add mesquite

mesquite/PKGBUILD

@@ -0,0 +1,41 @@
+# Maintainer: syne <madlikene at aim dot com>
+# Contributor: Anton Bazhenov <anton.bazhenov at gmail>
+# Contributor: Mick Elliot <micke at sfu dot ca>
+pkgname=mesquite
+pkgver=3.6
+#_pkgver=3.6-Linux
+#buildver=build-917
+pkgrel=2
+pkgdesc="A modular, extendible software for evolutionary biology, designed to help biologists organize and analyze comparative data about organisms"
+arch=('any')
+url="http://mesquiteproject.org"
+license=('(L)GPL')
+depends=('java-runtime')
+source=(https://github.com/MesquiteProject/MesquiteCore/releases/download/v$pkgver/Mesquite_Folder$pkgver-Linux.tgz
+        $pkgname.png
+        $pkgname.desktop
+	$pkgname.sh
+        )
+md5sums=('671cf1b579a9fef2a8cf4771e1accd85'
+         '8b62ba93f95aab14a8643bf5b939f465'
+         '279160bcf1544a78e0b0372279bfa68d'
+	 'f6ff62edbf95e40d21c7bceadb35ecfe'
+         )
+
+package() {
+  cd $srcdir/Mesquite_Folder
+
+  # Remove bundled shell script and install own
+  rm -rf $pkgdir/$pkgname.sh
+  install -Dm755 ../$pkgname.sh $pkgdir/usr/bin/$pkgname
+ 
+  # Install program files
+  mkdir -p $pkgdir/usr/share/$pkgname
+  cp -r * $pkgdir/usr/share/$pkgname
+  find $pkgdir/usr/share/$pkgname -type f -exec chmod 644 '{}' \;
+
+
+  # Install a desktop entry
+  install -Dm644 ../$pkgname.png $pkgdir/usr/share/pixmaps/$pkgname.png
+  install -Dm644 ../$pkgname.desktop $pkgdir/usr/share/applications/$pkgname.desktop
+}

mesquite/lilac.py

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+#!/usr/bin/env python3
+
+from lilaclib import *
+
+def pre_build():
+  update_pkgver_and_pkgrel(_G.newver.lstrip('v'))
+
+def post_build():
+  git_add_files('PKGBUILD')
+  git_commit()

mesquite/lilac.yaml

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+build_prefix: extra-x86_64
+maintainers:
+  - github: starsareintherose
+    email: starsareintherose@outlook.com
+update_on:
+  - source: github
+    github: MesquiteProject/MesquiteCore
+    use_latest_release: true

mesquite/mesquite.desktop

@@ -0,0 +1,9 @@
+[Desktop Entry]
+Type=Application
+Version=1.0
+Name=Mesquite
+Comment=A modular, extendible software for evolutionary biology, designed to help biologists organize and analyze comparative data about organisms.
+Exec=mesquite
+Icon=mesquite
+Terminal=false
+Categories=Java;Education;Science;Biology;

mesquite/mesquite.sh

@@ -0,0 +1,8 @@
+#!/bin/sh
+java=/usr/bin/java
+dir=/usr/share/mesquite
+
+cp -r  "$dir/../Resources/com/"* "$dir/com/" >& /dev/null
+$java -Djava.library.path=lib -Djri.ignore.ule="yes" -cp "$dir" mesquite.Mesquite $*
+
+