From bcd0a74eb37177cac6d0e5e7e0f7f772302124c1 Mon Sep 17 00:00:00 2001
From: Adrian Ciu <adrian.ciu@codemart.ro>
Date: Tue, 15 Oct 2024 10:35:14 +0200
Subject: [PATCH] feat: add py-tvb-ext-{unicore,bucket,xircuits}
---
packages/py-pytest-tornasync/package.py | 20 ++++++++++
packages/py-tvb-contrib/package.py | 3 +-
packages/py-tvb-ext-bucket/package.py | 35 ++++++++++++++++++
packages/py-tvb-ext-unicore/package.py | 37 +++++++++++++++++++
packages/py-tvb-ext-xircuits/package.py | 49 +++++++++++++++++++++++++
spack.yaml | 8 ++--
6 files changed, 147 insertions(+), 5 deletions(-)
create mode 100644 packages/py-pytest-tornasync/package.py
create mode 100644 packages/py-tvb-ext-bucket/package.py
create mode 100644 packages/py-tvb-ext-unicore/package.py
create mode 100644 packages/py-tvb-ext-xircuits/package.py
diff --git a/packages/py-pytest-tornasync/package.py b/packages/py-pytest-tornasync/package.py
new file mode 100644
index 00000000..784f7db7
--- /dev/null
+++ b/packages/py-pytest-tornasync/package.py
@@ -0,0 +1,20 @@
+from spack.package import *
+
+
+class PyPytestTornasync(PythonPackage):
+ """
+ py.test plugin for testing Python 3.5+ Tornado code
+ """
+
+ homepage = "https://github.com/eukaryote/pytest-tornasync"
+ pypi = "pytest-tornasync/pytest-tornasync-0.6.0.post2.tar.gz"
+ maintainers = ['ldomide', 'adrianciu']
+
+ license('http://www.opensource.org/licenses/mit-license.php')
+
+ version("0.6.0.post2", sha256="d781b6d951a2e7c08843141d3ff583610b4ea86bfa847714c76edefb576bbe5d")
+
+ depends_on('python@3.5:', type=('build', 'run'))
+ depends_on('py-pytest', type=('build', 'run'))
+ depends_on('py-tornado@5.0:', type=('build', 'run'))
+
diff --git a/packages/py-tvb-contrib/package.py b/packages/py-tvb-contrib/package.py
index 9aabdbaa..8f940f0c 100644
--- a/packages/py-tvb-contrib/package.py
+++ b/packages/py-tvb-contrib/package.py
@@ -12,10 +12,11 @@ class PyTvbContrib(PythonPackage):
"""
homepage = "https://www.thevirtualbrain.org/"
- pypi = 'tvb-contrib/tvb-contrib-2.9.tar.gz'
+ pypi = 'tvb-contrib/tvb_contrib-2.9.1.tar.gz'
maintainers = ['dionperd', 'paulapopa', "ldomide"]
+ version('2.9.1', '23c8cc11737f8b87d8e8db573f9f3701611ccc1b6ca67fac00cd09e6307cae6c')
version('2.9', '64e5f17c46b67c1f92b3cdfb863c7d5e1d97d913b26521a9567735270bb9ad25')
version('2.8.2', 'ff5990e979cf1f87046d7bed2c265f9dec50f9d817abaabdf5df7ec4482b5063')
version('2.8.1', '0b9bc5f837913f1cba007d25ae94c9df51bf43bf19c9fb2af14a90cb6a1e1a66')
diff --git a/packages/py-tvb-ext-bucket/package.py b/packages/py-tvb-ext-bucket/package.py
new file mode 100644
index 00000000..3d5e7c2b
--- /dev/null
+++ b/packages/py-tvb-ext-bucket/package.py
@@ -0,0 +1,35 @@
+from spack import *
+
+
+class PyTvbExtBucket(PythonPackage):
+ """
+ Jupyter Lab extension tvb-ext-bucket for accessing EBRAINS data proxy through a GUI
+ """
+
+ homepage = "https://www.thevirtualbrain.org/"
+ pypi = "tvb-ext-bucket/tvb_ext_bucket-1.0.0.tar.gz"
+ maintainers = ['ldomide', 'adrianciu']
+
+ version("1.0.0", sha256="43c7e75129d65b14ef347d9ce2de4d152b308d5464e015e3577f480a7d75bbee")
+
+ depends_on('py-setuptools', type='build')
+ depends_on('python@3.8:', type=('build', 'run'))
+ depends_on('py-jupyter-server', type=('build', 'run'))
+ depends_on('py-ebrains-drive@0.5.0:', type=('build', 'run'))
+ depends_on('py-hatchling@1.5.0:', type='build')
+ depends_on('py-jupyterlab@3.4.7:3', type=('build', 'run'))
+ depends_on('py-hatch-nodejs-version@0.3.1:', type='build')
+ depends_on('npm', type='build')
+ depends_on('node-js', type='build')
+ depends_on('py-hatch-jupyter-builder', type='build')
+
+ depends_on('py-pytest', type='test')
+ depends_on('py-pytest-asyncio', type='test')
+ depends_on('py-pytest-mock', type='test')
+ depends_on('py-pytest-tornasync', type='test')
+
+ @run_after('install')
+ @on_package_attributes(run_tests=True)
+ def install_test(self):
+ pytest = which('pytest')
+ pytest()
diff --git a/packages/py-tvb-ext-unicore/package.py b/packages/py-tvb-ext-unicore/package.py
new file mode 100644
index 00000000..786e2f6e
--- /dev/null
+++ b/packages/py-tvb-ext-unicore/package.py
@@ -0,0 +1,37 @@
+from spack.package import *
+import os
+
+
+class PyTvbExtUnicore(PythonPackage):
+ """"
+ This jupyter extension offers a UI component to monitor HPC jobs through Unicore interface.
+ It allows users to easily switch between computing sites, retrieve details about the jobs, and also cancel them.
+ """
+
+ homepage = "https://www.thevirtualbrain.org/"
+ pypi = "tvb-ext-unicore/tvb-ext-unicore-2.0.0.tar.gz"
+ maintainers = ['ldomide', 'adrianciu']
+
+ version("2.0.0", sha256="85c4176c4a833149245e41e2448e94e5507f44bb7c3ffe1e5cf52f9c9b76e7ad")
+
+ depends_on('py-setuptools', type='build')
+ depends_on('python@3.8:', type=('build', 'run'))
+ depends_on('py-hatchling@1.5:', type='build')
+ depends_on('py-hatch-nodejs-version@0.3.1:', type=('build', 'run'))
+ depends_on('py-hatch-jupyter-builder@0.5:', type='build')
+ depends_on('py-jupyterlab@3.4.7:3', type=('build', 'run'))
+ depends_on('py-jupyter-server', type=('build', 'run'))
+ depends_on('py-pyunicore@1.0:', type=('build', 'run'))
+ depends_on('py-jupyter-packaging@0.10:', type='build')
+ depends_on('npm', type='build')
+ depends_on('node-js', type='build')
+
+ depends_on('py-pytest', type='test')
+ depends_on('py-pytest-mock', type='test')
+
+ @run_after('install')
+ @on_package_attributes(run_tests=True)
+ def install_test(self):
+ os.environ['CLB_AUTH'] = 'test_auth_token'
+ pytest = which('pytest')
+ pytest()
diff --git a/packages/py-tvb-ext-xircuits/package.py b/packages/py-tvb-ext-xircuits/package.py
new file mode 100644
index 00000000..23bd0db6
--- /dev/null
+++ b/packages/py-tvb-ext-xircuits/package.py
@@ -0,0 +1,49 @@
+from spack.package import *
+
+
+class PyTvbExtXircuits(PythonPackage):
+ """"
+ This is a jupyterlab extension built as a prototype for building EBRAINS (including TVB simulator, Siibra API) workflows
+ in a visual and interactive manner. It extends the already existent Xircuits jupyterlab extension by adding new components and new features on top.
+ """
+
+ homepage = "https://www.thevirtualbrain.org/"
+ pypi = "tvb-ext-xircuits/tvb-ext-xircuits-1.1.0.tar.gz"
+ maintainers = ['ldomide', 'adrianciu']
+
+ version("1.1.0", sha256="37c71be6ac8e4abb91501b2eb788167f6142eefd2f36ef061d760d2e61828afd")
+
+ depends_on('py-docutils', type=("build", "run"))
+ depends_on('py-ipykernel', type=("build", "run"))
+ depends_on('py-packaging', type=("build", "run"))
+ depends_on('py-tornado@6.1.0:', type=("build", "run"))
+ depends_on('py-jupyter-core', type=("build", "run"))
+ depends_on('py-jupyter-packaging', type=("build", "run"))
+ depends_on('py-jupyterlab-server@2.11.1:3', type=("build", "run"))
+ depends_on('py-jupyter-server', type=("build", "run"))
+ depends_on('py-notebook-shim@0.1:', type=("build", "run"))
+ depends_on('py-jinja2@3.0.3:', type=("build", "run"))
+ depends_on('py-jupyterlab@3.4.7:3', type=("build", "run"))
+ depends_on('py-jupyterlab-widgets', type=("build", "run"))
+ depends_on('py-nbformat', type=("build", "run"))
+ depends_on('py-numpy', type=("build", "run"))
+ depends_on('py-requests', type=("build", "run"))
+ depends_on('py-gitpython', type=("build", "run"))
+ depends_on('py-pygithub', type=("build", "run"))
+ depends_on('py-pyunicore', type=("build", "run"))
+ depends_on('py-siibra', type=("build", "run"))
+ depends_on('py-tqdm', type=("build", "run"))
+ depends_on('py-tvb-library', type=("build", "run"))
+ depends_on('py-tvb-gdist', type=("build", "run"))
+ depends_on('py-tvb-framework', type=("build", "run"))
+ depends_on('py-tvb-ext-bucket', type=("build", "run"))
+ depends_on('py-tvb-ext-unicore', type=("build", "run"))
+ depends_on('py-tvb-widgets@1.0:', 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('--ignore', 'tvbextxircuits/tests/xircuits/test_generate_description.py')
diff --git a/spack.yaml b/spack.yaml
index 909ab1af..ebb65aa3 100644
--- a/spack.yaml
+++ b/spack.yaml
@@ -46,14 +46,14 @@ spack:
- py-siibra@1.0a9
- py-snudda@2.0.1
- py-spynnaker@7.0.0
- - py-tvb-contrib@2.9
- - py-tvb-data@2.8
- py-tvb-framework@2.9
- - py-tvb-gdist@2.2
+ - py-tvb-contrib@2.9.1
- py-tvb-library@2.9.1
- py-tvb-multiscale@2.1.0.ebrains
- - py-tvb-storage@2.9
- py-tvb-widgets@2.1.0
+ - py-tvb-ext-bucket
+ - py-tvb-ext-unicore
+ - py-tvb-ext-xircuits@1.1.0
- py-viziphant@0.4.0
- pynn-brainscales@9.0-a6
- r-rgsl@0.1.1
--
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