From 637620a408ec957aa7c32a0716fbebd037441efe Mon Sep 17 00:00:00 2001
From: a-saitoh-fj <63334055+a-saitoh-fj@users.noreply.github.com>
Date: Fri, 25 Dec 2020 15:01:21 +0900
Subject: [PATCH] New package: py-pydmd (#19809)

* New package: py-pydmd

* modified:package.py

* modified: package.py
---
 .../builtin/packages/py-pydmd/isuue-133.patch | 31 ++++++++++++
 .../builtin/packages/py-pydmd/package.py      | 49 +++++++++++++++++++
 2 files changed, 80 insertions(+)
 create mode 100644 var/spack/repos/builtin/packages/py-pydmd/isuue-133.patch
 create mode 100644 var/spack/repos/builtin/packages/py-pydmd/package.py

diff --git a/var/spack/repos/builtin/packages/py-pydmd/isuue-133.patch b/var/spack/repos/builtin/packages/py-pydmd/isuue-133.patch
new file mode 100644
index 0000000000..a7a55260ef
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-pydmd/isuue-133.patch
@@ -0,0 +1,31 @@
+diff --git a/pydmd/dmdbase.py b/pydmd/dmdbase.py
+index 17f3662..778a6b8 100644
+--- a/pydmd/dmdbase.py
++++ b/pydmd/dmdbase.py
+@@ -201,7 +201,7 @@ class DMDBase(object):
+         else:
+             input_shapes = [np.asarray(x).shape for x in X]
+ 
+-            if len(set(input_shapes)) is not 1:
++            if len(set(input_shapes)) != 1:
+                 raise ValueError('Snapshots have not the same dimension.')
+ 
+             snapshots_shape = input_shapes[0]
+@@ -235,7 +235,7 @@ class DMDBase(object):
+         https://arxiv.org/pdf/1502.03854.pdf
+         """
+         # Do not perform tlsq
+-        if tlsq_rank is 0:
++        if tlsq_rank == 0:
+             return X, Y
+ 
+         V = np.linalg.svd(np.append(X, Y, axis=0), full_matrices=False)[-1]
+@@ -269,7 +269,7 @@ class DMDBase(object):
+         U, s, V = np.linalg.svd(X, full_matrices=False)
+         V = V.conj().T
+ 
+-        if svd_rank is 0:
++        if svd_rank == 0:
+             omega = lambda x: 0.56 * x ** 3 - 0.95 * x ** 2 + 1.82 * x + 1.43
+             beta = np.divide(*sorted(X.shape))
+             tau = np.median(s) * omega(beta)
diff --git a/var/spack/repos/builtin/packages/py-pydmd/package.py b/var/spack/repos/builtin/packages/py-pydmd/package.py
new file mode 100644
index 0000000000..a2bd7ec646
--- /dev/null
+++ b/var/spack/repos/builtin/packages/py-pydmd/package.py
@@ -0,0 +1,49 @@
+# Copyright 2013-2020 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 PyPydmd(PythonPackage):
+    """PyDMD is a Python package that uses Dynamic Mode Decomposition
+    for a data-driven model simplification based on spatiotemporal
+    coherent structures."""
+
+    homepage = "https://mathlab.github.io/PyDMD/"
+    url      = "https://github.com/mathLab/PyDMD/archive/v0.3.tar.gz"
+
+    version('0.3', sha256='f490fc139677e4d9fc1240636a2c5992d22879517c9574d13164dc5179b0f785')
+
+    variant('docs', default=False, description='Build HTML documentation')
+
+    depends_on('python@3:', type=('build', 'run'))
+    depends_on('py-setuptools', type='build')
+    depends_on('py-numpy', type=('build', 'run'))
+    depends_on('py-scipy', type=('build', 'run'))
+    depends_on('py-matplotlib', type=('build', 'run'))
+    depends_on('py-future', type=('build', 'run'))
+    depends_on('py-nose', type='test')
+    depends_on('texlive', type='build', when='+docs')
+    depends_on('py-sphinx@1.4.0:1.4.99', type='build', when='+docs')
+    depends_on('py-sphinx-rtd-theme', type='build', when='+docs')
+
+    # https://github.com/mathLab/PyDMD/pull/133
+    patch('isuue-133.patch', when='@0.3')
+
+    @run_after('build')
+    def build_docs(self):
+        if '+docs' in self.spec:
+            with working_dir('docs'):
+                make('html')
+
+    @run_after('install')
+    def install_docs(self):
+        if '+docs' in self.spec:
+            install_tree('docs', self.prefix.docs)
+
+    @run_after('build')
+    @on_package_attributes(run_tests=True)
+    def build_test(self):
+        python('test.py')