@@ 1031,6 1031,62 @@ variant calling (in conjunction with bcftools), and a simple alignment
viewer.")
(license license:expat)))
+(define-public ngs-sdk
+ (package
+ (name "ngs-sdk")
+ (version "1.1.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri
+ (string-append "https://github.com/ncbi/ngs/archive/"
+ version ".tar.gz"))
+ (file-name (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "09fakv9w87lfg9g70kwzmnryqdjj1sz2c7kw01i6drjf787gkjhw"))))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:parallel-build? #f ; not supported
+ #:tests? #f ; no "check" target
+ #:phases
+ (alist-replace
+ 'configure
+ (lambda* (#:key outputs #:allow-other-keys)
+ (let ((out (assoc-ref outputs "out")))
+ ;; Only replace the version suffix, not the version number in the
+ ;; directory name; fixed in commit 46d4509fa8 (no release yet).
+ (substitute* "setup/konfigure.perl"
+ (((string-append "\\$\\(subst "
+ "(\\$\\(VERSION[^\\)]*\\)),"
+ "(\\$\\([^\\)]+\\)),"
+ "(\\$\\([^\\)]+\\)|\\$\\@)"
+ "\\)")
+ _ pattern replacement target)
+ (string-append "$(patsubst "
+ "%" pattern ","
+ "%" replacement ","
+ target ")")))
+
+ ;; The 'configure' script doesn't recognize things like
+ ;; '--enable-fast-install'.
+ (zero? (system* "./configure"
+ (string-append "--build-prefix=" (getcwd) "/build")
+ (string-append "--prefix=" out)))))
+ (alist-cons-after
+ 'unpack 'enter-dir
+ (lambda _ (chdir "ngs-sdk") #t)
+ %standard-phases))))
+ (native-inputs `(("perl" ,perl)))
+ (home-page "https://github.com/ncbi/ngs")
+ (synopsis "API for accessing Next Generation Sequencing data")
+ (description
+ "NGS is a domain-specific API for accessing reads, alignments and pileups
+produced from Next Generation Sequencing. The API itself is independent from
+any particular back-end implementation, and supports use of multiple back-ends
+simultaneously.")
+ (license license:public-domain)))
+
(define-public seqan
(package
(name "seqan")