ├── loadu.h │ ├── lzcnt.h │ ├── madd.h │ ├── maddubs.h │ ├── max.h │ ├── min.h │ ├── mov.h │ ├── mov_mask.h │ ├── movm.h │ ├── mul.h │ ├── mulhi.h │ ├── mulhrs.h │ ├── mullo.h │ ├── negate.h │ ├── or.h │ ├── packs.h │ ├── packus.h │ ├── permutex2var.h │ ├── permutexvar.h │ ├── range.h │ ├── roundscale.h │ ├── sad.h │ ├── set.h │ ├── set1.h │ ├── set4.h │ ├── setone.h │ ├── setr.h │ ├── setr4.h │ ├── setzero.h │ ├── shuffle.h │ ├── sll.h │ ├── slli.h │ ├── sllv.h │ ├── sqrt.h │ ├── sra.h │ ├── srai.h │ ├── srav.h │ ├── srl.h │ ├── srli.h │ ├── srlv.h │ ├── store.h │ ├── storeu.h │ ├── sub.h │ ├── subs.h │ ├── test.h │ ├── testn.h │ ├── types.h │ ├── unpackhi.h │ ├── unpacklo.h │ ├── xor.h │ └── xorsign.h │ ├── clmul.h │ ├── f16c.h │ ├── fma.h │ ├── gfni.h │ ├── mmx.h │ ├── sse.h │ ├── sse2.h │ ├── sse3.h │ ├── sse4.1.h │ ├── sse4.2.h │ ├── ssse3.h │ ├── svml.h │ └── xop.h ├── scripts ├── Align.pm ├── CMakeLists.txt ├── HHPaths.pm ├── a3m.py ├── addss.pl ├── build_darwin_universal.sh ├── check_a3m.py ├── cif2fasta.py ├── create_profile_from_hhm.pl ├── create_profile_from_hmmer.pl ├── createdb.sh ├── ffindex.py ├── get_a3m_size.py ├── hh_reader.py ├── hhmakemodel.pl ├── hhmakemodel.py ├── hhpred │ ├── README │ ├── bin │ │ └── repair_pdb.pl │ ├── dependencies │ │ ├── HHPaths.pm │ │ ├── Makefile │ │ ├── hhmakemodel.pl │ │ ├── modeller_cuser │ │ │ ├── buildall.sh │ │ │ ├── cuser_form.c │ │ │ ├── cuser_form.h │ │ │ ├── cuser_form.i │ │ │ ├── cuser_form52.c │ │ │ ├── cuser_form52.h │ │ │ ├── cuser_form52.i │ │ │ ├── cuser_form52_wrap.c │ │ │ ├── cuser_form54.c │ │ │ ├── cuser_form54.h │ │ │ ├── cuser_form54.i │ │ │ ├── cuser_form54_wrap.c │ │ │ ├── cuser_form56.c │ │ │ ├── cuser_form56.h │ │ │ ├── cuser_form56.i │ │ │ ├── cuser_form56_wrap.c │ │ │ └── cuser_form_wrap.c │ │ ├── patch_modeller_h_missing_files.patch │ │ └── patch_probcons_main_cc_missing_cstring.patch │ ├── example │ │ └── test.a3m │ ├── hhpred.pl │ ├── lib │ │ ├── Class │ │ │ └── Singleton.pm │ │ ├── FastaFile.pm │ │ ├── FixOccupancy.pm │ │ ├── PDBResolution.pm │ │ ├── PdbFile.pm │ │ ├── PirFile.pm │ │ ├── QualityAssessModel.pm │ │ ├── Template.pm │ │ ├── TemplateList.pm │ │ ├── TemplateListStruct.pm │ │ ├── TemplateStruct.pm │ │ ├── aminoAcid.pm │ │ ├── checkTemplates.pm │ │ ├── config.pm │ │ ├── distanceTree.pm │ │ ├── filterAlignments.pm │ │ ├── modeller.pm │ │ ├── multiTemplateMDN.pm │ │ ├── predTMscore.pm │ │ ├── selectTemplatesHeuristic.pm │ │ ├── simpleTree.pm │ │ ├── singleRankingNet.pm │ │ └── utilities.pm │ └── share │ │ ├── distancethreshold │ │ ├── comp_simple_distancethreshold_5.5_alpha_0.3_beta_1.5.csv │ │ ├── contact_simple_distancethreshold_11.6.csv │ │ └── css_simple_distancethreshold_5.5_alpha_0.3_beta_1.5.csv │ │ └── neural-net │ │ ├── MDNWeightsLayer1CACAminP.dat │ │ ├── MDNWeightsLayer1NOminP.dat │ │ ├── MDNWeightsLayer1SCMCminP.dat │ │ ├── MDNWeightsLayer1SCSCminP.dat │ │ ├── MDNWeightsLayer2CACAminP.dat │ │ ├── MDNWeightsLayer2NOminP.dat │ │ ├── MDNWeightsLayer2SCMCminP.dat │ │ ├── MDNWeightsLayer2SCSCminP.dat │ │ └── onhold │ │ ├── MDNWeightsLayer1CACA.dat │ │ ├── MDNWeightsLayer1CACAalternative.dat │ │ ├── MDNWeightsLayer1CACAdiff.dat │ │ ├── MDNWeightsLayer1CACAnew.dat │ │ ├── MDNWeightsLayer1NO.dat │ │ ├── MDNWeightsLayer1NOalternative.dat │ │ ├── MDNWeightsLayer1NOalternative7.dat │ │ ├── MDNWeightsLayer1NOdiff.dat │ │ ├── MDNWeightsLayer1SCMC.dat │ │ ├── MDNWeightsLayer1SCMCdiff.dat │ │ ├── MDNWeightsLayer1SCSC.dat │ │ ├── MDNWeightsLayer1SCSCdiff.dat │ │ ├── MDNWeightsLayer2CACA.dat │ │ ├── MDNWeightsLayer2CACAalternative.dat │ │ ├── MDNWeightsLayer2CACAdiff.dat │ │ ├── MDNWeightsLayer2CACAnew.dat │ │ ├── MDNWeightsLayer2NO.dat │ │ ├── MDNWeightsLayer2NOalternative.dat │ │ ├── MDNWeightsLayer2NOalternative7.dat │ │ ├── MDNWeightsLayer2NOdiff.dat │ │ ├── MDNWeightsLayer2SCMC.dat │ │ ├── MDNWeightsLayer2SCMCdiff.dat │ │ ├── MDNWeightsLayer2SCSC.dat │ │ └── MDNWeightsLayer2SCSCdiff.dat ├── hhsuitedb.py ├── mergeali.pl ├── multithread.pl ├── pdb2fasta.pl ├── pdbfilter.pl ├── pdbfilter.py ├── reformat.pl ├── renumberpdb.pl └── splitfasta.pl └── src ├── CMakeLists.txt ├── a3m_compress.cpp ├── a3m_compress.h ├── a3m_database_extract.cpp ├── a3m_database_filter.cpp ├── a3m_database_reduce.cpp ├── a3m_extract.cpp ├── a3m_reduce.cpp ├── cs ├── CMakeLists.txt ├── aa.cc ├── aa.h ├── alignment-inl.h ├── alignment.h ├── application.cc ├── application.h ├── as.cc ├── as.h ├── assert_helpers.cc ├── assert_helpers.h ├── blosum_matrix.cc ├── blosum_matrix.h ├── context_library-inl.h ├── context_library.h ├── context_profile-inl.h ├── context_profile.h ├── count_profile-inl.h ├── count_profile.h ├── crf-inl.h ├── crf.h ├── crf_pseudocounts-inl.h ├── crf_pseudocounts.h ├── crf_state-inl.h ├── crf_state.h ├── cs.h ├── cstranslate_app.cc ├── cstranslate_app.h ├── cstranslate_mpi_app.cc ├── cstranslate_mpi_app.h ├── emission.h ├── exception.h ├── getopt_pp.cc ├── getopt_pp.h ├── globals.h ├── io.h ├── library_pseudocounts-inl.h ├── library_pseudocounts.h ├── log.cc ├── log.h ├── matrix.h ├── profile-inl.h ├── profile.h ├── profile_column.h ├── pseudocounts-inl.h ├── pseudocounts.h ├── pssm.h ├── ran.h ├── scoped_ptr.h ├── sequence-inl.h ├── sequence.h ├── substitution_matrix-inl.h ├── substitution_matrix.h ├── utils.h └── vector.h ├── ffindexdatabase.cpp ├── ffindexdatabase.h ├── hash.cpp ├── hash.h ├── hhalign.cpp ├── hhalign.h ├── hhalignment.cpp ├── hhalignment.h ├── hhbacktracemac.cpp ├── hhbackwardalgorithm.cpp ├── hhblits.cpp ├── hhblits.h ├── hhblits_app.cpp ├── hhblits_ca3m.cpp ├── hhblits_mpi.cpp ├── hhblits_omp.cpp ├── hhconsensus.cpp ├── hhdatabase.cpp ├── hhdatabase.h ├── hhdecl.cpp ├── hhdecl.h ├── hhfilter.cpp ├── hhforwardalgorithm.cpp ├── hhfullalignment.cpp ├── hhfullalignment.h ├── hhfunc.cpp ├── hhfunc.h ├── hhhalfalignment.cpp ├── hhhalfalignment.h ├── hhhit-inl.h ├── hhhit.cpp ├── hhhit.h ├── hhhitlist-inl.h ├── hhhitlist.cpp ├── hhhitlist.h ├── hhhmm.cpp ├── hhhmm.h ├── hhhmmsimd.cpp ├── hhhmmsimd.h ├── hhmacalgorithm.cpp ├── hhmake.cpp ├── hhmatrices.cpp ├── hhmatrices.h ├── hhposteriordecoder.cpp ├── hhposteriordecoder.h ├── hhposteriordecoderrunner.cpp ├── hhposteriordecoderrunner.h ├── hhposteriormatrix.cpp ├── hhposteriormatrix.h ├── hhprefilter.cpp ├── hhprefilter.h ├── hhsearch.cpp ├── hhsearch.h ├── hhsuite_config.h.in ├── hhutil-inl.h ├── hhutil.cpp ├── hhutil.h ├── hhviterbi.cpp ├── hhviterbi.h ├── hhviterbialgorithm.cpp ├── hhviterbimatrix-inl.h ├── hhviterbimatrix.cpp ├── hhviterbimatrix.h ├── hhviterbirunner.cpp ├── hhviterbirunner.h ├── list.cpp ├── list.h ├── log.h ├── util-inl.h ├── util.cpp └── util.h /.github/ISSUE_TEMPLATE.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/.github/ISSUE_TEMPLATE.md -------------------------------------------------------------------------------- /.github/workflows/userguide.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/.github/workflows/userguide.yml -------------------------------------------------------------------------------- /CMakeLists.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/CMakeLists.txt -------------------------------------------------------------------------------- /Dockerfile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/Dockerfile -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/LICENSE -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/README.md -------------------------------------------------------------------------------- /azure-pipelines.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/azure-pipelines.yml -------------------------------------------------------------------------------- /cmake/CheckSSEFeatures.cmake: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/cmake/CheckSSEFeatures.cmake -------------------------------------------------------------------------------- /cmake/FindASan.cmake: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/cmake/FindASan.cmake -------------------------------------------------------------------------------- /cmake/FindMSan.cmake: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/cmake/FindMSan.cmake -------------------------------------------------------------------------------- /cmake/FindTSan.cmake: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/cmake/FindTSan.cmake -------------------------------------------------------------------------------- /cmake/FindUBSan.cmake: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/cmake/FindUBSan.cmake -------------------------------------------------------------------------------- /cmake/ResourceCompiler.cmake: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/cmake/ResourceCompiler.cmake -------------------------------------------------------------------------------- /cmake/xxdi.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/cmake/xxdi.pl -------------------------------------------------------------------------------- /data/CMakeLists.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/CMakeLists.txt -------------------------------------------------------------------------------- /data/context_data.crf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/context_data.crf -------------------------------------------------------------------------------- /data/context_data.lib: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/context_data.lib -------------------------------------------------------------------------------- /data/cs219.lib: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/cs219.lib -------------------------------------------------------------------------------- /data/do_not_delete: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/do_not_delete -------------------------------------------------------------------------------- /data/do_not_delete.phr: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/do_not_delete.phr -------------------------------------------------------------------------------- /data/do_not_delete.pin: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/do_not_delete.pin -------------------------------------------------------------------------------- /data/do_not_delete.psq: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/do_not_delete.psq -------------------------------------------------------------------------------- /data/query.a3m: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/query.a3m -------------------------------------------------------------------------------- /data/query.hhm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/query.hhm -------------------------------------------------------------------------------- /data/query.hhr: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/query.hhr -------------------------------------------------------------------------------- /data/query.seq: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/query.seq -------------------------------------------------------------------------------- /data/test.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/data/test.sh -------------------------------------------------------------------------------- /lib/ffindex/CMakeLists.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/CMakeLists.txt -------------------------------------------------------------------------------- /lib/ffindex/LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/LICENSE -------------------------------------------------------------------------------- /lib/ffindex/README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/README.md -------------------------------------------------------------------------------- /lib/ffindex/src/CMakeLists.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/CMakeLists.txt -------------------------------------------------------------------------------- /lib/ffindex/src/ext/CMakeLists.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ext/CMakeLists.txt -------------------------------------------------------------------------------- /lib/ffindex/src/ext/fmemopen.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ext/fmemopen.c -------------------------------------------------------------------------------- /lib/ffindex/src/ext/fmemopen.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ext/fmemopen.h -------------------------------------------------------------------------------- /lib/ffindex/src/ffindex.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffindex.c -------------------------------------------------------------------------------- /lib/ffindex/src/ffindex.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffindex.h -------------------------------------------------------------------------------- /lib/ffindex/src/ffindex_apply_mpi.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffindex_apply_mpi.c -------------------------------------------------------------------------------- /lib/ffindex/src/ffindex_build.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffindex_build.c -------------------------------------------------------------------------------- /lib/ffindex/src/ffindex_from_fasta.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffindex_from_fasta.c -------------------------------------------------------------------------------- /lib/ffindex/src/ffindex_from_fasta_with_split.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffindex_from_fasta_with_split.c -------------------------------------------------------------------------------- /lib/ffindex/src/ffindex_get.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffindex_get.c -------------------------------------------------------------------------------- /lib/ffindex/src/ffindex_modify.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffindex_modify.c -------------------------------------------------------------------------------- /lib/ffindex/src/ffindex_order.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffindex_order.c -------------------------------------------------------------------------------- /lib/ffindex/src/ffindex_reduce.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffindex_reduce.c -------------------------------------------------------------------------------- /lib/ffindex/src/ffindex_unpack.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffindex_unpack.c -------------------------------------------------------------------------------- /lib/ffindex/src/ffutil.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffutil.c -------------------------------------------------------------------------------- /lib/ffindex/src/ffutil.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/ffutil.h -------------------------------------------------------------------------------- /lib/ffindex/src/mpq/CMakeLists.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/mpq/CMakeLists.txt -------------------------------------------------------------------------------- /lib/ffindex/src/mpq/mpq.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/mpq/mpq.c -------------------------------------------------------------------------------- /lib/ffindex/src/mpq/mpq.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/ffindex/src/mpq/mpq.h -------------------------------------------------------------------------------- /lib/simd/simd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simd/simd.h -------------------------------------------------------------------------------- /lib/simde/simde/COPYING: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/COPYING -------------------------------------------------------------------------------- /lib/simde/simde/README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/README.md -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/aba.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/aba.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/abd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/abd.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/abdl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/abdl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/abs.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/abs.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/add.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/add.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/addl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/addl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/addl_high.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/addl_high.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/addlv.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/addlv.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/addv.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/addv.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/addw.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/addw.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/addw_high.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/addw_high.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/and.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/and.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/bcax.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/bcax.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/bic.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/bic.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/bsl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/bsl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cage.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cage.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cagt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cagt.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/ceq.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/ceq.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/ceqz.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/ceqz.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cge.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cge.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cgez.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cgez.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cgt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cgt.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cgtz.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cgtz.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cle.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cle.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/clez.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/clez.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cls.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cls.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/clt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/clt.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cltz.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cltz.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/clz.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/clz.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cmla.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cmla.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cmla_rot180.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cmla_rot180.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cmla_rot270.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cmla_rot270.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cmla_rot90.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cmla_rot90.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cnt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cnt.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/combine.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/combine.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/create.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/create.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/cvt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/cvt.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/dot.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/dot.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/dot_lane.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/dot_lane.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/dup_lane.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/dup_lane.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/dup_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/dup_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/eor.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/eor.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/ext.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/ext.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/fma.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/fma.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/fma_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/fma_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/get_high.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/get_high.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/get_lane.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/get_lane.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/get_low.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/get_low.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/hadd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/hadd.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/hsub.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/hsub.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/ld1.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/ld1.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/ld1_dup.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/ld1_dup.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/ld2.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/ld2.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/ld3.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/ld3.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/ld4.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/ld4.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/max.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/max.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/maxnm.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/maxnm.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/maxv.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/maxv.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/min.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/min.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/minnm.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/minnm.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/minv.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/minv.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mla.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mla.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mla_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mla_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mlal.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mlal.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mlal_high.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mlal_high.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mlal_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mlal_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mls.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mls.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mls_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mls_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mlsl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mlsl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mlsl_high.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mlsl_high.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mlsl_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mlsl_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/movl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/movl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/movl_high.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/movl_high.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/movn.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/movn.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/movn_high.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/movn_high.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mul.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mul.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mul_lane.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mul_lane.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mul_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mul_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mull.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mull.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mull_high.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mull_high.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mull_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mull_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/mvn.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/mvn.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/neg.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/neg.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/orn.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/orn.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/orr.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/orr.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/padal.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/padal.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/padd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/padd.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/paddl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/paddl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/pmax.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/pmax.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/pmin.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/pmin.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qabs.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qabs.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qadd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qadd.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qdmulh.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qdmulh.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qdmull.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qdmull.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qmovn.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qmovn.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qmovn_high.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qmovn_high.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qmovun.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qmovun.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qneg.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qneg.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qrdmulh.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qrdmulh.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qrdmulh_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qrdmulh_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qrshrun_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qrshrun_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qshl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qshl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qsub.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qsub.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qtbl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qtbl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/qtbx.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/qtbx.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rbit.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rbit.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/recpe.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/recpe.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/recps.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/recps.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/reinterpret.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/reinterpret.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rev16.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rev16.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rev32.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rev32.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rev64.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rev64.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rhadd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rhadd.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rnd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rnd.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rndi.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rndi.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rndm.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rndm.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rndn.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rndn.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rndp.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rndp.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rshl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rshl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rshr_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rshr_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rshrn_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rshrn_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rsqrte.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rsqrte.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rsqrts.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rsqrts.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/rsra_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/rsra_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/set_lane.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/set_lane.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/shl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/shl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/shl_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/shl_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/shr_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/shr_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/shrn_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/shrn_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/sqadd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/sqadd.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/sra_n.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/sra_n.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/st1.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/st1.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/st1_lane.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/st1_lane.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/st2.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/st2.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/st3.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/st3.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/st4.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/st4.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/sub.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/sub.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/subl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/subl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/subw.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/subw.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/subw_high.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/subw_high.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/tbl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/tbl.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/tbx.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/tbx.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/trn.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/trn.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/trn1.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/trn1.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/trn2.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/trn2.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/tst.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/tst.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/types.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/types.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/uqadd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/uqadd.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/uzp.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/uzp.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/uzp1.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/uzp1.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/uzp2.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/uzp2.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/xar.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/xar.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/zip.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/zip.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/zip1.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/zip1.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/neon/zip2.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/neon/zip2.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/add.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/add.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/and.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/and.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/cmplt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/cmplt.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/cnt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/cnt.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/dup.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/dup.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/ld1.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/ld1.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/ptest.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/ptest.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/ptrue.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/ptrue.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/qadd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/qadd.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/reinterpret.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/reinterpret.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/sel.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/sel.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/st1.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/st1.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/sub.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/sub.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/types.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/types.h -------------------------------------------------------------------------------- /lib/simde/simde/arm/sve/whilelt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/arm/sve/whilelt.h -------------------------------------------------------------------------------- /lib/simde/simde/check.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/check.h -------------------------------------------------------------------------------- /lib/simde/simde/debug-trap.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/debug-trap.h -------------------------------------------------------------------------------- /lib/simde/simde/hedley.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/hedley.h -------------------------------------------------------------------------------- /lib/simde/simde/simde-align.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/simde-align.h -------------------------------------------------------------------------------- /lib/simde/simde/simde-arch.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/simde-arch.h -------------------------------------------------------------------------------- /lib/simde/simde/simde-common.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/simde-common.h -------------------------------------------------------------------------------- /lib/simde/simde/simde-complex.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/simde-complex.h -------------------------------------------------------------------------------- /lib/simde/simde/simde-constify.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/simde-constify.h -------------------------------------------------------------------------------- /lib/simde/simde/simde-detect-clang.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/simde-detect-clang.h -------------------------------------------------------------------------------- /lib/simde/simde/simde-diagnostic.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/simde-diagnostic.h -------------------------------------------------------------------------------- /lib/simde/simde/simde-f16.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/simde-f16.h -------------------------------------------------------------------------------- /lib/simde/simde/simde-features.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/simde-features.h -------------------------------------------------------------------------------- /lib/simde/simde/simde-math.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/simde-math.h -------------------------------------------------------------------------------- /lib/simde/simde/wasm/simd128.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/wasm/simd128.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx2.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx2.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/2intersect.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/2intersect.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/abs.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/abs.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/add.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/add.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/adds.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/adds.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/and.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/and.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/andnot.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/andnot.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/avg.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/avg.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/blend.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/blend.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/broadcast.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/broadcast.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/cast.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/cast.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/cmp.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/cmp.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/cmpeq.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/cmpeq.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/cmpge.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/cmpge.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/cmpgt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/cmpgt.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/cmple.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/cmple.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/cmplt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/cmplt.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/cmpneq.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/cmpneq.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/compress.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/compress.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/copysign.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/copysign.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/cvt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/cvt.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/cvts.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/cvts.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/cvtt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/cvtt.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/div.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/div.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/expand.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/expand.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/extract.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/extract.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/fmadd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/fmadd.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/fmsub.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/fmsub.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/fnmadd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/fnmadd.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/fnmsub.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/fnmsub.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/insert.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/insert.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/kshift.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/kshift.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/load.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/load.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/loadu.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/loadu.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/lzcnt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/lzcnt.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/madd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/madd.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/maddubs.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/maddubs.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/max.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/max.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/min.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/min.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/mov.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/mov.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/mov_mask.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/mov_mask.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/movm.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/movm.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/mul.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/mul.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/mulhi.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/mulhi.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/mulhrs.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/mulhrs.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/mullo.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/mullo.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/negate.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/negate.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/or.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/or.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/packs.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/packs.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/packus.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/packus.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/permutex2var.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/permutex2var.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/permutexvar.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/permutexvar.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/range.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/range.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/roundscale.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/roundscale.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/sad.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/sad.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/set.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/set.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/set1.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/set1.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/set4.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/set4.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/setone.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/setone.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/setr.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/setr.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/setr4.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/setr4.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/setzero.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/setzero.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/shuffle.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/shuffle.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/sll.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/sll.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/slli.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/slli.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/sllv.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/sllv.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/sqrt.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/sqrt.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/sra.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/sra.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/srai.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/srai.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/srav.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/srav.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/srl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/srl.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/srli.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/srli.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/srlv.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/srlv.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/store.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/store.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/storeu.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/storeu.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/sub.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/sub.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/subs.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/subs.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/test.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/test.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/testn.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/testn.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/types.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/types.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/unpackhi.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/unpackhi.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/unpacklo.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/unpacklo.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/xor.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/xor.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/avx512/xorsign.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/avx512/xorsign.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/clmul.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/clmul.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/f16c.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/f16c.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/fma.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/fma.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/gfni.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/gfni.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/mmx.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/mmx.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/sse.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/sse.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/sse2.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/sse2.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/sse3.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/sse3.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/sse4.1.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/sse4.1.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/sse4.2.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/sse4.2.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/ssse3.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/ssse3.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/svml.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/svml.h -------------------------------------------------------------------------------- /lib/simde/simde/x86/xop.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/lib/simde/simde/x86/xop.h -------------------------------------------------------------------------------- /scripts/Align.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/Align.pm -------------------------------------------------------------------------------- /scripts/CMakeLists.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/CMakeLists.txt -------------------------------------------------------------------------------- /scripts/HHPaths.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/HHPaths.pm -------------------------------------------------------------------------------- /scripts/a3m.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/a3m.py -------------------------------------------------------------------------------- /scripts/addss.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/addss.pl -------------------------------------------------------------------------------- /scripts/build_darwin_universal.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/build_darwin_universal.sh -------------------------------------------------------------------------------- /scripts/check_a3m.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/check_a3m.py -------------------------------------------------------------------------------- /scripts/cif2fasta.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/cif2fasta.py -------------------------------------------------------------------------------- /scripts/create_profile_from_hhm.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/create_profile_from_hhm.pl -------------------------------------------------------------------------------- /scripts/create_profile_from_hmmer.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/create_profile_from_hmmer.pl -------------------------------------------------------------------------------- /scripts/createdb.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/createdb.sh -------------------------------------------------------------------------------- /scripts/ffindex.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/ffindex.py -------------------------------------------------------------------------------- /scripts/get_a3m_size.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/get_a3m_size.py -------------------------------------------------------------------------------- /scripts/hh_reader.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hh_reader.py -------------------------------------------------------------------------------- /scripts/hhmakemodel.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhmakemodel.pl -------------------------------------------------------------------------------- /scripts/hhmakemodel.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhmakemodel.py -------------------------------------------------------------------------------- /scripts/hhpred/README: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/README -------------------------------------------------------------------------------- /scripts/hhpred/bin/repair_pdb.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/bin/repair_pdb.pl -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/HHPaths.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/HHPaths.pm -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/Makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/Makefile -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/hhmakemodel.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/hhmakemodel.pl -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/buildall.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/buildall.sh -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form.c -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form.h: -------------------------------------------------------------------------------- 1 | int myform_create(void); 2 | -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form.i: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form.i -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form52.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form52.c -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form52.h: -------------------------------------------------------------------------------- 1 | int myform_create(void); 2 | -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form52.i: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form52.i -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form52_wrap.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form52_wrap.c -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form54.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form54.c -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form54.h: -------------------------------------------------------------------------------- 1 | int myform_create(void); 2 | -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form54.i: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form54.i -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form54_wrap.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form54_wrap.c -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form56.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form56.c -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form56.h: -------------------------------------------------------------------------------- 1 | int myform_create(void); 2 | -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form56.i: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form56.i -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form56_wrap.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form56_wrap.c -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/modeller_cuser/cuser_form_wrap.c: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/modeller_cuser/cuser_form_wrap.c -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/patch_modeller_h_missing_files.patch: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/dependencies/patch_modeller_h_missing_files.patch -------------------------------------------------------------------------------- /scripts/hhpred/dependencies/patch_probcons_main_cc_missing_cstring.patch: -------------------------------------------------------------------------------- 1 | 23a24 2 | > #include 3 | -------------------------------------------------------------------------------- /scripts/hhpred/example/test.a3m: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/example/test.a3m -------------------------------------------------------------------------------- /scripts/hhpred/hhpred.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/hhpred.pl -------------------------------------------------------------------------------- /scripts/hhpred/lib/Class/Singleton.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/Class/Singleton.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/FastaFile.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/FastaFile.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/FixOccupancy.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/FixOccupancy.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/PDBResolution.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/PDBResolution.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/PdbFile.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/PdbFile.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/PirFile.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/PirFile.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/QualityAssessModel.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/QualityAssessModel.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/Template.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/Template.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/TemplateList.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/TemplateList.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/TemplateListStruct.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/TemplateListStruct.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/TemplateStruct.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/TemplateStruct.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/aminoAcid.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/aminoAcid.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/checkTemplates.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/checkTemplates.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/config.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/config.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/distanceTree.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/distanceTree.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/filterAlignments.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/filterAlignments.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/modeller.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/modeller.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/multiTemplateMDN.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/multiTemplateMDN.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/predTMscore.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/predTMscore.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/selectTemplatesHeuristic.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/selectTemplatesHeuristic.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/simpleTree.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/simpleTree.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/singleRankingNet.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/singleRankingNet.pm -------------------------------------------------------------------------------- /scripts/hhpred/lib/utilities.pm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/lib/utilities.pm -------------------------------------------------------------------------------- /scripts/hhpred/share/distancethreshold/comp_simple_distancethreshold_5.5_alpha_0.3_beta_1.5.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/distancethreshold/comp_simple_distancethreshold_5.5_alpha_0.3_beta_1.5.csv -------------------------------------------------------------------------------- /scripts/hhpred/share/distancethreshold/contact_simple_distancethreshold_11.6.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/distancethreshold/contact_simple_distancethreshold_11.6.csv -------------------------------------------------------------------------------- /scripts/hhpred/share/distancethreshold/css_simple_distancethreshold_5.5_alpha_0.3_beta_1.5.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/distancethreshold/css_simple_distancethreshold_5.5_alpha_0.3_beta_1.5.csv -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/MDNWeightsLayer1CACAminP.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/MDNWeightsLayer1CACAminP.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/MDNWeightsLayer1NOminP.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/MDNWeightsLayer1NOminP.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/MDNWeightsLayer1SCMCminP.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/MDNWeightsLayer1SCMCminP.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/MDNWeightsLayer1SCSCminP.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/MDNWeightsLayer1SCSCminP.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/MDNWeightsLayer2CACAminP.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/MDNWeightsLayer2CACAminP.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/MDNWeightsLayer2NOminP.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/MDNWeightsLayer2NOminP.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/MDNWeightsLayer2SCMCminP.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/MDNWeightsLayer2SCMCminP.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/MDNWeightsLayer2SCSCminP.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/MDNWeightsLayer2SCSCminP.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1CACA.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1CACA.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1CACAalternative.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1CACAalternative.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1CACAdiff.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1CACAdiff.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1CACAnew.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1CACAnew.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1NO.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1NO.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1NOalternative.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1NOalternative.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1NOalternative7.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1NOalternative7.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1NOdiff.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1NOdiff.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1SCMC.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1SCMC.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1SCMCdiff.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1SCMCdiff.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1SCSC.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1SCSC.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1SCSCdiff.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer1SCSCdiff.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2CACA.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2CACA.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2CACAalternative.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2CACAalternative.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2CACAdiff.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2CACAdiff.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2CACAnew.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2CACAnew.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2NO.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2NO.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2NOalternative.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2NOalternative.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2NOalternative7.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2NOalternative7.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2NOdiff.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2NOdiff.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2SCMC.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2SCMC.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2SCMCdiff.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2SCMCdiff.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2SCSC.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2SCSC.dat -------------------------------------------------------------------------------- /scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2SCSCdiff.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhpred/share/neural-net/onhold/MDNWeightsLayer2SCSCdiff.dat -------------------------------------------------------------------------------- /scripts/hhsuitedb.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/hhsuitedb.py -------------------------------------------------------------------------------- /scripts/mergeali.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/mergeali.pl -------------------------------------------------------------------------------- /scripts/multithread.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/multithread.pl -------------------------------------------------------------------------------- /scripts/pdb2fasta.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/pdb2fasta.pl -------------------------------------------------------------------------------- /scripts/pdbfilter.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/pdbfilter.pl -------------------------------------------------------------------------------- /scripts/pdbfilter.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/pdbfilter.py -------------------------------------------------------------------------------- /scripts/reformat.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/reformat.pl -------------------------------------------------------------------------------- /scripts/renumberpdb.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/renumberpdb.pl -------------------------------------------------------------------------------- /scripts/splitfasta.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/scripts/splitfasta.pl -------------------------------------------------------------------------------- /src/CMakeLists.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/CMakeLists.txt -------------------------------------------------------------------------------- /src/a3m_compress.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/a3m_compress.cpp -------------------------------------------------------------------------------- /src/a3m_compress.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/a3m_compress.h -------------------------------------------------------------------------------- /src/a3m_database_extract.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/a3m_database_extract.cpp -------------------------------------------------------------------------------- /src/a3m_database_filter.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/a3m_database_filter.cpp -------------------------------------------------------------------------------- /src/a3m_database_reduce.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/a3m_database_reduce.cpp -------------------------------------------------------------------------------- /src/a3m_extract.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/a3m_extract.cpp -------------------------------------------------------------------------------- /src/a3m_reduce.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/a3m_reduce.cpp -------------------------------------------------------------------------------- /src/cs/CMakeLists.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/CMakeLists.txt -------------------------------------------------------------------------------- /src/cs/aa.cc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/aa.cc -------------------------------------------------------------------------------- /src/cs/aa.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/aa.h -------------------------------------------------------------------------------- /src/cs/alignment-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/alignment-inl.h -------------------------------------------------------------------------------- /src/cs/alignment.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/alignment.h -------------------------------------------------------------------------------- /src/cs/application.cc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/application.cc -------------------------------------------------------------------------------- /src/cs/application.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/application.h -------------------------------------------------------------------------------- /src/cs/as.cc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/as.cc -------------------------------------------------------------------------------- /src/cs/as.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/as.h -------------------------------------------------------------------------------- /src/cs/assert_helpers.cc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/assert_helpers.cc -------------------------------------------------------------------------------- /src/cs/assert_helpers.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/assert_helpers.h -------------------------------------------------------------------------------- /src/cs/blosum_matrix.cc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/blosum_matrix.cc -------------------------------------------------------------------------------- /src/cs/blosum_matrix.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/blosum_matrix.h -------------------------------------------------------------------------------- /src/cs/context_library-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/context_library-inl.h -------------------------------------------------------------------------------- /src/cs/context_library.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/context_library.h -------------------------------------------------------------------------------- /src/cs/context_profile-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/context_profile-inl.h -------------------------------------------------------------------------------- /src/cs/context_profile.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/context_profile.h -------------------------------------------------------------------------------- /src/cs/count_profile-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/count_profile-inl.h -------------------------------------------------------------------------------- /src/cs/count_profile.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/count_profile.h -------------------------------------------------------------------------------- /src/cs/crf-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/crf-inl.h -------------------------------------------------------------------------------- /src/cs/crf.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/crf.h -------------------------------------------------------------------------------- /src/cs/crf_pseudocounts-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/crf_pseudocounts-inl.h -------------------------------------------------------------------------------- /src/cs/crf_pseudocounts.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/crf_pseudocounts.h -------------------------------------------------------------------------------- /src/cs/crf_state-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/crf_state-inl.h -------------------------------------------------------------------------------- /src/cs/crf_state.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/crf_state.h -------------------------------------------------------------------------------- /src/cs/cs.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/cs.h -------------------------------------------------------------------------------- /src/cs/cstranslate_app.cc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/cstranslate_app.cc -------------------------------------------------------------------------------- /src/cs/cstranslate_app.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/cstranslate_app.h -------------------------------------------------------------------------------- /src/cs/cstranslate_mpi_app.cc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/cstranslate_mpi_app.cc -------------------------------------------------------------------------------- /src/cs/cstranslate_mpi_app.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/cstranslate_mpi_app.h -------------------------------------------------------------------------------- /src/cs/emission.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/emission.h -------------------------------------------------------------------------------- /src/cs/exception.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/exception.h -------------------------------------------------------------------------------- /src/cs/getopt_pp.cc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/getopt_pp.cc -------------------------------------------------------------------------------- /src/cs/getopt_pp.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/getopt_pp.h -------------------------------------------------------------------------------- /src/cs/globals.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/globals.h -------------------------------------------------------------------------------- /src/cs/io.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/io.h -------------------------------------------------------------------------------- /src/cs/library_pseudocounts-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/library_pseudocounts-inl.h -------------------------------------------------------------------------------- /src/cs/library_pseudocounts.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/library_pseudocounts.h -------------------------------------------------------------------------------- /src/cs/log.cc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/log.cc -------------------------------------------------------------------------------- /src/cs/log.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/log.h -------------------------------------------------------------------------------- /src/cs/matrix.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/matrix.h -------------------------------------------------------------------------------- /src/cs/profile-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/profile-inl.h -------------------------------------------------------------------------------- /src/cs/profile.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/profile.h -------------------------------------------------------------------------------- /src/cs/profile_column.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/profile_column.h -------------------------------------------------------------------------------- /src/cs/pseudocounts-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/pseudocounts-inl.h -------------------------------------------------------------------------------- /src/cs/pseudocounts.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/pseudocounts.h -------------------------------------------------------------------------------- /src/cs/pssm.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/pssm.h -------------------------------------------------------------------------------- /src/cs/ran.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/ran.h -------------------------------------------------------------------------------- /src/cs/scoped_ptr.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/scoped_ptr.h -------------------------------------------------------------------------------- /src/cs/sequence-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/sequence-inl.h -------------------------------------------------------------------------------- /src/cs/sequence.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/sequence.h -------------------------------------------------------------------------------- /src/cs/substitution_matrix-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/substitution_matrix-inl.h -------------------------------------------------------------------------------- /src/cs/substitution_matrix.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/substitution_matrix.h -------------------------------------------------------------------------------- /src/cs/utils.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/utils.h -------------------------------------------------------------------------------- /src/cs/vector.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/cs/vector.h -------------------------------------------------------------------------------- /src/ffindexdatabase.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/ffindexdatabase.cpp -------------------------------------------------------------------------------- /src/ffindexdatabase.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/ffindexdatabase.h -------------------------------------------------------------------------------- /src/hash.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hash.cpp -------------------------------------------------------------------------------- /src/hash.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hash.h -------------------------------------------------------------------------------- /src/hhalign.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhalign.cpp -------------------------------------------------------------------------------- /src/hhalign.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhalign.h -------------------------------------------------------------------------------- /src/hhalignment.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhalignment.cpp -------------------------------------------------------------------------------- /src/hhalignment.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhalignment.h -------------------------------------------------------------------------------- /src/hhbacktracemac.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhbacktracemac.cpp -------------------------------------------------------------------------------- /src/hhbackwardalgorithm.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhbackwardalgorithm.cpp -------------------------------------------------------------------------------- /src/hhblits.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhblits.cpp -------------------------------------------------------------------------------- /src/hhblits.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhblits.h -------------------------------------------------------------------------------- /src/hhblits_app.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhblits_app.cpp -------------------------------------------------------------------------------- /src/hhblits_ca3m.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhblits_ca3m.cpp -------------------------------------------------------------------------------- /src/hhblits_mpi.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhblits_mpi.cpp -------------------------------------------------------------------------------- /src/hhblits_omp.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhblits_omp.cpp -------------------------------------------------------------------------------- /src/hhconsensus.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhconsensus.cpp -------------------------------------------------------------------------------- /src/hhdatabase.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhdatabase.cpp -------------------------------------------------------------------------------- /src/hhdatabase.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhdatabase.h -------------------------------------------------------------------------------- /src/hhdecl.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhdecl.cpp -------------------------------------------------------------------------------- /src/hhdecl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhdecl.h -------------------------------------------------------------------------------- /src/hhfilter.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhfilter.cpp -------------------------------------------------------------------------------- /src/hhforwardalgorithm.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhforwardalgorithm.cpp -------------------------------------------------------------------------------- /src/hhfullalignment.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhfullalignment.cpp -------------------------------------------------------------------------------- /src/hhfullalignment.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhfullalignment.h -------------------------------------------------------------------------------- /src/hhfunc.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhfunc.cpp -------------------------------------------------------------------------------- /src/hhfunc.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhfunc.h -------------------------------------------------------------------------------- /src/hhhalfalignment.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhalfalignment.cpp -------------------------------------------------------------------------------- /src/hhhalfalignment.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhalfalignment.h -------------------------------------------------------------------------------- /src/hhhit-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhit-inl.h -------------------------------------------------------------------------------- /src/hhhit.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhit.cpp -------------------------------------------------------------------------------- /src/hhhit.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhit.h -------------------------------------------------------------------------------- /src/hhhitlist-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhitlist-inl.h -------------------------------------------------------------------------------- /src/hhhitlist.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhitlist.cpp -------------------------------------------------------------------------------- /src/hhhitlist.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhitlist.h -------------------------------------------------------------------------------- /src/hhhmm.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhmm.cpp -------------------------------------------------------------------------------- /src/hhhmm.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhmm.h -------------------------------------------------------------------------------- /src/hhhmmsimd.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhmmsimd.cpp -------------------------------------------------------------------------------- /src/hhhmmsimd.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhhmmsimd.h -------------------------------------------------------------------------------- /src/hhmacalgorithm.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhmacalgorithm.cpp -------------------------------------------------------------------------------- /src/hhmake.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhmake.cpp -------------------------------------------------------------------------------- /src/hhmatrices.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhmatrices.cpp -------------------------------------------------------------------------------- /src/hhmatrices.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhmatrices.h -------------------------------------------------------------------------------- /src/hhposteriordecoder.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhposteriordecoder.cpp -------------------------------------------------------------------------------- /src/hhposteriordecoder.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhposteriordecoder.h -------------------------------------------------------------------------------- /src/hhposteriordecoderrunner.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhposteriordecoderrunner.cpp -------------------------------------------------------------------------------- /src/hhposteriordecoderrunner.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhposteriordecoderrunner.h -------------------------------------------------------------------------------- /src/hhposteriormatrix.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhposteriormatrix.cpp -------------------------------------------------------------------------------- /src/hhposteriormatrix.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhposteriormatrix.h -------------------------------------------------------------------------------- /src/hhprefilter.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhprefilter.cpp -------------------------------------------------------------------------------- /src/hhprefilter.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhprefilter.h -------------------------------------------------------------------------------- /src/hhsearch.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhsearch.cpp -------------------------------------------------------------------------------- /src/hhsearch.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhsearch.h -------------------------------------------------------------------------------- /src/hhsuite_config.h.in: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhsuite_config.h.in -------------------------------------------------------------------------------- /src/hhutil-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhutil-inl.h -------------------------------------------------------------------------------- /src/hhutil.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhutil.cpp -------------------------------------------------------------------------------- /src/hhutil.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhutil.h -------------------------------------------------------------------------------- /src/hhviterbi.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhviterbi.cpp -------------------------------------------------------------------------------- /src/hhviterbi.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhviterbi.h -------------------------------------------------------------------------------- /src/hhviterbialgorithm.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhviterbialgorithm.cpp -------------------------------------------------------------------------------- /src/hhviterbimatrix-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhviterbimatrix-inl.h -------------------------------------------------------------------------------- /src/hhviterbimatrix.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhviterbimatrix.cpp -------------------------------------------------------------------------------- /src/hhviterbimatrix.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhviterbimatrix.h -------------------------------------------------------------------------------- /src/hhviterbirunner.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhviterbirunner.cpp -------------------------------------------------------------------------------- /src/hhviterbirunner.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/hhviterbirunner.h -------------------------------------------------------------------------------- /src/list.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/list.cpp -------------------------------------------------------------------------------- /src/list.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/list.h -------------------------------------------------------------------------------- /src/log.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/log.h -------------------------------------------------------------------------------- /src/util-inl.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/util-inl.h -------------------------------------------------------------------------------- /src/util.cpp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/util.cpp -------------------------------------------------------------------------------- /src/util.h: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/soedinglab/hh-suite/HEAD/src/util.h --------------------------------------------------------------------------------