phyml 20110919

Signed-off-by: Adam Vandenberg <flangy@gmail.com>

1 files changed, 35 insertions, 0 deletions

diff --git a/Library/Formula/phyml.rb b/Library/Formula/phyml.rb
new file mode 100644
index 000000000..c2abe0934
--- /dev/null
+++ b/Library/Formula/phyml.rb
@@ -0,0 +1,35 @@
+require 'formula'
+
+class Phyml < Formula
+  homepage 'http://www.atgc-montpellier.fr/phyml/'
+  url 'http://phyml.googlecode.com/files/phyml-20110919.tar.gz'
+  md5 'd95c73c5c03d082db21564a54978f281'
+
+  def install
+    # separate steps required
+    system "./configure", "--prefix=#{prefix}"
+    system "make"
+
+    system "./configure", "--prefix=#{prefix}", "--enable-phytime"
+    system "make"
+
+    bin.install %w(src/phyml src/phytime)
+    doc.install Dir['doc/phyml-manual.pdf']
+    rm_rf Dir['examples/.svn']
+    chmod 0644, Dir['examples/*']
+    share.install Dir['examples/*']
+  end
+
+  def caveats; <<-EOS.undent
+    Examples have been installed here:
+      #{share}
+
+    See options for phyml by running:
+      phmyl --help
+
+    PhyML must be run with the "-i" option to specify an input or it will
+    segfault. Example:
+      phyml -i #{share}/nucleic
+    EOS
+  end
+end