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;;; guix-bioinformatics --- Bioinformatics packages for GNU Guix
;;; Copyright © 2024 jgart <jgart@dismail.de>
;;;
;;; This file is part of guix-bioinformatics.
;;;
;;; genenetwork-machines is free software: you can redistribute it
;;; and/or modify it under the terms of the GNU General Public License
;;; as published by the Free Software Foundation, either version 3 of
;;; the License, or (at your option) any later version.
;;;
;;; genenetwork-machines is distributed in the hope that it will be
;;; useful, but WITHOUT ANY WARRANTY; without even the implied
;;; warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
;;; See the GNU General Public License for more details.
;;;
;;; You should have received a copy of the GNU General Public License
;;; along with genenetwork-machines. If not, see
;;; <https://www.gnu.org/licenses/>.
(define-module (gn packages mouse-longevity)
#:use-module (guix)
#:use-module (gnu)
#:use-module (gnu services shepherd)
#:use-module (gn services rshiny)
#:use-module (guix git-download)
#:use-module (guix modules)
#:use-module (guix records)
#:use-module (srfi srfi-1)
#:use-module (ice-9 match)
#:use-module (gnu packages cran)
#:use-module (gnu packages statistics)
#:use-module ((guix licenses) #:prefix license:)
#:use-module (guix build-system trivial)
#:use-module ((gnu packages admin) #:select (shepherd))
#:use-module ((gnu packages web) #:select (nginx)))
(define-public mouse-longevity-app
(let ((commit "7f8198195d68341242132911f15971c137797e61")
(revision "0"))
(package
(name "mouse-longevity-app")
(version (git-version "0.0.0" revision commit))
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://git.genenetwork.org/mouse-longevity-app/")
(commit commit)))
(file-name (git-file-name name version))
(sha256
(base32 "1wvda7h737dyrz1zv796666v0rndalfd8gxl3964x6qgcsgprcsf"))))
(build-system trivial-build-system)
(arguments
(list #:modules '((guix build utils))
#:builder
#~(begin
(use-modules (guix build utils))
(let* ((source (assoc-ref %build-inputs "source"))
(targetdir (string-append #$output "/share/" #$name))
(app (string-append #$output "/bin/" #$name))
(Rbin (search-input-file %build-inputs "/bin/Rscript")))
(copy-recursively source targetdir)
(mkdir-p (string-append #$output "/bin"))
(call-with-output-file app
(lambda (port)
(format port
"#!~a
library(shiny)
setwd(\"~a\")
runApp(launch.browser=0, port=3979)~%\n"
Rbin targetdir)))
(chmod app #o555)))))
(propagated-inputs
(list r
r-ggplot2
r-dplyr
r-plotly
r-shinyjs
r-shiny))
(home-page "https://github.com/Dashbrook/Mouse_Longevity_app/")
(synopsis "R shiny app to visualize mouse lifespan data")
(description
"This package provides an R shiny app to visualize mouse strain
longevity data.")
(license license:gpl3+))))
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