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RIsearch1/build/_deps/fmt-subbuild/fmt-populate-prefix/src/fmt-populate-stamp/fmt-populate-gitinfo.txt
RIsearch1/build/_deps/fmt-subbuild/fmt-populate-prefix/src/fmt-populate-stamp/fmt-populate-install
RIsearch1/build/_deps/fmt-subbuild/fmt-populate-prefix/src/fmt-populate-stamp/fmt-populate-mkdir
RIsearch1/build/_deps/fmt-subbuild/fmt-populate-prefix/src/fmt-populate-stamp/fmt-populate-patch
RIsearch1/build/_deps/fmt-subbuild/fmt-populate-prefix/src/fmt-populate-stamp/fmt-populate-patch-info.txt
RIsearch1/build/_deps/fmt-subbuild/fmt-populate-prefix/src/fmt-populate-stamp/fmt-populate-test
RIsearch1/build/_deps/fmt-subbuild/fmt-populate-prefix/src/fmt-populate-stamp/fmt-populate-update-info.txt
RIsearch1/build/_deps/fmt-subbuild/fmt-populate-prefix/tmp/fmt-populate-cfgcmd.txt
RIsearch1/build/_deps/fmt-subbuild/fmt-populate-prefix/tmp/fmt-populate-gitclone.cmake
RIsearch1/build/_deps/fmt-subbuild/fmt-populate-prefix/tmp/fmt-populate-gitupdate.cmake
RIsearch1/build/_deps/fmt-subbuild/fmt-populate-prefix/tmp/fmt-populate-mkdirs.cmake
RIsearch1/src/cli.h
RIsearch1/src/debug_print.h
RIsearch1/src/dsm.cpp
RIsearch1/src/dsm.h
RIsearch1/src/dsm_profile.h
RIsearch1/src/energy.hpp
RIsearch1/src/matrix_operations.h
RIsearch1/src/nucleotide.h
RIsearch1/src/operations.h
RIsearch1/src/risearch.cpp
RIsearch1/src/string_util.h
RIsearch1/src/weights.c
RIsearch1/src/align/HitReporter.h
RIsearch1/src/align/InteractionAlignment.h
RIsearch1/src/align/RunningMax.h
RIsearch1/src/align/ScoreTarget.h
RIsearch1/src/align/dispatch.h
RIsearch1/src/align/force_start.h
RIsearch1/src/align/linspace.h
RIsearch1/src/align/symbols.h
RIsearch1/src/align/traceback.h
RIsearch1/src/align/avx2/primitives.h
RIsearch1/src/align/optimization/QueryProfile.h
RIsearch1/src/align/optimization/RowTerms.h
RIsearch1/src/fasta/FastaRAII.cpp
RIsearch1/src/fasta/FastaRAII.h
RIsearch1/src/fasta/FastaRecord.cpp
RIsearch1/src/fasta/FastaRecord.h
RIsearch1/src/fasta/ResidueTable.h
RIsearch1/src/fasta/fasta.cpp
RIsearch1/src/fasta/fasta.h
RIsearch1/src/math/Matrix.cpp
RIsearch1/src/math/Matrix.h
RIsearch1/src/memory/ByteBuffer.hpp
RIsearch1/src/memory/MallocRAII.hpp
RIsearch1/tests/CMakeLists.txt
RIsearch1/tests/performance/bench_sweep.cpp
RIsearch1/tests/system/base_args.h
RIsearch1/tests/system/risearch_runner.h
RIsearch1/tests/system/test_end_to_end.cpp
RIsearch1/tests/system/test_exit.cpp
RIsearch1/tests/system/test_force_start.cpp
RIsearch1/tests/system/data/query.fa
RIsearch1/tests/system/data/query_empty_record.fa
RIsearch1/tests/system/data/target.fa
RIsearch1/tests/system/data/target_empty_record.fa
RIsearch1/tests/unit/test_alignment_symbols.cpp
RIsearch1/tests/unit/test_dsm.cpp
RIsearch1/tests/unit/test_nucleotide.cpp
RIsearch1/tests/unit/test_operations.cpp
RIsearch1/tests/unit/test_string_utils.cpp
RIsearch1/tests/unit/fasta/test_errors.cpp
RIsearch1/tests/unit/fasta/test_fasta.cpp
src/risearch_tauso/__init__.py
src/risearch_tauso/__main__.py