├── .github └── workflows │ └── build_and_release.yml ├── .gitignore ├── .gitmodules ├── CMakeLists.txt ├── CPack.txt ├── ChangeLog ├── CommonCMake.txt ├── LICENSE ├── NOTICE ├── ReadMe.md ├── admin ├── add_license.sh ├── add_namespace.sh ├── builders │ ├── _urls_and_file_names_.bat │ ├── centos64_build.sh │ ├── fedora64_build.sh │ ├── nativew32_build.bat │ ├── nativew64_build.bat │ ├── osx64_build.sh │ ├── tarball64_build.sh │ └── ubuntu64_build.sh ├── get_download_stats.sh ├── release_checklist.txt └── vagrant │ ├── batch.sh │ └── manager.sh ├── bin ├── get_spectrum_quants.py ├── normalize_intensities.py ├── percolator.py └── prepare_input.py ├── ext ├── advParams_dinosaur.txt └── advParams_dinosaur_targeted.txt ├── quickbuild.bat ├── quickbuild.sh ├── quickbuild64.bat └── src ├── AlignRetention.cpp ├── AlignRetention.h ├── CMakeLists.txt ├── ConsensusMerger.cpp ├── ConsensusMerger.h ├── DinosaurFeature.h ├── DinosaurFeatureList.h ├── DinosaurIO.cpp ├── DinosaurIO.h ├── 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