From fc66a23d84935889ccf2c030e860d6ce7ab9bcb7 Mon Sep 17 00:00:00 2001
From: jgart
Date: Mon, 29 Jul 2024 19:29:01 -0500
Subject: gn: Add mouse-longevity-app.

* gn/packages/mouse-longevity.scm (mouse-longevity-app): New variable.
---
 gn/packages/mouse-longevity.scm | 84 +++++++++++++++++++++++++++++++++++++++++
 1 file changed, 84 insertions(+)
 create mode 100644 gn/packages/mouse-longevity.scm

(limited to 'gn/packages/mouse-longevity.scm')

diff --git a/gn/packages/mouse-longevity.scm b/gn/packages/mouse-longevity.scm
new file mode 100644
index 0000000..7b00f4c
--- /dev/null
+++ b/gn/packages/mouse-longevity.scm
@@ -0,0 +1,84 @@
+;;; 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://github.com/Dashbrook/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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