From 4289e195a5db389d156d6b3ca6e4cf8857eb8392 Mon Sep 17 00:00:00 2001
From: starsareintherose <starsareintherose@outlook.com>
Date: Tue, 2 Nov 2021 08:40:53 +0000
Subject: [PATCH] add muscle

---
 muscle/LICENSE    | 10 ++++++++++
 muscle/PKGBUILD   | 29 +++++++++++++++++++++++++++++
 muscle/lilac.py   | 10 ++++++++++
 muscle/lilac.yaml |  9 +++++++++
 4 files changed, 58 insertions(+)
 create mode 100644 muscle/LICENSE
 create mode 100644 muscle/PKGBUILD
 create mode 100755 muscle/lilac.py
 create mode 100644 muscle/lilac.yaml

diff --git a/muscle/LICENSE b/muscle/LICENSE
new file mode 100644
index 0000000000..e48f525feb
--- /dev/null
+++ b/muscle/LICENSE
@@ -0,0 +1,10 @@
+MUSCLE is public domain software 
+
+The MUSCLE software, including object and source code and
+documentation, is hereby donated to the public domain.
+
+Disclaimer of warranty
+
+THIS SOFTWARE IS PROVIDED "AS IS" WITHOUT WARRANTY OF ANY KIND, EITHER
+EXPRESS OR IMPLIED, INCLUDING WITHOUT LIMITATION IMPLIED WARRANTIES OF
+MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE.
diff --git a/muscle/PKGBUILD b/muscle/PKGBUILD
new file mode 100644
index 0000000000..969863d58f
--- /dev/null
+++ b/muscle/PKGBUILD
@@ -0,0 +1,29 @@
+# Maintainer: Michael Schubert <mschu.dev at gmail>
+# Contributor: Mick Elliot <micke@sfu.ca>
+# Contributor: Damir Perisa <damir.perisa@bluewin.ch>
+pkgname=muscle
+pkgver=3.8.1551
+pkgrel=1
+pkgdesc="multiple sequence comparison by log-expectation"
+arch=('i686' 'x86_64')
+url="http://www.drive5.com/muscle/"
+license=('custom')
+source=(http://www.drive5.com/muscle/muscle_src_$pkgver.tar.gz LICENSE)
+sha256sums=('c70c552231cd3289f1bad51c9bd174804c18bb3adcf47f501afec7a68f9c482e'
+            '2ee887dede5d3ddb6fa65690e0afd8d1083d835522d9271450752df0cc2f6658')
+
+build() {
+  cd "$srcdir"
+  if [ "${CARCH}" = "i686" ]; then
+    make CFLAGS=" -march=i686 -mtune=generic -O2 -pipe" LDLIBS=" -lm"
+  else
+    make CFLAGS=" -march=x86-64 -mtune=generic -O2 -pipe" LDLIBS=" -lm"
+  fi
+}
+
+package() {
+  cd "$srcdir"
+  install -D -m755 muscle "$pkgdir/usr/bin/muscle"
+  install -D -m644 "$srcdir/LICENSE" "$pkgdir/usr/share/licenses/$pkgname/LICENSE"
+}
+ 
diff --git a/muscle/lilac.py b/muscle/lilac.py
new file mode 100755
index 0000000000..fcbff72939
--- /dev/null
+++ b/muscle/lilac.py
@@ -0,0 +1,10 @@
+#!/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/muscle/lilac.yaml b/muscle/lilac.yaml
new file mode 100644
index 0000000000..f4e6bca90b
--- /dev/null
+++ b/muscle/lilac.yaml
@@ -0,0 +1,9 @@
+build_prefix: extra-x86_64
+maintainers:
+  - github: starsareintherose
+    email: starsareintherose@outlook.com
+update_on:
+  - regex: muscle_src_(\d+.\d+.\d+).tar.gz
+    source: regex
+    url: http://www.drive5.com/muscle/downloads.htm
+