diff options
Diffstat (limited to 'gn')
| -rw-r--r-- | gn/packages/gemma.scm | 71 | ||||
| -rw-r--r-- | gn/packages/statistics.scm | 24 |
2 files changed, 70 insertions, 25 deletions
diff --git a/gn/packages/gemma.scm b/gn/packages/gemma.scm index aad5b67..82fb121 100644 --- a/gn/packages/gemma.scm +++ b/gn/packages/gemma.scm @@ -33,6 +33,7 @@ #:use-module (gnu packages gcc) #:use-module (gnu packages graphviz) #:use-module (gnu packages java) + #:use-module (gnu packages ldc) #:use-module (gnu packages linux) #:use-module (gnu packages machine-learning) #:use-module (gnu packages maths) @@ -61,9 +62,53 @@ #:use-module (gn packages shell) #:use-module (srfi srfi-1)) +(define-public faster-lmm-d ; incomplete, just creates builid environment + (let ((commit "dea6abf61b633ed55e6a2997068f2d54abe5376b")) + (package + (name "faster-lmm-d") + (version (string-append "0.0.1-" (string-take commit 7))) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/pjotrp/faster_lmm_d.git") + (commit commit))) + (file-name (string-append name "-" version "-checkout")) + (sha256 + (base32 + "1syrn32g1q06bsnrk9wl7q2m5mvvglys2zl92rx0bi49kp2i0ngv")))) + (build-system trivial-build-system) + (propagated-inputs + `(("openblas" ,openblas) + ("gsl" ,gsl) + ("lapack" ,lapack) + ("dub" ,dub) + ; ("make" ,make) + )) + (native-inputs + `(("ldc" ,ldc) + ("shunit2" ,shunit2) + ("which" ,which) + )) + (arguments + `(#:modules ((guix build utils)) + #:builder + (begin + (use-modules (guix build utils)) + (let ((target (string-append (assoc-ref %outputs "out") + "/share"))) + (write target) + (mkdir-p target) + (copy-recursively (assoc-ref %build-inputs "source") target) + #t)))) + (home-page "https://github.com/pjotrp") + (synopsis "Parallel LMM") + (description + ".") + (license license:gpl3)))) + (define-public openblas-haswell (let ((commit "893bd14e924fa72a4ed345a75d64c637f1b1c550")) - (package + (package (name "openblas-haswell") (version (string-append "0.2.20-git-" (string-take commit 7))) (source (origin @@ -139,30 +184,6 @@ (license license:bsd-3)))) -(define-public gsl1 ; supporting older GSL tests - no longer really used - (package - (name "gsl1") - (version "1.16") - (source (origin - (method url-fetch) - (uri (string-append "mirror://gnu/gsl/gsl-" - version ".tar.gz")) - (sha256 - (base32 - "0lrgipi0z6559jqh82yx8n4xgnxkhzj46v96dl77hahdp58jzg3k")) - )) - (build-system gnu-build-system) - (home-page "https://www.gnu.org/software/gsl/") - (synopsis "Numerical library for C and C++") - (description - "The GNU Scientific Library is a library for numerical analysis in C -and C++. It includes a wide range of mathematical routines, with over 1000 -functions in total. Subject areas covered by the library include: -differential equations, linear algebra, Fast Fourier Transforms and random -numbers.") - (license license:gpl3+))) - - (define-public gemma-gn2 ; guix candidate - generic openblas version (let ((commit "c760aa09c2aa91ca6270b5f898c27e9aed376a73")) (package diff --git a/gn/packages/statistics.scm b/gn/packages/statistics.scm index c24c7d0..4159dcd 100644 --- a/gn/packages/statistics.scm +++ b/gn/packages/statistics.scm @@ -339,3 +339,27 @@ traits (CTL). The additional correlation information obtained can be combined with QTL information to perform de novo reconstruction of interaction networks.") (license license:gpl3))) + + +(define-public gsl1 ; supporting older GSL tests - no longer really used + (package + (name "gsl1") + (version "1.16") + (source (origin + (method url-fetch) + (uri (string-append "mirror://gnu/gsl/gsl-" + version ".tar.gz")) + (sha256 + (base32 + "0lrgipi0z6559jqh82yx8n4xgnxkhzj46v96dl77hahdp58jzg3k")) + )) + (build-system gnu-build-system) + (home-page "https://www.gnu.org/software/gsl/") + (synopsis "Numerical library for C and C++") + (description + "The GNU Scientific Library is a library for numerical analysis in C +and C++. It includes a wide range of mathematical routines, with over 1000 +functions in total. Subject areas covered by the library include: +differential equations, linear algebra, Fast Fourier Transforms and random +numbers.") + (license license:gpl3+))) |