dkist-processing-test 1.35.1__tar.gz → 1.36.1rc1__tar.gz
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- {dkist_processing_test-1.35.1/dkist_processing_test.egg-info → dkist_processing_test-1.36.1rc1}/PKG-INFO +141 -50
- dkist_processing_test-1.36.1rc1/README.rst +149 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tasks/fake_science.py +7 -7
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tasks/manual.py +1 -1
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tasks/movie.py +2 -2
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tests/test_tasks.py +12 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1/dkist_processing_test.egg-info}/PKG-INFO +141 -50
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test.egg-info/requires.txt +65 -48
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/pyproject.toml +67 -50
- dkist_processing_test-1.35.1/README.rst +0 -75
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/.gitignore +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/.pre-commit-config.yaml +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/.snyk +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/bitbucket-pipelines.yml +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/__init__.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/config.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/models/__init__.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/models/constants.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/models/parameters.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tasks/__init__.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tasks/exercise_numba.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tasks/fail.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tasks/high_memory.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tasks/noop.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tasks/parse.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tasks/quality.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tasks/write_l1.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tests/__init__.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tests/conftest.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/tests/test_workflows.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/workflows/__init__.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/workflows/common_tasks.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/workflows/end_to_end.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/workflows/exercise_numba.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/workflows/fail.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/workflows/noop.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/workflows/resource_queue.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test/workflows/trial_end_to_end.py +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test.egg-info/SOURCES.txt +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test.egg-info/dependency_links.txt +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/dkist_processing_test.egg-info/top_level.txt +0 -0
- {dkist_processing_test-1.35.1 → dkist_processing_test-1.36.1rc1}/setup.cfg +0 -0
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Name: dkist-processing-test
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Version: 1.
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Summary: Example instrument code used by the DKIST science data processing pipelines to test processing infrastructure
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Author-email: NSO / AURA <dkistdc@nso.edu>
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License: BSD-3-Clause
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dkist-processing-test
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---------------------
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|codecov|
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Overview
|
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7
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--------
|
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8
|
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The dkist-processing-test library serves as an example implementation of a Tasks and Workflows using the
|
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9
|
+
`dkist-processing-core <https://pypi.org/project/dkist-processing-core/>`_ framework and
|
|
10
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+
`dkist-processing-common <https://pypi.org/project/dkist-processing-common/>`_ Tasks.
|
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The recommended project structure is to separate tasks and workflows into separate packages.
|
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Build
|
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-----
|
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16
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Artifacts are built through `bitbucket pipelines <bitbucket-pipelines.yml>`_
|
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The pipeline can be used in other repos with a modification of the package and artifact locations
|
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|
+
to use the names relevant to the target repo.
|
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e.g. dkist-processing-test -> dkist-processing-vbi and dkist_processing_test -> dkist_processing_vbi
|
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Deployment
|
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24
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----------
|
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25
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Deployment is done with `turtlebot <https://bitbucket.org/dkistdc/turtlebot/src/master/>`_ and follows
|
|
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|
+
the process detailed in `dkist-processing-core <https://pypi.org/project/dkist-processing-core/>`_
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Environment Variables
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29
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---------------------
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- annotation=dict[str, MeshService] required=False default_factory=dict alias_priority=2 validation_alias='MESH_CONFIG' description='Service mesh configuration' examples=[{'upstream_service_name': {'mesh_address': 'localhost', 'mesh_port': 6742}}]
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44
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- annotation=str required=False default='unknown-service-name' alias_priority=2 validation_alias='OTEL_SERVICE_NAME' description='Service name for OpenTelemetry'
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* - DKIST_SERVICE_VERSION
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- annotation=str required=False default='unknown-service-version' alias_priority=2 validation_alias='DKIST_SERVICE_VERSION' description='Service version for OpenTelemetry'
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* - NOMAD_ALLOC_ID
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- annotation=str required=False default='unknown-allocation-id' alias_priority=2 validation_alias='NOMAD_ALLOC_ID' description='Nomad allocation ID for OpenTelemetry'
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* - OTEL_EXPORTER_OTLP_TRACES_INSECURE
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- annotation=bool required=False default=True description='Use insecure connection for OTLP traces'
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* - OTEL_EXPORTER_OTLP_METRICS_INSECURE
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- annotation=bool required=False default=True description='Use insecure connection for OTLP metrics'
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- annotation=Union[str, NoneType] required=False default=None description='OTLP traces endpoint. Overrides mesh configuration' examples=['localhost:4317']
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* - OTEL_EXPORTER_OTLP_METRICS_ENDPOINT
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- annotation=Union[str, NoneType] required=False default=None description='OTLP metrics endpoint. Overrides mesh configuration' examples=['localhost:4317']
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- annotation=list[str] required=False default_factory=list description='List of instrumentations to disable. https://opentelemetry.io/docs/zero-code/python/configuration/' examples=[['pika', 'requests']]
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- annotation=str required=False default='health' description='Comma separated list of URLs to exclude from OpenTelemetry instrumentation in FastAPI.' examples=['client/.*/info,healthcheck']
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- annotation=Union[dict[str, bool], NoneType] required=False default=None description='Configuration for system metric instrumentation. https://opentelemetry-python-contrib.readthedocs.io/en/latest/instrumentation/system_metrics/system_metrics.html' examples=[{'system.memory.usage': ['used', 'free', 'cached'], 'system.cpu.time': ['idle', 'user', 'system', 'irq'], 'system.network.io': ['transmit', 'receive'], 'process.runtime.memory': ['rss', 'vms'], 'process.runtime.cpu.time': ['user', 'system'], 'process.runtime.context_switches': ['involuntary', 'voluntary']}]
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* - ISB_USERNAME
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- annotation=str required=False default='guest' description='Username for the interservice-bus.'
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* - ISB_PASSWORD
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- annotation=str required=False default='guest' description='Password for the interservice-bus.'
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* - ISB_EXCHANGE
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- annotation=str required=False default='master.direct.x' description='Exchange for the interservice-bus.'
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* - ISB_QUEUE_TYPE
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- annotation=str required=False default='classic' description='Queue type for the interservice-bus.' examples=['quorum', 'classic']
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* - BUILD_VERSION
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- annotation=str required=False default='dev' description='Fallback build version for workflow tasks.'
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- annotation=Union[str, NoneType] required=False default='dev' description='The auth token for the metadata-store-api.'
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- annotation=Union[str, NoneType] required=False default=None description='The access key for the object store.'
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* - OBJECT_STORE_SECRET_KEY
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- annotation=Union[str, NoneType] required=False default=None description='The secret key for the object store.'
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* - OBJECT_STORE_USE_SSL
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- annotation=bool required=False default=False description='Whether to use SSL for the object store connection.'
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* - MULTIPART_THRESHOLD
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- annotation=Union[int, NoneType] required=False default=None description='Multipart threshold for the object store.'
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* - S3_CLIENT_CONFIG
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- annotation=Union[dict, NoneType] required=False default=None description='S3 client configuration for the object store.'
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* - S3_UPLOAD_CONFIG
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- annotation=Union[dict, NoneType] required=False default=None description='S3 upload configuration for the object store.'
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* - S3_DOWNLOAD_CONFIG
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- annotation=Union[dict, NoneType] required=False default=None description='S3 download configuration for the object store.'
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* - GLOBUS_TRANSPORT_PARAMS
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- annotation=dict required=False default_factory=dict description='Globus transfer parameters.'
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* - GLOBUS_CLIENT_ID
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- annotation=Union[str, NoneType] required=False default=None description='Globus client ID for inbound/outbound transfers.'
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* - GLOBUS_CLIENT_SECRET
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- annotation=Union[str, NoneType] required=False default=None description='Globus client secret for inbound/outbound transfers.'
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* - OBJECT_STORE_ENDPOINT
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- annotation=Union[str, NoneType] required=False default=None description='Object store Globus Endpoint ID.'
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* - SCRATCH_ENDPOINT
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- annotation=Union[str, NoneType] required=False default=None description='Scratch Globus Endpoint ID.'
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* - SCRATCH_BASE_PATH
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- annotation=str required=False default='scratch/' description='Base path for scratch storage.'
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* - SCRATCH_INVENTORY_DB_COUNT
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- annotation=int required=False default=16 description='Number of databases in the scratch inventory (redis).'
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* - DOCS_BASE_URL
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- annotation=str required=False default='my_test_url' description='Base URL for the documentation site.'
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Development
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-----------
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.. code-block:: bash
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git clone git@bitbucket.org:dkistdc/dkist-processing-test.git
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cd dkist-processing-test
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pre-commit install
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pip install -e .[test]
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pytest -v --cov dkist_processing_test
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Deployment
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----------
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+
When a new release is ready to be built the following steps need to be taken:
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1. Freezing Dependencies
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#########################
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A new "frozen" extra is generated by the `dkist-dev-tools <https://bitbucket.org/dkistdc/dkist-dev-tools/src/main/>`_
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+
package. If you don't have `dkist-dev-tools` installed please follow the directions from that repo.
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+
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To freeze dependencies run
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.. code-block:: bash
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+
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ddt freeze vX.Y.Z[rcK]
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+
Where "vX.Y.Z[rcK]" is the version about to be released.
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+
2. Tag and Push
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+
###############
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+
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+
Once all commits are in place add a git tag that will define the released version, then push the tags up to Bitbucket:
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+
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+
.. code-block:: bash
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+
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git tag vX.Y.Z[rcK]
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+
git push --tags origin BRANCH
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+
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+
In the case of an rc, BRANCH will likely be your development branch. For full releases BRANCH should be "main".
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+
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+
.. |codecov| image:: https://codecov.io/bb/dkistdc/dkist-processing-test/graph/badge.svg?token=U004CWS46G
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+
:target: https://codecov.io/bb/dkistdc/dkist-processing-test
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|
@@ -40,25 +40,25 @@ class GenerateCalibratedData(WorkflowTaskBase):
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def run(self):
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rng = np.random.default_rng()
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-
with self.
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+
with self.telemetry_span("Create debug frame"):
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self.write(
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data=np.arange(10), tags=[Tag.frame(), Tag.debug()], encoder=fits_array_encoder
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)
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-
with self.
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with self.telemetry_span("Creating intermediate frame"):
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self.write(
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data=np.arange(5),
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tags=[Tag.frame(), Tag.intermediate(), Tag.task("DUMMY")],
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encoder=fits_array_encoder,
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)
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-
with self.
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+
with self.telemetry_span("Creating unique frames"):
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for _ in range(2):
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self.write(data=np.arange(3), tags=["FOO", "BAR"], encoder=fits_array_encoder)
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self.write(data={"test": "dictionary"}, tags=["BAZ"], encoder=json_encoder)
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-
with self.
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with self.telemetry_span(
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"Creating frames that won't be used or transferred as trial outputs"
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):
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|
self.write(data=b"123", tags=[Tag.intermediate(), Tag.task("NOT_USED"), Tag.frame()])
|
|
@@ -67,11 +67,11 @@ class GenerateCalibratedData(WorkflowTaskBase):
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logger.info(f"Using {self.parameters.value_message = }")
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logger.info(f"Using {self.parameters.file_message = }")
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-
with self.
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+
with self.telemetry_span("Loop over inputs"):
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count = 1 # keep a running count to increment the dsps repeat number
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for hdu in self.read(tags=Tag.input(), decoder=fits_hdu_decoder):
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header = hdu.header
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-
with self.
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+
with self.telemetry_span("Doing some calculations"):
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header["DSPSNUM"] = count
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76
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data = hdu.data
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77
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|
@@ -96,7 +96,7 @@ class GenerateCalibratedData(WorkflowTaskBase):
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96
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|
wavelength_category = self.parameters.wavelength_category
|
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97
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header["WAVECAT"] = wavelength_category
|
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98
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-
with self.
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+
with self.telemetry_span("Writing data"):
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output_hdul = fits.HDUList([output_hdu])
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101
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self.write(
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data=output_hdul,
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@@ -23,7 +23,7 @@ class MakeTestMovieFrames(WorkflowTaskBase):
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23
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def run(self):
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25
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|
for d in range(1, self.constants.num_dsps_repeats + 1):
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-
with self.
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+
with self.telemetry_span(f"Workign on dsps repeat {d}"):
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for hdu in self.read(
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28
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tags=[Tag.calibrated(), Tag.dsps_repeat(d)], decoder=fits_hdu_decoder
|
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29
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):
|
|
@@ -32,7 +32,7 @@ class MakeTestMovieFrames(WorkflowTaskBase):
|
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32
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output_hdu = fits.PrimaryHDU(data=data, header=header)
|
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33
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|
output_hdul = fits.HDUList([output_hdu])
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34
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-
with self.
|
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|
+
with self.telemetry_span("Writing data"):
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36
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self.write(
|
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37
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|
data=output_hdul,
|
|
38
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|
tags=[Tag.movie_frame(), Tag.dsps_repeat(d)],
|
|
@@ -447,6 +447,18 @@ class CommonDataset(Spec122Dataset):
|
|
|
447
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|
self.add_constant_key("DKIST008", num_dsps_repeats)
|
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448
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|
self.add_constant_key("BZERO", 0)
|
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449
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|
self.add_constant_key("BSCALE", 1)
|
|
450
|
+
self.add_constant_key("CAM__001", "camera_id")
|
|
451
|
+
self.add_constant_key("CAM__002", "camera_name")
|
|
452
|
+
self.add_constant_key("CAM__003", 1) # camera_bit_depth
|
|
453
|
+
self.add_constant_key("CAM__009", 1) # hardware_binning_x
|
|
454
|
+
self.add_constant_key("CAM__010", 1) # hardware_binning_y
|
|
455
|
+
self.add_constant_key("CAM__011", 1) # software_binning_x
|
|
456
|
+
self.add_constant_key("CAM__012", 1) # software_binning_y
|
|
457
|
+
self.add_constant_key("ID___014", "v1") # hls_version
|
|
458
|
+
self.add_constant_key("TELTRACK", "Fixed Solar Rotation Tracking")
|
|
459
|
+
self.add_constant_key("TTBLTRCK", "fixed angle on sun")
|
|
460
|
+
self.add_constant_key("TELSCAN", "Raster")
|
|
461
|
+
self.add_constant_key("CAM__014", 10) # num_raw_frames_per_fpa
|
|
450
462
|
|
|
451
463
|
# Because these test data are from "ViSP" we need to add these keys,
|
|
452
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|
# which would normally be added by the `*-processing-visp` science task (although they are not
|