Merge remote-tracking branch 'origin/issue/1759' into issue/1759 #3753
johngrimestest.yml
on: push
Encoders
4m 45s
FHIR server (tranche 1)
5m 16s
FHIR server (tranche 2)
3m 31s
FHIR server (tranche 3)
3s
Docker image
4m 4s
Python API
5m 3s
Benchmark
3m 38s
JavaScript client
40s
Import lambda
47s
R API
22m 27s
Site
39m 22s
Pre-release deployment
0s
Upload coverage
0s
Annotations
69 errors and 29 warnings
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FHIR server (tranche 3)
Credentials could not be loaded, please check your action inputs: Could not load credentials from any providers
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AsyncTest.asyncExtract:
fhir-server/src/test/java/au/csiro/pathling/test/integration/AsyncTest.java#L85
expected: <202> but was: <500>
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CachedSearchTest.searchWithNoFilter:
fhir-server/src/test/java/au/csiro/pathling/test/integration/CachedSearchTest.java#L57
expected: <true> but was: <false>
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CapabilityStatementTest.capabilityStatement:
fhir-server/src/test/java/au/csiro/pathling/test/integration/CapabilityStatementTest.java#L50
rest[mode=server].operation[definition=https://pathling.csiro.au/fhir/OperationDefinition/import-6]
Expected: a JSON object
but none found
; rest[mode=server].operation[definition=https://pathling.csiro.au/fhir/OperationDefinition/result-6]
Expected: a JSON object
but none found
; rest[mode=server].operation[definition=https://pathling.csiro.au/fhir/OperationDefinition/job-6]
Expected: a JSON object
but none found
; rest[mode=server].operation[definition=https://pathling.csiro.au/fhir/OperationDefinition/result-7]
Unexpected: a JSON object
; rest[mode=server].operation[definition=https://pathling.csiro.au/fhir/OperationDefinition/job-7]
Unexpected: a JSON object
; rest[mode=server].operation[definition=https://pathling.csiro.au/fhir/OperationDefinition/import-7]
Unexpected: a JSON object
; rest[mode=server].resource[]: Expected 141 values but got 142 ; url
Expected: https://pathling.csiro.au/fhir/CapabilityStatement/pathling-fhir-api-6
got: https://pathling.csiro.au/fhir/CapabilityStatement/pathling-fhir-api-7
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ExtractTest.extract:
fhir-server/src/test/java/au/csiro/pathling/test/integration/ExtractTest.java#L77
expected: <true> but was: <false>
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SearchTest.searchWithNoFilter:
fhir-server/src/test/java/au/csiro/pathling/test/integration/SearchTest.java#L62
expected: <true> but was: <false>
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FHIR server (tranche 2)
There were 9 failed tests
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DockerImageTest.importDataAndQuery:
fhir-server/src/test/java/au/csiro/pathling/test/system/DockerImageTest.java#L359
Expected: parameter
but none found
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Docker image
There were 1 failed tests
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LightweightFhirEncodersTest.testThrowsExceptionWhenUnsupportedResource:
encoders/src/test/java/au/csiro/pathling/encoders/LightweightFhirEncodersTest.java#L168
Expected au.csiro.pathling.encoders.UnsupportedResourceError to be thrown, but nothing was thrown.
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Encoders
There were 1 failed tests
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Python API
Process completed with exit code 1.
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AggregateQueryExecutorTest.simpleQueryWithLabels:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryExecutorTest.java#L99
array lengths differ, expected: <2> but was: <0>
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AggregateQueryTest.queryMultipleGroupingCounts:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L229
Expected: parameter
but none found
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AggregateQueryTest.queryWithLargeScaleDecimalResult:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L574
Expected: parameter
but none found
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AggregateQueryTest.queryWithWhereInAggregation:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L383
Expected: parameter
but none found
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AggregateQueryTest.queryWithNestedAggregation:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L398
Expected: parameter
but none found
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AggregateQueryTest.queryWithCombineResultInSecondFilter:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L604
Expected: parameter
but none found
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AggregateQueryTest.simpleQuery:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L58
Expected: parameter
but none found
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AggregateQueryTest.queryWithReverseResolveAndCounts:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L212
Expected: parameter
but none found
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AggregateQueryTest.queryWithIntegerGroupings:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L108
Expected: parameter
but none found
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AggregateQueryTest.queryWithWhereAsComparisonOperand:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L318
Expected: parameter
but none found
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AggregateQueryTest.queryWithAmbiguousSelfJoin:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L335
Expected: parameter
but none found
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AggregateQueryTest.queryMultipleCountAggregations:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L245
Expected: parameter
but none found
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AggregateQueryTest.queryWithUriValueInGrouping:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L427
Expected: parameter
but none found
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AggregateQueryTest.queryWithWhereAndMembership:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L351
Expected: parameter
but none found
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AggregateQueryTest.queryWithLiteralAggregation:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L463
Expected: parameter
but none found
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AggregateQueryTest.queryWithComparisonInAggregation:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L445
Expected: parameter
but none found
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AggregateQueryTest.queryWithReverseResolve:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L197
Expected: parameter
but none found
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AggregateQueryTest.queryWithNonSingularBooleanGrouping:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L532
Expected: parameter
but none found
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AggregateQueryTest.queryWithMemberOf:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L286
Expected: parameter
but none found
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AggregateQueryTest.queryWithDateComparison:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L153
Expected: parameter
but none found
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AggregateQueryTest.queryWithPolymorphicResolve:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L182
Expected: parameter
but none found
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AggregateQueryTest.queryWithChoiceElement:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L138
Expected: parameter
but none found
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AggregateQueryTest.queryWithMultipleTrivialAggregations:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L619
Expected: parameter
but none found
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AggregateQueryTest.queryWithWhere:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L261
Expected: parameter
but none found
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AggregateQueryTest.queryWithCanonicalGrouping:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L561
Expected: parameter
but none found
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AggregateQueryTest.queryWithDateTimeGrouping:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L300
Expected: parameter
but none found
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AggregateQueryTest.queryWithWhereAndBoolean:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L367
Expected: parameter
but none found
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AggregateQueryTest.queryWithWhereAndGroupedData:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L478
Expected: parameter
but none found
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AggregateQueryTest.queryWithResolve:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L168
Expected: parameter
but none found
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AggregateQueryTest.multipleAggregations:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L92
Expected: parameter
but none found
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AggregateQueryTest.multipleGroupingsAndAggregations:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L76
Expected: parameter
but none found
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AggregateQueryTest.queryWithBracketing:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L547
Expected: parameter
but none found
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AggregateQueryTest.queryWithMathExpression:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L123
Expected: parameter
but none found
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AggregateQueryTest.queryWithWhereAggregationAndCount:
fhir-server/src/test/java/au/csiro/pathling/aggregate/AggregateQueryTest.java#L588
Expected: parameter
but none found
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ExtractQueryTest.whereInMultipleColumns:
fhir-server/src/test/java/au/csiro/pathling/extract/ExtractQueryTest.java#L315
[INTERNAL_ERROR] The Spark SQL phase analysis failed with an internal error. You hit a bug in Spark or the Spark plugins you use. Please, report this bug to the corresponding communities or vendors, and provide the full stack trace.
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ExtractQueryTest.multipleIndependentUnnestings:
fhir-server/src/test/java/au/csiro/pathling/extract/ExtractQueryTest.java#L367
[INTERNAL_ERROR] The Spark SQL phase analysis failed with an internal error. You hit a bug in Spark or the Spark plugins you use. Please, report this bug to the corresponding communities or vendors, and provide the full stack trace.
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ExtractQueryTest.simpleQueryWithAliases:
fhir-server/src/test/java/au/csiro/pathling/extract/ExtractQueryTest.java#L113
Unsupported function: reverseResolve
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ExtractQueryTest.linkedUnnesting:
fhir-server/src/test/java/au/csiro/pathling/extract/ExtractQueryTest.java#L349
[INTERNAL_ERROR] The Spark SQL phase analysis failed with an internal error. You hit a bug in Spark or the Spark plugins you use. Please, report this bug to the corresponding communities or vendors, and provide the full stack trace.
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ExtractQueryTest.literalColumn:
fhir-server/src/test/java/au/csiro/pathling/extract/ExtractQueryTest.java#L185
[INTERNAL_ERROR] The Spark SQL phase analysis failed with an internal error. You hit a bug in Spark or the Spark plugins you use. Please, report this bug to the corresponding communities or vendors, and provide the full stack trace.
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ExtractQueryTest.combineWithUnequalCardinalities:
fhir-server/src/test/java/au/csiro/pathling/extract/ExtractQueryTest.java#L502
[INTERNAL_ERROR] The Spark SQL phase analysis failed with an internal error. You hit a bug in Spark or the Spark plugins you use. Please, report this bug to the corresponding communities or vendors, and provide the full stack trace.
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ExtractQueryTest.multipleNonSingularColumnsWithDifferentTypes:
fhir-server/src/test/java/au/csiro/pathling/extract/ExtractQueryTest.java#L331
[INTERNAL_ERROR] The Spark SQL phase analysis failed with an internal error. You hit a bug in Spark or the Spark plugins you use. Please, report this bug to the corresponding communities or vendors, and provide the full stack trace.
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ExtractQueryTest.combineResultInSecondFilter:
fhir-server/src/test/java/au/csiro/pathling/extract/ExtractQueryTest.java#L299
[INTERNAL_ERROR] The Spark SQL phase analysis failed with an internal error. You hit a bug in Spark or the Spark plugins you use. Please, report this bug to the corresponding communities or vendors, and provide the full stack trace.
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ExtractQueryTest.limit:
fhir-server/src/test/java/au/csiro/pathling/extract/ExtractQueryTest.java#L270
expected: <[[9360820c-8602-4335-8b50-c88d627a0c20,female]:1, [7001ad9c-34d2-4eb5-8165-5fdc2147f469,female]:1, [121503c8-9564-4b48-9086-a22df717948e,female]:1]> but was: <[[9360820c-8602-4335-8b50-c88d627a0c20,female]:1, [7001ad9c-34d2-4eb5-8165-5fdc2147f469,female]:1, [e62e52ae-2d75-4070-a0ae-3cc78d35ed08,female]:1, [121503c8-9564-4b48-9086-a22df717948e,female]:1]>
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ExtractQueryTest.multipleReverseResolves:
fhir-server/src/test/java/au/csiro/pathling/extract/ExtractQueryTest.java#L151
Unsupported function: reverseResolve
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FHIR server (tranche 1)
There were 61 failed tests
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R API
Test failures
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R API
Process completed with exit code 1.
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FHIR server (tranche 3)
The following actions uses node12 which is deprecated and will be forced to run on node16: aws-actions/configure-aws-credentials@v1. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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FHIR server (tranche 3)
The following actions uses Node.js version which is deprecated and will be forced to run on node20: aws-actions/configure-aws-credentials@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
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JavaScript client
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/setup-java@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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JavaScript client
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v3, actions/setup-java@v2, actions/setup-node@v3, actions/cache@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
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Import lambda
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/setup-java@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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Import lambda
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v3, actions/setup-java@v2, actions/setup-node@v3, actions/cache@v3, actions/upload-artifact@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
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FHIR server (tranche 2)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/setup-java@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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FHIR server (tranche 2)
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v3, actions/setup-java@v2, actions/cache@v3, actions/upload-artifact@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
|
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FHIR server (tranche 2)
No files were found with the provided path: **/*.dump
**/*.dumpstream. No artifacts will be uploaded.
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Benchmark
The following actions uses node12 which is deprecated and will be forced to run on node16: aws-actions/configure-aws-credentials@v1, actions/setup-java@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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Benchmark
The following actions uses Node.js version which is deprecated and will be forced to run on node20: aws-actions/configure-aws-credentials@v1, actions/checkout@v3, actions/setup-java@v2, actions/cache@v3, actions/upload-artifact@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
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Benchmark
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
|
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Benchmark
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
|
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Docker image
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/setup-java@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
|
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Docker image
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v3, actions/setup-java@v2, actions/cache@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
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Docker image
Unexpected input(s) 'security-checks', valid inputs are ['entryPoint', 'args', 'scan-type', 'image-ref', 'input', 'scan-ref', 'exit-code', 'ignore-unfixed', 'vuln-type', 'severity', 'format', 'template', 'output', 'skip-dirs', 'skip-files', 'cache-dir', 'timeout', 'ignore-policy', 'hide-progress', 'list-all-pkgs', 'scanners', 'trivyignores', 'artifact-type', 'github-pat', 'trivy-config', 'tf-vars', 'limit-severities-for-sarif', 'docker-host']
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Encoders
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/setup-java@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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Encoders
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v3, actions/setup-java@v2, actions/cache@v3, actions/upload-artifact@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
|
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Encoders
No files were found with the provided path: **/*.dump
**/*.dumpstream. No artifacts will be uploaded.
|
|
Python API
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/setup-java@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
|
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Python API
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v3, actions/setup-java@v2, actions/cache@v3, actions/setup-python@v4. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
|
|
FHIR server (tranche 1)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/setup-java@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
|
|
FHIR server (tranche 1)
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v3, actions/setup-java@v2, actions/cache@v3, actions/upload-artifact@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
|
|
FHIR server (tranche 1)
No files were found with the provided path: **/*.dump
**/*.dumpstream. No artifacts will be uploaded.
|
|
R API
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/setup-java@v2, actions/cache@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
|
|
R API
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v3, actions/setup-java@v2, actions/cache@v3, actions/cache@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
|
|
Site
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/setup-java@v2, actions/cache@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
|
|
Site
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v3, actions/setup-java@v2, azure/setup-helm@v3, actions/setup-node@v3, actions/cache@v3, actions/cache@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
|
|
Deprecation notice: v1, v2, and v3 of the artifact actions
The following artifacts were uploaded using a version of actions/upload-artifact that is scheduled for deprecation: "benchmark-results", "encoders-coverage", "encoders-surefire-reports", "fhir-server-1-coverage", "fhir-server-1-surefire-reports", "fhir-server-1-timing-log", "fhir-server-2-coverage", "fhir-server-2-surefire-reports", "fhir-server-2-timing-log", "import-lambda".
Please update your workflow to use v4 of the artifact actions.
Learn more: https://github.blog/changelog/2024-04-16-deprecation-notice-v3-of-the-artifact-actions/
|
Artifacts
Produced during runtime
| Name | Size | |
|---|---|---|
|
benchmark-results
|
14.7 KB |
|
|
encoders-coverage
|
448 KB |
|
|
encoders-surefire-reports
|
456 KB |
|
|
fhir-server-1-coverage
|
1.31 MB |
|
|
fhir-server-1-surefire-reports
|
1.72 MB |
|
|
fhir-server-1-timing-log
|
5.42 KB |
|
|
fhir-server-2-coverage
|
1.31 MB |
|
|
fhir-server-2-surefire-reports
|
1.56 MB |
|
|
fhir-server-2-timing-log
|
80 Bytes |
|
|
import-lambda
|
20.9 MB |
|