seq-gen: add new package (#31916)

1 files changed, 33 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/seq-gen/package.py b/var/spack/repos/builtin/packages/seq-gen/package.py
new file mode 100644
index 0000000000..19a31b5c11
--- /dev/null
+++ b/var/spack/repos/builtin/packages/seq-gen/package.py
@@ -0,0 +1,33 @@
+# Copyright 2013-2022 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.package import *
+
+
+class SeqGen(MakefilePackage):
+    """Seq-Gen is a program that will simulate the evolution of nucleotide or
+    amino acid sequences along a phylogeny.
+
+    Seq-Gen is a program that will simulate the evolution of nucleotide or
+    amino acid sequences along a phylogeny, using common models of the
+    substitution process. A range of models of molecular evolution are implemented
+    including the general reversible model. State frequencies and other parameters
+    of the model may be given and site-specific rate heterogeneity may also be
+    incorporated in a number of ways. Any number of trees may be read in and the
+    program will produce any number of data sets for each tree. Thus large sets of
+    replicate simulations can be easily created. It has been designed to be a
+    general purpose simulator that incorporates most of the commonly used (and
+    computationally tractable) models of molecular sequence evolution."""
+
+    homepage = "http://tree.bio.ed.ac.uk/software/Seq-Gen/"
+    url = "https://github.com/rambaut/Seq-Gen/archive/refs/tags/1.3.4.tar.gz"
+
+    version("1.3.4", sha256="092ec2255ce656a02b2c3012c32443c7d8e38c692f165fb155b304ca030cbb59")
+
+    build_directory = "source"
+
+    def install(self, spec, prefix):
+        mkdir(prefix.bin)
+        install("source/seq-gen", prefix.bin)