py-emodel-generalisation: add package (#2148)

Author: arnaudon

bluebrain/repo-bluebrain/packages/py-bluecellulab/package.py

@@ -10,11 +10,12 @@ class PyBluecellulab(PythonPackage):
     """Pythonic Blue Brain simulator access, former BGLibPy"""
 
     homepage = "https://github.com/BlueBrain/BlueCelluLab"
-    pypi = "bluecellulab/bluecellulab-1.5.2.tar.gz"
+    pypi = "bluecellulab/bluecellulab-1.7.6.tar.gz"
 
-    version("1.5.2", sha256="22e45b921ad9cd282d53b57ac90fcec69731cb718ed8098c8eb52039bf7a49e5")
+    version("1.7.6", sha256="a60ec17c44e759b6726c399d764e4220f6641bf3d845fc3fbfe56d07dba9e6d5")
 
     depends_on("py-setuptools", type=("build", "run"))
+    depends_on("py-setuptools-scm", type="build")
 
     depends_on("neuron+python@8", type=("build", "run"))
     depends_on("py-numpy@1.8:", type=("build", "run"))

bluebrain/repo-bluebrain/packages/py-emodel-generalisation/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.package import *
+
+
+class PyEmodelGeneralisation(PythonPackage):
+    """Python library to generalise electrical models."""
+
+    homepage = "https://github.com/BlueBrain/emodel-generalisation"
+    git = "https://github.com/BlueBrain/emodel-generalisation.git"
+    pypi = "emodel-generalisation/emodel-generalisation-0.2.4.tar.gz"
+
+    version("0.2.4", sha256="faa3e622892e7df4dad1dc26275c8deef0ccd0354874d64c486781820c3ff533")
+
+    depends_on("py-setuptools", type="build")
+    depends_on("py-setuptools-scm", type="build")
+
+    depends_on("py-numpy@1.23.5:", type=("build", "run"))
+    depends_on("py-scipy@1.10:", type=("build", "run"))
+    depends_on("py-pandas@1.5.3:", type=("build", "run"))
+    depends_on("py-tqdm", type=("build", "run"))
+    depends_on("py-datareuse@0.0.3:", type=("build", "run"))
+    depends_on("py-pyyaml", type=("build", "run"))
+    depends_on("py-bluepyopt@1.13.86:", type=("build", "run"))
+    depends_on("py-neurom@3.2.2:", type=("build", "run"))
+    depends_on("py-efel@3.1:", type=("build", "run"))
+    depends_on("py-morph-tool@2.9:", type=("build", "run"))
+    depends_on("neuron+python@8.0:", type=("build", "run"))
+    depends_on("py-matplotlib@3.6.2:", type=("build", "run"))
+    depends_on("py-bluecellulab@1.7.6:", type=("build", "run"))
+    depends_on("py-seaborn@0.12.2:", type=("build", "run"))
+    depends_on("py-ipyparallel@6.3.0:", type=("build", "run"))
+    depends_on("py-dask+dataframe+distributed@2023.3.2:", type=("build", "run"))
+    depends_on("py-xgboost@1.1.0:", type=("build", "run"))
+    depends_on("py-diameter-synthesis@0.5.4:", type=("build", "run"))
+    depends_on("py-voxcell@3.1.6:", type=("build", "run"))
+    depends_on("py-sqlalchemy@1.4:", type=("build", "run"))
+    depends_on("py-sqlalchemy-utils@0.37.2:", type=("build", "run"))
+    depends_on("py-shap@0.41.0:", type=("build", "run"))
+    depends_on("py-scikit-learn@1.1.3:", type=("build", "run"))
+    depends_on("py-luigi-tools@0.3.4:", type=("build", "run"))
+
+    # MPI dependencies
+    depends_on("py-dask-mpi@2022.4:", type=("build", "run"))
+    depends_on("py-mpi4py@3.1.1:", type=("build", "run"))
+    depends_on("hpe-mpi@2.25.hmpt:", type=("build", "run"))

var/spack/repos/builtin/packages/py-datareuse/package.py

@@ -0,0 +1,20 @@
+# 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 PyDatareuse(PythonPackage):
+    """Util package to reuse computed datasets"""
+
+    git = "https://github.com/arnaudon/datareuse"
+    pypi = "datareuse/datareuse-0.0.3.tar.gz"
+
+    version("0.0.3", sha256="63b03ae4acda22e93911adde0325818842bf65e42291ecfc88706e735a190749")
+
+    depends_on("py-setuptools", type="build")
+    depends_on("py-setuptools-scm", type="build")
+    depends_on("py-pandas@1.5.3:", type=("build", "run"))
+    depends_on("py-pyyaml", type=("build", "run"))

var/spack/repos/builtin/packages/py-numba/package.py

@@ -30,6 +30,7 @@ class PyNumba(PythonPackage):
     depends_on("python@3.6:3.8", type=("build", "run"), when="@0.48:0.51")
     depends_on("python@3.3:3.7", type=("build", "run"), when="@0.40.1:0.47")
     depends_on("python@3.3:3.6", type=("build", "run"), when="@:0.35.0")
+    depends_on("py-numpy@1.18:1.23", type=("build", "run"), when="@0.56:")
     depends_on("py-numpy@1.18:1.22", type=("build", "run"), when="@0.55.2:")
     depends_on("py-numpy@1.18:1.21", type=("build", "run"), when="@0.55.0:0.55.1")
     depends_on("py-numpy@1.17:1.20", type=("build", "run"), when="@0.54")

var/spack/repos/builtin/packages/py-shap/package.py

@@ -16,13 +16,14 @@ class PyShap(PythonPackage):
     version("0.41.0", sha256="a49ea4d65aadbc845a695fa3d7ea0bdfc8c928b8e213b0feedf5868ade4b3ca5")
 
     depends_on("py-setuptools", type="build")
+    depends_on("py-setuptools-scm", type="build")
 
-    depends_on("py-numpy", type=("build", "run"))
+    depends_on("py-numpy@1.23:", type=("build", "run"))
     depends_on("py-scipy", type=("build", "run"))
     depends_on("py-scikit-learn", type=("build", "run"))
     depends_on("py-pandas", type=("build", "run"))
     depends_on("py-tqdm@4.25.1:", type=("build", "run"))
     depends_on("py-packaging@20.10:", type=("build", "run"))
     depends_on("py-slicer@0.0.7", type=("build", "run"))
-    depends_on("py-numba", type=("build", "run"))
+    depends_on("py-numba@0.56:", type=("build", "run"))
     depends_on("py-cloudpickle", type=("build", "run"))