Skip to content
release build

release build #131

Sign in to view logs

release build

release build #131

Manually triggered February 15, 2024 14:47
@DriesSchaumontDriesSchaumont
⁠ 5097440
main
Status Failure
Total duration 1h 2m 3s
Artifacts –

release-build.yml

on: workflow_dispatch
sync_s3
1m 2s
sync_s3
build  /  Build and push target folder
5m 25s
build / Build and push target folder
Matrix: build / Build and Deploy Docker Images
Matrix: component_test
Matrix: integration_test
Fit to window
Zoom out
Zoom in

Annotations

94 errors and 27 warnings
integration_test (workflows/ingestion/make_reference, /home/runner/work/openpipeline/openpipeline...
Process completed with exit code 1.
component_test (convert/from_10xh5_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/conve...
Process completed with exit code 1.
component_test (compression/compress_h5mu, /home/runner/work/openpipeline/openpipeline/src/compre...
Process completed with exit code 1.
component_test (correction/cellbender_remove_background, /home/runner/work/openpipeline/openpipel...
Process completed with exit code 1.
component_test (annotate/popv, /home/runner/work/openpipeline/openpipeline/src/annotate/popv/conf...
Process completed with exit code 1.
component_test (convert/from_bd_to_10x_molecular_barcode_tags, /home/runner/work/openpipeline/ope...
Process completed with exit code 1.
component_test (convert/from_bdrhap_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/conv...
Process completed with exit code 1.
component_test (dataflow/concatenate_h5mu, /home/runner/work/openpipeline/openpipeline/src/datafl...
Process completed with exit code 1.
component_test (convert/from_cellranger_multi_to_h5mu, /home/runner/work/openpipeline/openpipelin...
Process completed with exit code 1.
component_test (convert/from_h5ad_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/conver...
Process completed with exit code 1.
component_test (cluster/leiden, /home/runner/work/openpipeline/openpipeline/src/cluster/leiden/co...
Process completed with exit code 1.
component_test (convert/from_h5mu_to_h5ad, /home/runner/work/openpipeline/openpipeline/src/conver...
Process completed with exit code 1.
component_test (convert/from_10xmtx_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/conv...
Process completed with exit code 1.
component_test (correction/cellbender_remove_background_v0_2, /home/runner/work/openpipeline/open...
Process completed with exit code 1.
component_test (convert/from_h5mu_to_seurat, /home/runner/work/openpipeline/openpipeline/src/conv...
Process completed with exit code 1.
component_test (dimred/pca, /home/runner/work/openpipeline/openpipeline/src/dimred/pca/config.vsh...
Process completed with exit code 1.
component_test (convert/velocyto_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/velocit...
Process completed with exit code 1.
component_test (demux/cellranger_mkfastq, /home/runner/work/openpipeline/openpipeline/src/demux/c...
Process completed with exit code 1.
component_test (dataflow/merge, /home/runner/work/openpipeline/openpipeline/src/dataflow/merge/co...
Process completed with exit code 1.
component_test (files/make_params, /home/runner/work/openpipeline/openpipeline/src/files/make_par...
Process completed with exit code 1.
component_test (demux/bcl2fastq, /home/runner/work/openpipeline/openpipeline/src/demux/bcl2fastq/...
Process completed with exit code 1.
component_test (demux/bcl_convert, /home/runner/work/openpipeline/openpipeline/src/demux/bcl_conv...
Process completed with exit code 1.
component_test (download/sync_test_resources, /home/runner/work/openpipeline/openpipeline/src/dow...
Process completed with exit code 1.
component_test (feature_annotation/highly_variable_features_scanpy, /home/runner/work/openpipelin...
Process completed with exit code 1.
component_test (dimred/umap, /home/runner/work/openpipeline/openpipeline/src/dimred/umap/config.v...
Process completed with exit code 1.
component_test (filter/do_filter, /home/runner/work/openpipeline/openpipeline/src/filter/do_filte...
Process completed with exit code 1.
component_test (dataflow/split_modalities, /home/runner/work/openpipeline/openpipeline/src/datafl...
Process completed with exit code 1.
component_test (filter/filter_with_scrublet, /home/runner/work/openpipeline/openpipeline/src/filt...
Process completed with exit code 1.
component_test (filter/delimit_fraction, /home/runner/work/openpipeline/openpipeline/src/filter/d...
Process completed with exit code 1.
component_test (dataflow/concat, /home/runner/work/openpipeline/openpipeline/src/dataflow/concat/...
Process completed with exit code 1.
component_test (download/download_file, /home/runner/work/openpipeline/openpipeline/src/download/...
Process completed with exit code 1.
component_test (genetic_demux/dsc_pileup, /home/runner/work/openpipeline/openpipeline/src/genetic...
Process completed with exit code 1.
component_test (filter/subset_h5mu, /home/runner/work/openpipeline/openpipeline/src/filter/subset...
Process completed with exit code 1.
component_test (filter/filter_with_counts, /home/runner/work/openpipeline/openpipeline/src/filter...
Process completed with exit code 1.
component_test (genetic_demux/cellsnp, /home/runner/work/openpipeline/openpipeline/src/genetic_de...
Process completed with exit code 1.
component_test (genetic_demux/samtools, /home/runner/work/openpipeline/openpipeline/src/genetic_d...
Process completed with exit code 1.
component_test (filter/intersect_obs, /home/runner/work/openpipeline/openpipeline/src/filter/inte...
Process completed with exit code 1.
component_test (genetic_demux/demuxlet, /home/runner/work/openpipeline/openpipeline/src/genetic_d...
Process completed with exit code 1.
component_test (genetic_demux/bcftools, /home/runner/work/openpipeline/openpipeline/src/genetic_d...
Process completed with exit code 1.
component_test (genetic_demux/souporcell, /home/runner/work/openpipeline/openpipeline/src/genetic...
Process completed with exit code 1.
component_test (genetic_demux/scsplit, /home/runner/work/openpipeline/openpipeline/src/genetic_de...
Process completed with exit code 1.
component_test (filter/filter_with_hvg, /home/runner/work/openpipeline/openpipeline/src/filter/fi...
Process completed with exit code 1.
component_test (genetic_demux/freemuxlet, /home/runner/work/openpipeline/openpipeline/src/genetic...
Process completed with exit code 1.
component_test (filter/remove_modality, /home/runner/work/openpipeline/openpipeline/src/filter/re...
Process completed with exit code 1.
component_test (genetic_demux/freebayes, /home/runner/work/openpipeline/openpipeline/src/genetic_...
Process completed with exit code 1.
component_test (integrate/scvi, /home/runner/work/openpipeline/openpipeline/src/integrate/scvi/co...
Process completed with exit code 1.
component_test (integrate/totalvi, /home/runner/work/openpipeline/openpipeline/src/integrate/tota...
Process completed with exit code 1.
component_test (integrate/harmonypy, /home/runner/work/openpipeline/openpipeline/src/integrate/ha...
Process completed with exit code 1.
component_test (mapping/cellranger_multi, /home/runner/work/openpipeline/openpipeline/src/mapping...
Process completed with exit code 1.
component_test (integrate/scanorama, /home/runner/work/openpipeline/openpipeline/src/integrate/sc...
Process completed with exit code 1.
component_test (labels_transfer/xgboost, /home/runner/work/openpipeline/openpipeline/src/labels_t...
Process completed with exit code 1.
component_test (genetic_demux/vireo, /home/runner/work/openpipeline/openpipeline/src/genetic_demu...
Process completed with exit code 1.
component_test (mapping/bd_rhapsody, /home/runner/work/openpipeline/openpipeline/src/mapping/bd_r...
Process completed with exit code 1.
component_test (interactive/run_cellxgene, /home/runner/work/openpipeline/openpipeline/src/intera...
Process completed with exit code 1.
component_test (mapping/htseq_count, /home/runner/work/openpipeline/openpipeline/src/mapping/htse...
Process completed with exit code 1.
component_test (integrate/scarches, /home/runner/work/openpipeline/openpipeline/src/integrate/sca...
Process completed with exit code 1.
component_test (mapping/multi_star_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/mappi...
Process completed with exit code 1.
component_test (interactive/run_cirrocumulus, /home/runner/work/openpipeline/openpipeline/src/int...
Process completed with exit code 1.
component_test (mapping/cellranger_count, /home/runner/work/openpipeline/openpipeline/src/mapping...
Process completed with exit code 1.
component_test (mapping/cellranger_count_split, /home/runner/work/openpipeline/openpipeline/src/m...
Process completed with exit code 1.
component_test (interpret/lianapy, /home/runner/work/openpipeline/openpipeline/src/interpret/lian...
Process completed with exit code 1.
component_test (mapping/samtools_sort, /home/runner/work/openpipeline/openpipeline/src/mapping/sa...
Process completed with exit code 1.
component_test (mapping/star_align, /home/runner/work/openpipeline/openpipeline/src/mapping/star_...
Process completed with exit code 1.
component_test (mapping/htseq_count_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/mapp...
Process completed with exit code 1.
component_test (metadata/join_csv, /home/runner/work/openpipeline/openpipeline/src/metadata/join_...
Process completed with exit code 1.
component_test (mapping/multi_star, /home/runner/work/openpipeline/openpipeline/src/mapping/multi...
Process completed with exit code 1.
component_test (metadata/join_uns_to_obs, /home/runner/work/openpipeline/openpipeline/src/metadat...
Process completed with exit code 1.
component_test (labels_transfer/knn, /home/runner/work/openpipeline/openpipeline/src/labels_trans...
Process completed with exit code 1.
component_test (mapping/star_align_v273a, /home/runner/work/openpipeline/openpipeline/src/mapping...
Process completed with exit code 1.
component_test (neighbors/find_neighbors, /home/runner/work/openpipeline/openpipeline/src/neighbo...
Process completed with exit code 1.
component_test (mapping/star_build_reference, /home/runner/work/openpipeline/openpipeline/src/map...
Process completed with exit code 1.
component_test (reference/build_bdrhap_reference, /home/runner/work/openpipeline/openpipeline/src...
Process completed with exit code 1.
component_test (metadata/grep_annotation_column, /home/runner/work/openpipeline/openpipeline/src/...
Process completed with exit code 1.
component_test (process_10xh5/filter_10xh5, /home/runner/work/openpipeline/openpipeline/src/proce...
Process completed with exit code 1.
component_test (metadata/add_id, /home/runner/work/openpipeline/openpipeline/src/metadata/add_id/...
Process completed with exit code 1.
component_test (qc/multiqc, /home/runner/work/openpipeline/openpipeline/src/qc/multiqc/config.vsh...
Process completed with exit code 1.
component_test (transfer/publish, /home/runner/work/openpipeline/openpipeline/src/transfer/publis...
Process completed with exit code 1.
component_test (query/cellxgene_census, /home/runner/work/openpipeline/openpipeline/src/query/cel...
Process completed with exit code 1.
component_test (transform/delete_layer, /home/runner/work/openpipeline/openpipeline/src/transform...
Process completed with exit code 1.
component_test (metadata/move_obsm_to_obs, /home/runner/work/openpipeline/openpipeline/src/metada...
Process completed with exit code 1.
component_test (qc/calculate_qc_metrics, /home/runner/work/openpipeline/openpipeline/src/qc/calcu...
Process completed with exit code 1.
component_test (neighbors/bbknn, /home/runner/work/openpipeline/openpipeline/src/neighbors/bbknn/...
Process completed with exit code 1.
component_test (report/mermaid, /home/runner/work/openpipeline/openpipeline/src/report/mermaid/co...
Process completed with exit code 1.
component_test (transform/clr, /home/runner/work/openpipeline/openpipeline/src/transform/clr/conf...
Process completed with exit code 1.
component_test (reference/make_reference, /home/runner/work/openpipeline/openpipeline/src/referen...
Process completed with exit code 1.
component_test (reference/build_cellranger_reference, /home/runner/work/openpipeline/openpipeline...
Process completed with exit code 1.
component_test (transform/log1p, /home/runner/work/openpipeline/openpipeline/src/transform/log1p/...
Process completed with exit code 1.
component_test (qc/fastqc, /home/runner/work/openpipeline/openpipeline/src/qc/fastqc/config.vsh.y...
Process completed with exit code 1.
component_test (transform/move_layer, /home/runner/work/openpipeline/openpipeline/src/transform/m...
Process completed with exit code 1.
component_test (transform/normalize_total, /home/runner/work/openpipeline/openpipeline/src/transf...
Process completed with exit code 1.
component_test (velocity/velocyto, /home/runner/work/openpipeline/openpipeline/src/velocity/veloc...
Process completed with exit code 1.
component_test (velocity/scvelo, /home/runner/work/openpipeline/openpipeline/src/velocity/scvelo/...
Process completed with exit code 1.
component_test (transform/regress_out, /home/runner/work/openpipeline/openpipeline/src/transform/...
Process completed with exit code 1.
component_test (transform/scale, /home/runner/work/openpipeline/openpipeline/src/transform/scalin...
Process completed with exit code 1.
integration_test (workflows/ingestion/conversion, /home/runner/work/openpipeline/openpipeline/src...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/integration/bbknn_leiden, /home/runner/work/openpipeline/openpipeline...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/gdo/gdo_singlesample, /home/runner/work/openpipeline/openpipeline/src...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/integration/scanorama_leiden, /home/runner/work/openpipeline/openpipe...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/multiomics/dimensionality_reduction, /home/runner/work/openpipeline/o...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/ingestion/demux, /home/runner/work/openpipeline/openpipeline/src/work...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/ingestion/cellranger_postprocessing, /home/runner/work/openpipeline/o...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/ingestion/cellranger_mapping, /home/runner/work/openpipeline/openpipe...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/integration/harmony_leiden, /home/runner/work/openpipeline/openpipeli...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/ingestion/cellranger_multi, /home/runner/work/openpipeline/openpipeli...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/prot/prot_multisample, /home/runner/work/openpipeline/openpipeline/sr...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/prot/prot_singlesample, /home/runner/work/openpipeline/openpipeline/s...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/ingestion/make_reference, /home/runner/work/openpipeline/openpipeline...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/multiomics/process_samples, /home/runner/work/openpipeline/openpipeli...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/multiomics/process_samples, /home/runner/work/openpipeline/openpipeli...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/integration/scvi_leiden, /home/runner/work/openpipeline/openpipeline/...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/multiomics/process_batches, /home/runner/work/openpipeline/openpipeli...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/qc/qc, /home/runner/work/openpipeline/openpipeline/src/workflows/qc/q...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/multiomics/process_samples, /home/runner/work/openpipeline/openpipeli...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/ingestion/bd_rhapsody, /home/runner/work/openpipeline/openpipeline/sr...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/rna/rna_singlesample, /home/runner/work/openpipeline/openpipeline/src...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/multiomics/process_samples, /home/runner/work/openpipeline/openpipeli...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/rna/rna_multisample, /home/runner/work/openpipeline/openpipeline/src/...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/integration/totalvi_leiden, /home/runner/work/openpipeline/openpipeli...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/multiomics/process_samples, /home/runner/work/openpipeline/openpipeli...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/multiomics/process_batches, /home/runner/work/openpipeline/openpipeli...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
integration_test (workflows/ingestion/cellranger_postprocessing, /home/runner/work/openpipeline/o...
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.