packages/py-ipyfilechooser/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.package import *
+
+
+class PyIpyfilechooser(PythonPackage):
+    """Python file chooser widget for use in Jupyter/IPython in conjunction with ipywidgets """
+
+    homepage = "https://github.com/crahan/ipyfilechooser"
+    pypi = "ipyfilechooser/ipyfilechooser-0.6.0.tar.gz"
+
+    maintainers("DennisDoll", "mloshakov", "acascais")
+
+    #license("MIT", checked_by="DennisDoll")
+
+    version("0.6.0", sha256="41df9e4395a924f8e1b78e2804dbe5066dc3fdc233fb07fecfcdc2a0c9a7d8d3")
+
+    depends_on("python@3:", type=("build", "run"))
+    depends_on("py-ipywidgets", type=("build", "run"))
+
+    depends_on("py-setuptools", type="build")

packages/py-neuralactivitycubic/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.package import *
+
+class PyNeuralactivitycubic(PythonPackage):
+    """Computation of local and signal-close-to-noise calcium activity."""
+
+    homepage = "https://github.com/Indoc-Research/NeuralActivityCubic"
+    pypi = "neuralactivitycubic/neuralactivitycubic-0.0.3.tar.gz"
+
+    maintainers("DennisDoll", "mloshakov", "acascais")
+
+    version("0.0.3", sha256="516e99e44a70d83f526a128e653a63c6b7ae4ffbe362fe7854121999a7c8fecb")
+
+    depends_on("python@3.10:", type=("build", "run"))
+    depends_on("py-ipywidgets@8.0.4:8", type=("build", "run"))
+    depends_on("py-ipyfilechooser@0.6.0", type=("build", "run"))
+    depends_on("py-imageio@2.31:2", type=("build", "run"))
+    depends_on("py-imageio-ffmpeg@0.4:0.5", type=("build", "run"))
+    depends_on("py-matplotlib@3.8:3.9", type=("build", "run"))
+    depends_on("py-scipy@1.11.4:", type=("build", "run"))
+    depends_on("py-numpy@1.26.0:", type=("build", "run"))
+    depends_on("py-pandas@2.2.1:2.3", type=("build", "run"))
+    depends_on("py-pybaselines@1.1.0:", type=("build", "run"))
+    depends_on("py-roifile@2024.1.10:", type=("build", "run"))
+    depends_on("py-shapely@2.0.1:", type=("build", "run"))
+    depends_on("py-scikit-image@0.22.0:", type=("build", "run"))
+
+    depends_on("py-jupyterlab@4.3.3:", type=("run"))
+
+    depends_on("py-setuptools", type="build")
+
+
+    @run_after('install')
+    @on_package_attributes(run_tests=True)
+    def install_test(self):
+        with working_dir('spack-test', create=True):
+            python('-c','import neuralactivitycubic')

packages/py-pybaselines/package.py

+# Copyright 2013-2023 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 PyPybaselines(PythonPackage):
+    """pybaselines is a library of algorithms for the baseline correction of experimental data."""
+
+    homepage = "https://github.com/derb12/pybaselines"
+    pypi = "pybaselines/pybaselines-1.1.0.tar.gz"
+
+    maintainers("mloshakov", "dennisdoll")
+
+    version("1.1.0", sha256="1f61ca378459af3983d6ca5813610ca587ac33d5b89e3c03bfb5f692bde61526")
+
+    depends_on("python@3.8:", type=("build", "run"))
+
+    depends_on("py-setuptools", type="build")
+
+    depends_on("py-numpy@1.20:", type=("build", "run"))
+    depends_on("py-scipy@1.5:", type=("build", "run"))

packages/py-roifile/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.package import *
+
+
+# Backported from spack v0.23.0
+class PyRoifile(PythonPackage):
+    """Roifile is a Python library to read, write, create, and plot ImageJ ROIs"""
+
+    homepage = "https://www.cgohlke.com/"
+    pypi = "roifile/roifile-2024.1.10.tar.gz"
+
+    # license("BSD-3-Clause", checked_by="A-N-Other")
+
+    version("2024.1.10", sha256="8bbc05a96c0a291429214cb6829426378e89931d1a7d3ad945aa2fea5765e434")
+
+    variant("all", default=True, description="Enable TIFF support")
+
+    depends_on("python@3.8:", type=("build", "run"))
+    depends_on("py-setuptools", type="build")
+
+    depends_on("py-numpy", type=("build", "run"))
+
+    depends_on("py-matplotlib", type=("build", "run"), when="+all")
+    depends_on("py-tifffile", type=("build", "run"), when="+all")
\ No newline at end of file

spack.yaml

@@ -38,6 +38,7 @@ spack:
     - py-neo@0.13.3
     - py-nestml@8.0.0rc3
     - py-netpyne@1.0.6
+    - py-neuralactivitycubic@0.0.3
     - py-neurom@3.2.2
     - py-neuror@1.6.4
     - py-pynn@0.12.3 +mpi