├── .gitignore ├── .gitmodules ├── .travis.yml ├── CMakeLists.txt ├── LICENSE ├── Makefile ├── README.md ├── ci ├── checks │ ├── changelog.sh │ └── style.sh ├── common │ └── build.sh ├── cpu │ ├── build.sh │ └── prebuild.sh └── gpu │ ├── build.sh │ ├── cuda_test.sh │ ├── golden-output.txt │ └── prebuild.sh ├── meson.build ├── meson_options.txt ├── scripts ├── racon_preprocess.py └── racon_wrapper.py ├── src ├── cuda │ ├── cudaaligner.cpp │ ├── cudaaligner.hpp │ ├── cudabatch.cpp │ ├── cudabatch.hpp │ ├── cudapolisher.cpp │ ├── cudapolisher.hpp │ └── cudautils.hpp ├── logger.cpp ├── logger.hpp ├── main.cpp ├── meson.build ├── overlap.cpp ├── overlap.hpp ├── polisher.cpp ├── polisher.hpp ├── sequence.cpp ├── sequence.hpp ├── version.hpp.in ├── window.cpp └── window.hpp ├── subprojects ├── gtest.wrap └── zlib.wrap ├── test ├── data │ ├── sample_ava_overlaps.mhap.gz │ ├── sample_ava_overlaps.paf.gz │ ├── sample_layout.fasta.gz │ ├── sample_overlaps.paf.gz │ ├── sample_overlaps.sam.gz │ ├── sample_reads.fasta.gz │ ├── sample_reads.fastq.gz │ └── sample_reference.fasta.gz ├── meson.build ├── racon_test.cpp └── racon_test_config.h.in └── vendor └── meson.build /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/NVIDIA-Genomics-Research/racon-gpu/HEAD/.gitignore -------------------------------------------------------------------------------- /.gitmodules: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/NVIDIA-Genomics-Research/racon-gpu/HEAD/.gitmodules -------------------------------------------------------------------------------- /.travis.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/NVIDIA-Genomics-Research/racon-gpu/HEAD/.travis.yml -------------------------------------------------------------------------------- /CMakeLists.txt: 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