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Nextflow Tests

Merged #98

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Merged

Merged #98

Triggered via pull request August 9, 2026 13:19
@KevinMLanderosKevinMLanderos
opened #95
v2
Status Failure
Total duration 5m 38s
Artifacts 1

nextflow-test.yaml

on: pull_request
Unit Tests
5m 27s
Unit Tests
Pipeline Integration Test
0s
Pipeline Integration Test
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1 error and 7 warnings
Unit Tests
Process completed with exit code 1.
Should map real GIANA clusters onto real TCELL_INTEGRATION cells (Test CLUSTER_TO_SC) failed: Test CLUSTER_TO_SC#L0
unit-test-results.xml [took 6s]
Should run real CoNGA analysis on real TCELL_INTEGRATION output (Test CONGA) failed: Test CONGA#L0
unit-test-results.xml [took 5s]
Should build a consensus from real GIANA-enriched cells (GLIPH2/TCRdist absent) (Test CONSENSUS_CLUSTERING) failed: Test CONSENSUS_CLUSTERING#L0
unit-test-results.xml [took 5s]
Should integrate real synthetic GEX+VDJ data and produce an enriched Seurat object (Test TCELL_INTEGRATION) failed: Test TCELL_INTEGRATION#L0
unit-test-results.xml [took 4s]
Should filter contigs and produce a real contigs_after_qc.tsv from synthetic Cell Ranger data (Test VDJ_QC) failed: Test VDJ_QC#L0
unit-test-results.xml [took 5s]
Unit Tests
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v3, actions/setup-java@v2, actions/upload-artifact@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
Unit Tests
setup-java v2 is deprecated and will no longer receive updates. Please migrate to actions/setup-java@v5.

Artifacts

Produced during runtime
Name Size Digest
unit-test-results
2.22 MB
sha256:2448a98cebd145b63aa77fa10a9a4297c991f5c213fd4feba90fa8caeb988def