New formula: HMMER

Closes Homebrew/homebrew#7872.
Closes Homebrew/homebrew#6540.

Signed-off-by: Jack Nagel <jacknagel@gmail.com>

Formula/hmmer.rb

@@ -0,0 +1,22 @@
+require 'formula'
+
+class Hmmer < Formula
+  url 'http://selab.janelia.org/software/hmmer3/3.0/hmmer-3.0.tar.gz'
+  homepage 'http://hmmer.janelia.org/'
+  md5 '4cf685f3bc524ba5b5cdaaa070a83588'
+
+  def install
+    system "./configure", "--prefix=#{prefix}"
+    system "make install"
+
+    # Install man pages manually as long as automatic man page install
+    # is deactivated in the HMMER makefile. If this changes in future
+    # versions of HMMER, these lines can be removed:
+
+    Dir.chdir "documentation/man"
+    # rename all *.man files to *.1 and install them into man1 section
+    Dir.glob("*.man") do |filename|
+      man1.install filename => filename.sub(/\.man/, ".1")
+    end
+  end
+end