From 04437c4d3752aea17f6906f9bdb5aca809144c0a Mon Sep 17 00:00:00 2001
From: Shailesh Appukuttan <appukuttan.shailesh@gmail.com>
Date: Wed, 23 Feb 2022 14:47:13 +0100
Subject: [PATCH] update recipe and ADD neurom, morphio
---
packages/py-morphio/package.py | 21 ++++++++++++++
.../{morphounit => py-morphounit}/package.py | 16 +++++------
packages/py-neurom/package.py | 28 +++++++++++++++++++
spack.yaml | 5 ++++
4 files changed, 62 insertions(+), 8 deletions(-)
create mode 100644 packages/py-morphio/package.py
rename packages/{morphounit => py-morphounit}/package.py (56%)
create mode 100644 packages/py-neurom/package.py
diff --git a/packages/py-morphio/package.py b/packages/py-morphio/package.py
new file mode 100644
index 00000000..69604f49
--- /dev/null
+++ b/packages/py-morphio/package.py
@@ -0,0 +1,21 @@
+# Copyright 2013-2021 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 PyMorphIO(PythonPackage):
+ """MorphIO is a library for reading and writing neuron morphology files
+ """
+
+ homepage = "https://github.com/BlueBrain/MorphIO/"
+ pypi = "MorphIO/MorphIO-3.1.1.tar.gz"
+ git = "https://github.com/BlueBrain/MorphIO.git"
+
+ version('3.1.1', sha256='ad9f0e363f09f03c6eda54f5f3b006d204236677d2f2c9675421e0441033a503')
+
+ depends_on('python@3.6.9:')
+ depends_on('py-numpy@1.14.1:', type=('build', 'run'))
+ depends_on('py-h5py@3.0:4.0', type=('build', 'run'))
\ No newline at end of file
diff --git a/packages/morphounit/package.py b/packages/py-morphounit/package.py
similarity index 56%
rename from packages/morphounit/package.py
rename to packages/py-morphounit/package.py
index 4982fb24..fbbedf69 100644
--- a/packages/morphounit/package.py
+++ b/packages/py-morphounit/package.py
@@ -6,7 +6,7 @@
from spack import *
-class MorphoUnit(PythonPackage):
+class PyMorphoUnit(PythonPackage):
"""A SciUnit library for data-driven testing of neuronal morphologies
"""
@@ -16,10 +16,10 @@ class MorphoUnit(PythonPackage):
version('1.0.4', sha256='6dacadc91c66c15af91da8c1d45977e4aeaaa297a7bbc2e679f7d6a5e54e6f32')
- depends_on('python@3.3:')
- depends_on('neo@0.8.0:', type=('build', 'run'))
- depends_on('elephant@0.6.4:', type=('build', 'run'))
- depends_on('sciunit@0.2.1:', type=('build', 'run'))
- depends_on('neurom@1.4.10', type=('build', 'run'))
- depends_on('tabulate@0.8.6:', type=('build', 'run'))
- depends_on('seaborn@0.10.0:', type=('build', 'run'))
\ No newline at end of file
+ depends_on('python@3.6.9:')
+ depends_on('py-neo@0.8.0:', type=('build', 'run'))
+ depends_on('py-elephant@0.4.1:', type=('build', 'run'))
+ depends_on('py-sciunit@0.2.5.1:', type=('build', 'run'))
+ depends_on('py-neurom@1.4.10', type=('build', 'run'))
+ depends_on('py-tabulate@0.8.6:', type=('build', 'run'))
+ depends_on('py-seaborn@0.10.0:', type=('build', 'run'))
\ No newline at end of file
diff --git a/packages/py-neurom/package.py b/packages/py-neurom/package.py
new file mode 100644
index 00000000..9b2948ac
--- /dev/null
+++ b/packages/py-neurom/package.py
@@ -0,0 +1,28 @@
+# Copyright 2013-2021 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 PyNeuroM(PythonPackage):
+ """NeuroM: a light-weight neuron morphology analysis package
+ """
+
+ homepage = "https://github.com/BlueBrain/NeuroM"
+ pypi = "neurom/neurom-3.1.0.tar.gz"
+ git = "https://github.com/BlueBrain/NeuroM.git"
+
+ version('3.1.0', sha256='1a711c3bd92a55b845f6e26ec6197e9208bf3d91762088eda9cb00ceea992f3a')
+ version('1.4.10', sha256='c94823133bb15b5756c22391e05948871ff77c0212e91ad375903ca437e18aeb')
+
+ depends_on('python@3.6.9:')
+ depends_on('py-click@7.0:', type=('build', 'run'))
+ depends_on('py-matplotlib@3.2.1:', type=('build', 'run'))
+ depends_on('py-morphio@3.1.1:', type=('build', 'run'))
+ depends_on('py-numpy@1.9.1:', type=('build', 'run'))
+ depends_on('py-pandas@1.0.5', type=('build', 'run'))
+ depends_on('py-pyyaml@3.11:', type=('build', 'run'))
+ depends_on('py-scipy@1.2.1:', type=('build', 'run'))
+ depends_on('py-tqdm@4.8.4:', type=('build', 'run'))
\ No newline at end of file
diff --git a/spack.yaml b/spack.yaml
index 0d262fa1..0211a7c8 100644
--- a/spack.yaml
+++ b/spack.yaml
@@ -37,4 +37,9 @@ spack:
- funniest1022 %gcc@10.3.0
# NRP
- py-torch~mkldnn~cuda~cudnn~onnx_ml~rocm~tensorpipe~mpi~distributed ^protobuf@:3.17.999 %gcc@10.3.0
+ # EBRAINS tools and services
+ - py-morphounit@1.0.4 %gcc@10.3.0
+ # Other tools and services
+ - py-neurom@1.4.10 %gcc@10.3.0
+ - py-morphio@3.1.1 %gcc@10.3.0
concretization: together
--
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