Test

Add cxg_immune_cell_atlas dataset to common test resources (#907) #7

Run time

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Job	Run time
list	1m 20s
viash_test (dimensionality_reduction/methods/lmds, /home/runner/work/openproblems/openproblems/sr...	1m 50s
viash_test (dimensionality_reduction/methods/pymde, /home/runner/work/openproblems/openproblems/s...	4m 22s
viash_test (dimensionality_reduction/methods/umap, /home/runner/work/openproblems/openproblems/sr...	1m 35s
viash_test (dimensionality_reduction/methods/phate, /home/runner/work/openproblems/openproblems/s...	2m 45s
viash_test (dimensionality_reduction/methods/pca, /home/runner/work/openproblems/openproblems/src...	1m 49s
viash_test (dimensionality_reduction/methods/simlr, /home/runner/work/openproblems/openproblems/s...	3m 54s
viash_test (dimensionality_reduction/methods/tsne, /home/runner/work/openproblems/openproblems/sr...	3m 8s
viash_test (dimensionality_reduction/methods/ivis, /home/runner/work/openproblems/openproblems/sr...	2m 14s
viash_test (dimensionality_reduction/methods/diffusion_map, /home/runner/work/openproblems/openpr...	1m 32s
viash_test (dimensionality_reduction/methods/neuralee, /home/runner/work/openproblems/openproblem...	3m 28s
viash_test (dimensionality_reduction/methods/densmap, /home/runner/work/openproblems/openproblems...	1m 50s
viash_test (dimensionality_reduction/process_dataset, /home/runner/work/openproblems/openproblems...	1m 28s
viash_test (dimensionality_reduction/metrics/clustering_performance, /home/runner/work/openproble...	3m 9s
viash_test (dimensionality_reduction/metrics/coranking, /home/runner/work/openproblems/openproble...	1m 45s
viash_test (dimensionality_reduction/metrics/distance_correlation, /home/runner/work/openproblems...	1m 50s
viash_test (dimensionality_reduction/metrics/trustworthiness, /home/runner/work/openproblems/open...	1m 19s
viash_test (dimensionality_reduction/metrics/density_preservation, /home/runner/work/openproblems...	2m 26s
viash_test (dimensionality_reduction/control_methods/random_features, /home/runner/work/openprobl...	3m 13s
viash_test (dimensionality_reduction/control_methods/spectral_features, /home/runner/work/openpro...	1m 31s
viash_test (dimensionality_reduction/control_methods/true_features, /home/runner/work/openproblem...	2m 7s
viash_test (label_projection/methods/knn, /home/runner/work/openproblems/openproblems/src/tasks/l...	3m 45s
viash_test (label_projection/methods/naive_bayes, /home/runner/work/openproblems/openproblems/src...	2m 34s
viash_test (label_projection/methods/mlp, /home/runner/work/openproblems/openproblems/src/tasks/l...	1m 30s
viash_test (label_projection/methods/scanvi, /home/runner/work/openproblems/openproblems/src/task...	6m 30s
viash_test (label_projection/methods/scanvi_scarches, /home/runner/work/openproblems/openproblems...	6m 4s
viash_test (label_projection/methods/logistic_regression, /home/runner/work/openproblems/openprob...	1m 8s
viash_test (label_projection/methods/xgboost, /home/runner/work/openproblems/openproblems/src/tas...	1m 23s
viash_test (label_projection/process_dataset, /home/runner/work/openproblems/openproblems/src/tas...	1m 27s
viash_test (label_projection/metrics/f1, /home/runner/work/openproblems/openproblems/src/tasks/la...	3m 8s
viash_test (label_projection/metrics/accuracy, /home/runner/work/openproblems/openproblems/src/ta...	1m 12s
viash_test (label_projection/control_methods/majority_vote, /home/runner/work/openproblems/openpr...	2m 10s
viash_test (label_projection/control_methods/true_labels, /home/runner/work/openproblems/openprob...	1m 33s
viash_test (label_projection/control_methods/random_labels, /home/runner/work/openproblems/openpr...	2m 16s
viash_test (batch_integration/methods/bbknn, /home/runner/work/openproblems/openproblems/src/task...	3m 33s
viash_test (batch_integration/methods/scvi, /home/runner/work/openproblems/openproblems/src/tasks...	3m 52s
viash_test (batch_integration/methods/scanorama_embed, /home/runner/work/openproblems/openproblem...	1m 31s
viash_test (batch_integration/methods/mnnpy, /home/runner/work/openproblems/openproblems/src/task...	1m 54s
viash_test (batch_integration/methods/scanorama_feature, /home/runner/work/openproblems/openprobl...	1m 22s
viash_test (batch_integration/methods/combat, /home/runner/work/openproblems/openproblems/src/tas...	1m 41s
viash_test (batch_integration/methods/scalex_feature, /home/runner/work/openproblems/openproblems...	2m 42s
viash_test (batch_integration/methods/mnn_correct, /home/runner/work/openproblems/openproblems/sr...	2m 3s
viash_test (batch_integration/methods/liger, /home/runner/work/openproblems/openproblems/src/task...	3m 11s
viash_test (batch_integration/methods/fastmnn_feature, /home/runner/work/openproblems/openproblem...	2m 54s
viash_test (batch_integration/methods/pyliger, /home/runner/work/openproblems/openproblems/src/ta...	2m 41s
viash_test (batch_integration/methods/scanvi, /home/runner/work/openproblems/openproblems/src/tas...	3m 39s
viash_test (batch_integration/methods/scalex_embed, /home/runner/work/openproblems/openproblems/s...	2m 48s
viash_test (batch_integration/methods/fastmnn_embedding, /home/runner/work/openproblems/openprobl...	1m 59s
viash_test (batch_integration/process_dataset, /home/runner/work/openproblems/openproblems/src/ta...	1m 36s
viash_test (batch_integration/metrics/asw_label, /home/runner/work/openproblems/openproblems/src/...	2m 38s
viash_test (batch_integration/metrics/kbet, /home/runner/work/openproblems/openproblems/src/tasks...	3m 20s
viash_test (batch_integration/metrics/clustering_overlap, /home/runner/work/openproblems/openprob...	1m 22s
viash_test (batch_integration/metrics/graph_connectivity, /home/runner/work/openproblems/openprob...	1m 32s
viash_test (batch_integration/metrics/cell_cycle_conservation, /home/runner/work/openproblems/ope...	1m 21s
viash_test (batch_integration/metrics/isolated_label_asw, /home/runner/work/openproblems/openprob...	1m 24s
viash_test (batch_integration/metrics/pcr, /home/runner/work/openproblems/openproblems/src/tasks/...	1m 37s
viash_test (batch_integration/metrics/hvg_overlap, /home/runner/work/openproblems/openproblems/sr...	2m 46s
viash_test (batch_integration/metrics/asw_batch, /home/runner/work/openproblems/openproblems/src/...	1m 16s
viash_test (batch_integration/metrics/isolated_label_f1, /home/runner/work/openproblems/openprobl...	1m 31s
viash_test (batch_integration/transformers/embed_to_graph, /home/runner/work/openproblems/openpro...	3m 10s
viash_test (batch_integration/transformers/feature_to_embed, /home/runner/work/openproblems/openp...	1m 46s
viash_test (batch_integration/control_methods/perfect_integration/celltype_jitter_embed, /home/ru...	2m 31s
viash_test (batch_integration/control_methods/perfect_integration/celltype_embed, /home/runner/wo...	1m 20s
viash_test (batch_integration/control_methods/random_integration/batch_embed, /home/runner/work/o...	3m 4s
viash_test (batch_integration/control_methods/random_integration/global_embed, /home/runner/work/...	1m 17s
viash_test (batch_integration/control_methods/random_integration/batch_graph, /home/runner/work/o...	2m 57s
viash_test (batch_integration/control_methods/random_integration/celltype_graph, /home/runner/wor...	2m 56s
viash_test (batch_integration/control_methods/random_integration/celltype_feature, /home/runner/w...	3m 9s
viash_test (batch_integration/control_methods/random_integration/global_graph, /home/runner/work/...	1m 33s
viash_test (batch_integration/control_methods/random_integration/global_feature, /home/runner/wor...	1m 13s
viash_test (batch_integration/control_methods/random_integration/celltype_embed, /home/runner/wor...	1m 23s
viash_test (batch_integration/control_methods/random_integration/batch_feature, /home/runner/work...	2m 25s
viash_test (batch_integration/control_methods/no_integration/batch_embed, /home/runner/work/openp...	1m 17s
viash_test (batch_integration/control_methods/no_integration/global_embed, /home/runner/work/open...	2m 57s
viash_test (batch_integration/control_methods/no_integration/global_graph, /home/runner/work/open...	1m 16s
viash_test (batch_integration/control_methods/no_integration/global_feature, /home/runner/work/op...	1m 15s
viash_test (denoising/methods/knn_smoothing, /home/runner/work/openproblems/openproblems/src/task...	1m 48s
viash_test (denoising/methods/alra, /home/runner/work/openproblems/openproblems/src/tasks/denoisi...	4m 16s
viash_test (denoising/methods/dca, /home/runner/work/openproblems/openproblems/src/tasks/denoisin...	2m 11s
viash_test (denoising/methods/magic, /home/runner/work/openproblems/openproblems/src/tasks/denois...	3m 8s
viash_test (denoising/process_dataset, /home/runner/work/openproblems/openproblems/src/tasks/deno...	3m 25s
viash_test (denoising/metrics/mse, /home/runner/work/openproblems/openproblems/src/tasks/denoisin...	1m 23s
viash_test (denoising/metrics/poisson, /home/runner/work/openproblems/openproblems/src/tasks/deno...	1m 14s
viash_test (denoising/control_methods/perfect_denoising, /home/runner/work/openproblems/openprobl...	1m 17s
viash_test (denoising/control_methods/no_denoising, /home/runner/work/openproblems/openproblems/s...	1m 18s
viash_test (spatially_variable_genes/methods/spatialde, /home/runner/work/openproblems/openproble...	5m 11s
viash_test (spatially_variable_genes/methods/spanve, /home/runner/work/openproblems/openproblems/...	2m 1s
viash_test (spatially_variable_genes/methods/spagft, /home/runner/work/openproblems/openproblems/...	4m 11s
viash_test (spatially_variable_genes/methods/spatialde2, /home/runner/work/openproblems/openprobl...	5m 46s
viash_test (spatially_variable_genes/methods/boostgp, /home/runner/work/openproblems/openproblems...	29m 9s
viash_test (spatially_variable_genes/methods/gpcounts, /home/runner/work/openproblems/openproblem...	28m 37s
viash_test (spatially_variable_genes/methods/scgco, /home/runner/work/openproblems/openproblems/s...	4m 14s
viash_test (spatially_variable_genes/methods/spagcn, /home/runner/work/openproblems/openproblems/...	4m 36s
viash_test (spatially_variable_genes/methods/spark, /home/runner/work/openproblems/openproblems/s...	5m 43s
viash_test (spatially_variable_genes/methods/somde, /home/runner/work/openproblems/openproblems/s...	3m 53s
viash_test (spatially_variable_genes/methods/sepal, /home/runner/work/openproblems/openproblems/s...	2m 14s
viash_test (spatially_variable_genes/methods/moran_i, /home/runner/work/openproblems/openproblems...	2m 29s
viash_test (spatially_variable_genes/methods/nnsvg, /home/runner/work/openproblems/openproblems/s...	13m 55s
viash_test (spatially_variable_genes/methods/spark_x, /home/runner/work/openproblems/openproblems...	2m 46s
viash_test (spatially_variable_genes/process_dataset/split_dataset, /home/runner/work/openproblem...	2m 48s
viash_test (spatially_variable_genes/process_dataset/simulate_svg, /home/runner/work/openproblems...	2m 15s
viash_test (spatially_variable_genes/process_dataset/select_reference, /home/runner/work/openprob...	41s
viash_test (spatially_variable_genes/metrics/correlation, /home/runner/work/openproblems/openprob...	1m 23s
viash_test (spatially_variable_genes/control_methods/random_ranking, /home/runner/work/openproble...	1m 24s
viash_test (spatially_variable_genes/control_methods/true_ranking, /home/runner/work/openproblems...	1m 19s
viash_test (spatial_decomposition/methods/destvi, /home/runner/work/openproblems/openproblems/src...	10m 26s
viash_test (spatial_decomposition/methods/stereoscope, /home/runner/work/openproblems/openproblem...	7m 22s
viash_test (spatial_decomposition/methods/rctd, /home/runner/work/openproblems/openproblems/src/t...	17m 20s
viash_test (spatial_decomposition/methods/cell2location, /home/runner/work/openproblems/openprobl...	26m 31s
viash_test (spatial_decomposition/methods/nmfreg, /home/runner/work/openproblems/openproblems/src...	1m 37s
viash_test (spatial_decomposition/methods/seurat, /home/runner/work/openproblems/openproblems/src...	2m 34s
viash_test (spatial_decomposition/methods/vanillanmf, /home/runner/work/openproblems/openproblems...	1m 19s
viash_test (spatial_decomposition/methods/nnls, /home/runner/work/openproblems/openproblems/src/t...	3m 0s
viash_test (spatial_decomposition/methods/tangram, /home/runner/work/openproblems/openproblems/sr...	2m 30s
viash_test (spatial_decomposition/process_dataset, /home/runner/work/openproblems/openproblems/sr...	3m 31s
viash_test (spatial_decomposition/metrics/r2, /home/runner/work/openproblems/openproblems/src/tas...	1m 25s
viash_test (spatial_decomposition/dataset_simulator, /home/runner/work/openproblems/openproblems/...	1m 31s
viash_test (spatial_decomposition/control_methods/random_proportions, /home/runner/work/openprobl...	1m 22s
viash_test (spatial_decomposition/control_methods/true_proportions, /home/runner/work/openproblem...	1m 13s
viash_test (match_modalities/methods/fastmnn, /home/runner/work/openproblems/openproblems/src/tas...	3m 19s
viash_test (match_modalities/methods/procrustes, /home/runner/work/openproblems/openproblems/src/...	1m 37s
viash_test (match_modalities/methods/harmonic_alignment, /home/runner/work/openproblems/openprobl...	3m 0s
viash_test (match_modalities/methods/scot, /home/runner/work/openproblems/openproblems/src/tasks/...	5m 30s
viash_test (match_modalities/process_dataset, /home/runner/work/openproblems/openproblems/src/tas...	1m 28s
viash_test (match_modalities/metrics/mse, /home/runner/work/openproblems/openproblems/src/tasks/m...	1m 20s
viash_test (match_modalities/metrics/knn_auc, /home/runner/work/openproblems/openproblems/src/tas...	1m 24s
viash_test (match_modalities/control_methods/random_features, /home/runner/work/openproblems/open...	1m 21s
viash_test (match_modalities/control_methods/true_features, /home/runner/work/openproblems/openpr...	1m 50s
viash_test (predict_modality/methods/simplemlp_predict, /home/runner/work/openproblems/openproble...	4m 32s
viash_test (predict_modality/methods/simplemlp_train, /home/runner/work/openproblems/openproblems...	4m 36s
viash_test (predict_modality/methods/knnr_r, /home/runner/work/openproblems/openproblems/src/task...	2m 42s
viash_test (predict_modality/methods/novel_predict, /home/runner/work/openproblems/openproblems/s...	4m 5s
viash_test (predict_modality/methods/novel_train, /home/runner/work/openproblems/openproblems/src...	4m 14s
viash_test (predict_modality/methods/lm, /home/runner/work/openproblems/openproblems/src/tasks/pr...	1m 47s
viash_test (predict_modality/methods/guanlab_dengkw_pm, /home/runner/work/openproblems/openproble...	1m 31s
viash_test (predict_modality/methods/lmds_irlba_rf, /home/runner/work/openproblems/openproblems/s...	1m 27s
viash_test (predict_modality/methods/knnr_py, /home/runner/work/openproblems/openproblems/src/tas...	3m 16s
viash_test (predict_modality/process_dataset, /home/runner/work/openproblems/openproblems/src/tas...	2m 39s
viash_test (predict_modality/metrics/correlation, /home/runner/work/openproblems/openproblems/src...	3m 2s
viash_test (predict_modality/metrics/mse, /home/runner/work/openproblems/openproblems/src/tasks/p...	1m 32s
viash_test (predict_modality/control_methods/solution, /home/runner/work/openproblems/openproblem...	1m 24s
viash_test (predict_modality/control_methods/zeros, /home/runner/work/openproblems/openproblems/s...	1m 15s
viash_test (predict_modality/control_methods/mean_per_gene, /home/runner/work/openproblems/openpr...	1m 9s
viash_test (predict_modality/control_methods/random_predict, /home/runner/work/openproblems/openp...	2m 54s
viash_test (datasets/loaders/zenodo_spatial_slidetags, /home/runner/work/openproblems/openproblem...	3m 47s
viash_test (datasets/loaders/openproblems_neurips2021_bmmc, /home/runner/work/openproblems/openpr...	2m 7s
viash_test (datasets/loaders/openproblems_neurips2022_pbmc, /home/runner/work/openproblems/openpr...	1m 29s
viash_test (datasets/loaders/openproblems_v1_multimodal, /home/runner/work/openproblems/openprobl...	13m 53s
viash_test (datasets/loaders/openproblems_v1, /home/runner/work/openproblems/openproblems/src/dat...	12m 12s
viash_test (datasets/loaders/cellxgene_census, /home/runner/work/openproblems/openproblems/src/da...	4m 28s
viash_test (datasets/loaders/tenx_visium, /home/runner/work/openproblems/openproblems/src/dataset...	2m 14s
viash_test (datasets/loaders/zenodo_spatial, /home/runner/work/openproblems/openproblems/src/data...	3m 2s
viash_test (datasets/loaders/cellxgene_census_from_source_h5ad, /home/runner/work/openproblems/op...	3m 37s
viash_test (datasets/normalization/log_cp, /home/runner/work/openproblems/openproblems/src/datase...	1m 20s
viash_test (datasets/normalization/sqrt_cp, /home/runner/work/openproblems/openproblems/src/datas...	2m 37s
viash_test (datasets/normalization/atac_tfidf, /home/runner/work/openproblems/openproblems/src/da...	1m 27s
viash_test (datasets/normalization/prot_clr, /home/runner/work/openproblems/openproblems/src/data...	1m 28s
viash_test (datasets/normalization/log_scran_pooling, /home/runner/work/openproblems/openproblems...	1m 39s
viash_test (datasets/normalization/l1_sqrt, /home/runner/work/openproblems/openproblems/src/datas...	1m 27s
viash_test (datasets/processors/knn, /home/runner/work/openproblems/openproblems/src/datasets/pro...	1m 23s
viash_test (datasets/processors/svd, /home/runner/work/openproblems/openproblems/src/datasets/pro...	1m 10s
viash_test (datasets/processors/subsample, /home/runner/work/openproblems/openproblems/src/datase...	4m 8s
viash_test (datasets/processors/hvg, /home/runner/work/openproblems/openproblems/src/datasets/pro...	1m 41s
viash_test (datasets/processors/pca, /home/runner/work/openproblems/openproblems/src/datasets/pro...	2m 27s
viash_test (common/create_component, /home/runner/work/openproblems/openproblems/src/common/creat...	51s
viash_test (common/sync_test_resources, /home/runner/work/openproblems/openproblems/src/common/sy...	1m 11s
viash_test (common/check_dataset_schema, /home/runner/work/openproblems/openproblems/src/common/c...	1m 43s
viash_test (common/process_task_results/get_method_info, /home/runner/work/openproblems/openprobl...	1m 21s
viash_test (common/process_task_results/get_results, /home/runner/work/openproblems/openproblems/...	4m 6s
viash_test (common/process_task_results/yaml_to_json, /home/runner/work/openproblems/openproblems...	1m 29s
viash_test (common/process_task_results/get_metric_info, /home/runner/work/openproblems/openprobl...	2m 54s
viash_test (common/process_task_results/generate_qc, /home/runner/work/openproblems/openproblems/...	2m 43s
viash_test (common/process_task_results/get_task_info, /home/runner/work/openproblems/openproblem...	1m 50s
viash_test (common/process_task_results/get_dataset_info, /home/runner/work/openproblems/openprob...	1m 41s
viash_test (common/decompress_gzip, /home/runner/work/openproblems/openproblems/src/common/decomp...	55s
viash_test (common/create_task_readme, /home/runner/work/openproblems/openproblems/src/common/cre...	2m 3s
viash_test (common/extract_metadata, /home/runner/work/openproblems/openproblems/src/common/extra...	1m 11s
viash_test (common/check_yaml_schema, /home/runner/work/openproblems/openproblems/src/common/chec...	1m 10s
	9h 16m 51s

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Add cxg_immune_cell_atlas dataset to common test resources (#907) #7

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Add cxg_immune_cell_atlas dataset to common test resources (#907) #7

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