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(license license:expat))) +(define-public wfa2-lib + (let ((commit "188b522ae634add3c692ca7547595b7266f1fa19") + (revision "1")) + (package + (name "wfa2-lib") + (version (git-version "2.3.1" revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/smarco/WFA2-lib") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1pq844zsl7v5zk6pzkbh5j2k2g1ac54nlvgyihla2wlwi0ibndax")))) + (build-system cmake-build-system) + (arguments + (list + #:configure-flags + #~(list "-DOPENMP=ON"))) + (native-inputs + (list pkg-config)) + (home-page "https://github.com/ekg/tabixpp") + (synopsis "Wavefront alignment algorithm library") + (description "The @acronym{wavefront alignment, WFA} algorithm is an exact +gap-affine algorithm that takes advantage of homologous regions between the +sequences to accelerate the alignment process. Unlike to traditional dynamic +programming algorithms that run in quadratic time, the WFA runs in time +@code{O(ns+s^2)}, proportional to the sequence length @code{n} and the alignment +score @code{s}, using @code{O(s^2)} memory (or @code{O(s)} using the +ultralow/BiWFA mode). Moreover, the WFA algorithm exhibits simple computational +patterns that the modern compilers can automatically vectorize for different +architectures without adapting the code.") + (license license:expat)))) + (define-public smithwaterman (let ((commit "2610e259611ae4cde8f03c72499d28f03f6d38a7")) (package -- Efraim Flashner אפרים פלשנר GPG key = A28B F40C 3E55 1372 662D 14F7 41AA E7DC CA3D 8351 Confidentiality cannot be guaranteed on emails sent or received unencrypted