feat: add wf-human-multi-area-model

packages/py-nnmt/package.py

+# Copyright 2013-2024 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 PyNnmt(PythonPackage):
+    """NNMT is an open-source, community centered Python package for collecting 
+    reusable implementations of analytical methods for neuronal network model analysis 
+    based on mean-field theory."""
+
+    homepage = "https://nnmt.readthedocs.io/en/latest/index.html"
+    pypi = "nnmt/nnmt-1.3.0.tar.gz"
+
+    maintainers = ["rshimoura", "terhorstd"]
+
+    version("1.3.0", sha256="0cb4f7c58e08520e383506b5b15fb0a9552801adc03fd1006b9e3dd17b1b636d")
+
+    depends_on("py-setuptools@23.1.0:", type="build")
+    depends_on("py-numpy@1.8:", type=("build", "run"))
+    depends_on("py-scipy@0.14:", type=("build", "run"))
+    depends_on("py-cython@0.20:", type=("build", "run"))
+    depends_on("py-h5py@2.5:", type=("build", "run"))
+    depends_on("py-matplotlib@2.0:", type=("build", "run"))
+    depends_on("py-pint", type=("build", "run"))
+    depends_on("py-pyyaml", type=("build", "run"))
+    depends_on("py-requests", type=("build", "run"))
+    depends_on("py-mpmath", type=("build", "run"))
+    depends_on("py-decorator", type=("build", "run"))
+    depends_on("py-pytest@5.4:", type=("build", "run"))
+    depends_on("py-pytest-mock@3.1:", type=("build", "run"))
+    depends_on("python@3:", type=("build", "run"))

packages/wf-human-multi-area-model/package.py

+# Copyright 2013-2024 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 WfHumanMultiAreaModel(Package):
+    """Meta-package to collect all dependencies of the Human Multi-Area-Model."""
+
+    git = "https://github.com/INM-6/human-multi-area-model"
+    maintainer = ["rshimoura", "terhorstd"]
+
+    version("2.0.1",  tag="v2.0.1")
+    version("master",  branch="master")
+
+    depends_on("nest@3.8:", type=("run", "test"))
+    depends_on("py-joblib@1.2.0:", type=("run", "test"))
+    depends_on("py-xlrd@2.0.1:", type=("run", "test"))
+    depends_on("py-matplotlib@3.7.3:", type=("run", "test"))
+    depends_on("py-pyyaml@6.0:", type=("run", "test"))
+    depends_on("py-numpy@1.23.5:", type=("run", "test"))
+    depends_on("py-seaborn@0.12.2:", type=("run", "test"))
+    depends_on("python@3.8:", type=("run", "test"))
+    depends_on("py-pandas@2.0.3:", type=("run", "test"))
+    depends_on("py-scipy@1.10.1:", type=("run", "test"))
+    depends_on("py-nnmt@1.3.0:", type=("run", "test"))
+    depends_on("py-dicthash@0.0.1:", type=("run", "test"))
+    depends_on("py-networkx@3.1:", type=("run", "test"))
+    depends_on("py-notebook@6.5.4:", type=("run", "test"))
+    depends_on("py-future@0.18.2:", type=("run", "test"))
+
+    def install(self, spec, prefix):
+        install_tree(".", join_path(prefix, "notebooks"))
+
+    def _nbconvert(self, nb, nb_out):
+        jupyter = Executable("jupyter")
+        args = [
+            "nbconvert",
+            "--ExecutePreprocessor.kernel_name=python3",
+            "--execute",
+            "--to",
+            "notebook",
+            nb,
+            "--output",
+            nb_out
+        ]
+        try:
+            # execute notebook and save
+            jupyter(*args)
+        except Exception as e:
+            # if the above fails, re-run notebook to produce output with error
+            jupyter(*(args+["--allow-errors"]))
+            raise
+
+    def _run_notebooks(self, output_dir):
+        mkdirp(output_dir)
+        self._nbconvert(join_path(self.prefix, "notebooks", "humam_tutorial.ipynb"), join_path(output_dir, "humam_tutorial.ipynb"))
+
+    @run_after("install")
+    @on_package_attributes(run_tests=True)
+    def installcheck(self):
+        self._run_notebooks(join_path(self.stage.path, ".install_time_tests"))
+        copy_tree(join_path(self.stage.path, ".install_time_tests"), join_path(self.prefix, '.build'))
+
+    def test_notebook(self):
+        self._run_notebooks(join_path(self.test_suite.stage, self.spec.format("out-{name}-{version}-{hash:7}")))

spack.yaml

@@ -66,6 +66,7 @@ spack:
     - wf-brainscales2-demos@9.0-a7
     - wf-protein-association-rates@0.1
     - wf-multi-area-model@1.2.0
+    - wf-human-multi-area-model@2.0.1
     - wf-uq-akar4@0.1
     - wf-custom-python@0.1
     #- py-cerebstats