clams-python 1.2.6__tar.gz → 1.3.0__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- {clams_python-1.2.6/clams_python.egg-info → clams_python-1.3.0}/PKG-INFO +1 -1
- clams_python-1.3.0/VERSION +1 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/app/__init__.py +31 -0
- clams_python-1.3.0/clams/ver/__init__.py +1 -0
- {clams_python-1.2.6 → clams_python-1.3.0/clams_python.egg-info}/PKG-INFO +1 -1
- {clams_python-1.2.6 → clams_python-1.3.0}/tests/test_clamsapp.py +2 -2
- clams_python-1.2.6/VERSION +0 -1
- clams_python-1.2.6/clams/ver/__init__.py +0 -1
- {clams_python-1.2.6 → clams_python-1.3.0}/LICENSE +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/MANIFEST.in +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/README.md +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/__init__.py +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/appmetadata/__init__.py +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/__init__.py +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/app/.dockerignore.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/app/.gitignore.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/app/Containerfile.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/app/LICENSE.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/app/README.md.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/app/app.py.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/app/cli.py.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/app/metadata.py.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/app/requirements.txt.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/gha/for-clams-team.md.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/gha/workflows/issue-apps-project.yml.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/gha/workflows/issue-assign.yml.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/gha/workflows/issue-close.yml.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/gha/workflows/publish.yml.template +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/mmif_utils/__init__.py +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/mmif_utils/rewind.py +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/mmif_utils/source.py +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/restify/__init__.py +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams/serve/__init__.py +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams_python.egg-info/SOURCES.txt +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams_python.egg-info/dependency_links.txt +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams_python.egg-info/entry_points.txt +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams_python.egg-info/requires.txt +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/clams_python.egg-info/top_level.txt +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/requirements.txt +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/setup.cfg +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/setup.py +0 -0
- {clams_python-1.2.6 → clams_python-1.3.0}/tests/test_clamscli.py +0 -0
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1.3.0
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@@ -5,6 +5,7 @@ import sys
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import warnings
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from abc import ABC, abstractmethod
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from contextlib import contextmanager
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from datetime import datetime
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from urllib import parse as urlparser
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__all__ = ['ClamsApp']
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@@ -44,6 +45,14 @@ class ClamsApp(ABC):
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'name': 'pretty', 'type': 'boolean', 'choices': None, 'default': False, 'multivalued': False,
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'description': 'The JSON body of the HTTP response will be re-formatted with 2-space indentation',
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},
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{
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'name': 'runningTime', 'type': 'boolean', 'choices': None, 'default': False, 'multivalued': False,
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'description': 'The running time of the app will be recorded in the view metadata',
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},
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{
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'name': 'hwFetch', 'type': 'boolean', 'choices': None, 'default': False, 'multivalued': False,
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'description': 'The hardware information (architecture, GPU and vRAM) will be recorded in the view metadata',
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},
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]
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# this key is used to store users' raw input params in the parameter dict
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@@ -136,6 +145,7 @@ class ClamsApp(ABC):
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refined = self._refine_params(**runtime_params)
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self.logger.debug(f"Refined parameters: {refined}")
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pretty = refined.get('pretty', False)
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t = datetime.now()
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with warnings.catch_warnings(record=True) as ws:
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annotated = self._annotate(mmif, **refined)
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if ws:
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@@ -144,6 +154,27 @@ class ClamsApp(ABC):
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warnings_view = annotated.new_view()
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self.sign_view(warnings_view, refined)
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warnings_view.metadata.warnings = issued_warnings
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td = datetime.now() - t
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runningTime = refined.get('runningTime', False)
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hwFetch = refined.get('hwFetch', False)
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runtime_recs = {}
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if hwFetch:
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import platform, shutil, subprocess
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runtime_recs['architecture'] = platform.machine()
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# runtime_recs['processor'] = platform.processor() # this only works on Windows
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runtime_recs['cuda'] = []
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if shutil.which('nvidia-smi'):
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for gpu in subprocess.run(['nvidia-smi', '--query-gpu=name,memory.total', '--format=csv,noheader'],
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stdout=subprocess.PIPE).stdout.decode('utf-8').strip().split('\n'):
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name, mem = gpu.split(', ')
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runtime_recs['cuda'].append(f'{name} ({mem})')
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for annotated_view in annotated.views:
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if annotated_view.metadata.app == self.metadata.identifier:
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if runningTime:
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annotated_view.metadata.set_additional_property('appRunningTime', str(td))
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if len(runtime_recs) > 0:
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annotated_view.metadata.set_additional_property('appRunningHardware', runtime_recs)
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return annotated.serialize(pretty=pretty, sanitize=True)
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@abstractmethod
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__version__ = "1.3.0"
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@@ -253,14 +253,14 @@ class TestClamsApp(unittest.TestCase):
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args3 = {'undefined_param1': ['value1']}
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self.app.sign_view(v3, self.app._refine_params(**args3))
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self.assertEqual(len(v3.metadata.parameters), 1)
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self.assertEqual(len(v3.metadata.appConfiguration),
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self.assertEqual(len(v3.metadata.appConfiguration), 5) # universal (pretty, runningtime, hwfetch) + `raise_error` in metadata.py + `multivalued_param`
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self.assertEqual(v3.metadata.appConfiguration['multivalued_param'], [])
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v4 = m.new_view()
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multiple_values = ['value1', 'value2']
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args4 = {'multivalued_param': multiple_values}
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self.app.sign_view(v4, self.app._refine_params(**args4))
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self.assertEqual(len(v4.metadata.parameters), 1)
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self.assertEqual(len(v4.metadata.appConfiguration),
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self.assertEqual(len(v4.metadata.appConfiguration), 5)
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self.assertEqual(len(v4.metadata.parameters['multivalued_param']), len(str(multiple_values)))
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def test_annotate(self):
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{clams_python-1.2.6 → clams_python-1.3.0}/clams/develop/templates/app/Containerfile.template
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