@@ 1603,6 1603,76 @@ data and settings.")
(license (license:non-copyleft "file://src/COPYING"
"See src/COPYING in the distribution."))))
+(define-public eigensoft
+ (let ((revision "1")
+ (commit "b14d1e202e21e532536ff8004f0419cd5e259dc7"))
+ (package
+ (name "eigensoft")
+ (version (string-append "6.1.2-"
+ revision "."
+ (string-take commit 9)))
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/DReichLab/EIG.git")
+ (commit commit)))
+ (file-name (string-append "eigensoft-" commit "-checkout"))
+ (sha256
+ (base32
+ "0f5m6k2j5c16xc3xbywcs989xyc26ncy1zfzp9j9n55n9r4xcaiq"))
+ (modules '((guix build utils)))
+ ;; Remove pre-built binaries.
+ (snippet '(begin
+ (delete-file-recursively "bin")
+ (mkdir "bin")
+ #t))))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:tests? #f ; There are no tests.
+ #:make-flags '("CC=gcc")
+ #:phases
+ (modify-phases %standard-phases
+ ;; There is no configure phase, but the Makefile is in a
+ ;; sub-directory.
+ (replace 'configure
+ (lambda _
+ (chdir "src")
+ ;; The link flags are incomplete.
+ (substitute* "Makefile"
+ (("-lgsl") "-lgsl -lm -llapack -llapacke -lpthread"))
+ #t))
+ ;; The provided install target only copies executables to
+ ;; the "bin" directory in the build root.
+ (add-after 'install 'actually-install
+ (lambda* (#:key outputs #:allow-other-keys)
+ (let* ((out (assoc-ref outputs "out"))
+ (bin (string-append out "/bin")))
+ (mkdir-p bin)
+ (for-each (lambda (file)
+ (install-file file bin))
+ (find-files "../bin" ".*"))
+ #t))))))
+ (inputs
+ `(("gsl" ,gsl)
+ ("lapack" ,lapack)
+ ("lapack" ,lapack "lapacke")
+ ("openblas" ,openblas)
+ ("perl" ,perl)
+ ("gfortran" ,gfortran "lib")))
+ (home-page "https://github.com/DReichLab/EIG")
+ (synopsis "Tools for population genetics")
+ (description "The EIGENSOFT package provides tools for population
+genetics and stratification correction. EIGENSOFT implements methods commonly
+used in population genetics analyses such as PCA, computation of Tracy-Widom
+statistics, and finding related individuals in structured populations. It
+comes with a built-in plotting script and supports multiple file formats and
+quantitative phenotypes.")
+ ;; The license of the eigensoft tools is Expat, but since it's
+ ;; linking with the GNU Scientific Library (GSL) the effective
+ ;; license is the GPL.
+ (license license:gpl3+))))
+
(define-public edirect
(package
(name "edirect")