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-rw-r--r--gnu/packages/bioinformatics.scm113
1 files changed, 52 insertions, 61 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index b6bd2c619a..d0f4429a4c 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -2274,72 +2274,63 @@ of nucleic acid binding proteins.")
(license license:gpl3+)))
(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")))
- (for-each (lambda (file)
- (install-file file bin))
- (find-files "../bin" ".*"))
- #t))))))
- (inputs
- `(("gsl" ,gsl)
- ("lapack" ,lapack)
- ("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
+ (package
+ (name "eigensoft")
+ (version "7.2.1")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/DReichLab/EIG.git")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "1c141fqvhnzibmnf22sv23vbmzm20kjjyrib44cfh75wyndp2d9k"))
+ (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") #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")))
+ (for-each (lambda (file)
+ (install-file file bin))
+ (find-files "../bin" ".*"))
+ #t))))))
+ (inputs
+ `(("gsl" ,gsl)
+ ("lapack" ,lapack)
+ ("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+))))
+ ;; 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