py-gtdbtk and fastani: new packages (#31268)

2 files changed, 53 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/fastani/package.py b/var/spack/repos/builtin/packages/fastani/package.py
new file mode 100644
index 0000000000..f583eb5e38
--- /dev/null
+++ b/var/spack/repos/builtin/packages/fastani/package.py
@@ -0,0 +1,23 @@
+# 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 Fastani(AutotoolsPackage):
+    """Fast, alignment-free computation of whole-genome Average Nucleotide
+       Identity (ANI)"""
+
+    homepage = "https://github.com/ParBLiSS/FastANI"
+    url      = "https://github.com/ParBLiSS/FastANI/archive/v1.33.tar.gz"
+
+    version('1.33', sha256='0b18b3074094722fb1b2247c1a1c4eb96295fff369b837f422e05072740e0013')
+
+    depends_on('autoconf', type='build')
+    depends_on('gsl', type=('build', 'link'))
+    depends_on('zlib', type=('build', 'link'))
+    depends_on('automake', type='build')
+    depends_on('libtool',  type='build')
+    depends_on('m4',       type='build')
diff --git a/var/spack/repos/builtin/packages/py-gtdbtk/package.py b/var/spack/repos/builtin/packages/py-gtdbtk/package.py
new file mode 100644
index 0000000000..6be8da8465
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-gtdbtk/package.py
@@ -0,0 +1,30 @@
+# 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 PyGtdbtk(PythonPackage):
+    """GTDB-Tk is a software toolkit for assigning objective taxonomic
+       classifications to bacterial and archaeal genomes based on the Genome
+       Database Taxonomy (GTDB)."""
+
+    homepage = "https://github.com/Ecogenomics/GTDBTk"
+    pypi     = "gtdbtk/gtdbtk-2.1.0.tar.gz"
+
+    version('2.1.0', sha256='980885141f13502afdf05e720871427e3de4fe27f4f3f97e74af6fed87eb50a7')
+
+    depends_on('python@3.6:', type=('build', 'run'))
+    depends_on('py-setuptools', type=('build'))
+    depends_on('py-dendropy@4.1.0:', type=('build', 'run'))
+    depends_on('py-numpy@1.9.0:',        type=('build', 'run'))
+    depends_on('py-tqdm@4.35.0:',        type=('build', 'run'))
+    depends_on('prodigal@2.6.2:',        type=('build', 'run'))
+    depends_on('hmmer@3.1b2:',        type=('build', 'run'))
+    depends_on('pplacer@1.1:',        type=('build', 'run'))
+    depends_on('fastani@1.32:',        type=('build', 'run'))
+    depends_on('fasttree@2.1.9:',        type=('build', 'run'))
+    depends_on('mash@2.2:',        type=('build', 'run'))