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Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 37 |
1 files changed, 37 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 17b46752fe..7c573e1626 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -2791,6 +2791,43 @@ BioPython in a convenient way. Instead of having a big mess of scripts, there is one that takes arguments.") (license license:gpl3))) +(define-public snap-aligner + (package + (name "snap-aligner") + (version "1.0beta.18") + (source (origin + (method url-fetch) + (uri (string-append + "https://github.com/amplab/snap/archive/v" + version ".tar.gz")) + (file-name (string-append name "-" version ".tar.gz")) + (sha256 + (base32 + "1vnsjwv007k1fl1q7d681kbwn6bc66cgw6h16hym6gvyy71qv2ly")))) + (build-system gnu-build-system) + (arguments + '(#:phases + (modify-phases %standard-phases + (delete 'configure) + (replace 'check (lambda _ (zero? (system* "./unit_tests")))) + (replace 'install + (lambda* (#:key outputs #:allow-other-keys) + (let* ((out (assoc-ref outputs "out")) + (bin (string-append out "/bin"))) + (mkdir-p bin) + (install-file "snap-aligner" bin) + (install-file "SNAPCommand" bin) + #t)))))) + (native-inputs + `(("zlib" ,zlib))) + (home-page "http://snap.cs.berkeley.edu/") + (synopsis "Short read DNA sequence aligner") + (description + "SNAP is a fast and accurate aligner for short DNA reads. It is +optimized for modern read lengths of 100 bases or higher, and takes advantage +of these reads to align data quickly through a hash-based indexing scheme.") + (license license:asl2.0))) + (define-public star (package (name "star") |