Add NetPyNE and some of its dependencies

packages/py-matplotlib-scalebar/package.py

+# 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 PyMatplotlibScalebar(PythonPackage):
+    """Matplotlib-Scalebar provides a new artist for matplotlib to display a scale bar, aka micron bar."""
+
+    homepage = "https://kolibril13.github.io/plywood-gallery-matplotlib-scalebar/"
+    pypi = "matplotlib-scalebar/matplotlib-scalebar-0.8.1.tar.gz"
+    git = "https://github.com/ppinard/matplotlib-scalebar.git"
+
+    # list of GitHub accounts to notify when the package is updated.
+    maintainers = ["ppinard"]
+
+    version("0.8.1", sha256="14887af1093579c5e6afae51a0a1ecc3f715cdbc5c4d7ef59cdeec76ee6bb15d")
+
+    depends_on("py-matplotlib", type=("build", "run"))

packages/py-netpyne/package.py

+# 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 PyNetpyne(PythonPackage):
+    """NetPyNE (Networks using Python and NEURON) is a Python package to facilitate the development, simulation, parallelization, analysis, and optimization of biological neuronal networks using the NEURON simulator."""
+
+    homepage = "netpyne.org"
+    url = "https://files.pythonhosted.org/packages/94/4e/505738f7922f3e306920eb097e22dbe0ce04d66fbf55afed898ecdb13a3b/netpyne-1.0.4.1-py2.py3-none-any.whl"
+    git = "https://github.com/suny-downstate-medical-center/netpyne.git"
+
+    # list of GitHub accounts to notify when the package is updated.
+    maintainers = ["salvadord", "vvbragin"]
+
+    version("1.0.4.1", sha256="e0ab937eeb9de7bf42c080991190949b437ee407fe796d79682ada8cabb62cca")
+
+    depends_on("neuron", type=("build", "run"))
+    depends_on("py-numpy", type=("build", "run"))
+    depends_on("py-scipy", type=("build", "run"))
+    depends_on("py-matplotlib@:3.5.1", type=("build", "run"))
+    depends_on("py-matplotlib-scalebar", type=("build", "run"))
+    depends_on("py-future", type=("build", "run"))
+    depends_on("py-pandas", type=("build", "run"))
+    depends_on("py-bokeh", type=("build", "run"))
+    depends_on("py-schema", type=("build", "run"))
+    depends_on("py-lfpykit", type=("build", "run"))
+    depends_on('py-pytest', type='test')
+
+    @run_after('install')
+    @on_package_attributes(run_tests=True)
+    def install_test(self):
+        pytest = which('pytest')
+        pytest('tests/doc/test_tutorials.py')

packages/py-schema/package.py

+# 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 PySchema(PythonPackage):
+    """schema is a library for validating Python data structures, such as those obtained from config-files, forms, external services or command-line parsing, converted from JSON/YAML (or something else) to Python data-types."""
+
+    homepage = "https://github.com/keleshev/schema.git"
+    pypi = "schema/schema-0.7.5.tar.gz"
+    git = "https://github.com/keleshev/schema.git"
+
+    # list of GitHub accounts to notify when the package is updated.
+    maintainers = ["keleshev", "skorokithakis"]
+
+    version("0.7.5", sha256="f06717112c61895cabc4707752b88716e8420a8819d71404501e114f91043197")
+
+    depends_on("py-contextlib2@0.5.5:", type=("build", "run"))

spack.yaml

@@ -40,9 +40,11 @@ spack:
     - py-hippounit@1.3.6
     - py-lazyarray@0.5.2
     - py-lfpy@2.3
+    - py-lfpykit@0.5
     - py-nameparser@1.1.1
     - py-neo@0.12.0
     - py-nestml@5.2.0
+    - py-netpyne@1.0.4.1
     - py-neuror@1.4.2
     - py-neurom@3.2.2
     - py-nixio@1.5.3
@@ -67,6 +69,9 @@ spack:
     - r-uqsa@2.2
     - sda@7.3.3d
     - simpletraj@0.3
+    # Utils
+    - py-schema@0.7.5
+    - py-matplotlib-scalebar@0.8.1
     # Workflows (meta-packages)
     - wf-uq-akar4@0.1
     - wf-multi-area-model@0.1