From 9b0000d04fbd1b9439789abcc6a541c57ce373ed Mon Sep 17 00:00:00 2001
From: Justin S <3630356+codeandkey@users.noreply.github.com>
Date: Fri, 3 May 2019 13:50:54 -0500
Subject: [PATCH] New package: PASTA (#11338)

---
 .../repos/builtin/packages/pasta/package.py   | 41 +++++++++++++++++++
 1 file changed, 41 insertions(+)
 create mode 100644 var/spack/repos/builtin/packages/pasta/package.py

diff --git a/var/spack/repos/builtin/packages/pasta/package.py b/var/spack/repos/builtin/packages/pasta/package.py
new file mode 100644
index 0000000000..885e0673c9
--- /dev/null
+++ b/var/spack/repos/builtin/packages/pasta/package.py
@@ -0,0 +1,41 @@
+# Copyright 2013-2019 Lawrence Livermore National Security, LLC and other
+# Spack Project Developers. See the top-level COPYRIGHT file for details.
+#
+# SPDX-License-Identifier: (Apache-2.0 OR MIT)
+
+from spack import *
+
+
+class Pasta(Package):
+    """PASTA (Practical Alignment using SATe and Transitivity)"""
+
+    homepage = "https://github.com/smirarab/pasta"
+    git      = "https://github.com/smirarab/pasta"
+
+    version('1.8.3', commit='738bec5e0d5a18d013c193d7453374bed47456c9')
+
+    depends_on('python@2.7:')
+    depends_on('py-dendropy')
+    depends_on('java')
+
+    resource(
+        name='tools',
+        git='https://github.com/smirarab/sate-tools-linux',
+        commit='90fb074d61af554e94d1a67583dd3a80b11417ea',
+        destination='.'
+    )
+
+    def setup_environment(self, spack_env, run_env):
+        tools = join_path(self.prefix, 'sate-tools-linux')
+        spack_env.set('PASTA_TOOLS_DEVDIR', tools)
+
+    def install(self, spec, prefix):
+        # build process for pasta is very hacky -- uses hard links to source
+        # install the tree first so links don't break
+        install_tree('.', prefix)
+
+        # run the 'build' from within the prefix
+        python = which('python2.7')
+
+        with working_dir(prefix):
+            python('setup.py', 'develop')