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| -rw-r--r-- | gnu/packages/bioinformatics.scm | 46 |
1 files changed, 46 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 152ee22225..35bed0f76e 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -5539,6 +5539,52 @@ biology. EMBOSS also integrates a range of currently available packages and tools for sequence analysis into a seamless whole.") (license license:gpl2+))) +(define-public bits + (let ((revision "1") + (commit "3cc4567896d9d6442923da944beb704750a08d2d")) + (package + (name "bits") + ;; The version is 2.13.0 even though no release archives have been + ;; published as yet. + (version (string-append "2.13.0-" revision "." (string-take commit 9))) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/arq5x/bits.git") + (commit commit))) + (file-name (string-append name "-" version "-checkout")) + (sha256 + (base32 + "17n2kffk4kmhivd8c98g2vr6y1s23vbg4sxlxs689wni66797hbs")))) + (build-system gnu-build-system) + (arguments + `(#:tests? #f ;no tests included + #:phases + (modify-phases %standard-phases + (delete 'configure) + (add-after 'unpack 'remove-cuda + (lambda _ + (substitute* "Makefile" + ((".*_cuda") "") + (("(bits_test_intersections) \\\\" _ match) match)) + #t)) + (replace 'install + (lambda* (#:key outputs #:allow-other-keys) + (copy-recursively + "bin" (string-append (assoc-ref outputs "out") "/bin")) + #t))))) + (inputs + `(("gsl" ,gsl) + ("zlib" ,zlib))) + (home-page "https://github.com/arq5x/bits") + (synopsis "Implementation of binary interval search algorithm") + (description "This package provides an implementation of the +BITS (Binary Interval Search) algorithm, an approach to interval set +intersection. It is especially suited for the comparison of diverse genomic +datasets and the exploration of large datasets of genome +intervals (e.g. genes, sequence alignments).") + (license license:gpl2)))) + (define-public piranha ;; There is no release tarball for the latest version. The latest commit is ;; older than one year at the time of this writing. |