release build

release build #165

Re-run triggered December 13, 2024 19:46

DriesSchaumont

⁠ b11fb8f

main

Status Failure

Total duration 7m 56s

Artifacts –

release-build.yml

on: workflow_dispatch

sync_s3

2m 27s

build / Build and push target folder

5m 56s

Matrix: build / build_and_deploy_docker_containers

Matrix: component_test

Matrix: integration_test

Annotations

1 error and 273 warnings

integration_test (scvi_leiden, workflows/integration, src/workflows/integration/scvi_leiden//test...

Process completed with exit code 1.

sync_s3

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / Build and push target folder

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build / scanvi - annotate - Build and push docker image

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build / onclass - annotate - Build and push docker image

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build / celltypist - annotate - Build and push docker image

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build / popv - annotate - Build and push docker image

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build / svm_annotation - annotate - Build and push docker image

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build / random_forest_annotation - annotate - Build and push docker image

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build / compress_h5mu - compression - Build and push docker image

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build / leiden - cluster - Build and push docker image

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build / tar_extract - compression - Build and push docker image

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build / from_10xh5_to_h5mu - convert - Build and push docker image

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build / from_10xmtx_to_h5mu - convert - Build and push docker image

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build / from_bd_to_10x_molecular_barcode_tags - convert - Build and push docker image

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build / from_h5ad_to_h5mu - convert - Build and push docker image

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build / from_bdrhap_to_h5mu - convert - Build and push docker image

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build / from_cellranger_multi_to_h5mu - convert - Build and push docker image

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build / from_h5mu_to_h5ad - convert - Build and push docker image

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build / from_h5mu_to_seurat - convert - Build and push docker image

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build / cellbender_remove_background_v0_2 - correction - Build and push docker image

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build / cellbender_remove_background - correction - Build and push docker image

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build / merge - dataflow - Build and push docker image

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build / concatenate_h5mu - dataflow - Build and push docker image

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build / split_h5mu_train_test - dataflow - Build and push docker image

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build / split_modalities - dataflow - Build and push docker image

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build / split_h5mu - dataflow - Build and push docker image

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build / bcl2fastq - demux - Build and push docker image

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build / bcl_convert - demux - Build and push docker image

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build / cellranger_atac_mkfastq - demux - Build and push docker image

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build / cellranger_mkfastq - demux - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / densmap - dimred - Build and push docker image

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build / lsi - dimred - Build and push docker image

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build / pca - dimred - Build and push docker image

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build / tsne - dimred - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / umap - dimred - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / sync_test_resources - download - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / download_file - download - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / score_genes_scanpy - feature_annotation - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / score_genes_cell_cycle_scanpy - feature_annotation - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / highly_variable_features_scanpy - feature_annotation - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / make_params - files - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / delimit_fraction - filter - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / do_filter - filter - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / filter_with_counts - filter - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / filter_with_scrublet - filter - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / intersect_obs - filter - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / remove_modality - filter - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / subset_h5mu - filter - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / subset_obsp - filter - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / cellsnp - genetic_demux - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / demuxlet - genetic_demux - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / dsc_pileup - genetic_demux - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / bcftools - genetic_demux - Build and push docker image

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build / freebayes - genetic_demux - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / freemuxlet - genetic_demux - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / souporcell - genetic_demux - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / scsplit - genetic_demux - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / samtools - genetic_demux - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / vireo - genetic_demux - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / scanorama - integrate - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / harmonypy - integrate - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / scarches - integrate - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / scvi - integrate - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / lianapy - interpret - Build and push docker image

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build / totalvi - integrate - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / knn - labels_transfer - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / bd_rhapsody - mapping - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / xgboost - labels_transfer - Build and push docker image

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build / cellranger_count - mapping - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / cellranger_count_split - mapping - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / cellranger_atac_count - mapping - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / cellranger_multi - mapping - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / htseq_count - mapping - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / htseq_count_to_h5mu - mapping - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / multi_star - mapping - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / multi_star_to_h5mu - mapping - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / samtools_sort - mapping - Build and push docker image

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build / star_align_v273a - mapping - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / star_align - mapping - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / duplicate_obs - metadata - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / add_id - metadata - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / join_csv - metadata - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / duplicate_var - metadata - Build and push docker image

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build / grep_annotation_column - metadata - Build and push docker image

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build / bbknn - neighbors - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / move_obsm_to_obs - metadata - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / find_neighbors - neighbors - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / join_uns_to_obs - metadata - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / calculate_atac_qc_metrics - qc - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / filter_10xh5 - process_10xh5 - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / calculate_qc_metrics - qc - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / fastqc - qc - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / multiqc - qc - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / build_bdrhap_reference - reference - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / cellxgene_census - query - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / build_cellranger_arc_reference - reference - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / build_star_reference - reference - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / build_cellranger_reference - reference - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / cellranger_mkgtf - reference - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / make_reference - reference - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / mermaid - report - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / binning - scgpt - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / cell_type_annotation - scgpt - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / embedding - scgpt - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / cross_check_genes - scgpt - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / publish - transfer - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / pad_tokenize - scgpt - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / bpcells_regress_out - transform - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / clr - transform - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / log1p - transform - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / delete_layer - transform - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / move_layer - transform - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / regress_out - transform - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / normalize_total - transform - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / scale - transform - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / tfidf - transform - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

build / scvelo - velocity - Build and push docker image

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build / velocyto - velocity - Build and push docker image

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build / velocyto_to_h5mu - convert - Build and push docker image

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (scgpt_annotation, workflows/annotation, src/workflows/annotation/scgpt_annotati...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (scgpt_integration_knn, workflows/annotation, src/workflows/annotation/scgpt_int...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (gdo_singlesample, workflows/gdo, src/workflows/gdo/gdo_singlesample//test.nf, t...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (bd_rhapsody, workflows/ingestion, src/workflows/ingestion/bd_rhapsody//test.nf,...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (cellranger_mapping, workflows/ingestion, src/workflows/ingestion/cellranger_map...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (cellranger_multi, workflows/ingestion, src/workflows/ingestion/cellranger_multi...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (cellranger_multi, workflows/ingestion, src/workflows/ingestion/cellranger_multi...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (cellranger_postprocessing, workflows/ingestion, src/workflows/ingestion/cellran...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (cellranger_postprocessing, workflows/ingestion, src/workflows/ingestion/cellran...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (conversion, workflows/ingestion, src/workflows/ingestion/conversion//test.nf, t...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (demux, workflows/ingestion, src/workflows/ingestion/demux//test.nf, test_wf, sr...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (make_reference, workflows/ingestion, src/workflows/ingestion/make_reference//te...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (bbknn_leiden, workflows/integration, src/workflows/integration/bbknn_leiden//te...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (bbknn_leiden, workflows/integration, src/workflows/integration/bbknn_leiden//te...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (harmony_leiden, workflows/integration, src/workflows/integration/harmony_leiden...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (scanorama_leiden, workflows/integration, src/workflows/integration/scanorama_le...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (harmony_leiden, workflows/integration, src/workflows/integration/harmony_leiden...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (scanorama_leiden, workflows/integration, src/workflows/integration/scanorama_le...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (scgpt_leiden, workflows/integration, src/workflows/integration/scgpt_leiden//te...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (scgpt_leiden, workflows/integration, src/workflows/integration/scgpt_leiden//te...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (process_batches, workflows/multiomics, src/workflows/multiomics/process_batches...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (totalvi_leiden, workflows/integration, src/workflows/integration/totalvi_leiden...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (dimensionality_reduction, workflows/multiomics, src/workflows/multiomics/dimens...

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integration_test (process_batches, workflows/multiomics, src/workflows/multiomics/process_batches...

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integration_test (process_samples, workflows/multiomics, src/workflows/multiomics/process_samples...

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integration_test (process_samples, workflows/multiomics, src/workflows/multiomics/process_samples...

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integration_test (process_samples, workflows/multiomics, src/workflows/multiomics/process_samples...

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integration_test (process_samples, workflows/multiomics, src/workflows/multiomics/process_samples...

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integration_test (split_modalities, workflows/multiomics, src/workflows/multiomics/split_modaliti...

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integration_test (process_samples, workflows/multiomics, src/workflows/multiomics/process_samples...

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integration_test (prot_multisample, workflows/prot, src/workflows/prot/prot_multisample//test.nf,...

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integration_test (prot_singlesample, workflows/prot, src/workflows/prot/prot_singlesample//test.n...

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integration_test (rna_multisample, workflows/rna, src/workflows/rna/rna_multisample//test.nf, tes...

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integration_test (rna_singlesample, workflows/rna, src/workflows/rna/rna_singlesample//test.nf, t...

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integration_test (rna_singlesample, workflows/rna, src/workflows/rna/rna_singlesample//test.nf, t...

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integration_test (qc, workflows/qc, src/workflows/qc/qc//test.nf, test_wf, src/workflows/qc/qc/co...

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component_test (onclass, /, annotate, src/annotate/onclass/config.vsh.yaml, src/annotate/onclass/)

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component_test (celltypist, /, annotate, src/annotate/celltypist/config.vsh.yaml, src/annotate/ce...

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component_test (popv, /, annotate, src/annotate/popv/config.vsh.yaml, src/annotate/popv/)

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component_test (svm_annotation, /, annotate, src/annotate/svm_annotation/config.vsh.yaml, src/ann...

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component_test (scanvi, /, annotate, src/annotate/scanvi/config.vsh.yaml, src/annotate/scanvi/)

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component_test (random_forest_annotation, /, annotate, src/annotate/random_forest_annotation/conf...

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component_test (leiden, /, cluster, src/cluster/leiden/config.vsh.yaml, src/cluster/leiden/)

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component_test (tar_extract, /, compression, src/compression/tar_extract/config.vsh.yaml, src/com...

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component_test (compress_h5mu, /, compression, src/compression/compress_h5mu/config.vsh.yaml, src...

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component_test (from_10xh5_to_h5mu, /, convert, src/convert/from_10xh5_to_h5mu/config.vsh.yaml, s...

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component_test (from_bd_to_10x_molecular_barcode_tags, /, convert, src/convert/from_bd_to_10x_mol...

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component_test (from_cellranger_multi_to_h5mu, /, convert, src/convert/from_cellranger_multi_to_h...

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component_test (from_h5ad_to_h5mu, /, convert, src/convert/from_h5ad_to_h5mu/config.vsh.yaml, src...

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component_test (from_h5mu_to_h5ad, /, convert, src/convert/from_h5mu_to_h5ad/config.vsh.yaml, src...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (from_10xmtx_to_h5mu, /, convert, src/convert/from_10xmtx_to_h5mu/config.vsh.yaml,...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (from_h5mu_to_seurat, /, convert, src/convert/from_h5mu_to_seurat/config.vsh.yaml,...

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component_test (cellbender_remove_background, /, correction, src/correction/cellbender_remove_bac...

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component_test (from_bdrhap_to_h5mu, /, convert, src/convert/from_bdrhap_to_h5mu/config.vsh.yaml,...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (merge, /, dataflow, src/dataflow/merge/config.vsh.yml, src/dataflow/merge/)

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component_test (concatenate_h5mu, /, dataflow, src/dataflow/concatenate_h5mu/config.vsh.yaml, src...

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component_test (split_h5mu_train_test, /, dataflow, src/dataflow/split_h5mu_train_test/config.vsh...

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component_test (split_h5mu, /, dataflow, src/dataflow/split_h5mu/config.vsh.yaml, src/dataflow/sp...

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component_test (cellbender_remove_background_v0_2, /, correction, src/correction/cellbender_remov...

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component_test (bcl2fastq, /, demux, src/demux/bcl2fastq/config.vsh.yaml, src/demux/bcl2fastq/)

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component_test (split_modalities, /, dataflow, src/dataflow/split_modalities/config.vsh.yaml, src...

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component_test (bcl_convert, /, demux, src/demux/bcl_convert/config.vsh.yaml, src/demux/bcl_conve...

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component_test (cellranger_mkfastq, /, demux, src/demux/cellranger_mkfastq/config.vsh.yaml, src/d...

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component_test (densmap, /, dimred, src/dimred/densmap/config.vsh.yaml, src/dimred/densmap/)

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component_test (cellranger_atac_mkfastq, /, demux, src/demux/cellranger_atac_mkfastq/config.vsh.y...

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component_test (lsi, /, dimred, src/dimred/lsi/config.vsh.yaml, src/dimred/lsi/)

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component_test (tsne, /, dimred, src/dimred/tsne/config.vsh.yaml, src/dimred/tsne/)

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component_test (pca, /, dimred, src/dimred/pca/config.vsh.yaml, src/dimred/pca/)

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component_test (umap, /, dimred, src/dimred/umap/config.vsh.yaml, src/dimred/umap/)

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component_test (download_file, /, download, src/download/download_file/config.vsh.yaml, src/downl...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (sync_test_resources, /, download, src/download/sync_test_resources/config.vsh.yam...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (score_genes_cell_cycle_scanpy, /, feature_annotation, src/feature_annotation/scor...

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component_test (highly_variable_features_scanpy, /, feature_annotation, src/feature_annotation/hi...

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component_test (score_genes_scanpy, /, feature_annotation, src/feature_annotation/score_genes_sca...

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component_test (make_params, /, files, src/files/make_params/config.vsh.yaml, src/files/make_para...

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component_test (delimit_fraction, /, filter, src/filter/delimit_fraction/config.vsh.yaml, src/fil...

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component_test (do_filter, /, filter, src/filter/do_filter/config.vsh.yaml, src/filter/do_filter/)

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component_test (filter_with_counts, /, filter, src/filter/filter_with_counts/config.vsh.yaml, src...

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component_test (intersect_obs, /, filter, src/filter/intersect_obs/config.vsh.yaml, src/filter/in...

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component_test (remove_modality, /, filter, src/filter/remove_modality/config.vsh.yaml, src/filte...

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component_test (subset_h5mu, /, filter, src/filter/subset_h5mu/config.vsh.yaml, src/filter/subset...

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component_test (filter_with_scrublet, /, filter, src/filter/filter_with_scrublet/config.vsh.yaml,...

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component_test (bcftools, /, genetic_demux, src/genetic_demux/bcftools/config.vsh.yaml, src/genet...

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component_test (subset_obsp, /, filter, src/filter/subset_obsp/config.vsh.yaml, src/filter/subset...

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component_test (demuxlet, /, genetic_demux, src/genetic_demux/demuxlet/config.vsh.yaml, src/genet...

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component_test (cellsnp, /, genetic_demux, src/genetic_demux/cellsnp/config.vsh.yaml, src/genetic...

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component_test (freebayes, /, genetic_demux, src/genetic_demux/freebayes/config.vsh.yaml, src/gen...

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component_test (freemuxlet, /, genetic_demux, src/genetic_demux/freemuxlet/config.vsh.yaml, src/g...

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component_test (samtools, /, genetic_demux, src/genetic_demux/samtools/config.vsh.yaml, src/genet...

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component_test (dsc_pileup, /, genetic_demux, src/genetic_demux/dsc_pileup/config.vsh.yaml, src/g...

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component_test (souporcell, /, genetic_demux, src/genetic_demux/souporcell/config.vsh.yaml, src/g...

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component_test (scsplit, /, genetic_demux, src/genetic_demux/scsplit/config.vsh.yaml, src/genetic...

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component_test (vireo, /, genetic_demux, src/genetic_demux/vireo/config.vsh.yaml, src/genetic_dem...

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component_test (harmonypy, /, integrate, src/integrate/harmonypy/config.vsh.yaml, src/integrate/h...

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component_test (scanorama, /, integrate, src/integrate/scanorama/config.vsh.yaml, src/integrate/s...

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component_test (scarches, /, integrate, src/integrate/scarches/config.vsh.yaml, src/integrate/sca...

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component_test (scvi, /, integrate, src/integrate/scvi/config.vsh.yaml, src/integrate/scvi/)

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component_test (lianapy, /, interpret, src/interpret/lianapy/config.vsh.yaml, src/interpret/liana...

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component_test (totalvi, /, integrate, src/integrate/totalvi/config.vsh.yaml, src/integrate/total...

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component_test (xgboost, /, labels_transfer, src/labels_transfer/xgboost/config.vsh.yaml, src/lab...

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component_test (knn, /, labels_transfer, src/labels_transfer/knn/config.vsh.yaml, src/labels_tran...

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component_test (cellranger_count, /, mapping, src/mapping/cellranger_count/config.vsh.yaml, src/m...

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component_test (bd_rhapsody, /, mapping, src/mapping/bd_rhapsody/config.vsh.yaml, src/mapping/bd_...

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component_test (cellranger_multi, /, mapping, src/mapping/cellranger_multi/config.vsh.yaml, src/m...

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component_test (cellranger_atac_count, /, mapping, src/mapping/cellranger_atac_count/config.vsh.y...

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component_test (cellranger_count_split, /, mapping, src/mapping/cellranger_count_split/config.vsh...

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component_test (htseq_count, /, mapping, src/mapping/htseq_count/config.vsh.yaml, src/mapping/hts...

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component_test (multi_star, /, mapping, src/mapping/multi_star/config.vsh.yaml, src/mapping/multi...

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component_test (htseq_count_to_h5mu, /, mapping, src/mapping/htseq_count_to_h5mu/config.vsh.yaml,...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (multi_star_to_h5mu, /, mapping, src/mapping/multi_star_to_h5mu/config.vsh.yaml, s...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (samtools_sort, /, mapping, src/mapping/samtools_sort/config.vsh.yaml, src/mapping...

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component_test (add_id, /, metadata, src/metadata/add_id/config.vsh.yaml, src/metadata/add_id/)

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component_test (star_align_v273a, /, mapping, src/mapping/star_align_v273a/config.vsh.yaml, src/m...

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component_test (duplicate_obs, /, metadata, src/metadata/duplicate_obs/config.vsh.yaml, src/metad...

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component_test (star_align, /, mapping, src/mapping/star_align/config.vsh.yaml, src/mapping/star_...

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component_test (grep_annotation_column, /, metadata, src/metadata/grep_annotation_column/config.v...

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component_test (duplicate_var, /, metadata, src/metadata/duplicate_var/config.vsh.yaml, src/metad...

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component_test (join_csv, /, metadata, src/metadata/join_csv/config.vsh.yml, src/metadata/join_csv/)

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component_test (bbknn, /, neighbors, src/neighbors/bbknn/config.vsh.yaml, src/neighbors/bbknn/)

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component_test (find_neighbors, /, neighbors, src/neighbors/find_neighbors/config.vsh.yaml, src/n...

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component_test (move_obsm_to_obs, /, metadata, src/metadata/move_obsm_to_obs/config.vsh.yaml, src...

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component_test (join_uns_to_obs, /, metadata, src/metadata/join_uns_to_obs/config.vsh.yml, src/me...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (calculate_qc_metrics, /, qc, src/qc/calculate_qc_metrics/config.vsh.yaml, src/qc/...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (filter_10xh5, /, process_10xh5, src/process_10xh5/filter_10xh5/config.vsh.yaml, s...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (multiqc, /, qc, src/qc/multiqc/config.vsh.yaml, src/qc/multiqc/)

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (build_bdrhap_reference, /, reference, src/reference/build_bdrhap_reference/config...

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component_test (fastqc, /, qc, src/qc/fastqc/config.vsh.yaml, src/qc/fastqc/)

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (cellxgene_census, /, query, src/query/cellxgene_census/config.vsh.yaml, src/query...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (build_cellranger_reference, /, reference, src/reference/build_cellranger_referenc...

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component_test (build_star_reference, /, reference, src/reference/build_star_reference/config.vsh...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (build_cellranger_arc_reference, /, reference, src/reference/build_cellranger_arc_...

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component_test (cellranger_mkgtf, /, reference, src/reference/cellranger_mkgtf/config.vsh.yaml, s...

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component_test (mermaid, /, report, src/report/mermaid/config.vsh.yaml, src/report/mermaid/)

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (make_reference, /, reference, src/reference/make_reference/config.vsh.yaml, src/r...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (binning, /, scgpt, src/scgpt/binning/config.vsh.yaml, src/scgpt/binning/)

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (cross_check_genes, /, scgpt, src/scgpt/cross_check_genes/config.vsh.yaml, src/scg...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (cell_type_annotation, /, scgpt, src/scgpt/cell_type_annotation/config.vsh.yaml, s...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (pad_tokenize, /, scgpt, src/scgpt/pad_tokenize/config.vsh.yaml, src/scgpt/pad_tok...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (embedding, /, scgpt, src/scgpt/embedding/config.vsh.yaml, src/scgpt/embedding/)

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (publish, /, transfer, src/transfer/publish/config.vsh.yaml, src/transfer/publish/)

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (clr, /, transform, src/transform/clr/config.vsh.yaml, src/transform/clr/)

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (delete_layer, /, transform, src/transform/delete_layer/config.vsh.yaml, src/trans...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (move_layer, /, transform, src/transform/move_layer/config.vsh.yaml, src/transform...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (bpcells_regress_out, /, transform, src/transform/bpcells_regress_out/config.vsh.y...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (normalize_total, /, transform, src/transform/normalize_total/config.vsh.yaml, src...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (log1p, /, transform, src/transform/log1p/config.vsh.yaml, src/transform/log1p/)

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (scale, /, transform, src/transform/scale/config.vsh.yaml, src/transform/scale/)

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (regress_out, /, transform, src/transform/regress_out/config.vsh.yaml, src/transfo...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (tfidf, /, transform, src/transform/tfidf/config.vsh.yaml, src/transform/tfidf/)

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (scvelo, /, velocity, src/velocity/scvelo/config.vsh.yaml, src/velocity/scvelo/)

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (velocyto, /, velocity, src/velocity/velocyto/config.vsh.yaml, src/velocity/velocy...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (velocyto_to_h5mu, /, convert, src/velocity/velocyto_to_h5mu/config.vsh.yaml, src/...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

component_test (calculate_atac_qc_metrics, /, qc, src/qc/calculate_atac_qc_metrics/config.vsh.yam...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

integration_test (scvi_leiden, workflows/integration, src/workflows/integration/scvi_leiden//test...

ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636

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release build #165

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release build #165

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release-build.yml

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