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Fix Django CI issue #340

Merged
merged 1 commit into from
Aug 5, 2024
Merged

Fix Django CI issue #340

merged 1 commit into from
Aug 5, 2024

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HadleyKing
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biocompute-objects/portal_userdb#380

Changes to be committed:
modified: .github/workflows/django.yml
modified: biocompute/apis.py
modified: biocompute/models.py
modified: config/settings.py
modified: config/urls.py

biocompute-objects/portal_userdb#380

Changes to be committed:
	modified:   .github/workflows/django.yml
	modified:   biocompute/apis.py
	modified:   biocompute/models.py
	modified:   config/settings.py
	modified:   config/urls.py
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gitguardian bot commented Aug 5, 2024

⚠️ GitGuardian has uncovered 1 secret following the scan of your pull request.

Please consider investigating the findings and remediating the incidents. Failure to do so may lead to compromising the associated services or software components.

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@HadleyKing HadleyKing merged commit 5c5c1f7 into dev Aug 5, 2024
2 checks passed
@HadleyKing HadleyKing deleted the django-ci branch August 5, 2024 21:20
HadleyKing added a commit that referenced this pull request Aug 9, 2024
* BCO scoring changes

* Add New Production Deployment md

Changes to be committed:
	deleted:    docs/bco_scores.json
	modified:   docs/deployment/productionDeployment.md
	new file:   docs/newProductionInstance.md

* Update config.md

* Add API endpoint for basic comaprison

Changes to be committed:
	modified:   biocompute/apis.py
	modified:   biocompute/urls.py
	modified:   requirements.txt

* Fix Django CI issue (#340)

biocompute-objects/portal_userdb#380

Changes to be committed:
	modified:   .github/workflows/django.yml
	modified:   biocompute/apis.py
	modified:   biocompute/models.py
	modified:   config/settings.py
	modified:   config/urls.py

* Update to BcoValidator.load_schema (#341)

Updated the function to check locally for the most used schemas. Improves
testing and speed in BCO validation.

Changes to be committed:
	modified:   biocompute/services.py
	renamed:    config/IEEE/2791object.json -> config/schemas/2791object.json
	new file:   config/schemas/dataset_extension.json
	renamed:    config/IEEE/description_domain.json -> config/schemas/description_domain.json
	renamed:    config/IEEE/error_domain.json -> config/schemas/error_domain.json
	renamed:    config/IEEE/execution_domain.json -> config/schemas/execution_domain.json
	new file:   config/schemas/fhir_extension.json
	new file:   config/schemas/galaxy_extension.json
	renamed:    config/IEEE/io_domain.json -> config/schemas/io_domain.json
	new file:   config/schemas/license_extension.json
	renamed:    config/IEEE/parametric_domain.json -> config/schemas/parametric_domain.json
	renamed:    config/IEEE/provenance_domain.json -> config/schemas/provenance_domain.json
	new file:   config/schemas/scm_extension.json
	renamed:    config/IEEE/usability_domain.json -> config/schemas/usability_domain.json

* Add additional schema files and reorganize

Changes to be committed:
	modified:   biocompute/services.py
	new file:   config/schemas/1.1.0/dataset_extension.json
	new file:   config/schemas/1.1.0/fhir_extension.json
	new file:   config/schemas/1.1.0/galaxy_extension.json
	new file:   config/schemas/1.1.0/license_extension.json
	new file:   config/schemas/1.1.0/scm_extension.json
	renamed:    config/schemas/dataset_extension.json -> config/schemas/1.2.0/dataset_extension.json
	renamed:    config/schemas/fhir_extension.json -> config/schemas/1.2.0/fhir_extension.json
	renamed:    config/schemas/galaxy_extension.json -> config/schemas/1.2.0/galaxy_extension.json
	renamed:    config/schemas/license_extension.json -> config/schemas/1.2.0/license_extension.json
	renamed:    config/schemas/scm_extension.json -> config/schemas/1.2.0/scm_extension.json
	renamed:    config/schemas/2791object.json -> config/schemas/2791/2791object.json
	renamed:    config/schemas/description_domain.json -> config/schemas/2791/description_domain.json
	renamed:    config/schemas/error_domain.json -> config/schemas/2791/error_domain.json
	renamed:    config/schemas/execution_domain.json -> config/schemas/2791/execution_domain.json
	renamed:    config/schemas/io_domain.json -> config/schemas/2791/io_domain.json
	renamed:    config/schemas/parametric_domain.json -> config/schemas/2791/parametric_domain.json
	renamed:    config/schemas/provenance_domain.json -> config/schemas/2791/provenance_domain.json
	renamed:    config/schemas/usability_domain.json -> config/schemas/2791/usability_domain.json
	modified:   config/settings.py
	modified:   requirements.txt

* Add instructions for Docker deployment

Changes to be committed:
	modified:   Dockerfile
	modified:   docker-compose.yml
	modified:   docs/deployment/dockerDeployment.md
	new file:   entrypoint.sh

---------

Co-authored-by: Kiran Sen <[email protected]>
Co-authored-by: Kiran Sen <[email protected]>
HadleyKing added a commit that referenced this pull request Aug 22, 2024
* BCO scoring changes

* Add New Production Deployment md

Changes to be committed:
	deleted:    docs/bco_scores.json
	modified:   docs/deployment/productionDeployment.md
	new file:   docs/newProductionInstance.md

* Update config.md

* Add API endpoint for basic comaprison

Changes to be committed:
	modified:   biocompute/apis.py
	modified:   biocompute/urls.py
	modified:   requirements.txt

* Fix Django CI issue (#340)

biocompute-objects/portal_userdb#380

Changes to be committed:
	modified:   .github/workflows/django.yml
	modified:   biocompute/apis.py
	modified:   biocompute/models.py
	modified:   config/settings.py
	modified:   config/urls.py

* Update to BcoValidator.load_schema (#341)

Updated the function to check locally for the most used schemas. Improves
testing and speed in BCO validation.

Changes to be committed:
	modified:   biocompute/services.py
	renamed:    config/IEEE/2791object.json -> config/schemas/2791object.json
	new file:   config/schemas/dataset_extension.json
	renamed:    config/IEEE/description_domain.json -> config/schemas/description_domain.json
	renamed:    config/IEEE/error_domain.json -> config/schemas/error_domain.json
	renamed:    config/IEEE/execution_domain.json -> config/schemas/execution_domain.json
	new file:   config/schemas/fhir_extension.json
	new file:   config/schemas/galaxy_extension.json
	renamed:    config/IEEE/io_domain.json -> config/schemas/io_domain.json
	new file:   config/schemas/license_extension.json
	renamed:    config/IEEE/parametric_domain.json -> config/schemas/parametric_domain.json
	renamed:    config/IEEE/provenance_domain.json -> config/schemas/provenance_domain.json
	new file:   config/schemas/scm_extension.json
	renamed:    config/IEEE/usability_domain.json -> config/schemas/usability_domain.json

* Add additional schema files and reorganize

Changes to be committed:
	modified:   biocompute/services.py
	new file:   config/schemas/1.1.0/dataset_extension.json
	new file:   config/schemas/1.1.0/fhir_extension.json
	new file:   config/schemas/1.1.0/galaxy_extension.json
	new file:   config/schemas/1.1.0/license_extension.json
	new file:   config/schemas/1.1.0/scm_extension.json
	renamed:    config/schemas/dataset_extension.json -> config/schemas/1.2.0/dataset_extension.json
	renamed:    config/schemas/fhir_extension.json -> config/schemas/1.2.0/fhir_extension.json
	renamed:    config/schemas/galaxy_extension.json -> config/schemas/1.2.0/galaxy_extension.json
	renamed:    config/schemas/license_extension.json -> config/schemas/1.2.0/license_extension.json
	renamed:    config/schemas/scm_extension.json -> config/schemas/1.2.0/scm_extension.json
	renamed:    config/schemas/2791object.json -> config/schemas/2791/2791object.json
	renamed:    config/schemas/description_domain.json -> config/schemas/2791/description_domain.json
	renamed:    config/schemas/error_domain.json -> config/schemas/2791/error_domain.json
	renamed:    config/schemas/execution_domain.json -> config/schemas/2791/execution_domain.json
	renamed:    config/schemas/io_domain.json -> config/schemas/2791/io_domain.json
	renamed:    config/schemas/parametric_domain.json -> config/schemas/2791/parametric_domain.json
	renamed:    config/schemas/provenance_domain.json -> config/schemas/2791/provenance_domain.json
	renamed:    config/schemas/usability_domain.json -> config/schemas/2791/usability_domain.json
	modified:   config/settings.py
	modified:   requirements.txt

* Add instructions for Docker deployment

Changes to be committed:
	modified:   Dockerfile
	modified:   docker-compose.yml
	modified:   docs/deployment/dockerDeployment.md
	new file:   entrypoint.sh

* Update comparison API (#344)

Changes to be committed:
	modified:   biocompute/apis.py

---------

Co-authored-by: Kiran Sen <[email protected]>
Co-authored-by: Kiran Sen <[email protected]>
@HadleyKing HadleyKing mentioned this pull request Aug 22, 2024
HadleyKing added a commit that referenced this pull request Aug 22, 2024
* BCO scoring changes

* Add New Production Deployment md

Changes to be committed:
	deleted:    docs/bco_scores.json
	modified:   docs/deployment/productionDeployment.md
	new file:   docs/newProductionInstance.md

* Update config.md

* Add API endpoint for basic comaprison

Changes to be committed:
	modified:   biocompute/apis.py
	modified:   biocompute/urls.py
	modified:   requirements.txt

* Fix Django CI issue (#340)

biocompute-objects/portal_userdb#380

Changes to be committed:
	modified:   .github/workflows/django.yml
	modified:   biocompute/apis.py
	modified:   biocompute/models.py
	modified:   config/settings.py
	modified:   config/urls.py

* Update to BcoValidator.load_schema (#341)

Updated the function to check locally for the most used schemas. Improves
testing and speed in BCO validation.

Changes to be committed:
	modified:   biocompute/services.py
	renamed:    config/IEEE/2791object.json -> config/schemas/2791object.json
	new file:   config/schemas/dataset_extension.json
	renamed:    config/IEEE/description_domain.json -> config/schemas/description_domain.json
	renamed:    config/IEEE/error_domain.json -> config/schemas/error_domain.json
	renamed:    config/IEEE/execution_domain.json -> config/schemas/execution_domain.json
	new file:   config/schemas/fhir_extension.json
	new file:   config/schemas/galaxy_extension.json
	renamed:    config/IEEE/io_domain.json -> config/schemas/io_domain.json
	new file:   config/schemas/license_extension.json
	renamed:    config/IEEE/parametric_domain.json -> config/schemas/parametric_domain.json
	renamed:    config/IEEE/provenance_domain.json -> config/schemas/provenance_domain.json
	new file:   config/schemas/scm_extension.json
	renamed:    config/IEEE/usability_domain.json -> config/schemas/usability_domain.json

* Add additional schema files and reorganize

Changes to be committed:
	modified:   biocompute/services.py
	new file:   config/schemas/1.1.0/dataset_extension.json
	new file:   config/schemas/1.1.0/fhir_extension.json
	new file:   config/schemas/1.1.0/galaxy_extension.json
	new file:   config/schemas/1.1.0/license_extension.json
	new file:   config/schemas/1.1.0/scm_extension.json
	renamed:    config/schemas/dataset_extension.json -> config/schemas/1.2.0/dataset_extension.json
	renamed:    config/schemas/fhir_extension.json -> config/schemas/1.2.0/fhir_extension.json
	renamed:    config/schemas/galaxy_extension.json -> config/schemas/1.2.0/galaxy_extension.json
	renamed:    config/schemas/license_extension.json -> config/schemas/1.2.0/license_extension.json
	renamed:    config/schemas/scm_extension.json -> config/schemas/1.2.0/scm_extension.json
	renamed:    config/schemas/2791object.json -> config/schemas/2791/2791object.json
	renamed:    config/schemas/description_domain.json -> config/schemas/2791/description_domain.json
	renamed:    config/schemas/error_domain.json -> config/schemas/2791/error_domain.json
	renamed:    config/schemas/execution_domain.json -> config/schemas/2791/execution_domain.json
	renamed:    config/schemas/io_domain.json -> config/schemas/2791/io_domain.json
	renamed:    config/schemas/parametric_domain.json -> config/schemas/2791/parametric_domain.json
	renamed:    config/schemas/provenance_domain.json -> config/schemas/2791/provenance_domain.json
	renamed:    config/schemas/usability_domain.json -> config/schemas/2791/usability_domain.json
	modified:   config/settings.py
	modified:   requirements.txt

* Add instructions for Docker deployment

Changes to be committed:
	modified:   Dockerfile
	modified:   docker-compose.yml
	modified:   docs/deployment/dockerDeployment.md
	new file:   entrypoint.sh

* Update comparison API (#344)

Changes to be committed:
	modified:   biocompute/apis.py

---------

Co-authored-by: Kiran Sen <[email protected]>
Co-authored-by: Kiran Sen <[email protected]>
HadleyKing added a commit that referenced this pull request Aug 30, 2024
* BCO scoring changes

* Add New Production Deployment md

Changes to be committed:
	deleted:    docs/bco_scores.json
	modified:   docs/deployment/productionDeployment.md
	new file:   docs/newProductionInstance.md

* Update config.md

* Add API endpoint for basic comaprison

Changes to be committed:
	modified:   biocompute/apis.py
	modified:   biocompute/urls.py
	modified:   requirements.txt

* Fix Django CI issue (#340)

biocompute-objects/portal_userdb#380

Changes to be committed:
	modified:   .github/workflows/django.yml
	modified:   biocompute/apis.py
	modified:   biocompute/models.py
	modified:   config/settings.py
	modified:   config/urls.py

* Update to BcoValidator.load_schema (#341)

Updated the function to check locally for the most used schemas. Improves
testing and speed in BCO validation.

Changes to be committed:
	modified:   biocompute/services.py
	renamed:    config/IEEE/2791object.json -> config/schemas/2791object.json
	new file:   config/schemas/dataset_extension.json
	renamed:    config/IEEE/description_domain.json -> config/schemas/description_domain.json
	renamed:    config/IEEE/error_domain.json -> config/schemas/error_domain.json
	renamed:    config/IEEE/execution_domain.json -> config/schemas/execution_domain.json
	new file:   config/schemas/fhir_extension.json
	new file:   config/schemas/galaxy_extension.json
	renamed:    config/IEEE/io_domain.json -> config/schemas/io_domain.json
	new file:   config/schemas/license_extension.json
	renamed:    config/IEEE/parametric_domain.json -> config/schemas/parametric_domain.json
	renamed:    config/IEEE/provenance_domain.json -> config/schemas/provenance_domain.json
	new file:   config/schemas/scm_extension.json
	renamed:    config/IEEE/usability_domain.json -> config/schemas/usability_domain.json

* Add additional schema files and reorganize

Changes to be committed:
	modified:   biocompute/services.py
	new file:   config/schemas/1.1.0/dataset_extension.json
	new file:   config/schemas/1.1.0/fhir_extension.json
	new file:   config/schemas/1.1.0/galaxy_extension.json
	new file:   config/schemas/1.1.0/license_extension.json
	new file:   config/schemas/1.1.0/scm_extension.json
	renamed:    config/schemas/dataset_extension.json -> config/schemas/1.2.0/dataset_extension.json
	renamed:    config/schemas/fhir_extension.json -> config/schemas/1.2.0/fhir_extension.json
	renamed:    config/schemas/galaxy_extension.json -> config/schemas/1.2.0/galaxy_extension.json
	renamed:    config/schemas/license_extension.json -> config/schemas/1.2.0/license_extension.json
	renamed:    config/schemas/scm_extension.json -> config/schemas/1.2.0/scm_extension.json
	renamed:    config/schemas/2791object.json -> config/schemas/2791/2791object.json
	renamed:    config/schemas/description_domain.json -> config/schemas/2791/description_domain.json
	renamed:    config/schemas/error_domain.json -> config/schemas/2791/error_domain.json
	renamed:    config/schemas/execution_domain.json -> config/schemas/2791/execution_domain.json
	renamed:    config/schemas/io_domain.json -> config/schemas/2791/io_domain.json
	renamed:    config/schemas/parametric_domain.json -> config/schemas/2791/parametric_domain.json
	renamed:    config/schemas/provenance_domain.json -> config/schemas/2791/provenance_domain.json
	renamed:    config/schemas/usability_domain.json -> config/schemas/2791/usability_domain.json
	modified:   config/settings.py
	modified:   requirements.txt

* Add instructions for Docker deployment

Changes to be committed:
	modified:   Dockerfile
	modified:   docker-compose.yml
	modified:   docs/deployment/dockerDeployment.md
	new file:   entrypoint.sh

* Update comparison API (#344)

Changes to be committed:
	modified:   biocompute/apis.py

* Add API for LDH (#347)

#333
Changes to be committed:
	modified:   biocompute/apis.py
	modified:   biocompute/selectors.py
	modified:   biocompute/services.py
	modified:   biocompute/urls.py

---------

Co-authored-by: Kiran Sen <[email protected]>
Co-authored-by: Kiran Sen <[email protected]>
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