Update NmdcPortalApiClient
with new authentication scheme
#572
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
Description
The Portal API has replaced session cookie-based authentication with Bearer token authentication. These changes update
NmdcPortalApiClient
to reflect that.In testing I also found that the
SubmissionPortalTranslator
has drifted away from the Portal a bit. In particular,samp_name
is now the unique key slot onBiosample
instances instead ofsource_mat_id
. These changes also correct that.Fixes #571
Type of change
How Has This Been Tested?
tests/test_ops/test_data_api_ops.py
to reflect the new behavior ofNmdcPortalApiClient
.tests/test_graphs/test_submission_portal_graphs.py
and remove thexfail
mark.translate_metadata_submission_to_nmdc_schema_database
job in the Dagit interfaceConfiguration Details: none
Checklist:
black nmdc_runtime/
?)docs/
and in https://github.com/microbiomedata/NMDC_documentation/?)make up-test && make test-run
)