From 967b86672a54795d7387afb7a2f8307457964a37 Mon Sep 17 00:00:00 2001
From: starsareintherose <starsareintherose@outlook.com>
Date: Tue, 2 Nov 2021 08:40:28 +0000
Subject: [PATCH] add figtree

---
 figtree/PKGBUILD           | 38 ++++++++++++++++++++++++++++++++++++++
 figtree/figtree.desktop    | 10 ++++++++++
 figtree/fix_jar_path.patch |  8 ++++++++
 figtree/lilac.py           | 11 +++++++++++
 figtree/lilac.yaml         |  8 ++++++++
 5 files changed, 75 insertions(+)
 create mode 100644 figtree/PKGBUILD
 create mode 100644 figtree/figtree.desktop
 create mode 100644 figtree/fix_jar_path.patch
 create mode 100644 figtree/lilac.py
 create mode 100644 figtree/lilac.yaml

diff --git a/figtree/PKGBUILD b/figtree/PKGBUILD
new file mode 100644
index 0000000000..4d0af8ece9
--- /dev/null
+++ b/figtree/PKGBUILD
@@ -0,0 +1,38 @@
+# Maintainer: Rhinoceros <https://aur.archlinux.org/account/rhinoceros>
+# Contributor: Alexandre G <alex foo lecairn bar org>
+
+pkgname=figtree
+_pkgname=figtree
+pkgver=1.4.4
+pkgrel=1
+pkgdesc='Graphical viewer of phylogenetic trees'
+arch=('any')
+url='http://tree.bio.ed.ac.uk/software/figtree'
+license=('GPL2')  # as stated in http://code.google.com/p/figtree/
+depends=('java-environment')
+conflicts=('figtree')
+provides=('figtree')
+source=("$_pkgname-$pkgver.tar.gz::https://github.com/rambaut/$_pkgname/releases/download/v$pkgver/FigTree_v$pkgver.tgz"
+        "fix_jar_path.patch"
+        "${_pkgname}.desktop")
+sha256sums=('529b867657b29e369cf81cd361e6a76bd713d488a63b91932df2385800423aa8'
+            'f2aa0ebe18924d098f0380d7a5dba3d154c4049c53749be19ab12d77f2c7fccb'
+            '93aaadf4db141c57c5a84fe6e9e875af5091c9fe468f41adb8ce6c02ed214ab3')
+
+prepare() {
+  patch -p1 -i "${srcdir}/fix_jar_path.patch" "${srcdir}/FigTree_v${pkgver}/bin/figtree"
+}
+
+package() {
+  _figdir="${srcdir}/FigTree_v${pkgver}"
+  
+  install -Dm755 "${_figdir}/bin/figtree" "${pkgdir}/usr/bin/figtree"
+  install -Dm755 "${_figdir}/lib/figtree.jar" "${pkgdir}/usr/share/figtree/lib/figtree.jar"
+  install -Dm644 "${_pkgname}.desktop" "${pkgdir}/usr/share/applications/${_pkgname}.desktop"
+  install -Dm644 "${_figdir}/images/figtree.png" "${pkgdir}/usr/share/pixmaps/figtree.png"
+  
+  # Install doc and examples
+  install -Dm644 "${_figdir}/README.txt"     "${pkgdir}/usr/share/doc/figtree/README.txt"
+  install -Dm644 "${_figdir}/carnivore.tree" "${pkgdir}/usr/share/doc/figtree/examples/carnivore.tree"
+  install -Dm644 "${_figdir}/influenza.tree" "${pkgdir}/usr/share/doc/figtree/examples/influenza.tree"
+}
diff --git a/figtree/figtree.desktop b/figtree/figtree.desktop
new file mode 100644
index 0000000000..67be780f5e
--- /dev/null
+++ b/figtree/figtree.desktop
@@ -0,0 +1,10 @@
+[Desktop Entry]
+Type=Application
+Version=1.4.2
+Name=FigTree
+GenericName=Phylogenetic tree viewer
+Comment=Graphical viewer of phylogenetic trees
+Exec=figtree
+Icon=figtree
+Terminal=false
+Categories=Education;Science;
diff --git a/figtree/fix_jar_path.patch b/figtree/fix_jar_path.patch
new file mode 100644
index 0000000000..cfeefbe994
--- /dev/null
+++ b/figtree/fix_jar_path.patch
@@ -0,0 +1,8 @@
+--- figtree.orig	2018-11-26 19:59:48.790432156 +1100
++++ figtree	2018-11-26 20:01:28.520151651 +1100
+@@ -1,4 +1,4 @@
+ #!/bin/sh
+ 
+-java -Xms64m -Xmx512m -jar lib/figtree.jar "$@"
++java -Xms64m -Xmx512m -jar /usr/share/figtree/lib/figtree.jar "$@"
+ 
diff --git a/figtree/lilac.py b/figtree/lilac.py
new file mode 100644
index 0000000000..8a6e65aeba
--- /dev/null
+++ b/figtree/lilac.py
@@ -0,0 +1,11 @@
+#!/usr/bin/env python3
+
+from lilaclib import *
+
+def pre_build():
+  update_pkgver_and_pkgrel(_G.newver.lstrip('v'))
+  run_cmd(['updpkgsums'])
+
+def post_build():
+  git_add_files('PKGBUILD')
+  git_commit()
diff --git a/figtree/lilac.yaml b/figtree/lilac.yaml
new file mode 100644
index 0000000000..41159bb833
--- /dev/null
+++ b/figtree/lilac.yaml
@@ -0,0 +1,8 @@
+build_prefix: extra-x86_64
+maintainers:
+  - github: starsareintherose
+    email: starsareintherose@outlook.com
+update_on:
+  - source: github
+    github: rambaut/figtree
+    use_latest_release: true